Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 143 of 210
Found at i:47462558 original size:2 final size:2
Alignment explanation
Indices: 47462553--47462584 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
47462543 TACACACGTT
47462553 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47462585 TGGTTTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47465779 original size:30 final size:30
Alignment explanation
Indices: 47465719--47465781 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
47465709 ATTACAAAAT
** * *
47465719 AATCATTAAATTATTTGAAAATTCTTTTTA
1 AATCATTAAATTATTAAAAAAATCTATTTA
47465749 AATCATTAAATTATTCAAAAAAAT-TATTTA
1 AATCATTAAATTATT-AAAAAAATCTATTTA
47465779 AAT
1 AAT
47465782 TATCAGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (30 bp):
AATCATTAAATTATTAAAAAAATCTATTTA
Found at i:47468935 original size:2 final size:2
Alignment explanation
Indices: 47468928--47468963 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
47468918 TATCAAAGAC
47468928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47468964 TTACAATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47471193 original size:40 final size:40
Alignment explanation
Indices: 47471149--47471229 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
47471139 AAATGCATTT
*
47471149 AAGGGTACCGAAGTAAAAACAGGGGCACGTATGTGCAATC
1 AAGGGTACCGAAGTAAAAACAAGGGCACGTATGTGCAATC
**
47471189 AAGGGTACCGAAGTACGAACAAGGGCACGTATGTGCAATC
1 AAGGGTACCGAAGTAAAAACAAGGGCACGTATGTGCAATC
47471229 A
1 A
47471230 TTCAAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.15
Consensus pattern (40 bp):
AAGGGTACCGAAGTAAAAACAAGGGCACGTATGTGCAATC
Found at i:47475714 original size:21 final size:20
Alignment explanation
Indices: 47475688--47475727 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
47475678 AATAAAGTAG
47475688 TTATATATTATTTTTCTAATA
1 TTATATATTATTTTT-TAATA
47475709 TTATATATTATTTTTTAAT
1 TTATATATTATTTTTTAAT
47475728 TGATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATATTATTTTTTAATA
Found at i:47475810 original size:16 final size:16
Alignment explanation
Indices: 47475789--47475859 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
47475779 ATCTTTATTA
47475789 AATTATATTTAATAAT
1 AATTATATTTAATAAT
*
47475805 AATTATATTAAAGTACGATT
1 AATTATATTTAA-TA--A-T
* * *
47475825 AAAT-TATTTATTATT
1 AATTATATTTAATAAT
47475840 AAATTATATTTAATAAT
1 -AATTATATTTAATAAT
47475857 AAT
1 AAT
47475860 CCTATTATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
15 1 0.02
16 17 0.41
17 11 0.27
18 2 0.05
19 6 0.15
20 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:47475830 original size:61 final size:60
Alignment explanation
Indices: 47475710--47475840 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 60
47475700 TTTCTAATAT
* *
47475710 TATA-TATTATTTTTTAATTGATATTTTACTAATAATTATATTAAGAATGTTATTAAATTA
1 TATATTATTATTTTTTAATTGATATTTTAATAATAATTATATTAAGAACG-TATTAAATTA
*
47475770 TATATTATTATCTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAGTACG-ATTAAATTA
1 TATATTATTAT-TTT-TT-AATTGATATTTTAATAATAATTATATT-AAGAACGTATTAAATTA
*
47475831 TTTATTATTA
1 TATATTATTA
47475841 AATTATATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
60 4 0.06
61 24 0.39
62 20 0.32
63 10 0.16
64 4 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (60 bp):
TATATTATTATTTTTTAATTGATATTTTAATAATAATTATATTAAGAACGTATTAAATTA
Found at i:47475852 original size:26 final size:26
Alignment explanation
Indices: 47475759--47475852 Score: 81
Period size: 26 Copynumber: 3.7 Consensus size: 26
47475749 ATTAAGAATG
*
47475759 TTATTAAATTATATATT--ATTATCT-
1 TTATTAAATTATAT-TTAAATTATTTA
* *
47475783 TTATTAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAA-ATTATTTA
* *
47475810 -TATTAAAGTACGA-TTAAATTATTTA
1 TTATTAAATTA-TATTTAAATTATTTA
47475835 TTATTAAATTATATTTAA
1 TTATTAAATTATATTTAA
47475853 TAATAATCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
23 2 0.04
24 14 0.26
25 7 0.13
26 30 0.56
27 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TTATTAAATTATATTTAAATTATTTA
Found at i:47475866 original size:26 final size:24
Alignment explanation
Indices: 47475743--47475859 Score: 78
Period size: 24 Copynumber: 4.8 Consensus size: 24
47475733 TTTTACTAAT
* *
47475743 AATTATA-TTAAGAAT-GTTATTA
1 AATTATATTTAATAATAATTATTA
* **
47475765 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAATAATTATTA
47475789 AATTATATTTAATAATAATTATATTA
1 AATTATATTTAATAATAA-T-TATTA
* * * * *
47475815 AAGTACGATTAAATTATTTATTATTA
1 AATTA-TATTTAA-TAATAATTATTA
47475841 AATTATATTTAATAATAAT
1 AATTATATTTAATAATAAT
47475860 CCTATTATAA
Statistics
Matches: 71, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
22 7 0.10
23 5 0.07
24 25 0.35
25 6 0.08
26 18 0.25
27 6 0.08
28 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATTTAATAATAATTATTA
Found at i:47476067 original size:16 final size:16
Alignment explanation
Indices: 47476048--47476087 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
47476038 TTATAACTTC
* *
47476048 ATTCTATTACAGCTCT
1 ATTCCATTACAGCCCT
47476064 ATTCCATTACAGCCCT
1 ATTCCATTACAGCCCT
*
47476080 ATTTCATT
1 ATTCCATT
47476088 CCCCCAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTCCATTACAGCCCT
Found at i:47481667 original size:50 final size:50
Alignment explanation
Indices: 47481543--47481784 Score: 211
Period size: 50 Copynumber: 4.7 Consensus size: 50
47481533 AATAATAACA
* * ** * *
47481543 TGCCAAAGCCATGTCCCAGACATGGTTTTACATGGGATGTTTTC-TGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATAT-CGG
* * **
47481592 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
47481642 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
47481692 TGCCAACGCCATGTCCCAGACGTAGTCTTGCATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
47481748 TACCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
47481785 TCTTTTTACC
Statistics
Matches: 156, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
48 6 0.04
49 35 0.22
50 80 0.51
53 2 0.01
56 33 0.21
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:47490542 original size:50 final size:50
Alignment explanation
Indices: 47490475--47490664 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
47490465 TTTCCTGTAC
* * * **
47490475 TGCCAATGCCATATCCCAGATATGGTCTTCCATGAGAGTTATCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTATCATATCGG
* * * * *
47490525 TGCCTATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTATCATATCGG
* * * *
47490575 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTATCAT-A--TC---GG
*
47490631 TGCCAATGTCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
47490665 GGATCTCTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 82 0.70
53 2 0.02
56 33 0.28
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTATCATATCGG
Found at i:47500406 original size:17 final size:17
Alignment explanation
Indices: 47500367--47500415 Score: 91
Period size: 16 Copynumber: 2.9 Consensus size: 17
47500357 ATAGAAAGTC
47500367 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
47500384 -AAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
47500400 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
47500416 AAATCTGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:47503075 original size:385 final size:384
Alignment explanation
Indices: 47502366--47503137 Score: 1364
Period size: 385 Copynumber: 2.0 Consensus size: 384
47502356 GAAAAATGAA
* * *
47502366 GTTTTGGATGCATTTCTGAAATGGAAAAAGATGGTGGGGACCCAGACTGGTCGAAAGGTCAAACG
1 GTTTTGGATGCATTTCTGAAATGGAAAAAGACGGTGGAGACCCAGACTAGTCGAAAGGTCAAACG
47502431 ACTTTGATCAGACAATGGTACTGAGTACAAGAATAATCAATTTCTACAAGTATGCAAGATGAGGG
66 ACTTTGATCAGACAATGGTACTGAGTACAAGAATAATCAATTTCTACAAGTATGCAAGATGAGGG
* *
47502496 CATTGTGCGACACTTCACTGTTCGAGATTCACCAAAACAGAATGGGGTGGCAGAACGTATGAATC
131 CATTGTGCGACACTTCACTGTTCGAGATACACCAAAACAGAATGGGATGGCAGAACGTATGAATC
47502561 GGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGCT
196 GGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGCT
*
47502626 GAGGCAGTTACATATGCATGCCATTTAATTAACCGGTTTCCATCAACTGAAATAAATAGAAAAAC
261 GAGGCAGTTACATATGCATGCCATCTAATTAACCGGTTTCCATCAACTGAAATAAATAGAAAAAC
*
47502691 TCTTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTACATGTTTTTG
326 TCCTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTACATGTTTTTG
* *
47502750 GTTTTGGATGCATTTCTGAAATGGAAGAAGACGGTGGAGACCCAGACTAGTTGAAAGGTCAAACG
1 GTTTTGGATGCATTTCTGAAATGGAAAAAGACGGTGGAGACCCAGACTAGTCGAAAGGTCAAACG
* *
47502815 ACTTTGATCAGACAATGGTACTGAGTACAAGAATGATCCATTTCTACAAGTATGTCAAGATGAGG
66 ACTTTGATCAGACAATGGTACTGAGTACAAGAATAATCAATTTCTACAAGTATG-CAAGATGAGG
* *
47502880 GCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAGAATGGGATGGCAGAACGTATGAGT
130 GCATTGTGCGACACTTCACTGTTCGAGATACACCAAAACAGAATGGGATGGCAGAACGTATGAAT
47502945 CGGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGC
195 CGGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGC
** * * *
47503010 TGAGGCAGTTACATATGTGTGCCATCTAATTAACTGGTTTCCATCAGCTGCAATAAATAGAAAAA
260 TGAGGCAGTTACATATGCATGCCATCTAATTAACCGGTTTCCATCAACTGAAATAAATAGAAAAA
*
47503075 CTCCTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTTCATGTTTTTG
325 CTCCTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTACATGTTTTTG
47503135 GTT
1 GTT
47503138 CCACTGCATA
Statistics
Matches: 368, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
384 112 0.30
385 256 0.70
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (384 bp):
GTTTTGGATGCATTTCTGAAATGGAAAAAGACGGTGGAGACCCAGACTAGTCGAAAGGTCAAACG
ACTTTGATCAGACAATGGTACTGAGTACAAGAATAATCAATTTCTACAAGTATGCAAGATGAGGG
CATTGTGCGACACTTCACTGTTCGAGATACACCAAAACAGAATGGGATGGCAGAACGTATGAATC
GGACTATACTGGAGAAAGTTCGATGTATGTTGTCCAATGCTGGATTGGGCAAGGAATTTTGGGCT
GAGGCAGTTACATATGCATGCCATCTAATTAACCGGTTTCCATCAACTGAAATAAATAGAAAAAC
TCCTATGGAGAGGTGGGCTGGTAAACCTGCTACTGATTATGATTCTTTACATGTTTTTG
Found at i:47504208 original size:17 final size:17
Alignment explanation
Indices: 47504186--47504221 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
47504176 ATAGAAAGTC
47504186 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
47504203 AAAGATATGGGTATCAA
1 AAAGATATGGGTATCAA
47504220 AA
1 AA
47504222 TCTGAGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (17 bp):
AAAGATATGGGTATCAA
Found at i:47505142 original size:169 final size:169
Alignment explanation
Indices: 47504863--47505173 Score: 581
Period size: 169 Copynumber: 1.8 Consensus size: 169
47504853 AAAAATTTCT
47504863 AAGCCCGAGTTCGGCCCGGCCCAGCCCGACCCTTTTTTTTAGTAAACACCAAAATTGTATAAAAA
1 AAGCCCGAGTTCGGCCCGGCCCAGCCCGACCCTTTTTTTTAGTAAACACCAAAATTGTATAAAAA
47504928 ACCTGCAAAATATAATCAACCAACCAGAATATCCATACATTAACCAATCAACATATTTAATTTTA
66 ACCTGCAAAATATAATCAACCAACCAGAATATCCATACATTAACCAATCAACATATTTAATTTTA
47504993 TAACAAAATATAAATTGTAAGCTAAATTAAATGTTCAAC
131 TAACAAAATATAAATTGTAAGCTAAATTAAATGTTCAAC
47505032 AAGCCCGAGTTCGGCCCGGCCC-GCCC-AGCCCGTTTTTTTTAGTAAACACCAAAATTGTATAAA
1 AAGCCCGAGTTCGGCCCGGCCCAGCCCGA-CCC-TTTTTTTTAGTAAACACCAAAATTGTATAAA
47505095 AAACCTGCAAAATATAATCAACCAACCAGAATATCCATACATTAACCAATCAACATATTTAATTT
64 AAACCTGCAAAATATAATCAACCAACCAGAATATCCATACATTAACCAATCAACATATTTAATTT
*
47505160 TATAGCAAAATATA
129 TATAACAAAATATA
47505174 TGTAACACCC
Statistics
Matches: 139, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
167 1 0.01
168 7 0.05
169 131 0.94
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (169 bp):
AAGCCCGAGTTCGGCCCGGCCCAGCCCGACCCTTTTTTTTAGTAAACACCAAAATTGTATAAAAA
ACCTGCAAAATATAATCAACCAACCAGAATATCCATACATTAACCAATCAACATATTTAATTTTA
TAACAAAATATAAATTGTAAGCTAAATTAAATGTTCAAC
Found at i:47506406 original size:23 final size:23
Alignment explanation
Indices: 47506380--47506455 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
47506370 ATAGGTGCCA
47506380 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
47506403 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
47506426 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
47506449 CATTGAT
1 CACTGAT
47506456 CAATAAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:47506706 original size:18 final size:17
Alignment explanation
Indices: 47506673--47506711 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
47506663 ATTTTCCTTC
47506673 CACATTCAAAATTAATT
1 CACATTCAAAATTAATT
47506690 CACATATC-AAATATAATT
1 CACAT-TCAAAAT-TAATT
47506708 CACA
1 CACA
47506712 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (17 bp):
CACATTCAAAATTAATT
Found at i:47507795 original size:7 final size:7
Alignment explanation
Indices: 47507783--47507824 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
47507773 CAGATGCACG
47507783 GGGAAAT
1 GGGAAAT
47507790 GGGAAAT
1 GGGAAAT
*
47507797 GGGGAA-
1 GGGAAAT
47507803 GGGAAAT
1 GGGAAAT
47507810 GGGAAAT
1 GGGAAAT
47507817 GGGAAAT
1 GGGAAAT
47507824 G
1 G
47507825 TATTTTAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.40, C:0.00, G:0.48, T:0.12
Consensus pattern (7 bp):
GGGAAAT
Found at i:47517595 original size:31 final size:31
Alignment explanation
Indices: 47517524--47517598 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
47517514 ACTACCCATG
* * *
47517524 GTCACTTTTATTTACCTTAGGTTATATTTTA
1 GTCACTTATGTTTACCTTAGGTTACATTTTA
47517555 GTCACTTATGTTTACCTTAGGTTACATTTTA
1 GTCACTTATGTTTACCTTAGGTTACATTTTA
47517586 GTCACTTATGTTT
1 GTCACTTATGTTT
47517599 GAAATGTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (31 bp):
GTCACTTATGTTTACCTTAGGTTACATTTTA
Found at i:47520987 original size:16 final size:16
Alignment explanation
Indices: 47520966--47520996 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47520956 ATATTTAACC
*
47520966 TTGAAAATGTGAAAAA
1 TTGAAAAGGTGAAAAA
47520982 TTGAAAAGGTGAAAA
1 TTGAAAAGGTGAAAA
47520997 GGACTCACTG
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:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (16 bp):
TTGAAAAGGTGAAAAA
Found at i:47527650 original size:12 final size:12
Alignment explanation
Indices: 47527635--47527660 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47527625 TTTCACTTCC
47527635 TTTTTCTTTAAT
1 TTTTTCTTTAAT
47527647 TTTTTCTTTAAT
1 TTTTTCTTTAAT
47527659 TT
1 TT
47527661 CAGCCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTAAT
Found at i:47538171 original size:9 final size:9
Alignment explanation
Indices: 47538159--47538196 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
47538149 TTCCTTTTTC
*
47538159 TCCTCATCT
1 TCCTCATCA
47538168 TCCTCATCA
1 TCCTCATCA
47538177 TCCTCATCA
1 TCCTCATCA
47538186 TCCTCATCA
1 TCCTCATCA
47538195 TC
1 TC
47538197 TCCTTCTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.18, C:0.45, G:0.00, T:0.37
Consensus pattern (9 bp):
TCCTCATCA
Found at i:47545181 original size:16 final size:17
Alignment explanation
Indices: 47545146--47545181 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
47545136 TAGGAAGCAT
47545146 CAAAAATAATTTCAGGCA
1 CAAAAATAATTT-AGGCA
47545164 CAAAAATAATTT-GGCA
1 CAAAAATAATTTAGGCA
47545180 CA
1 CA
47545182 TCGTATTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (17 bp):
CAAAAATAATTTAGGCA
Found at i:47549774 original size:41 final size:41
Alignment explanation
Indices: 47549683--47549776 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
47549673 TCGGATACTT
* *
47549683 GACAGCTTGTGTGAGCAGCACCATGTAGCTACGTTCCGACT
1 GACAGCTTGTGTCAGCAGCACCATGTAGCTACGTTCCGACC
* *
47549724 GATAGCTTGTGTCAGCAGCACCGTGTAGCTACGTTCCGACC
1 GACAGCTTGTGTCAGCAGCACCATGTAGCTACGTTCCGACC
*
47549765 GACAACTTGTGT
1 GACAGCTTGTGT
47549777 GAGTAGACCC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.26
Consensus pattern (41 bp):
GACAGCTTGTGTCAGCAGCACCATGTAGCTACGTTCCGACC
Found at i:47563403 original size:17 final size:19
Alignment explanation
Indices: 47563383--47563421 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
47563373 TTTTTAGCAA
47563383 ATTTTACATTTT-TAT-TT
1 ATTTTACATTTTATATATT
*
47563400 ATTTTAGATTTTATATATT
1 ATTTTACATTTTATATATT
47563419 ATT
1 ATT
47563422 CATATTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 3 0.16
19 5 0.26
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTACATTTTATATATT
Found at i:47567069 original size:22 final size:21
Alignment explanation
Indices: 47567044--47567088 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
47567034 AAGAAGAAGC
*
47567044 AAAAACGAGAAAATAAAAAGAAA
1 AAAAACCA-AAAAT-AAAAGAAA
47567067 AAAAACCAAAAATAAAAGAAA
1 AAAAACCAAAAATAAAAGAAA
47567088 A
1 A
47567089 GACGTCTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.80, C:0.07, G:0.09, T:0.04
Consensus pattern (21 bp):
AAAAACCAAAAATAAAAGAAA
Found at i:47567545 original size:6 final size:6
Alignment explanation
Indices: 47567524--47567579 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
47567514 TACTTCACTT
*
47567524 GAAAAA G-AAAC G-AAAA GAAAAAA GACAAAA CGAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA G-AAAAA GA-AAAA -GAAAAA GAAAAA GAAAAA
*
47567573 TAAAAA G
1 GAAAAA G
47567580 GAGAAACCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 8 0.19
6 19 0.45
7 13 0.31
8 2 0.05
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:47567567 original size:20 final size:19
Alignment explanation
Indices: 47567531--47567572 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
47567521 CTTGAAAAAG
47567531 AAACGAAAAGAAAAAAGACA
1 AAACGAAAAGAAAAAAGA-A
47567551 AAACGAAAA-AGAAAAAGAA
1 AAACGAAAAGA-AAAAAGAA
47567570 AAA
1 AAA
47567573 TAAAAAGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (19 bp):
AAACGAAAAGAAAAAAGAA
Found at i:47568051 original size:109 final size:108
Alignment explanation
Indices: 47567915--47568111 Score: 288
Period size: 109 Copynumber: 1.8 Consensus size: 108
47567905 TTTGTATTCT
*
47567915 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGATTTCCTCTCAATAAAATTTCCATCT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGATTTCCTCTCAACAAAATTT-CAT-T
47567980 T-ATCCATTGTGACAATCTTTTTCATCTTATTCATCTCGTATCTC
64 TCATCCATTGTGACAATCTTTTTCATCTTATTCATCTCGTATCTC
* ** * *
47568024 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTC
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGATTTCCTCTCAACAAAATTTCATTTC
* * *
47568089 GTCCATTTTGATAATCTTTTTCA
66 ATCCATTGTGACAATCTTTTTCA
47568112 AGCATTTTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 2 0.03
108 23 0.29
109 53 0.68
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGATTTCCTCTCAACAAAATTTCATTTC
ATCCATTGTGACAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:47568650 original size:44 final size:44
Alignment explanation
Indices: 47568583--47568930 Score: 316
Period size: 44 Copynumber: 8.0 Consensus size: 44
47568573 AAGTCCTTAA
** * *
47568583 AGCAGATCTTGTCTTTATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * *
47568627 AGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA-
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * *
47568670 AGCAGATCTTGTCTTCCTGTGTTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * *
47568715 AGCAGGTCCTGTCTTCTTATATTGGTAGGAAGTGGATC---GAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * * * *
47568756 -GTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * *
47568800 AGCAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * *
47568844 AGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
*** *
47568888 -GCAGATCTTGTCTTCCTATACCAGTGGCGAAGTAGATCGAAGA
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGA
47568931 AAACATATCT
Statistics
Matches: 240, Mismatches: 54, Indels: 20
0.76 0.17 0.06
Matches are distributed among these distances:
40 20 0.08
41 11 0.05
43 44 0.18
44 123 0.51
45 42 0.17
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
Found at i:47568842 original size:129 final size:131
Alignment explanation
Indices: 47568636--47568932 Score: 440
Period size: 129 Copynumber: 2.3 Consensus size: 131
47568626 TAGCAGGTCC
* * * * * *
47568636 TGTCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCAGATCTTGTCTTCCTGTGTTGGCAGT
1 TGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCAGT
* *
47568699 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCTTATATTGGTAGGAAGTGGATC-GATGTAGATC
66 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCAGATGCAGATC
47568763 T
131 T
* *
47568764 TGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAGCAGATATTGTCTTCATGTATTGGC-GT
1 TGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCAGT
47568828 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
66 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC--AGATGCAGA
47568893 TCT
129 TCT
**
47568896 TGTCTTCCTATACCAGTGGCGAAGTAGATCGAAGAAA
1 TGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAA
47568933 ACATATCTTA
Statistics
Matches: 150, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
128 16 0.11
129 67 0.45
130 24 0.16
132 43 0.29
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (131 bp):
TGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCAGT
GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCAGATGCAGATC
T
Found at i:47569161 original size:100 final size:100
Alignment explanation
Indices: 47568996--47569448 Score: 581
Period size: 100 Copynumber: 4.5 Consensus size: 100
47568986 TCCCTGGTGA
* * * *
47568996 TGCAGTGGAGCAGATTAAAGTTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
*
47569061 TGAAGCCGCAACGGCAAATCTTAC-TCTCCTGGCAG
66 TGAAGCCGCAACGGCGAATCTTACTTC-CCTGGCAG
* * * * * *
47569096 TGCAGTGGAAC-GAGTTGAAGCTACAACGACAAATCTTGTTTCCCCGACATTACAATTTAAAAGA
1 TGCAGTGGAACAGA-TTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
* *
47569160 TTGAAGCCGCAATGGTGAATCTTACTTCCCTGGCAG
65 TTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAG
* * * * *
47569196 TGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGAT
1 TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
* *
47569261 TGAAGCCGCAACGGTGAATCTTACTTCCTTGG-AG
66 TGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAG
* * * *
47569295 TTGCAGTGGAACAGATTAAAGCTACGACGGTGAATCTCGTTTCCCCGACATTGCAATTAAAAAGA
1 -TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
* * *
47569360 TTGAAGCTGCAACGGCTAATCTTACTTCCCTGGCGG
65 TTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAG
* * *
47569396 TGTAGTGGAACAGATTAAAGCTACAACGGTGAATCTTG-TTCCCTGACATTGCA
1 TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
47569449 GTCAATTTGA
Statistics
Matches: 308, Mismatches: 40, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
99 18 0.06
100 285 0.93
101 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (100 bp):
TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
TGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAG
Found at i:47569181 original size:50 final size:50
Alignment explanation
Indices: 47569021--47569448 Score: 236
Period size: 50 Copynumber: 8.6 Consensus size: 50
47569011 TAAAGTTACG
* * *
47569021 ACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCA
1 ACGGTGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGATTGAAGCCGCA
** * * * ** * **
47569071 ACGGCAAATCTTAC-TCTCCTGGCAGTGC-AGTGGAACGAGTTGAAGCTACA
1 ACGGTGAATCTTGCTTC-CCTGGCATTGCAATTTAAAAGA-TTGAAGCCGCA
*** * * * *
47569121 ACGACAAATCTTGTTTCCCCGACATTACAATTTAAAAGATTGAAGCCGCA
1 ACGGTGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGATTGAAGCCGCA
* * * * ** ** * ** *
47569171 ATGGTGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACG
1 ACGGTGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGATTGAAGCCGCA
*
47569221 ACGGCGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGATTGAAGCCGCA
1 ACGGTGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGATTGAAGCCGCA
* * * ** * * ** *
47569271 ACGGTGAATCTTACTTCCTTGG-AGTTGCAGTGGAACAGATTAAAGCTACG
1 ACGGTGAATCTTGCTTCCCTGGCA-TTGCAATTTAAAAGATTGAAGCCGCA
* * * * * *
47569321 ACGGTGAATCTCGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCTGCA
1 ACGGTGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGATTGAAGCCGCA
* ** * * ** * * **
47569371 ACGGCT-AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACA
1 ACGG-TGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGATTGAAGCCGCA
*
47569421 ACGGTGAATCTTG-TTCCCTGACATTGCA
1 ACGGTGAATCTTGCTTCCCTGGCATTGCA
47569449 GTCAATTTGA
Statistics
Matches: 270, Mismatches: 100, Indels: 17
0.70 0.26 0.04
Matches are distributed among these distances:
49 21 0.08
50 239 0.89
51 10 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (50 bp):
ACGGTGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGATTGAAGCCGCA
Found at i:47569339 original size:200 final size:200
Alignment explanation
Indices: 47568996--47569448 Score: 646
Period size: 200 Copynumber: 2.3 Consensus size: 200
47568986 TCCCTGGTGA
* *
47568996 TGCAGTGGAGCAGATTAAAGTTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
1 TGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAAGAT
*
47569061 TGAAGCCGCAACGGCAAATCTTACTCTCCTGGCAGTGCAGTGGAACGAGTTGAAGCTACAACGAC
66 TGAAGCCGCAACGGCAAATCTTACTCTCCTGGCAGTGCAGTGGAACGAGTTAAAGCTACAACGAC
* * *
47569126 AAATCTTGTTTCCCCGACATTACAATTTAAAAGATTGAAGCCGCAATGG-TGAATCTTACTTCCC
131 AAATCTCGTTTCCCCGACATTACAATTAAAAAGATTGAAGCCGCAACGGCT-AATCTTACTTCCC
47569190 TGGCAG
195 TGGCAG
* * *
47569196 TGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGCATTGCAATTTAAAAGAT
1 TGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAAGAT
** *
47569261 TGAAGCCGCAACGGTGAATCTTACT-TCCTTGG-AGTTGCAGTGGAAC-AGATTAAAGCTACGAC
66 TGAAGCCGCAACGGCAAATCTTACTCTCC-TGGCAG-TGCAGTGGAACGAG-TTAAAGCTACAAC
*** * *
47569323 GGTGAATCTCGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCTGCAACGGCTAATCTTACTTC
128 GACAAATCTCGTTTCCCCGACATTACAATTAAAAAGATTGAAGCCGCAACGGCTAATCTTACTTC
*
47569388 CCTGGCGG
193 CCTGGCAG
* * *
47569396 TGTAGTGGAACAGATTAAAGCTACAACGGTGAATCTTG-TTCCCTGACATTGCA
1 TGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCA
47569449 GTCAATTTGA
Statistics
Matches: 226, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
199 21 0.09
200 204 0.90
201 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (200 bp):
TGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAAGAT
TGAAGCCGCAACGGCAAATCTTACTCTCCTGGCAGTGCAGTGGAACGAGTTAAAGCTACAACGAC
AAATCTCGTTTCCCCGACATTACAATTAAAAAGATTGAAGCCGCAACGGCTAATCTTACTTCCCT
GGCAG
Found at i:47569561 original size:40 final size:40
Alignment explanation
Indices: 47569489--47570351 Score: 352
Period size: 40 Copynumber: 20.3 Consensus size: 40
47569479 CTGAAGTTGC
* * *
47569489 AGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAACAGT
1 AGTGGAGCAGA-TAGAACCA-AG-TCTTATCTCCCTAAGCAGT
* * *
47569532 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATAGAACCAAGTCTTATCTCCCTAAGCAGT
* * ** *
47569572 AGTGGAGCAGATAGAAAAAAAACCAA-TCCTAACTCCCTGAAGTTGC
1 AGTGGAGCAGATAG------AACCAAGTCTTATCTCCCT-AAGCAGT
* * *
47569618 AGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCTGT
1 AGTGGAGCAGA-TAGAACCA-AG-TCTTATCTCCCTAAGCAGT
* * *
47569661 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATAGAACCAAGTCTTATCTCCCTAAGCAGT
* * *
47569701 AGTGGAGCAGATAGAAAAAAAACCAA-TCCTATCTCCCTGAAGTTA-C
1 AGTGGAGCAGATAG------AACCAAGTCTTATCTCCCT-AAG-CAGT
* * *
47569747 AGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCGGT
1 AGTGGAGCAGA-TAGAACCA-AG-TCTTATCTCCCTAAGCAGT
* * * *
47569790 AGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATAGAACCAAGTCTTATCTCCCTAAGCAGT
* * * *
47569830 AGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATAGAACCAAGTCTTATCTCCCTAAGCAGT
** * * *
47569870 AGTGGAGCAGATAGAAAAAAAACCGATCCTATCTCCCTGAAGTTA-C
1 AGTGGAGCAGATAG--AACCAA--G-TCTTATCTCCCT-AAG-CAGT
* * * *
47569916 AGAGGAGCGGATTAAAACCACAGATCTTATCTCACTAAGCAGT
1 AGTGGAGCAGA-TAGAACCA-AG-TCTTATCTCCCTAAGCAGT
* * * **
47569959 AGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGT
1 AGTGGAGCAGATAGAACCAAGTCTTATCTCCCTAAGCAGT
* * * ****
47569999 AGTGGAGCAGACAGAAAAAAAACCAA-TCCTATCTTCCTGAAGTTCC
1 AGTGGAGCAGATAG------AACCAAGTCTTATCTCCCT-AAGCAGT
* * *
47570045 AGTGGAGTAGATTAAAACCACAGATCTTATCTTCCTAAGCAGT
1 AGTGGAGCAGA-TAGAACCA-AG-TCTTATCTCCCTAAGCAGT
* * * * * * *
47570088 AGTGGAGCCGATCGCATCAAGTCTTATTTCTCTATGCAGT
1 AGTGGAGCAGATAGAACCAAGTCTTATCTCCCTAAGCAGT
* ** * * * ** *
47570128 AGTGGAGCAGACAGAAAAAAATCCTATCTTCCTGAAGTTGC
1 AGTGGAGCAGATAGAACCAAGTCTTATCTCCCT-AAGCAGT
* *
47570169 AGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGA-TAGAACCA-AG-TCTTATCTCCCTAAGCAGT
* * ** *
47570212 AGTGGAGCAGACAGAAAAAAACCAA-TCCTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATAG-----AACCAAGTCTTATCTCCCT-AAGCAGT
* * * ** *
47570257 AGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTGC
1 AGTGGAGCAGA-TAGAACCA-AG-TCTTATCTCCCT-AAGCAGT
* * * ** *
47570301 AGTAGAGCAGATCGCATTAAGTCTTATCTCCCTAAGCAAT
1 AGTGGAGCAGATAGAACCAAGTCTTATCTCCCTAAGCAGT
47570341 AGTGGAGCAGA
1 AGTGGAGCAGA
47570352 CAAAAGAAAT
Statistics
Matches: 611, Mismatches: 150, Indels: 121
0.69 0.17 0.14
Matches are distributed among these distances:
40 210 0.34
41 53 0.09
42 35 0.06
43 81 0.13
44 93 0.15
45 58 0.09
46 67 0.11
47 14 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
AGTGGAGCAGATAGAACCAAGTCTTATCTCCCTAAGCAGT
Found at i:47569624 original size:129 final size:129
Alignment explanation
Indices: 47569466--47569841 Score: 698
Period size: 129 Copynumber: 2.9 Consensus size: 129
47569456 TGAAAGAAAT
*
47569466 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAACAG
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
47569531 TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAAAAAAC
66 TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAAAAAAC
* *
47569595 CAATCCTAACTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCTG
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
47569660 TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAAAAAAC
66 TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAAAAAAC
* *
47569724 CAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCGG
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
*
47569789 TAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
66 TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
47569842 CGCATCAAGG
Statistics
Matches: 240, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 240 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (129 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAAAAAAC
Found at i:47569818 original size:169 final size:169
Alignment explanation
Indices: 47569643--47570009 Score: 653
Period size: 169 Copynumber: 2.2 Consensus size: 169
47569633 AACCACAGAT
* *
47569643 CTTATCTCCCTAAGCTGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
*
47569708 CAGATAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATC
66 CAGATAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
* *
47569773 TTATCTCCCTAAGCGGTAGTGGAGCAGATCGCATCAAGG
131 TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGG
47569812 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
*
47569877 CAGATAGAAAAAAAACCGATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
66 CAGATAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
*
47569942 TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGT
131 TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGG
**
47569981 AATATCTCCCTAAGCAGTAGTGGAGCAGA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA
47570010 CAGAAAAAAA
Statistics
Matches: 189, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
169 189 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (169 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
CAGATAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGG
Found at i:47569945 original size:129 final size:128
Alignment explanation
Indices: 47569812--47570222 Score: 632
Period size: 129 Copynumber: 3.2 Consensus size: 128
47569802 CGCATCAAGG
*
47569812 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
* * *
47569877 CAGATAGAAAAAAAACCGATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGAT
66 CAGACAGAAAAAAAACC-ATCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGAT
* **
47569941 CTTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
* **
47570006 CAGACAGAAAAAAAACCAATCCTATCTTCCTGAAGTTCCAGTGGAGTAGATTAAAACCACAGAT
66 CAGACAGAAAAAAAACC-ATCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGAT
* * * * *
47570070 CTTATCTTCCTAAGCAGTAGTGGAGCCGATCGCATCAAGTCTTATTTCTCTATGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
*
47570135 CAGACAG--AAAAAA--ATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGAT
66 CAGACAGAAAAAAAACCATCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGAT
47570194 CTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA
47570223 CAGAAAAAAA
Statistics
Matches: 258, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
124 70 0.27
127 6 0.02
129 182 0.71
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (128 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
CAGACAGAAAAAAAACCATCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGAT
Found at i:47570050 original size:298 final size:298
Alignment explanation
Indices: 47569514--47570138 Score: 1052
Period size: 298 Copynumber: 2.1 Consensus size: 298
47569504 AACCACAGAT
* *
47569514 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
* *
47569579 CAGATAGAAAAAAAACCAATCCTAACTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATC
66 CAGATAGAAAAAAAACCAATCCTAACTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
* * **
47569644 TTATCTCCCTAAGCTGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGC
131 TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGAGC
* *
47569709 AGATAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
196 AGACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
*
47569774 TATCTCCCTAAGCGGTAGTGGAGCAGATCGCATCAAGG
261 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGG
47569812 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
* *
47569877 CAGATAGAAAAAAAACCGATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
66 CAGATAGAAAAAAAACCAATCCTAACTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
47569942 TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGAGC
131 TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGAGC
* * *
47570007 AGACAGAAAAAAAACCAATCCTATCTTCCTGAAGTTCCAGTGGAGTAGATTAAAACCACAGATCT
196 AGACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * *
47570072 TATCTTCCTAAGCAGTAGTGGAGCCGATCGCATCAAGT
261 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGG
* * *
47570110 CTTATTTCTCTATGCAGTAGTGGAGCAGA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA
47570139 CAGAAAAAAA
Statistics
Matches: 305, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
298 305 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (298 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
CAGATAGAAAAAAAACCAATCCTAACTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGAGC
AGACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGG
Found at i:47570197 original size:84 final size:86
Alignment explanation
Indices: 47570109--47570294 Score: 286
Period size: 88 Copynumber: 2.2 Consensus size: 86
47570099 TCGCATCAAG
* * *
47570109 TCTTATTTCTCTATGCAGTAGTGGAGCAGACAG-AAAAA-AATCCTATCTTCCTGAAGTTGCAGT
1 TCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAAAAACAATCCTATCTCCCTGAAGTTGCAGT
*
47570172 GGAGCGGATTAAAACCACAGA
66 GGAGCAGATTAAAACCACAGA
*
47570193 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAAAAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCTCTAAGCAGTAGTGGAGCAGACAG-AAAAAA-CAATCCTATCTCCCTGAAGTTGCA
*
47570258 GTGGAGCAGATTAAAATCACAGA
64 GTGGAGCAGATTAAAACCACAGA
47570281 TCTTATCTCTCTAA
1 TCTTATCTCTCTAA
47570295 AGTTGCAGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
84 30 0.33
86 5 0.05
88 56 0.62
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (86 bp):
TCTTATCTCTCTAAGCAGTAGTGGAGCAGACAGAAAAAACAATCCTATCTCCCTGAAGTTGCAGT
GGAGCAGATTAAAACCACAGA
Found at i:47570263 original size:298 final size:297
Alignment explanation
Indices: 47569514--47570268 Score: 840
Period size: 298 Copynumber: 2.5 Consensus size: 297
47569504 AACCACAGAT
* * ** * *
47569514 CTTATCTCCCTAAACAGTAGTGGAGCAGATCG-CATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAAAAG-CCTATCTCCCTAAGCAGCAGTGGA
* ** * * ** **
47569578 GCAGATAGAAAAAAAACCA-ATCCTAACTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
65 GCAGATA-AAAAAAAA-CAGATCCTATCTCCCTGAAGTCACAGAGGAGCAGAAGAAAAAAACAGA
* **
47569642 TCTTATCTCCCTAAGCTGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
128 TCCTATCTCCCTAAGCTGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGA
* *
47569707 GCAGATAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGAT
193 GCAGACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGAT
*
47569772 CTTATCTCCCTAAGCGGTAGTGGAGCAGATCGCATCAAGG
258 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGG
* ** * * *
47569812 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAAAAGCCTATCTCCCTAAGCAGCAGTGGAG
* * * ** **
47569877 CAGATAGAAAAAAAACCGATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATC
66 CAGATA-AAAAAAAACAGATCCTATCTCCCTGAAGTCACAGAGGAGCAGAAGAAAAAAACAGATC
* * *
47569942 TTATCTCACTAAGCAGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGAGC
130 CTATCTCCCTAAGCTGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGAGC
* * *
47570007 AGACAGAAAAAAAACCAATCCTATCTTCCTGAAGTTCCAGTGGAGTAGATTAAAACCACAGATCT
195 AGACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * *
47570072 TATCTTCCTAAGCAGTAGTGGAGCCGATCGCATCAAGT
260 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGG
* * * * * **
47570110 CTTATTTCTCTATGCAGTAGTGGAGCAGA-CAGAAAAAAATCCTATCTTCCTGAAGTTGCAGTGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAAAAAAGCCTATCTCCCT-AAGCAGCAGTGG
* * ** * * *
47570174 AGCGGAT-TAAAACCACAGATCTTATCTCCCT-AAG-CAGTAGTGGAGCAGACAGAAAAAAACCA
64 AGCAGATAAAAAAAAACAGATCCTATCTCCCTGAAGTCA-CAGAGGAGCAGA-AGAAAAAAA-CA
* *
47570236 -ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
126 GATCCTATCTCCCT-AAGCTGTAGTGGAGCAGAT
47570269 TAAAATCACA
Statistics
Matches: 394, Mismatches: 55, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
295 1 0.00
296 12 0.03
297 37 0.09
298 327 0.83
299 17 0.04
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (297 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAAAAGCCTATCTCCCTAAGCAGCAGTGGAG
CAGATAAAAAAAAACAGATCCTATCTCCCTGAAGTCACAGAGGAGCAGAAGAAAAAAACAGATCC
TATCTCCCTAAGCTGTAGTGGAGCAGATCGCATCAAGTAATATCTCCCTAAGCAGTAGTGGAGCA
GACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCTT
ATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGG
Found at i:47570309 original size:44 final size:44
Alignment explanation
Indices: 47570152--47570312 Score: 141
Period size: 44 Copynumber: 3.7 Consensus size: 44
47570142 AAAAAAATCC
* * * * *
47570152 TATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAAACACAGATCT
* * * *
47570196 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGA-AAAAAAC-CA-ATCC
1 TATCTCCCTAA--AGT--TGCAGTAGAGCAGATTAAAAACACAGATCT
* * *
47570240 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
1 TATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAAACACAGATCT
*
47570284 TATCTCTCTAAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTAAAGTTGCAGTAGAGCAGAT
47570313 CGCATTAAGT
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
40 6 0.07
41 4 0.04
42 8 0.09
43 2 0.02
44 51 0.57
45 2 0.02
46 8 0.09
47 3 0.03
48 6 0.07
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAAACACAGATCT
Found at i:47570433 original size:129 final size:128
Alignment explanation
Indices: 47569457--47570401 Score: 394
Period size: 129 Copynumber: 7.4 Consensus size: 128
47569447 CAGTCAATTT
* * * * *
47569457 GAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTC
1 GAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA-CACAGATCATATCTC
* * * * *
47569522 CCTAAACAG-T--AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
65 TCT-AA-AGTTACAGTAGAGCAGATCGCATTAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGAC
47569584 A
128 A
* * * *
47569585 GAAAAAAAACCAATCCTAACTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCT
1 G-AAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA-CACAGATCATATCT
* * ** * * * *
47569650 CCCT-AAGCTGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATA
64 CTCTAAAGTTACAGTAGAGCAGATCGCATTAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACA
* *
47569714 GAAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCT
1 G-AAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA-CACAGATCATATCT
* * * * * * *
47569779 CCCTAAGCGGT--AGTGGAGCAGATCGCATCAAGGCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
64 CTCTAA-AGTTACAGTAGAGCAGATCGCATTAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGA-
47569842 C-
127 CA
* ** ** * * * * * *
47569843 GCATCAAGGC--T--TATCTCCCT-AAG-CAGTAGTGGAGCAGATAGAAAAAAAACCGATCCTAT
1 GAAAAAAACCAATCCTATCTCCCTGAAGTTA-CAGTGGAGCAGAT---TAAAACACAGATCATAT
* * * *** ** * *
47569902 CTCCCTGAAGTTACAG-AGGAGCGGATTAAAACCACAGATCTTATCTCACTAAGCAGTAGTGGAG
62 CTCTCTAAAGTTACAGTA-GAGCAGA-TCGCATTA-AG-TCTTATCTCCCTAAGCAATAGTGGAG
47569966 CAGATC-
123 CAGA-CA
* ** ** * * ** * *
47569972 G-CATCAAGTAA---TATCTCCCT-AAG-CAGTAGTGGAGCAGACAGAAAAAAAACCA-ATCCTA
1 GAAAAAAACCAATCCTATCTCCCTGAAGTTA-CAGTGGAGCAG--A-TTAAAACA-CAGATCATA
* * * * *** ** * *
47570030 TCT-TCCTGAAGTTCCAGTGGAGTAGATTAAAACCACAGATCTTATCTTCCTAAGCAGTAGTGGA
61 TCTCT-CTAAAGTTACAGTAGAGCAGA-TCGCATTA-AG-TCTTATCTCCCTAAGCAATAGTGGA
*
47570094 GCCGATC-
122 GCAGA-CA
** ** ** ** * * * *
47570101 GCATCAAGTCTTAT--T-TCTCTATGCAG-T--AGTGGAGCAGA-CAGAAA-A-AAATCCTATCT
1 G-AAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTA-AAACACAGATCATATCT
* * * * *** ** *
47570157 -TCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
64 CT-CTAAAGTTACAGTAGAGCAGA-TCGCATTA-AG-TCTTATCTCCCTAAGCAATAGTGGAGCA
47570221 GACA
125 GACA
* *
47570225 GAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTC
1 GAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA-CACAGATCATATCTC
*
47570290 TCTAAAGTTGCAGTAGAGCAGATCGCATTAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACA
65 TCTAAAGTTACAGTAGAGCAGATCGCATTAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACA
* * * *
47570354 -AAAGAAATCAATCCTATCTCCCTGATGTTACAGTGGAGTAGATTAAAA
1 GAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA
47570402 ACGATGAATC
Statistics
Matches: 682, Mismatches: 92, Indels: 86
0.79 0.11 0.10
Matches are distributed among these distances:
122 1 0.00
123 22 0.03
124 82 0.12
125 19 0.03
126 26 0.04
127 8 0.01
128 52 0.08
129 422 0.62
130 5 0.01
131 14 0.02
132 30 0.04
133 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (128 bp):
GAAAAAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACACAGATCATATCTCT
CTAAAGTTACAGTAGAGCAGATCGCATTAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACA
Found at i:47571299 original size:84 final size:84
Alignment explanation
Indices: 47571199--47571370 Score: 319
Period size: 84 Copynumber: 2.0 Consensus size: 84
47571189 TTATTCATTT
*
47571199 TATTTCTTTTATTTATTTATTTA-TTATTTTTTTAGGAATCAGTTTTAAAAGAAAAAAGGGAAAA
1 TATTTCTTTTATTTATTTATTTATTTA-TTATTTAGGAATCAGTTTTAAAAGAAAAAAGGGAAAA
47571263 AAGGGAAAGAGACTCACCTG
65 AAGGGAAAGAGACTCACCTG
47571283 TATTTCTTTTATTTATTTATTTATTTATTATTTAGGAATCAGTTTTAAAAGAAAAAAGGGAAAAA
1 TATTTCTTTTATTTATTTATTTATTTATTATTTAGGAATCAGTTTTAAAAGAAAAAAGGGAAAAA
47571348 AGGGAAAGAGACTCACCTG
66 AGGGAAAGAGACTCACCTG
47571367 TATT
1 TATT
47571371 GCTTCGTAGC
Statistics
Matches: 86, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
84 83 0.97
85 3 0.03
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (84 bp):
TATTTCTTTTATTTATTTATTTATTTATTATTTAGGAATCAGTTTTAAAAGAAAAAAGGGAAAAA
AGGGAAAGAGACTCACCTG
Found at i:47572164 original size:17 final size:19
Alignment explanation
Indices: 47572144--47572182 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
47572134 TTTTTAACAA
47572144 ATTTTACATTTT-TAT-TT
1 ATTTTACATTTTATATATT
*
47572161 ATTTTAGATTTTATATATT
1 ATTTTACATTTTATATATT
47572180 ATT
1 ATT
47572183 CATATTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 3 0.16
19 5 0.26
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTACATTTTATATATT
Found at i:47572344 original size:38 final size:38
Alignment explanation
Indices: 47572297--47572410 Score: 99
Period size: 38 Copynumber: 3.0 Consensus size: 38
47572287 GTCTTGTAAA
47572297 TTATTTATATTAGATTTTTCATATGTTTTTCCTTTTAG
1 TTATTTATATTAGATTTTTCATATGTTTTTCCTTTTAG
* * * *** * * *
47572335 TTATATATA-TATCATTTTATCCTA-AACTGT-CTTGTAAA
1 TTATTTATATTA-GATTTT-TCATATGTTTTTCCTT-TTAG
47572373 TTATTTATATTAGATTTTTCATATGTTTTTCCTTTTAG
1 TTATTTATATTAGATTTTTCATATGTTTTTCCTTTTAG
47572411 ATTGTTTTAT
Statistics
Matches: 52, Mismatches: 18, Indels: 12
0.63 0.22 0.15
Matches are distributed among these distances:
37 9 0.17
38 34 0.65
39 9 0.17
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.58
Consensus pattern (38 bp):
TTATTTATATTAGATTTTTCATATGTTTTTCCTTTTAG
Found at i:47572456 original size:76 final size:76
Alignment explanation
Indices: 47572260--47572410 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 76
47572250 TGACTTGCTA
*
47572260 TATATATATATCATTTTATCTTAAACTGTCTTGTAAATTATTTATATTAGATTTTTCATATGTTT
1 TATATATATATCATTTTATCCTAAACTGTCTTGTAAATTATTTATATTAGATTTTTCATATGTTT
47572325 TTCCTTTTAGT
66 TTCCTTTTAGT
47572336 TATATATATATCATTTTATCCTAAACTGTCTTGTAAATTATTTATATTAGATTTTTCATATGTTT
1 TATATATATATCATTTTATCCTAAACTGTCTTGTAAATTATTTATATTAGATTTTTCATATGTTT
47572401 TTCCTTTTAG
66 TTCCTTTTAG
47572411 ATTGTTTTAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.56
Consensus pattern (76 bp):
TATATATATATCATTTTATCCTAAACTGTCTTGTAAATTATTTATATTAGATTTTTCATATGTTT
TTCCTTTTAGT
Found at i:47574111 original size:25 final size:24
Alignment explanation
Indices: 47574083--47574143 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
47574073 GGCCAAAATT
*
47574083 AAAAGAAAAAAAAATTAAAACCAGG
1 AAAAGAAAAAAAAATT-AAACCAAG
*
47574108 AAAA-ATAAAAAAAATTAAACCAAT
1 AAAAGA-AAAAAAAATTAAACCAAG
47574132 AAAAGAAAAAAA
1 AAAAGAAAAAAA
47574144 TTAAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 17 0.53
25 15 0.47
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.10
Consensus pattern (24 bp):
AAAAGAAAAAAAAATTAAACCAAG
Found at i:47574135 original size:24 final size:22
Alignment explanation
Indices: 47574088--47574148 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
47574078 AAATTAAAAG
*
47574088 AAAAAAAAATTAAAACCAGGAAAA
1 AAAAAAAAATT-AAACCAAG-AAA
*
47574112 ATAAAAAAAATTAAACCAATAAA
1 A-AAAAAAAATTAAACCAAGAAA
*
47574135 AGAAAAAAATTAAA
1 AAAAAAAAATTAAA
47574149 AGAAAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.36
23 4 0.12
24 7 0.21
25 10 0.30
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.13
Consensus pattern (22 bp):
AAAAAAAAATTAAACCAAGAAA
Found at i:47574135 original size:33 final size:34
Alignment explanation
Indices: 47574077--47574183 Score: 82
Period size: 33 Copynumber: 3.3 Consensus size: 34
47574067 AACATGGGCC
* *
47574077 AAAATTAAAAGAAAA--AAA-AATTAAAACCAGG
1 AAAAATAAAAGAAAATTAAACAAATAAAACCAGG
* * *
47574108 AAAAATAAAA-AAAATTAAACCAATAAAA-GA-A
1 AAAAATAAAAGAAAATTAAACAAATAAAACCAGG
**
47574139 AAAAATTAAAAGAAAATTAATTAAATAAAACCAGG
1 AAAAA-TAAAAGAAAATTAAACAAATAAAACCAGG
* *
47574174 GAAAAGAAAA
1 AAAAATAAAA
47574184 CACTATGCAG
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
30 4 0.07
31 14 0.25
32 9 0.16
33 21 0.37
34 5 0.09
35 4 0.07
ACGTcount: A:0.72, C:0.06, G:0.08, T:0.14
Consensus pattern (34 bp):
AAAAATAAAAGAAAATTAAACAAATAAAACCAGG
Found at i:47581820 original size:50 final size:50
Alignment explanation
Indices: 47581742--47581932 Score: 197
Period size: 50 Copynumber: 3.8 Consensus size: 50
47581732 ATTTGGGTAA
47581742 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
** * * *
47581792 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
47581842 AGAACTCCCATGTAAGACCATATTTGGGATATGGTATTGG--CGGTACAGG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCG-AGATG
* ** * *
47581891 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
47581933 TGTTATTATC
Statistics
Matches: 113, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
48 2 0.02
49 35 0.31
50 76 0.67
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
Found at i:47584074 original size:23 final size:23
Alignment explanation
Indices: 47584040--47584084 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
47584030 TATGCATTGG
*
47584040 TGTAATAGCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
47584063 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
47584085 TATTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:47587189 original size:50 final size:50
Alignment explanation
Indices: 47587123--47587509 Score: 483
Period size: 50 Copynumber: 8.0 Consensus size: 50
47587113 ATGTCTGAGT
* *
47587123 ATGGTGTTTGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
* * *
47587173 ATAGCGTTGGCACCGAGATGAGAGGTCCTATGTAAGACCATGTTTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
*
47587223 ATGGCATTGGCACCGAGAT--GA-G----A-G---GACCATGTCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
* * *
47587262 ATGGCGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGAGAT
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
* * *
47587312 ATGGTGTTTGCACCGAGATGAGAGGTCCCATGTAAGACTATGTCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
*
47587362 ATGGCGTTGGCACCGAGATGAAAGGTCCCATGTAAGACCATGTCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
* * **
47587412 ATGGCGTGGGCACCGGGATGAGAGGTCCCCCGTAAGACCATGTCT-GGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
* * * ** *
47587461 ATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGA
47587510 TATGACATTG
Statistics
Matches: 290, Mismatches: 35, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
39 31 0.11
41 2 0.01
42 2 0.01
43 1 0.00
46 1 0.00
47 2 0.01
48 2 0.01
49 41 0.14
50 208 0.72
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
Found at i:47587262 original size:39 final size:39
Alignment explanation
Indices: 47587208--47587286 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
47587198 TCCTATGTAA
*
47587208 GACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAG
1 GACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
* *
47587247 GACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAG
1 GACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
47587286 G
1 G
47587287 TCCCATGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.20
Consensus pattern (39 bp):
GACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
Found at i:47587325 original size:89 final size:89
Alignment explanation
Indices: 47587158--47587436 Score: 342
Period size: 89 Copynumber: 3.0 Consensus size: 89
47587148 TCCCATGTAA
* * *
47587158 GACCATGTCTGGGACATAGCGTTGGCACCGAGATGAGAGGTCCTATGTAAGACCATGTTTGGGAC
1 GACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
*
47587223 ATGGCATTGGCACCGAGATGAGAG
66 ATGGCGTTGGCACCGAGATGAGAG
* * *
47587247 GACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGAGAT
1 GACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
* *
47587312 ATGGTGTTTGCACCGAGATGAGAGGTCCCATG
66 ATGGCGTTGGCACCGAGAT--GA-G----A-G
* *
47587344 TAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGGTCCCATGTAAGACCATGTCTGG
1 ---GACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
* *
47587409 GACATGGCGTGGGCACCGGGATGAGAG
63 GACATGGCGTTGGCACCGAGATGAGAG
47587436 G
1 G
47587437 TCCCCCGTAA
Statistics
Matches: 161, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
89 76 0.47
91 2 0.01
92 2 0.01
93 1 0.01
96 1 0.01
97 2 0.01
98 2 0.01
100 75 0.47
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (89 bp):
GACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
ATGGCGTTGGCACCGAGATGAGAG
Found at i:47589092 original size:23 final size:23
Alignment explanation
Indices: 47589060--47589103 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
47589050 GAGAGAAATG
*
47589060 TAATATCCCGAAAATTACTACTA
1 TAATACCCCGAAAATTACTACTA
*
47589083 TAATACCCCGAAATTTACTAC
1 TAATACCCCGAAAATTACTAC
47589104 AGTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (23 bp):
TAATACCCCGAAAATTACTACTA
Found at i:47590980 original size:23 final size:22
Alignment explanation
Indices: 47590954--47590999 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
47590944 GAAATTGATT
47590954 TGAATTG-TGAACATGAGAAATTG
1 TGAATTGATGAA-ATGA-AAATTG
47590977 TGAATTGAATGAAATGAAAATTG
1 TGAATTG-ATGAAATGAAAATTG
47591000 AGCTTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 13 0.62
24 4 0.19
25 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.30
Consensus pattern (22 bp):
TGAATTGATGAAATGAAAATTG
Found at i:47599232 original size:29 final size:29
Alignment explanation
Indices: 47599189--47599419 Score: 243
Period size: 29 Copynumber: 7.9 Consensus size: 29
47599179 AGTGTGTTAA
** *
47599189 CGATGGTCGAAACCATCCTTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
47599218 CGATGGTTGTTACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
** *
47599247 CGATGGTCGAAACCATCCC-TTTCAATTAAT
1 CGATGGTCGTCACCATCCCTTTTC-A-TATT
*
47599277 CGATGGTCGTCACTATCCCTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
*
47599307 -GATGGTCGTCACCGTCCCTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* ** * *
47599336 -GATAGTCGAAACTATCCCTTTTCATAAT
1 CGATGGTCGTCACCATCCCTTTTCATATT
47599364 CGATGGTCGTCACCATCCCTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* *
47599394 TGATGGTCTTCACCATCCCTTTTCAT
1 CGATGGTCGTCACCATCCCTTTTCAT
47599420 TAATCGGTAA
Statistics
Matches: 169, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
28 5 0.03
29 114 0.67
30 46 0.27
31 4 0.02
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:47599344 original size:88 final size:88
Alignment explanation
Indices: 47599185--47599476 Score: 317
Period size: 88 Copynumber: 3.3 Consensus size: 88
47599175 ACAAAGTGTG
** * * *
47599185 TTAA-CGATGGTCGAAACCATCCTTTTTCATA-TTCGATGGTTGTTACCATCCCTTTTCATATTC
1 TTAATCGATGGTCGTCACCATCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATATTC
*
47599248 GATGGTCGAAACCATCCC-TTTCAA
65 GATAGTCGAAACCATCCCTTTTC-A
* *
47599272 TTAATCGATGGTCGTCACTATCCCTTTTCATAGTTGATGGTCGTCACCGTCCCTTTTCATAGTT-
1 TTAATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATA-TTC
*
47599336 GATAGTCGAAACTATCCCTTTTCA
65 GATAGTCGAAACCATCCCTTTTCA
* *
47599360 -TAATCGATGGTCGTCACCATCCCTTTTCATAGTTTGATGGTCTTCACCATCCCTTTTCATTAAT
1 TTAATCGATGGTCGTCACCATCCCTTTTCATAG-TTGATGGTCGTCACCATCCCTTTTCA-TATT
* * * * *
47599424 CGGTAATCGAAACTATACATTTTCA
64 CGATAGTCGAAACCATCCCTTTTCA
* ***
47599449 -TAATAGATGGTCAAAACCATCCCTTTTC
1 TTAATCGATGGTCGTCACCATCCCTTTTC
47599477 GTTGATTGAA
Statistics
Matches: 177, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
87 35 0.20
88 88 0.50
89 54 0.31
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (88 bp):
TTAATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTCG
ATAGTCGAAACCATCCCTTTTCA
Found at i:47599475 original size:29 final size:29
Alignment explanation
Indices: 47599189--47599476 Score: 236
Period size: 29 Copynumber: 9.8 Consensus size: 29
47599179 AGTGTGTTAA
* *
47599189 CGATGGTCGAAACCATCCTTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* ** *
47599218 CGATGGTTGTTACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
47599247 CGATGGTCGAAACCATCCC-TTTCAATTAAT
1 CGATGGTCGAAACCATCCCTTTTC-A-TAAT
** * *
47599277 CGATGGTCGTCACTATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* ** * *
47599306 TGATGGTCGTCACCGTCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
47599335 TGATAGTCGAAACTATCCCTTTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
** *
47599364 CGATGGTCGTCACCATCCCTTTTCATAGTT
1 CGATGGTCGAAACCATCCCTTTTCATA-AT
* ***
47599394 TGATGGTCTTCACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TAAT
* ** * * *
47599424 CGGTAATCGAAACTATACATTTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* *
47599453 AGATGGTCAAAACCATCCCTTTTC
1 CGATGGTCGAAACCATCCCTTTTC
47599477 GTTGATTGAA
Statistics
Matches: 206, Mismatches: 48, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
28 4 0.02
29 136 0.66
30 60 0.29
31 6 0.03
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:47601763 original size:23 final size:23
Alignment explanation
Indices: 47601733--47601780 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
47601723 TGCATGAATT
47601733 TTCCATAACTACACAAGTGCCTC
1 TTCCATAACTACACAAGTGCCTC
47601756 TTCCATAACTACACAAGTGCCTC
1 TTCCATAACTACACAAGTGCCTC
47601779 TT
1 TT
47601781 GTATTGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.29
Consensus pattern (23 bp):
TTCCATAACTACACAAGTGCCTC
Found at i:47605903 original size:25 final size:25
Alignment explanation
Indices: 47605841--47605907 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
47605831 GACACACCAC
* *
47605841 AGCTCTTATGAGCTTACCGATTCAT
1 AGCTCGTATGAGCATACCGATTCAT
47605866 AGCTCACG-A-GAGCATACCGATTCAT
1 AGCT--CGTATGAGCATACCGATTCAT
47605891 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
47605908 ATGTACAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 2 0.06
24 1 0.03
25 31 0.86
26 1 0.03
27 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAT
Found at i:47613723 original size:15 final size:15
Alignment explanation
Indices: 47613703--47613731 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47613693 GGAAAAGGTG
47613703 GCAGTGGCCTTCCTA
1 GCAGTGGCCTTCCTA
47613718 GCAGTGGCCTTCCT
1 GCAGTGGCCTTCCT
47613732 TCAACTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.34, G:0.28, T:0.28
Consensus pattern (15 bp):
GCAGTGGCCTTCCTA
Found at i:47635102 original size:130 final size:130
Alignment explanation
Indices: 47634864--47635127 Score: 483
Period size: 130 Copynumber: 2.0 Consensus size: 130
47634854 TCGTGTAATT
*
47634864 AAATGCTGCATATGTGTTTTAGTTTAATTATACTTGTATTTTAAATTGATATACATACATACCGG
1 AAATCCTGCATATGTGTTTTAGTTTAATTATACTTGTATTTTAAATTGATATACATACATACCGG
*
47634929 CTGCATATCCAACAACGTACAACTATTACCGAGCTTCATTTGAACCTTAGGAATTCGTAGGATTC
66 CTGCATATCCAACAACGTACAACTATTACCGAGCTTCATTTGAACCTTAGGAATTCGTAAGATTC
47634994 AAATCCTGCATATGTGTTTTAGTTTAATTATACTTGTATTTTAAATTGATATACATACATACCGG
1 AAATCCTGCATATGTGTTTTAGTTTAATTATACTTGTATTTTAAATTGATATACATACATACCGG
* * *
47635059 CTGCATATCTAACGACGTACAACTATTACCGAGCTTCGTTTGAACCTTAGGAATTCGTAAGATTC
66 CTGCATATCCAACAACGTACAACTATTACCGAGCTTCATTTGAACCTTAGGAATTCGTAAGATTC
47635124 AAAT
1 AAAT
47635128 GACATGTTAT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (130 bp):
AAATCCTGCATATGTGTTTTAGTTTAATTATACTTGTATTTTAAATTGATATACATACATACCGG
CTGCATATCCAACAACGTACAACTATTACCGAGCTTCATTTGAACCTTAGGAATTCGTAAGATTC
Found at i:47639694 original size:15 final size:16
Alignment explanation
Indices: 47639674--47639704 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47639664 TTACCATATA
47639674 ATTTT-GTATAAATTT
1 ATTTTGGTATAAATTT
47639689 ATTTTGGTATAAATTT
1 ATTTTGGTATAAATTT
47639705 GGATATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
ATTTTGGTATAAATTT
Found at i:47645493 original size:29 final size:28
Alignment explanation
Indices: 47645435--47645512 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
47645425 TAACAAAAAA
47645435 TTATTTTTTAAAT-TATGTTTTGATTATT
1 TTATTTTTTAAATATAT-TTTTGATTATT
*
47645463 TTATTTTTTAAATATATTTTAT-CTTACTT
1 TTATTTTTTAAATATATTTT-TGATTA-TT
*
47645492 TTAACTTTTTAAA-ATATTTTT
1 TT-ATTTTTTAAATATATTTTT
47645513 TCAATTTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 20 0.45
29 15 0.34
30 9 0.20
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (28 bp):
TTATTTTTTAAATATATTTTTGATTATT
Found at i:47649261 original size:14 final size:15
Alignment explanation
Indices: 47649222--47649265 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
47649212 AACAATTGAA
*
47649222 ATATTTTTTTACAAT
1 ATATTTATTTACAAT
47649237 ATATTTATTTACATAATT
1 ATATTTATTTAC--AA-T
47649255 ATATTTATTTA
1 ATATTTATTTA
47649266 AATTTCTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 11 0.44
17 2 0.08
18 12 0.48
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATTTATTTACAAT
Found at i:47654762 original size:85 final size:85
Alignment explanation
Indices: 47654605--47654763 Score: 183
Period size: 85 Copynumber: 1.9 Consensus size: 85
47654595 TCACCATAGT
* * * * * * * * *
47654605 TAAGATAATGTTAGAGATCATGCCAGAATTCAATTTTGAATGATCTTGTGACATAGCTGCAATAA
1 TAAGACAATGTCAGAGATCAGGCCAGAATCCAATTTCGAATGATCCTGTGACATACCTACAACAA
47654670 CAAAAGTATTTCAAAACACG
66 CAAAAGTATTTCAAAACACG
* * ** *
47654690 TAAGACAATGTCAGAGATCAGGTCAGAATCCAATTTCGGATGATCCTGTGATGTACCTATAACAA
1 TAAGACAATGTCAGAGATCAGGCCAGAATCCAATTTCGAATGATCCTGTGACATACCTACAACAA
*
47654755 CACAAGTAT
66 CAAAAGTAT
47654764 GTTGAGCATT
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
85 59 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (85 bp):
TAAGACAATGTCAGAGATCAGGCCAGAATCCAATTTCGAATGATCCTGTGACATACCTACAACAA
CAAAAGTATTTCAAAACACG
Found at i:47662306 original size:111 final size:112
Alignment explanation
Indices: 47662105--47662327 Score: 439
Period size: 111 Copynumber: 2.0 Consensus size: 112
47662095 GTATAAATTT
47662105 TGTTTTATTATTAATTTTGCTACTATTTTAAAGGCATTTGCTTGCAAAGTTGCAATTATCTTAGT
1 TGTTTTATTATTAATTTTGCTACTATTTTAAAGGCATTTGCTTGCAAAGTTGCAATTATCTTAGT
47662170 GTTATTGAAGTATAAAGACTTTTTTAATGTATTTTCAATTTGTTGAG
66 GTTATTGAAGTATAAAGACTTTTTTAATGTATTTTCAATTTGTTGAG
47662217 TGTTTTATTA-TAATTTTGCTACTATTTTAAAGGCATTTGCTTGCAAAGTTGCAATTATCTTAGT
1 TGTTTTATTATTAATTTTGCTACTATTTTAAAGGCATTTGCTTGCAAAGTTGCAATTATCTTAGT
47662281 GTTATTGAAGTATAAAGACTTTTTTAATGTATTTTCAATTTGTTGAG
66 GTTATTGAAGTATAAAGACTTTTTTAATGTATTTTCAATTTGTTGAG
47662328 AAACATTTAT
Statistics
Matches: 111, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
111 101 0.91
112 10 0.09
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (112 bp):
TGTTTTATTATTAATTTTGCTACTATTTTAAAGGCATTTGCTTGCAAAGTTGCAATTATCTTAGT
GTTATTGAAGTATAAAGACTTTTTTAATGTATTTTCAATTTGTTGAG
Found at i:47666452 original size:30 final size:30
Alignment explanation
Indices: 47666416--47666476 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
47666406 TAGCAGAGTC
47666416 TCCACTAAAATTGCATTATCACATTCTAGT
1 TCCACTAAAATTGCATTATCACATTCTAGT
47666446 TCCACTAAAATTGCATTATCACATTCTAGT
1 TCCACTAAAATTGCATTATCACATTCTAGT
47666476 T
1 T
47666477 ATACTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
TCCACTAAAATTGCATTATCACATTCTAGT
Found at i:47672363 original size:21 final size:24
Alignment explanation
Indices: 47672338--47672380 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
47672328 AAAGTTTTTA
47672338 TAAATTT-A-TAATAT-TAAATTT
1 TAAATTTAATTAATATATAAATTT
47672359 TAAATTTAATTAATATATAAAT
1 TAAATTTAATTAATATATAAAT
47672381 GTAACACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 1 0.05
23 6 0.32
24 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TAAATTTAATTAATATATAAATTT
Found at i:47672556 original size:11 final size:11
Alignment explanation
Indices: 47672526--47672564 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
47672516 TACTTTCGTT
47672526 ATTATGTAAT-A
1 ATTAT-TAATAA
*
47672537 ATGATTAATAA
1 ATTATTAATAA
47672548 ATTATTAATAA
1 ATTATTAATAA
47672559 ATTATT
1 ATTATT
47672565 TTAATGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (11 bp):
ATTATTAATAA
Found at i:47673170 original size:76 final size:74
Alignment explanation
Indices: 47673104--47673281 Score: 236
Period size: 76 Copynumber: 2.3 Consensus size: 74
47673094 TTTATTGTAG
*
47673104 TTAAA-TAACAAATTTAATATTCAAATGTCATCATTAATGTTATCAACTAAAGTGATATTTGATA
1 TTAAATTAA-AAATTCAATATTCAAA-GTCATCATTAATGTTATCAACTAAAGTGATATTTGATA
47673168 AA-TTAAAAAA
64 AATTTAAAAAA
*
47673178 TTAAATGTTTAAGAATTCAATATTCAAAGTCATCATTAATGTTATCAACTAAAGTGATATTTGAT
1 TTAAA---TTAAAAATTCAATATTCAAAGTCATCATTAATGTTATCAACTAAAGTGATATTTGAT
47673243 AAA-TTAAAAAA
63 AAATTTAAAAAA
*
47673254 TTAAATGTTTAAGAATTCAATATTCAAA
1 TTAAA---TTAAAAATTCAATATTCAAA
47673282 ATTTTAGTAT
Statistics
Matches: 98, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
74 5 0.05
76 76 0.78
77 14 0.14
78 3 0.03
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (74 bp):
TTAAATTAAAAATTCAATATTCAAAGTCATCATTAATGTTATCAACTAAAGTGATATTTGATAAA
TTTAAAAAA
Found at i:47673917 original size:6 final size:7
Alignment explanation
Indices: 47673898--47673922 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47673888 TAAAAAATTC
47673898 TATTTTT
1 TATTTTT
47673905 TATTTTT
1 TATTTTT
47673912 TATTTTT
1 TATTTTT
47673919 TATT
1 TATT
47673923 ATGAATGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:47678903 original size:28 final size:27
Alignment explanation
Indices: 47678854--47678943 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 27
47678844 TGTCCTAGTA
* *
47678854 GACTTA-CTCGTGTTTACTGTCCTGACG
1 GACTTACCTTGTGTTTACTGTCC-AACG
*
47678881 GACTTACCTTGTGTTTACTGTCCCA-G
1 GACTTACCTTGTGTTTACTGTCCAACG
* *
47678907 TGAACTTACCTTGCGTTTATTGTCCCAACG
1 -G-ACTTACCTTGTGTTTACTGT-CCAACG
47678937 GACTTAC
1 GACTTAC
47678944 TCTGTTTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
26 1 0.02
27 8 0.15
28 39 0.74
29 4 0.08
30 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.37
Consensus pattern (27 bp):
GACTTACCTTGTGTTTACTGTCCAACG
Found at i:47680631 original size:23 final size:23
Alignment explanation
Indices: 47680604--47680649 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
47680594 AATGCTTCTG
47680604 CAAATCCTAAAGTGCTCATGCTC
1 CAAATCCTAAAGTGCTCATGCTC
47680627 CAAATCCTAAAGTGCTCATGCTC
1 CAAATCCTAAAGTGCTCATGCTC
47680650 TAACTCTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (23 bp):
CAAATCCTAAAGTGCTCATGCTC
Found at i:47687149 original size:43 final size:41
Alignment explanation
Indices: 47687072--47687202 Score: 120
Period size: 41 Copynumber: 3.1 Consensus size: 41
47687062 AAACACATAT
* * * * * *
47687072 ATCACATACAATGCC-ATATCCCATATATGATCTTACATGTT
1 ATCACATACGATGCCAATATCCCAGACAGGGTCTTACATG-A
**
47687113 ATCACATATCGATGCCTCTATCCCAGACAGGGTCTTACATGA
1 ATCACATA-CGATGCCAATATCCCAGACAGGGTCTTACATGA
* * * *
47687155 ATCATATACGGTGCCAATATCCCAGACATGGTCTTACACGAA
1 ATCACATACGATGCCAATATCCCAGACAGGGTCTTACATG-A
47687197 ATCACA
1 ATCACA
47687203 CCTTGAAAGT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
41 35 0.48
42 19 0.26
43 19 0.26
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (41 bp):
ATCACATACGATGCCAATATCCCAGACAGGGTCTTACATGA
Found at i:47692936 original size:51 final size:51
Alignment explanation
Indices: 47692876--47692978 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
47692866 AAGACCTAAG
47692876 AAAGGTTTTACTTGGTGATTATTAATTGAATTGACTATGATTGTACAATTT
1 AAAGGTTTTACTTGGTGATTATTAATTGAATTGACTATGATTGTACAATTT
47692927 AAAGGTTTTACTTGGTGATTATTAATTGAATTGACTATGATTGTACAATTT
1 AAAGGTTTTACTTGGTGATTATTAATTGAATTGACTATGATTGTACAATTT
47692978 A
1 A
47692979 TGTTTAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (51 bp):
AAAGGTTTTACTTGGTGATTATTAATTGAATTGACTATGATTGTACAATTT
Found at i:47698747 original size:25 final size:26
Alignment explanation
Indices: 47698701--47698749 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
47698691 TTCACCATAT
* * *
47698701 AGGCTTTCCAGATAACTTTGCCACTA
1 AGGCTTCCCAAATAACTATGCCACTA
47698727 AGGCTTCCCAAATAA-TATGCCAC
1 AGGCTTCCCAAATAACTATGCCAC
47698750 ATAGTCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (26 bp):
AGGCTTCCCAAATAACTATGCCACTA
Found at i:47698792 original size:50 final size:50
Alignment explanation
Indices: 47698721--47698832 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 50
47698711 GATAACTTTG
* ** * *
47698721 CCACTAAGGCTTCCCAAATAATATGCCACATAGTCTTTTCAGATAATTAC
1 CCACAAAGGCTTCCCAAATAATATGCCACATAGGATTTTCAGATAACTAA
* * * **
47698771 CCACAAAGGCTTCCTAGATAATATGTCACATAGGATTTTTGGATAACTAA
1 CCACAAAGGCTTCCCAAATAATATGCCACATAGGATTTTCAGATAACTAA
47698821 CCACAAAGGCTT
1 CCACAAAGGCTT
47698833 GTTTGGTTTC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (50 bp):
CCACAAAGGCTTCCCAAATAATATGCCACATAGGATTTTCAGATAACTAA
Found at i:47705062 original size:62 final size:62
Alignment explanation
Indices: 47704985--47705105 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
47704975 ATAAATTCTT
47704985 GGTTATAAATCAAAAGGTATGTATAGTATATGTATATATATATATATACATAAGGTTCGCTC
1 GGTTATAAATCAAAAGGTATGTATAGTATATGTATATATATATATATACATAAGGTTCGCTC
47705047 GGTTATAAATCAAAAGGTATGTATAGTATATGTATATATATATATATACATAAGGTTCG
1 GGTTATAAATCAAAAGGTATGTATAGTATATGTATATATATATATATACATAAGGTTCG
47705106 AAGGTATATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (62 bp):
GGTTATAAATCAAAAGGTATGTATAGTATATGTATATATATATATATACATAAGGTTCGCTC
Found at i:47705403 original size:75 final size:75
Alignment explanation
Indices: 47705265--47705459 Score: 219
Period size: 75 Copynumber: 2.6 Consensus size: 75
47705255 TATATTTACA
* * * ** *
47705265 TGTATATGTTCTTGTATTGAGTTTGGGTATGATTTTTATGTAAGTTTATATGAAATTTGGAAATG
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAAATTCAGAAATA
47705330 CAAATACAAT
66 CAAATACAAT
* * * **
47705340 TGTATATGTTATTATTTTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGGTTCAGAAATA
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAAATTCAGAAATA
* * *
47705405 TAAATATATT
66 CAAATACAAT
* * * * *
47705415 TGAATATGTTCTTGTGTTAAATTTAGGTATGACTATTATATAAGT
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGT
47705460 GTGTGTGAGT
Statistics
Matches: 99, Mismatches: 21, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
75 99 1.00
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.47
Consensus pattern (75 bp):
TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAAATTCAGAAATA
CAAATACAAT
Found at i:47705602 original size:128 final size:128
Alignment explanation
Indices: 47705385--47705640 Score: 467
Period size: 128 Copynumber: 2.0 Consensus size: 128
47705375 TTATATAAGT
*
47705385 TTATATGAGGTTCAGAAATATAAATATATTTGAATATGTTCTTGTGTTAAATTTAGGTATGACTA
1 TTATATGAGGTTCAGAAATATAAATATATTTGAATATGTTCTTGCGTTAAATTTAGGTATGACTA
* *
47705450 TTATATAAGTGTGTGTGAGTCTCGAATATATACAAACTTATATATGTACATGTTTATGTATTG
66 TTATATAAGTGTGTATGAGACTCGAATATATACAAACTTATATATGTACATGTTTATGTATTG
* *
47705513 TTATATGAGGTTTAGAAATATAAATATATTTGAATATGTTCTTGCGTTAAATTTAGGTATGACTT
1 TTATATGAGGTTCAGAAATATAAATATATTTGAATATGTTCTTGCGTTAAATTTAGGTATGACTA
47705578 TTATATAAGTGTGTATGAGACTCGAATATATACAAACTTATATATGTACATGTTTATGTATTG
66 TTATATAAGTGTGTATGAGACTCGAATATATACAAACTTATATATGTACATGTTTATGTATTG
47705641 AATTTAGCTA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (128 bp):
TTATATGAGGTTCAGAAATATAAATATATTTGAATATGTTCTTGCGTTAAATTTAGGTATGACTA
TTATATAAGTGTGTATGAGACTCGAATATATACAAACTTATATATGTACATGTTTATGTATTG
Found at i:47705809 original size:85 final size:85
Alignment explanation
Indices: 47705694--47705862 Score: 329
Period size: 85 Copynumber: 2.0 Consensus size: 85
47705684 ATGTAAGTAC
47705694 ATTCATGTAGAAGCTTTTGAATGGAATTAAAGGTACAAAATTATTAGCTTGGATTACTTTAAGAT
1 ATTCATGTAGAAGCTTTTGAATGGAATTAAAGGTACAAAATTATTAGCTTGGATTACTTTAAGAT
47705759 GTTCGAATGTATGATATTAT
66 GTTCGAATGTATGATATTAT
*
47705779 ATTCATGTAGAAGCTTTTGAATGGAATTAAAGGTACAAAATTGTTAGCTTGGATTACTTTAAGAT
1 ATTCATGTAGAAGCTTTTGAATGGAATTAAAGGTACAAAATTATTAGCTTGGATTACTTTAAGAT
47705844 GTTCGAATGTATGATATTA
66 GTTCGAATGTATGATATTA
47705863 ATAGTAGGCC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (85 bp):
ATTCATGTAGAAGCTTTTGAATGGAATTAAAGGTACAAAATTATTAGCTTGGATTACTTTAAGAT
GTTCGAATGTATGATATTAT
Found at i:47705894 original size:2 final size:2
Alignment explanation
Indices: 47705887--47705911 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47705877 TGTATCAACT
47705887 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
47705912 GATCATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47705968 original size:61 final size:62
Alignment explanation
Indices: 47705902--47706023 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
47705892 ATATATATAT
47705902 ATATATATATGATCATATGTATAA-TTAAGTTATTGAGCTGGATTCAATATCTGAACTTTAC
1 ATATATATATGATCATATGTATAATTTAAGTTATTGAGCTGGATTCAATATCTGAACTTTAC
*
47705963 ATATATATATGATCATATGTATAATTTAAGTTATTGAGCTGGATTCAATATTTGAACTTTA
1 ATATATATATGATCATATGTATAATTTAAGTTATTGAGCTGGATTCAATATCTGAACTTTA
47706024 TATACCTATG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 24 0.41
62 35 0.59
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (62 bp):
ATATATATATGATCATATGTATAATTTAAGTTATTGAGCTGGATTCAATATCTGAACTTTAC
Found at i:47718259 original size:16 final size:17
Alignment explanation
Indices: 47718238--47718270 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47718228 TCAATTAATC
47718238 TAATT-AACCAAAAATT
1 TAATTAAACCAAAAATT
*
47718254 TAATTAAACTAAAAATT
1 TAATTAAACCAAAAATT
47718271 AACCAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATTAAACCAAAAATT
Found at i:47719024 original size:22 final size:22
Alignment explanation
Indices: 47718996--47719037 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47718986 TGTTCGTCAC
47718996 TCGGTGTCGCGACACCATAGGA
1 TCGGTGTCGCGACACCATAGGA
* *
47719018 TCGGTGTCGTGACACTATAG
1 TCGGTGTCGCGACACCATAG
47719038 TCGTCCCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (22 bp):
TCGGTGTCGCGACACCATAGGA
Found at i:47726015 original size:100 final size:100
Alignment explanation
Indices: 47725899--47726083 Score: 318
Period size: 100 Copynumber: 1.8 Consensus size: 100
47725889 TGCAACTTCT
* *
47725899 TTCTTTTCCCAAAACTTGTACAACTTTTACAAGGAAAAAATATTT-TAGTTTAAATCTAGGAATT
1 TTCTTTTCCCAAAACTTGTACAACTTTTACAAGGAAAAAATATTTAAAGTTTAAATCTAGGAAAT
*
47725963 AGGCTTGATGGTACTTTTACCCCATCAACTTTTTC
66 ACGCTTGATGGTACTTTTACCCCATCAACTTTTTC
47725998 TTCTTTTCCCTAAAACTTGTACAACTTTTACAAGGAAAAAATATTTCAAAGTTTAAATCTAGGAA
1 TTCTTTTCCC-AAAACTTGTACAACTTTTACAAGGAAAAAATATTT-AAAGTTTAAATCTAGGAA
47726063 ATACGCTTGATGGTACTTTTA
64 ATACGCTTGATGGTACTTTTA
47726084 GCTAGACCTG
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
99 10 0.12
100 35 0.44
102 35 0.44
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (100 bp):
TTCTTTTCCCAAAACTTGTACAACTTTTACAAGGAAAAAATATTTAAAGTTTAAATCTAGGAAAT
ACGCTTGATGGTACTTTTACCCCATCAACTTTTTC
Found at i:47726262 original size:23 final size:23
Alignment explanation
Indices: 47726233--47726293 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
47726223 GCCCGGCCCG
* *
47726233 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAATTAAAATTAAAACTAA
47726256 TTTTTAA-TAAAATTAAAACTAA
1 TTTTTAATTAAAATTAAAACTAA
47726278 TTTTT-ATTAAAATTAA
1 TTTTTAATTAAAATTAA
47726294 TTGTTAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 27 0.77
23 7 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTTAATTAAAATTAAAACTAA
Found at i:47726306 original size:16 final size:16
Alignment explanation
Indices: 47726269--47726308 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
47726259 TTAATAAAAT
* * *
47726269 TAAAACTAATTTTTAT
1 TAAAATTAATTGTTAG
47726285 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
47726301 TAAAATTA
1 TAAAATTA
47726309 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:47726308 original size:22 final size:20
Alignment explanation
Indices: 47726241--47726308 Score: 54
Period size: 22 Copynumber: 3.4 Consensus size: 20
47726231 CGTTTTTAAT
*
47726241 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAATTA-ATTTT-A
*
47726263 TAAAATTAAAACTAATTTT-
1 TAAAATTAAAATTAATTTTA
47726282 T---ATTAAAATTAATTGTTA
1 TAAAATTAAAATTAATT-TTA
47726300 GTAAAATTA
1 -TAAAATTA
47726309 TCAAATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
16 12 0.32
17 2 0.05
19 2 0.05
21 4 0.11
22 17 0.46
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAAATTAAAATTAATTTTA
Found at i:47726393 original size:9 final size:9
Alignment explanation
Indices: 47726381--47726406 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47726371 ATTATCAAAT
47726381 TATTAATTG
1 TATTAATTG
47726390 TATTAATTG
1 TATTAATTG
47726399 TATTAATT
1 TATTAATT
47726407 TACGCCTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (9 bp):
TATTAATTG
Found at i:47726495 original size:15 final size:15
Alignment explanation
Indices: 47726475--47726513 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
47726465 CAATACAACG
47726475 AAATAAACTTAAAAT
1 AAATAAACTTAAAAT
47726490 AAATAAACTTAAAAT
1 AAATAAACTTAAAAT
*
47726505 AAAAAAACT
1 AAATAAACT
47726514 ATTACATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAACTTAAAAT
Found at i:47727112 original size:14 final size:15
Alignment explanation
Indices: 47727093--47727124 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47727083 TTTGCAATAA
47727093 AAATTTT-AAAACTT
1 AAATTTTGAAAACTT
47727107 AAATTTTGAAAACTT
1 AAATTTTGAAAACTT
47727122 AAA
1 AAA
47727125 AATTTGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTTGAAAACTT
Found at i:47734980 original size:24 final size:24
Alignment explanation
Indices: 47734953--47735015 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
47734943 CTTGGATTTC
*
47734953 TCTTCCCTGTTCATCTAAAATAAT
1 TCTTCCTTGTTCATCTAAAATAAT
47734977 TCTTCCTTGTTCATCTAAAATAAT
1 TCTTCCTTGTTCATCTAAAATAAT
*
47735001 TCTTCCTTGGTCATC
1 TCTTCCTTGTTCATC
47735016 CTTTTCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.06, T:0.44
Consensus pattern (24 bp):
TCTTCCTTGTTCATCTAAAATAAT
Found at i:47744990 original size:22 final size:22
Alignment explanation
Indices: 47744962--47745007 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
47744952 GAACTACGGA
47744962 AGACAGCGAGGTAGTCGTAATT
1 AGACAGCGAGGTAGTCGTAATT
47744984 AGACAGCGAGGTAGTCGTAATT
1 AGACAGCGAGGTAGTCGTAATT
47745006 AG
1 AG
47745008 TCGTAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.22
Consensus pattern (22 bp):
AGACAGCGAGGTAGTCGTAATT
Found at i:47749061 original size:22 final size:22
Alignment explanation
Indices: 47749033--47749077 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
47749023 AACACAACTG
47749033 GTGCTCAACGACCTAATGTTGA
1 GTGCTCAACGACCTAATGTTGA
47749055 GTGCTCAACGACCTAATGTTGA
1 GTGCTCAACGACCTAATGTTGA
47749077 G
1 G
47749078 CGAGATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (22 bp):
GTGCTCAACGACCTAATGTTGA
Found at i:47754049 original size:27 final size:27
Alignment explanation
Indices: 47754019--47754208 Score: 107
Period size: 27 Copynumber: 7.0 Consensus size: 27
47754009 TTTCATCTCT
47754019 TAGGGGTATAATAG-TCATTTTACCCTA
1 TAGGGGTAT-ATAGATCATTTTACCCTA
* * *
47754046 TAGGGGTATTTCGATCATTTTACTCTA
1 TAGGGGTATATAGATCATTTTACCCTA
* * * * *
47754073 TGGGGGTATTTCGATCATTCTACTCTA
1 TAGGGGTATATAGATCATTTTACCCTA
* * * * * *
47754100 TGGGGGTATTTCGGTTATTTCACCCTA
1 TAGGGGTATATAGATCATTTTACCCTA
* * *
47754127 TGGGGGTATTTCA-ATTATTTTACCCTA
1 TAGGGGTATAT-AGATCATTTTACCCTA
* * * *
47754154 T-GAGGGTATTTCGGTTATTTTACCCTA
1 TAG-GGGTATATAGATCATTTTACCCTA
* * * *
47754181 TAGGGGTATTTCGGTCATTTTATCCTA
1 TAGGGGTATATAGATCATTTTACCCTA
47754208 T
1 T
47754209 TTTGGGGCCT
Statistics
Matches: 141, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.02
27 137 0.97
28 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
TAGGGGTATATAGATCATTTTACCCTA
Found at i:47754091 original size:54 final size:53
Alignment explanation
Indices: 47754033--47754208 Score: 226
Period size: 54 Copynumber: 3.3 Consensus size: 53
47754023 GGTATAATAG
* * *
47754033 TCATTTTACCCTATAGGGGTATTTCGATCATTTTACTCTATGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGGTTATTTTACCCTATGGGGGTATTTCGA
* * * *
47754087 TCATTCTACTCTATGGGGGTATTTCGGTTATTTCACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTAT-GGGGTATTTCGGTTATTTTACCCTATGGGGGTATTTCGA
* * *
47754141 TTATTTTACCCTATGAGGGTATTTCGGTTATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATG-GGGTATTTCGGTTATTTTACCCTATGGGGGTATTTCGA
*
47754195 TCATTTTATCCTAT
1 TCATTTTACCCTAT
47754209 TTTGGGGCCT
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 103 0.99
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGTATTTCGGTTATTTTACCCTATGGGGGTATTTCGA
Found at i:47754208 original size:81 final size:81
Alignment explanation
Indices: 47754032--47754208 Score: 237
Period size: 81 Copynumber: 2.2 Consensus size: 81
47754022 GGGTATAATA
* * * *
47754032 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACTCTATGGGGGTATTTCGATCATTCTACT
1 GTCATTTTACCCTATAGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGATCATTCTACC
*
47754097 CTATGGGGGTATTTCG
66 CTATAGGGGTATTTCG
* * * * * * *
47754113 GTTATTTCACCCTATGGGGGTATTTCAATTATTTTACCCTATGAGGGTATTTCGGTTATTTTACC
1 GTCATTTTACCCTATAGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGATCATTCTACC
47754178 CTATAGGGGTATTTCG
66 CTATAGGGGTATTTCG
*
47754194 GTCATTTTATCCTAT
1 GTCATTTTACCCTAT
47754209 TTTGGGGCCT
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGATCATTCTACC
CTATAGGGGTATTTCG
Found at i:47759420 original size:3 final size:3
Alignment explanation
Indices: 47759372--47759404 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47759362 ATTATAAAGT
47759372 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
47759405 AAGAAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47759481 original size:14 final size:16
Alignment explanation
Indices: 47759464--47759498 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
47759454 ATGCAAAATG
47759464 AGAAAG-AAA-AAAAA
1 AGAAAGAAAAGAAAAA
47759478 AGAAAGAAAAGAAAAA
1 AGAAAGAAAAGAAAAA
47759494 AGAAA
1 AGAAA
47759499 AGAAGAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 3 0.16
16 10 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAAGAAAAA
Found at i:47760638 original size:18 final size:18
Alignment explanation
Indices: 47760615--47760707 Score: 80
Period size: 18 Copynumber: 4.7 Consensus size: 18
47760605 GAAATGGCCA
47760615 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
47760633 AGATGAGAAATGTTGAAT-TGG
1 AGATGAGAAA---TGAATAT-G
47760654 CAAAGATGAGAAATGAATATG
1 ---AGATGAGAAATGAATATG
*
47760675 AGATGAGAAATGTGATATG
1 AGATGAGAAATG-AATATG
*
47760694 AAATGATGAAATGA
1 AGATGA-GAAATGA
47760708 GATGTGAAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
18 22 0.35
19 10 0.16
20 7 0.11
21 12 0.19
22 1 0.02
24 10 0.16
ACGTcount: A:0.47, C:0.01, G:0.28, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:47760662 original size:42 final size:42
Alignment explanation
Indices: 47760603--47760687 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
47760593 GTGATTGATA
*
47760603 TTGAAATGGCCAAGATGAGAAATGAATATGAGATGAGAAATG
1 TTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAATG
*
47760645 TTGAATTGGCAAAGATGAGAAATGAATATGAGATGAGAAATG
1 TTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAATG
47760687 T
1 T
47760688 GATATGAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.24
Consensus pattern (42 bp):
TTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAATG
Found at i:47760670 original size:21 final size:20
Alignment explanation
Indices: 47760613--47760671 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
47760603 TTGAAATGGC
47760613 CAAGATGAGAAATGAATAT-G
1 CAAGATGAGAAATGAAT-TGG
47760633 --AGATGAGAAATGTTGAATTGG
1 CAAGATGAGAAA---TGAATTGG
47760654 CAAAGATGAGAAATGAAT
1 C-AAGATGAGAAATGAAT
47760672 ATGAGATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
18 10 0.31
20 1 0.03
21 11 0.34
24 10 0.31
ACGTcount: A:0.47, C:0.03, G:0.27, T:0.22
Consensus pattern (20 bp):
CAAGATGAGAAATGAATTGG
Found at i:47760727 original size:32 final size:33
Alignment explanation
Indices: 47760666--47760727 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
47760656 AAGATGAGAA
*
47760666 ATGAATATGAGATGAGAAATGTGATATGAAATG
1 ATGAATATGAGATGAGAAATGTGAAATGAAATG
*
47760699 ATGAA-ATGAGATGTGAAACT-TGAAATGAA
1 ATGAATATGAGATGAGAAA-TGTGAAATGAA
47760728 TTCAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.26
Consensus pattern (33 bp):
ATGAATATGAGATGAGAAATGTGAAATGAAATG
Found at i:47763705 original size:18 final size:18
Alignment explanation
Indices: 47763662--47763705 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
47763652 TCTGAAAATA
47763662 TTTTAATATATTTTAATT
1 TTTTAATATATTTTAATT
* ** *
47763680 ATAAAATATTTTTTAATT
1 TTTTAATATATTTTAATT
47763698 TTTTAATA
1 TTTTAATA
47763706 AATAATTTAA
Statistics
Matches: 19, Mismatches: 7, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAATATATTTTAATT
Found at i:47765556 original size:24 final size:24
Alignment explanation
Indices: 47765511--47765566 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
47765501 TCCGGGTTGT
47765511 ATAACGGGAAGCTCATAAGAGCC-
1 ATAACGGGAAGCTCATAAGAGCCA
**
47765534 ATAATCGGGAAGCTCATGCGAGCCA
1 ATAA-CGGGAAGCTCATAAGAGCCA
47765559 ATAACGGG
1 ATAACGGG
47765567 TAACTCCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 21 0.72
25 4 0.14
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (24 bp):
ATAACGGGAAGCTCATAAGAGCCA
Found at i:47766153 original size:5 final size:5
Alignment explanation
Indices: 47766124--47766163 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
47766114 TAAATTTAAC
* *
47766124 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCAA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAA
47766164 ATCTTAGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (5 bp):
TCAAT
Found at i:47774152 original size:18 final size:18
Alignment explanation
Indices: 47774109--47774152 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
47774099 TCTGAAAATA
47774109 TTTTAATATATTTTAATT
1 TTTTAATATATTTTAATT
* ** *
47774127 ATAAAATATTTTTTAATT
1 TTTTAATATATTTTAATT
47774145 TTTTAATA
1 TTTTAATA
47774153 AATAATTTAA
Statistics
Matches: 19, Mismatches: 7, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAATATATTTTAATT
Found at i:47775361 original size:24 final size:24
Alignment explanation
Indices: 47775334--47775472 Score: 95
Period size: 24 Copynumber: 5.7 Consensus size: 24
47775324 TCGTAATTGA
* *
47775334 GAAGCTCATGCGAGCCAATATCGG
1 GAAGCTCATGAGAGCCAATATCAG
*
47775358 GAAGCTC-TGGAGAG-CATTAATCAG
1 GAAGCTCAT-GAGAGCCAAT-ATCAG
* * *
47775382 GAAGCTCATAAGAGCTAGTTATCAG
1 GAAGCTCATGAGAGCCA-ATATCAG
* *
47775407 GAAGCTCGTGAGAGCCAATATCGG
1 GAAGCTCATGAGAGCCAATATCAG
* * * *
47775431 GAAGCTC-CGAAAAGCCATTAATCTG
1 GAAGCTCATG-AGAGCCAAT-ATCAG
*
47775456 GAAGCTCGTGAGAGCCA
1 GAAGCTCATGAGAGCCA
47775473 TATAACGAGA
Statistics
Matches: 91, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
23 5 0.05
24 45 0.49
25 38 0.42
26 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (24 bp):
GAAGCTCATGAGAGCCAATATCAG
Found at i:47775420 original size:49 final size:48
Alignment explanation
Indices: 47775334--47775497 Score: 129
Period size: 49 Copynumber: 3.4 Consensus size: 48
47775324 TCGTAATTGA
** * * *
47775334 GAAGCTCATGCGAGCCAATATCGGGAAGCTC-TGGAGAG-CATTAATCAG
1 GAAGCTCATAAGAGCTATTATCAGGAAGCTCGT-GAGAGCCATTAATC-G
*
47775382 GAAGCTCATAAGAGCTAGTTATCAGGAAGCTCGTGAGAGCCAAT-ATCGG
1 GAAGCTCATAAGAGCTA-TTATCAGGAAGCTCGTGAGAGCCATTAATC-G
** * * *
47775431 GAAGCTCCGAAAAGCCATTAATCTGGAAGCTCGTGAGAGCCATATAA-CG
1 GAAGCTCATAAGAGCTATT-ATCAGGAAGCTCGTGAGAGCCAT-TAATCG
*
47775480 AGATGCTCATAAGAGCTA
1 -GAAGCTCATAAGAGCTA
47775498 AATAGCGGGA
Statistics
Matches: 91, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
48 16 0.18
49 56 0.62
50 18 0.20
51 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.20
Consensus pattern (48 bp):
GAAGCTCATAAGAGCTATTATCAGGAAGCTCGTGAGAGCCATTAATCG
Found at i:47775867 original size:21 final size:21
Alignment explanation
Indices: 47775843--47775884 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47775833 TGAATTTAGC
* *
47775843 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATACACAT
*
47775864 TCAATTCAATCCAATACACAT
1 TCAATTCAATACAATACACAT
47775885 CTTTGGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
TCAATTCAATACAATACACAT
Found at i:47780201 original size:21 final size:21
Alignment explanation
Indices: 47780155--47780202 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
47780145 GCGTAAATAT
* *
47780155 TAAA-AATTAAATTATTATAA
1 TAAATAATCAAATTAATATAA
47780175 -ATAATAATCAAATTAATATAA
1 TA-AATAATCAAATTAATATAA
47780196 TAAATAA
1 TAAATAA
47780203 ACATTGAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 1 0.04
20 2 0.09
21 19 0.83
22 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATAATCAAATTAATATAA
Found at i:47783237 original size:33 final size:33
Alignment explanation
Indices: 47783195--47783259 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
47783185 ACAGATCATG
47783195 GAGATGCTCTTAAGAGTTTCATAGAAGGATATA
1 GAGATGCTCTTAAGAGTTTCATAGAAGGATATA
*
47783228 GAGATGCTCTTAAGAGTTTCATGGAAGGATAT
1 GAGATGCTCTTAAGAGTTTCATAGAAGGATAT
47783260 CAAGAAGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (33 bp):
GAGATGCTCTTAAGAGTTTCATAGAAGGATATA
Found at i:47784368 original size:24 final size:24
Alignment explanation
Indices: 47784336--47784386 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
47784326 TCTTAATAAT
47784336 AATATTATACTAA-AATTATTATTA
1 AATATTATACTAAGAA-TATTATTA
* *
47784360 AATATTATATTAAGAATGTTATTA
1 AATATTATACTAAGAATATTATTA
47784384 AAT
1 AAT
47784387 TATATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (24 bp):
AATATTATACTAAGAATATTATTA
Found at i:47784691 original size:12 final size:12
Alignment explanation
Indices: 47784674--47784698 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47784664 TGTTTTTGTG
47784674 TGTGTATATATA
1 TGTGTATATATA
47784686 TGTGTATATATA
1 TGTGTATATATA
47784698 T
1 T
47784699 CTAAAGGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TGTGTATATATA
Found at i:47785195 original size:63 final size:61
Alignment explanation
Indices: 47785117--47785273 Score: 185
Period size: 60 Copynumber: 2.6 Consensus size: 61
47785107 TGAGATTATG
* * *
47785117 TTATGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTACTAAATTATATA
1 TTATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAA-AATATGACTAAATTATATA
** * *
47785180 TT-TTCATTTTTATTAAATTATATTTGGTAATAATTATGTTAAAATATGACTAAATTATTTA
1 TTATT-ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGACTAAATTATATA
*
47785241 TTATT-TATTTATTAAATTATATTTAATAATAAT
1 TTATTATTTTTATTAAATTATATTTAATAATAAT
47785274 CTTACTAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
60 25 0.31
61 18 0.22
62 20 0.25
63 14 0.17
64 4 0.05
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (61 bp):
TTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGACTAAATTATATA
Done.