Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 56 of 85
Found at i:19586322 original size:27 final size:27
Alignment explanation
Indices: 19586284--19586406 Score: 185
Period size: 27 Copynumber: 4.6 Consensus size: 27
19586274 GGGGTGTTAC
* *
19586284 AGGGTAAAATGACTGAACTACCCCCAT
1 AGGGTAAAATGACTGAAATACCCTCAT
19586311 AGGGTAAAATGA-TCGAAATACCCTCAT
1 AGGGTAAAATGACT-GAAATACCCTCAT
*
19586338 AGGGTAAAATGACCGAAATACCCTCAT
1 AGGGTAAAATGACTGAAATACCCTCAT
* *
19586365 AGCGTAAAATGACCGAAATACCCTCAT
1 AGGGTAAAATGACTGAAATACCCTCAT
19586392 AGGGTAAAATGACTG
1 AGGGTAAAATGACTG
19586407 TTATGGCATT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.01
27 87 0.99
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (27 bp):
AGGGTAAAATGACTGAAATACCCTCAT
Found at i:19588241 original size:57 final size:57
Alignment explanation
Indices: 19588173--19588287 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
19588163 TCATAGGTAT
*
19588173 GTATGTGCATTAA-TACTTTTTCTTATTAAAACTTGTTTAATCGGTTGAATTGACATA
1 GTATGTGCATTAACT-CATTTTCTTATTAAAACTTGTTTAATCGGTTGAATTGACATA
* *
19588230 GTATGTGCATTAACTCATTTTCTTATTAAAATTTGTTTAATCGGTTGAATTGATATA
1 GTATGTGCATTAACTCATTTTCTTATTAAAACTTGTTTAATCGGTTGAATTGACATA
19588287 G
1 G
19588288 AGATATAGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 53 0.98
58 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.46
Consensus pattern (57 bp):
GTATGTGCATTAACTCATTTTCTTATTAAAACTTGTTTAATCGGTTGAATTGACATA
Found at i:19588607 original size:15 final size:13
Alignment explanation
Indices: 19588574--19588598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19588564 GTGTGTTTAA
19588574 AATTGTCACTTTT
1 AATTGTCACTTTT
19588587 AATTGTCACTTT
1 AATTGTCACTTT
19588599 ATTACTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (13 bp):
AATTGTCACTTTT
Found at i:19597463 original size:50 final size:50
Alignment explanation
Indices: 19597352--19597640 Score: 375
Period size: 50 Copynumber: 5.7 Consensus size: 50
19597342 GATAATAACA
* ** *
19597352 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * *
19597403 TGCCCATGCCATGTCCCAGACATGGTTTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
* *
19597453 TGCCAATGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
19597503 AGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGC-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCAT-CTCGG
* ** *
19597554 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19597604 TCCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
19597641 NNNNNNNNNN
Statistics
Matches: 205, Mismatches: 28, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.00
50 129 0.63
51 74 0.36
52 1 0.00
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19597548 original size:101 final size:100
Alignment explanation
Indices: 19597352--19597640 Score: 375
Period size: 101 Copynumber: 2.9 Consensus size: 100
19597342 GATAATAACA
* ** * *
19597352 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGGTGCCCATGCCATGT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGGTGCCAATGCCATGT
* *
19597417 CCCAGACATGGTTTTAC-GGAGGACCTCTCAT-CTCGG
65 CCCAGACATGGTCTTACATG-GGACCTCTCATGC-CGG
* **
19597453 TGCCAATGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATCTCGAAGCCAATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
**
19597518 CCAGACATGGTCTTACATGGGATGTACTCATGCCGG
66 CCAGACATGGTCTTACATGGGACCT-CTCATGCCGG
* ** * *
19597554 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCGTCTCGGTCCCAATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
19597619 CCAGACATGGTCTTACATGGGA
66 CCAGACATGGTCTTACATGGGA
19597641 NNNNNNNNNN
Statistics
Matches: 165, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
100 40 0.24
101 124 0.75
102 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCATGCCGG
Found at i:19597627 original size:151 final size:151
Alignment explanation
Indices: 19597353--19597640 Score: 513
Period size: 151 Copynumber: 1.9 Consensus size: 151
19597343 ATAATAACAT
*
19597353 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGGTGCCCATGCCATGTC
1 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGCCGGTGCCCATGCCATGTC
* *
19597418 CCAGACATGGTTTTACGGAGGACCTCTCATCTCGGTGCCAATGCCATGCCCCAGACATGGTCTTA
66 CCAGACATGGTCTTACGGAGGACCTCTCATCTCGGTCCCAATGCCATGCCCCAGACATGGTCTTA
19597483 CATGGGACCTCTCATCTCGAA
131 CATGGGACCTCTCATCTCGAA
*
19597504 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGCCGGTGCCCATGCCATGTC
1 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGCCGGTGCCCATGCCATGTC
* * *
19597569 CCAGACATGGTCTTACGGGGGACCTCTCGTCTCGGTCCCAATGCCATGTCCCAGACATGGTCTTA
66 CCAGACATGGTCTTACGGAGGACCTCTCATCTCGGTCCCAATGCCATGCCCCAGACATGGTCTTA
19597634 CATGGGA
131 CATGGGA
19597641 NNNNNNNNNN
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
151 130 1.00
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (151 bp):
GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGCCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACGGAGGACCTCTCATCTCGGTCCCAATGCCATGCCCCAGACATGGTCTTA
CATGGGACCTCTCATCTCGAA
Found at i:19600796 original size:38 final size:38
Alignment explanation
Indices: 19600754--19600831 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
19600744 ATTCATCCTC
19600754 TAATTCGATCTTTACAATTTTTGGTGATTTTTCAAAGT
1 TAATTCGATCTTTACAATTTTTGGTGATTTTTCAAAGT
19600792 TAATTCGATCTTTACAATTTTTGGTGATTTTTCAAAGT
1 TAATTCGATCTTTACAATTTTTGGTGATTTTTCAAAGT
19600830 TA
1 TA
19600832 GACTACTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (38 bp):
TAATTCGATCTTTACAATTTTTGGTGATTTTTCAAAGT
Found at i:19608888 original size:20 final size:20
Alignment explanation
Indices: 19608863--19608903 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19608853 CTCTTGAGAA
19608863 AAGTTATATTTCAGGCGTAT
1 AAGTTATATTTCAGGCGTAT
19608883 AAGTTATATTTCAGGCGTAT
1 AAGTTATATTTCAGGCGTAT
19608903 A
1 A
19608904 GATTGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (20 bp):
AAGTTATATTTCAGGCGTAT
Found at i:19610133 original size:17 final size:17
Alignment explanation
Indices: 19610111--19610143 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19610101 ATTCTTTGAT
19610111 AATTGCCAC-AGCATTTC
1 AATTGCC-CTAGCATTTC
19610128 AATTGCCCTAGCATTT
1 AATTGCCCTAGCATTT
19610144 TTTCATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTGCCCTAGCATTTC
Found at i:19613808 original size:27 final size:26
Alignment explanation
Indices: 19613777--19613861 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
19613767 ATTCGTGGGC
* *
19613777 AAATGATCGAATTACCTGCGAAGGGTA
1 AAATGACCGAATTACCT-CAAAGGGTA
*
19613804 AAATGACCGAGA-TACC-CTATTAGGGTA
1 AAATGACCGA-ATTACCTC-A-AAGGGTA
*
19613831 AAATGACCGAATTACCTCCAAAAGGTA
1 AAATGACCGAATTACCT-CAAAGGGTA
19613858 AAAT
1 AAAT
19613862 TATCGAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 42 0.89
28 2 0.04
29 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (26 bp):
AAATGACCGAATTACCTCAAAGGGTA
Found at i:19613884 original size:27 final size:27
Alignment explanation
Indices: 19613854--19614077 Score: 267
Period size: 27 Copynumber: 8.3 Consensus size: 27
19613844 ACCTCCAAAA
*
19613854 GGTAAAATTATCGAAATACCCTTGATG
1 GGTAAAATTATCGAAATACCCTCGATG
* *
19613881 GGTAAACTTA-CTGAAATACCCCCGATG
1 GGTAAAATTATC-GAAATACCCTCGATG
**
19613908 GGTAAAATTATTAAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
*
19613935 GGTAAAATTATCGAAATACCCTCGATA
1 GGTAAAATTATCGAAATACCCTCGATG
*
19613962 GGTAAAATTATTGAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCCTCGATG
*
19613989 GGTAAAATTATCGAAATACCC-CTGAAG
1 GGTAAAATTATCGAAATACCCTC-GATG
* * *
19614016 GGTAAAATGA-CTGAAATACCCTCAATA
1 GGTAAAATTATC-GAAATACCCTCGATG
* *
19614043 GGTAAAATTATCGAGATACCCT-TATAG
1 GGTAAAATTATCGAAATACCCTCGAT-G
19614070 GGTAAAAT
1 GGTAAAAT
19614078 GACTGTTATA
Statistics
Matches: 168, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.03
27 161 0.96
28 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (27 bp):
GGTAAAATTATCGAAATACCCTCGATG
Found at i:19614051 original size:54 final size:54
Alignment explanation
Indices: 19613796--19614082 Score: 257
Period size: 54 Copynumber: 5.3 Consensus size: 54
19613786 AATTACCTGC
* * * * *
19613796 GAAGGGTAAAATGACCGAGATACCCT--ATTAGGGTAAAATGACCGAATTACCTCC-
1 GAAGGGTAAAATGACTGAAATACCCTCGA-T-GGGTAAAATTATCGAAATACC-CCT
* * * * * *
19613850 AAAAGGTAAAATTA-TCGAAATACCCTTGATGGGTAAACTTA-CTGAAATACCCCC
1 GAAGGGTAAAATGACT-GAAATACCCTCGATGGGTAAAATTATC-GAAATACCCCT
* * * *
19613904 GATGGGTAAAATTATTAAAATACCCTCGATGGGTAAAATTATCGAAATA-CCCT
1 GAAGGGTAAAATGACTGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCT
* *
19613957 CGATA-GGTAAAATTATTGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCT
1 -GA-AGGGTAAAATGACTGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCT
* * *
19614012 GAAGGGTAAAATGACTGAAATACCCTCAATAGGTAAAATTATCGAGATA-CCCT
1 GAAGGGTAAAATGACTGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCT
*
19614065 TATAGGGTAAAATGACTG
1 GA-AGGGTAAAATGACTG
19614083 TTATACCCCT
Statistics
Matches: 198, Mismatches: 23, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
53 12 0.06
54 178 0.90
55 7 0.04
56 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (54 bp):
GAAGGGTAAAATGACTGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCT
Found at i:19614088 original size:27 final size:27
Alignment explanation
Indices: 19614014--19614109 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
19614004 ATACCCCTGA
* *
19614014 AGGGTAAAATGACTGAAATACCCTCAAT
1 AGGGTAAAATGACTGATATACCCT-TAT
* *
19614042 A-GGTAAAATTA-TCGAGATACCCTTAT
1 AGGGTAAAATGACT-GATATACCCTTAT
* *
19614068 AGGGTAAAATGACTGTTATACCCCTA-
1 AGGGTAAAATGACTGATATACCCTTAT
*
19614094 AGAGATAAAATGACTG
1 AG-GGTAAAATGACTG
19614110 TTATGGCCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
26 6 0.11
27 48 0.86
28 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACTGATATACCCTTAT
Found at i:19614089 original size:81 final size:80
Alignment explanation
Indices: 19613826--19614109 Score: 236
Period size: 81 Copynumber: 3.5 Consensus size: 80
19613816 TACCCTATTA
* * * * * ** * *
19613826 GGGTAAAATGACCGAATTACCTCCAAAAGGTAAAATTA-TCGAAATACCCTTGATGGGTAAACTT
1 GGGTAAAATGATCGAAATACC-CCTAAGGGTAAAATGACT-GAAATACCCTCAATAGGTAAAATT
*
19613890 A-CTGAAATACCCCCGAT
64 ATC-GAAATACCCTCGAT
* ** * * * *
19613907 GGGTAAAATTATTAAAATACCCTCGATGGGTAAAATTA-TCGAAATACCCTCGATAGGTAAAATT
1 GGGTAAAATGATCGAAATACCC-CTAAGGGTAAAATGACT-GAAATACCCTCAATAGGTAAAATT
*
19613971 ATTGAAATACCCTCGAT
64 ATCGAAATACCCTCGAT
*
19613988 GGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCAATAGGTAAAATTA
1 GGGTAAAATGATCGAAATACCCCT-AAGGGTAAAATGACTGAAATACCCTCAATAGGTAAAATTA
* *
19614053 TCGAGATACCCT-TAT
65 TCGAAATACCCTCGAT
** *
19614068 AGGGTAAAATGA-CTGTTATACCCCTAAGAGATAAAATGACTG
1 -GGGTAAAATGATC-GAAATACCCCTAAG-GGTAAAATGACTG
19614110 TTATGGCCTT
Statistics
Matches: 170, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
80 8 0.05
81 161 0.95
82 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (80 bp):
GGGTAAAATGATCGAAATACCCCTAAGGGTAAAATGACTGAAATACCCTCAATAGGTAAAATTAT
CGAAATACCCTCGAT
Found at i:19614103 original size:54 final size:54
Alignment explanation
Indices: 19613893--19614104 Score: 175
Period size: 54 Copynumber: 3.9 Consensus size: 54
19613883 TAAACTTACT
* * * * * * *
19613893 GAAATACCCCCGATGGGTAAAATTATTAAAATACCCTCGATG-GGTAAAATTATC
1 GAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTC-AAGAGATAAAATTATC
* * * *
19613947 GAAATA-CCCTCGATA-GGTAAAATTATTGAAATACCCTCGATG-GGTAAAATTATC
1 GAAATACCCCT-GA-AGGGTAAAATGACTGAAATACCCTC-AAGAGATAAAATTATC
* *
19614001 GAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCAATAGGTAAAATTATC
1 GAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCAAGAGATAAAATTATC
* * **
19614055 GAGATA-CCCTTATAGGGTAAAATGACTGTTATACCC-CTAAGAGATAAAAT
1 GAAATACCCCTGA-AGGGTAAAATGACTGAAATACCCTC-AAGAGATAAAAT
19614105 GACTGTTATG
Statistics
Matches: 138, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
53 11 0.08
54 123 0.89
55 4 0.03
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (54 bp):
GAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCAAGAGATAAAATTATC
Found at i:19614393 original size:26 final size:26
Alignment explanation
Indices: 19614314--19614394 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
19614304 TTTGCCACAT
* *
19614314 ATACTGTTACTGGCAGCTTTGTTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* * * *
19614340 ATACTGATACTAGCAGCTCTACTACG
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
19614366 ATGCT-ATTGCTGGCAGCTTTGCTGCG
1 ATACTGA-TACTGGCAGCTTTGCTGCG
19614392 ATA
1 ATA
19614395 TTGGTGTGTT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
25 1 0.02
26 40 0.98
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.33
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:19616342 original size:17 final size:20
Alignment explanation
Indices: 19616306--19616344 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
19616296 ACGCAAGTTC
19616306 TTTTAGCCTAGATCTAATTG
1 TTTTAGCCTAGATCTAATTG
19616326 TTTTA-CCTA-AT-TAATTG
1 TTTTAGCCTAGATCTAATTG
19616343 TT
1 TT
19616345 GATGTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 4 0.21
20 5 0.26
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (20 bp):
TTTTAGCCTAGATCTAATTG
Found at i:19618444 original size:40 final size:40
Alignment explanation
Indices: 19618390--19618498 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 40
19618380 AGGAGTACGA
* * * *
19618390 ATGTGCGATT-AGGGGTGCCAAAGTGC-AATCAGGGGCATAG
1 ATGTGC-ATTCAGGGGTACCAAAGTACAAAT-AGGGGAACAG
* *
19618430 ATGTGCCTTCAGGGGTACCGAAGTACAAATAGGGGAACAG
1 ATGTGCATTCAGGGGTACCAAAGTACAAATAGGGGAACAG
* * *
19618470 ATGTGCATTTAGGGGTATCGAAGTACAAA
1 ATGTGCATTCAGGGGTACCAAAGTACAAA
19618499 AAAAAGGGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
39 2 0.03
40 53 0.91
41 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (40 bp):
ATGTGCATTCAGGGGTACCAAAGTACAAATAGGGGAACAG
Found at i:19618463 original size:20 final size:20
Alignment explanation
Indices: 19618440--19618498 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
19618430 ATGTGCCTTC
19618440 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTACAAAT
* * * * **
19618460 AGGGGAACAGATGTGCATTT
1 AGGGGTACCGAAGTACAAAT
*
19618480 AGGGGTATCGAAGTACAAA
1 AGGGGTACCGAAGTACAAA
19618499 AAAAAGGGTA
Statistics
Matches: 26, Mismatches: 13, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.19
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAT
Found at i:19624181 original size:40 final size:39
Alignment explanation
Indices: 19624137--19624251 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
19624127 AGGAGCACGA
* * *
19624137 ATGTGCGATTAGGGGTACCAAAGTGC-AATCAGGGGCATAG
1 ATGTGC-ATTAGGGGTACCGAAGTACAAAT-AGGGGCACAG
*
19624177 ATGTGCCTTTAGGGGTACCGAAGTACAAATAGGGGCACAG
1 ATGTG-CATTAGGGGTACCGAAGTACAAATAGGGGCACAG
*
19624217 ATGTGCATTTAGGGGTACCGAAGTACAAAAAGGGG
1 ATGTGCA-TTAGGGGTACCGAAGTACAAATAGGGG
19624252 TACTTATTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
39 1 0.02
40 61 0.92
41 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.20
Consensus pattern (39 bp):
ATGTGCATTAGGGGTACCGAAGTACAAATAGGGGCACAG
Found at i:19624209 original size:20 final size:20
Alignment explanation
Indices: 19624186--19624254 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
19624176 GATGTGCCTT
19624186 TAGGGGTACCGAAGTACAAA
1 TAGGGGTACCGAAGTACAAA
* * * * **
19624206 TAGGGGCACAGATGTGCATT
1 TAGGGGTACCGAAGTACAAA
19624226 TAGGGGTACCGAAGTACAAA
1 TAGGGGTACCGAAGTACAAA
*
19624246 AAGGGGTAC
1 TAGGGGTAC
19624255 TTATTCATTT
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.33, T:0.17
Consensus pattern (20 bp):
TAGGGGTACCGAAGTACAAA
Found at i:19629316 original size:51 final size:50
Alignment explanation
Indices: 19629239--19629380 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 50
19629229 AAACACCGTT
* *
19629239 TGTGGACATGCCACCACTGATTTGCAGATAAACTACCACTGATAACATTGA
1 TGTGGACAAGCCACCACTGATTTGCAGATATACTACCACTGATAACATT-A
* * * * ***
19629290 TGTGGACAAGCCACCATTGATATGCAGATTTACTGCCACTGATTTGATTA
1 TGTGGACAAGCCACCACTGATTTGCAGATATACTACCACTGATAACATTA
* **
19629340 TGTGGACTAGCCACCACTGATTTATAGATATACTACCACTG
1 TGTGGACAAGCCACCACTGATTTGCAGATATACTACCACTG
19629381 CTTCCACCTT
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 35 0.47
51 40 0.53
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (50 bp):
TGTGGACAAGCCACCACTGATTTGCAGATATACTACCACTGATAACATTA
Found at i:19638438 original size:27 final size:26
Alignment explanation
Indices: 19638374--19638560 Score: 216
Period size: 27 Copynumber: 7.0 Consensus size: 26
19638364 AGACCCCAAA
**
19638374 ATAGGGTAAAATGATTGAAATACACCT
1 ATAGGGTAAAATGACCGAAATAC-CCT
*
19638401 A-A-GGTAAAATGATCGAAATACGCCT
1 ATAGGGTAAAATGACCGAAATAC-CCT
* *
19638426 ATAAGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATA-CCCT
*
19638453 ATAGGGTAAAATGACCAAAATACCCT
1 ATAGGGTAAAATGACCGAAATACCCT
* *
19638479 CATAGGGTAAAACGACCGAAATACCCCC
1 -ATAGGGTAAAATGACCGAAATA-CCCT
*
19638507 ATAGGGTAAAATGAACGAAATACCCT
1 ATAGGGTAAAATGACCGAAATACCCT
*
19638533 CATAGGGTAAAATGACCAAAATACCCT
1 -ATAGGGTAAAATGACCGAAATACCCT
19638560 A
1 A
19638561 GGAAATGAAA
Statistics
Matches: 139, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
25 22 0.16
26 9 0.06
27 104 0.75
28 4 0.03
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (26 bp):
ATAGGGTAAAATGACCGAAATACCCT
Found at i:19638488 original size:54 final size:54
Alignment explanation
Indices: 19638374--19638558 Score: 250
Period size: 54 Copynumber: 3.5 Consensus size: 54
19638364 AGACCCCAAA
** * * *
19638374 ATAGGGTAAAATGATTGAAATA-CACC-TAAGGTAAAATGATCGAAATACGCCT-
1 ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAACGAAATAC-CCTC
* * *
19638426 ATAAGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAACGAAATACCCTC
*
19638480 ATAGGGTAAAACGACCGAAATACCCCCATAGGGTAAAATGAACGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAACGAAATACCCTC
*
19638534 ATAGGGTAAAATGACCAAAATACCC
1 ATAGGGTAAAATGACCGAAATACCC
19638559 TAGGAAATGA
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
52 19 0.16
53 6 0.05
54 92 0.79
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (54 bp):
ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAACGAAATACCCTC
Found at i:19638502 original size:81 final size:78
Alignment explanation
Indices: 19638374--19638560 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 78
19638364 AGACCCCAAA
*** * * * *
19638374 ATAGGGTAAAATGATTGAAATACACCTAAGGTAAAATGATCGAAATACGCCTATAAGGTAAAATG
1 ATAGGGTAAAATGACCAAAATAC-CCTAAGGTAAAACGACCGAAATACCCCCATAAGGTAAAATG
*
19638439 ACCGAAATACCCCC
65 AACGAAATACCCCC
*
19638453 ATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAACGACCGAAATACCCCCATAGGGTAAAA
1 ATAGGGTAAAATGACCAAAATACCCT-A-A-GGTAAAACGACCGAAATACCCCCATAAGGTAAAA
*
19638518 TGAACGAAATACCCTC
63 TGAACGAAATACCCCC
19638534 ATAGGGTAAAATGACCAAAATACCCTA
1 ATAGGGTAAAATGACCAAAATACCCTA
19638561 GGAAATGAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 3 0.03
79 21 0.22
80 2 0.02
81 69 0.73
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (78 bp):
ATAGGGTAAAATGACCAAAATACCCTAAGGTAAAACGACCGAAATACCCCCATAAGGTAAAATGA
ACGAAATACCCCC
Found at i:19639355 original size:13 final size:14
Alignment explanation
Indices: 19639337--19639366 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19639327 CACAACCACA
19639337 TTAGCTT-TCATTT
1 TTAGCTTCTCATTT
19639350 TTAGCTTCTCATTT
1 TTAGCTTCTCATTT
19639364 TTA
1 TTA
19639367 TGTAAAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60
Consensus pattern (14 bp):
TTAGCTTCTCATTT
Found at i:19641795 original size:10 final size:11
Alignment explanation
Indices: 19641759--19641804 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
19641749 AAAGCAAGCA
19641759 TTTTCATTAAG
1 TTTTCATTAAG
* *
19641770 TTTTAATTATG
1 TTTTCATTAAG
19641781 TTTTCA-TAAG
1 TTTTCATTAAG
19641791 TTTTC-TTAAAG
1 TTTTCATT-AAG
19641802 TTT
1 TTT
19641805 AAAAAATGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (11 bp):
TTTTCATTAAG
Found at i:19650767 original size:35 final size:34
Alignment explanation
Indices: 19650709--19650810 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 34
19650699 TTAGTTGGAC
**
19650709 TAGCTCTTATGAGCATTAATGTGTTTCGGAGGTAA
1 TAGCTCTTATGAGCATTGGTGTGTTTCGGAGG-AA
* ** *
19650744 TAGCTCTTATGAGCATCGGTGTGTTTCAGTTGGAC
1 TAGCTCTTATGAGCATTGGTGTGTTTC-GGAGGAA
* *
19650779 TAGCTCTTATAAGCATTGGTGTGTTTTGGAGG
1 TAGCTCTTATGAGCATTGGTGTGTTTCGGAGG
19650811 GATTGGCTCG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
34 3 0.05
35 49 0.89
36 3 0.05
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (34 bp):
TAGCTCTTATGAGCATTGGTGTGTTTCGGAGGAA
Found at i:19671695 original size:44 final size:44
Alignment explanation
Indices: 19671603--19671696 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
19671593 GGGACCAAGG
* * * * **
19671603 TGAAAACCCGTAAAGGGCGCTTTGAGTCAAAAAAAAGATTAAGG
1 TGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAAAGATGAAAA
* *
19671647 TGAAAACCCGCAAAATGCACTTTGAGTCAAAAAAATGATGAAAA
1 TGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAAAGATGAAAA
19671691 TGAAAA
1 TGAAAA
19671697 AATGGAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (44 bp):
TGAAAACCCGCAAAAGGCACTTTGAGTCAAAAAAAAGATGAAAA
Found at i:19673006 original size:44 final size:44
Alignment explanation
Indices: 19672943--19673157 Score: 288
Period size: 44 Copynumber: 4.9 Consensus size: 44
19672933 AAATCACAAA
*
19672943 TCCTATCTCCCTGAACAGCAGTGGAATAGCTGGAAGATTGTAAG
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* *
19672987 TCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGCATA-
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTA-AG
*
19673031 TCCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAG
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * * * *
19673075 CCCTATCTCCCTAAACAACAGTGGAAGAGGTTGAAGATTGTAAG
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * * * *
19673119 TCATATCTCCCTGGACAGCACTGGAATTGGTTGAAGATT
1 TCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATT
19673158 TGAAGTAGAT
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
43 1 0.01
44 147 0.99
45 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
Found at i:19673380 original size:45 final size:45
Alignment explanation
Indices: 19673242--19673387 Score: 116
Period size: 45 Copynumber: 3.3 Consensus size: 45
19673232 CCTATGTTTC
* * *
19673242 CAGCGGAGTAGACTGAAGAAAGTAGATCTTGCCTTCCTGTACTGA
1 CAGCGAAGCAGACTGAAGAAAGTAGATCTTGCCTTCCTGTACTAA
* * ** * * *** **
19673287 CAGCGAAGCAG-GTCGAAGACACCAG-CCTTGCCTCCCTGGGTTTC
1 CAGCGAAGCAGACT-GAAGAAAGTAGATCTTGCCTTCCTGTACTAA
* * *
19673331 CAGCGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTAA
1 CAGCGAAGCAGACTGAAGAAAGTAGATCTTGCCTTCCTGTACTAA
19673376 CAGCGAAGCAGA
1 CAGCGAAGCAGA
19673388 TCGAAGACAC
Statistics
Matches: 71, Mismatches: 27, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
44 30 0.42
45 41 0.58
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (45 bp):
CAGCGAAGCAGACTGAAGAAAGTAGATCTTGCCTTCCTGTACTAA
Found at i:19673411 original size:89 final size:89
Alignment explanation
Indices: 19673220--19673413 Score: 280
Period size: 89 Copynumber: 2.2 Consensus size: 89
19673210 TTGAAAATAA
* ** * *
19673220 CAGCCGTACCTCCCTATGTTTCCAGCGGAGTAGACTGAAGAAAGTAGATCTTGCCTTCCTGTACT
1 CAGCCTTACCTCCCTGGGTTTCCAGCGGAGCAGACTAAAGAAAGTAGATCTTGCCTTCCTGTACT
* *
19673285 GACAGCGAAGCAGGTCGAAGACAC
66 AACAGCGAAGCAGATCGAAGACAC
* *
19673309 CAGCCTTGCCTCCCTGGGTTTCCAGCGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGTACT
1 CAGCCTTACCTCCCTGGGTTTCCAGCGGAGCAGACTAAAGAAAGTAGATCTTGCCTTCCTGTACT
19673374 AACAGCGAAGCAGATCGAAGACAC
66 AACAGCGAAGCAGATCGAAGACAC
* * *
19673398 CGGCGTTATCTCCCTG
1 CAGCCTTACCTCCCTG
19673414 ATGTTACAGT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (89 bp):
CAGCCTTACCTCCCTGGGTTTCCAGCGGAGCAGACTAAAGAAAGTAGATCTTGCCTTCCTGTACT
AACAGCGAAGCAGATCGAAGACAC
Found at i:19676765 original size:153 final size:153
Alignment explanation
Indices: 19676487--19676792 Score: 549
Period size: 153 Copynumber: 2.0 Consensus size: 153
19676477 ACAAGTACTT
* *
19676487 TTCCTCTCAGTCTCACTACTCAGTACAAGTATACCAAACTATCAAGAAGAAACTCTCCTTTCGGT
1 TTCCTCTCAGTCTCACTACTCAATACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
* *
19676552 CTCGTTTATCTAGATTTTCCGCTAGAGGTGTTAATTCTAGCACATTAAATATTTTGATATAATCA
66 CTCGTTTATCTAGATTTTCCACTAGAGGTGTTAATTCTAGCACATTAAACATTTTGATATAATCA
19676617 AACAATCAATTAATCAAGAATAA
131 AACAATCAATTAATCAAGAATAA
19676640 TTCCTCTCAGTCTCACTACTCAATACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
1 TTCCTCTCAGTCTCACTACTCAATACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
* * *
19676705 CTCGTTTATTTAGATTTTCCACTAGAGGTGTTAATTCTAGCATATTAAGCATTTTGATATAATCA
66 CTCGTTTATCTAGATTTTCCACTAGAGGTGTTAATTCTAGCACATTAAACATTTTGATATAATCA
19676770 AACAATCAATTAATCAAGAATAA
131 AACAATCAATTAATCAAGAATAA
19676793 ATGTTTACTT
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 146 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (153 bp):
TTCCTCTCAGTCTCACTACTCAATACAAGTATACCAAACTATCAAGAAGAAACTCTCCTCTCGGT
CTCGTTTATCTAGATTTTCCACTAGAGGTGTTAATTCTAGCACATTAAACATTTTGATATAATCA
AACAATCAATTAATCAAGAATAA
Found at i:19679867 original size:13 final size:13
Alignment explanation
Indices: 19679842--19679895 Score: 81
Period size: 13 Copynumber: 4.2 Consensus size: 13
19679832 ACATATAAAG
*
19679842 CATAACTTCAAAA
1 CATAACTTGAAAA
*
19679855 CATGACTTGAAAA
1 CATAACTTGAAAA
*
19679868 CATAACTTGAGAA
1 CATAACTTGAAAA
19679881 CATAACTTGAAAA
1 CATAACTTGAAAA
19679894 CA
1 CA
19679896 GAGTTTATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (13 bp):
CATAACTTGAAAA
Found at i:19682336 original size:48 final size:48
Alignment explanation
Indices: 19682253--19682378 Score: 135
Period size: 48 Copynumber: 2.6 Consensus size: 48
19682243 GGTCGCATAT
* * * * * * *
19682253 GTGGCAAGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCATCGAGAGTCTGTTAAGACACAAAG
* **
19682301 GTGGCACGGACTATGTGCAGGCCATCGAGAGTCTGTTATTACACAAAG
1 GTGGCACGGACTGTGTGCAGGCCATCGAGAGTCTGTTAAGACACAAAG
* * *
19682349 GTGGTACGAACTGTGTGTAGGCCATCGAGA
1 GTGGCACGGACTGTGTGCAGGCCATCGAGA
19682379 AATATGTTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
GTGGCACGGACTGTGTGCAGGCCATCGAGAGTCTGTTAAGACACAAAG
Found at i:19686538 original size:50 final size:51
Alignment explanation
Indices: 19686359--19686540 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
19686349 TGCCTATAAA
* * * * * * * *
19686359 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAAAGCT-TTGAT
* * * * * *
19686410 CACATCTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAATGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAAAGCTTTGAT
19686461 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAAAGCTTTGAT
* * *
19686511 CACGTGTGTAGTAATATGTGAATGCTACTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTA
19686541 CATGTATCGA
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 32 0.28
51 77 0.68
52 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAAAGCTTTGAT
Found at i:19690718 original size:48 final size:48
Alignment explanation
Indices: 19690662--19690783 Score: 217
Period size: 48 Copynumber: 2.5 Consensus size: 48
19690652 GGTCGCATAT
*
19690662 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTATTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAATATTCTATTAAGATACAAGG
*
19690710 GTGGCACGGATTATGTGCAGGCCACCAATATTCTATTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAATATTCTATTAAGATACAAGG
*
19690758 GTGGCACGGACTATGTGTAGGCCACC
1 GTGGCACGGACTATGTGCAGGCCACC
19690784 GAGAGTCTGT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
GTGGCACGGACTATGTGCAGGCCACCAATATTCTATTAAGATACAAGG
Found at i:19690809 original size:48 final size:48
Alignment explanation
Indices: 19690662--19690843 Score: 202
Period size: 48 Copynumber: 3.8 Consensus size: 48
19690652 GGTCGCATAT
* * *
19690662 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTATTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAAGAGTCTATTAAGATACAAGG
* * *
19690710 GTGGCACGGATTATGTGCAGGCCACCAATATTCTATTAAGATACAAGG
1 GTGGCACGGACTATGTGCAGGCCACCAAGAGTCTATTAAGATACAAGG
* * * ** * *
19690758 GTGGCACGGACTATGTGTAGGCCACCGAGAGTCTGTTATTACACAAAG
1 GTGGCACGGACTATGTGCAGGCCACCAAGAGTCTATTAAGATACAAGG
* * * *
19690806 GTGGTACGGACTGTGTGTAGGCCACCGAGAAGTCTATT
1 GTGGCACGGACTATGTGCAGGCCACCAAG-AGTCTATT
19690844 TTTATTCCGA
Statistics
Matches: 118, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
48 111 0.94
49 7 0.06
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
GTGGCACGGACTATGTGCAGGCCACCAAGAGTCTATTAAGATACAAGG
Found at i:19693373 original size:18 final size:20
Alignment explanation
Indices: 19693333--19693373 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
19693323 ATATAATTTT
*
19693333 AAAATATATATAATACATCA
1 AAAATATATATAAAACATCA
*
19693353 AAAATA-ATA-AAAACATTA
1 AAAATATATATAAAACATCA
19693371 AAA
1 AAA
19693374 TAAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:19693910 original size:29 final size:29
Alignment explanation
Indices: 19693877--19693933 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
19693867 GGTCTACTGA
19693877 CGACCATCAAATATGAAAAGGGATGGTTT
1 CGACCATCAAATATGAAAAGGGATGGTTT
*
19693906 CGACCATCGAATATGAAAAGGGATGGTT
1 CGACCATCAAATATGAAAAGGGATGGTT
19693934 GGAAACACGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (29 bp):
CGACCATCAAATATGAAAAGGGATGGTTT
Found at i:19694698 original size:23 final size:25
Alignment explanation
Indices: 19694654--19694700 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
19694644 AACCATTCAT
19694654 TCTTCACTTCTCTCTCACTTTTCTC
1 TCTTCACTTCTCTCTCACTTTTCTC
19694679 TCTTCA-TTGCTCT-TCA-TTTTCT
1 TCTTCACTT-CTCTCTCACTTTTCT
19694701 TCCCCATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 10 0.48
ACGTcount: A:0.09, C:0.34, G:0.02, T:0.55
Consensus pattern (25 bp):
TCTTCACTTCTCTCTCACTTTTCTC
Found at i:19698538 original size:19 final size:18
Alignment explanation
Indices: 19698485--19698539 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
19698475 CCAAATGCCT
*
19698485 TTAA-AATAATAACAAAA
1 TTAACAATAACAACAAAA
*
19698502 TTAACAAT-AGAACAAAAA
1 TTAACAATAACAAC-AAAA
19698520 TTATACAATAACAACAAAA
1 TTA-ACAATAACAACAAAA
19698539 T
1 T
19698540 AGTAACAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 8 0.25
18 10 0.31
19 10 0.31
20 4 0.12
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.22
Consensus pattern (18 bp):
TTAACAATAACAACAAAA
Found at i:19701385 original size:20 final size:20
Alignment explanation
Indices: 19701344--19701385 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
19701334 TTACACCCCA
*
19701344 AAGAATCTGTCTACATCCCT
1 AAGAATCTGTCTACATCACT
*
19701364 AAGAATCTG-CTATATACACT
1 AAGAATCTGTCTACAT-CACT
19701384 AA
1 AA
19701386 TTTCATGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
AAGAATCTGTCTACATCACT
Found at i:19723629 original size:76 final size:75
Alignment explanation
Indices: 19723542--19723689 Score: 228
Period size: 76 Copynumber: 2.0 Consensus size: 75
19723532 GGAAAACCAT
19723542 GATTATTCCCTTATTAATAGAG-AAGACAAATGGAAAGTTAGAAAAAAAAAGTTATATTC-TCTC
1 GATTATTCCCTTATTAATAGAGAAAG-CAAATGGAAAGTTAGAAAAAAAAA-TTATATTCGT-TC
19723605 CAAAAGAATATAG
63 CAAAAGAATATAG
** *
19723618 GATTATTCCCTTATTAATAGAGAAAGCAAATGGAAAGTTAGAAAAATGAATTATATTCGTTTCAA
1 GATTATTCCCTTATTAATAGAGAAAGCAAATGGAAAGTTAGAAAAAAAAATTATATTCGTTCCAA
19723683 AAGAATA
66 AAGAATA
19723690 CTAACCTCTA
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
75 19 0.28
76 45 0.67
77 3 0.04
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAGAAAGCAAATGGAAAGTTAGAAAAAAAAATTATATTCGTTCCAA
AAGAATATAG
Found at i:19723955 original size:83 final size:83
Alignment explanation
Indices: 19723858--19724028 Score: 281
Period size: 83 Copynumber: 2.1 Consensus size: 83
19723848 TTTTGATCGA
*
19723858 AATTAATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAAT-AATATTTTGTA
1 AATTAATTAATATAAATACTTATATTAATAAATTCAAAAAAATATATAC-AATGAATATTTTGTA
19723922 TGAATCAAATTCATATATT
65 TGAATCAAATTCATATATT
* * **
19723941 AATTAATTAATATAAATACTTATATTATTAACTTCAGTAAAATATATACAATGAATATTTTGTAT
1 AATTAATTAATATAAATACTTATATTAATAAATTCAAAAAAATATATACAATGAATATTTTGTAT
19724006 GAATCAAATTCATATATT
66 GAATCAAATTCATATATT
19724024 AATTA
1 AATTA
19724029 TATTCTTTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 3 0.04
83 79 0.96
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.41
Consensus pattern (83 bp):
AATTAATTAATATAAATACTTATATTAATAAATTCAAAAAAATATATACAATGAATATTTTGTAT
GAATCAAATTCATATATT
Found at i:19724104 original size:221 final size:220
Alignment explanation
Indices: 19723721--19724166 Score: 642
Period size: 221 Copynumber: 2.0 Consensus size: 220
19723711 TTTTGACCGA
* ** * *
19723721 AATTAATTAATATAATTGTTTATATTAATAAATTCAATAAAATATATACATTTAATATTTTGTAT
1 AATTAATTAATATAAATACTTATATTAATAAATTCAATAAAATATATACAATGAATATTTTGTAT
*
19723786 AAATCAAATTCATATGTAATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTTTATTT
66 AAATCAAATTCATATGTAATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTATATTT
*
19723851 TGATCGAAATTAATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAATAT
131 TGACCGAAATTAATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAATAT
*
19723916 T-TTGTATGAATCAAATTCATATATT
196 TATT-TATAAATCAAATTCATATATT
* * *
19723941 AATTAATTAATATAAATACTTATATTATTAACTTCAGTAAAATATATACAATGAATATTTTGTAT
1 AATTAATTAATATAAATACTTATATTAATAAATTCAATAAAATATATACAATGAATATTTTGTAT
* * * * ***
19724006 GAATCAAATTCATATATTAATTATATTCTTTTCAAAGGAATATTAATTTCCATGTCTTTTATATT
66 AAATCAAATTCATAT-GTAATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTATATT
* *** * *
19724071 TTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTCGGTAAATTATATACAATTAATA
130 TTGACCGAAATTAATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAATA
*
19724136 TTATTTATAAATCAAATTCATATGTT
195 TTATTTATAAATCAAATTCATATATT
19724162 AATTA
1 AATTA
19724167 TATTCTTTCC
Statistics
Matches: 199, Mismatches: 25, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
220 71 0.36
221 126 0.63
222 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (220 bp):
AATTAATTAATATAAATACTTATATTAATAAATTCAATAAAATATATACAATGAATATTTTGTAT
AAATCAAATTCATATGTAATTATATTCTTTTCAAAAGAAAATTAATTTCCAAACCTTTTATATTT
TGACCGAAATTAATTAATATAACTACTTATATTAATAAATTCAAAAAAATATATACAAATAATAT
TATTTATAAATCAAATTCATATATT
Found at i:19724128 original size:138 final size:138
Alignment explanation
Indices: 19723941--19724446 Score: 782
Period size: 138 Copynumber: 3.7 Consensus size: 138
19723931 TTCATATATT
* * * * * *
19723941 AATTAATTAATATAAATACTTATATTATTAACTTCAGTAAAATATATACAATGAATATT-TTGTA
1 AATTAATTAATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTATT-TA
* * **
19724005 TGAATCAAATTCATATATTAATTATATTCTTTTCAAAGGAATATTAATTTCCATGTCTTTTATAT
65 TAAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATAT
19724070 TTTGACCGA
130 TTTGACCGA
*
19724079 AATTAATTAATATAACTATTTATATTAATAAATTCGGTAAATTATATACAATTAATATTATTTAT
1 AATTAATTAATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTATTTAT
*
19724144 AAATCAAATTCATATGTTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATT
66 AAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATT
19724209 TTGACCGA
131 TTGACCGA
*
19724217 AATTAATTAATATAACTATTTATATTAATAAATTCGGTAAATTATATACAATTAATATTATTTAT
1 AATTAATTAATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTATTTAT
*
19724282 AAATCAAATTCATATGTTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATT
66 AAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATT
*
19724347 TTGACTGA
131 TTGACCGA
* * * *
19724355 AATTAATTAATATAATTATTTATATTAATCAATTTGGTAAAATATATACAATTAATAGTT-TGTA
1 AATTAATTAATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATA-TTATTTA
* * *
19724419 TGAATCAAACTCATATATTGATTATATT
65 TAAATCAAATTCATATATTAATTATATT
19724447 TATCTTCTTT
Statistics
Matches: 344, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
138 340 0.99
139 4 0.01
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (138 bp):
AATTAATTAATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTATTTAT
AAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATT
TTGACCGA
Found at i:19728189 original size:20 final size:20
Alignment explanation
Indices: 19728163--19728219 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
19728153 GGTCTATCTC
19728163 AAAACATAGAAAATATTATT
1 AAAACATAGAAAATATTATT
*
19728183 GAAACATAGAAAATATTATT
1 AAAACATAGAAAATATTATT
19728203 AAAACATAGAAAATATT
1 AAAACATAGAAAATATT
19728220 TTAGTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAACATAGAAAATATTATT
Found at i:19740883 original size:59 final size:59
Alignment explanation
Indices: 19740776--19741117 Score: 255
Period size: 58 Copynumber: 5.8 Consensus size: 59
19740766 GCTAACGATG
* * * * * *
19740776 GTCGTAACCATCCCTTTTCATATTTGATGGTCGTCACCTTCCCATTTCATAAATTGAT-
1 GTCGAAACTATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAAATTGATA
** * * **
19740834 GATCGTCACTTTCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATTAATCAATA
1 G-TCGAAACTATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAAATTGATA
* * * ** ** *
19740894 GTCAAAACTATCCCTTTTCATAGTCGATAGTCAAAATTATCCCTTTTCAT-AGTTGATA
1 GTCGAAACTATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAAATTGATA
* * * * * * *
19740952 GTCGAAACTATCCCTTTTAATAGTCGATAGTCGA-AACTATCCCTTTTCATATA-TGATG
1 GTCGAAACTATCCCTTTTCATAGTTGATGGTC-ATCACCATCCCTTTTCATAAATTGATA
* ** * * **
19741010 GTTGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTGC-T-AGTCAATA
1 GTCGAAACTATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTT-CATAAATTGATA
* ** * **
19741068 GTCAAAACTATCATTTTTCATAATTGATGGTCAAAACCATCCCTTTTCAT
1 GTCGAAACTATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCAT
19741118 TGTCGATGAT
Statistics
Matches: 223, Mismatches: 53, Indels: 16
0.76 0.18 0.05
Matches are distributed among these distances:
57 2 0.01
58 132 0.59
59 88 0.39
60 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.38
Consensus pattern (59 bp):
GTCGAAACTATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAAATTGATA
Found at i:19741023 original size:87 final size:87
Alignment explanation
Indices: 19740845--19741117 Score: 298
Period size: 87 Copynumber: 3.1 Consensus size: 87
19740835 ATCGTCACTT
* * * * *
19740845 TCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATTAATCAATAGTCAAAACTATCCCTT
1 TCCCTTTTCATAGTTGATAGTCATAACCATCCCTTTT-AATAGTCAATAGTCAAAACTATCACTT
* * * **
19740910 TTCATAGTCGATAGTCAAAATTA
65 TTCATAATTGATGGTCAAAACCA
* * * *
19740933 TCCCTTTTCATAGTTGATAGTCGA-AACTATCCCTTTTAATAGTCGATAGTCGAAACTATCCCTT
1 TCCCTTTTCATAGTTGATAGTC-ATAACCATCCCTTTTAATAGTCAATAGTCAAAACTATCACTT
****
19740997 TTCAT-ATATGATGGTTGTCACCA
65 TTCATAAT-TGATGGTCAAAACCA
* * ** *
19741020 TCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTGCTAGTCAATAGTCAAAACTATCATTTT
1 TCCCTTTTCATAGTTGATAGTCATAACCATCCCTTTTAATAGTCAATAGTCAAAACTATCACTTT
19741085 TCATAATTGATGGTCAAAACCA
66 TCATAATTGATGGTCAAAACCA
19741107 TCCCTTTTCAT
1 TCCCTTTTCAT
19741118 TGTCGATGAT
Statistics
Matches: 152, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
86 2 0.01
87 115 0.76
88 34 0.22
89 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.38
Consensus pattern (87 bp):
TCCCTTTTCATAGTTGATAGTCATAACCATCCCTTTTAATAGTCAATAGTCAAAACTATCACTTT
TCATAATTGATGGTCAAAACCA
Found at i:19741062 original size:29 final size:29
Alignment explanation
Indices: 19740772--19741117 Score: 205
Period size: 29 Copynumber: 11.9 Consensus size: 29
19740762 GTGTGCTAAC
* * *
19740772 GATGGTCGTAACCATCCCTTTTCATATTT
1 GATGGTCATCACCATCCCTTTTCATAGTT
* * * *
19740801 GATGGTCGTCACCTTCCCATTTCATAAATT
1 GATGGTCATCACCATCCCTTTTCAT-AGTT
* * **
19740831 GATGATCGTCACTTTCCCTTTTCATAGTT
1 GATGGTCATCACCATCCCTTTTCATAGTT
* *
19740860 GATGGTCATCACCATCCCTTTTCATTAATC
1 GATGGTCATCACCATCCCTTTTCA-TAGTT
* * ** * *
19740890 AATAGTCAAAACTATCCCTTTTCATAGTC
1 GATGGTCATCACCATCCCTTTTCATAGTT
* ** **
19740919 GATAGTCAAAATTATCCCTTTTCATAGTT
1 GATGGTCATCACCATCCCTTTTCATAGTT
* * * * *
19740948 GATAGTCGA-AACTATCCCTTTTAATAGTC
1 GATGGTC-ATCACCATCCCTTTTCATAGTT
* * *
19740977 GATAGTCGA-AACTATCCCTTTTCATA-TAT
1 GATGGTC-ATCACCATCCCTTTTCATAGT-T
**
19741006 GATGGTTGTCACCATCCCTTTTCATAGTT
1 GATGGTCATCACCATCCCTTTTCATAGTT
*
19741035 GATGGTCATCACCATCCCTTTTGC-TAGTC
1 GATGGTCATCACCATCCCTTTT-CATAGTT
* * ** * ** *
19741064 AATAGTCAAAACTATCATTTTTCATAATT
1 GATGGTCATCACCATCCCTTTTCATAGTT
**
19741093 GATGGTCAAAACCATCCCTTTTCAT
1 GATGGTCATCACCATCCCTTTTCAT
19741118 TGTCGATGAT
Statistics
Matches: 259, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
28 2 0.01
29 207 0.80
30 50 0.19
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (29 bp):
GATGGTCATCACCATCCCTTTTCATAGTT
Found at i:19741125 original size:29 final size:29
Alignment explanation
Indices: 19740845--19741124 Score: 231
Period size: 29 Copynumber: 9.6 Consensus size: 29
19740835 ATCGTCACTT
* * ** *
19740845 TCCCTTTTCATAGTTGATGGTCATCACCA
1 TCCCTTTTCATAGTCGATAGTCAAAACTA
* *
19740874 TCCCTTTTCATTAATCAATAGTCAAAACTA
1 TCCCTTTTCA-TAGTCGATAGTCAAAACTA
*
19740904 TCCCTTTTCATAGTCGATAGTCAAAATTA
1 TCCCTTTTCATAGTCGATAGTCAAAACTA
* *
19740933 TCCCTTTTCATAGTTGATAGTCGAAACTA
1 TCCCTTTTCATAGTCGATAGTCAAAACTA
* *
19740962 TCCCTTTTAATAGTCGATAGTCGAAACTA
1 TCCCTTTTCATAGTCGATAGTCAAAACTA
* * **** *
19740991 TCCCTTTTCATA-TATGATGGTTGTCACCA
1 TCCCTTTTCATAGT-CGATAGTCAAAACTA
* * ** *
19741020 TCCCTTTTCATAGTTGATGGTCATCACCA
1 TCCCTTTTCATAGTCGATAGTCAAAACTA
*
19741049 TCCCTTTTGC-TAGTCAATAGTCAAAACTA
1 TCCCTTTT-CATAGTCGATAGTCAAAACTA
** * * * *
19741078 TCATTTTTCATAATTGATGGTCAAAACCA
1 TCCCTTTTCATAGTCGATAGTCAAAACTA
*
19741107 TCCCTTTTCATTGTCGAT
1 TCCCTTTTCATAGTCGAT
19741125 GATCGTCGAT
Statistics
Matches: 204, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
28 2 0.01
29 178 0.87
30 24 0.12
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCATAGTCGATAGTCAAAACTA
Found at i:19746142 original size:43 final size:43
Alignment explanation
Indices: 19746094--19746268 Score: 350
Period size: 43 Copynumber: 4.1 Consensus size: 43
19746084 GAACGTCATC
19746094 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
1 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
19746137 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
1 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
19746180 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
1 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
19746223 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
1 TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
19746266 TCT
1 TCT
19746269 ATCGAGTATT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (43 bp):
TCTGTACAACTTGCAACATCTATGTCTAGATTACTATGAATAT
Found at i:19762724 original size:12 final size:13
Alignment explanation
Indices: 19762700--19762728 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19762690 GGGCTATAAC
19762700 TATTGCATTTATT
1 TATTGCATTTATT
19762713 TATTGC-TTTATT
1 TATTGCATTTATT
19762725 TATT
1 TATT
19762729 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:19772967 original size:27 final size:27
Alignment explanation
Indices: 19772929--19773237 Score: 248
Period size: 27 Copynumber: 11.5 Consensus size: 27
19772919 TGCGATTCAT
*
19772929 GGGTAAAATGACAAAAATACCCCCGAA
1 GGGTAAAATGACTAAAATACCCCCGAA
*
19772956 GGGTAAAATGACCAAAATACCCCCGAA
1 GGGTAAAATGACTAAAATACCCCCGAA
* **
19772983 GGGTAAAATGA-TAGAAATATCCTTGAA
1 GGGTAAAATGACTA-AAATACCCCCGAA
* * **
19773010 GGGTAAAATGATTGAAATACCCTAG-A
1 GGGTAAAATGACTAAAATACCCCCGAA
**
19773036 GGGTAAAATGACTAAAATACCCCTAAA
1 GGGTAAAATGACTAAAATACCCCCGAA
** * ** *
19773063 GGGTAAAATGACCGAAATTCCCTTGGA
1 GGGTAAAATGACTAAAATACCCCCGAA
* * **
19773090 GGTTTAAATGACCGAAATACCCCCGAA
1 GGGTAAAATGACTAAAATACCCCCGAA
* ****
19773117 GGGTAAAATTACTAAAATACCTTTAAA
1 GGGTAAAATGACTAAAATACCCCCGAA
* * * * *
19773144 GGATAAAATGATTGAAATTA-CCTCGGA
1 GGGTAAAATGACT-AAAATACCCCCGAA
* *
19773171 GGGTAAAATGACTGAAATACCCCTGAA
1 GGGTAAAATGACTAAAATACCCCCGAA
*
19773198 AGGTAAAATGACTAAAATACCCCC-ATA
1 GGGTAAAATGACTAAAATACCCCCGA-A
*
19773225 AGGTAAAATGACT
1 GGGTAAAATGACT
19773238 GTTATACCCT
Statistics
Matches: 224, Mismatches: 52, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
26 27 0.12
27 191 0.85
28 6 0.03
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGACTAAAATACCCCCGAA
Found at i:19773135 original size:107 final size:107
Alignment explanation
Indices: 19772929--19773237 Score: 273
Period size: 107 Copynumber: 2.9 Consensus size: 107
19772919 TGCGATTCAT
*
19772929 GGGTAAAATGACAAAAATACCCCCGAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGA
1 GGGTAAAATGACAAAAATACCCCCAAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGA
* * ** * *
19772994 TAGAAATATCCTTGAAGGGTAAAATGATTGAAATACCCTAGA
66 CAGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCTAGA
* * * * ** * * *
19773036 GGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGACCGAAATTCCCTTGGAGGTTTAAATGA
1 GGGTAAAATGACAAAAATACCCCCAAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGA
* * * *
19773101 CCGAAATACCCCCGAAGGGTAAAATTACTAAAATACCTTTAAA
66 CAGAAATACCCCCGAAGGGTAAAATGACTAAAATACC-CTAGA
* ** * * ** ** * *
19773144 GGATAAAATGATTGAAATTA-CCTCGGAGGGTAAAATGACTGAAATACCCCTGAAAGGTAAAATG
1 GGGTAAAATGA-CAAAAATACCCCCAAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATG
*
19773208 ACTA-AAATACCCCC-ATAAGGTAAAATGACT
65 AC-AGAAATACCCCCGA-AGGGTAAAATGACT
19773238 GTTATACCCT
Statistics
Matches: 160, Mismatches: 38, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
107 85 0.53
108 70 0.44
109 5 0.03
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.20
Consensus pattern (107 bp):
GGGTAAAATGACAAAAATACCCCCAAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGA
CAGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCTAGA
Found at i:19773153 original size:81 final size:80
Alignment explanation
Indices: 19772929--19773235 Score: 357
Period size: 81 Copynumber: 3.8 Consensus size: 80
19772919 TGCGATTCAT
** * **
19772929 GGGTAAAATGACAAAAATACCCCCGAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGA
1 GGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGA
*
19772994 TAGAAATATCCTTGAA
66 TAGAAAT-TCCTTGGA
* **
19773010 GGGTAAAATGATTGAAATACCCTAG-AGGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGA
1 GGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGA
**
19773074 CCGAAATTCCCTTGGA
66 TAGAAATT-CCTTGGA
* * * * ** *
19773090 GGTTTAAATGACCGAAATACCCCCGAAGGGTAAAATTACTAAAATACCTTTAAAGGATAAAATGA
1 GGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGA
* *
19773155 TTGAAATTACCTCGGA
66 TAGAAATT-CCTTGGA
* * *
19773171 GGGTAAAATGACTGAAATACCCCTGAAAGGTAAAATGACTAAAATACCCCCATAA-GGTAAAATG
1 GGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTA-AAGGGTAAAATG
19773235 A
65 A
19773236 CTGTTATACC
Statistics
Matches: 188, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.35
81 119 0.63
82 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (80 bp):
GGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTAAAGGGTAAAATGA
TAGAAATTCCTTGGA
Found at i:19773598 original size:28 final size:28
Alignment explanation
Indices: 19773542--19773598 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
19773532 TTTTTTGCAG
* **
19773542 TGTTACTGTATTGGGCTAAGACCTGCAC
1 TGTTACTATATTGGGCTAAGACCCACAC
* *
19773570 TGTTACTATTTTGGGCTAAGGCCCACAC
1 TGTTACTATATTGGGCTAAGACCCACAC
19773598 T
1 T
19773599 ATACTGTTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
TGTTACTATATTGGGCTAAGACCCACAC
Found at i:19794929 original size:21 final size:21
Alignment explanation
Indices: 19794888--19794929 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19794878 TCCAACGTTG
**
19794888 CATGATGGGAATATTTTTTGA
1 CATGATGGGAATATTCCTTGA
19794909 CATGATGGAGAA-ATTCCTTGA
1 CATGATGG-GAATATTCCTTGA
19794930 AGTATTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.36
Consensus pattern (21 bp):
CATGATGGGAATATTCCTTGA
Found at i:19808341 original size:27 final size:26
Alignment explanation
Indices: 19808306--19808611 Score: 301
Period size: 27 Copynumber: 11.4 Consensus size: 26
19808296 CCCCAAACTA
*
19808306 GGTAAAATGACCAAAATACCTCCATAG
1 GGTAAAATGACCGAAATACC-CCATAG
19808333 GGTAAAATGACCGAAATACCCCTATA-
1 GGTAAAATGACCGAAATACCCC-ATAG
*
19808359 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* **
19808386 GGTAAAATGACTGAAATACTTTCATAG
1 GGTAAAATGACCGAAATAC-CCCATAG
* * *
19808413 GGTAAAATGACCAAAATGCCCTCATTG
1 GGTAAAATGACCGAAATACCC-CATAG
* *
19808440 AGTAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
** *
19808467 GGTAAAATGAATGGAATACCCCATA-
1 GGTAAAATGACCGAAATACCCCATAG
19808492 GGTAAAAATGACCGAAATACCCTCATAG
1 GGT-AAAATGACCGAAATACCC-CATAG
* * *
19808520 GGTAAAATGATCAAAATACCCCCATAA
1 GGTAAAATGACCGAAATA-CCCCATAG
* * *
19808547 GATAGAATGACCGAAATGCCCCCATAG
1 GGTAAAATGACCGAAAT-ACCCCATAG
* * *
19808574 GGTAGAATAACCGAAATACCCCCACAG
1 GGTAAAATGACCGAAATA-CCCCATAG
19808601 GGTAAAATGAC
1 GGTAAAATGAC
19808612 TATTATACCA
Statistics
Matches: 229, Mismatches: 38, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.01
26 42 0.18
27 178 0.78
28 6 0.03
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCATAG
Found at i:19808492 original size:107 final size:107
Alignment explanation
Indices: 19808306--19808612 Score: 356
Period size: 107 Copynumber: 2.9 Consensus size: 107
19808296 CCCCAAACTA
* * *
19808306 GGTAAAATGACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCCTATA-GGTAAAATG-A
1 GGTAAAATGACCAAAATCCCT-CATTGAGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAA
**
19808369 TCGAAATACCCCCATAGGGTAAAATGACTGAAATACTTTCATAG
65 T-GAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAG
*
19808413 GGTAAAATGACCAAAATGCCCTCATTGAGTAAAATGACTGAAATACCCCTATAGGGTAAAATGAA
1 GGTAAAATGACCAAAAT-CCCTCATTGAGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAA
* *
19808478 TGGAATA-CCCCATA-GGTAAAAATGACCGAAATACCCTCATAG
65 TGAAATACCCCCATAGGGT-AAAATGACTGAAATACCCTCATAG
* * * * * * *
19808520 GGTAAAATGATCAAAATACCCCCA-TAAGATAGAATGACCGAAATGCCCCCATAGGGTAGAAT-A
1 GGTAAAATGACCAAAAT-CCCTCATTGAG-TAAAATGACCGAAATACCCCTATAGGGTAAAATGA
* *
19808583 ACCGAAATACCCCCACAGGGTAAAATGACT
64 A-TGAAATACCCCCATAGGGTAAAATGACT
19808613 ATTATACCAT
Statistics
Matches: 171, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
106 8 0.05
107 127 0.74
108 31 0.18
109 5 0.03
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (107 bp):
GGTAAAATGACCAAAATCCCTCATTGAGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAAT
GAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAG
Found at i:19808556 original size:134 final size:133
Alignment explanation
Indices: 19808307--19808610 Score: 360
Period size: 134 Copynumber: 2.3 Consensus size: 133
19808297 CCCAAACTAG
* * *
19808307 GTAAAATGACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCCTATAGGTAAAATGATCG
1 GTAAAATGACCGAAATACC-CCATAGGGTAAAATGAACGAAATACCCCTATAGGTAAAATGACCG
* *** * * *
19808372 AAATACCCCCATAGGGTAAAATGACTGAAATACTTTCATAGGGTAAAATGACCAAAATGCCCTCA
65 AAATACCCCCATAGGGTAAAATGACTAAAATACCCCCATAAGATAAAATGACCAAAATGCCCCCA
*
19808437 TTGA
130 TAGA
* * *
19808441 GTAAAATGACTGAAATACCCCTATAGGGTAAAATGAATGGAATACCCC-ATAGGTAAAAATGACC
1 GTAAAATGACCGAAATACCCC-ATAGGGTAAAATGAACGAAATACCCCTATAGGT-AAAATGACC
* * *
19808505 GAAATACCCTCATAGGGTAAAATGA-TCAAAATACCCCCATAAGATAGAATGACCGAAATGCCCC
64 GAAATACCCCCATAGGGTAAAATGACT-AAAATACCCCCATAAGATAAAATGACCAAAATGCCCC
*
19808569 CATAGG
128 CATAGA
* * *
19808575 GTAGAATAACCGAAATACCCCCACAGGGTAAAATGA
1 GTAAAATGACCGAAATA-CCCCATAGGGTAAAATGA
19808611 CTATTATACC
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
133 9 0.06
134 131 0.91
135 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (133 bp):
GTAAAATGACCGAAATACCCCATAGGGTAAAATGAACGAAATACCCCTATAGGTAAAATGACCGA
AATACCCCCATAGGGTAAAATGACTAAAATACCCCCATAAGATAAAATGACCAAAATGCCCCCAT
AGA
Found at i:19815692 original size:872 final size:873
Alignment explanation
Indices: 19810699--19816828 Score: 10293
Period size: 872 Copynumber: 7.0 Consensus size: 873
19810689 GCGTATTTTG
19810699 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTTAA
1 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTC-TTAA
*
19810764 GGGAACTTGGATGATAGCTTACATGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAG
65 GGGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAG
* *
19810829 GGGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTAGTAGGGGACTGGAGTTCGAGTCTCACTGT
130 GGGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGT
* *
19810894 ATGCAAATGGGATTATATTTTTTTTTCATGAAGAGGCAAGAGTTAGTGTTGGATTTGAACTCTGT
195 ATGCAAATGGG---AT-TTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGT
*
19810959 TGTTGGAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAAGGGAG
256 TGTTGGAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGAG
* *
19811024 AAAATCAAGGAGAGGGGGTGGAGATTTTCAAGGATTTTGAAGGCTTGAAAAGTTGTGCCGAAATA
321 AAAATCAAGGAGAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAAGTTGTGCCGAAATA
19811089 GGTATATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTA---TGCCGTTTGGTCTTC
386 GGTATATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTC
* * * *
19811151 TCCGCTTGAAACTTCCTACTCATCTCTTCTTTAATCATTTTCTACTATAGCCGACCCTCTCTTTT
451 TCTGCTTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTC-TTT
* *
19811216 ACTTTCATCTCTACTTCTTTTCCAATTCTGTTATTCCTTTCTCTGTAAGGTCGAATTCCCATACT
515 ACTTTCATCTCTACTTCTTTTCCAATTCCGTTATTCCTTTCTCTGTAAGGTCGAATTCTCATACT
*
19811281 CTCTCCCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCAAATCTTCCTGACTGACTATTACTG
580 CTCTCCCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTGACTGACTATTACTG
*
19811346 AAATACGTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTT-GTTCTTAGTTAAAT
645 AAATACGTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAAT
* * * *
19811410 TTCTTTTAGCTCTACTAACAAGCATCGGTTTTCCCTTTTCTTTCCCTTAGGGGCCGAATGTATGG
710 TTCTTTTAGCTCTACTAACAAGCTTCTGTTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTATGG
* * *
19811475 TTGTTTTCTAATAACTTTTGATCTGCCAAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGTA
775 TTGTTTTCTAACAACTTTTGATCTGCCGAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGCA
*
19811540 GTGAGGCGCTAGTATCTGTTAGATCTAGCAATGT
840 GTGAGGCGCTAGTATCTGTTAGATCTAGCAAGGT
* *
19811574 GAGTGCTTGAGAAACTTGTGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
1 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
19811639 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
66 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
* *
19811704 GGGTGGTCTAGTCGCAAGGTGGCATGCTGTTTCTGGTAGGGGACT-GAAGTTCGAGTCTCACTGT
131 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCG-AGTTCGAGTCTCACTGT
19811768 ATGCAAATGGGATTATGTTTATTAATTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTG
195 ATGCAAATGGGATT-T-TTT-TT--TTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTG
*
19811833 TTGTTGGAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAAGGGA
255 TTGTTGGAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGA
* * *
19811898 GAAAATCAAGGAGAGGGGGTGGAGATTTTCAAGGATTTTGAAGGCTTGAAAAGTTGTGCCAAAAT
320 GAAAATCAAGGAGAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAAGTTGTGCCGAAAT
*
19811963 AGGTATATCCGAAGTGCCGGAGTGGTTTCCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTT
385 AGGTATATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTT
19812028 CTCTGCTTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTT
450 CTCTGCTTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTC-TT
* *
19812093 TACTTTCATCTCTACTTCTTTTCCAATTCTGTTATTCCTTTCTCTGTAAGGTCGAATTCCCATAC
514 TACTTTCATCTCTACTTCTTTTCCAATTCCGTTATTCCTTTCTCTGTAAGGTCGAATTCTCATAC
* * *
19812158 TCTCTCCCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCAAATCTTCCTGACTGATTACTACT
579 TCTCTCCCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTGACTGACTATTACT
* * *
19812223 GAAATACGTTTCTTTTTATGGTAACGGGGTGTTACAACCATTTTATTATTTCGTTCTTAGTTAAA
644 GAAATACGTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAA
* * *
19812288 TTTCTTTTAGCTCTACTAACAAGCATCGGTTTTCCCTTTTCTTTCCCTTGGGGGCCGAATGTATG
709 TTTCTTTTAGCTCTACTAACAAGCTTCTGTTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTATG
* *
19812353 GTTGTTTTCTAATAACTTTTGATCTGCCGAATCATGTTAGCACGGGGGATTCGCCCTTGATCAGC
774 GTTGTTTTCTAACAACTTTTGATCTGCCGAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGC
*
19812418 AGTGAGGCGCTAGTATCTGTTAGATCTAGCAATGT
839 AGTGAGGCGCTAGTATCTGTTAGATCTAGCAAGGT
* * *
19812453 GAGTGCTTGAGAAACTTGTGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAA
1 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
19812518 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
66 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
* * *
19812583 GGATGGTCTAGTGGCAAGCTGGCATGCTGTTTCTGGTAGGGGGCTGGAGTTCGAGTCTCACTGTA
131 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
19812648 TGCAAATGGGATTATGTTTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGT
196 TGCAAATGGG---A--TTTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGT
19812713 TGTTGGAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGAG
256 TGTTGGAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGAG
* *
19812778 AAAATCAAGGACAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAACTTGTGCCGAAATA
321 AAAATCAAGGAGAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAAGTTGTGCCGAAATA
*
19812843 GGTATATCCGAAGTGCCGTAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTC
386 GGTATATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTC
19812908 TCTGCTTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTTA
451 TCTGCTTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTTA
* *
19812973 CTTTCATCTCTACTTCTTTTCCAATTCCATTATTCCTTTCTCTGTTAGGTCGAATTCTCATACTC
516 CTTTCATCTCTACTTCTTTTCCAATTCCGTTATTCCTTTCTCTGTAAGGTCGAATTCTCATACTC
* * * *
19813038 CCTCCCTCTCAAATCTCTTTGTTCTTCTTGTTTCAGGCCGAATCTTCCTAACTCACTATTACTGA
581 TCTCCCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTGACTGACTATTACTGA
* *
19813103 AATACGTTTGTTTTTATGGTAAGGGGGTGTTACAACGATTTTATTATTTCATTCTTAGTTAACTT
646 AATACGTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAATT
** * *
19813168 TCTTTTTTCTCTAGTAACAAGCTTCTGTTTTTCCCTTTTCTTTCTCCTGGGGGCCGAATGTATGG
711 TCTTTTAGCTCTACTAACAAGCTTCTG-TTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTATGG
* *
19813233 TTGTTTTCTAACAACTTTTGATATGCCGAATCATGTTAGCACAGGGGATTTGCCCTTGATCAGCA
775 TTGTTTTCTAACAACTTTTGATCTGCCGAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGCA
* *
19813298 GTGAGGTGCTAGTATCTGTTAGATCTAGCTAGGT
840 GTGAGGCGCTAGTATCTGTTAGATCTAGCAAGGT
* *
19813332 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATGTTAATTTTGGGGCTCTTAAG
1 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
* *
19813397 GGAACTTGGATGTTAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGATACAAAGAGAGG
66 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
19813462 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
131 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
* *
19813527 TGCAAATGGGA-TTTTCTTTTCATAAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGTTGTTG
196 TGCAAATGGGATTTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGTTGTTG
* *
19813591 GAGAGTTTGAATTGGTCTTGTGAGTAGGTTGTGGAGGATATCAAGGAAGGATAAGGGTAGAAAAT
261 GAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGAGAAAAT
* * * *
19813656 CAAGGATAGAGGGTGGAGATTTTCAGGGAGTTTGAAGGTTTGAAAACTTGTGCCGAAATAGGTAT
326 CAAGGAGAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAAGTTGTGCCGAAATAGGTAT
19813721 ATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCTCTGC
391 ATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCTCTGC
19813786 TTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGA-CCTCTCTTTACTTTC
456 TTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTTACTTTC
* * * *
19813850 ATCTCTACTTCTTTTCCAATTCTGTTATTCCTTTCTCTGTAAGGTCTAATTCCCACACTCTCTCC
521 ATCTCTACTTCTTTTCCAATTCCGTTATTCCTTTCTCTGTAAGGTCGAATTCTCATACTCTCTCC
* * *
19813915 CTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCAAATCTTCCTGACTGATTACTACTGAAATAC
586 CTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTGACTGACTATTACTGAAATAC
* * *
19813980 GTTTCTTTTTATGGTAACGGGGTGTTACAACCATTTTATTATTTCGTTCTTAGTTAAATTTCTTT
651 GTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAATTTCTTT
* * *
19814045 TAGCTCTACTAACAAGCATCGGTTTTCCCTTTTCTTTCCCTTGGGGGCCGAATGTATGGTTGTTT
716 TAGCTCTACTAACAAGCTTCTGTTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTATGGTTGTTT
* * *
19814110 TCTAATAACTTTTGATCTGCCGAATCATGTTAGCACGGGGGATTCGCCCTTAATCAGCAGTGAGG
781 TCTAACAACTTTTGATCTGCCGAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGCAGTGAGG
* *
19814175 CACTAGTATCTGTTAGATCTAGCAATGT
846 CGCTAGTATCTGTTAGATCTAGCAAGGT
* * *
19814203 GAGTGCTTGAGAAACTTGCGCTCTAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
1 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
19814268 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
66 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
* * *
19814333 GGATGGTTTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTGGAGTTCGAGTCACACTGTA
131 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
19814398 TGCAAATGGGATTATGTTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGTT
196 TGCAAATGGG---AT-TTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGTT
* *
19814463 GTTGGAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTAGAGGATATCAAGAAAGGATAAGGGGAGA
257 GTTGGAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGAGA
* * *
19814528 AAATCAAGGATAGAGGGTGGAGATTTTCAAGGATTTTAAAGGTTTGAAAAATTGTGCCGAAATAG
322 AAATCAAGGAGAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAAGTTGTGCCGAAATAG
19814593 GTATATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCT
387 GTATATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCT
19814658 CTGCTTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTTAC
452 CTGCTTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTTAC
* * * *
19814723 TTTCATCTCTACTTCTTTTCCAATTCCATTATTCCTTTATCTGTTAGGTCGAATTCTCATAATCT
517 TTTCATCTCTACTTCTTTTCCAATTCCGTTATTCCTTTCTCTGTAAGGTCGAATTCTCATACTCT
* * * *
19814788 CTCCCTCTCAAATCTCTTTGTTCTTTTTGTTTCAGGCCGAATCTTCCTAACTCACTATTACTGAA
582 CTCCCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTGACTGACTATTACTGAA
* *
19814853 ATACGTTTGTTTTTATGGTAAGGGGGTGTTACAACCAATTTATTATTTCATTCTTAGTTAACTTT
647 ATACGTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAATTT
* * *
19814918 CTTTTTGCTCTAGTAACAAGCTTCTGTTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTACGGTT
712 CTTTTAGCTCTACTAACAAGCTTCTGTTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTATGGTT
* * * * *
19814983 GTTTTCTCACAACTTTTGATATGCCGAATCATGTTAGCACAAGGGATTTGCCTTTGATCAGCAGT
777 GTTTTCTAACAACTTTTGATCTGCCGAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGCAGT
*
19815048 GAGGCGCTAGTATCTGTTAGATCTAGCTAGGT
842 GAGGCGCTAGTATCTGTTAGATCTAGCAAGGT
19815080 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
1 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
* * * * *
19815145 GGAACTTAGATGTTAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTACGATACAGAGAGAGG
66 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
19815210 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
131 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
19815275 TGCAAATGGGA-TTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGTTGTTG
196 TGCAAATGGGATTTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGTTGTTG
* *
19815339 GAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTAGAGGATATCAAGAAAGGATAAGGGGAGAAAAT
261 GAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGAGAAAAT
* * *
19815404 CAAGGATAGAGGGTGGAGATTTTCAAGGATTTTAAAGGTTTGAAAAATTGTGCCGAAATAGGTAT
326 CAAGGAGAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAAGTTGTGCCGAAATAGGTAT
19815469 ATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCTCTGC
391 ATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCTCTGC
19815534 TTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTTACTTTC
456 TTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTTACTTTC
* * *
19815599 ATCTCTACTTCTTTTCCAATTCCATTATTCCTTTATCTGTTAGGTCGAATTCTCATACTAC-CTC
521 ATCTCTACTTCTTTTCCAATTCCGTTATTCCTTTCTCTGTAAGGTCGAATTCTCATACT-CTCTC
*
19815663 CCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTAACTGACTATTACTGAAATA
585 CCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTGACTGACTATTACTGAAATA
*
19815728 CGTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAACTTTCTT
650 CGTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAATTTCTT
* * *
19815793 TTTGCTCTAGTAACAAGCTTCTGTTTTCGCTTTTCTTTCTCTTGGGGGCCGAATGTATGGTTGTT
715 TTAGCTCTACTAACAAGCTTCTGTTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTATGGTTGTT
* * *
19815858 TTCTAACAACTTTTGATATGCCGAATCATGTTAGCACTGGGGATTTGCCCTTGATCAGCAGTGAG
780 TTCTAACAACTTTTGATCTGCCGAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGCAGTGAG
*
19815923 GCGCTAGTATCTGTTAGATCTAGCTAGGT
845 GCGCTAGTATCTGTTAGATCTAGCAAGGT
*
19815952 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTTTTAAG
1 GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
* * *
19816017 GGAACTTGGATGTTAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGATACAGAGAGA-G
66 GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
19816081 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
131 GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
* *
19816146 TGCAAATGGGATTTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGGACTTTGTTGTTG
196 TGCAAATGGGATTTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGTTGTTG
*
19816211 GAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATTAGGGGAGAAAAT
261 GAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGAGAAAAT
* * *
19816276 CAAGGAGAGGGGGTGGAGATTTTCAAGGATTTTGAAGGCTTGAAAAGTTGTGCCGAAATAGATAT
326 CAAGGAGAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAAGTTGTGCCGAAATAGGTAT
* * *
19816341 ATCCGATGTGCCGGTGTGGTTTTATTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCTCTGC
391 ATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCTCTGC
* * * * *
19816406 TTAAAACTTCTTACTCATCTCTTCTTTAATCATCTTCTGCTATAGCCGACACTCTCTTTTACTTT
456 TTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTC-TTTACTTT
* *
19816471 CATCTCTACTTCTTTTCCAATTCCGTTATTCATTTCTCTGTGAGGTCGAATTCTCATACTCTCTC
520 CATCTCTACTTCTTTTCCAATTCCGTTATTCCTTTCTCTGTAAGGTCGAATTCTCATACTCTCTC
* *
19816536 CCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGCCCGAGTCTTCCTGACTGACTATTACTGAAATA
585 CCTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTGACTGACTATTACTGAAATA
* * * *
19816601 CGTTTATTTTTATCGTAAGGAGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAATTTGTT
650 CGTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAATTTCTT
* *
19816666 TTAGCTCTACTAATAAGCTTCTGTTTTCCCTTTTCTTTCTCTT-GGGGCCAAATGTATGGTTGTT
715 TTAGCTCTACTAACAAGCTTCTGTTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTATGGTTGTT
* *
19816730 TTCTAACAACTATTGATCTGCCGAATCATGTTAGCACGGGGGATTCGCCCTTGATCAGCAGTGAG
780 TTCTAACAACTTTTGATCTGCCGAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGCAGTGAG
*
19816795 GTGCTAGTATCTGTTAGATCTAGCAAGGT
845 GCGCTAGTATCTGTTAGATCTAGCAAGGT
19816824 GAGTG
1 GAGTG
19816829 TTTGTGGTTT
Statistics
Matches: 4987, Mismatches: 241, Indels: 57
0.94 0.05 0.01
Matches are distributed among these distances:
870 1 0.00
871 400 0.08
872 1389 0.28
873 521 0.10
874 141 0.03
875 272 0.05
876 288 0.06
877 525 0.11
878 457 0.09
879 983 0.20
880 1 0.00
881 2 0.00
882 4 0.00
883 1 0.00
884 2 0.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (873 bp):
GAGTGCTTGAGAAGCTTGGGCTCAAGTCTGGGCTTTGGCAAAATTTTAATTTTTGGGCTCTTAAG
GGAACTTGGATGATAGCTTACAGGATTTATAATTATTTGTGGTTGTTTTATGACACAAAGAGAGG
GGATGGTCTAGTGGCAAGGTGGCATGCTGTTTCTGGTAGGGGACTCGAGTTCGAGTCTCACTGTA
TGCAAATGGGATTTTTTTTTTCATGAGGAGGCAAGAGTTGGTGTTGGATTTGAACTCTGTTGTTG
GAGAGTTTGAATTGGTCTTGTGAGTTGGTTGTGGAGGATATCAAGGAAGGATAAGGGGAGAAAAT
CAAGGAGAGAGGGTGGAGATTTTCAAGGATTTTGAAGGTTTGAAAAGTTGTGCCGAAATAGGTAT
ATCCGAAGTGCCGGAGTGGTTTTCTTGGCTTGCACTTTTGTATGTTGCCGTTTGGTCTTCTCTGC
TTGAAATTTCGTACTCATCTCTTCTTTAATCATTTTCTGCTATAGCCGACCCTCTCTTTACTTTC
ATCTCTACTTCTTTTCCAATTCCGTTATTCCTTTCTCTGTAAGGTCGAATTCTCATACTCTCTCC
CTCTCAAATCTCTTTGTTCTTCTTGTTTCTGGCCGAATCTTCCTGACTGACTATTACTGAAATAC
GTTTGTTTTTATGGTAAGGGGGTGTTACAACCATTTTATTATTTCATTCTTAGTTAAATTTCTTT
TAGCTCTACTAACAAGCTTCTGTTTTCCCTTTTCTTTCTCTTGGGGGCCGAATGTATGGTTGTTT
TCTAACAACTTTTGATCTGCCGAATCATGTTAGCACAGGGGATTCGCCCTTGATCAGCAGTGAGG
CGCTAGTATCTGTTAGATCTAGCAAGGT
Found at i:19817329 original size:17 final size:18
Alignment explanation
Indices: 19817297--19817332 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19817287 GATGGGTCAA
19817297 AATGGGCTACGTGGGCCC
1 AATGGGCTACGTGGGCCC
*
19817315 AATGGGCT-TGTGGGCCC
1 AATGGGCTACGTGGGCCC
19817332 A
1 A
19817333 CACGAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.25, G:0.39, T:0.19
Consensus pattern (18 bp):
AATGGGCTACGTGGGCCC
Found at i:19817905 original size:27 final size:27
Alignment explanation
Indices: 19817573--19817915 Score: 280
Period size: 27 Copynumber: 12.7 Consensus size: 27
19817563 AAAATATCCA
* * *
19817573 TAATACCCCTGTAAGGTAAAATGATCG
1 TAATACCCCTATAGGGTAAAATGACCG
* * * *
19817600 -AAAAACCCTATAAGGTAAAATGACAG
1 TAATACCCCTATAGGGTAAAATGACCG
* *
19817626 TAGTGCCCCTATAGGGTAAAATGACCG
1 TAATACCCCTATAGGGTAAAATGACCG
* * *
19817653 TACTACCCCTGTAGGGTAAAATGACCA
1 TAATACCCCTATAGGGTAAAATGACCG
* * * *
19817680 AAAAACCGCC-ATAAGGTAAAATGATCG
1 TAATACC-CCTATAGGGTAAAATGACCG
* ** *
19817707 TAATGCCCCCGTAGGGTAAAATGGCCG
1 TAATACCCCTATAGGGTAAAATGACCG
* * **
19817734 TAATGCCCCTATAAGGTAAAATGATTG
1 TAATACCCCTATAGGGTAAAATGACCG
*
19817761 TAATACCCTTATAGGGTAAAATGACCG
1 TAATACCCCTATAGGGTAAAATGACCG
* * *
19817788 AAAAACTCCC-ATAGGGTAAAATGACCA
1 TAATAC-CCCTATAGGGTAAAATGACCG
* * *
19817815 TAATGCCCCTGTAAGGTAAAATGACCG
1 TAATACCCCTATAGGGTAAAATGACCG
*
19817842 TAATACCTCC-ATAGGGTTAAATGACCG
1 TAATACC-CCTATAGGGTAAAATGACCG
* * * *
19817869 AAATATCTCTATAAGGTAAAATGACCG
1 TAATACCCCTATAGGGTAAAATGACCG
* * *
19817896 TAATGCCTCTAGAGGGTAAA
1 TAATACCCCTATAGGGTAAA
19817916 TGAATATTTT
Statistics
Matches: 245, Mismatches: 64, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
26 27 0.11
27 212 0.87
28 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
TAATACCCCTATAGGGTAAAATGACCG
Found at i:19817986 original size:11 final size:11
Alignment explanation
Indices: 19817970--19818039 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
19817960 TGTAAATGGC
*
19817970 TGATTTGTTTG
1 TGATTTGTATG
**
19817981 TGATTTAAATG
1 TGATTTGTATG
*
19817992 ACTGATTTGTTTG
1 --TGATTTGTATG
*
19818005 TGATTGGTATG
1 TGATTTGTATG
*
19818016 ATTGATTTGTCTG
1 --TGATTTGTATG
19818029 TGATTTGTATG
1 TGATTTGTATG
19818040 ATTGATTCTG
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.53
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:19818038 original size:24 final size:24
Alignment explanation
Indices: 19817938--19818046 Score: 119
Period size: 24 Copynumber: 4.5 Consensus size: 24
19817928 CCCTCAAGTG
*
19817938 TAAATGATTGATTTGTCTGTGATG
1 TAAATGATTGATTTGTCTGTGATT
** *
19817962 TAAATGGCTGATTTGTTTGTGATT
1 TAAATGATTGATTTGTCTGTGATT
* *
19817986 TAAATGACTGATTTGTTTGTGATT
1 TAAATGATTGATTTGTCTGTGATT
***
19818010 GGTATGATTGATTTGTCTGTGATT
1 TAAATGATTGATTTGTCTGTGATT
**
19818034 TGTATGATTGATT
1 TAAATGATTGATT
19818047 CTGAGCATGG
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.22, C:0.04, G:0.25, T:0.50
Consensus pattern (24 bp):
TAAATGATTGATTTGTCTGTGATT
Found at i:19818155 original size:27 final size:27
Alignment explanation
Indices: 19818099--19818155 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
19818089 GGAAGTACTG
*
19818099 TACTGGTGGCTCTGCCACAATCACTGT
1 TACTGGTGGCTCTGCCACAATCACTAT
19818126 TACTGGTGGCT-TGGCCACATAT-ACTAT
1 TACTGGTGGCTCT-GCCACA-ATCACTAT
19818153 TAC
1 TAC
19818156 GGGCAGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 24 0.89
28 2 0.07
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACAATCACTAT
Found at i:19818217 original size:32 final size:32
Alignment explanation
Indices: 19818176--19818353 Score: 182
Period size: 32 Copynumber: 5.6 Consensus size: 32
19818166 GCTGCGATGC
19818176 TACTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
*
19818208 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* ** *
19818240 TACTGATGACTTTGTGCTGATCATATTACCAT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * ** ** * *
19818272 TATTGATGG-TTGTGTGTCGGTCATACCACTGC
1 TACTGATGGCTT-TGTGCCAATCATATTACCGT
*
19818304 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
*
19818335 TACTTATGG-TTTGTAGCCA
1 TACTGATGGCTTTGT-GCCA
19818354 TTTTGTTTAT
Statistics
Matches: 122, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
30 5 0.04
31 14 0.11
32 101 0.83
33 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATTACCGT
Found at i:19818279 original size:64 final size:64
Alignment explanation
Indices: 19818174--19818332 Score: 203
Period size: 64 Copynumber: 2.5 Consensus size: 64
19818164 TTGCTGCGAT
* **
19818174 GCTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTT-TGTGCCGATCATATTACC
1 GCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGG-TTGTGTGCCGATCATACCACC
* * ** * * * *
19818238 GTTACTGATGACTTTGTGCTGATCATATTACCATTATTGATGGTTGTGTGTCGGTCATACCACT
1 GCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGTGCCGATCATACCACC
19818302 GCTACTGATGGCTTTGTGCCAATCATATTAC
1 GCTACTGATGGCTTTGTGCCAATCATATTAC
19818333 TGTACTTATG
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
63 2 0.03
64 77 0.97
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (64 bp):
GCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGTGCCGATCATACCACC
Found at i:19821634 original size:23 final size:23
Alignment explanation
Indices: 19821608--19821654 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
19821598 AATTGAAAGT
19821608 AATCACCATCGTTTAGAAAAGAA
1 AATCACCATCGTTTAGAAAAGAA
19821631 AATCACCATCGTTTAGAAAAGAA
1 AATCACCATCGTTTAGAAAAGAA
19821654 A
1 A
19821655 TATAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (23 bp):
AATCACCATCGTTTAGAAAAGAA
Found at i:19826144 original size:27 final size:27
Alignment explanation
Indices: 19826114--19826213 Score: 173
Period size: 27 Copynumber: 3.7 Consensus size: 27
19826104 TACCCTCAGC
*
19826114 AGGGTAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTAT
19826141 AGGGTAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
*
19826168 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
*
19826195 AGGGTAAAATGATCGTAAT
1 AGGGTAAAATGACCGTAAT
19826214 ATCATTGTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTAT
Found at i:19826230 original size:54 final size:54
Alignment explanation
Indices: 19826118--19826248 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
19826108 CTCAGCAGGG
* * * * *
19826118 TAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGG
1 TAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCACTATAAGA
* * * * *
19826172 TAAAATGACCGTAATACCCCTATAGGGTAAAATGATCGTAATATCATTGTAAGA
1 TAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCACTATAAGA
*
19826226 TAAAATGACCATAATGCCCCTAT
1 TAAAATGACCGTAATGCCCCTAT
19826249 CGTGACATGA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (54 bp):
TAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCACTATAAGA
Found at i:19829971 original size:50 final size:50
Alignment explanation
Indices: 19829880--19830000 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 50
19829870 TTCTGTACTA
* * * ** *
19829880 CCAATGCCATATCCCAGATATGGTCTTACACGGGAGTTCTCATATCGGTG
1 CCAATACCATGTCCCAGACATGGTCTTACACGGGACCTCTCATATCAGTG
* * *
19829930 CCCATACCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCAGTG
1 CCAATACCATGTCCCAGACATGGTCTTACACG-GGACCTCTCATATCAGTG
** *
19829980 CCAATGTCATGTCCTAGACAT
1 CCAATACCATGTCCCAGACAT
19830001 ANNNNNNNNN
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
49 1 0.02
50 56 0.98
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
CCAATACCATGTCCCAGACATGGTCTTACACGGGACCTCTCATATCAGTG
Found at i:19832908 original size:89 final size:89
Alignment explanation
Indices: 19832754--19832931 Score: 320
Period size: 89 Copynumber: 2.0 Consensus size: 89
19832744 GAAGGACCAA
* *
19832754 ATTGTAAAGAAAGCAAAACTTTCTTTCTTTGTCTCTTTTTCTCACATTGGTGCATGGAAATATGG
1 ATTGTAAAGAAAGCAAAACTTTCTTTCTTTCTCTCTTTTTCTCACATTGGTGCATGGAAAAATGG
19832819 TGGGTTGCATGCTTATTCATCTTC
66 TGGGTTGCATGCTTATTCATCTTC
*
19832843 ATTGTAAAGAAAGCAAAACTTTCTTTCTTTCTCTCTTTTTCTCACGTTGGTGCATGGAAAAATGG
1 ATTGTAAAGAAAGCAAAACTTTCTTTCTTTCTCTCTTTTTCTCACATTGGTGCATGGAAAAATGG
*
19832908 TGGGTTGCATGCTTCTTCATCTTC
66 TGGGTTGCATGCTTATTCATCTTC
19832932 CTTTTCTTAT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (89 bp):
ATTGTAAAGAAAGCAAAACTTTCTTTCTTTCTCTCTTTTTCTCACATTGGTGCATGGAAAAATGG
TGGGTTGCATGCTTATTCATCTTC
Found at i:19845617 original size:83 final size:84
Alignment explanation
Indices: 19845478--19845643 Score: 289
Period size: 83 Copynumber: 2.0 Consensus size: 84
19845468 GAGGGAGTGT
* *
19845478 TGTGCAGGAAGTGGACTCTAGCACTTAAGAATTTCGGCTAGAGTGATACTCCTCATTTGGTATGC
1 TGTGCAGGAAGTGGACTCTAGCACTCAAGAATTTCGGCTAGAGTGATACTCCTCATTTAGTATGC
19845543 CTCATTCCAGGT-TTTTTC
66 CTCATTCCAGGTCTTTTTC
* *
19845561 TGTGCAGGAAGTGGACTCTGGCACTCAAGAATTTCGGCTAGAGTGGTACTCCTCATTTAGTATGC
1 TGTGCAGGAAGTGGACTCTAGCACTCAAGAATTTCGGCTAGAGTGATACTCCTCATTTAGTATGC
19845626 CTCATTCCAGGTCTTTTT
66 CTCATTCCAGGTCTTTTT
19845644 TCTTTCTTCT
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 73 0.94
84 5 0.06
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (84 bp):
TGTGCAGGAAGTGGACTCTAGCACTCAAGAATTTCGGCTAGAGTGATACTCCTCATTTAGTATGC
CTCATTCCAGGTCTTTTTC
Found at i:19850448 original size:661 final size:662
Alignment explanation
Indices: 19849158--19853409 Score: 5967
Period size: 662 Copynumber: 6.4 Consensus size: 662
19849148 ATTTCACAAA
* * * *
19849158 AAATAATGTTTAATCTTGATAAATAAGACTAAAAACCTTCAAATAGATCCATTTTGAGTTAGAAC
1 AAATCATGTTTAATCTTGGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGGAC
* * * * * *
19849223 ATCCATTGATTTTTGGATTTCCTCTCAAAATTCAAGATCAACCATTAAAACCCCTTATGCTTTTA
66 ATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCACCTTAAGCTTTTG
* *
19849288 AAGAATAAGACATTGAAAAAAT-ATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAAT
131 AAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAAT
* * ** * * *
19849352 CATCATAAAAATAAGTTTAGAAATGCTAATTACCTTTCATTTGTTCTAATTCCTTTGATTGATAA
196 CATCATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAA
* *
19849417 TATTGA-TCAAAAATCTTGAGAAATTTCAGAATATTTTTGTCTACTTTTGAGAATAATTCGTTCT
261 TATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGTTCT
* * * * * **
19849481 AATTCGGGTTATCCTGGTTCTCTTCAAGAGTCGAAGCTTCAAGAGAATTAAAGTAGACATTACCA
326 AATTCTGGTTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAACAGAGGTAAAGTAGACATTACCA
* *
19849546 CCTTTCCAAAGCTATATTAAACACAAATTATAATTAACTATACTAATCGAAATTCACTCACAATG
391 CCTTTCAAAAGCTATATTAAACACAAATTATAATTAACTATACTAATCGAAATTCACTCACAAAG
* * *
19849611 ATACTTTACC-GTATTTGTAACATCAAGTCGACAACTCGATTACTCATAAAATCGACCTCTCCAG
456 ATACTTTACCAG-ATTTGTAACATCAAGTCGAAAACTCGATTCCTCACAAAATCGACCTCTCCAG
* * * *
19849675 CCCTCTTAATCACTTCCAAACATAAATAATAAACCAATTACACATGAATTAAGTATAAATTTCAC
520 CCCTCCTAATCACTTCCAAACATCAATAATAAACCAATTACACATAAACTAAGTATAAATTTCAC
* * * *
19849740 ATTTAAATCAATTTCACAAAAAT-TCGAAAAGTTGATTCATAAAGATGTTGAAATTCAAATTTCT
585 ATTTAAATCAATTTCACAAAAATCT-GGAAAGTCGGTTCATGAAGATGTTGAAATTCAAATTTCT
19849804 TCAAATTACCAT-AC
649 TCAAATTACC-TCAC
* * * *
19849818 AAATCATGTCTAATCTTGGTAAATAAGACTTAAAACCTTCTAATAGATCAATTTTGAGTTAGAAC
1 AAATCATGTTTAATCTTGGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGGAC
** * *
19849883 ATCCATTGATTTGTGGATTTGGTCTCAAAATTTAAGATCCACCATTAAGGCACCTTAAGCTTTTG
66 ATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCACCTTAAGCTTTTG
*
19849948 AAGAATATGACAATGGA-AAAAT-ATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAA
131 AAGAATATGAC-ATTGATAAAATAATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAA
* *
19850011 TCATCATAAAAACAAGTTTAGAACTAATACTTACCTTTGATTCGTTCTAATTCCTTTGATTTAAA
195 TCATCATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAA
*
19850076 ATATTGATTCTAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGTTC
260 ATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGTTC
* * * * *
19850141 TAATTCTGGTTATCCTGGTCCTCTTCAA-ATCTCGAAGCTTTAACAAAGGTAAGGTAGACATTTC
325 TAATTCTGGTTATCCCGGTCCTCTTCAAGA-CTCGAAGCTTCAACAGAGGTAAAGTAGACATTAC
* *
19850205 CACCTTTCAAATGCTATATTAAACACAAATTGTAATTAACTATACTAATCGAAATTCACTCACAA
389 CACCTTTCAAAAGCTATATTAAACACAAATTATAATTAACTATACTAATCGAAATTCACTCACAA
* * * *
19850270 AGACACTTTACCAGATTTGTAACATCAAGTCGAAAACTCAATTCCTCAGAAAATCAACCTCTCC-
454 AGATACTTTACCAGATTTGTAACATCAAGTCGAAAACTCGATTCCTCACAAAATCGACCTCTCCA
* * * *
19850334 GACCCTCCTAATGACTTCCAAACATCAATACTAAACTAATTGCACATAAACTAAGTATAAATTTC
519 G-CCCTCCTAATCACTTCCAAACATCAATAATAAACCAATTACACATAAACTAAGTATAAATTTC
* * * * * *
19850399 ACATTTAAATCAATTTCACAACAATCTGGAAAGCCAGTTCATGAAGATGTTAAAATTCGAATTTA
583 ACATTTAAATCAATTTCACAAAAATCTGGAAAGTCGGTTCATGAAGATGTTGAAATTCAAATTTC
*
19850464 TTCAAATTACCTGAC
648 TTCAAATTACCTCAC
* * * * *
19850479 AAATCAAGTTTAATCTTGGAAAATATGACTAAAAACCTTCTAATATG-TCTATTTTAAGTTAGGA
1 AAATCATGTTTAATCTTGGTAAATAAGACTAAAAACCTTCTAATA-GATCCATTTTGAGTTAGGA
* * * *
19850543 CATCCATTGATTTGTGAATTTCCTCTCGAAATTCAAGATCCACCTTTAAAACACCTTAAGCTTTT
65 CATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCACCTTAAGCTTTT
*
19850608 GAAGAATATGACATTGATAAAATAATCATGTGATTGACTCTCAAATCATGTAAAAATATTTCTAA
130 GAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAA
*
19850673 TCATCATAAAAACAAGTTTAGAACAAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAA
195 TCATCATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAA
*
19850738 ATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGTTT
260 ATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGTTC
* * * * *
19850803 TATTTCTGGTTATCCCGGTCCTCTTTAATACACGAAGCTTCAACAGAGGTAAATTAGACATTACC
325 TAATTCTGGTTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAACAGAGGTAAAGTAGACATTACC
* * *
19850868 ACCTTTCAAATGCTATATTAAACACAAATTGTAATTAACTATACTAATCAAAATTCACTCACAAA
390 ACCTTTCAAAAGCTATATTAAACACAAATTATAATTAACTATACTAATCGAAATTCACTCACAAA
* ** * * * * * *
19850933 TATACTTTACTGGATTTGTAACATCAAGTTGAAAACTTGATTACACACAAAATTGACCTCTCCAT
455 GATACTTTACCAGATTTGTAACATCAAGTCGAAAACTCGATTCCTCACAAAATCGACCTCTCCAG
* *** * * * *
19850998 CCCTCCTAATGACTTTTGAACATCAATAATAAACCAATTACGCATAAATTAGGTATAAATTTCAT
520 CCCTCCTAATCACTTCCAAACATCAATAATAAACCAATTACACATAAACTAAGTATAAATTTCAC
* * * * *
19851063 ATCTAAATCAATTTCACAACAATTTGGAAAGTCAGCTCATGAAGATGTTGAAATTCAAATTTCTT
585 ATTTAAATCAATTTCACAAAAATCTGGAAAGTCGGTTCATGAAGATGTTGAAATTCAAATTTCTT
*
19851128 CAAATTACCTCAG
650 CAAATTACCTCAC
* * * * * *
19851141 AAATCATGTTTAATCTTGGTATATAAGACTAAAAACCTTCTAAAAGGTCGATTTTAAGTGAGGAC
1 AAATCATGTTTAATCTTGGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGGAC
* *
19851206 ATCCATTGATTT-TCGAATTTCCTCTCAAAATTCAAGATCCACCCTTAAAGCACCTTAAGCTTTT
66 ATCCATTGATTTGT-GGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCACCTTAAGCTTTT
*
19851270 GAAGAATATGACATTGATAAAATAATCATGTGATTGACTCTCAAATCATGTAAAAATATTTCTAA
130 GAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAA
* * * *
19851335 TCATCATAAAAACAAGTTCAAAACTAATAATTACCTTTGATTCGTTCTAATTCCCTTAATTGAAA
195 TCATCATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAA
* *
19851400 ATATTGATTTAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACCTTTGAGAATAATTCGTTC
260 ATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGTTC
* * *
19851465 TAATTCGGGTTATCCTGGTCCTCTTCAAGACTCAAAGCTTCAACAGAGGTAAAGTAGACATTACC
325 TAATTCTGGTTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAACAGAGGTAAAGTAGACATTACC
* *
19851530 ACCTTTCAAAAGCTATATTAAACACAAATTGTAATTAACTATACTAATTGAAATTCACTCACAAA
390 ACCTTTCAAAAGCTATATTAAACACAAATTATAATTAACTATACTAATCGAAATTCACTCACAAA
** * * * *
19851595 GATACTTTACTGGATTTGTAACATCAAGTTGAAAACTTGATTCCTCACAAAATTGGCCTCTCCAG
455 GATACTTTACCAGATTTGTAACATCAAGTCGAAAACTCGATTCCTCACAAAATCGACCTCTCCAG
* * *
19851660 CCCTCTTAATGACTTCCAAATATCAATAATAAACCAATTACACATAAA-TAAAGTATAAATTTCA
520 CCCTCCTAATCACTTCCAAACATCAATAATAAACCAATTACACATAAACT-AAGTATAAATTTCA
* * * *
19851724 TATTCAAATCAATTTCACAACAATCTGGAAAGTCGGTTCATGAAGATGTTGAAATTCGAATTTCT
584 CATTTAAATCAATTTCACAAAAATCTGGAAAGTCGGTTCATGAAGATGTTGAAATTCAAATTTCT
19851789 TCAAATTACCTCAC
649 TCAAATTACCTCAC
* * *
19851803 AAATCATGTTTAATCCTT-GTGAATAAGACTAAAAACCTTCTAATAGGTCCATTTTGAGTTAGGG
1 AAATCATGTTTAAT-CTTGGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGGA
* * * ** * *
19851867 CATTCATTGATTTGCGAATTTTTTCTCAAAATTCAAGA-CCTA-CACGTAAAGCACGTTAAGCTT
65 CATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCC-ACCA-TTAAAGCACCTTAAGCTT
* * ** *
19851930 TTGAAGAATATGTCATTGATAAAAGAATCATGTGGTTGACTCTCGAATCATGTAAAAATATTTCT
128 TTGAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCT
*
19851995 AATCATCATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAACTCCTTTGATTGA
193 AATCATCATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGA
* *
19852060 AAATATTAATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCTT
258 AAATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGT
* * * *
19852125 TCTAATTCTAGTTATCCCAGTCCTCTTCAAGAATCGAAGCTTCAACAGAGATAAAGTAGACATTA
323 TCTAATTCTGGTTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAACAGAGGTAAAGTAGACATTA
*
19852190 CCACCTTTCAAAAGCTATATTAAACACAAATTATTATTAACTATACTAATCGAAATTCACTCACA
388 CCACCTTTCAAAAGCTATATTAAACACAAATTATAATTAACTATACTAATCGAAATTCACTCACA
* *
19852255 AGGATACTTTACCAGATTTGTAACATCAAGTC-AACAACTCGATTCCTCACAAAATCGACCTCTG
453 AAGATACTTTACCAGATTTGTAACATCAAGTCGAA-AACTCGATTCCTCACAAAATCGACCTCTC
* * * *
19852319 CAACCCTTCTAATCACTTCCAAAAATCAATACTAAA-CATATTACACATAAACTAAGTATAAATT
517 CAGCCCTCCTAATCACTTCCAAACATCAATAATAAACCA-ATTACACATAAACTAAGTATAAATT
* * * * * *
19852383 TCACATTTAAATTAATTTCACAAAAATCTAGAATGTCGGTTCATAAAGATGCTGAAATTCGAATT
581 TCACATTTAAATCAATTTCACAAAAATCTGGAAAGTCGGTTCATGAAGATGTTGAAATTCAAATT
*
19852448 TATTCAAATTACCTCAC
646 TCTTCAAATTACCTCAC
* * * *
19852465 AAAACATATTTAATCTTGATAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGAAC
1 AAATCATGTTTAATCTTGGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGGAC
* *
19852530 ATCCATTGATTTGTGGATTTCCTCTCGAAATTCAAGATCCACCATTAAAGCAACTTAAGCTTTTG
66 ATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCACCTTAAGCTTTTG
* * *
19852595 AAGAATATGACATTGAGAAAATAATTATGTATTTGACTCTCAAATCATGTAAAAATATTTCTAAT
131 AAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAAT
* * *
19852660 CATCATAAAAA-AATGTTTAGAAATAATAATTACCTTTGACTCGTTCTGATTCCTTTGATTGAAA
196 CATCATAAAAACAA-GTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAA
* *
19852724 ATATTGATTTAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTAAGAATAACTT-GTT
260 ATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAA-TTCGTT
* ** *
19852788 CTAATTCTGGTTATCCCAGTCCTCTTCAAGACTCGAAGCTTTGACAGAGGTAAAGTAGGCATTAC
324 CTAATTCTGGTTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAACAGAGGTAAAGTAGACATTAC
* * * *
19852853 CACCTTTCAAAAGCTATATTAAACAAAAACTATAATTAACTATACTAATCAAAATGCACTCACAA
389 CACCTTTCAAAAGCTATATTAAACACAAATTATAATTAACTATACTAATCGAAATTCACTCACAA
* * * *
19852918 AGATACTTTACCAAATTTGTAA-ACTCAAGTCAAAAACTCGATTCCTCACAAAATCAACCACTCC
454 AGATACTTTACCAGATTTGTAACA-TCAAGTCGAAAACTCGATTCCTCACAAAATCGACCTCTCC
* * * * * *
19852982 AGCCCTCGTAATCACTTCCAAACATGAATACTAAACTAATTACACATAAACAAAGTATAAATTTA
518 AGCCCTCCTAATCACTTCCAAACATCAATAATAAACCAATTACACATAAACTAAGTATAAATTTC
* ** *
19853047 ACATTTAAATCAAGTTCACAAAAATCTTAAAAGTCGGTTCATGAAGATGTTAAAATTCAAATTTC
583 ACATTTAAATCAATTTCACAAAAATCTGGAAAGTCGGTTCATGAAGATGTTGAAATTCAAATTTC
*
19853112 TTCGAATTACCTCAC
648 TTCAAATTACCTCAC
* ** * *
19853127 AAATCAT-TCTTCATCTTGGTAAATAAGACTAAAAACCTTCTTGTAGGTCCATTATGAGTTAGGA
1 AAATCATGT-TTAATCTTGGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGGA
* * * *
19853191 CATCTATTTATTTCTGGATTTCCTCTCAAAATTCAAGATCCACCTTTAAAGCACCTTAAGCTTTT
65 CATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCACCTTAAGCTTTT
* * * *
19853256 GAAGAATATGACACTGATAAAATAATCATGTAATTAACTTTCAAATCTTGTAAAAATATTTCTAA
130 GAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAA
* * * ** * *
19853321 TCATCA-AAGAAATAGGTTTAGAAATAATAATTA-CTATTTTTTCATTCAAATTCCTTTGATTGA
195 TCATCATAA-AAACAAGTTTAGAACTAATAATTACCT-TTGATTCGTTCTAATTCCTTTGATTGA
19853384 AAATATTGATTCAAGAATCTTGAGAA
258 AAATATTGATTCAAGAATCTTGAGAA
19853410 NNNNNNNNNN
Statistics
Matches: 3222, Mismatches: 336, Indels: 66
0.89 0.09 0.02
Matches are distributed among these distances:
660 240 0.07
661 497 0.15
662 2470 0.77
663 15 0.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (662 bp):
AAATCATGTTTAATCTTGGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGGAC
ATCCATTGATTTGTGGATTTCCTCTCAAAATTCAAGATCCACCATTAAAGCACCTTAAGCTTTTG
AAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAATCATGTAAAAATATTTCTAAT
CATCATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAA
TATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGTTCT
AATTCTGGTTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAACAGAGGTAAAGTAGACATTACCA
CCTTTCAAAAGCTATATTAAACACAAATTATAATTAACTATACTAATCGAAATTCACTCACAAAG
ATACTTTACCAGATTTGTAACATCAAGTCGAAAACTCGATTCCTCACAAAATCGACCTCTCCAGC
CCTCCTAATCACTTCCAAACATCAATAATAAACCAATTACACATAAACTAAGTATAAATTTCACA
TTTAAATCAATTTCACAAAAATCTGGAAAGTCGGTTCATGAAGATGTTGAAATTCAAATTTCTTC
AAATTACCTCAC
Found at i:19866557 original size:662 final size:660
Alignment explanation
Indices: 19863514--19866675 Score: 4102
Period size: 662 Copynumber: 4.8 Consensus size: 660
19863504 NNNNNNNNNN
* * * * *
19863514 TAAAGCAACTTATGCTTTAGAAGAATATGACATTGAGAAAAT-ATCATGTAATTGACTCTCAGAT
1 TAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAAT
* *
19863578 CATGTACAAATATTTCTAATCATCATAACAAA-AA-TTTAGTAATAATAATTACCTTTGATTCAT
66 CATGTAAAAATATTTCTAATCATCATAA-AAACAAGTTTAG-AATAATAATTACCTTTGATTCGT
* * * *
19863641 TCTAATTGCTTTGATTGATAATATTAATTCAAGAATCTTGAGAAATTTTAGAATATTTTTGCCTA
129 TCTAATTCCTTTGATTGAAAATATTAATTCAAGAATCTTGAGAAATTTCA-AATATTTTTGTCTA
* * * * * *
19863706 CTTTTGAGAATAATTCGTTTTAATTCTAGTTATCCCGGTCCACTTCAAGACTCGAAGCTTTAAAA
193 CTTTTGAGAATAATTCGTTCTAATTCTGGTTATCTCGGTCCTCTTCAAGACTCGAAGCTTCAACA
* * * * *
19863771 GAGGTAAAGTAGATATTACCACATTT-ACAAAGCTATTTTAAACACAAATTATAATGAACTATAT
258 GAGGTAAAGTAGACATTACCACATTTCA-AAAGCTATATTAAACACAAATTGTAATTAACTATAC
** * *
19863835 TAATCGAAATTCACTCACAGGGATACTTTACAAGATTTGTAACATCAAGTCAAAAACTTGATTCC
322 TAATCGAAATTCACTCACAAAGATACTTTACCAGATTTGTAACATCAAGTCGAAAACTTGATTCC
* * *
19863900 TCGCAAAATCAACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACTAATTACAGA
387 TCACAAAATCGACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACTAATTACACA
* * * * * * *
19863965 TAAACAAAGTAGAAACTTCATATTTAAATCAATTACAAAAAAAACTGGAAAGTCTGTTCATGAAG
452 TAAACTAAGTATAAATTTCATATTTAAATCAATTTCACAAAAATCTGGAAAGTCAGTTCATGAAG
* * * *
19864030 ATGTTAAAATTTGAATTTCTTCAAATTACCTCACAAATCTTTTTTGATCTTGGTAAATAAGACTA
517 ATGTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTA
* * * * * * *
19864095 AAAACCTTCTAATGGGTCAATCTTGAGTTAGGACATCTATTTATTTGTGGATTTCCACTCACAAT
582 AAAACCTTCTAATAGGTCGATTTTGAGTTAGGACATCCATTGATTTGTGGATTTCCTCTCAAAAT
19864160 TCAAGATCCACCCT
647 TCAAGATCCACCCT
* * *
19864174 TAAAGCACCTTACGCTTTTGAAGAATATGACATTCATAAAATAATCATGTAATTGACTTTCAAAT
1 TAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAAT
* * **
19864239 CTTGTAAAAGTATTTCTAATCATCA-AAGAAACAAGTTTAGGAATAATAATTACCTTTTTTTCGT
66 CATGTAAAAATATTTCTAATCATCATAA-AAACAAGTTTA-GAATAATAATTACCTTTGATTCGT
* * *
19864303 TCAAATTCCTTTGATTTAAAATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTA
129 TCTAATTCCTTTGATTGAAAATATTAATTCAAGAATCTTGAGAAATTTC-AAATATTTTTGTCTA
* * * *
19864368 CTTTTGAGAATAATTCGTTCTAATTCTTGTAATCTCGGTCCTCTTCAAGACTTGAAGCTTTAACA
193 CTTTTGAGAATAATTCGTTCTAATTCTGGTTATCTCGGTCCTCTTCAAGACTCGAAGCTTCAACA
*
19864433 GAGGTAAAATAGACATTACCACATTTCAAAAGCTATATTAAACACAAATTGTAATTAACTATACT
258 GAGGTAAAGTAGACATTACCACATTTCAAAAGCTATATTAAACACAAATTGTAATTAACTATACT
* *
19864498 AATCGAAATTCACTCACAAAGATACTTTACCGGATTTGTAACACCAAGTCGAAAACTTGATTCCT
323 AATCGAAATTCACTCACAAAGATACTTTACCAGATTTGTAACATCAAGTCGAAAACTTGATTCCT
* * * *
19864563 CACAAAATTGACCTCTCCGGCCCTCCTAATGACTTCCAAACATCAATAAACATAAATAATAAACC
388 CACAAAATCGACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAAT--AC--------TAAACT
* * *
19864628 AATTACACATAAATTAAGTATAAATTTCATATTTAAATTAATTTCACAACAA-CATGGAAAGTC-
443 AATTACACATAAACTAAGTATAAATTTCATATTTAAATCAATTTCACAAAAATC-TGGAAAGTCA
* * * *
19864691 GTTTCCTGAAGATGTTGAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCCTCGT
507 G-TTCATGAAGATGTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGT
* * * ** *
19864756 AAATAAGACTGAAAACCTTCTAATAGATCCATTTTGAGTTATCACATCCATTGATTTGTGGACTT
571 AAATAAGACTAAAAACCTTCTAATAGGTCGATTTTGAGTTAGGACATCCATTGATTTGTGGATTT
* ***
19864821 CCTCTCAAAATTCAAGTTCCACTAG
636 CCTCTCAAAATTCAAGATCCACCCT
* * *
19864846 TAAAGCACCTTATGCTTTTAAAGAATATGACATTGATAAAAT-ATCATGTAATTAACTCTCAAAT
1 TAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAAT
* * * *
19864910 CATTTAAAAATATTTCTAATCATCATAAAAA-AATCTTTAGAAATAATAATTACCTTCGATTCAT
66 CATGTAAAAATATTTCTAATCATCATAAAAACAA-GTTTAG-AATAATAATTACCTTTGATTCGT
* * * * * * *
19864974 TCTAGTTCCTTTGATTGATAAT-GTATATTTAGGAATCTTGTGAAATTTCGGAATATTTTTGTCT
129 TCTAATTCCTTTGATTGAAAATATTA-ATTCAAGAATCTTGAGAAATTTC-AAATATTTTTGTCT
* * * * * * * * *
19865038 ACTATTGAGAATAATTGGTTCGAATTTTTGTTATCCCGGACCACTTCAAGATTCGAAGCTTCAA-
192 ACTTTTGAGAATAATTCGTTCTAATTCTGGTTATCTCGGTCCTCTTCAAGACTCGAAGCTTCAAC
* * * ** *
19865102 ATGAGATAAAGTTGACATTACCACCA-TT------CTATATTAAAAACTTATTATAATTAACTAT
257 A-GAGGTAAAGTAGACATTACCA-CATTTCAAAAGCTATATTAAACACAAATTGTAATTAACTAT
* * * *
19865160 ATTAATCGAAATTCACTCACAAGGATACTTTACCAGATTGGTAACAAT-AAGT-GAAAAACTCGA
320 ACTAATCGAAATTCACTCACAAAGATACTTTACCAGATTTGTAAC-ATCAAGTCG-AAAACTTGA
* * * * * *
19865223 TTCCTCACTAAATCAACCTCTCAAGCCCTTCTAATCACTTCCAAACATCAATACCACACTAATTA
383 TTCCTCACAAAATCGACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACTAATTA
*
19865288 CACATAAACTAAGTATAAATTTCACATTTAAATCAATTTCACAAAAATCTGGAAAGTCAGTTCAT
448 CACATAAACTAAGTATAAATTTCATATTTAAATCAATTTCACAAAAATCTGGAAAGTCAGTTCAT
* *
19865353 GAAGATGTTAAAATTCGAATTTCTTCAAATTACCTCACACATCATGTTTGATCTTGGTAAATAAG
513 GAAGATGTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAG
19865418 ACTAAAAACCTTCTAATAGGTCGATTTTGAGTTAGGACATCCATTGATTTGTGGATTTCCTCTCA
578 ACTAAAAACCTTCTAATAGGTCGATTTTGAGTTAGGACATCCATTGATTTGTGGATTTCCTCTCA
*
19865483 AAATTCAAGATCCACCCA
643 AAATTCAAGATCCACCCT
* * * * *
19865501 TAAAGCACGTTGAGCGTTTGAAGAATATGACATTAATAAAATAATCATGTGATTGACTCTCAAAT
1 TAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAAT
* *
19865566 C----------ATTTCTAATCATCATAAAAACAAGTTTAGAACTAATACTTACATTTGATTCGTT
66 CATGTAAAAATATTTCTAATCATCATAAAAACAAGTTTAGAA-TAATAATTACCTTTGATTCGTT
* *
19865621 CTAATTCCTTTGACTGAAAATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTAC
130 CTAATTCCTTTGATTGAAAATATTAATTCAAGAATCTTGAGAAATTTC-AAATATTTTTGTCTAC
* * * *
19865686 TTTTGAGAATAATTCGTTCTAATTCTGGTTATCTCGATGCTCTTCAAGACTCGAAGCTTCAATAA
194 TTTTGAGAATAATTCGTTCTAATTCTGGTTATCTCGGTCCTCTTCAAGACTCGAAGCTTCAACAG
* * * *
19865751 AGGTAAAGTAGACATTACCACATTTCAAAAGCGATTTTAAAGACAAATTGTAATTAGCTATACTA
259 AGGTAAAGTAGACATTACCACATTTCAAAAGCTATATTAAACACAAATTGTAATTAACTATACTA
19865816 ATCGAAATTCACTCACAAAGATACTTTACCAGATTTGTAACATCAAGTCGAAAACTTGATTCCTC
324 ATCGAAATTCACTCACAAAGATACTTTACCAGATTTGTAACATCAAGTCGAAAACTTGATTCCTC
* * * * * * *
19865881 GCAAAATTGACCTCTCCAGCCCT-CTGAATGATTTCCATACATCAATAATAAACCAATTACACAT
389 ACAAAATCGACCTCTCCAGCCCTCCT-AATCACTTCCAAACATCAATACTAAACTAATTACACAT
* ** * * * * *
19865945 AAATTTTGTTTAAATTTCATATTTAAATCAATTTTACAACAATCTAGAAAGTCGGTTCATGAAGA
453 AAACTAAGTATAAATTTCATATTTAAATCAATTTCACAAAAATCTGGAAAGTCAGTTCATGAAGA
* * * *
19866010 TGTTGAAATTCGAATTTCTTCAATTTACCTCACAAATCATGTTTAATCTTGGTAAATAAAACTGA
518 TGTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAA
* *
19866075 AAACCTTCTAATAGGTCGATTTTGAGTTAGGACATACATTGATTTGTGGATTTCTTCTCAAAATT
583 AAACCTTCTAATAGGTCGATTTTGAGTTAGGACATCCATTGATTTGTGGATTTCCTCTCAAAATT
19866140 CAAGATCCACCCT
648 CAAGATCCACCCT
* * *
19866153 TAAAGCACCTTAAGCTTTTGAAGAATATGGCATTGAGAAAATAATCATGTGATTGACTCTCAAAT
1 TAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAAT
*
19866218 CATGTAAAAATATTTCTAATCATCATAAAAACAAGTTTAGAACTAATAACTACCTTTGATTCGTT
66 CATGTAAAAATATTTCTAATCATCATAAAAACAAGTTTAGAA-TAATAATTACCTTTGATTCGTT
* *
19866283 CTAATTCCTTTGATTGAAAATATTAATTCAACAATCTTTAGAAATTTCAAATTATTTTTGTCTAC
130 CTAATTCCTTTGATTGAAAATATTAATTCAAGAATCTTGAGAAATTTCAAA-TATTTTTGTCTAC
*
19866348 TTTTGAGAATAATTCGTTCTAATTCTGGTTATCTCGGTCCTCTTCAAGACTCGAAGCATCAACAG
194 TTTTGAGAATAATTCGTTCTAATTCTGGTTATCTCGGTCCTCTTCAAGACTCGAAGCTTCAACAG
* *
19866413 AGGTAATGTAGACATTACCATC-TTTCAAAAGCTATATTAAACACAAAGTGTAATTAACTATACT
259 AGGTAAAGTAGACATTACCA-CATTTCAAAAGCTATATTAAACACAAATTGTAATTAACTATACT
* * * * *
19866477 AATTGAAATTCACTCACAAAGATACTTTACCGGATTTGTAGCATCAAGTTGAAAACATGATTCCT
323 AATCGAAATTCACTCACAAAGATACTTTACCAGATTTGTAACATCAAGTCGAAAACTTGATTCCT
* * * * *
19866542 CACAAAACCGACCTCTCTAGCCCTCCTAATCACATCCAAACATCAGTACTAAACTTATTACACAT
388 CACAAAATCGACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACTAATTACACAT
* * * *
19866607 AAACTAAGTATAAATTTCACATTTAAATCAATTTCAAAAAAATATGGAAGGTCAGTTCATGAAGA
453 AAACTAAGTATAAATTTCATATTTAAATCAATTTCACAAAAATCTGGAAAGTCAGTTCATGAAGA
19866672 TGTT
518 TGTT
19866676 TGTAATAACA
Statistics
Matches: 2158, Mismatches: 288, Indels: 110
0.84 0.11 0.04
Matches are distributed among these distances:
645 4 0.00
646 167 0.08
647 4 0.00
651 4 0.00
652 382 0.18
653 1 0.00
655 233 0.11
656 23 0.01
660 42 0.02
661 47 0.02
662 687 0.32
663 8 0.00
664 3 0.00
665 124 0.06
666 1 0.00
670 5 0.00
671 194 0.09
672 229 0.11
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (660 bp):
TAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTAATTGACTCTCAAAT
CATGTAAAAATATTTCTAATCATCATAAAAACAAGTTTAGAATAATAATTACCTTTGATTCGTTC
TAATTCCTTTGATTGAAAATATTAATTCAAGAATCTTGAGAAATTTCAAATATTTTTGTCTACTT
TTGAGAATAATTCGTTCTAATTCTGGTTATCTCGGTCCTCTTCAAGACTCGAAGCTTCAACAGAG
GTAAAGTAGACATTACCACATTTCAAAAGCTATATTAAACACAAATTGTAATTAACTATACTAAT
CGAAATTCACTCACAAAGATACTTTACCAGATTTGTAACATCAAGTCGAAAACTTGATTCCTCAC
AAAATCGACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACTAATTACACATAAA
CTAAGTATAAATTTCATATTTAAATCAATTTCACAAAAATCTGGAAAGTCAGTTCATGAAGATGT
TAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAAAAA
CCTTCTAATAGGTCGATTTTGAGTTAGGACATCCATTGATTTGTGGATTTCCTCTCAAAATTCAA
GATCCACCCT
Found at i:19868141 original size:18 final size:17
Alignment explanation
Indices: 19868082--19868141 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 17
19868072 AGTTATTTGT
19868082 CTATTAATTTATGTTTA
1 CTATTAATTTATGTTTA
* *
19868099 CATATTGTATTT-TTTATTA
1 C-TATT-AATTTATGT-TTA
19868118 TCTATTAATTTATGTTTA
1 -CTATTAATTTATGTTTA
19868136 CGTATT
1 C-TATT
19868142 TTTTATTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
17 2 0.06
18 17 0.52
19 13 0.39
20 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (17 bp):
CTATTAATTTATGTTTA
Found at i:19868141 original size:32 final size:33
Alignment explanation
Indices: 19868081--19868152 Score: 101
Period size: 37 Copynumber: 2.1 Consensus size: 33
19868071 CAGTTATTTG
19868081 TCTATTAATTTATGTTTACATATTGTATTTTTTATTA
1 TCTATTAATTTATGTTTAC----TGTATTTTTTATTA
19868118 TCTATTAATTTATGTTTAC-GTATTTTTTATTA
1 TCTATTAATTTATGTTTACTGTATTTTTTATTA
19868150 TCT
1 TCT
19868153 TGTCCATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
32 16 0.46
37 19 0.54
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.62
Consensus pattern (33 bp):
TCTATTAATTTATGTTTACTGTATTTTTTATTA
Found at i:19868547 original size:97 final size:98
Alignment explanation
Indices: 19868433--19868624 Score: 341
Period size: 97 Copynumber: 2.0 Consensus size: 98
19868423 TTAAATCATG
*
19868433 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTG-GTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGATTTCTT
*
19868497 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTCTAAAGTA
* *
19868530 AAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGATTTCTT
19868595 AAATCTTGGATAAGTGGATGTTCTTCTAAA
66 AAATCTTGGATAAGTGGATGTTCTTCTAAA
19868625 ATTTTATTGT
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 49 0.54
98 41 0.46
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGAGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTCTAAAGTA
Found at i:19869991 original size:393 final size:385
Alignment explanation
Indices: 19869263--19870033 Score: 1029
Period size: 393 Copynumber: 2.0 Consensus size: 385
19869253 ATATTTCTAA
* * *
19869263 TCATAATAAAAAAATATTTAGAAATAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGATA
1 TCATAATAAAAAAATATTTAGAAATAATAACTACCTTTGATTCATTCTAATTCCTTTGATTGAAA
* * * * *
19869328 ATATTTATTTAGGAATCTTGAGAAATTTCAGAATATTTTTGTCTACTGTTGAGAATAATTCGTTC
66 ATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTGTTAAGAATAATTCGTTC
* * * **
19869393 CAATTTTGGTTAGCCCGGTCCACTTTAAGACTCGAAGCTTCAAAAGAGATAAATAGATGTTACCA
131 CAATTCTGGTTAGCACGGTCCACTTCAAGACTCGAAGCTTCAAAAGAGATAAATAGACATTACCA
* * ** * * * *
19869458 CCTGTCTATATTAAAAACAAATTATAATTAACTATATTAATTGAACTTCACTCCCGAGGATACTT
196 CCTCTCTATATTAAAAACAAATTATAATTAACTATACTAATCAAAATTCACTCACAAAGATACTT
* *
19869523 TACCGAATTTGGAACATCAAGTTAAAAACTCGATTCCTCACAAAATCAACCTCTCCAGCCCTCCT
261 TACCGAATTTGGAACATCAAGTCAAAAACTCGATTCCTCACAAAATCAACCTCTCCAACCCTCCT
* *
19869588 AATCACTTCCAAACATCAATACGAAACTAATTACACATAAACTAAGTATAAATTTCACAT
326 AATCACTTCCAAACATCAATAAGAAACCAATTACACATAAACTAAGTATAAATTTCACAT
* * * *
19869648 TCATCATAAAAACATGTTTAGAACTAATAACTACCTTTGATTCATTCTAATTCCTTTGATTGAAA
1 TCATAATAAAAAAATATTTAGAAATAATAACTACCTTTGATTCATTCTAATTCCTTTGATTGAAA
*
19869713 ATATTGATTCAAGAATCTTGAGAAATTTCAAAAATATTTTTGTCTACTTTTAAGAATAATTCGTT
66 ATATTGATTCAAGAATCTTGAGAAATTTC-AAAATATTTTTGTCTACTGTTAAGAATAATTCGTT
* * * * * *
19869778 CTAATTCTGGTTATCACGGTTCTCTTCAAGACTCGAAGCTTCAACAGAGGTAAAGTAGACATTAC
130 CCAATTCTGGTTAGCACGGTCCACTTCAAGACTCGAAGCTTCAAAAGAGATAAA-TAGACATTAC
* * *
19869843 CACCTCTCAAAAGCTATATTAAACACAAATTGTAATTAACTATACTAATCAAAATTTACTCACAA
194 CACCTCT------CTATATTAAAAACAAATTATAATTAACTATACTAATCAAAATTCACTCACAA
* * * * **
19869908 AGATACTTTACCGGATTTGTAACATCAAGTCGAAAACTTGATTCCTCACAAAATTGACCTCTCCA
253 AGATACTTTACCGAATTTGGAACATCAAGTCAAAAACTCGATTCCTCACAAAATCAACCTCTCCA
* * * *
19869973 ACCCTCCTAATGACTTCCAAACTTCAATAATAAACCAATTACACATAAATTAAGTATAAAT
318 ACCCTCCTAATCACTTCCAAACATCAATAAGAAACCAATTACACATAAACTAAGTATAAAT
19870034 GTCATATTTA
Statistics
Matches: 329, Mismatches: 49, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
385 84 0.26
386 77 0.23
387 14 0.04
393 154 0.47
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (385 bp):
TCATAATAAAAAAATATTTAGAAATAATAACTACCTTTGATTCATTCTAATTCCTTTGATTGAAA
ATATTGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTGTTAAGAATAATTCGTTC
CAATTCTGGTTAGCACGGTCCACTTCAAGACTCGAAGCTTCAAAAGAGATAAATAGACATTACCA
CCTCTCTATATTAAAAACAAATTATAATTAACTATACTAATCAAAATTCACTCACAAAGATACTT
TACCGAATTTGGAACATCAAGTCAAAAACTCGATTCCTCACAAAATCAACCTCTCCAACCCTCCT
AATCACTTCCAAACATCAATAAGAAACCAATTACACATAAACTAAGTATAAATTTCACAT
Found at i:19871047 original size:589 final size:589
Alignment explanation
Indices: 19869911--19871071 Score: 1543
Period size: 589 Copynumber: 2.0 Consensus size: 589
19869901 CTCACAAAGA
* * * * **
19869911 TACTTTACCGGATTTGTAACATCAAGTCGAAAACTTGATTCCTCACAAAATTGACCTCTCCAACC
1 TACTTTACCGGATTTGGAACATCAAGTCAAAAACTCGAATCCTCACAAAATCAACCTCTCCAACC
* ** ** * *
19869976 CTCCTAATGACTTCCAAACTTCAATAATAAACCAATTACACATAAATTAAGTATAAATGTCATAT
66 CTCCTAATCACTTCCAAACACCAATAATAAACCAATTACACATAAACCAAATATAAATGTCACAT
* * * *
19870041 TTAAATCAATTTCACAACAATCTTGAAAGTCGGTTCATGAAGATGTTGAAATTCGAATTTCTTAA
131 TTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGATGTTAAAATTCGAATTTCATAA
* * * *
19870106 AATTACCTCACAAATCAGGTTTAATGTTGGTAAATAAAATTGAAAACCTTCTAATAGATCCATTT
196 AATTACCTCACAAATCAGGTTTAATCTTGGTAAATAAAACTAAAAACCTTCTAAAAGAT-CATTT
* ** *
19870171 TGAGTTAGAACATCCATTGATTTGTTGATTTCATCTCAAAATTCAAGTTCCACCTTTAAATAACA
260 TGAGTTAGAACATCCATTGATTTGTGGATTTCA-CT----ATTCAAAATCCACATTTAAATAACA
* * * *
19870236 TTTTACTTTTAAAGAATATGACATTGATAAAATATCATGTAATTGACCCTCAAATCATGTAAAAA
320 CTTAACTTTTAAAGAATATGACATTGATAAAATATCATGTAATTAACCATCAAATCATGTAAAAA
* * * *
19870301 TATTTCTAATCATCATAAAAAAACTTTTGGAAATAATAATTACCTTTGATTCGTTCTAATTCCTT
385 TATTTCTAATCATCAGAAAAAAAC-TTTAGAAATAATAATTACCTTTCATTCGTTCTAAGTCCTT
* *
19870366 TGATTGATAATATTTATTTAGTAATCTTAAGAAATTTCAGAAAATTTTTGTCTACTATTGAGAAT
449 TGATTGAAAATATTGATTTAGTAATCTTAAGAAATTTCAGAAAATTTTTGTCTACTATTGAGAAT
* ** *
19870431 AATTCGTTCAAATTTTGGTTTTCCCGGTCCTCTTCAAGACTCGAAGCTTCAAAAGATTGAAGTTC
514 AATTCGTTCAAATTCTAATTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAAAAGATTGAAGTTC
19870496 ACACACAAGGT
579 ACACACAAGGT
*
19870507 TACTTTACCGGATTTGGAACATCAAGTCAAAAACTCGAATCCTCACAAAATCAACCTCTCCAGCC
1 TACTTTACCGGATTTGGAACATCAAGTCAAAAACTCGAATCCTCACAAAATCAACCTCTCCAACC
* * *
19870572 C-CCTTAATCACTTCCAAACACCAATACA-AAACTAATTAGACATAAACCAAATATAAATTTCAC
66 CTCC-TAATCACTTCCAAACACCAATA-ATAAACCAATTACACATAAACCAAATATAAATGTCAC
* *
19870635 ATTTAAATTAATTTCATAA-AATCTGGAAAGTCAGTTCATGAAGATGTTAAAATTCGAATTTCAT
129 ATTTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGATGTTAAAATTCGAATTTCAT
* * *
19870699 CAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAAAAACCTTCTAACAAGTAT-A
194 AAAATTACCTCACAAATCAGGTTTAATCTTGGTAAATAAAACTAAAAACCTTCTAA-AAG-ATCA
* *
19870763 TTTTTAGTTAGGACATCCATTGATTTGTGGATTTC-CT-TTCAAAATCCACATTTAAAGT-AC-C
257 TTTTGAGTTAGAACATCCATTGATTTGTGGATTTCACTATTCAAAATCCACATTTAAA-TAACAC
* * * *
19870824 TTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTGATTAACTATCAAATCATTTAAAA
321 TTAA-CTTTTAAAGAATATGACATTGATAAAAT-ATCATGTAATTAACCATCAAATCATGTAAAA
* *
19870889 ATATTTCTAATCATCAGAAAAACAAGC-TTAGAATTAATAATTACCTTTCATTCGTTCTAAGTCG
384 ATATTTCTAATCATCAGAAAAA-AA-CTTTAGAAATAATAATTACCTTTCATTCGTTCTAAGTCC
* *
19870953 TTTGATTGAAAATATTGATTTAAG-AATCTTGAGAAATTTCA-AAATATTTTTGTCTACTTTTGA
447 TTTGATTGAAAATATTGATTT-AGTAATCTTAAGAAATTTCAGAAA-ATTTTTGTCTACTATTGA
* *
19871016 GAATAATTCGTTCTAATTCTAATTATCCCGGTCCTCTTCAAGACTTGAAGCTTCAA
510 GAATAATTCGTTCAAATTCTAATTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAA
19871072 CAGGGGTAAA
Statistics
Matches: 494, Mismatches: 60, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
587 3 0.01
588 48 0.10
589 182 0.37
590 4 0.01
591 1 0.00
593 2 0.00
595 126 0.26
596 125 0.25
597 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (589 bp):
TACTTTACCGGATTTGGAACATCAAGTCAAAAACTCGAATCCTCACAAAATCAACCTCTCCAACC
CTCCTAATCACTTCCAAACACCAATAATAAACCAATTACACATAAACCAAATATAAATGTCACAT
TTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGATGTTAAAATTCGAATTTCATAA
AATTACCTCACAAATCAGGTTTAATCTTGGTAAATAAAACTAAAAACCTTCTAAAAGATCATTTT
GAGTTAGAACATCCATTGATTTGTGGATTTCACTATTCAAAATCCACATTTAAATAACACTTAAC
TTTTAAAGAATATGACATTGATAAAATATCATGTAATTAACCATCAAATCATGTAAAAATATTTC
TAATCATCAGAAAAAAACTTTAGAAATAATAATTACCTTTCATTCGTTCTAAGTCCTTTGATTGA
AAATATTGATTTAGTAATCTTAAGAAATTTCAGAAAATTTTTGTCTACTATTGAGAATAATTCGT
TCAAATTCTAATTATCCCGGTCCTCTTCAAGACTCGAAGCTTCAAAAGATTGAAGTTCACACACA
AGGT
Found at i:19871767 original size:655 final size:654
Alignment explanation
Indices: 19870486--19874263 Score: 4512
Period size: 655 Copynumber: 5.8 Consensus size: 654
19870476 GCTTCAAAAG
* * * * *
19870486 ATTGAAGTTCACACACAAGGTTACTTTACCGGATTTGGAACATCAAGTCAAAAACTCGAATCCTC
1 ATTGAAATTCACTCACAAGGATACTTTACCGGATTTGTAACATCAAGTCAAAAACTCGATTCCTC
* * * *
19870551 ACAAAATCAACCTCTCCAGCCC-CCTTAATCACTTCCAAACACCAATACAAAACTAATTAGACAT
66 ACAAAATCAACCTCTCCAGCCCTCC-TAATCACTTCCAAACATCAATACTAAACCAATTACACAT
* * * *
19870615 AAACCAAATATAAATTTCACATTTAAATTAATTTCATAA-AATCTGGAAAGTCAGTTCATGAAGA
130 AAACTAAGTATAAATTTCACATTTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGA
*
19870679 TGTTAAAATTCGAATTTCATCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAA
195 TGTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAA
* * * *
19870744 AAACCTTCTAACAAGTAT--ATTTTTAGTTAGGACATCCATTGATTTGTGGATTTCCTTTC---A
260 AAACCTTCTAA-TAG-ATCCATTTTGAGTTAGAACATCCATTGATTTGTGGATTTCCTCTCAAAA
*
19870804 -A-AA--TCCA-CATTTAAAGTACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATG
323 TACAAGTTCCACCA-TTAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATG
* ** * * * * *
19870864 TGATTAACTATCAAATCATTTAAAAATATTTCTAATCATCAGAAAAACAAGCTTAGAATTAATAA
387 TGATTGACCCTCAAATCATGTAAAAATATTTCTAATCATCATAAAAAAAAGTTTAGAACTAATAA
* *
19870929 TTACCTTTCATTCGTTCTAAGTCGTTTGATTGAAAATATTGATTTAAGAATCTTGAGAAATTTCA
452 TTACCTTTCATTCGTTCTAATTCCTTTGATTGAAAATATTGATTT-AGAATCTTGAGAAATTTCA
** *
19870994 AAATATTTTTGTCTACTTTTGAGAATAATTCGTTCTAATTCTAATTATCCCGGTCCTCTTCAAGA
516 AAATATTTTTGTCTACTTTTGAGAATAATTCGTTCTAATTCTGGTTATCCCGGTCCACTTCAAGA
* * * * * * * *
19871059 CTTGAAGCTTCAACAGGGGTAAAGTATACTTTACCATCTTTCAAAAGCTATATTAAACACAAATT
581 CTCGAAGCATCAAAAGAGGTAAAGTAGACATTACCACCTTT------CTATATTAAAAACAAATT
19871124 GAAATTAACTATACTA
640 -AAATTAACTATACTA
* * * * * *
19871140 ATCGAAATTCACTCACAAAGATACTTTACCAGATTTGTAACATCAAGTCGAAAACTTGGTTCCTC
1 ATTGAAATTCACTCACAAGGATACTTTACCGGATTTGTAACATCAAGTCAAAAACTCGATTCCTC
** * * *
19871205 ACAAAATTGACCTCTCCAACCCTCCTAATGACTTCCAAACATCAATAGTAAACCAATTACACATA
66 ACAAAATCAACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACCAATTACACATA
* * **
19871270 AATTAAGTATAAATTTCATATTTAAATCAATTTCACAACAATCTGGAAAGTTGGTTCATGAAGAT
131 AACTAAGTATAAATTTCACATTTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGAT
* * *
19871335 GTTGAAATTCAAATTTCTTCAAATTACCTCACAAATCATGTTTAAACTTGGTAAATAAGACTAAA
196 GTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAAA
* * *
19871400 AACCTACTAATAGATCCATTTTGAGTTCGAACATCCATTGATTTGTTGATTTCCTCTCAAAATAC
261 AACCTTCTAATAGATCCATTTTGAGTTAGAACATCCATTGATTTGTGGATTTCCTCTCAAAATAC
* *
19871465 AAGTTCCACCATTAAAGCACCTTATGCTTTT-AATGAATATGACATTGATAAAAT-ATCATGTAA
326 AAGTTCCACCATTAAAGCACCTTAAGCTTTTGAA-GAATATGACATTGATAAAATAATCATGTGA
* *
19871528 TTGACCCTCAAATCATGTAAAAACT-TTTCTAATCATCA-ACAAAAAAACTTTAGAAATAATAAT
390 TTGACCCTCAAATCATGTAAAAA-TATTTCTAATCATCATA-AAAAAAAGTTTAGAACTAATAAT
* * * *
19871591 TACCTTTCATTCGTTCTAATTCCTCTGATTGATAATATTTATTTAGTCATCTTGAGAAATTTCAG
453 TACCTTTCATTCGTTCTAATTCCTTTGATTGAAAATATTGATTTAG-AATCTTGAGAAATTTCA-
** * * * *
19871656 AAA-ATTTTTGTCTACTACTGAGAATAATTCGTTCTAATTTTGGTTATCTCAGTCCACTTCCAGA
516 AAATATTTTTGTCTACTTTTGAGAATAATTCGTTCTAATTCTGGTTATCCCGGTCCACTTCAAGA
* * *
19871720 CTCGAAGCATCAAAAGAGATAAAGTAGACGTTGCCACCTTTCTATATTAAAAACAAATTAGAATT
581 CTCGAAGCATCAAAAGAGGTAAAGTAGACATTACCACCTTTCTATATTAAAAACAAATTA-AATT
*
19871785 AACTATATTA
645 AACTATACTA
* *
19871795 ATTGAAATTCTCTCACAAGGATACTTTACCGGATTTGGAACATCAAGTCAAAAACTCGATTCCTC
1 ATTGAAATTCACTCACAAGGATACTTTACCGGATTTGTAACATCAAGTCAAAAACTCGATTCCTC
* * * *
19871860 ACAAAATCAACCTCTCCAGCCCACCTAATCACTTCCAAAAATCAATACTAAACTAATTACACATT
66 ACAAAATCAACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACCAATTACACATA
* * * *
19871925 AACTAAGTATAAATTTCACATTTAAATCAATTTCACAAAAATCTAGAGAGTCAATTCATGAAGAT
131 AACTAAGTATAAATTTCACATTTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGAT
** * * **
19871990 GTTAAAATTTTAATTTCTTCAAATTACCTCACAAATCATGTTTGATGTAAGTAAATAAGACTAAA
196 GTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAAA
* * * *
19872055 AACCTTCTAATAGGTCGATTTTGAGTTAGGACATCCATTGATTTGTCGATTTCCTCTCAAAATTA
261 AACCTTCTAATAGATCCATTTTGAGTTAGAACATCCATTGATTTGTGGATTTCCTCTCAAAA-TA
* * * *
19872120 -AA-TATCCACCCTTAAACCACCTTAAGCTTTTGAAGAGTATGACGTTGATAAAATAATCATGTG
325 CAAGT-TCCACCATTAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTG
* ** *
19872183 ATTGACTCTCAAATCATGTAAAAATATTTCTAATCATCATAAAAACTAGTTTAGAGCTAATAATT
389 ATTGACCCTCAAATCATGTAAAAATATTTCTAATCATCATAAAAAAAAGTTTAGAACTAATAATT
* * *
19872248 ACCTTTGATTCATTCTAATTCCTTTGATTGAAAATATTGATTCAAGAATCTTGAGAAATTTCAAA
454 ACCTTTCATTCGTTCTAATTCCTTTGATTGAAAATATTGATT-TAGAATCTTGAGAAATTTCAAA
* * * * *
19872313 ATATTTTTGTCTACTTTTGAGAATAATTCATTCTAATTCTGGTTAGCCCGATTCGCTTCAAGACT
518 ATATTTTTGTCTACTTTTGAGAATAATTCGTTCTAATTCTGGTTATCCCGGTCCACTTCAAGACT
* * * *
19872378 CGAAG-ATTCAATAGTGGTAAAGTAGACATTACCACCTTTC------AAAAGC----TATATTAA
583 CGAAGCA-TCAAAAGAGGTAAAGTAGACATTACCACCTTTCTATATTAAAAACAAATTAAATTAA
* *
19872432 --ACACAA
647 CTATACTA
* * * ** * *
19872438 ATTGTAATTCACT-------ATAC-TAATC-GAAAT-TAACATCAAGTCGAAAACAT-GATTCCA
1 ATTGAAATTCACTCACAAGGATACTTTACCGGATTTGTAACATCAAGTCAAAAAC-TCGATTCCT
** ** * *
19872492 CACAAAATTGACAACTCCAG-CCTCCTAATGACTTCCAAACATCAATAATAAACCAATTACACAT
65 CACAAAATCAACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACCAATTACACAT
* * * ** * * *
19872556 AAATTAGGTACAAATTTCTTATTTAAATCAATTTCACAACAATATGGAAAGTCGGTTCAAGAAGA
130 AAACTAAGTATAAATTTCACATTTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGA
* * * * * ** * * * *
19872621 TGTTGAAATTCAAATTTTTTGAATTTATGTCACAAATCTTGTTTAATCTTCGTAAATAAGGCTGA
195 TGTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAA
* *
19872686 AAACCTTCTAATAGATCCATTTTGAGTTAGAACATCTATTGATTTGTGGATTTCCTCTCAAAATT
260 AAACCTTCTAATAGATCCATTTTGAGTTAGAACATCCATTGATTTGTGGATTTCCTCTCAAAATA
* * * *
19872751 CAAGTTCCACCACTAAAGCACCTTATGCTTTT-AAGGAATATGACATTGATAAAAT-ATCATATA
325 CAAGTTCCACCATTAAAGCACCTTAAGCTTTTGAA-GAATATGACATTGATAAAATAATCATGTG
* * * *
19872814 ATTGCCCCTCAAATCATGTAAAACTATTTCTAATCGTCATAAAAACAAGTTTAGAACTAATAATT
389 ATTGACCCTCAAATCATGTAAAAATATTTCTAATCATCATAAAAAAAAGTTTAGAACTAATAATT
* * * * *
19872879 ACTTTTGATTCGTTCTAATTCCTTTGATTGATAATATTGATTCATGAATCTTGAGAAAGTTCAAA
454 ACCTTTCATTCGTTCTAATTCCTTTGATTGAAAATATTGATTTA-GAATCTTGAGAAATTTCAAA
* * * **
19872944 ATATTTTTATCCACTTTTGACAATAATTCGTTCTAATTCTGGTTATCCCGGTCCTTTTCAAGACT
518 ATATTTTTGTCTACTTTTGAGAATAATTCGTTCTAATTCTGGTTATCCCGGTCCACTTCAAGACT
* * * * * * * *
19873009 TGAAGCTTCAACATAGGGAAAGTAGACATTACCACCTTCTAAAAGCTATATTGAACACAAATTTT
583 CGAAGCATCAAAAGAGGTAAAGTAGACATTACCACCTT-T-----CTATATTAAAAACAAA-TTA
19873074 AATTAACTATACTA
641 AATTAACTATACTA
* * * *
19873088 ATCGAAATTCACTCACAAAGATACTGTACCGGATTTGTAACATCATGTCAAAAACAT-GATTCCT
1 ATTGAAATTCACTCACAAGGATACTTTACCGGATTTGTAACATCAAGTCAAAAAC-TCGATTCCT
* * * * * * * *
19873152 CACAAAATTGAA-CTCTCCAGCCTTCCTAATGACTTCCACATATCAACAATAAAACAATTACACA
65 CACAAAA-TCAACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACCAATTACACA
* * * * ** *
19873216 TGAATTAATTATAAATTTCATATTTAAAGAAATTTCACAACAATCTGGAAAGACAGTTCATGAAG
129 TAAACTAAGTATAAATTTCACATTTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAG
* * * *
19873281 ATGTTGAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATGTTGTTAAATAAGACTG
194 ATGTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTA
* *
19873346 AAAACCTTCGAATAGATCCATTTTGAGTTAGAACATCCATTAATTTGTGGATTTCCTCTCAAAAT
259 AAAACCTTCTAATAGATCCATTTTGAGTTAGAACATCCATTGATTTGTGGATTTCCTCTCAAAAT
* * *
19873411 TCAAGATT-CACCCTTAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAAT-ATAATGT
324 ACAAG-TTCCACCATTAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGT
* * *
19873474 TATTGACCCTCAAATAATGTAAAAATATTTCTAATCATCATAAAAAAAA-TTTAGAAATAATAAT
388 GATTGACCCTCAAATCATGTAAAAATATTTCTAATCATCATAAAAAAAAGTTTAGAACTAATAAT
* * * *
19873538 TACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATATTGATTTAGGAATCTTGTGAAATTTTAG
453 TACCTTTCATTCGTTCTAATTCCTTTGATTGAAAATATTGATTTA-GAATCTTGAGAAATTTCAA
* * * *
19873603 AATATTTGTGTCTACTATTGA-ATATAATTTGTTCTAATTTTGGTTATCCCGGTCCACTTCAAGA
517 AATATTTTTGTCTACTTTTGAGA-ATAATTCGTTCTAATTCTGGTTATCCCGGTCCACTTCAAGA
* *
19873667 CTCAAAGCATCAAAAGAGATAAAGTAGACATTACCACCTTTCTATATTAAAAACAAATTATAATT
581 CTCGAAGCATCAAAAGAGGTAAAGTAGACATTACCACCTTTCTATATTAAAAACAAATTA-AATT
*
19873732 AACTATATTA
645 AACTATACTA
19873742 ATTGAAATTCACTCACAAGGATACTTTACCGGATTTGTAACATCAAGTCAAAAACTCGATTCCTC
1 ATTGAAATTCACTCACAAGGATACTTTACCGGATTTGTAACATCAAGTCAAAAACTCGATTCCTC
* * * * *
19873807 ACAAAATCAAACTCTCCAGCCCTCTTAATCACTTCCAAACACCAATACAAAACTAATTACACATA
66 ACAAAATCAACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACCAATTACACATA
* * *
19873872 AACCAAGTATAAATTTCACATTTAAATTAATTTCACAA-AATCTGGAAGGTCAGTTCATGAAGAT
131 AACTAAGTATAAATTTCACATTTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGAT
* * * * *
19873936 GTTAAAATTCGAATTTCTTCAATTTGCCTCACAGATCATGTGTAATCTTGCTAAATAAGACTAAA
196 GTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAAA
* ** * * * * * *
19874001 AACATTCTAGCAGGTCGATTTTGATTTAGGACATCCATTGATTTTTGGATTTCCTCTCAAAATTC
261 AACCTTCTAATAGATCCATTTTGAGTTAGAACATCCATTGATTTGTGGATTTCCTCTCAAAATAC
* * *
19874066 AAGATCCACCTTTAAAGTACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTGAT
326 AAGTTCCACCATTAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTGAT
* * * * *
19874131 TGACTCTCAATTCATTTAAAAAATATTTCTAATCACCATAAAAACAAGTTTAGAACTAATAATTA
391 TGACCCTCAAATCATGT-AAAAATATTTCTAATCATCATAAAAAAAAGTTTAGAACTAATAATTA
* * *
19874196 CCTTTCATTCGTTCTAATTCCTTTGATTGAAAATATTAATTCAAGAATCTTGAGAAATGTCAATA
455 CCTTTCATTCGTTCTAATTCCTTTGATTGAAAATATTGATT-TAGAATCTTGAGAAATTTCAA-A
19874261 ATA
518 ATA
19874264 AACCAATTAC
Statistics
Matches: 2655, Mismatches: 393, Indels: 149
0.83 0.12 0.05
Matches are distributed among these distances:
630 1 0.00
631 213 0.08
632 243 0.09
633 39 0.01
634 4 0.00
635 3 0.00
636 4 0.00
637 1 0.00
643 17 0.01
645 5 0.00
646 2 0.00
648 6 0.00
650 20 0.01
652 1 0.00
653 193 0.07
654 330 0.12
655 521 0.20
656 274 0.10
657 12 0.00
658 3 0.00
659 6 0.00
660 200 0.08
661 505 0.19
662 50 0.02
663 2 0.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (654 bp):
ATTGAAATTCACTCACAAGGATACTTTACCGGATTTGTAACATCAAGTCAAAAACTCGATTCCTC
ACAAAATCAACCTCTCCAGCCCTCCTAATCACTTCCAAACATCAATACTAAACCAATTACACATA
AACTAAGTATAAATTTCACATTTAAATCAATTTCACAACAATCTGGAAAGTCAGTTCATGAAGAT
GTTAAAATTCGAATTTCTTCAAATTACCTCACAAATCATGTTTAATCTTGGTAAATAAGACTAAA
AACCTTCTAATAGATCCATTTTGAGTTAGAACATCCATTGATTTGTGGATTTCCTCTCAAAATAC
AAGTTCCACCATTAAAGCACCTTAAGCTTTTGAAGAATATGACATTGATAAAATAATCATGTGAT
TGACCCTCAAATCATGTAAAAATATTTCTAATCATCATAAAAAAAAGTTTAGAACTAATAATTAC
CTTTCATTCGTTCTAATTCCTTTGATTGAAAATATTGATTTAGAATCTTGAGAAATTTCAAAATA
TTTTTGTCTACTTTTGAGAATAATTCGTTCTAATTCTGGTTATCCCGGTCCACTTCAAGACTCGA
AGCATCAAAAGAGGTAAAGTAGACATTACCACCTTTCTATATTAAAAACAAATTAAATTAACTAT
ACTA
Found at i:19873094 original size:631 final size:632
Alignment explanation
Indices: 19870524--19874263 Score: 3704
Period size: 661 Copynumber: 5.8 Consensus size: 632
19870514 CCGGATTTGG
* * ** * * *
19870524 AACATCAAGTCAAAAACTCGAATCCTCACAAAATCAACCTCTCCAGCCCCCTTAATCACTTCCAA
1 AACATCAAGTCGAAAACT-GATTCCTCACAAAATTGACATCTCCAGCCTCC-TAATGACTTCCAA
* * * ** * * * *
19870589 ACACCAATACA-AAACTAATTAGACATAAACCAAATATAAATTTCACATTTAAATTAATTTCATA
64 ACATCAATA-ATAAACCAATTACACATAAATTAAGTATAAATTTCATATTTAAATCAATTTCACA
* * *
19870653 A-AATCTGGAAAGTCAGTTCATGAAGATGTTAAAATTCGAATTTCATCAAATTACCTCACAAATC
128 ACAATCTGGAAAGTCAGTTCATGAAGATGTTGAAATTCAAATTTCTTCAAATTACCTCACAAATC
* * *
19870717 ATGTTTAATCTTGGTAAATAAGACTAAAAACCTTCTAACAAGTAT--ATTTTTAGTTAGGACATC
193 ATGTTTAATCTT-GTAAATAAGACTAAAAACCTTCTAA-TAG-ATCCATTTTGAGTTAGAACATC
* * *
19870780 CATTGATTTGTGGATTTCCTTTCAAAATCCACA-TT------TAAAGTACCTTAAGCTTTTGAAG
255 CATTGATTTGTGGATTTCCTCTCAAAATTCA-AGTTCCACCCTAAAGCACCTTAAGCTTTTGAAG
* * ** *
19870838 AATATGACATTGATAAAATAATCATGTGATTAACTATCAAATCATTTAAAAATATTTCTAATCAT
319 AATATGACATTGATAAAAT-ATCATGTAATTGACCCTCAAATCATGTAAAAATATTTCTAATCAT
* * * * * *
19870903 CAGAAAAACAAGCTTAGAATTAATAATTACCTTTCATTCGTTCTAAGTCGTTTGATTGAAAATAT
383 CATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATAT
* *
19870968 TGATTTAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCGTTCTAAT
448 TGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTATTGAGAATAATTCGTTCTAAT
** * * * * * * * *
19871033 TCTAATTATCCCGGTCCTCTTCAAGACTTGAAGCTTCAACAG-GGGTAAAGTATACTTTACCATC
513 TCTGGTTATCCCGGTCCACTTCAAGACTCGAAGCATCAAAAGAGAG-AAAGTAGACATTACCACC
* *
19871097 TTTC--AAAAGCTATATTAAACACAAATTGAAATTAACTATACTAATCGAAATTCACTCACAAAG
577 TTTCTTAAAAACTATATTGAACACAAATTG----TAA-T-T-C-AA-CG--A-T-ACT-------
**
19871160 ATACTTTACCAGATTTGT
622 -TA----ACC-GAAAT-T
* * *
19871178 AACATCAAGTCGAAAACTTGGTTCCTCACAAAATTGACCTCTCCAACCCTCCTAATGACTTCCAA
1 AACATCAAGTCGAAAAC-TGATTCCTCACAAAATTGACATCTCC-AGCCTCCTAATGACTTCCAA
*
19871243 ACATCAATAGTAAACCAATTACACATAAATTAAGTATAAATTTCATATTTAAATCAATTTCACAA
64 ACATCAATAATAAACCAATTACACATAAATTAAGTATAAATTTCATATTTAAATCAATTTCACAA
**
19871308 CAATCTGGAAAGTTGGTTCATGAAGATGTTGAAATTCAAATTTCTTCAAATTACCTCACAAATCA
129 CAATCTGGAAAGTCAGTTCATGAAGATGTTGAAATTCAAATTTCTTCAAATTACCTCACAAATCA
* * *
19871373 TGTTTAAACTTGGTAAATAAGACTAAAAACCTACTAATAGATCCATTTTGAGTTCGAACATCCAT
194 TGTTTAATCTT-GTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGAACATCCAT
* * * *
19871438 TGATTTGTTGATTTCCTCTCAAAATACAAGTTCCACCATTAAAGCACCTTATGCTTTT-AATGAA
258 TGATTTGTGGATTTCCTCTCAAAATTCAAGTTCCACC-CTAAAGCACCTTAAGCTTTTGAA-GAA
19871502 TATGACATTGATAAAATATCATGTAATTGACCCTCAAATCATGTAAAAACT-TTTCTAATCATCA
321 TATGACATTGATAAAATATCATGTAATTGACCCTCAAATCATGTAAAAA-TATTTCTAATCATCA
* * * * * *
19871566 -ACAAAAAAACTTTAGAAATAATAATTACCTTTCATTCGTTCTAATTCCTCTGATTGATAATATT
385 TA-AAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATATT
* * * *
19871630 TATT-TAGTCATCTTGAGAAATTTCAGAAA-ATTTTTGTCTACTACTGAGAATAATTCGTTCTAA
449 GATTCAAG-AATCTTGAGAAATTTCA-AAATATTTTTGTCTACTATTGAGAATAATTCGTTCTAA
* * * * * * *
19871693 TTTTGGTTATCTCAGTCCACTTCCAGACTCGAAGCATCAAAAGAGATAAAGTAGACGTTGCCACC
512 TTCTGGTTATCCCGGTCCACTTCAAGACTCGAAGCATCAAAAGAGAGAAAGTAGACATTACCACC
* * * * *
19871758 TTTCTATATTAAAAAC-AAATTAGAATTAACTATATTAATTGAAATTCTCTCACAAGGATACTTT
577 TTTC----TTAAAAACTATATT-G----AAC-ACA--AATTGTAA---T-T--CAACGATACTTA
* *
19871822 ACCGGATTT
624 ACCGAAATT
* ** * * *
19871831 GGAACATCAAGTCAAAAACTCGATTCCTCACAAAATCAACCTCTCCAGCCCACCTAATCACTTCC
1 --AACATCAAGTCGAAAACT-GATTCCTCACAAAATTGACATCTCCAG-CCTCCTAATGACTTCC
* * * * * *
19871896 AAAAATCAATACTAAACTAATTACACATTAACTAAGTATAAATTTCACATTTAAATCAATTTCAC
62 AAACATCAATAATAAACCAATTACACATAAATTAAGTATAAATTTCATATTTAAATCAATTTCAC
* * * * * **
19871961 AAAAATCTAGAGAGTCAATTCATGAAGATGTTAAAATTTTAATTTCTTCAAATTACCTCACAAAT
127 AACAATCTGGAAAGTCAGTTCATGAAGATGTTGAAATTCAAATTTCTTCAAATTACCTCACAAAT
* * * * * *
19872026 CATGTTTGATGTAAGTAAATAAGACTAAAAACCTTCTAATAGGTCGATTTTGAGTTAGGACATCC
192 CATGTTTAATCT-TGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGAACATCC
* * *
19872091 ATTGATTTGTCGATTTCCTCTCAAAATT-AAATATCCACCCTTAAACCACCTTAAGCTTTTGAAG
256 ATTGATTTGTGGATTTCCTCTCAAAATTCAAGT-TCCACCC-TAAAGCACCTTAAGCTTTTGAAG
* * * *
19872155 AGTATGACGTTGATAAAATAATCATGTGATTGACTCTCAAATCATGTAAAAATATTTCTAATCAT
319 AATATGACATTGATAAAAT-ATCATGTAATTGACCCTCAAATCATGTAAAAATATTTCTAATCAT
* * *
19872220 CATAAAAACTAGTTTAGAGCTAATAATTACCTTTGATTCATTCTAATTCCTTTGATTGAAAATAT
383 CATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATAT
* *
19872285 TGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTTTTGAGAATAATTCATTCTAAT
448 TGATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTATTGAGAATAATTCGTTCTAAT
* * * * * *
19872350 TCTGGTTAGCCCGATTCGCTTCAAGACTCGAAG-ATTCAATAGTG-GTAAAGTAGACATTACCAC
513 TCTGGTTATCCCGGTCCACTTCAAGACTCGAAGCA-TCAAAAGAGAG-AAAGTAGACATTACCAC
* * * *
19872413 CTTTC--AAAAGCTATATTAAACACAAATTGTAATTC-ACTATAC-TAATCGAAATT
576 CTTTCTTAAAAACTATATTGAACACAAATTGTAATTCAACGATACTTAACCGAAATT
* *
19872466 AACATCAAGTCGAAAACATGATTCCACACAAAATTGACAACTCCAGCCTCCTAATGACTTCCAAA
1 AACATCAAGTCGAAAAC-TGATTCCTCACAAAATTGACATCTCCAGCCTCCTAATGACTTCCAAA
* * *
19872531 CATCAATAATAAACCAATTACACATAAATTAGGTACAAATTTCTTATTTAAATCAATTTCACAAC
65 CATCAATAATAAACCAATTACACATAAATTAAGTATAAATTTCATATTTAAATCAATTTCACAAC
* * * * * * ** *
19872596 AATATGGAAAGTCGGTTCAAGAAGATGTTGAAATTCAAATTTTTTGAATTTATGTCACAAATCTT
130 AATCTGGAAAGTCAGTTCATGAAGATGTTGAAATTCAAATTTCTTCAAATTACCTCACAAATCAT
* * *
19872661 GTTTAATCTTCGTAAATAAGGCTGAAAACCTTCTAATAGATCCATTTTGAGTTAGAACATCTATT
195 GTTTAATCTT-GTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGAACATCCATT
*
19872726 GATTTGTGGATTTCCTCTCAAAATTCAAGTTCCACCACTAAAGCACCTTATGCTTTT-AAGGAAT
259 GATTTGTGGATTTCCTCTCAAAATTCAAGTTCCACC-CTAAAGCACCTTAAGCTTTTGAA-GAAT
* * * *
19872790 ATGACATTGATAAAATATCATATAATTGCCCCTCAAATCATGTAAAACTATTTCTAATCGTCATA
322 ATGACATTGATAAAATATCATGTAATTGACCCTCAAATCATGTAAAAATATTTCTAATCATCATA
* *
19872855 AAAACAAGTTTAGAACTAATAATTACTTTTGATTCGTTCTAATTCCTTTGATTGATAATATTGAT
387 AAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATATTGAT
* * * * * *
19872920 TCATGAATCTTGAGAAAGTTCAAAATATTTTTATCCACTTTTGACAATAATTCGTTCTAATTCTG
452 TCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTATTGAGAATAATTCGTTCTAATTCTG
** * * * * *
19872985 GTTATCCCGGTCCTTTTCAAGACTTGAAGCTTCAACATAGGGAAAGTAGACATTACCACC-TTC-
517 GTTATCCCGGTCCACTTCAAGACTCGAAGCATCAAAAGAGAGAAAGTAGACATTACCACCTTTCT
* *
19873048 TAAAAGCTATATTGAACACAAATTTTAATTAACTATACTAATCGAAATTCACTCACAAAGATACT
582 TAAAAACTATATTGAACACAAA--TT--GTAA-T-T-C-AA-CG--A-T-ACT--------TA--
**
19873113 GTACCGGATTTGT
624 --ACC-GAAAT-T
* *
19873126 AACATCATGTCAAAAACATGATTCCTCACAAAATTGA-ACTCTCCAGCCTTCCTAATGACTTCCA
1 AACATCAAGTCGAAAAC-TGATTCCTCACAAAATTGACA-TCTCCAGCC-TCCTAATGACTTCCA
* * * * * * **
19873190 CATATCAACAATAAAACAATTACACATGAATTAATTATAAATTTCATATTTAAAGAAATTTCACA
63 AACATCAATAATAAACCAATTACACATAAATTAAGTATAAATTTCATATTTAAATCAATTTCACA
* *
19873255 ACAATCTGGAAAGACAGTTCATGAAGATGTTGAAATTCGAATTTCTTCAAATTACCTCACAAATC
128 ACAATCTGGAAAGTCAGTTCATGAAGATGTTGAAATTCAAATTTCTTCAAATTACCTCACAAATC
* * *
19873320 ATGTTTAATGTTGTTAAATAAGACTGAAAACCTTCGAATAGATCCATTTTGAGTTAGAACATCCA
193 ATGTTTAATCTTG-TAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGAACATCCA
*
19873385 TTAATTTGTGGATTTCCTCTCAAAATTCAAGATT-CACCCTTAAAGCACCTTAAGCTTTTGAAGA
257 TTGATTTGTGGATTTCCTCTCAAAATTCAAG-TTCCACCC-TAAAGCACCTTAAGCTTTTGAAGA
* * *
19873449 ATATGACATTGATAAAATATAATGTTATTGACCCTCAAATAATGTAAAAATATTTCTAATCATCA
320 ATATGACATTGATAAAATATCATGTAATTGACCCTCAAATCATGTAAAAATATTTCTAATCATCA
* *
19873514 TAAAAA-AAATTTAGAAATAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATATTG
385 TAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATATTG
* * * * * * *
19873578 ATTTAGGAATCTTGTGAAATTTTAGAATATTTGTGTCTACTATTGA-ATATAATTTGTTCTAATT
450 ATTCAAGAATCTTGAGAAATTTCAAAATATTTTTGTCTACTATTGAGA-ATAATTCGTTCTAATT
* * *
19873642 TTGGTTATCCCGGTCCACTTCAAGACTCAAAGCATCAAAAGAGATAAAGTAGACATTACCACCTT
514 CTGGTTATCCCGGTCCACTTCAAGACTCGAAGCATCAAAAGAGAGAAAGTAGACATTACCACCTT
* * *
19873707 TCTATATTAAAAACAAATTATAATT-AACTATATTAATTGAAATTCACTCACAAGGATACTTTAC
579 TC----TTAAAAAC----TAT-ATTGAAC-ACA--AATTGTAATTCA---AC---GATACTTAAC
**
19873771 CGGATTTGT
626 C-GAAAT-T
* * * * *
19873780 AACATCAAGTCAAAAACTCGATTCCTCACAAAA-TCAAACTCTCCAGCCCTCTTAATCACTTCCA
1 AACATCAAGTCGAAAACT-GATTCCTCACAAAATTGACA-TCTCCAG-CCTCCTAATGACTTCCA
* * ** * *
19873844 AACACCAATACA-AAACTAATTACACATAAACCAAGTATAAATTTCACATTTAAATTAATTTCAC
63 AACATCAATA-ATAAACCAATTACACATAAATTAAGTATAAATTTCATATTTAAATCAATTTCAC
* * * * * *
19873908 AA-AATCTGGAAGGTCAGTTCATGAAGATGTTAAAATTCGAATTTCTTCAATTTGCCTCACAGAT
127 AACAATCTGGAAAGTCAGTTCATGAAGATGTTGAAATTCAAATTTCTTCAAATTACCTCACAAAT
* * ** * * * *
19873972 CATGTGTAATCTTGCTAAATAAGACTAAAAACATTCTAGCAGGTCGATTTTGATTTAGGACATCC
192 CATGTTTAATCTTG-TAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGAACATCC
* * * *
19874037 ATTGATTTTTGGATTTCCTCTCAAAATTCAAGATCCACCTTTAAAGTACCTTAAGCTTTTGAAGA
256 ATTGATTTGTGGATTTCCTCTCAAAATTCAAGTTCCACC-CTAAAGCACCTTAAGCTTTTGAAGA
* * * * *
19874102 ATATGACATTGATAAAATAATCATGTGATTGACTCTCAATTCATTTAAAAAATATTTCTAATCAC
320 ATATGACATTGATAAAAT-ATCATGTAATTGACCCTCAAATCATGT-AAAAATATTTCTAATCAT
*
19874167 CATAAAAACAAGTTTAGAACTAATAATTACCTTTCATTCGTTCTAATTCCTTTGATTGAAAATAT
383 CATAAAAACAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATAT
* *
19874232 TAATTCAAGAATCTTGAGAAATGTCAATAATA
448 TGATTCAAGAATCTTGAGAAATTTCAA-AATA
19874264 AACCAATTAC
Statistics
Matches: 2594, Mismatches: 365, Indels: 251
0.81 0.11 0.08
Matches are distributed among these distances:
630 3 0.00
631 231 0.09
632 243 0.09
633 44 0.02
634 1 0.00
635 10 0.00
636 6 0.00
637 2 0.00
638 1 0.00
639 1 0.00
640 2 0.00
641 1 0.00
643 8 0.00
644 1 0.00
645 4 0.00
646 3 0.00
650 5 0.00
651 4 0.00
652 1 0.00
653 190 0.07
654 251 0.10
655 470 0.18
656 274 0.11
657 7 0.00
658 3 0.00
659 6 0.00
660 206 0.08
661 501 0.19
662 46 0.02
665 1 0.00
666 14 0.01
667 11 0.00
668 4 0.00
669 3 0.00
670 9 0.00
671 11 0.00
672 7 0.00
673 4 0.00
674 5 0.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (632 bp):
AACATCAAGTCGAAAACTGATTCCTCACAAAATTGACATCTCCAGCCTCCTAATGACTTCCAAAC
ATCAATAATAAACCAATTACACATAAATTAAGTATAAATTTCATATTTAAATCAATTTCACAACA
ATCTGGAAAGTCAGTTCATGAAGATGTTGAAATTCAAATTTCTTCAAATTACCTCACAAATCATG
TTTAATCTTGTAAATAAGACTAAAAACCTTCTAATAGATCCATTTTGAGTTAGAACATCCATTGA
TTTGTGGATTTCCTCTCAAAATTCAAGTTCCACCCTAAAGCACCTTAAGCTTTTGAAGAATATGA
CATTGATAAAATATCATGTAATTGACCCTCAAATCATGTAAAAATATTTCTAATCATCATAAAAA
CAAGTTTAGAACTAATAATTACCTTTGATTCGTTCTAATTCCTTTGATTGAAAATATTGATTCAA
GAATCTTGAGAAATTTCAAAATATTTTTGTCTACTATTGAGAATAATTCGTTCTAATTCTGGTTA
TCCCGGTCCACTTCAAGACTCGAAGCATCAAAAGAGAGAAAGTAGACATTACCACCTTTCTTAAA
AACTATATTGAACACAAATTGTAATTCAACGATACTTAACCGAAATT
Found at i:19886171 original size:25 final size:25
Alignment explanation
Indices: 19886143--19886224 Score: 121
Period size: 25 Copynumber: 3.3 Consensus size: 25
19886133 TAGCGCGCTA
*
19886143 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACATTGGTGCTC
19886168 TCTGATTATTAGCACATTGGTGCTC
1 TCTGATTATTAGCACATTGGTGCTC
* * *
19886193 TCTGATTACTAGCA-TTTAGTGCTC
1 TCTGATTATTAGCACATTGGTGCTC
19886217 TCTGATTA
1 TCTGATTA
19886225 GCACATATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 16 0.30
25 37 0.70
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (25 bp):
TCTGATTATTAGCACATTGGTGCTC
Found at i:19886236 original size:22 final size:23
Alignment explanation
Indices: 19886175--19886263 Score: 82
Period size: 22 Copynumber: 4.0 Consensus size: 23
19886165 CTCTCTGATT
*
19886175 ATTAGCACAT-TGGTGCTCTCTG
1 ATTAGCACATATAGTGCTCTCTG
*
19886197 ATTA-CTAGCATTTAGTGCTCTCTG
1 ATTAGC-A-CATATAGTGCTCTCTG
19886221 ATTAGCACATAT-GTGCTCTCTG
1 ATTAGCACATATAGTGCTCTCTG
19886243 -TATAGCAC-T-TCAGTGCTCTCT
1 AT-TAGCACATAT-AGTGCTCTCT
19886264 ATTCATTAGT
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.02
21 3 0.05
22 30 0.52
23 7 0.12
24 16 0.28
25 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (23 bp):
ATTAGCACATATAGTGCTCTCTG
Found at i:19886237 original size:46 final size:47
Alignment explanation
Indices: 19886143--19886263 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 47
19886133 TAGCGCGCTA
* *
19886143 TCTGATTATTAGCACGTTGGTGCTCTCTGATTATTAGCACATTGGTGCTC
1 TCTGATTA-TAGCACTTTAGTGCTCTCTG--TATTAGCACATTGGTGCTC
19886193 TCTGATTACTAGCA-TTTAGTGCTCTCTG-ATTAGCACATAT-GTGCTC
1 TCTGATTA-TAGCACTTTAGTGCTCTCTGTATTAGCACAT-TGGTGCTC
*
19886239 TCTG--TATAGCACTTCAGTGCTCTCT
1 TCTGATTATAGCACTTTAGTGCTCTCT
19886264 ATTCATTAGT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 5 0.08
44 14 0.22
46 20 0.31
47 1 0.02
49 12 0.18
50 13 0.20
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (47 bp):
TCTGATTATAGCACTTTAGTGCTCTCTGTATTAGCACATTGGTGCTC
Found at i:19896465 original size:27 final size:26
Alignment explanation
Indices: 19896435--19896490 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
19896425 TTAAAGAACC
* *
19896435 TTAGCGCGCTCTCTGATTATTAGCATA
1 TTAG-GCGCTCTCCGATTATTAGCACA
*
19896462 TTA-GTGCTCTCCGATTATTAGCACA
1 TTAGGCGCTCTCCGATTATTAGCACA
19896487 TTAG
1 TTAG
19896491 TGCTTTCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 22 0.88
27 3 0.12
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (26 bp):
TTAGGCGCTCTCCGATTATTAGCACA
Found at i:19896470 original size:25 final size:25
Alignment explanation
Indices: 19896442--19896494 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
19896432 ACCTTAGCGC
* *
19896442 GCTCTCTGATTATTAGCATATTAGT
1 GCTCTCCGATTATTAGCACATTAGT
19896467 GCTCTCCGATTATTAGCACATTAGT
1 GCTCTCCGATTATTAGCACATTAGT
19896492 GCT
1 GCT
19896495 TTCTATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (25 bp):
GCTCTCCGATTATTAGCACATTAGT
Found at i:19907577 original size:42 final size:42
Alignment explanation
Indices: 19907506--19907601 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
19907496 AGGTACACGT
**
19907506 AGTGCATCATCAGATAAATTGAAGCAATCACACTGACATGTA
1 AGTGCATCATCAGATAAATTGAAGCAATCACACTGACACATA
* * * * *
19907548 ATTGCATCATCGGATAAATTTG-AGTAATCATACTGGCACATA
1 AGTGCATCATCAGATAAA-TTGAAGCAATCACACTGACACATA
19907590 AGTGCATCATCA
1 AGTGCATCATCA
19907602 AATATACCGA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 41 0.93
43 3 0.07
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (42 bp):
AGTGCATCATCAGATAAATTGAAGCAATCACACTGACACATA
Found at i:19911051 original size:19 final size:18
Alignment explanation
Indices: 19911027--19911064 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
19911017 ATGTTTTAAT
19911027 TAAATAAATATAAAATTTA
1 TAAATAAATA-AAAATTTA
*
19911046 TAAATAAATAAAATTTTA
1 TAAATAAATAAAAATTTA
19911064 T
1 T
19911065 TTTAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATAAATAAAAATTTA
Found at i:19913569 original size:24 final size:24
Alignment explanation
Indices: 19913537--19913584 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19913527 AATCACATTC
19913537 AAACCCCTCCACTTATTATGTTTT
1 AAACCCCTCCACTTATTATGTTTT
19913561 AAACCCCTCCACTTATTATGTTTT
1 AAACCCCTCCACTTATTATGTTTT
19913585 TGTAGATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.42
Consensus pattern (24 bp):
AAACCCCTCCACTTATTATGTTTT
Found at i:19914407 original size:105 final size:105
Alignment explanation
Indices: 19914225--19914431 Score: 387
Period size: 105 Copynumber: 2.0 Consensus size: 105
19914215 GCATAACTTC
*
19914225 CAAGATTATTGTGGTTAAACTATTTCGATGTAGGAATATGTTGTTACTTCACTTAATCTTTTACT
1 CAAGATTATTGTGGTTAAACTATTTCGATGTAGAAATATGTTGTTACTTCACTTAATCTTTTACT
19914290 TGCTTATTAAATTTGATTAATTGTTTGAATTGACATATTG
66 TGCTTATTAAATTTGATTAATTGTTTGAATTGACATATTG
*
19914330 CAAGATTATTGTGGTTAAACTATTTCGATGTAGAAATATGTTGTTATTTCACTTAATCTTTTACT
1 CAAGATTATTGTGGTTAAACTATTTCGATGTAGAAATATGTTGTTACTTCACTTAATCTTTTACT
*
19914395 TGTTTATTAAATTTGATTAATTGTTTGAATTGACATA
66 TGCTTATTAAATTTGATTAATTGTTTGAATTGACATA
19914432 GTAATATGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (105 bp):
CAAGATTATTGTGGTTAAACTATTTCGATGTAGAAATATGTTGTTACTTCACTTAATCTTTTACT
TGCTTATTAAATTTGATTAATTGTTTGAATTGACATATTG
Found at i:19914622 original size:13 final size:13
Alignment explanation
Indices: 19914604--19914633 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19914594 TTATTACCTT
*
19914604 TTAATTTTCTTAG
1 TTAATTTACTTAG
19914617 TTAATTTACTTAG
1 TTAATTTACTTAG
19914630 TTAA
1 TTAA
19914634 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:19915775 original size:38 final size:38
Alignment explanation
Indices: 19915720--19915795 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
19915710 GCTCAAGAAT
* *
19915720 CTAGTGAAGGTCCGAGTAATCGAGGCAAATGACCAGTA
1 CTAGTGAAGGTCCGAGTAACCAAGGCAAATGACCAGTA
*
19915758 CTAGTGAAGGTCTGAGTAACCAAGGCAAATGACCAGTA
1 CTAGTGAAGGTCCGAGTAACCAAGGCAAATGACCAGTA
19915796 GAGTAGATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (38 bp):
CTAGTGAAGGTCCGAGTAACCAAGGCAAATGACCAGTA
Found at i:19917019 original size:22 final size:22
Alignment explanation
Indices: 19916980--19917023 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19916970 ACAACTACTT
*
19916980 TAATTACATTATTTAATTATTA
1 TAATTACATTATTCAATTATTA
19917002 TAATT-CATTAATTCAATTATTA
1 TAATTACATT-ATTCAATTATTA
19917024 ACTTAGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATTACATTATTCAATTATTA
Found at i:19917810 original size:13 final size:13
Alignment explanation
Indices: 19917787--19917863 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 13
19917777 ATAAATTTAA
19917787 ATATAAAAATATTG
1 ATAT-AAAATATTG
*
19917801 ATATAAAATAATTT
1 ATATAAAAT-ATTG
*
19917815 ATTTTAAAATTAATT-
1 A-TATAAAA-T-ATTG
**
19917830 -TATAAAAT-TAA
1 ATATAAAATATTG
19917841 ATATAAAATATTG
1 ATATAAAATATTG
19917854 ATATAAAATA
1 ATATAAAATA
19917864 ATTTATTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
10 1 0.02
12 9 0.18
13 22 0.43
14 8 0.16
15 6 0.12
16 5 0.10
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (13 bp):
ATATAAAATATTG
Found at i:19917830 original size:12 final size:13
Alignment explanation
Indices: 19917810--19917889 Score: 62
Period size: 13 Copynumber: 6.2 Consensus size: 13
19917800 GATATAAAAT
*
19917810 AATTTATTT-TAA
1 AATTAATTTATAA
19917822 AATTAATTTATAA
1 AATTAATTTATAA
*
19917835 AATTAA-ATATAA
1 AATTAATTTATAA
19917847 AA-T-ATTGATATAA
1 AATTAATT--TATAA
19917860 AA-TAATTTATTTTAA
1 AATTAATTTA---TAA
19917875 AATTAATTTATAA
1 AATTAATTTATAA
19917888 AA
1 AA
19917890 AAGAAATATA
Statistics
Matches: 56, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
10 1 0.02
11 1 0.02
12 17 0.30
13 22 0.39
14 3 0.05
15 5 0.09
16 7 0.12
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (13 bp):
AATTAATTTATAA
Found at i:19917861 original size:53 final size:54
Alignment explanation
Indices: 19917777--19917889 Score: 210
Period size: 53 Copynumber: 2.1 Consensus size: 54
19917767 ATTAATCAAA
*
19917777 ATAAATTTAAATATAAAAATATTGATATAAAATAATTTATTTTAAAATTAATTT
1 ATAAAATTAAATATAAAAATATTGATATAAAATAATTTATTTTAAAATTAATTT
19917831 ATAAAATTAAATAT-AAAATATTGATATAAAATAATTTATTTTAAAATTAATTT
1 ATAAAATTAAATATAAAAATATTGATATAAAATAATTTATTTTAAAATTAATTT
19917884 ATAAAA
1 ATAAAA
19917890 AAGAAATATA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
53 45 0.78
54 13 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (54 bp):
ATAAAATTAAATATAAAAATATTGATATAAAATAATTTATTTTAAAATTAATTT
Found at i:19917897 original size:54 final size:53
Alignment explanation
Indices: 19917785--19917901 Score: 198
Period size: 53 Copynumber: 2.2 Consensus size: 53
19917775 AAATAAATTT
**
19917785 AAATATAAAAATATTGATATAAAATAATTTATTTTAAAATTAATTTATAAAATT
1 AAATAT-AAAATATTGATATAAAATAATTTATTTTAAAATTAATTTATAAAAAG
19917839 AAATATAAAATATTGATATAAAATAATTTATTTTAAAATTAATTTATAAAAAAG
1 AAATATAAAATATTGATATAAAATAATTTATTTTAAAATTAATTTAT-AAAAAG
19917893 AAATATAAA
1 AAATATAAA
19917902 TCCTACTTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 41 0.68
54 19 0.32
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (53 bp):
AAATATAAAATATTGATATAAAATAATTTATTTTAAAATTAATTTATAAAAAG
Found at i:19920165 original size:16 final size:16
Alignment explanation
Indices: 19920144--19920174 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19920134 TTTTGTATTA
*
19920144 CTTTAATATTAAATAT
1 CTTTAAAATTAAATAT
19920160 CTTTAAAATTAAATA
1 CTTTAAAATTAAATA
19920175 ATGTTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
CTTTAAAATTAAATAT
Found at i:19925317 original size:196 final size:196
Alignment explanation
Indices: 19924983--19925375 Score: 786
Period size: 196 Copynumber: 2.0 Consensus size: 196
19924973 AGAAAAAATT
19924983 AAGGACATTGTTGATGAATCCAAGCATGATTGTCAAGACAAGAGTCACGAAATTTTGACAGAAGT
1 AAGGACATTGTTGATGAATCCAAGCATGATTGTCAAGACAAGAGTCACGAAATTTTGACAGAAGT
19925048 CGGAGTTGAGACAAGCTTAGACAACACCAAGGTGAATGAGGAGCTTGCGACTTTGAGCTCAGTCA
66 CGGAGTTGAGACAAGCTTAGACAACACCAAGGTGAATGAGGAGCTTGCGACTTTGAGCTCAGTCA
19925113 AGACGAGTCTAGAAACTTGTGAGAGTGATGCTAATCAAGAGACTAAAGAGGTCGAAAATCCACAA
131 AGACGAGTCTAGAAACTTGTGAGAGTGATGCTAATCAAGAGACTAAAGAGGTCGAAAATCCACAA
19925178 C
196 C
19925179 AAGGACATTGTTGATGAATCCAAGCATGATTGTCAAGACAAGAGTCACGAAATTTTGACAGAAGT
1 AAGGACATTGTTGATGAATCCAAGCATGATTGTCAAGACAAGAGTCACGAAATTTTGACAGAAGT
19925244 CGGAGTTGAGACAAGCTTAGACAACACCAAGGTGAATGAGGAGCTTGCGACTTTGAGCTCAGTCA
66 CGGAGTTGAGACAAGCTTAGACAACACCAAGGTGAATGAGGAGCTTGCGACTTTGAGCTCAGTCA
19925309 AGACGAGTCTAGAAACTTGTGAGAGTGATGCTAATCAAGAGACTAAAGAGGTCGAAAATCCACAA
131 AGACGAGTCTAGAAACTTGTGAGAGTGATGCTAATCAAGAGACTAAAGAGGTCGAAAATCCACAA
19925374 C
196 C
19925375 A
1 A
19925376 TGAACTGGAG
Statistics
Matches: 197, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 197 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (196 bp):
AAGGACATTGTTGATGAATCCAAGCATGATTGTCAAGACAAGAGTCACGAAATTTTGACAGAAGT
CGGAGTTGAGACAAGCTTAGACAACACCAAGGTGAATGAGGAGCTTGCGACTTTGAGCTCAGTCA
AGACGAGTCTAGAAACTTGTGAGAGTGATGCTAATCAAGAGACTAAAGAGGTCGAAAATCCACAA
C
Found at i:19933178 original size:19 final size:19
Alignment explanation
Indices: 19933154--19933210 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
19933144 TTACATCCTA
*
19933154 GATCCCCAACTCGCAGGGT
1 GATCCCCAACTCGCAAGGT
19933173 GATCCCCAACTCGCAAGGT
1 GATCCCCAACTCGCAAGGT
*
19933192 GATCCTCAACTCGCAAGGT
1 GATCCCCAACTCGCAAGGT
19933211 TTTCAGGACC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.18
Consensus pattern (19 bp):
GATCCCCAACTCGCAAGGT
Found at i:19934106 original size:7 final size:7
Alignment explanation
Indices: 19934070--19934132 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 7
19934060 ATTTTAATAT
19934070 ATATTTA
1 ATATTTA
19934077 A-ATTTA
1 ATATTTA
19934083 A-ATTT-
1 ATATTTA
19934088 -TAGTTTA
1 ATA-TTTA
*
19934095 A-ATTTG
1 ATATTTA
19934101 ATATTTA
1 ATATTTA
19934108 ATATTT-
1 ATATTTA
19934114 ATACTTTA
1 ATA-TTTA
19934122 AT-TTTA
1 ATATTTA
19934128 ATATT
1 ATATT
19934133 ATTAATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
5 1 0.02
6 26 0.57
7 17 0.37
8 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (7 bp):
ATATTTA
Found at i:19934107 original size:13 final size:12
Alignment explanation
Indices: 19934072--19934132 Score: 52
Period size: 14 Copynumber: 4.8 Consensus size: 12
19934062 TTTAATATAT
*
19934072 ATTTAAATTTAA
1 ATTTATATTTAA
19934084 ATTT-TAGTTTAA
1 ATTTATA-TTTAA
19934096 ATTTGATATTTAA
1 ATTT-ATATTTAA
19934109 TATTTATACTTTAA
1 -ATTTATA-TTTAA
*
19934123 TTTTAATATT
1 ATTT-ATATT
19934133 ATTAATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
11 1 0.02
12 13 0.32
13 13 0.32
14 14 0.34
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTTATATTTAA
Found at i:19934144 original size:16 final size:17
Alignment explanation
Indices: 19934118--19934168 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
19934108 ATATTTATAC
19934118 TTTAA-TTTTAATATTA
1 TTTAATTTTTAATATTA
*
19934134 -TTAATTTTTAACATTA
1 TTTAATTTTTAATATTA
*
19934150 TTTAATCTTT-ATATT-
1 TTTAATTTTTAATATTA
19934165 TTTA
1 TTTA
19934169 TAATGTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.27
16 14 0.47
17 8 0.27
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAATTTTTAATATTA
Found at i:19936655 original size:25 final size:25
Alignment explanation
Indices: 19936610--19936658 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
19936600 CTATGGATCG
*
19936610 CATGATGTGGGTTCGTATCACCATT
1 CATGATGTGGGTTCGCATCACCATT
* *
19936635 CATGATGTGGGTTTGCGTCACCAT
1 CATGATGTGGGTTCGCATCACCAT
19936659 GTACGTAACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (25 bp):
CATGATGTGGGTTCGCATCACCATT
Found at i:19938840 original size:27 final size:27
Alignment explanation
Indices: 19938809--19938906 Score: 119
Period size: 27 Copynumber: 3.6 Consensus size: 27
19938799 AAAGGTTGTT
* *
19938809 AAATTATCGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCAAAGGGTA
*
19938836 AAATTACCAAAATACCCTCAAAGGGTA
1 AAATTACCGAAATACCCTCAAAGGGTA
19938863 AAATTACCGAAATA-CCTCCGAAAGGG-A
1 AAATTACCGAAATACCCT-C-AAAGGGTA
* *
19938890 AAATAACTGAAATACCC
1 AAATTACCGAAATACCC
19938907 CTATGGGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.05
27 51 0.82
28 8 0.13
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.18
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCAAAGGGTA
Found at i:19939991 original size:16 final size:17
Alignment explanation
Indices: 19939959--19939991 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19939949 TTTCAAGAAG
19939959 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
19939977 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
19939992 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:19941472 original size:22 final size:22
Alignment explanation
Indices: 19941438--19941488 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
19941428 AAGCACTAAA
* *
19941438 GTGCTATACAGAGAACACAGAT
1 GTGCTAAACAGAGAACACAGAC
* * *
19941460 GTGCTAAATAGAGAGCACTGAC
1 GTGCTAAACAGAGAACACAGAC
19941482 GTGCTAA
1 GTGCTAA
19941489 TAATCAGAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (22 bp):
GTGCTAAACAGAGAACACAGAC
Found at i:19949668 original size:42 final size:42
Alignment explanation
Indices: 19949620--19949703 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
19949610 GGCTGTACGA
19949620 CTCACACGACGAAGAGACACACCCGTGTAATAGGTC-GTGTGG
1 CTCACACGACGAAGAGACACACCCGTGTAATAGG-CAGTGTGG
*
19949662 CTCACACGACGAAGAGACACACCCGTGTCATAGGCAGTGTGG
1 CTCACACGACGAAGAGACACACCCGTGTAATAGGCAGTGTGG
19949704 GCATTCGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.15
Consensus pattern (42 bp):
CTCACACGACGAAGAGACACACCCGTGTAATAGGCAGTGTGG
Found at i:19950947 original size:25 final size:25
Alignment explanation
Indices: 19950911--19951029 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 25
19950901 GCTTTCTCTC
19950911 GAGCCATATAACGGGAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAT
* * * *
19950936 GAGCCATGTAACAGGAAGCTTATCT
1 GAGCCATATAACGGGAAGCTCATAT
* ** * *
19950961 GGGCTGTATAACGAGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAT
* * **
19950986 GAGCCATA-ATCAGGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATAT
* *
19951010 GAGCCA-ATAATGGGTAGCTC
1 GAGCCATATAACGGGAAGCTC
19951030 CGAAGAGCCA
Statistics
Matches: 68, Mismatches: 25, Indels: 3
0.71 0.26 0.03
Matches are distributed among these distances:
23 1 0.01
24 25 0.37
25 42 0.62
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAT
Found at i:19951136 original size:26 final size:26
Alignment explanation
Indices: 19951106--19951162 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
19951096 GAAGCTCCGG
*
19951106 AGAGCCATTAATCAGGAAGGTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
19951132 AGAGCCTTTAATTAGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
19951158 AGAGC
1 AGAGC
19951163 TATATATCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:19954538 original size:6 final size:6
Alignment explanation
Indices: 19954527--19954551 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19954517 TGGGGGAGAC
19954527 TCTTTA TCTTTA TCTTTA TCTTTA T
1 TCTTTA TCTTTA TCTTTA TCTTTA T
19954552 TTAACGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTA
Found at i:19956123 original size:11 final size:11
Alignment explanation
Indices: 19956107--19956131 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19956097 TAGCCACGGC
19956107 TCAGAAGAAAT
1 TCAGAAGAAAT
19956118 TCAGAAGAAAT
1 TCAGAAGAAAT
19956129 TCA
1 TCA
19956132 TAGTTGTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (11 bp):
TCAGAAGAAAT
Found at i:19957892 original size:12 final size:12
Alignment explanation
Indices: 19957875--19957913 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
19957865 AATATATAAA
19957875 ACATAAGCCTAT
1 ACATAAGCCTAT
19957887 ACATAAG-CT-T
1 ACATAAGCCTAT
19957897 GACATAAGCCTAT
1 -ACATAAGCCTAT
19957910 ACAT
1 ACAT
19957914 CACCATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 9 0.38
12 13 0.54
13 1 0.04
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (12 bp):
ACATAAGCCTAT
Found at i:19960593 original size:25 final size:26
Alignment explanation
Indices: 19960565--19960625 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
19960555 TTTCTCATCC
19960565 CAATTTTATCCTA-ATAAAATTTTGA
1 CAATTTTATCCTATATAAAATTTTGA
* *
19960590 CAATTTTACCCTATGTAAAATTTTGA
1 CAATTTTATCCTATATAAAATTTTGA
**
19960616 TGATTTTATC
1 CAATTTTATC
19960626 GTTGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (26 bp):
CAATTTTATCCTATATAAAATTTTGA
Found at i:19960615 original size:26 final size:25
Alignment explanation
Indices: 19960565--19960615 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
19960555 TTTCTCATCC
*
19960565 CAATTTTATCCTAATAAAATTTTGA
1 CAATTTTACCCTAATAAAATTTTGA
*
19960590 CAATTTTACCCTATGTAAAATTTTGA
1 CAATTTTACCCTA-ATAAAATTTTGA
19960616 TGATTTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (25 bp):
CAATTTTACCCTAATAAAATTTTGA
Found at i:19963537 original size:25 final size:25
Alignment explanation
Indices: 19963503--19963553 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
19963493 CTATGGGATC
19963503 GCATGATGTGGGTTTGCACCACCAT
1 GCATGATGTGGGTTTGCACCACCAT
*
19963528 GCATGATGTGGGTTTGCATCACCAT
1 GCATGATGTGGGTTTGCACCACCAT
19963553 G
1 G
19963554 TAGACGAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (25 bp):
GCATGATGTGGGTTTGCACCACCAT
Done.