Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 86 of 91
Found at i:32948086 original size:2 final size:2
Alignment explanation
Indices: 32948079--32948103 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32948069 CTTGTCATTA
32948079 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
32948104 CATTGCTCAT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:32957340 original size:25 final size:24
Alignment explanation
Indices: 32957286--32957341 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
32957276 AAAACCAAGC
* *
32957286 TTTTTTATTCTTCTGGGGTTGTTT
1 TTTTTTATTCTTCTGGGGGTCTTT
32957310 TGTTTTTGATTC-TCTGGTGGGTCTTT
1 T-TTTTT-ATTCTTCTGG-GGGTCTTT
32957336 TTTTTT
1 TTTTTT
32957342 TTTTAACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 15 0.56
26 11 0.41
ACGTcount: A:0.04, C:0.09, G:0.21, T:0.66
Consensus pattern (24 bp):
TTTTTTATTCTTCTGGGGGTCTTT
Found at i:32975408 original size:26 final size:26
Alignment explanation
Indices: 32975359--32975423 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
32975349 AAGTAAGTTC
*
32975359 TTATATTTTTA-TTATATTAGAAAATAT
1 TTAT-TTTTTATTTATATTAAAAAAT-T
32975386 TTATTTTTTATTTATA-TAAAAAATT
1 TTATTTTTTATTTATATTAAAAAATT
32975411 TTATTCTTTTATT
1 TTATT-TTTTATT
32975424 GTATCAATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
25 6 0.17
26 20 0.57
27 9 0.26
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATTTTTTATTTATATTAAAAAATT
Found at i:32978793 original size:18 final size:19
Alignment explanation
Indices: 32978763--32978801 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
32978753 GAGTTAAAAG
32978763 TTAATAAATAATATTT-TT
1 TTAATAAATAATATTTATT
32978781 TTAAGTAAA-AATATTTATT
1 TTAA-TAAATAATATTTATT
32978800 TT
1 TT
32978802 TTTAAGCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTAATAAATAATATTTATT
Found at i:32993530 original size:12 final size:14
Alignment explanation
Indices: 32993513--32993545 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
32993503 TTGTGCAAGT
32993513 GAGAAAGAGA-A-A
1 GAGAAAGAGAGAGA
32993525 GAGAAAGAGAGAGA
1 GAGAAAGAGAGAGA
32993539 GAGAAAG
1 GAGAAAG
32993546 GGCTGAGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 1 0.05
14 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (14 bp):
GAGAAAGAGAGAGA
Found at i:32998401 original size:2 final size:2
Alignment explanation
Indices: 32998394--32998461 Score: 109
Period size: 2 Copynumber: 34.0 Consensus size: 2
32998384 TGTTTTAACT
*
32998394 TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
32998436 TA TA TA TA AA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
32998462 AATTGGTTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:33008551 original size:2 final size:2
Alignment explanation
Indices: 33008544--33008569 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33008534 TTGTAGCAAA
33008544 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
33008570 TAGTGGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33020742 original size:2 final size:2
Alignment explanation
Indices: 33020735--33020771 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
33020725 TATGATATGC
33020735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33020772 ATTCAACTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33025875 original size:21 final size:21
Alignment explanation
Indices: 33025823--33025890 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
33025813 TAATCACCGT
*
33025823 GTGACTAGTTTTAGTCATTAC
1 GTGACTAGTTTTAGACATTAC
* *
33025844 GTGATTGGTTTTAGACATTAC
1 GTGACTAGTTTTAGACATTAC
* *
33025865 GTGACTAGTTTTTATACATTGC
1 GTGACTAG-TTTTAGACATTAC
33025887 GTGA
1 GTGA
33025891 TTGATATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 24 0.62
22 15 0.38
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (21 bp):
GTGACTAGTTTTAGACATTAC
Found at i:33025938 original size:23 final size:23
Alignment explanation
Indices: 33025911--33025962 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
33025901 AGCAATGCCT
33025911 AAGTCACACAATACCTTACTAAC
1 AAGTCACACAATACCTTACTAAC
* * *
33025934 TAGTCACGCAATGCCTTACTAAC
1 AAGTCACACAATACCTTACTAAC
33025957 AAGTCA
1 AAGTCA
33025963 TGCAATGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (23 bp):
AAGTCACACAATACCTTACTAAC
Found at i:33025967 original size:23 final size:23
Alignment explanation
Indices: 33025919--33026022 Score: 95
Period size: 23 Copynumber: 4.4 Consensus size: 23
33025909 CTAAGTCACA
* *
33025919 CAATACCTTACTAACTAGTCACG
1 CAATGCCTTACTAACTAGTCATG
*
33025942 CAATGCCTTACTAACAAGTCATG
1 CAATGCCTTACTAACTAGTCATG
*
33025965 CAATG-CTTA-TCAACTAGTTATG
1 CAATGCCTTACT-AACTAGTCATG
* * *
33025987 TAATGCCTTATCAGAAACTAGTCAAG
1 CAATGCCTTA-C--TAACTAGTCATG
33026013 CAATGCCTTA
1 CAATGCCTTA
33026023 TCAAAAATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
21 1 0.02
22 17 0.26
23 29 0.45
26 18 0.28
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (23 bp):
CAATGCCTTACTAACTAGTCATG
Found at i:33026054 original size:21 final size:21
Alignment explanation
Indices: 33026021--33026063 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
33026011 AGCAATGCCT
33026021 TATCAAAAATTAGTCACGCAA
1 TATCAAAAATTAGTCACGCAA
* *
33026042 TATCCAAAGTTAGTCACGCAA
1 TATCAAAAATTAGTCACGCAA
33026063 T
1 T
33026064 GCCTATCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.26
Consensus pattern (21 bp):
TATCAAAAATTAGTCACGCAA
Found at i:33026063 original size:47 final size:47
Alignment explanation
Indices: 33026005--33026180 Score: 182
Period size: 47 Copynumber: 3.7 Consensus size: 47
33025995 TATCAGAAAC
* * *
33026005 TAGTCAAGCAATGCCTTATCAAAAATTAGTCACGCAATATCCAAAGT
1 TAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATATCCAAAAT
* *
33026052 TAGTCACGCAATGCC-TATC---AACTAGTCAAGCAATGTCTTATCAAAAAT
1 TAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAA-----TATCCAAAAT
* * *
33026100 TAATCACGCAATGCCTTATCAAAAACTAGTCACGCAAT-GCCTAAATT
1 TAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATATCC-AAAAT
*
33026147 TAGTCACGCAATGCCTTATCAGAAACTAGTCACG
1 TAGTCACGCAATGCCTTATCAAAAACTAGTCACG
33026181 TAATGTCTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
43 12 0.11
46 5 0.05
47 51 0.48
48 22 0.21
49 4 0.04
52 13 0.12
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (47 bp):
TAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATATCCAAAAT
Found at i:33026074 original size:95 final size:95
Alignment explanation
Indices: 33025931--33026197 Score: 286
Period size: 95 Copynumber: 2.7 Consensus size: 95
33025921 ATACCTTACT
** * * * * *
33025931 AACTAGTCACGCAATGCCTTACTAA-CAAGTCATGCAATGCTTATCAACTAGTTATGTAATGCCT
1 AACTAGTCACGCAATGCC-TA--AAGTTAGTCACGCAATGCCTATCAACTAGTCAAGCAATGCCT
* *
33025995 TATCAGAAACTAGTCAAGCAATGCCTTATCAAA
63 TATCAAAAACTAATCAAGCAATGCCTTATCAAA
* * *
33026028 AATTAGTCACGCAATATCC-AAAGTTAGTCACGCAATGCCTATCAACTAGTCAAGCAATGTCTTA
1 AACTAGTCACGCAAT-GCCTAAAGTTAGTCACGCAATGCCTATCAACTAGTCAAGCAATGCCTTA
* *
33026092 TCAAAAATTAATCACGCAATGCCTTATCAAA
65 TCAAAAACTAATCAAGCAATGCCTTATCAAA
* * * *
33026123 AACTAGTCACGCAATGCCTAAATTTAGTCACGCAATGCCTTATCAGAAACTAGTCACGTAATGTC
1 AACTAGTCACGCAATGCCTAAAGTTAGTCACGCAATGCC-TATC---AACTAGTCAAGCAATGCC
33026188 TTATCAAAAA
62 TTATCAAAAA
33026198 TCAGTCACGT
Statistics
Matches: 144, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
94 4 0.03
95 93 0.65
96 5 0.03
97 14 0.10
98 2 0.01
99 26 0.18
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (95 bp):
AACTAGTCACGCAATGCCTAAAGTTAGTCACGCAATGCCTATCAACTAGTCAAGCAATGCCTTAT
CAAAAACTAATCAAGCAATGCCTTATCAAA
Found at i:33026180 original size:73 final size:71
Alignment explanation
Indices: 33026005--33026219 Score: 233
Period size: 73 Copynumber: 3.0 Consensus size: 71
33025995 TATCAGAAAC
**
33026005 TAGTCAAGCAATGCCTTATCAAAAATTAGTCACGCAA----TATCCAAAGTTAGTCACGCAATGC
1 TAGTCAAGCAATGCCTTATCAAAAATTAGTCACGCAATGCTTAT-CAAAAATAGTCACGCAATGC
*
33026066 CTATCAA-C
65 CTA--AATT
* *
33026074 TAGTCAAGCAATGTCTTATCAAAAATTAATCACGCAATGCCTTATCAAAAACTAGTCACGCAATG
1 TAGTCAAGCAATGCCTTATCAAAAATTAGTCACGCAATG-CTTATCAAAAA-TAGTCACGCAATG
33026139 CCTAAATT
64 CCTAAATT
* * * * *
33026147 TAGTCACGCAATGCCTTATCAGAAACTAGTCACGTAATGTCTTATCAAAAATCAGTCACGTAATG
1 TAGTCAAGCAATGCCTTATCAAAAATTAGTCACGCAATG-CTTATCAAAAAT-AGTCACGCAATG
*
33026212 CCCAAATT
64 CCTAAATT
33026220 CAATCACGCA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
69 35 0.28
72 3 0.02
73 66 0.53
74 20 0.16
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (71 bp):
TAGTCAAGCAATGCCTTATCAAAAATTAGTCACGCAATGCTTATCAAAAATAGTCACGCAATGCC
TAAATT
Found at i:33026203 original size:26 final size:26
Alignment explanation
Indices: 33025988--33026213 Score: 153
Period size: 26 Copynumber: 9.2 Consensus size: 26
33025978 CTAGTTATGT
* *
33025988 AATGCCTTATCAGAAA-CTAGTCAAGC
1 AATGCCTTATCAAAAATC-AGTCACGC
*
33026014 AATGCCTTATCAAAAATTAGTCACGC
1 AATGCCTTATCAAAAATCAGTCACGC
* * *
33026040 AA-----TATCCAAAGTTAGTCACGC
1 AATGCCTTATCAAAAATCAGTCACGC
* *
33026061 AATGCC-TATC--AACT-AGTCAAGC
1 AATGCCTTATCAAAAATCAGTCACGC
* * *
33026083 AATGTCTTATCAAAAATTAATCACGC
1 AATGCCTTATCAAAAATCAGTCACGC
33026109 AATGCCTTATCAAAAA-CTAGTCACGC
1 AATGCCTTATCAAAAATC-AGTCACGC
* *
33026135 AATGCC---T--AAATTTAGTCACGC
1 AATGCCTTATCAAAAATCAGTCACGC
* *
33026156 AATGCCTTATCAGAAA-CTAGTCACGT
1 AATGCCTTATCAAAAATC-AGTCACGC
* *
33026182 AATGTCTTATCAAAAATCAGTCACGT
1 AATGCCTTATCAAAAATCAGTCACGC
33026208 AATGCC
1 AATGCC
33026214 CAAATTCAAT
Statistics
Matches: 159, Mismatches: 23, Indels: 36
0.73 0.11 0.17
Matches are distributed among these distances:
21 36 0.23
22 12 0.08
23 8 0.05
24 1 0.01
25 7 0.04
26 94 0.59
27 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (26 bp):
AATGCCTTATCAAAAATCAGTCACGC
Found at i:33035799 original size:18 final size:17
Alignment explanation
Indices: 33035773--33035807 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33035763 TGTTTTATAA
33035773 ATTACTGCTACTACTTTT
1 ATTACTGCTACTA-TTTT
*
33035791 ATTAGTGCTACTATTTT
1 ATTACTGCTACTATTTT
33035808 GTATTCAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (17 bp):
ATTACTGCTACTATTTT
Found at i:33036618 original size:61 final size:61
Alignment explanation
Indices: 33036548--33036669 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
33036538 AGTTCAATGA
33036548 GATATTATTTTGTAATTTAAACAAGGGACTGAATTTCAGTACTAGTCAAGAAAGTGTTTCC
1 GATATTATTTTGTAATTTAAACAAGGGACTGAATTTCAGTACTAGTCAAGAAAGTGTTTCC
33036609 GATATTATTTTGTAATTTAAACAAGGGACTGAATTTCAGTACTAGTCAAGAAAGTGTTTCC
1 GATATTATTTTGTAATTTAAACAAGGGACTGAATTTCAGTACTAGTCAAGAAAGTGTTTCC
33036670 TCCTTTTATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (61 bp):
GATATTATTTTGTAATTTAAACAAGGGACTGAATTTCAGTACTAGTCAAGAAAGTGTTTCC
Found at i:33047037 original size:18 final size:18
Alignment explanation
Indices: 33047014--33047048 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33047004 CCTTTAAAGC
*
33047014 TTTCTCCTTCTTCTCTTT
1 TTTCTCCTTCTCCTCTTT
33047032 TTTCTCCTTCTCCTCTT
1 TTTCTCCTTCTCCTCTT
33047049 CTGTAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTCTCCTTCTCCTCTTT
Found at i:33053879 original size:11 final size:12
Alignment explanation
Indices: 33053851--33053879 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33053841 ATACATATAA
33053851 TATAATTATTTT
1 TATAATTATTTT
33053863 TATAATTATTTT
1 TATAATTATTTT
33053875 T-TAAT
1 TATAAT
33053880 CATCTTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATAATTATTTT
Found at i:33054179 original size:29 final size:30
Alignment explanation
Indices: 33054144--33054209 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
33054134 GATTAATGTC
*
33054144 GAATTTTGATATTATA-TTTTAATTTTATT
1 GAATTTTGAAATTATATTTTTAATTTTATT
*
33054173 GAATTTTGAAATTATATTTTTTATTTTATT
1 GAATTTTGAAATTATATTTTTAATTTTATT
*
33054203 GATTTTT
1 GAATTTT
33054210 TAATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.64
Consensus pattern (30 bp):
GAATTTTGAAATTATATTTTTAATTTTATT
Found at i:33064628 original size:2 final size:2
Alignment explanation
Indices: 33064621--33064668 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
33064611 TAAAAGTAAN
33064621 AT AT AT 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 AT AT AT
*
33064663 GT AT AT
1 AT AT AT
33064669 TTGAAATCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33078473 original size:2 final size:2
Alignment explanation
Indices: 33078466--33078491 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33078456 TACCAACAAC
33078466 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
33078492 TGCCAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33090832 original size:35 final size:35
Alignment explanation
Indices: 33090781--33090850 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
33090771 AAAGTACTGC
33090781 CCTGATCTTAGGACAATGGCTTATAATTTATGTAA
1 CCTGATCTTAGGACAATGGCTTATAATTTATGTAA
*
33090816 CCTGATCTTAGTACAATGGCTTATAATTTATGTAA
1 CCTGATCTTAGGACAATGGCTTATAATTTATGTAA
33090851 GTATAGAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (35 bp):
CCTGATCTTAGGACAATGGCTTATAATTTATGTAA
Found at i:33094776 original size:30 final size:30
Alignment explanation
Indices: 33094728--33094795 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
33094718 ACGTGACATT
* * * *
33094728 ATATATTT-TTTTCGATTAATACTCTGTGA
1 ATATTTTTATTTTCAATTAACACTCTATGA
* *
33094757 ATATTTTTATTTTCAATTAACAGTTTATGA
1 ATATTTTTATTTTCAATTAACACTCTATGA
33094787 ATATTTTTA
1 ATATTTTTA
33094796 AACATGGACA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.54
Consensus pattern (30 bp):
ATATTTTTATTTTCAATTAACACTCTATGA
Found at i:33100268 original size:15 final size:17
Alignment explanation
Indices: 33100234--33100271 Score: 53
Period size: 15 Copynumber: 2.3 Consensus size: 17
33100224 TATGAGAAAA
33100234 TTTAAAATCCAAATTATT
1 TTTAAAAT-CAAATTATT
33100252 TTTAAAAT-AAA-TATT
1 TTTAAAATCAAATTATT
33100267 TTTAA
1 TTTAA
33100272 TTCTTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 3 0.15
18 8 0.40
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAAATCAAATTATT
Found at i:33102737 original size:24 final size:24
Alignment explanation
Indices: 33102692--33102777 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 24
33102682 TAGAAGACCT
* *
33102692 GGAGGGATGCCTGGTGGGTTTCCA
1 GGAGGAATGCCTGGAGGGTTTCCA
* * *
33102716 GGTGGTATGCCTGGAGGTTTTCCA
1 GGAGGAATGCCTGGAGGGTTTCCA
* * * *
33102740 GGAGGAATGCCCGGAGGGATGCCT
1 GGAGGAATGCCTGGAGGGTTTCCA
*
33102764 GGAGAAATGCCTGG
1 GGAGGAATGCCTGG
33102778 TAGCATGCCA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.17, C:0.17, G:0.43, T:0.22
Consensus pattern (24 bp):
GGAGGAATGCCTGGAGGGTTTCCA
Found at i:33117038 original size:28 final size:27
Alignment explanation
Indices: 33116998--33117074 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
33116988 ATTGATTTAG
*
33116998 TTGTTACACGTCATATTGAAAAACATAA
1 TTGTTACATGTCATATT-AAAAACATAA
* ** *
33117026 TTGTTACATGTCATGTTAAAAATTTAG
1 TTGTTACATGTCATATTAAAAACATAA
33117053 TTGTTACATGTCATATTAAAAA
1 TTGTTACATGTCATATTAAAAA
33117075 ATATAGTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 28 0.65
28 15 0.35
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (27 bp):
TTGTTACATGTCATATTAAAAACATAA
Found at i:33117176 original size:28 final size:28
Alignment explanation
Indices: 33116992--33117205 Score: 150
Period size: 28 Copynumber: 7.8 Consensus size: 28
33116982 AATACAATTG
*
33116992 ATTTAGTTGTTACACGTCATATTGAAAA
1 ATTTAGTTGTTACATGTCATATTGAAAA
** * *
33117020 ACATAATTGTTACATGTCATGTT-AAAA
1 ATTTAGTTGTTACATGTCATATTGAAAA
*
33117047 ATTTAGTTGTTACATGTCATATTAAAAA
1 ATTTAGTTGTTACATGTCATATTGAAAA
* * * *
33117075 ATATAGTTATTATATG-CTATTTTGAAAA
1 ATTTAGTTGTTACATGTC-ATATTGAAAA
* * ** * * *
33117103 ATGTAGTTATTACACATTATACTG-AAG
1 ATTTAGTTGTTACATGTCATATTGAAAA
* * * *
33117130 ATTTAATTGTCATATGTCATGTTGAAAA
1 ATTTAGTTGTTACATGTCATATTGAAAA
* * *
33117158 ATGTAGTTGTTACACGTCA-AGTT-AAAG
1 ATTTAGTTGTTACATGTCATA-TTGAAAA
*
33117185 ATTTTGTTGTTACATGTCATA
1 ATTTAGTTGTTACATGTCATA
33117206 AAGGAAAAAC
Statistics
Matches: 137, Mismatches: 43, Indels: 12
0.71 0.22 0.06
Matches are distributed among these distances:
27 59 0.43
28 78 0.57
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (28 bp):
ATTTAGTTGTTACATGTCATATTGAAAA
Found at i:33117188 original size:55 final size:56
Alignment explanation
Indices: 33116995--33117176 Score: 190
Period size: 55 Copynumber: 3.3 Consensus size: 56
33116985 ACAATTGATT
* * * *
33116995 TAGTTGTTACACGTCATATTGAAAAACATAATTGTTACATGTCATGTT-AAAAATT
1 TAGTTGTTACACGTCATATTAAAAAATATAATTGTTATATGTCATGTTGAAAAATG
* * * *
33117050 TAGTTGTTACATGTCATATTAAAAAATATAGTTATTATATG-CTATTTTGAAAAATG
1 TAGTTGTTACACGTCATATTAAAAAATATAATTGTTATATGTC-ATGTTGAAAAATG
* * * * * * * *
33117106 TAGTTATTACACATTATACT-GAAGATTTAATTGTCATATGTCATGTTGAAAAATG
1 TAGTTGTTACACGTCATATTAAAAAATATAATTGTTATATGTCATGTTGAAAAATG
33117161 TAGTTGTTACACGTCA
1 TAGTTGTTACACGTCA
33117177 AGTTAAAGAT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
54 1 0.01
55 78 0.77
56 22 0.22
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (56 bp):
TAGTTGTTACACGTCATATTAAAAAATATAATTGTTATATGTCATGTTGAAAAATG
Found at i:33117202 original size:55 final size:55
Alignment explanation
Indices: 33116995--33117204 Score: 183
Period size: 55 Copynumber: 3.8 Consensus size: 55
33116985 ACAATTGATT
* ** * *
33116995 TAGTTGTTACACGTCATATTGAAAAACATAATTGTTACATGTCATGTT-AAAAATT
1 TAGTTGTTACACGTCATATT-AAAGATTTAGTTGTTACATGTCATGTTGAAAAATG
* * * * * *
33117050 TAGTTGTTACATGTCATATTAAAAAATATAGTTATTATATG-CTATTTTGAAAAATG
1 TAGTTGTTACACGTCATATT-AAAGATTTAGTTGTTACATGTC-ATGTTGAAAAATG
* * * * * * * *
33117106 TAGTTATTACACATTATACTGAAGATTTAATTGTCATATGTCATGTTGAAAAATG
1 TAGTTGTTACACGTCATATTAAAGATTTAGTTGTTACATGTCATGTTGAAAAATG
*
33117161 TAGTTGTTACACGTCA-AGTTAAAGATTTTGTTGTTACATGTCAT
1 TAGTTGTTACACGTCATA-TTAAAGATTTAGTTGTTACATGTCAT
33117205 AAAGGAAAAA
Statistics
Matches: 122, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
54 2 0.02
55 98 0.80
56 22 0.18
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (55 bp):
TAGTTGTTACACGTCATATTAAAGATTTAGTTGTTACATGTCATGTTGAAAAATG
Found at i:33124967 original size:18 final size:18
Alignment explanation
Indices: 33124946--33124991 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
33124936 CACTTTTCTG
33124946 CTTCTCTTTTCTACAAAT
1 CTTCTCTTTTCTACAAAT
* *
33124964 CTTCTCTTTAGCTTCAAAT
1 CTTCTCTTT-TCTACAAAT
33124983 C-TCTCTTTT
1 CTTCTCTTTT
33124992 TTTCAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.17, C:0.28, G:0.02, T:0.52
Consensus pattern (18 bp):
CTTCTCTTTTCTACAAAT
Found at i:33130996 original size:11 final size:11
Alignment explanation
Indices: 33130947--33131026 Score: 51
Period size: 11 Copynumber: 7.3 Consensus size: 11
33130937 TAATAATTTT
33130947 ATTTTTTATTA
1 ATTTTTTATTA
**
33130958 A--TTTTAAAA
1 ATTTTTTATTA
33130967 ATTATTATTATATA
1 ATT-TT-TTAT-TA
33130981 A-TTTTTATTA
1 ATTTTTTATTA
*
33130991 A-TTTTTATCA
1 ATTTTTTATTA
*
33131001 GTTTTTTAATTA
1 ATTTTTT-ATTA
*
33131013 GTTTTTTATTA
1 ATTTTTTATTA
33131024 ATT
1 ATT
33131027 AAAAAAAAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
9 7 0.13
10 11 0.20
11 16 0.30
12 14 0.26
13 4 0.07
14 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTTTTATTA
Found at i:33133373 original size:14 final size:14
Alignment explanation
Indices: 33133350--33133382 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33133340 AACAACTAAT
33133350 AAAAAAAAAAG-CA
1 AAAAAAAAAAGCCA
33133363 AAAATAAAAAAGCCA
1 AAAA-AAAAAAGCCA
33133378 AAAAA
1 AAAAA
33133383 GATGTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 8 0.44
15 6 0.33
ACGTcount: A:0.82, C:0.09, G:0.06, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAGCCA
Found at i:33133702 original size:16 final size:16
Alignment explanation
Indices: 33133681--33133714 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
33133671 AAATCATGGA
33133681 AAAATCTCT-ACTATAG
1 AAAATCTCTGAC-ATAG
33133697 AAAATCTCTGACATAG
1 AAAATCTCTGACATAG
33133713 AA
1 AA
33133715 GTTGCGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (16 bp):
AAAATCTCTGACATAG
Found at i:33138584 original size:28 final size:27
Alignment explanation
Indices: 33138551--33138620 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
33138541 GCATAAGATA
33138551 TAATAATATTTTTTTAAA-ATAACGTG
1 TAATAATATTTTTTTAAATATAACGTG
* *
33138577 TAGCATAA-ATTTTTTTAAATATGATGTG
1 TA--ATAATATTTTTTTAAATATAACGTG
33138605 TAATAAT-TTTTTTTAA
1 TAATAATATTTTTTTAA
33138621 TATGATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 15 0.39
27 11 0.29
28 12 0.32
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.50
Consensus pattern (27 bp):
TAATAATATTTTTTTAAATATAACGTG
Found at i:33138612 original size:25 final size:25
Alignment explanation
Indices: 33138554--33138659 Score: 90
Period size: 27 Copynumber: 4.1 Consensus size: 25
33138544 TAAGATATAA
* *
33138554 TAAT-ATTTTTTTAAA-ATAACGTG
1 TAATAATTTTTTTAAATATGATGTG
33138577 TAGCATAAATTTTTTTAAATATGATGTG
1 TA--AT-AATTTTTTTAAATATGATGTG
* * *
33138605 TAATAATTTTTTTTAATATGATATA
1 TAATAATTTTTTTAAATATGATGTG
* *
33138630 TAGCAAAATTTTTTTGAATATGATGTG
1 TA--ATAATTTTTTTAAATATGATGTG
33138657 TAA
1 TAA
33138660 CAACATGGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
23 2 0.03
25 23 0.34
26 2 0.03
27 32 0.48
28 8 0.12
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (25 bp):
TAATAATTTTTTTAAATATGATGTG
Found at i:33138639 original size:27 final size:27
Alignment explanation
Indices: 33138577--33138653 Score: 86
Period size: 25 Copynumber: 2.9 Consensus size: 27
33138567 AAATAACGTG
* *
33138577 TAGCATAAATTTTTTTAAATATGATGTG
1 TAGCA-AAATTTTTTTAAATATGATATA
* *
33138605 TA--ATAATTTTTTTTAATATGATATA
1 TAGCAAAATTTTTTTAAATATGATATA
*
33138630 TAGCAAAATTTTTTTGAATATGAT
1 TAGCAAAATTTTTTTAAATATGAT
33138654 GTGTAACAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
25 20 0.49
26 1 0.02
27 18 0.44
28 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (27 bp):
TAGCAAAATTTTTTTAAATATGATATA
Found at i:33139341 original size:118 final size:118
Alignment explanation
Indices: 33139179--33139497 Score: 541
Period size: 118 Copynumber: 2.7 Consensus size: 118
33139169 TTAATAATTT
* * * ** * * *
33139179 TTTTAATCTTTTAAATT-TATTTTCATTAAAATTTTAAAATATTAATATTTTATTATTAAATTAT
1 TTTTAATATTTTAATTTCTATTTTTATTAAAAACTT-AAACATTAATAATTTATTATTTAATTAT
33139243 TAATATAATTTTTTATTTCAATTTCTTTTTATTTTTTCTCTATTTGTATTTTCA
65 TAATATAATTTTTTATTTCAATTTCTTTTTATTTTTTCTCTATTTGTATTTTCA
33139297 TTTTAATATTTTAATTTCTATTTTTATTAAAAACTTAAACATTAATAATTTATTATTTAATTATT
1 TTTTAATATTTTAATTTCTATTTTTATTAAAAACTTAAACATTAATAATTTATTATTTAATTATT
33139362 AATATAATTTTTTATTTCAATTTCTTTTTATTTTTTCTCTATTTGTATTTTCA
66 AATATAATTTTTTATTTCAATTTCTTTTTATTTTTTCTCTATTTGTATTTTCA
33139415 TTTTAATATTTTAATTTCTATTTTTATTAAAAACTTAAACATTAATAATTTATTATTTAATTATT
1 TTTTAATATTTTAATTTCTATTTTTATTAAAAACTTAAACATTAATAATTTATTATTTAATTATT
33139480 AATATAATTTTTTTATTT
66 AATATAA-TTTTTTATTT
33139498 TTTTCTTTAT
Statistics
Matches: 191, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
118 166 0.87
119 25 0.13
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.61
Consensus pattern (118 bp):
TTTTAATATTTTAATTTCTATTTTTATTAAAAACTTAAACATTAATAATTTATTATTTAATTATT
AATATAATTTTTTATTTCAATTTCTTTTTATTTTTTCTCTATTTGTATTTTCA
Found at i:33154402 original size:11 final size:11
Alignment explanation
Indices: 33154386--33154415 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33154376 TGATATTTTT
33154386 ATTAATTAATA
1 ATTAATTAATA
*
33154397 ATTAATTAATT
1 ATTAATTAATA
33154408 ATTAATTA
1 ATTAATTA
33154416 TAAGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTAATTAATA
Found at i:33155819 original size:15 final size:18
Alignment explanation
Indices: 33155789--33155842 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 18
33155779 ACCATACTGG
*
33155789 TTATATTATTCATTTTTA
1 TTATATTATTCTTTTTTA
33155807 TT-TA-T-TTCTTTTTTA
1 TTATATTATTCTTTTTTA
33155822 TTATATTATTCTTTTTT-
1 TTATATTATTCTTTTTTA
33155839 TTAT
1 TTAT
33155843 GGGTTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.34
16 3 0.09
17 7 0.22
18 11 0.34
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATATTATTCTTTTTTA
Found at i:33155952 original size:2 final size:2
Alignment explanation
Indices: 33155945--33155969 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33155935 ATTGAAATTA
33155945 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
33155970 ATAATAATAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33162467 original size:24 final size:24
Alignment explanation
Indices: 33162431--33162483 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33162421 AATTGAAAAG
* *
33162431 GTAATTGAAAAATATAATTTTTAA
1 GTAAATGAAAAATATAATTATTAA
* *
33162455 GTAAATGATAAATATACTTATTAA
1 GTAAATGAAAAATATAATTATTAA
33162479 -TAAAT
1 GTAAAT
33162484 CGAATATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
GTAAATGAAAAATATAATTATTAA
Found at i:33165076 original size:20 final size:22
Alignment explanation
Indices: 33165053--33165100 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 22
33165043 AAATAAGTTG
33165053 AGAAAATAAA-AAG-AAATA-GA
1 AGAAAA-AAACAAGAAAATAGGA
33165073 AGAAGAAAAACAAGAAAATAGGA
1 AGAA-AAAAACAAGAAAATAGGA
33165096 AGAAA
1 AGAAA
33165101 GGAACGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 7 0.29
21 5 0.21
22 6 0.25
23 6 0.25
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (22 bp):
AGAAAAAAACAAGAAAATAGGA
Found at i:33167934 original size:2 final size:2
Alignment explanation
Indices: 33167929--33167983 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
33167919 CTAAACTAAT
* *
33167929 TA TA TA TA TA TA TA TA AA TA TA TA -A TA T- TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
33167969 -A AA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
33167984 TTAATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
1 4 0.09
2 40 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33167989 original size:16 final size:16
Alignment explanation
Indices: 33167929--33167991 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
33167919 CTAAACTAAT
33167929 TATATATAT-ATA-TA
1 TATATATATAATATTA
*
33167943 TAAATATATAATATTA
1 TATATATATAATATTA
*
33167959 TATTTATATAAAATATTA
1 TA--TATATATAATATTA
*
33167977 TATATATTTAATATT
1 TATATATATAATATT
33167992 TTTAATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 8 0.20
15 3 0.08
16 15 0.38
18 14 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATATAATATTA
Found at i:33179814 original size:18 final size:18
Alignment explanation
Indices: 33179793--33179829 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33179783 TTTTTTATGT
33179793 TTTTAATTTATATTATTA
1 TTTTAATTTATATTATTA
* *
33179811 TTTTTATTTATATTTTTA
1 TTTTAATTTATATTATTA
33179829 T
1 T
33179830 ACTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTAATTTATATTATTA
Found at i:33179963 original size:21 final size:22
Alignment explanation
Indices: 33179932--33179973 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
33179922 AGTTTTATCT
33179932 TTTTCTTATTATGTGAATTTTA
1 TTTTCTTATTATGTGAATTTTA
* *
33179954 TTTT-TTATTATTTTAATTTT
1 TTTTCTTATTATGTGAATTTT
33179974 TTAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTCTTATTATGTGAATTTTA
Found at i:33179964 original size:24 final size:25
Alignment explanation
Indices: 33179916--33179965 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
33179906 TGTTATGTCA
*
33179916 TATGTAAGTTTTATCTTTTTCTTAT
1 TATGTAAGTTTTATCTTTTTATTAT
33179941 TATGTGAA-TTTTAT-TTTTTATTAT
1 TATGT-AAGTTTTATCTTTTTATTAT
33179965 T
1 T
33179966 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 10 0.43
25 11 0.48
26 2 0.09
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.66
Consensus pattern (25 bp):
TATGTAAGTTTTATCTTTTTATTAT
Found at i:33180998 original size:2 final size:2
Alignment explanation
Indices: 33180991--33181020 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33180981 AATAATTTAC
33180991 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33181021 ATTCTTGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33194584 original size:15 final size:14
Alignment explanation
Indices: 33194564--33194626 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 14
33194554 TATAACAATT
33194564 TTTTAAAATATTAAA
1 TTTTAAAAT-TTAAA
33194579 TTTTAAAATTTAAAA
1 TTTTAAAATTT-AAA
* * *
33194594 TTTTCAAATCTGAAT
1 TTTTAAAAT-TTAAA
33194609 TTTTAAAATTT-AA
1 TTTTAAAATTTAAA
33194622 TTTTA
1 TTTTA
33194627 CATAATATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
13 6 0.15
14 3 0.08
15 30 0.75
16 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (14 bp):
TTTTAAAATTTAAA
Found at i:33199667 original size:12 final size:12
Alignment explanation
Indices: 33199652--33199676 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33199642 TTTGATGCCA
33199652 AAGTCGATGTCG
1 AAGTCGATGTCG
33199664 AAGTCGATGTCG
1 AAGTCGATGTCG
33199676 A
1 A
33199677 GTTTAAAGAA
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:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (12 bp):
AAGTCGATGTCG
Found at i:33202377 original size:26 final size:28
Alignment explanation
Indices: 33202344--33202407 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
33202334 ACAAAATTTT
33202344 ATTTAATTTAAA-ATAA-AAAT-ATAAAA
1 ATTTAA-TTAAATATAATAAATAATAAAA
33202370 ATTTAATTAAATATAATAAATAATAAAA
1 ATTTAATTAAATATAATAAATAATAAAA
*
33202398 ATTTACTTAA
1 ATTTAATTAA
33202408 TTTTTCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.15
26 10 0.29
27 4 0.12
28 15 0.44
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTTAATTAAATATAATAAATAATAAAA
Found at i:33204197 original size:26 final size:25
Alignment explanation
Indices: 33204168--33204216 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
33204158 TATGATAAAC
33204168 TGGAGATTTTGTAGTTCTGCTTGTCA
1 TGGAGATTTT-TAGTTCTGCTTGTCA
* * *
33204194 TGGATATTTTTGGTTCTGTTTGT
1 TGGAGATTTTTAGTTCTGCTTGT
33204217 TGTTCAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.12, C:0.08, G:0.27, T:0.53
Consensus pattern (25 bp):
TGGAGATTTTTAGTTCTGCTTGTCA
Found at i:33208258 original size:19 final size:18
Alignment explanation
Indices: 33208236--33208274 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
33208226 AATTAACATT
*
33208236 TTTATTATAAATAAAAGAA
1 TTTATAATAAATAAAA-AA
*
33208255 TTTATAATTAATAAAAAA
1 TTTATAATAAATAAAAAA
33208273 TT
1 TT
33208275 ATTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TTTATAATAAATAAAAAA
Found at i:33212939 original size:23 final size:24
Alignment explanation
Indices: 33212875--33212940 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
33212865 CATATAATTC
33212875 AAACTAATCTTTGTCATAAATAAA
1 AAACTAATCTTTGTCATAAATAAA
* * * *
33212899 ATA-TTAT-TTTATGAATAAA-AAA
1 AAACTAATCTTTGT-CATAAATAAA
33212921 AAACTAATCTTTGTCATAAA
1 AAACTAATCTTTGTCATAAA
33212941 CTATTTTTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 7
0.67 0.17 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (24 bp):
AAACTAATCTTTGTCATAAATAAA
Found at i:33224354 original size:22 final size:25
Alignment explanation
Indices: 33224300--33224356 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
33224290 TTCCCTTAAA
*
33224300 TAATAATTTTTATTAACATAATATAT
1 TAATAA-TTTTATAAACATAATATAT
33224326 TAA-AATTTTA-AAACA-AATAT-T
1 TAATAATTTTATAAACATAATATAT
33224347 TAATAATTTT
1 TAATAATTTT
33224357 TAATAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
22 11 0.38
23 4 0.14
24 5 0.17
25 2 0.07
26 3 0.10
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
TAATAATTTTATAAACATAATATAT
Found at i:33224357 original size:23 final size:25
Alignment explanation
Indices: 33224300--33224359 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
33224290 TTCCCTTAAA
*
33224300 TAATAATTTTTATTAACATAATATAT
1 TAATAATTTTTA-AAACATAATATAT
33224326 TAA-AA-TTTTAAAACA-AATAT-T
1 TAATAATTTTTAAAACATAATATAT
33224347 TAATAATTTTTAA
1 TAATAATTTTTAA
33224360 TAAATATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 10 0.32
24 5 0.16
25 2 0.06
26 3 0.10
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (25 bp):
TAATAATTTTTAAAACATAATATAT
Found at i:33224394 original size:43 final size:46
Alignment explanation
Indices: 33224298--33224395 Score: 105
Period size: 47 Copynumber: 2.2 Consensus size: 46
33224288 TCTTCCCTTA
* *
33224298 AATAATAATTTTTATTAACATAATATATTAAAATTTTAAAACAAAT
1 AATAATAATTTTTAATAACATAATAAATTAAAATTTTAAAACAAAT
* * *
33224344 ATTTAATAATTTTTAATAA-AT-ATAAATT-TAA-TTTAAAATCAATT
1 A-ATAATAATTTTTAATAACATAATAAATTAAAATTTTAAAA-CAAAT
33224388 AATAATAA
1 AATAATAA
33224396 GTGAAGAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
43 13 0.30
44 7 0.16
45 6 0.14
46 3 0.07
47 15 0.34
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (46 bp):
AATAATAATTTTTAATAACATAATAAATTAAAATTTTAAAACAAAT
Found at i:33226098 original size:16 final size:16
Alignment explanation
Indices: 33226053--33226110 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
33226043 AATAATTTTT
*
33226053 ATTAAATAATTTATAA
1 ATTAAATAATTTATCA
*
33226069 ATT-ATTAATTTATCA
1 ATTAAATAATTTATCA
*
33226084 ATTAAATAATATATCA
1 ATTAAATAATTTATCA
*
33226100 ATTAATTAATT
1 ATTAAATAATT
33226111 AATTTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 13 0.37
16 22 0.63
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAAATAATTTATCA
Found at i:33230380 original size:29 final size:31
Alignment explanation
Indices: 33230323--33230380 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
33230313 TATTTACATA
**
33230323 GTGTTAATTGATAAAAAAATATATTAATAAG
1 GTGTTAATTGATAAAAAAATATAAAAATAAG
*
33230354 GTGTTAATTGA-AAAAAATTA-AAAAATA
1 GTGTTAATTGATAAAAAAATATAAAAATA
33230381 TCATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.21
30 8 0.33
31 11 0.46
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (31 bp):
GTGTTAATTGATAAAAAAATATAAAAATAAG
Found at i:33243926 original size:18 final size:18
Alignment explanation
Indices: 33243903--33243944 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
33243893 ACTTAACTAT
33243903 TAATAATTAAAAAATTTA
1 TAATAATTAAAAAATTTA
* * *
33243921 TAATAAATAATAATTTTA
1 TAATAATTAAAAAATTTA
33243939 T-ATAAT
1 TAATAAT
33243945 ATATAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAATTAAAAAATTTA
Found at i:33248245 original size:35 final size:33
Alignment explanation
Indices: 33248199--33248272 Score: 123
Period size: 35 Copynumber: 2.2 Consensus size: 33
33248189 TCAATAAATT
33248199 ATATATATTAGATATATATATTTCCGGTCTAAAAA
1 ATATATATTAGATATATATA--TCCGGTCTAAAAA
33248234 ATATATATTAGATATATATATCCGGTCTAAAAA
1 ATATATATTAGATATATATATCCGGTCTAAAAA
33248267 AT-TATA
1 ATATATA
33248273 GCTCTCATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 4 0.10
33 15 0.38
35 20 0.51
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (33 bp):
ATATATATTAGATATATATATCCGGTCTAAAAA
Found at i:33248249 original size:33 final size:34
Alignment explanation
Indices: 33248199--33248272 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
33248189 TCAATAAATT
*
33248199 ATATATATTAGATATATATATTTCCGGTCTAAAAA
1 ATATATATTAGA-ATATATATATCCGGTCTAAAAA
33248234 ATATATATTAG-ATATATATATCCGGTCTAAAAA
1 ATATATATTAGAATATATATATCCGGTCTAAAAA
33248267 AT-TATA
1 ATATATA
33248273 GCTCTCATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
32 4 0.11
33 23 0.61
35 11 0.29
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (34 bp):
ATATATATTAGAATATATATATCCGGTCTAAAAA
Found at i:33251029 original size:2 final size:2
Alignment explanation
Indices: 33251022--33251066 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
33251012 TGGGGTAGGG
33251022 AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT A- AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33251060 AT -T AT AT
1 AT AT AT AT
33251067 TTTTTCCCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
1 5 0.13
2 33 0.87
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:33271611 original size:29 final size:31
Alignment explanation
Indices: 33271578--33271643 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 31
33271568 TTACATTACG
*
33271578 TATTTAATAAATTTTTTATTTTT-TATT-TT
1 TATTTAATAAATTATTTATTTTTATATTATT
*
33271607 TATTTTA-AAATTATTTATTTTTATATTATT
1 TATTTAATAAATTATTTATTTTTATATTATT
33271637 T-TTTAAT
1 TATTTAAT
33271644 TCTTAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 14 0.45
29 14 0.45
30 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (31 bp):
TATTTAATAAATTATTTATTTTTATATTATT
Found at i:33271967 original size:65 final size:65
Alignment explanation
Indices: 33271888--33272026 Score: 237
Period size: 64 Copynumber: 2.1 Consensus size: 65
33271878 GTGTGTGTAT
33271888 ATATATACATATATATATATTTTATAATT-AAAAAAAAATCGAATTCTATTATCTAAAT-AAAAA
1 ATATAT-CA-ATATATATATTTTATAATTAAAAAAAAAATCGAATTCTATTATCTAAATAAAAAA
33271951 TA
64 TA
*
33271953 ATATATCAANATATATATTTTATAATTAAAAAAAAAATCGAATTCTATTATCTAAATAAAAAATA
1 ATATATCAATATATATATTTTATAATTAAAAAAAAAATCGAATTCTATTATCTAAATAAAAAATA
33272018 ATATATCAA
1 ATATATCAA
33272027 CTAATGAATC
Statistics
Matches: 71, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
63 18 0.25
64 31 0.44
65 22 0.31
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.37
Consensus pattern (65 bp):
ATATATCAATATATATATTTTATAATTAAAAAAAAAATCGAATTCTATTATCTAAATAAAAAATA
Found at i:33274766 original size:74 final size:73
Alignment explanation
Indices: 33274646--33274783 Score: 267
Period size: 74 Copynumber: 1.9 Consensus size: 73
33274636 AAGAACCCCT
33274646 CTCTCTCTCTCTCTCTATCGGGACCTTACTCTATATGTTATTTGTGATTAAGATTGGAAATATAN
1 CTCTCTCTCTCTCTCTATCGGGACCTTACTCTATATGTTATTTGTGATTAAGATTGGAAATATA-
33274711 TAACCCTAC
65 TAACCCTAC
33274720 CTCTCTCTCTCTCTCTATCGGGACCTTACTCTATATGTTATTTGTGATTAAGATTGGAAATATA
1 CTCTCTCTCTCTCTCTATCGGGACCTTACTCTATATGTTATTTGTGATTAAGATTGGAAATATA
33274784 AAAAAAAAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (73 bp):
CTCTCTCTCTCTCTCTATCGGGACCTTACTCTATATGTTATTTGTGATTAAGATTGGAAATATAT
AACCCTAC
Found at i:33275767 original size:2 final size:2
Alignment explanation
Indices: 33275762--33275803 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
33275752 TTTTTTTTAA
*
33275762 AT AT AT AT AT AT AT AT AT AT AT -T GAA 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 AT AT AT
33275804 GATGGAAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33284951 original size:2 final size:2
Alignment explanation
Indices: 33284944--33284999 Score: 75
Period size: 2 Copynumber: 29.5 Consensus size: 2
33284934 AAAATAACAG
33284944 TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA -A TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33284982 TNA TA TA TA TA TA TA TA T
1 T-A TA TA TA TA TA TA TA T
33285000 CTTAACATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.08
2 44 0.90
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33293362 original size:33 final size:33
Alignment explanation
Indices: 33293323--33293405 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
33293313 ATCATACTAA
*
33293323 ATTAATATATCATGTCATCATCAATTATGATAT
1 ATTAATATATCATATCATCATCAATTATGATAT
* * *
33293356 ATTAATAT-GCTATATCATCATTAATTATTATAT
1 ATTAATATATC-ATATCATCATCAATTATGATAT
*
33293389 ATTAACATATCATATCA
1 ATTAATATATCATATCA
33293406 ACGTTATGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
32 1 0.02
33 40 0.95
34 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (33 bp):
ATTAATATATCATATCATCATCAATTATGATAT
Found at i:33295040 original size:45 final size:44
Alignment explanation
Indices: 33294945--33295046 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 44
33294935 GATACGCTAT
* * * * *
33294945 AAAATTTATAAAATAATAAATATAATTATAAAATTATTGTAAGG
1 AAAAATTATAAAAAAATAAAAATAATTATAAAATTATTATAAGA
* *
33294989 TAAAATTATAAAAAAATAAAAATATGTTATAAAATTATTATAA-A
1 AAAAATTATAAAAAAATAAAAATA-ATTATAAAATTATTATAAGA
33295033 AACAAATTATAAAA
1 AA-AAATTATAAAA
33295047 TTTCAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 21 0.44
45 27 0.56
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (44 bp):
AAAAATTATAAAAAAATAAAAATAATTATAAAATTATTATAAGA
Found at i:33295249 original size:11 final size:11
Alignment explanation
Indices: 33295233--33295266 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
33295223 TATAATTTTG
33295233 AATTATATAAA
1 AATTATATAAA
33295244 AATTAT-TAAA
1 AATTATATAAA
33295254 ATATTATATAAA
1 A-ATTATATAAA
33295266 A
1 A
33295267 TTCATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 11 0.52
12 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATTATATAAA
Found at i:33295884 original size:18 final size:19
Alignment explanation
Indices: 33295850--33295887 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33295840 ATTCCTTTTG
33295850 TGAGAAAAAAATGAAAATA
1 TGAGAAAAAAATGAAAATA
*
33295869 TGAGAGAAAAAT-AAAATA
1 TGAGAAAAAAATGAAAATA
33295887 T
1 T
33295888 AAAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (19 bp):
TGAGAAAAAAATGAAAATA
Found at i:33298975 original size:187 final size:187
Alignment explanation
Indices: 33298652--33299026 Score: 561
Period size: 187 Copynumber: 2.0 Consensus size: 187
33298642 ACCTTTGCCC
* * * *
33298652 AAATCATGGCAAGGGCAAAAAGCCCATGAACAAGCATGATGAAGGTATCTGCCATTGTTGTGGCA
1 AAATCATGACAAGGGCAAAAACCCCATGAAAAAGCATGATGAAAGTATCTGCCATTGTTGTGGCA
*
33298717 TGGCTGGACATTGGTTGCATACTTGTCGTATGCTAAAACACTTTGCTAATCTATACCAAGCATCC
66 TGGCTGGACATTGGTTACATACTTGTCGTATGCTAAAACACTTTGCTAATCTATACCAAGCATCC
* * *
33298782 TTGAAGGGTAAAGGCAAGTGTGTTGAAATTCACGCCATTGAGAATTCTACTGCTATG
131 TTGAAGGATAAAGGCAAGCGTGTTGAAACTCACGCCATTGAGAATTCTACTGCTATG
* *
33298839 AAATCATGACAAGGGCAAGAACCCCGTGAAAAAGCATGATGAAAGTATCTGCCATTGTTGTGGCA
1 AAATCATGACAAGGGCAAAAACCCCATGAAAAAGCATGATGAAAGTATCTGCCATTGTTGTGGCA
* * * * * ** * *
33298904 TGGTTGGACATTGGTTACGTACTTGTCTTATGCTAAAGCACTTTGTTAATCTATATTAGGCATCT
66 TGGCTGGACATTGGTTACATACTTGTCGTATGCTAAAACACTTTGCTAATCTATACCAAGCATCC
* *
33298969 TTGAAGGATAAGGGCAAGCGTGTTGAGACTCACGCCATTGAGAATTCTACTGCTATG
131 TTGAAGGATAAAGGCAAGCGTGTTGAAACTCACGCCATTGAGAATTCTACTGCTATG
33299026 A
1 A
33299027 CCAACGTCGA
Statistics
Matches: 167, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
187 167 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (187 bp):
AAATCATGACAAGGGCAAAAACCCCATGAAAAAGCATGATGAAAGTATCTGCCATTGTTGTGGCA
TGGCTGGACATTGGTTACATACTTGTCGTATGCTAAAACACTTTGCTAATCTATACCAAGCATCC
TTGAAGGATAAAGGCAAGCGTGTTGAAACTCACGCCATTGAGAATTCTACTGCTATG
Found at i:33320708 original size:96 final size:96
Alignment explanation
Indices: 33320587--33320763 Score: 250
Period size: 96 Copynumber: 1.8 Consensus size: 96
33320577 ATATTTTTCT
* ** * * * *
33320587 TTTTTAATCTTTTCATTTTATTTTCATT-AAAATTTAAAATATTAATAATTTTTTATTAAATTAT
1 TTTTCAATCTTTAAATTTTATTTTCATTAAAAATTT-AAACATTAAAAATTTATTATTAAATAAT
*
33320651 TAATATGAT-TTTTATTTTTTCTCTATTTGAA
65 TAATATAATGTTTTATTTTTTCTCTATTTGAA
33320682 TTTTCAATCTTTAAATTTCTATTTTCATTAAAAATTTAAACATTAAAAATTTATTATTAAATAAT
1 TTTTCAATCTTTAAATTT-TATTTTCATTAAAAATTTAAACATTAAAAATTTATTATTAAATAAT
33320747 TAATATAATGTTTTATT
65 TAATATAATGTTTTATT
33320764 GTAATTTCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
95 15 0.21
96 42 0.59
97 14 0.20
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (96 bp):
TTTTCAATCTTTAAATTTTATTTTCATTAAAAATTTAAACATTAAAAATTTATTATTAAATAATT
AATATAATGTTTTATTTTTTCTCTATTTGAA
Found at i:33323908 original size:45 final size:45
Alignment explanation
Indices: 33323842--33323939 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
33323832 CACGCTATGA
* * * *
33323842 TGTTATACGTCATGTACAAAAATATATTACACGCCATGATTAGGT
1 TGTTACACGTCATATACAAAAACATATGACACGCCATGATTAGGT
* * * *
33323887 TGTTACACGTCATATATAAAAACATGTGACACGTCATGCTTAGGT
1 TGTTACACGTCATATACAAAAACATATGACACGCCATGATTAGGT
33323932 TGTTACAC
1 TGTTACAC
33323940 ACTATGTACA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (45 bp):
TGTTACACGTCATATACAAAAACATATGACACGCCATGATTAGGT
Found at i:33323955 original size:45 final size:45
Alignment explanation
Indices: 33323870--33323969 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
33323860 AAAATATATT
* *
33323870 ACACGCCATGATTAGGTTGTTACACGTCATATATAAAAACATGTG
1 ACACGTCATGATTAGGTTGTTACACGACATATATAAAAACATGTG
* *
33323915 ACACGTCATGCTTAGGTTGTTACAC-AC-TATGTACATAAACATGTG
1 ACACGTCATGATTAGGTTGTTACACGACATATATA-A-AAACATGTG
*
33323960 ACACATCATG
1 ACACGTCATG
33323970 TACAAAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 5 0.10
44 2 0.04
45 41 0.85
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (45 bp):
ACACGTCATGATTAGGTTGTTACACGACATATATAAAAACATGTG
Found at i:33323963 original size:24 final size:24
Alignment explanation
Indices: 33323936--33324017 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
33323926 TTAGGTTGTT
*
33323936 ACACACTATGTACATAAACATGTG
1 ACACACTATGTACAAAAACATGTG
* *
33323960 ACACA-TCATGTACAAAAATATGGG
1 ACACACT-ATGTACAAAAACATGTG
** *
33323984 ACATGCCATGTACAAAAACATGTG
1 ACACACTATGTACAAAAACATGTG
*
33324008 ACACGCTATG
1 ACACACTATG
33324018 GTTAGGTTGC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (24 bp):
ACACACTATGTACAAAAACATGTG
Found at i:33324065 original size:29 final size:28
Alignment explanation
Indices: 33324023--33324199 Score: 82
Period size: 29 Copynumber: 6.4 Consensus size: 28
33324013 CTATGGTTAG
*
33324023 GTTGCTACACGCCATATTAAAAAAATACT
1 GTTGTTACACGCCATATT-AAAAAATACT
* *
33324052 GTTGTTACACGCCAT-GTACAAAA-AC-
1 GTTGTTACACGCCATATTAAAAAATACT
* * * *
33324077 -ATATTACACGTCATGGTTAAAAAA-A--
1 GTTGTTACACGCCAT-ATTAAAAAATACT
* * *
33324102 GTTGTTACATGTCATGTTGAAAAAAATATACT
1 GTTGTTACACGCCATATT---AAAAA-ATACT
* * *
33324134 GTTGTTACATGTCATATTGAAAAAATATT
1 GTTGTTACACGCCATATT-AAAAAATACT
* * *
33324163 ATTGTTACACGCCATATTTAAAAACA-T
1 GTTGTTACACGCCATATTAAAAAATACT
*
33324190 TTTGTTACAC
1 GTTGTTACAC
33324200 TTTAATGTCT
Statistics
Matches: 118, Mismatches: 20, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
24 11 0.09
25 3 0.03
26 20 0.17
27 15 0.13
28 12 0.10
29 34 0.29
30 6 0.05
32 17 0.14
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (28 bp):
GTTGTTACACGCCATATTAAAAAATACT
Found at i:33331326 original size:2 final size:2
Alignment explanation
Indices: 33331308--33331345 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
33331298 ATTCATGGGC
33331308 TA TA T- TA T- TA T- TA 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 TA TA TA TA T
33331346 TATCATCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:33331865 original size:2 final size:2
Alignment explanation
Indices: 33331858--33331886 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33331848 AACCCCACCG
33331858 CT CT CT CT CT C- CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
33331887 TCTAATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:33333075 original size:71 final size:71
Alignment explanation
Indices: 33333000--33333139 Score: 217
Period size: 71 Copynumber: 2.0 Consensus size: 71
33332990 AAATCATAAT
* * *
33333000 ATTTTAACCCCTTAATTTTAAAAATTATTTCAATTTAATCCTTCTAATATTTTTCATTTAAATTA
1 ATTTTAACCCCTTAATTTTAAAAATTACTTCAATTTAATCCCTCTAATATTTTTCACTTAAATTA
33333065 ATCAAC
66 ATCAAC
* * **
33333071 ATTTTAATCTCTTAATTTTAAAAATTACTTCAATTTAATCCCTCTAATATTTTTTGCTTAAATTA
1 ATTTTAACCCCTTAATTTTAAAAATTACTTCAATTTAATCCCTCTAATATTTTTCACTTAAATTA
33333136 ATCA
66 ATCA
33333140 TTACAGTGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.36, C:0.15, G:0.01, T:0.49
Consensus pattern (71 bp):
ATTTTAACCCCTTAATTTTAAAAATTACTTCAATTTAATCCCTCTAATATTTTTCACTTAAATTA
ATCAAC
Found at i:33333483 original size:222 final size:220
Alignment explanation
Indices: 33333093--33333491 Score: 550
Period size: 222 Copynumber: 1.8 Consensus size: 220
33333083 TAATTTTAAA
* *
33333093 AATTACTTCAATTTAATCCCTCTAATATTTTTTGCTTAAATTAATCATTACAGTGGCACTGCCAC
1 AATTACTTCAATTTAATCCCTCTAATATTTTATGCTTAAATTAATCATTACAGTGGCACTACCAC
* * * *
33333158 ATCATCAAAAAAGTCATATGACAATTATTTTTTGTTTAAATTAATCATTACCTTGATTTTGAGAA
66 ATCATCAAAAAAGTCACATGACAATTATTTTCTGTTTAAATTAATCATTACATTAATTTTGAGAA
* * *
33333223 TTATTTCAATTTAATCCCTCTAATATAGTTCATTTAAATTTAATTTAATCTTCTAATATTTTTTA
131 TTACTTCAAGTTAATCCCTCTAATATAGTTCATTTAAATTAAATTTAATCTTCTAATATTTTTTA
33333288 AATTAACCGTTATTTTGATTTTGAG
196 AATTAACCGTTATTTTGATTTTGAG
* * * * * *
33333313 AATTACTTTAATTTAATCCCTCTAATATTTTATGTTTAAATTTATCGTTACTGTGGCACTACCAT
1 AATTACTTCAATTTAATCCCTCTAATATTTTATGCTTAAATTAATCATTACAGTGGCACTACCAC
* *
33333378 GTCATCAAAAAAAAGTCACATGACAATTATTTTCTGTTTAAATTAA-CTGTTACATTAATTTTGA
66 ATCATC--AAAAAAGTCACATGACAATTATTTTCTGTTTAAATTAATC-ATTACATTAATTTTGA
* ** **
33333442 TAATTACTTCAAGTTAA-CCCTTCTAATATTTTTTGTTTAAATTAAATTTA
128 GAATTACTTCAAGTTAATCCC-TCTAATATAGTTCATTTAAATTAAATTTA
33333492 GGATTTAGGG
Statistics
Matches: 153, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
220 62 0.41
221 4 0.03
222 87 0.57
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (220 bp):
AATTACTTCAATTTAATCCCTCTAATATTTTATGCTTAAATTAATCATTACAGTGGCACTACCAC
ATCATCAAAAAAGTCACATGACAATTATTTTCTGTTTAAATTAATCATTACATTAATTTTGAGAA
TTACTTCAAGTTAATCCCTCTAATATAGTTCATTTAAATTAAATTTAATCTTCTAATATTTTTTA
AATTAACCGTTATTTTGATTTTGAG
Found at i:33338806 original size:2 final size:2
Alignment explanation
Indices: 33338801--33338849 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
33338791 TTTTTTCAAT
33338801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33338843 TA TA TA T
1 TA TA TA T
33338850 GTACTTGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33345313 original size:25 final size:24
Alignment explanation
Indices: 33345261--33345317 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
33345251 TTAGAAGCAA
*
33345261 GAAAGTTTAATGAAAGAGATCTTC
1 GAAAGTTTAAGGAAAGAGATCTTC
* *
33345285 GAAAAGTTTAAGGAAGGAAGAT-TTT
1 G-AAAGTTTAAGGAAAG-AGATCTTC
33345310 GAAAGTTT
1 GAAAGTTT
33345318 CCGGAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
25 16 0.57
26 4 0.14
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.30
Consensus pattern (24 bp):
GAAAGTTTAAGGAAAGAGATCTTC
Found at i:33359698 original size:2 final size:2
Alignment explanation
Indices: 33359691--33359715 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33359681 TACCATTTCT
33359691 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
33359716 GGATGTGACA
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33367176 original size:2 final size:2
Alignment explanation
Indices: 33367169--33367226 Score: 64
Period size: 2 Copynumber: 28.0 Consensus size: 2
33367159 GGCTGTAGGT
* *
33367169 AG AG AG AG AG AG AG AG AG AG AG ANG -G CG TG TAG TAG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG A-G AG AG AG -AG -AG AG AG AG
33367211 AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG
33367227 GATCTAATCT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
1 1 0.02
2 45 0.88
3 5 0.10
ACGTcount: A:0.43, C:0.02, G:0.48, T:0.05
Consensus pattern (2 bp):
AG
Found at i:33367578 original size:2 final size:2
Alignment explanation
Indices: 33367571--33367599 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33367561 CCTCTACTTT
33367571 TA TA 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 T
33367600 CGGACGAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33393663 original size:2 final size:2
Alignment explanation
Indices: 33393652--33393743 Score: 143
Period size: 2 Copynumber: 46.5 Consensus size: 2
33393642 TCCATTTTTC
33393652 AT AT -T 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 AT AT AT
*
33393693 AT AT AT AT AT NT AT AT -T 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 AT AT AT
*
33393734 GT ACT AT AT A
1 AT A-T AT AT A
33393744 GTCACATGCA
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
1 2 0.02
2 79 0.95
3 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33405971 original size:27 final size:26
Alignment explanation
Indices: 33405920--33406063 Score: 98
Period size: 26 Copynumber: 5.6 Consensus size: 26
33405910 AATATACGTG
* *
33405920 AAAAAAACATTATTACACATAATGTT
1 AAAAAAATATTATTACACATCATGTT
* *
33405946 AAAAAAAATATTATTATATATCATGTT
1 -AAAAAAATATTATTACACATCATGTT
** * * **
33405973 --CGAAATTTTATTATACGGCATGTT
1 AAAAAAATATTATTACACATCATGTT
* * *
33405997 GAAAAAAA-ATTATTACATACCATATT
1 -AAAAAAATATTATTACACATCATGTT
*
33406023 AAAAAAA-AGTTATTACACATCATATT
1 AAAAAAATA-TTATTACACATCATGTT
*
33406049 GAAAAAATATTATTA
1 AAAAAAATATTATTA
33406064 TTACATGTCA
Statistics
Matches: 91, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
24 18 0.20
25 8 0.09
26 39 0.43
27 26 0.29
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (26 bp):
AAAAAAATATTATTACACATCATGTT
Found at i:33430087 original size:3 final size:3
Alignment explanation
Indices: 33430079--33430121 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
33430069 TAAATAAATA
*
33430079 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33430122 TTCAAAATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:33430188 original size:161 final size:158
Alignment explanation
Indices: 33430001--33430319 Score: 611
Period size: 161 Copynumber: 2.0 Consensus size: 158
33429991 TTTTAACGAA
33430001 AAATAAATATTTAAATTTATATTATCGGACTACAATTGTTTAACGATATACAAATTTTAATTTTT
1 AAATAAATATTTAAATTTATATTATCGGACTACAATTGTTTAACGATATACAAATTTTAATTTTT
33430066 AAATAAATAAATAAATAATAATAATAATAATAATAATAATAATAATAATAACAATATTCAAAATT
66 AAATAAATAAATAAATAATAATAATAATAATAATAATAATAATAATAATAACAATATTCAAAATT
33430131 GACATAGATAAGCCTTGACGTAAAACTT
131 GACATAGATAAGCCTTGACGTAAAACTT
33430159 NAAATAAATATTTTAAATTTTATATTATCGGACTACAATTGTTTAACGATATACAAATTTTAATT
1 -AAATAAATA-TTTAAA-TTTATATTATCGGACTACAATTGTTTAACGATATACAAATTTTAATT
33430224 TTTAAATAAATAAATAAATAATAATAATAATAATAATAATAATAATAATAATAACAATATTCAAA
63 TTTAAATAAATAAATAAATAATAATAATAATAATAATAATAATAATAATAATAACAATATTCAAA
33430289 ATTGACATAGATAAGCCTTGACGTAAAACTT
128 ATTGACATAGATAAGCCTTGACGTAAAACTT
33430320 TAACAATTGC
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
159 9 0.06
160 6 0.04
161 143 0.91
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (158 bp):
AAATAAATATTTAAATTTATATTATCGGACTACAATTGTTTAACGATATACAAATTTTAATTTTT
AAATAAATAAATAAATAATAATAATAATAATAATAATAATAATAATAATAACAATATTCAAAATT
GACATAGATAAGCCTTGACGTAAAACTT
Found at i:33430248 original size:3 final size:3
Alignment explanation
Indices: 33430240--33430282 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
33430230 TAAATAAATA
*
33430240 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33430283 TTCAAAATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:33431804 original size:251 final size:251
Alignment explanation
Indices: 33430750--33432450 Score: 1815
Period size: 251 Copynumber: 6.9 Consensus size: 251
33430740 TTTTAATTTT
* * * * * ***
33430750 TAAGTTTTAACGTAAAACTATAACATTTGACGTAAAAACTTAT-AATGACAAAATAACTAAATTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAG-TGGAATAACTAAATTT
* *
33430814 TAAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAAT-AAAAAATTTAATTTT
65 TAAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTT
* ** *
33430878 AGTGAAAAAT---TATTTAAATTTATATTTTTGGGCTAAAAGTGGTTAACGATATATAAATTTTA
130 AATGAAAAATAAATATTTAAATTTATATTTTTGGGCTAAAAGTATTTAACGATATACAAATTTTA
* * * * *
33430940 ATTTTTAAATAAAAAATAATAATGA-AAAAGT--TTATAGTTCAAAATTAATATAAA
195 ATTTTTAAATAAAAAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGA
* * ** * * * *
33430994 TAAGCCTTGACCTAAAACTACAATAATTAACGTAAAAATTTATAAAAATGGAATAACTAAATTTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAGTGGAATAACTAAATTTT
* * * * * * * *
33431059 AAATCTTAACGTAAATATTTGAAAGTTAACGTAATAAGTTAATTAAATAAAAAATTTTAAATTTA
66 AAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTA
* * * * * * * * **
33431124 AT-AAAAATGAACATTT--ATATATATTATTAGGCTAAAAGTATGTAATGATATTCAAATTTTTG
131 ATGAAAAATAAATATTTAAATTTATATTTTTGGGCTAAAAGTATTTAACGATATACAAATTTTAA
* * * *
33431186 CTTTTAAATAAAGAATAAT-AAGAAAAAAATAATTATAGTTCAAAATTGACATAAA
196 TTTTTAAATAAAAAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGA
* * * * *
33431241 AAAATATTGACGTAAAATTGTAACAATTGACGTAAAAACTTA-AAAATGTGAAATAACTAAATTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAA-GTGGAATAACTAAATTT
* *
33431305 TAAATCTTAACGTAAATGTGTGAGAA-TTAATGTAA-AAGTTAATTAAGTAAAAAAATCTAATTT
65 TAAATCTTAACGTAAATGTGTGA-AAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTT
* * * * * *
33431368 TAATGAAAAATAAACATTTATATTTATATTATTGGGTTAAAAGCATGTAACGATATACAAATTTT
129 TAATGAAAAATAAATATTTAAATTTATATTTTTGGGCTAAAAGTATTTAACGATATACAAATTTT
* *
33431433 AATTTTTAAAT-AAAAATAAT-AAGAATACAAATAATTATAGTTTAAAATTGACATAGA
194 AATTTTTAAATAAAAAATAATAAAG-ATAAAAATAATTATAGTTCAAAATTGACATAGA
* * * * *
33431490 TATGTCTTGACATAAAATTGTAAGAATTGACGTAAAAACTTAT-AAAGATTGAATAACTAAATTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAG-TGGAATAACTAAATTT
**
33431554 TAAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAACCAATTAAGTAAAAAAATCTAATTTT
65 TAAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTT
* ** * ** * *
33431619 AGTGAAAACCAAATATTTAAATTTATATTTTTTGATTAAAAGTGTTTAATGATATACAAATTTTA
130 AATGAAAAATAAATATTTAAATTTATATTTTTGGGCTAAAAGTATTTAACGATATACAAATTTTA
33431684 ATTTTTAAATAAAAAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGA
195 ATTTTTAAATAAAAAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGA
* * ** *
33431741 TAAGTCTTGACGTAAAACTGTAATAATTGACGTAAACACTTATAAAAGTTAAATAATTAAATTTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAGTGGAATAACTAAATTTT
* * *
33431806 AAAT-TATAATGTAAATGTGTGAGAGTTAACGTAACAAGTCAATGAAGTAAAAAAATCTAATTTT
66 AAATCT-TAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTT
* * * * *
33431870 AGTGAAAAAGAAATATTCAAATTTATATTTTTGGGCTAAAAGTGTTTAACGATATATAAATTTTA
130 AATGAAAAATAAATATTTAAATTTATATTTTTGGGCTAAAAGTATTTAACGATATACAAATTTTA
** * * *
33431935 ATTTTTAAATAACGAATAATATTA-ATAAAAATAATTATAGTTTAAAATTAACATAGA
195 ATTTTTAAATAAAAAATAATA-AAGATAAAAATAATTATAGTTCAAAATTGACATAGA
* * * * * * * *
33431992 TAAATCTTAACGTAAAACTATAACAGTTGTCATAAAAATTTATAAAGGTGGAATAACTAAATTTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAGTGGAATAACTAAATTTT
* * *
33432057 AACTCTTAACATAAATGTGTAAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTT
66 AAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAGT-AAAAAAATCTAATTTT
** ** *
33432122 AATGAAAAATAAATATTTAAAAATATATTCTCTT--ATTAAAAGTATTTAACGATATATAAATTT
130 AATGAAAAATAAATATTTAAATTTATATT-T-TTGGGCTAAAAGTATTTAACGATATACAAATTT
**
33432185 TAA-TTTT---T-----A-AAT-AA-AT---AATAATTATAGTTCAAAATTGGTATAGA
193 TAATTTTTAAATAAAAAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGA
* * *
33432229 TAAATCTTGACGTAAAATTGTAACAATTGACATAAAAACTTATAAAAGTGGAATAACTAAATTTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAGTGGAATAACTAAATTTT
* * ** * * * *
33432294 AAATCTTAACGTAAATATGTGAGAGTTAACAAAATAAATTAATTAAGTAAAAAAATATAATTTTA
66 AAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTA
* * * * * * * * *
33432359 CTGAAAAATAAGTATTTATATTTATATTATTGGGATAAAAGTATGTAATGATATTCAAATTTTTA
131 ATGAAAAATAAATATTTAAATTTATATTTTTGGGCTAAAAGTATTTAACGATATACAAATTTTAA
*
33432424 -TTTTAAATAAAAAATAACAAAGA-AAAA
196 TTTTTAAATAAAAAATAATAAAGATAAAA
33432451 TNTGTCATAA
Statistics
Matches: 1225, Mismatches: 189, Indels: 81
0.82 0.13 0.05
Matches are distributed among these distances:
234 2 0.00
236 68 0.06
237 120 0.10
239 1 0.00
240 3 0.00
242 3 0.00
243 1 0.00
244 102 0.08
245 76 0.06
246 34 0.03
247 114 0.09
248 17 0.01
249 160 0.13
250 90 0.07
251 353 0.29
252 78 0.06
253 1 0.00
254 2 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (251 bp):
TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAGTGGAATAACTAAATTTT
AAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTA
ATGAAAAATAAATATTTAAATTTATATTTTTGGGCTAAAAGTATTTAACGATATACAAATTTTAA
TTTTTAAATAAAAAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGA
Found at i:33432285 original size:739 final size:734
Alignment explanation
Indices: 33430770--33432450 Score: 1983
Period size: 739 Copynumber: 2.3 Consensus size: 734
33430760 CGTAAAACTA
* * * ***
33430770 TAACATTTGACGTAAAAACTTATAATGACAAAATAACTAAATTTTAAATCTTAACGTAAATGTGT
1 TAACAATTGACATAAAAACTTATAAAGATGGAATAACTAAATTTTAAATCTTAACGTAAATGTGT
* * * *
33430835 GAAAGTTAACGTAACAAGTCAATTAAAT-AAAAAATTTAATTTTAGTG-AAAAATTATTTAAATT
66 GAAAGTTAACGTAACAAATCAATTAAGTAAAAAAATATAATTTTAGTGAAAAAAATATTTAAATT
* * * * *
33430898 TATATTTTTGGGCTAAAAGTGGTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAAT
131 TATATTTTT-GGATAAAAGTGTTTAATGATATACAAATTTTAATTTTTAAATAAAAAATAATAAA
* *
33430963 GAAAAAGTTTATAGTTCAAAATTAATATAAATAAGCCTTGACCTAAAACTACAATAATTAACGTA
195 GAAAAAATTTATAGTTCAAAATTAACATAAATAAGCCTTGACCTAAAACTACAATAATTAACGTA
* * *
33431028 AAAATTTATAAAAATGGAATAACTAAATTTTAAATCTTAACGTAAATATTTGAAAGTTAACGTAA
260 AAAACTTATAAAAATGAAATAACTAAATTTTAAATCTTAACGTAAATATGTGAAAGTTAACGTAA
* * * * *
33431093 TAAGTTAATTAAATAAAAAATTTTAAATTTAATAAAAATGAACATTTATATATATTATTAGGCTA
325 CAAGTCAATGAAATAAAAAAATCTAAATTTAATAAAAATGAACATTTATATATATTATTAGGCTA
* **
33431158 AAAGTATGTAATGATATTCAAATTTTTGCTTTTAAATAAAGAATAATAAGAAAAAAATAATTATA
390 AAAGTATGTAACGATATTCAAATTTTAACTTTTAAATAAAGAATAATAAGAAAAAAATAATTATA
* * * * * *
33431223 GTTCAAAATTGACATAAAAAAATATTGACGTAAAATTGTAACAATTGACGTAAAAACTTAAAAAT
455 GTTCAAAATTAACATAAAAAAATATTAACGTAAAACTATAACAATTGACATAAAAACTTAAAAAG
* * * *
33431288 GTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAATGTAAAAGTTAATTAAGT
520 GTGAAATAACTAAATTTTAAATCTTAACATAAATGTGTGAAAATTAACGTAAAAGTCAATTAAGT
* ** *
33431353 AAAAAAATCTAATTTTAATGAAAAATAAACATTTATATTTATATTATTGGGTTAAAAGCATGTAA
585 AAAAAAATCTAATTTTAATGAAAAATAAACATTTAAAAATATATTATTGGATTAAAAGCATGTAA
*
33431418 CGATATACAAATTTTAATTTTTAAATAAAAATAATAAGAATACAAATAATTATAGTTTAAAATTG
650 CGATATACAAATTTTAATTTTT--AT---AATAATAAGAAT--AAATAATTATAGTTCAAAATTG
**
33431483 ACATAGATATGTCTTGACATAAAATTG
708 ACATAGATAAATCTTGACATAAAATTG
* * *
33431510 TAAGAATTGACGTAAAAACTTATAAAGATTGAATAACTAAATTTTAAATCTTAACGTAAATGTGT
1 TAACAATTGACATAAAAACTTATAAAGATGGAATAACTAAATTTTAAATCTTAACGTAAATGTGT
* *
33431575 GAAAGTTAACGTAACAAACCAATTAAGTAAAAAAATCTAATTTTAGTGAAAACCAAATATTTAAA
66 GAAAGTTAACGTAACAAATCAATTAAGTAAAAAAATATAATTTTAGTGAAAA--AAATATTTAAA
*
33431640 TTTATATTTTTTGATTAAAAGTGTTTAATGATATACAAATTTTAATTTTTAAATAAAAAATAATA
129 TTTATATTTTTGGA-TAAAAGTGTTTAATGATATACAAATTTTAATTTTTAAATAAAAAATAATA
* * * * ** *
33431705 AAGATAAAAATAATTATAGTTCAAAATTGACATAGATAAGTCTTGACGTAAAACTGTAATAATTG
193 AAGA-AAAAAT--TTATAGTTCAAAATTAACATAAATAAGCCTTGACCTAAAACTACAATAATTA
* * * * * * *
33431770 ACGTAAACACTTATAAAAGTTAAATAATTAAATTTTAAAT-TATAATGTAAATGTGTGAGAGTTA
255 ACGTAAAAACTTATAAAAATGAAATAACTAAATTTTAAATCT-TAACGTAAATATGTGAAAGTTA
* * * *
33431834 ACGTAACAAGTCAATGAAGTAAAAAAATCTAATTTTAGTGAAAAA-GAA-ATATTCAAATTTATA
319 ACGTAACAAGTCAATGAAATAAAAAAATCTAAATTTAAT-AAAAATGAACAT-TT---ATATATA
* * * * * * **
33431897 TTTTTGGGCTAAAAGTGTTTAACGATATAT-AAATTTTAATTTTTAAATAACGAATAATATTAAT
379 TTATTAGGCTAAAAGTATGTAACGATAT-TCAAATTTTAACTTTTAAATAAAGAATAATAAGAA-
* * * * * *
33431961 AAAAATAATTATAGTTTAAAATTAACATAGATAAATCTTAACGTAAAACTATAACAGTTGTCATA
442 AAAAATAATTATAGTTCAAAATTAACATAAAAAAATATTAACGTAAAACTATAACAATTGACATA
* * * *
33432026 AAAATTTATAAAGGTGGAATAACTAAATTTTAACTCTTAACATAAATGTGT-AAAAGTTAACGTA
507 AAAACTTAAAAAGGTGAAATAACTAAATTTTAAATCTTAACATAAATGTGTGAAAA-TTAACGTA
* *
33432090 ACAAGTCAATTAAGTAAAAAAAATCTAATTTTAATGAAAAATAAATATTTAAAAATATATTCTCT
571 A-AAGTCAATTAAGT-AAAAAAATCTAATTTTAATGAAAAATAAACATTTAAAAATATATTAT-T
* * * *
33432155 -TATTAAAAGTATTTAACGATATATAAATTTTAA-TTTT-T-A-AAT-A-AAT-AATAATTATAG
633 GGATTAAAAGCATGTAACGATATACAAATTTTAATTTTTATAATAATAAGAATAAATAATTATAG
** *
33432212 TTCAAAATTGGTATAGATAAATCTTGACGTAAAATTG
698 TTCAAAATTGACATAGATAAATCTTGACATAAAATTG
*
33432249 TAACAATTGACATAAAAACTTATAAA-AGTGGAATAACTAAATTTTAAATCTTAACGTAAATATG
1 TAACAATTGACATAAAAACTTATAAAGA-TGGAATAACTAAATTTTAAATCTTAACGTAAATGTG
* ** * * * *
33432313 TGAGAGTTAACAAAATAAATTAATTAAGTAAAAAAATATAATTTTACTGAAAAATAAGTATTTAT
65 TGAAAGTTAACGTAACAAATCAATTAAGTAAAAAAATATAATTTTAGTGAAAAA-AA-TATTTAA
* * * * * *
33432378 ATTTATATTATTGGGATAAAAGTATGTAATGATATTCAAATTTTTA-TTTTAAATAAAAAATAAC
128 ATTTATATT-TTTGGATAAAAGTGTTTAATGATATACAAATTTTAATTTTTAAATAAAAAATAAT
33432442 AAAGAAAAA
192 AAAGAAAAA
33432451 TNTGTCATAA
Statistics
Matches: 805, Mismatches: 112, Indels: 51
0.83 0.12 0.05
Matches are distributed among these distances:
737 5 0.01
738 25 0.03
739 186 0.23
740 88 0.11
741 18 0.02
742 6 0.01
743 2 0.00
744 74 0.09
745 6 0.01
746 3 0.00
747 132 0.16
748 5 0.01
749 1 0.00
750 59 0.07
751 108 0.13
752 16 0.02
753 70 0.09
754 1 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (734 bp):
TAACAATTGACATAAAAACTTATAAAGATGGAATAACTAAATTTTAAATCTTAACGTAAATGTGT
GAAAGTTAACGTAACAAATCAATTAAGTAAAAAAATATAATTTTAGTGAAAAAAATATTTAAATT
TATATTTTTGGATAAAAGTGTTTAATGATATACAAATTTTAATTTTTAAATAAAAAATAATAAAG
AAAAAATTTATAGTTCAAAATTAACATAAATAAGCCTTGACCTAAAACTACAATAATTAACGTAA
AAACTTATAAAAATGAAATAACTAAATTTTAAATCTTAACGTAAATATGTGAAAGTTAACGTAAC
AAGTCAATGAAATAAAAAAATCTAAATTTAATAAAAATGAACATTTATATATATTATTAGGCTAA
AAGTATGTAACGATATTCAAATTTTAACTTTTAAATAAAGAATAATAAGAAAAAAATAATTATAG
TTCAAAATTAACATAAAAAAATATTAACGTAAAACTATAACAATTGACATAAAAACTTAAAAAGG
TGAAATAACTAAATTTTAAATCTTAACATAAATGTGTGAAAATTAACGTAAAAGTCAATTAAGTA
AAAAAATCTAATTTTAATGAAAAATAAACATTTAAAAATATATTATTGGATTAAAAGCATGTAAC
GATATACAAATTTTAATTTTTATAATAATAAGAATAAATAATTATAGTTCAAAATTGACATAGAT
AAATCTTGACATAAAATTG
Found at i:33432366 original size:488 final size:488
Alignment explanation
Indices: 33430759--33432440 Score: 1882
Period size: 488 Copynumber: 3.4 Consensus size: 488
33430749 TTAAGTTTTA
* * * * **
33430759 ACGTAAAACTATAACATTTGACGTAAAAACTTAT-AATGACAAAATAACTAAATTTTAAATCTTA
1 ACGTAAAATTGTAACAATTGACGTAAAAACTTATAAAAG-TGAAATAACTAAATTTTAAATCTTA
* * *
33430823 ACGTAAATGTGTGAAAGTTAACGTAACAAGTCAATTAAAT-AAAAAATTTAATTTTAGTGAAAAA
65 ACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAA
* *
33430887 T---TATTTAAATTTATATTTTTGGGCTAAAAGT-GGTTAACGATATATAAATTTTAATTTTTAA
130 TAAATATTTAAATTTATATTATTGGGCTAAAAGTATG-TAACGATATATAAATTTTAATTTTTAA
* * * * *
33430948 ATAAAA-AATAATAATGAAAAAGT--TTATAGTTCAAAATTAATATAAATAAGCCTTGACCTAAA
194 ATAAAATAATAATAAT-AAAAA-TAATTATAGTTTAAAATTAACATAGATAAGTCTTGACATAAA
* * * *
33431010 ACTACAATAATTAACGTAAAAATTTATAAAAATGGAATAACTAAATTTTAAATCTTAACGTAAAT
257 ACTATAACAATTGACGTAAAAATTTATAAAGATGGAATAACTAAATTTTAAATCTTAACGTAAAT
* * * * * * * * * *
33431075 ATTTGAAAGTTAACGTAATAAGTTAATTAAATAAAAAATTTTAAATTTAAT-AAAAATGAACATT
322 GTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATT
* * **
33431139 T--ATATATA-TTATTAGGCTAAAAGTATGTAATGATAT-TCAAATTTTTGCTTTTAAATAAAGA
387 TAAATATATATTTATTA--TTAAAAGTATTTAATGATATAT-AAA-TTTTAATTTT--AT----A
* * * *
33431200 ATAATAAGAAAAAAATAATTATAGTTCAAAATTGACATAAAAAAATATTG
442 ATAAT---AAAATAATAATTATAGTTCAAAATTGACATAGATAAATCTTG
33431250 ACGTAAAATTGTAACAATTGACGTAAAAACTTA-AAAATGTGAAATAACTAAATTTTAAATCTTA
1 ACGTAAAATTGTAACAATTGACGTAAAAACTTATAAAA-GTGAAATAACTAAATTTTAAATCTTA
* * * *
33431314 ACGTAAATGTGTGAGAATTAATGTAA-AAGTTAATTAAGTAAAAAAATCTAATTTTAATGAAAAA
65 ACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAA
* * * * *
33431378 TAAACATTTATATTTATATTATTGGGTTAAAAGCATGTAACGATATACAAATTTTAATTTTTAAA
130 TAAATATTTAAATTTATATTATTGGGCTAAAAGTATGTAACGATATATAAATTTTAATTTTTAAA
* * * * *
33431443 TAAAAATAATAAGAATACAAATAATTATAGTTTAAAATTGACATAGATATGTCTTGACATAAAAT
195 T-AAAATAATAATAATAAAAATAATTATAGTTTAAAATTAACATAGATAAGTCTTGACATAAAAC
* * * *
33431508 TGTAAGAATTGACGTAAAAACTTATAAAGATTGAATAACTAAATTTTAAATCTTAACGTAAATGT
259 TATAACAATTGACGTAAAAATTTATAAAGATGGAATAACTAAATTTTAAATCTTAACGTAAATGT
** * **
33431573 GTGAAAGTTAACGTAACAAACCAATTAAGTAAAAAAATCTAATTTTAGTGAAAACCAAATATTTA
324 GTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATTTA
* * * *
33431638 AATTTATATTTTTTGATTAAAAGTGTTTAATGATATACAAATTTTAATTTTTAAATAAAAAATAA
389 AATATATATTTATT-ATTAAAAGTATTTAATGATATATAAATTTTAA-TTTT--AT----AATAA
*
33431703 TAAAGATAAAAATAATTATAGTTCAAAATTGACATAGATAAGTCTTG
446 TAAA-AT---AATAATTATAGTTCAAAATTGACATAGATAAATCTTG
* * * * *
33431750 ACGTAAAACTGTAATAATTGACGTAAACACTTATAAAAGTTAAATAATTAAATTTTAAAT-TATA
1 ACGTAAAATTGTAACAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT-TA
* *
33431814 ATGTAAATGTGTGAGAGTTAACGTAACAAGTCAATGAAGTAAAAAAATCTAATTTTAGTGAAAAA
65 ACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAA
* * * * *
33431879 GAAATATTCAAATTTATATTTTTGGGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAA
130 TAAATATTTAAATTTATATTATTGGGCTAAAAGTATGTAACGATATATAAATTTTAATTTTTAAA
* * * *
33431944 TAACGAATAATATTAATAAAAATAATTATAGTTTAAAATTAACATAGATAAATCTTAACGTAAAA
195 TAA--AATAATAATAATAAAAATAATTATAGTTTAAAATTAACATAGATAAGTCTTGACATAAAA
* * * * * *
33432009 CTATAACAGTTGTCATAAAAATTTATAAAGGTGGAATAACTAAATTTTAACTCTTAACATAAATG
258 CTATAACAATTGACGTAAAAATTTATAAAGATGGAATAACTAAATTTTAAATCTTAACGTAAATG
*
33432074 TGTAAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAATGAAAAATAAATATT
323 TGTGAAAGTTAACGTAACAAGTCAATTAAGT-AAAAAAATCTAATTTTAATGAAAAATAAATATT
* * *
33432139 TAAAAATATATTCTCTTATTAAAAGTATTTAACGATATATAAATTTTAATTTT-T-A-AAT-AAA
387 TAAATATATATT-TATTATTAAAAGTATTTAATGATATATAAATTTTAATTTTATAATAATAAAA
**
33432200 TAATAATTATAGTTCAAAATTGGTATAGATAAATCTTG
451 TAATAATTATAGTTCAAAATTGACATAGATAAATCTTG
* *
33432238 ACGTAAAATTGTAACAATTGACATAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAA
1 ACGTAAAATTGTAACAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAA
* ** * * * * *
33432303 CGTAAATATGTGAGAGTTAACAAAATAAATTAATTAAGTAAAAAAATATAATTTTACTGAAAAAT
66 CGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAAT
* * * * *
33432368 AAGTATTTATATTTATATTATTGGGATAAAAGTATGTAATGATAT-TCAAATTTTTA-TTTTAAA
131 AAATATTTAAATTTATATTATTGGGCTAAAAGTATGTAACGATATAT-AAATTTTAATTTTTAAA
33432431 TAAAA-AATAA
195 TAAAATAATAA
33432441 CAAAGAAAAA
Statistics
Matches: 1011, Mismatches: 149, Indels: 69
0.82 0.12 0.06
Matches are distributed among these distances:
484 4 0.00
485 2 0.00
487 11 0.01
488 189 0.19
489 1 0.00
490 11 0.01
491 103 0.10
492 3 0.00
493 3 0.00
494 55 0.05
495 9 0.01
496 140 0.14
497 11 0.01
498 4 0.00
499 45 0.04
500 114 0.11
501 96 0.09
502 138 0.14
503 69 0.07
504 3 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (488 bp):
ACGTAAAATTGTAACAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAA
CGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAAT
AAATATTTAAATTTATATTATTGGGCTAAAAGTATGTAACGATATATAAATTTTAATTTTTAAAT
AAAATAATAATAATAAAAATAATTATAGTTTAAAATTAACATAGATAAGTCTTGACATAAAACTA
TAACAATTGACGTAAAAATTTATAAAGATGGAATAACTAAATTTTAAATCTTAACGTAAATGTGT
GAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATTTAAA
TATATATTTATTATTAAAAGTATTTAATGATATATAAATTTTAATTTTATAATAATAAAATAATA
ATTATAGTTCAAAATTGACATAGATAAATCTTG
Found at i:33432827 original size:434 final size:430
Alignment explanation
Indices: 33432018--33432881 Score: 1656
Period size: 434 Copynumber: 2.0 Consensus size: 430
33432008 ACTATAACAG
33432018 TTGTCATAAAAATTTATAAAGGTGGAATAACTAAATTTTAACTCTTAACATAAATGTGTAAAAGT
1 TTGTCATAAAAATTTATAAAGGTGGAATAACTAAATTTTAACTCTTAACATAAATGTGTAAAAGT
33432083 TAACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAATGAAAAATAAATATTTAAAAATAT
66 TAACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAATGAAAAATAAATATTTAAAAATAT
* *
33432148 ATTCTCTTATTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAATAATAATTATAGT
131 ATTCTCTTATTAAAAGTATTTAACGATATATAAAATTTAAATTTTAAATAAATAATAATTATAGT
33432213 TCAAAATTGGTATAGATAAATCTTGACGTAAAATTGTAACAATTGACATAAAAACTTATAAAAGT
196 TCAAAATTGGTATAGATAAATCTTGACGTAAAATTGTAACAATTGACATAAAAACTTATAAAAGT
33432278 GGAATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACAAAATAAATTAATTAAGTA
261 GGAATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACAAAATAAATTAATTAAGTA
33432343 AAAAAATATAATTTTACTGAAAAATAAGTATTTATATTTATATTATTGGGATAAAAGTATGTAAT
326 AAAAAATATAATTTTACTGAAAAATAAGTATTTATATTTATATTATTGGGATAAAAGTATGTAAT
33432408 GATATTCAAATTTTTATTTTAAATAAAAAATAACAAAGAAAAA
391 GATATTCAAATTTTTATTTTAAAT--AAAATAA-AAAGAAAAA
33432451 TNTGTCATAAAAATTTATAAAGGTGGAATAACTAAATTTTAACTCTTAACATAAATGTGTAAAAG
1 T-TGTCATAAAAATTTATAAAGGTGGAATAACTAAATTTTAACTCTTAACATAAATGTGTAAAAG
33432516 TTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAATGAAAAATAAATATTTAAAAATA
65 TTAACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAATGAAAAATAAATATTTAAAAATA
33432581 TATTCTCTTATTAAAAGTATTTAACGATATATAAAATTTAAATTTTAAATAAATAATAATTATAG
130 TATTCTCTTATTAAAAGTATTTAACGATATATAAAATTTAAATTTTAAATAAATAATAATTATAG
*
33432646 TTCAAAATTGGTATAGATAAATCTTGACGTAAAATTGTAACAATTGACATAAAAACTTATAAAGG
195 TTCAAAATTGGTATAGATAAATCTTGACGTAAAATTGTAACAATTGACATAAAAACTTATAAAAG
*
33432711 TGGAATGACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACAAAATAAATTAATTAAGT
260 TGGAATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACAAAATAAATTAATTAAGT
33432776 AAAAAAATATAATTTTACTGAAAAATAAGTATTTATATTTATATTATTGGGATAAAAGTATGTAA
325 AAAAAAATATAATTTTACTGAAAAATAAGTATTTATATTTATATTATTGGGATAAAAGTATGTAA
33432841 TGATATTCAAATTTTTATTTTAAATAAAATAAAAAGAAAAA
390 TGATATTCAAATTTTTATTTTAAATAAAATAAAAAGAAAAA
33432882 ATATAATTAT
Statistics
Matches: 426, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
431 9 0.02
432 7 0.02
433 1 0.00
434 409 0.96
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.35
Consensus pattern (430 bp):
TTGTCATAAAAATTTATAAAGGTGGAATAACTAAATTTTAACTCTTAACATAAATGTGTAAAAGT
TAACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAATGAAAAATAAATATTTAAAAATAT
ATTCTCTTATTAAAAGTATTTAACGATATATAAAATTTAAATTTTAAATAAATAATAATTATAGT
TCAAAATTGGTATAGATAAATCTTGACGTAAAATTGTAACAATTGACATAAAAACTTATAAAAGT
GGAATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACAAAATAAATTAATTAAGTA
AAAAAATATAATTTTACTGAAAAATAAGTATTTATATTTATATTATTGGGATAAAAGTATGTAAT
GATATTCAAATTTTTATTTTAAATAAAATAAAAAGAAAAA
Found at i:33433153 original size:17 final size:17
Alignment explanation
Indices: 33433091--33433153 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
33433081 ATTTAAAGTA
33433091 AAAAATTAAATTAAA-TT
1 AAAAATTAAA-TAAATTT
* *
33433108 AAAAGTTAAATAACTTT
1 AAAAATTAAATAAATTT
33433125 AAAAATAAATTAAATAAATTT
1 ---AA-AAATTAAATAAATTT
33433146 AAAAATTA
1 AAAAATTA
33433154 TCTATGTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
16 3 0.08
17 17 0.46
18 2 0.05
20 2 0.05
21 13 0.35
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAAATTAAATAAATTT
Found at i:33435237 original size:2 final size:2
Alignment explanation
Indices: 33435230--33435257 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33435220 GCGGCATTTT
33435230 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33435258 GAGGGAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33435306 original size:18 final size:18
Alignment explanation
Indices: 33435285--33435324 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
33435275 AGAGAGATAT
33435285 AGATGGA-AGAGGAGATGG
1 AGATGGATA-AGGAGATGG
*
33435303 AGATGGATACGGAGATGG
1 AGATGGATAAGGAGATGG
33435321 AGAT
1 AGAT
33435325 AGAGCCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.38, C:0.03, G:0.45, T:0.15
Consensus pattern (18 bp):
AGATGGATAAGGAGATGG
Found at i:33440814 original size:28 final size:28
Alignment explanation
Indices: 33440782--33440837 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33440772 TAAGTCAGCT
*
33440782 TCTACTTTCTGCATGTGTCCAGATTGCA
1 TCTACTCTCTGCATGTGTCCAGATTGCA
33440810 TCTACTCTCTGCATGTGTCCAGATTGCA
1 TCTACTCTCTGCATGTGTCCAGATTGCA
33440838 GCTCGTATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (28 bp):
TCTACTCTCTGCATGTGTCCAGATTGCA
Found at i:33460205 original size:61 final size:58
Alignment explanation
Indices: 33460139--33460260 Score: 156
Period size: 58 Copynumber: 2.1 Consensus size: 58
33460129 AATATATTAT
* * *
33460139 ATTATATATTAATGTCTAATATATTATGAATATCTAAAG-ATATTATTATTAATAATTATTC
1 ATTATATACTAAAGTCTAATATA--AAG-ATAT-TAAAGTATATTATTATTAATAATTATTC
* *
33460200 ATTATATACTAAAGTTTAATATAAAGATATTAAAGTTTATTATTATTAATAATTATTC
1 ATTATATACTAAAGTCTAATATAAAGATATTAAAGTATATTATTATTAATAATTATTC
33460258 ATT
1 ATT
33460261 TATTAATAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
57 5 0.09
58 28 0.51
59 2 0.04
61 20 0.36
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (58 bp):
ATTATATACTAAAGTCTAATATAAAGATATTAAAGTATATTATTATTAATAATTATTC
Found at i:33460529 original size:91 final size:90
Alignment explanation
Indices: 33460374--33460547 Score: 294
Period size: 91 Copynumber: 1.9 Consensus size: 90
33460364 ACTTTGCTAT
* * *
33460374 TAGAATAATGTAATTAACAAAATATGATTATACCAACATTAGCGTGTATTAAGATATAAAAAATC
1 TAGAATAATGTAATTAACAAAATATGATTATACCAACATTAACATATATTAAGATATAAAAAATC
33460439 AAATATTTTTAAAGAAATTTATCTCA
66 AAATATTTTTAAA-AAATTTATCTCA
*
33460465 TAGAATAATGTAATTAACAAAATATGATTATATCAACATTAACATATATTAAGATATAAAAAATC
1 TAGAATAATGTAATTAACAAAATATGATTATACCAACATTAACATATATTAAGATATAAAAAATC
*
33460530 AAATATTTTTTAAAAATT
66 AAATATTTTTAAAAAATT
33460548 ATTTAAATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 5 0.06
91 73 0.94
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (90 bp):
TAGAATAATGTAATTAACAAAATATGATTATACCAACATTAACATATATTAAGATATAAAAAATC
AAATATTTTTAAAAAATTTATCTCA
Found at i:33460667 original size:53 final size:52
Alignment explanation
Indices: 33460603--33460723 Score: 136
Period size: 53 Copynumber: 2.3 Consensus size: 52
33460593 TGGATTTTTT
* *
33460603 TTAAATAATTATCTTTAATTTATTATTATTACTATTATTTGTAATGCTT-TAAAA
1 TTAAA-AATTAT-TTTAATTTATTATTATTACTATTATTTATAAT-ATTATAAAA
* ** * *
33460657 TTTAAAATTATTTCTCTTTTATTATTATTATTATTATTTATAATATTATATAA
1 TTAAAAATTATTT-TAATTTATTATTATTACTATTATTTATAATATTATAAAA
33460710 TTAAAAATTATTTT
1 TTAAAAATTATTTT
33460724 TAATAAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
52 5 0.09
53 48 0.84
54 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (52 bp):
TTAAAAATTATTTTAATTTATTATTATTACTATTATTTATAATATTATAAAA
Found at i:33463123 original size:28 final size:28
Alignment explanation
Indices: 33463082--33463298 Score: 179
Period size: 28 Copynumber: 7.9 Consensus size: 28
33463072 ATGTTGTGAT
* * *
33463082 AAAAATTTAGTTATTACACGTCATGTTA
1 AAAAATTTAATTATTACACATTATGTTA
* *
33463110 AAAAATATAATTATTACATATTATGTT-
1 AAAAATTTAATTATTACACATTATGTTA
* * * *
33463137 GAAAATTTAATTGTTACACACTATATTA
1 AAAAATTTAATTATTACACATTATGTTA
* * *
33463165 AAAAATATAATTATTACACATCATG-TC
1 AAAAATTTAATTATTACACATTATGTTA
* * * *
33463192 AAAAATTTAGTTATTGCACATTATATTG
1 AAAAATTTAATTATTACACATTATGTTA
* **
33463220 AAAAATATAATTATTACATGTTATGTT-
1 AAAAATTTAATTATTACACATTATGTTA
* * * * *
33463247 GAAGATTTAATTGTTATACTTTATGTTA
1 AAAAATTTAATTATTACACATTATGTTA
* *
33463275 AAAAATTTAGTTATTACTCATTAT
1 AAAAATTTAATTATTACACATTAT
33463299 AATGAAAAAG
Statistics
Matches: 142, Mismatches: 44, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
27 62 0.44
28 80 0.56
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (28 bp):
AAAAATTTAATTATTACACATTATGTTA
Found at i:33463145 original size:55 final size:54
Alignment explanation
Indices: 33463083--33463291 Score: 202
Period size: 55 Copynumber: 3.8 Consensus size: 54
33463073 TGTTGTGATA
* *
33463083 AAAATTTAGTTATTACACGTCATGTTAAAAAATATAATTATTACATATTATGTTG
1 AAAATTTAATTATTACAC-TCATATTAAAAAATATAATTATTACATATTATGTTG
* * * * **
33463138 AAAATTTAATTGTTACACACTATATTAAAAAATATAATTATTACACATCATGTCA
1 AAAATTTAATTATTACACTC-ATATTAAAAAATATAATTATTACATATTATGTTG
* * * * *
33463193 AAAATTTAGTTATTGCACATTATATTGAAAAATATAATTATTACATGTTATGTTG
1 AAAATTTAATTATTACAC-TCATATTAAAAAATATAATTATTACATATTATGTTG
* * * * * * *
33463248 AAGATTTAATTGTTATACTTTATGTTAAAAAATTTAGTTATTAC
1 AAAATTTAATTATTACAC-TCATATTAAAAAATATAATTATTAC
33463292 TCATTATAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
54 1 0.01
55 122 0.99
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (54 bp):
AAAATTTAATTATTACACTCATATTAAAAAATATAATTATTACATATTATGTTG
Found at i:33463255 original size:110 final size:110
Alignment explanation
Indices: 33463082--33463291 Score: 303
Period size: 110 Copynumber: 1.9 Consensus size: 110
33463072 ATGTTGTGAT
* *
33463082 AAAAATTTAGTTATTACACGTCATGTTAAAAAATATAATTATTACATATTATGTTGAAAATTTAA
1 AAAAATTTAGTTATTACACATCATATTAAAAAATATAATTATTACATATTATGTTGAAAATTTAA
33463147 TTGTTACACACTATATTAAAAAATATAATTATTACACATCATGTC
66 TTGTTACACACTATATTAAAAAATATAATTATTACACATCATGTC
* * * * *
33463192 AAAAATTTAGTTATTGCACATTATATTGAAAAATATAATTATTACATGTTATGTTGAAGATTTAA
1 AAAAATTTAGTTATTACACATCATATTAAAAAATATAATTATTACATATTATGTTGAAAATTTAA
* ** * * *
33463257 TTGTTATACTTTATGTTAAAAAATTTAGTTATTAC
66 TTGTTACACACTATATTAAAAAATATAATTATTAC
33463292 TCATTATAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
110 87 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (110 bp):
AAAAATTTAGTTATTACACATCATATTAAAAAATATAATTATTACATATTATGTTGAAAATTTAA
TTGTTACACACTATATTAAAAAATATAATTATTACACATCATGTC
Found at i:33471099 original size:19 final size:20
Alignment explanation
Indices: 33471056--33471100 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
33471046 AAGCAATTCA
33471056 GGTTTTTCGAATCCTTCTGT
1 GGTTTTTCGAATCCTTCTGT
33471076 GGTTTTTCGAATCCTTCTGT
1 GGTTTTTCGAATCCTTCTGT
33471096 -GTTTT
1 GGTTTT
33471101 CACCCTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.09, C:0.18, G:0.20, T:0.53
Consensus pattern (20 bp):
GGTTTTTCGAATCCTTCTGT
Found at i:33475679 original size:102 final size:102
Alignment explanation
Indices: 33475496--33475701 Score: 290
Period size: 102 Copynumber: 2.0 Consensus size: 102
33475486 TAATGTAGAC
* * *
33475496 TAGCAATGTGCCATTGAAGATAGTGGATCCACTTCAACTCTAACTACTAGTAATGTGCCACGGAC
1 TAGCAATGTGCCACTGAAGATAGTGAATCCACTTCAACTCTAACTACTAATAATGTGCCACGGAC
*
33475561 GATAATAGACCTTTGTTGAATGGGGTGGATGTCATGG
66 GATAATAGACCTTTGTTGAATGGGGTGGATGTCACGG
* * * * * *
33475598 TAGCAATGTGCCACTGAGGATAGTGAATCCACTTCAACTCTGAGTATTAATAATGTGTCACTGA-
1 TAGCAATGTGCCACTGAAGATAGTGAATCCACTTCAACTCTAACTACTAATAATGTGCCACGGAC
33475662 GAATAATAGATCC-TTGTTGAATGGGGTGGATGTCACGG
66 G-ATAATAGA-CCTTTGTTGAATGGGGTGGATGTCACGG
33475700 TA
1 TA
33475702 CTTGCGTGGA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 1 0.01
102 89 0.97
103 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (102 bp):
TAGCAATGTGCCACTGAAGATAGTGAATCCACTTCAACTCTAACTACTAATAATGTGCCACGGAC
GATAATAGACCTTTGTTGAATGGGGTGGATGTCACGG
Found at i:33505131 original size:14 final size:15
Alignment explanation
Indices: 33505112--33505140 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33505102 TAATAAAGGA
33505112 TATTTTTA-TCTTTT
1 TATTTTTATTCTTTT
33505126 TATTTTTATTCTTTT
1 TATTTTTATTCTTTT
33505141 CTTATTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTATTCTTTT
Found at i:33505388 original size:30 final size:29
Alignment explanation
Indices: 33505341--33505436 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 29
33505331 AGGTATTAAA
* *
33505341 GTGTAACAA-AAT-GTTTTTGAATAT-AGC
1 GTGTAACAACAATATTTTTTTAATATGA-C
* *
33505368 GTGTAACAACAATATTTTTTTAACATGAT
1 GTGTAACAACAATATTTTTTTAATATGAC
*
33505397 GTGTAACAATAATATTTTTTTTAATATGAC
1 GTGTAACAACAATA-TTTTTTTAATATGAC
33505427 GTGTAACAAC
1 GTGTAACAAC
33505437 CTAATTATGA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
27 9 0.16
28 3 0.05
29 22 0.39
30 23 0.40
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (29 bp):
GTGTAACAACAATATTTTTTTAATATGAC
Found at i:33505469 original size:45 final size:45
Alignment explanation
Indices: 33505420--33505652 Score: 183
Period size: 45 Copynumber: 5.3 Consensus size: 45
33505410 ATTTTTTTTA
*
33505420 ATATGACGTGTAACAACCTAATTATGACGTGTCACATATTTTTGT
1 ATATGACGTGTAACAACCTAATTATGACGTGTCACATGTTTTTGT
* * *
33505465 ATATGGCTTATAACAACCTAATTATGAC--GTCACATGTTTTTGT
1 ATATGACGTGTAACAACCTAATTATGACGTGTCACATGTTTTTGT
* * * * * *** **
33505508 ACAT-A-GTTTGTAACAACCTAACTATGGCATGTAACA--ACCTAAT
1 ATATGACG--TGTAACAACCTAATTATGACGTGTCACATGTTTTTGT
* ** * *
33505551 -TATGACATGTAACAATTTAATCATGACGTGCCACATGTTTTTGT
1 ATATGACGTGTAACAACCTAATTATGACGTGTCACATGTTTTTGT
* ** *
33505595 ATATAACGTGTAACAACCTAACCATGACGTGTAACATGTTTTTGT
1 ATATGACGTGTAACAACCTAATTATGACGTGTCACATGTTTTTGT
*
33505640 ATATGATGTGTAA
1 ATATGACGTGTAA
33505653 TTTCATTAAG
Statistics
Matches: 139, Mismatches: 40, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
42 22 0.16
43 37 0.27
44 2 0.01
45 78 0.56
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (45 bp):
ATATGACGTGTAACAACCTAATTATGACGTGTCACATGTTTTTGT
Found at i:33505522 original size:43 final size:44
Alignment explanation
Indices: 33505428--33505533 Score: 142
Period size: 43 Copynumber: 2.4 Consensus size: 44
33505418 TAATATGACG
* *
33505428 TGTAACAACCTAATTATGACGTGTCACATATTTTTGTATATGGCT
1 TGTAACAACCTAATTATGACG-GTCACATATTTTTGTACATAGCT
* * *
33505473 TATAACAACCTAATTATGAC-GTCACATGTTTTTGTACATAGTT
1 TGTAACAACCTAATTATGACGGTCACATATTTTTGTACATAGCT
*
33505516 TGTAACAACCTAACTATG
1 TGTAACAACCTAATTATG
33505534 GCATGTAACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 35 0.65
45 19 0.35
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (44 bp):
TGTAACAACCTAATTATGACGGTCACATATTTTTGTACATAGCT
Found at i:33505571 original size:21 final size:21
Alignment explanation
Indices: 33505516--33505565 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
33505506 GTACATAGTT
* *
33505516 TGTAACAACCTAACTATGGCA
1 TGTAACAACCTAATTATGACA
33505537 TGTAACAACCTAATTATGACA
1 TGTAACAACCTAATTATGACA
33505558 TGTAACAA
1 TGTAACAA
33505566 TTTAATCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (21 bp):
TGTAACAACCTAATTATGACA
Found at i:33505576 original size:21 final size:21
Alignment explanation
Indices: 33505516--33505577 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
33505506 GTACATAGTT
*
33505516 TGTAACAACCTAA-CTATGGCA
1 TGTAACAACCTAATC-ATGACA
*
33505537 TGTAACAACCTAATTATGACA
1 TGTAACAACCTAATCATGACA
**
33505558 TGTAACAATTTAATCATGAC
1 TGTAACAACCTAATCATGAC
33505578 GTGCCACATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (21 bp):
TGTAACAACCTAATCATGACA
Found at i:33515122 original size:29 final size:28
Alignment explanation
Indices: 33515063--33515131 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
33515053 AAAAAATTTT
*
33515063 AAATAAATCTTTATATTTTTATTGTGTTC
1 AAATAAAT-TTTATATTTTTATTGTGATC
*
33515092 -AATCAAATTTTATATTTTTATTTTGAATC
1 AAAT-AAATTTTATATTTTTATTGTG-ATC
33515121 AAATAAATTTT
1 AAATAAATTTT
33515132 TATAATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 19 0.54
29 13 0.37
30 3 0.09
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (28 bp):
AAATAAATTTTATATTTTTATTGTGATC
Found at i:33549294 original size:58 final size:58
Alignment explanation
Indices: 33549197--33549308 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
33549187 AATCGCTTTG
* * *
33549197 ATGTGAGATTCACATGGCTCTTTGTTGGAACCATGATATCTTCCACACTCCAACTTCA
1 ATGTGAGATTCACATGACTCTCTATTGGAACCATGATATCTTCCACACTCCAACTTCA
* * * * **
33549255 ATGTGAGATTCCCATGACTCTCTATTGGGATCGTGATATCTTCCGTACTCCAAC
1 ATGTGAGATTCACATGACTCTCTATTGGAACCATGATATCTTCCACACTCCAAC
33549309 AAAGGTCTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 45 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (58 bp):
ATGTGAGATTCACATGACTCTCTATTGGAACCATGATATCTTCCACACTCCAACTTCA
Found at i:33551045 original size:23 final size:22
Alignment explanation
Indices: 33551017--33551063 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
33551007 TGGTTGGTAA
*
33551017 ATATTGGTAGGAATTGAGAAAAT
1 ATATTGCTA-GAATTGAGAAAAT
**
33551040 ATATTGCTAGAATTTTGAAAAT
1 ATATTGCTAGAATTGAGAAAAT
33551062 AT
1 AT
33551064 CTGCGGCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (22 bp):
ATATTGCTAGAATTGAGAAAAT
Found at i:33551770 original size:2 final size:2
Alignment explanation
Indices: 33551759--33551787 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33551749 AATAATAAAC
33551759 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33551788 GGTCGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.