Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 20 of 25
Found at i:3148542 original size:31 final size:31
Alignment explanation
Indices: 3148507--3148577 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
3148497 AATTTTATCG
3148507 ATACATTCTGGGTTTTAACCCAAATATACCA
1 ATACATTCTGGGTTTTAACCCAAATATACCA
* * *
3148538 ATACATTTTGGGTTTTGACCCAAATATACCG
1 ATACATTCTGGGTTTTAACCCAAATATACCA
3148569 ATACATTCT
1 ATACATTCT
3148578 TCAATGTATC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (31 bp):
ATACATTCTGGGTTTTAACCCAAATATACCA
Found at i:3149896 original size:11 final size:11
Alignment explanation
Indices: 3149880--3149904 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3149870 TTAGGTCTAG
3149880 AATCTTGATTA
1 AATCTTGATTA
3149891 AATCTTGATTA
1 AATCTTGATTA
3149902 AAT
1 AAT
3149905 GAGGTCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
AATCTTGATTA
Found at i:3154524 original size:29 final size:30
Alignment explanation
Indices: 3154492--3154551 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
3154482 ATCTCGAACT
3154492 CGTTTGGTATCAAAA-AATTACAAACAATA
1 CGTTTGGTATCAAAAGAATTACAAACAATA
*
3154521 CGTTTGGTATCAAAAGAATTGCAAACAATA
1 CGTTTGGTATCAAAAGAATTACAAACAATA
3154551 C
1 C
3154552 CTTTTCGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (30 bp):
CGTTTGGTATCAAAAGAATTACAAACAATA
Found at i:3156305 original size:50 final size:51
Alignment explanation
Indices: 3156188--3156324 Score: 195
Period size: 50 Copynumber: 2.7 Consensus size: 51
3156178 AATTGTTTGC
* * * * * *
3156188 ATGTATCGATACATTGAAGAATGTATCGATACCTTTGGGTCAAAACCTAGA
1 ATGTATCGATACAATAAAAAATATATCGATACATTTGGATCAAAACCTAGA
3156239 ATGTATCGATACAATAAAAAATATATCGATACATTTGGATC-AAACCTAGA
1 ATGTATCGATACAATAAAAAATATATCGATACATTTGGATCAAAACCTAGA
* *
3156289 ATGTATCGATATAATAAAAAATATATCGATATATTT
1 ATGTATCGATACAATAAAAAATATATCGATACATTT
3156325 TCTTTCTAGA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 43 0.55
51 35 0.45
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACAATAAAAAATATATCGATACATTTGGATCAAAACCTAGA
Found at i:3158467 original size:154 final size:151
Alignment explanation
Indices: 3158192--3158471 Score: 341
Period size: 154 Copynumber: 1.8 Consensus size: 151
3158182 AAGGACCCAA
* * *
3158192 AAATGATCATAAAAGGGTAAACCTATCCTAAATGCACACCTTTGGCATAAAAGTATCTCAATGAC
1 AAATGATCATAAAAGGGTAAACCCATCCTAAATGCACACCTTTAGCATAAAAGCATCTCAATGAC
* * * *
3158257 TACATCTTGGTTTTATGAGAAATTACCAAAATGCTTTTAAGGACTACCTTCCTCTTGAAAGCATT
66 TACATCTTAGTTTTAAGAGAAATTACCAAAATACCTTTAAGGACTACCTTCCTCTTGAAAGCATT
3158322 TCGATGACCCTAAAGACTAAG
131 TCGATGACCCTAAAGACTAAG
* * ** *
3158343 AAATGATCATAGAAA-GGTGAACCCCTCCTAAATGCACA-CTTTAGCATAAAAGCATCTCGGTGG
1 AAATGATCATA-AAAGGGTAAACCCATCCTAAATGCACACCTTTAGCATAAAAGCATCTCAATGA
* * * *
3158406 CTACATTGGACTTAGTTTTAAGGGAAATTTCCAAAATACCTTT-AGGAACTACTTTCGTCTTGAA
65 CTACA-T---CTTAGTTTTAAGAGAAATTACCAAAATACCTTTAAGG-ACTACCTTCCTCTTGAA
3158470 AG
125 AG
3158472 TATCTCGGTT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
150 25 0.23
151 32 0.30
152 3 0.03
153 3 0.03
154 44 0.41
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (151 bp):
AAATGATCATAAAAGGGTAAACCCATCCTAAATGCACACCTTTAGCATAAAAGCATCTCAATGAC
TACATCTTAGTTTTAAGAGAAATTACCAAAATACCTTTAAGGACTACCTTCCTCTTGAAAGCATT
TCGATGACCCTAAAGACTAAG
Found at i:3159359 original size:19 final size:20
Alignment explanation
Indices: 3159332--3159381 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
3159322 AAATATTTAT
*
3159332 ATATGACAAA-ATCAAAATC
1 ATATCACAAAGATCAAAATC
* *
3159351 ATATCACAAAGATTAACATC
1 ATATCACAAAGATCAAAATC
3159371 ATATCAACAAA
1 ATATC-ACAAA
3159382 TAACATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.35
20 12 0.46
21 5 0.19
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (20 bp):
ATATCACAAAGATCAAAATC
Found at i:3159535 original size:16 final size:16
Alignment explanation
Indices: 3159514--3159544 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3159504 TCAAGCAAAA
3159514 TTTTAGCTCACTAAAT
1 TTTTAGCTCACTAAAT
3159530 TTTTAGCTCACTAAA
1 TTTTAGCTCACTAAA
3159545 AGGAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (16 bp):
TTTTAGCTCACTAAAT
Found at i:3164906 original size:23 final size:23
Alignment explanation
Indices: 3164875--3164921 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
3164865 CCTTATACTT
*
3164875 CACCTTATTAGATCTGTTGCTTA
1 CACCCTATTAGATCTGTTGCTTA
3164898 CACCCTATTAGATCTGTTGCTTA
1 CACCCTATTAGATCTGTTGCTTA
3164921 C
1 C
3164922 TTTATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (23 bp):
CACCCTATTAGATCTGTTGCTTA
Found at i:3167548 original size:51 final size:53
Alignment explanation
Indices: 3167481--3167869 Score: 212
Period size: 52 Copynumber: 7.3 Consensus size: 53
3167471 AATTCTCCAC
* * * *
3167481 AATCTGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTCT-AT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTCAT
* * *
3167532 AATCGAGGATACTCCAACTTCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTC-TCAT
* * *** * * *** *
3167586 AATCGGGGATACTCCAAAC-CCG--TTAATCATCGGGGATACTCCAA-CCCCATTAT
1 AATCGGGGATACTCC-AACTCCGATTTTAT-TTC-CAAAAACACCAATTTTC-TCAT
** * * ***
3167639 TTTCGAGGGGATACTCCAAC-CCTGACTTTATTTCC-AAAATATTGATTTT-TCAT
1 AATC--GGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTCTCAT
* * * * * * *
3167692 AATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA----TTTTCTCAT
* * *
3167748 AATCGGGGATACTCCAACCCCGGTTTTATTTGC-AAAACACCAATTTTC-CTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTC-AT
* *
3167800 AATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTT-TCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTCAT
*
3167852 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
3167870 CTCGTTATTT
Statistics
Matches: 258, Mismatches: 56, Indels: 47
0.71 0.16 0.13
Matches are distributed among these distances:
50 3 0.01
51 55 0.21
52 62 0.24
53 44 0.17
54 25 0.10
55 19 0.07
56 42 0.16
57 8 0.03
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (53 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTCAT
Found at i:3167827 original size:52 final size:52
Alignment explanation
Indices: 3167478--3167870 Score: 232
Period size: 51 Copynumber: 7.4 Consensus size: 52
3167468 CTCAATTCTC
* * * * *
3167478 CACAATCTGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT
* * **
3167528 CTATAATCGAGGATACTCCAACTTCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * * * *
3167583 CACAATCGGGGATACTCCAAACCCG--TTAATCATCGGGGATACTCCAAC-CCCATTATTT
1 CACAATCGGGGATACTCCAACCCCGATTTTAT-TTC---CA-A---AAACACCAATT-TTT
* * * * * ***
3167641 -TCGA--GGGGATACTCCAACCCTGACTTTATTTCC-AAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT
* * * * *
3167689 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAA-----TTTTT
* * *
3167745 CACAATCGGGGATACTCCAACCCCGGTTTTATTTGC-AAAACACCAATTTTC
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT
* * *
3167796 CTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT
*
3167849 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
3167871 TCGTTATTTC
Statistics
Matches: 263, Mismatches: 51, Indels: 56
0.71 0.14 0.15
Matches are distributed among these distances:
48 5 0.02
49 4 0.02
50 4 0.02
51 63 0.24
52 52 0.20
53 26 0.10
54 21 0.08
55 20 0.08
56 47 0.18
57 10 0.04
58 7 0.03
59 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:3167915 original size:28 final size:28
Alignment explanation
Indices: 3167858--3167929 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
3167848 TCACAATCGA
* * **
3167858 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
3167886 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
3167914 GGATACTCAAACCCCG
1 GGATACTCCAACCCCG
3167930 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:3167953 original size:267 final size:267
Alignment explanation
Indices: 3167478--3167979 Score: 769
Period size: 267 Copynumber: 1.9 Consensus size: 267
3167468 CTCAATTCTC
* * * * *
3167478 CACAATCTGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGAGGATA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTGCAAAACACCAATTTTCTATAATCGAGGATA
*
3167543 CTCCAACTTCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAACCCG
66 CTCCAACTTCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAACCCG
* * * * *
3167608 TTAATCATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCTGACTTTATTTC
131 TTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCAAACCCCGACTTTATTCC
*
3167673 CAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
196 CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
3167738 TTTTTTT
261 TTTTTTT
* *
3167745 CACAATCGGGGATACTCCAACCCCGGTTTTATTTGCAAAACACCAATTTTCCTATAATCGGGGAT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTGCAAAACACCAATTTT-CTATAATCGAGGAT
3167810 ACTCCAAC-TCTGATTTTATTTCC-AAAAACACCAATTT-TTCACAATCGAGGATACTCC-AACC
65 ACTCCAACTTC-GATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAACC
* * *
3167871 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCAAACCCCGGCTTTA
129 -CGTTA-ATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCAAACCCCGACTTTA
* *
3167936 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAGCCCC
192 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCC
3167980 ATTATTTTCA
Statistics
Matches: 212, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
265 4 0.02
266 24 0.11
267 151 0.71
268 33 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (267 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTGCAAAACACCAATTTTCTATAATCGAGGATA
CTCCAACTTCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAACCCG
TTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCAAACCCCGACTTTATTCC
CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
TTTTTTT
Found at i:3171384 original size:52 final size:52
Alignment explanation
Indices: 3171279--3171458 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
3171269 CGAAATATGA
**
3171279 AAATTTGCCTGCATGTATCGATACA-TGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
3171330 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
3171382 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
3171434 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
3171459 AAGATCAGTG
Statistics
Matches: 125, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
51 25 0.20
52 100 0.80
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:3171485 original size:13 final size:13
Alignment explanation
Indices: 3171467--3171491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3171457 CAAAGATCAG
3171467 TGTATCGATACAA
1 TGTATCGATACAA
3171480 TGTATCGATACA
1 TGTATCGATACA
3171492 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3171569 original size:33 final size:33
Alignment explanation
Indices: 3171532--3171598 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3171522 AGTAGCTTAA
3171532 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3171565 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3171598 A
1 A
3171599 AATTGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3171572 original size:13 final size:13
Alignment explanation
Indices: 3171554--3171578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3171544 CAAAAAAATA
3171554 TGTATCGATACAT
1 TGTATCGATACAT
3171567 TGTATCGATACA
1 TGTATCGATACA
3171579 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3173247 original size:55 final size:55
Alignment explanation
Indices: 3173158--3173268 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
3173148 GACAAGCTTG
* *
3173158 TTCTCATATCAACTCGATTGTCAGTTCTAGCTCAGTCGATTTTTATTTCTCTTTT
1 TTCTCATATCAACTCGATTGTCAGTTCTAACTCAGTCAATTTTTATTTCTCTTTT
*
3173213 TTCTCATATCAACTCGATTGTTAGTTCTAACTCAGTCAATTTTTATTTCTCTTTT
1 TTCTCATATCAACTCGATTGTCAGTTCTAACTCAGTCAATTTTTATTTCTCTTTT
3173268 T
1 T
3173269 CCATTACTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.20, C:0.21, G:0.09, T:0.50
Consensus pattern (55 bp):
TTCTCATATCAACTCGATTGTCAGTTCTAACTCAGTCAATTTTTATTTCTCTTTT
Found at i:3178618 original size:21 final size:21
Alignment explanation
Indices: 3178589--3178631 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3178579 ATTTATTTGG
3178589 TATTATTATCTAATTTA-TATT
1 TATTATTAT-TAATTTATTATT
* *
3178610 TATTTTTATTTATTTATTATT
1 TATTATTATTAATTTATTATT
3178631 T
1 T
3178632 CTAAGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTATTATTAATTTATTATT
Found at i:3178631 original size:11 final size:11
Alignment explanation
Indices: 3178591--3178631 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
3178581 TTATTTGGTA
*
3178591 TTATTATCTAAT
1 TTATTAT-TTAT
3178603 TTA-TATTTAT
1 TTATTATTTAT
3178613 TT-TTATTTAT
1 TTATTATTTAT
3178623 TTATTATTT
1 TTATTATTT
3178632 CTAAGTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 14 0.54
11 9 0.35
12 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:3183760 original size:60 final size:60
Alignment explanation
Indices: 3183694--3184060 Score: 256
Period size: 60 Copynumber: 6.1 Consensus size: 60
3183684 CCAGTTACAC
* * * *
3183694 TAGGCTTAAAATCTAATCTAAAATGCTAACTTCAGTAAGCTTGTCTTGAGCTAGCTATTT
1 TAGGCTTAAAATCTCATCTAAAATGCCAACTTCACTAAGCTTGTCTTGAGCTAGCTATGT
* ** * * *
3183754 TGGGCTTAAAATCTCATCTGAAAA-GCCAACTTTGCTAAGCTTATCCTGAGCTAGATATGT
1 TAGGCTTAAAATCTCATCT-AAAATGCCAACTTCACTAAGCTTGTCTTGAGCTAGCTATGT
* * * * * * * * ** *
3183814 TAAGTTTTAAATCTCATCTAAAATGGCTACTTCACTAGGTTTGTCTTAAAATAGCTATAT
1 TAGGCTTAAAATCTCATCTAAAATGCCAACTTCACTAAGCTTGTCTTGAGCTAGCTATGT
* * * * * * * * * * *
3183874 TAGGATTAAAATCTCAGCTAAAGTGCTAATTTCTCTGAGCCTGGCTT--GTTAGCTAAGTT
1 TAGGCTTAAAATCTCATCTAAAATGCCAACTTCACTAAGCTTGTCTTGAGCTAGCTATG-T
* * * * * * * *
3183933 TATGCATAAAATCTCATCTAAAATGCCAACTTTACTAAACTTATCCTCAGCCAGCTATGT
1 TAGGCTTAAAATCTCATCTAAAATGCCAACTTCACTAAGCTTGTCTTGAGCTAGCTATGT
* * ** * * *
3183993 TGGGCTTAAAATCTCATCTAAAAAGCCAACTTTGCTGAA-CTTGTCTTTAGCCAGCTGTGT
1 TAGGCTTAAAATCTCATCTAAAATGCCAACTTCACT-AAGCTTGTCTTGAGCTAGCTATGT
3184053 TAGGCTTA
1 TAGGCTTA
3184061 GAACTTTTAA
Statistics
Matches: 227, Mismatches: 74, Indels: 12
0.73 0.24 0.04
Matches are distributed among these distances:
58 6 0.03
59 37 0.16
60 171 0.75
61 13 0.06
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (60 bp):
TAGGCTTAAAATCTCATCTAAAATGCCAACTTCACTAAGCTTGTCTTGAGCTAGCTATGT
Found at i:3187205 original size:22 final size:21
Alignment explanation
Indices: 3187149--3187205 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
3187139 TATTACTTTT
*
3187149 ATTA-ATAAAATATAAATATA
1 ATTATATAAAAAATAAATATA
*
3187169 A-TATGTAAATTAAATAAATATAA
1 ATTATATAAA--AAATAAATAT-A
3187192 ATTATATAAAAAAT
1 ATTATATAAAAAAT
3187206 TAAGAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
22 13 0.45
23 2 0.07
24 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTATATAAAAAATAAATATA
Found at i:3187403 original size:24 final size:24
Alignment explanation
Indices: 3187375--3187426 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
3187365 ATAAAAAATG
*
3187375 TTAAAAATAAT-TGATATAAATATA
1 TTAAAAATAATATAATATAAATA-A
* *
3187399 TTAAAATTTATATAATATAAATAA
1 TTAAAAATAATATAATATAAATAA
3187423 TTAA
1 TTAA
3187427 TGTTATTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TTAAAAATAATATAATATAAATAA
Found at i:3188217 original size:12 final size:14
Alignment explanation
Indices: 3188207--3188394 Score: 80
Period size: 14 Copynumber: 13.4 Consensus size: 14
3188197 TTAATAATTT
3188207 TAAATATAATTATA
1 TAAATATAATTATA
3188221 TAAATATAATATATA
1 TAAATATAAT-TATA
3188236 TAAA-ATAA-T-TA
1 TAAATATAATTATA
3188247 -AAATATAA-TATGA
1 TAAATATAATTAT-A
*
3188260 TATAATATAAATATA
1 TA-AATATAATTATA
** *
3188275 TATTTTAAAATCT-TA
1 TA-AATATAAT-TATA
3188290 T-AATATAATTA-A
1 TAAATATAATTATA
*
3188302 TAACGAATTAAAATTAATA
1 T-A--AA-TATAATT-ATA
3188321 TAAATATAAAATT-T-
1 TAAATAT--AATTATA
3188335 TAAATATAATTATTA
1 TAAATATAATTA-TA
3188350 TAAA-ATAATGTATA
1 TAAATATAAT-TATA
*
3188364 TAAGAAATAA-TATA
1 TAA-ATATAATTATA
*
3188378 TATATA-AATTAT-
1 TAAATATAATTATA
3188390 TAAAT
1 TAAAT
3188395 TTACCGTACC
Statistics
Matches: 137, Mismatches: 12, Indels: 52
0.68 0.06 0.26
Matches are distributed among these distances:
10 3 0.02
11 7 0.05
12 15 0.11
13 11 0.08
14 39 0.28
15 36 0.26
16 12 0.09
17 10 0.07
18 2 0.01
19 2 0.01
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:3188233 original size:5 final size:5
Alignment explanation
Indices: 3188209--3188303 Score: 58
Period size: 5 Copynumber: 19.8 Consensus size: 5
3188199 AATAATTTTA
* *
3188209 AATAT AAT-T -ATAT AAATAT AATAT -ATAT AAAAT AATTAA AATAT AATAT
1 AATAT AATAT AATAT -AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT
* * * * **
3188258 GATAT AATAT AA-AT -ATAT ATTTT AAAAT CTTAT AATAT AAT-T AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
3188304 ACGAATTAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 16
0.67 0.16 0.16
Matches are distributed among these distances:
3 3 0.05
4 14 0.21
5 42 0.64
6 7 0.11
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:3188254 original size:39 final size:42
Alignment explanation
Indices: 3188199--3188277 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
3188189 ATTTAAATTT
*
3188199 AATAATTTTAAATATAAT-T-ATATAA-ATATAATATATATAA
1 AATAATTTAAAATATAATATGATATAATATA-AATATATATAA
3188239 AATAA-TTAAAATATAATATGATATAATATAAATATATAT
1 AATAATTTAAAATATAATATGATATAATATAAATATATAT
3188278 TTTAAAATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
39 11 0.31
40 6 0.17
41 15 0.43
42 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (42 bp):
AATAATTTAAAATATAATATGATATAATATAAATATATATAA
Found at i:3188257 original size:30 final size:30
Alignment explanation
Indices: 3188218--3188328 Score: 79
Period size: 30 Copynumber: 3.6 Consensus size: 30
3188208 AAATATAATT
3188218 ATATAAATATAATATATATAAAATAATTAAA
1 ATAT-AATATAATATATATAAAATAATTAAA
*
3188249 ATATAATATGATATAATATAAATATATATTTTAAA
1 ATATAATATAATAT-ATATAAA-ATA-A--TTAAA
**
3188284 ATCTTATAATATAAT-TA-AT-AACGAATTAAA
1 A---TATAATATAATATATATAAAATAATTAAA
3188314 AT-TAATATAA-ATATA
1 ATATAATATAATATATA
3188329 AAATTTTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
26 10 0.15
27 2 0.03
30 15 0.23
31 11 0.17
32 4 0.06
33 2 0.03
34 2 0.03
35 8 0.12
36 1 0.02
37 1 0.02
38 10 0.15
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (30 bp):
ATATAATATAATATATATAAAATAATTAAA
Found at i:3189088 original size:13 final size:13
Alignment explanation
Indices: 3189070--3189095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3189060 AAAAAATAAT
3189070 TAATATTTTTATA
1 TAATATTTTTATA
3189083 TAATATTTTTATA
1 TAATATTTTTATA
3189096 AAAACTTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAATATTTTTATA
Found at i:3190249 original size:2 final size:2
Alignment explanation
Indices: 3190242--3190266 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3190232 TTAAATCGTG
3190242 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3190267 GATTAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3190408 original size:2 final size:2
Alignment explanation
Indices: 3190401--3190435 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3190391 TCAATTCTTT
3190401 TA TA TA 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 TA TA TA T
3190436 TTCAAAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3192871 original size:2 final size:2
Alignment explanation
Indices: 3192864--3192925 Score: 57
Period size: 2 Copynumber: 34.5 Consensus size: 2
3192854 AACTTTGTCT
* *
3192864 AG AG AG AG AG AG AG AG AG AG AA AG AG A- AG AA AG -G AG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3192903 AG A- AG AG AG AG A- AG A- AG A- AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
3192926 TAGGTGGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
1 7 0.14
2 42 0.86
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3192875 original size:6 final size:6
Alignment explanation
Indices: 3192864--3192925 Score: 57
Period size: 5 Copynumber: 11.5 Consensus size: 6
3192854 AACTTTGTCT
* *
3192864 AGAGAG AGAGAG AGAGAG AGAAAG AGA-AG AAAG-G AGAG-G AGA-AG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
3192908 AGAGAG A-AGA- AGA-AG AGA
1 AGAGAG AGAGAG AGAGAG AGA
3192926 TAGGTGGTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
4 2 0.04
5 23 0.48
6 23 0.48
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (6 bp):
AGAGAG
Found at i:3192913 original size:24 final size:26
Alignment explanation
Indices: 3192871--3192918 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
3192861 TCTAGAGAGA
3192871 GAGAGAGAGAGAGAAAGAGAAGAAAG
1 GAGAGAGAGAGAGAAAGAGAAGAAAG
*
3192897 GAGAG-GAGA-AGAGAGAGAAGAA
1 GAGAGAGAGAGAGAAAGAGAAGAA
3192919 GAAGAGATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (26 bp):
GAGAGAGAGAGAGAAAGAGAAGAAAG
Found at i:3196217 original size:32 final size:33
Alignment explanation
Indices: 3196143--3196221 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
3196133 ATAAAAAAAT
* * * * *
3196143 AAAATATATATAATATAAATTTATGAATATTTT
1 AAAATTTATATAAAATAAATTTATGAAGATATA
*
3196176 AAAATTTATATAAAATAAA-TTATTAAGATATA
1 AAAATTTATATAAAATAAATTTATGAAGATATA
3196208 AAAATTTATATAAA
1 AAAATTTATATAAA
3196222 TATATAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 23 0.57
33 17 0.43
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (33 bp):
AAAATTTATATAAAATAAATTTATGAAGATATA
Found at i:3196224 original size:18 final size:18
Alignment explanation
Indices: 3196176--3196225 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
3196166 TGAATATTTT
3196176 AAAATTTATATAAA-AT-
1 AAAATTTATATAAATATA
3196192 -AAA-TTAT-TAAGATATA
1 AAAATTTATATAA-ATATA
3196208 AAAATTTATATAAATATA
1 AAAATTTATATAAATATA
3196226 TAATATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.11
14 5 0.18
15 5 0.18
17 3 0.11
18 9 0.32
19 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATTTATATAAATATA
Found at i:3196784 original size:16 final size:17
Alignment explanation
Indices: 3196763--3196800 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3196753 ATTGAAAAAT
*
3196763 AAATTAATAAA-ATAAA
1 AAATTAACAAATATAAA
3196779 AAATTAACAAATATAAA
1 AAATTAACAAATATAAA
*
3196796 TAATT
1 AAATT
3196801 TAAAACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTAACAAATATAAA
Found at i:3197519 original size:19 final size:19
Alignment explanation
Indices: 3197493--3197543 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
3197483 ACGTAAGCAT
3197493 AAATAAAATAAAAAAAG-A
1 AAATAAAATAAAAAAAGTA
* *
3197511 AAATGAAAAT-GAAACAGTA
1 AAAT-AAAATAAAAAAAGTA
3197530 AAATAAAAATAAAA
1 AAAT-AAAATAAAA
3197544 TAAAATAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.35
19 15 0.58
20 2 0.08
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (19 bp):
AAATAAAATAAAAAAAGTA
Found at i:3201443 original size:20 final size:20
Alignment explanation
Indices: 3201420--3201473 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
3201410 TAAAGGAAAA
3201420 GAAAGGAAAGGAAAGTAAAG
1 GAAAGGAAAGGAAAGTAAAG
* **
3201440 GAAAGGAAAGGAAGGTTGAG
1 GAAAGGAAAGGAAAGTAAAG
*
3201460 GATAGGAAAGGAAA
1 GAAAGGAAAGGAAA
3201474 TATGTATCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.39, T:0.07
Consensus pattern (20 bp):
GAAAGGAAAGGAAAGTAAAG
Found at i:3201473 original size:5 final size:5
Alignment explanation
Indices: 3201411--3201452 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
3201401 AGACAATATT
* *
3201411 AAAGG AAAAG AAAGG AAAGG AAAGT AAAGG AAAGG AAAGG AA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AA
3201453 GGTTGAGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (5 bp):
AAAGG
Found at i:3201801 original size:20 final size:20
Alignment explanation
Indices: 3201776--3201816 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3201766 GCTTTAGGAA
*
3201776 TTAAAA-CCAATTTAAGTACC
1 TTAAAAGCCAATATAAG-ACC
3201796 TTAAAAGCCAATATAAGACC
1 TTAAAAGCCAATATAAGACC
3201816 T
1 T
3201817 AATGAACCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (20 bp):
TTAAAAGCCAATATAAGACC
Found at i:3219574 original size:130 final size:128
Alignment explanation
Indices: 3219398--3219657 Score: 423
Period size: 130 Copynumber: 2.0 Consensus size: 128
3219388 TCTCTTAGTT
*
3219398 TTTGTCTTATTTGTTTTCTTTTGAGCAATATATAAGAGTTTGTGTTAAAGTTACCACTTTGGTCA
1 TTTGTCTTATTTGTTTTCTTTTGAGCAATATATAAGAGTGTGTGTTAAAGTTACCAC-TTGGTCA
* *
3219463 TTAGCTCGTAGCACTTGCTATTTCGAAAGAAAAGGTCAGTGCCATGTGTAACTGCATGGTAAGTG
65 TTAGCTCGTAGCACTGGCTATTTCGAAAG-AAA-GTCAGTGACATGTGTAACTGCATGGTAAGTG
3219528 C
128 C
*
3219529 TTTGTCTTATTTGTTTTC-TTTGAGCAATATGTAAGAGTGTGTGTTAAAGTTACCACTTGGTCAT
1 TTTGTCTTATTTGTTTTCTTTTGAGCAATATATAAGAGTGTGTGTTAAAGTTACCACTTGGTCAT
* * *
3219593 TAGTTCGTAGCACTGGCTATTTCGAAAGAAAGTCAGTGACATTTGTAACTGCATGTTAAGTGC
66 TAGCTCGTAGCACTGGCTATTTCGAAAGAAAGTCAGTGACATGTGTAACTGCATGGTAAGTGC
3219656 TT
1 TT
3219658 AGTTCTATTT
Statistics
Matches: 122, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
127 31 0.25
128 3 0.02
129 34 0.28
130 36 0.30
131 18 0.15
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.40
Consensus pattern (128 bp):
TTTGTCTTATTTGTTTTCTTTTGAGCAATATATAAGAGTGTGTGTTAAAGTTACCACTTGGTCAT
TAGCTCGTAGCACTGGCTATTTCGAAAGAAAGTCAGTGACATGTGTAACTGCATGGTAAGTGC
Found at i:3220115 original size:9 final size:9
Alignment explanation
Indices: 3220089--3220143 Score: 67
Period size: 9 Copynumber: 6.1 Consensus size: 9
3220079 CTCCATGGGG
*
3220089 TTTTCTTTA
1 TTTTCTTTT
*
3220098 GTTTC-TTT
1 TTTTCTTTT
3220106 TTTTCTTTT
1 TTTTCTTTT
*
3220115 TTCTCTTTT
1 TTTTCTTTT
3220124 TTTTCTTCTT
1 TTTTCTT-TT
3220134 TTTTCTTTT
1 TTTTCTTTT
3220143 T
1 T
3220144 CCTATCGGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
8 6 0.15
9 24 0.62
10 9 0.23
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:3220132 original size:21 final size:19
Alignment explanation
Indices: 3220103--3220143 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
3220093 CTTTAGTTTC
3220103 TTTTTTTCTTTTTTCTCTTT
1 TTTTTTTCTTTTTTCT-TTT
3220123 TTTTTCTTCTTTTTTCTTTT
1 TTTTT-TTCTTTTTTCTTTT
3220143 T
1 T
3220144 CCTATCGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTCTTTTTTCTTTT
Found at i:3220632 original size:17 final size:18
Alignment explanation
Indices: 3220610--3220647 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
3220600 AAGTAGAAAA
3220610 AACCTGATAGTT-TGATC
1 AACCTGATAGTTCTGATC
*
3220627 AACCTGCTAGTTCTGATC
1 AACCTGATAGTTCTGATC
3220645 AAC
1 AAC
3220648 ACGGAGCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
AACCTGATAGTTCTGATC
Found at i:3225517 original size:2 final size:2
Alignment explanation
Indices: 3225510--3225538 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3225500 CTAAATAAAC
3225510 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 A
3225539 AAGAGAAAGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3226269 original size:26 final size:25
Alignment explanation
Indices: 3226234--3226313 Score: 80
Period size: 24 Copynumber: 3.3 Consensus size: 25
3226224 ATTTTACTAT
*
3226234 ATTTCTTATTTTTATTTTCTAATTA
1 ATTTTTTATTTTTATTTTCTAATTA
*
3226259 A-TTTTTATATTTA-TTTC-AATTA
1 ATTTTTTATTTTTATTTTCTAATTA
3226281 ATTTTTTATTGCTTTTATTTT-TAATT-
1 ATTTTTTA-T--TTTTATTTTCTAATTA
3226307 ATTTTTT
1 ATTTTTT
3226314 GTTATATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
22 6 0.13
23 10 0.22
24 11 0.24
25 1 0.02
26 11 0.24
27 7 0.15
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (25 bp):
ATTTTTTATTTTTATTTTCTAATTA
Found at i:3229352 original size:519 final size:519
Alignment explanation
Indices: 3228373--3229411 Score: 2078
Period size: 519 Copynumber: 2.0 Consensus size: 519
3228363 GCACAAATGA
3228373 ATAAGCATTTTAGCAAATTTCCTTTAAAAAATTTGCATATTGGAAAAATATCATATATAGAGAGA
1 ATAAGCATTTTAGCAAATTTCCTTTAAAAAATTTGCATATTGGAAAAATATCATATATAGAGAGA
3228438 GTTCTTCATTTTTCCTTCTTTTTTCTTGACAAGATATAATACTATGCTAAATCATATTCCACCTA
66 GTTCTTCATTTTTCCTTCTTTTTTCTTGACAAGATATAATACTATGCTAAATCATATTCCACCTA
3228503 TATTAGTGGATGAATGGTCTATATGCAAATACTTATGCAATCAAAACCAAATGAAAATTTAGTTA
131 TATTAGTGGATGAATGGTCTATATGCAAATACTTATGCAATCAAAACCAAATGAAAATTTAGTTA
3228568 AGTTTAAAACTATTTAATTCAATTAGTTTATTTAATCATCTTTAAAAAATATCCTTAAAAATGAT
196 AGTTTAAAACTATTTAATTCAATTAGTTTATTTAATCATCTTTAAAAAATATCCTTAAAAATGAT
3228633 TCAATTCCCAATCCTTGCGACCATGCAATCTCTTACTCTGATTATGAAATACTACTGCCTCTTTT
261 TCAATTCCCAATCCTTGCGACCATGCAATCTCTTACTCTGATTATGAAATACTACTGCCTCTTTT
3228698 GTTAAAAAAAAAAATTCTAAAAATTCATGTCTAATAGGCTAAGCTCATTTGGTAAATTAACACAC
326 GTTAAAAAAAAAAATTCTAAAAATTCATGTCTAATAGGCTAAGCTCATTTGGTAAATTAACACAC
3228763 TCGAGAGTTGGGATACGATCCAAACTGTCGGTCGAAATAACTGCTCAAGGAGCGTAAAGCATCCT
391 TCGAGAGTTGGGATACGATCCAAACTGTCGGTCGAAATAACTGCTCAAGGAGCGTAAAGCATCCT
3228828 GCCATCTTAGGTTATAAGCTCTAAAAATTCTGTAGGATCAAAGTGTCTTGAGTTTAAAATTACT
456 GCCATCTTAGGTTATAAGCTCTAAAAATTCTGTAGGATCAAAGTGTCTTGAGTTTAAAATTACT
3228892 ATAAGCATTTTAGCAAATTTCCTTTAAAAAATTTGCATATTGGAAAAATATCATATATAGAGAGA
1 ATAAGCATTTTAGCAAATTTCCTTTAAAAAATTTGCATATTGGAAAAATATCATATATAGAGAGA
3228957 GTTCTTCATTTTTCCTTCTTTTTTCTTGACAAGATATAATACTATGCTAAATCATATTCCACCTA
66 GTTCTTCATTTTTCCTTCTTTTTTCTTGACAAGATATAATACTATGCTAAATCATATTCCACCTA
3229022 TATTAGTGGATGAATGGTCTATATGCAAATACTTATGCAATCAAAACCAAATGAAAATTTAGTTA
131 TATTAGTGGATGAATGGTCTATATGCAAATACTTATGCAATCAAAACCAAATGAAAATTTAGTTA
3229087 AGTTTAAAACTATTTAATTCAATTAGTTTATTTAATCATCTTTAAAAAATATCCTTAAAAATGAT
196 AGTTTAAAACTATTTAATTCAATTAGTTTATTTAATCATCTTTAAAAAATATCCTTAAAAATGAT
3229152 TCAATTCCCAATCCTTGCGACCATGCAATCTCTTACTCTGATTATGAAATACTACTGCCTCTTTT
261 TCAATTCCCAATCCTTGCGACCATGCAATCTCTTACTCTGATTATGAAATACTACTGCCTCTTTT
3229217 GTTAAAAAAAAAAATTCTAAAAATTCATGTCTAATAGGCTAAGCTCATTTGGTAAATTAACACAC
326 GTTAAAAAAAAAAATTCTAAAAATTCATGTCTAATAGGCTAAGCTCATTTGGTAAATTAACACAC
3229282 TCGAGAGTTGGGATACGATCCAAACTGTCGGTCGAAATAACTGCTCAAGGAGCGTAAAGCATCCT
391 TCGAGAGTTGGGATACGATCCAAACTGTCGGTCGAAATAACTGCTCAAGGAGCGTAAAGCATCCT
3229347 GCCATCTTAGGTTATAAGCTCTAAAAATTCTGTAGGATCAAAGTGTCTTGAGTTTAAAATTACT
456 GCCATCTTAGGTTATAAGCTCTAAAAATTCTGTAGGATCAAAGTGTCTTGAGTTTAAAATTACT
3229411 A
1 A
3229412 CAAGATAAAA
Statistics
Matches: 520, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
519 520 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (519 bp):
ATAAGCATTTTAGCAAATTTCCTTTAAAAAATTTGCATATTGGAAAAATATCATATATAGAGAGA
GTTCTTCATTTTTCCTTCTTTTTTCTTGACAAGATATAATACTATGCTAAATCATATTCCACCTA
TATTAGTGGATGAATGGTCTATATGCAAATACTTATGCAATCAAAACCAAATGAAAATTTAGTTA
AGTTTAAAACTATTTAATTCAATTAGTTTATTTAATCATCTTTAAAAAATATCCTTAAAAATGAT
TCAATTCCCAATCCTTGCGACCATGCAATCTCTTACTCTGATTATGAAATACTACTGCCTCTTTT
GTTAAAAAAAAAAATTCTAAAAATTCATGTCTAATAGGCTAAGCTCATTTGGTAAATTAACACAC
TCGAGAGTTGGGATACGATCCAAACTGTCGGTCGAAATAACTGCTCAAGGAGCGTAAAGCATCCT
GCCATCTTAGGTTATAAGCTCTAAAAATTCTGTAGGATCAAAGTGTCTTGAGTTTAAAATTACT
Found at i:3230975 original size:5 final size:5
Alignment explanation
Indices: 3230965--3230989 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3230955 AGATAACTAA
3230965 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
3230990 TTTAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:3231956 original size:23 final size:23
Alignment explanation
Indices: 3231925--3231985 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
3231915 TTAGTAAGTT
* ***
3231925 TTAACTTTTTATTTGTATTTAAA
1 TTAATTTTTTATTTGTAAAAAAA
*
3231948 TTAATTTTTTATTTTTAAAAAAA
1 TTAATTTTTTATTTGTAAAAAAA
*
3231971 TTAATATTTTATTTG
1 TTAATTTTTTATTTG
3231986 AAATACAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (23 bp):
TTAATTTTTTATTTGTAAAAAAA
Found at i:3232652 original size:21 final size:22
Alignment explanation
Indices: 3232626--3232668 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3232616 TATCATATTT
*
3232626 TAATTTATC-TCATATTTTTAA
1 TAATTTATCATAATATTTTTAA
3232647 TAATTTATCATAATATTTTTAA
1 TAATTTATCATAATATTTTTAA
3232669 ATTTTTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATTTATCATAATATTTTTAA
Found at i:3237981 original size:18 final size:18
Alignment explanation
Indices: 3237960--3237994 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3237950 TTTATATTTA
* *
3237960 ATATAATGTTTTTATTAT
1 ATATAATATTTTAATTAT
3237978 ATATAATATTTTAATTA
1 ATATAATATTTTAATTA
3237995 ATCTTAAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATAATATTTTAATTAT
Found at i:3238475 original size:17 final size:17
Alignment explanation
Indices: 3238453--3238487 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3238443 ATACTGATGG
3238453 TGATATAAAAATATAAA
1 TGATATAAAAATATAAA
*
3238470 TGATATAAATATATAAA
1 TGATATAAAAATATAAA
3238487 T
1 T
3238488 TATTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
TGATATAAAAATATAAA
Found at i:3238958 original size:20 final size:20
Alignment explanation
Indices: 3238921--3238960 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3238911 AAATTTTATG
3238921 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
*
3238941 TAAATATTAA-TATTAAAATA
1 TAAAT-TTAATTATAAAAATA
3238961 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:3239204 original size:16 final size:16
Alignment explanation
Indices: 3239183--3239214 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3239173 CTTTAAACAG
*
3239183 GAAAAAGATAGCTGAA
1 GAAAAAGATAGATGAA
3239199 GAAAAAGATAGATGAA
1 GAAAAAGATAGATGAA
3239215 TTTCGATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.25, T:0.12
Consensus pattern (16 bp):
GAAAAAGATAGATGAA
Found at i:3247492 original size:18 final size:17
Alignment explanation
Indices: 3247469--3247504 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
3247459 ATTTATAATT
*
3247469 TTTTATTTTTTATTAAAA
1 TTTTATTTTAT-TTAAAA
3247487 TTTTATTTTATTTAAAA
1 TTTTATTTTATTTAAAA
3247504 T
1 T
3247505 ATTAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATTTTATTTAAAA
Found at i:3247983 original size:22 final size:23
Alignment explanation
Indices: 3247944--3247988 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3247934 AAATATTAAT
*
3247944 TTATTAAAAAATATAATTATATC
1 TTATCAAAAAATATAATTATATC
3247967 TTATCAAAAAATA-AATTATATC
1 TTATCAAAAAATATAATTATATC
3247989 ATAAGCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (23 bp):
TTATCAAAAAATATAATTATATC
Found at i:3248863 original size:22 final size:22
Alignment explanation
Indices: 3248838--3248936 Score: 65
Period size: 22 Copynumber: 4.8 Consensus size: 22
3248828 TGTGTCTATT
3248838 ATTTTAAATATTAATATAATTA
1 ATTTTAAATATTAATATAATTA
3248860 ATTTGT-AATATATAATAT--TGTA
1 ATTT-TAAATAT-TAATATAAT-TA
**
3248882 ATAATAAATATT--TA-AATTA
1 ATTTTAAATATTAATATAATTA
3248901 ATTTT--ATA-TAATA-AATTA
1 ATTTTAAATATTAATATAATTA
* *
3248919 ATTTTATATATAAATATA
1 ATTTTAAATATTAATATA
3248937 GATTTTAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
16 1 0.02
17 3 0.05
18 12 0.20
19 7 0.12
20 4 0.07
21 7 0.12
22 19 0.32
23 7 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTTAAATATTAATATAATTA
Found at i:3248924 original size:29 final size:32
Alignment explanation
Indices: 3248849--3248931 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 32
3248839 TTTTAAATAT
3248849 TAATATAATTAATTTGTAATATATAATATTGTAA
1 TAATA-AATTAATTT-TAATATATAATATTGTAA
3248883 TAATAAA-T-A-TTTAA-AT-TAAT-TT-TATA
1 TAATAAATTAATTTTAATATATAATATTGTA-A
3248909 TAATAAATTAATTTT-ATATATAA
1 TAATAAATTAATTTTAATATATAA
3248932 ATATAGATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
25 2 0.05
26 10 0.23
27 5 0.12
28 4 0.09
29 8 0.19
30 5 0.12
31 1 0.02
32 1 0.02
33 2 0.05
34 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
TAATAAATTAATTTTAATATATAATATTGTAA
Found at i:3248930 original size:20 final size:18
Alignment explanation
Indices: 3248894--3248953 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
3248884 AATAAATATT
3248894 TAAATTAATTTTATATAA
1 TAAATTAATTTTATATAA
3248912 TAAATTAATTTTATAT-A
1 TAAATTAATTTTATATAA
3248929 TAAATATAGATTTTA-ATAAA
1 TAAAT-TA-ATTTTATAT-AA
3248949 TAAAT
1 TAAAT
3248954 ATATTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.16
18 20 0.53
19 6 0.16
20 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTATATAA
Found at i:3248960 original size:16 final size:16
Alignment explanation
Indices: 3248940--3248980 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3248930 AAATATAGAT
3248940 TTTAATAAATAA-ATA
1 TTTAATAAATAACATA
3248955 TATTAA-AAATAACATA
1 T-TTAATAAATAACATA
3248971 TTATAATAAA
1 TT-TAATAAA
3248981 AATTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 8 0.36
16 11 0.50
17 3 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TTTAATAAATAACATA
Found at i:3249167 original size:16 final size:17
Alignment explanation
Indices: 3249146--3249179 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3249136 AAGAGGCTCT
*
3249146 AACCCGAGAAAGC-TAA
1 AACCCGAAAAAGCATAA
3249162 AACCCGAAAAAGCATAA
1 AACCCGAAAAAGCATAA
3249179 A
1 A
3249180 CTCGAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.24, G:0.15, T:0.06
Consensus pattern (17 bp):
AACCCGAAAAAGCATAA
Found at i:3249244 original size:16 final size:16
Alignment explanation
Indices: 3249177--3249244 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
3249167 GAAAAAGCAT
*
3249177 AAACTCGAATAAACCT
1 AAACTCGAATAAACCC
* * *
3249193 GAACTCGAAAAAAACC
1 AAACTCGAATAAACCC
****
3249209 AAACTCGAATAAGTTT
1 AAACTCGAATAAACCC
*
3249225 AAACTCGAATAAGCCC
1 AAACTCGAATAAACCC
3249241 AAAC
1 AAAC
3249245 CCTAAAAGAC
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.50, C:0.24, G:0.10, T:0.16
Consensus pattern (16 bp):
AAACTCGAATAAACCC
Found at i:3250878 original size:16 final size:15
Alignment explanation
Indices: 3250841--3250879 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3250831 AATATATGTT
3250841 TTTATTAAATATTTA
1 TTTATTAAATATTTA
*
3250856 TTATATTTAATATTTGA
1 TT-TATTAAATATTT-A
3250873 TTTATTA
1 TTTATTA
3250880 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 15 0.75
17 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTATTAAATATTTA
Found at i:3252335 original size:26 final size:24
Alignment explanation
Indices: 3252299--3252347 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
3252289 TATTTAAAAT
*
3252299 ATTAAAATTAATATATATTTTTTATA
1 ATTAAAATTAA-ATA-ATTTATTATA
*
3252325 ATTAAATTTAAATAATTTATTAT
1 ATTAAAATTAAATAATTTATTAT
3252348 TTAATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTAAAATTAAATAATTTATTATA
Found at i:3252642 original size:11 final size:12
Alignment explanation
Indices: 3252604--3252645 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
3252594 AAAATTTATA
3252604 ATTTTAATTAAAT
1 ATTTTAA-TAAAT
*
3252617 TTTATTAATAAAT
1 ATT-TTAATAAAT
3252630 ATTTTAA-AAAT
1 ATTTTAATAAAT
3252641 ATTTT
1 ATTTT
3252646 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 9 0.35
12 4 0.15
13 9 0.35
14 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTAATAAAT
Found at i:3252747 original size:18 final size:19
Alignment explanation
Indices: 3252713--3252758 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
3252703 AATTATTAAC
*
3252713 TTTTATATT-TAATATAATG
1 TTTT-TATTATAATATAATA
3252732 TTTTTATTATAA-ATAATA
1 TTTTTATTATAATATAATA
*
3252750 TTTTAATTA
1 TTTTTATTA
3252759 ATCTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTTATTATAATATAATA
Found at i:3253026 original size:20 final size:19
Alignment explanation
Indices: 3252991--3253035 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
3252981 AAATTATGTG
3252991 TAAATTTAATTATAAAATA
1 TAAATTTAATTATAAAATA
3253010 TAAATATTAA-TATTAAAATA
1 TAAAT-TTAATTA-TAAAATA
3253030 -AAATTT
1 TAAATTT
3253036 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 11 0.46
20 11 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTAATTATAAAATA
Found at i:3253039 original size:20 final size:20
Alignment explanation
Indices: 3253003--3253078 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 20
3252993 AATTTAATTA
*
3253003 TAAAATATAAA-TATTAATAT
1 TAAAATA-AAATTTTTAATAT
*
3253023 TAAAATAAAATTTTTAAAAT
1 TAAAATAAAATTTTTAATAT
** * * *
3253043 TTTAAT-ATATTTTAAATAA
1 TAAAATAAAATTTTTAATAT
*
3253062 TAAAATTAAATTTTTAA
1 TAAAATAAAATTTTTAA
3253079 ACTCTGAGTC
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 16 0.38
20 26 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAATAAAATTTTTAATAT
Found at i:3255576 original size:20 final size:21
Alignment explanation
Indices: 3255539--3255577 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
3255529 TTAAAATATT
3255539 ATTTGTATAATAATATTTATA
1 ATTTGTATAATAATATTTATA
3255560 ATTT-TATAATTAA-ATTTA
1 ATTTGTATAA-TAATATTTA
3255578 AATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTTGTATAATAATATTTATA
Found at i:3256805 original size:29 final size:27
Alignment explanation
Indices: 3256773--3256827 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
3256763 TTTGATTTTA
*
3256773 ATTAAGAGTTTATTTAAATATAATTAAAT
1 ATTAAAAGTTTATTTAAA-A-AATTAAAT
*
3256802 ATTAAAATTTTATTTAAAAAATTAAA
1 ATTAAAAGTTTATTTAAAAAATTAAA
3256828 AATATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
28 1 0.04
29 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTAAAAGTTTATTTAAAAAATTAAAT
Found at i:3257110 original size:18 final size:20
Alignment explanation
Indices: 3257075--3257125 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
3257065 ATAAATACTC
* *
3257075 AATAATTTTTTTCTTTTAA-
1 AATAATTTTTATCATTTAAT
3257094 AATAATTTTTAT-ATTTAATT
1 AATAATTTTTATCATTTAA-T
*
3257114 AATTATTTTTAT
1 AATAATTTTTAT
3257126 GAAATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
AATAATTTTTATCATTTAAT
Found at i:3257547 original size:11 final size:11
Alignment explanation
Indices: 3257531--3257606 Score: 58
Period size: 10 Copynumber: 7.4 Consensus size: 11
3257521 TTAATAATAA
3257531 AATATAAAATT
1 AATATAAAATT
3257542 AATATAAAA-T
1 AATATAAAATT
**
3257552 AAT-T--TTTT
1 AATATAAAATT
*
3257560 ATTAT-AAA-T
1 AATATAAAATT
3257569 AATATAAAATT
1 AATATAAAATT
3257580 AATAT-AAATT
1 AATATAAAATT
3257590 AATATTATAAATT
1 AATA-TA-AAATT
3257603 AATA
1 AATA
3257607 AAATAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
8 3 0.06
9 7 0.14
10 16 0.31
11 16 0.31
13 9 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATAAAATT
Found at i:3257600 original size:13 final size:12
Alignment explanation
Indices: 3257562--3257606 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 12
3257552 AATTTTTTAT
3257562 TATAAA-TAATA
1 TATAAATTAATA
3257573 TA-AAATT-A-A
1 TATAAATTAATA
3257582 TATAAATTAATA
1 TATAAATTAATA
3257594 TTATAAATTAATA
1 -TATAAATTAATA
3257607 AAATAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 3 0.10
10 9 0.31
11 4 0.14
12 1 0.03
13 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TATAAATTAATA
Found at i:3257667 original size:59 final size:59
Alignment explanation
Indices: 3257544--3257668 Score: 141
Period size: 59 Copynumber: 2.1 Consensus size: 59
3257534 ATAAAATTAA
**
3257544 TATAAAATAATTTTTTATTATAAATAATATAAAATTAATATAAATTAATATTATAAATT
1 TATAAAATAATTTTTTATTATAAATAATATAAAAAAAATATAAATTAATATTATAAATT
* * *
3257603 AATAAAATAATTTTTTATTAATATTATAAATAGTAAAAAAAAT-TTAATT-A-ATT-TAAATT
1 TATAAAATAATTTTTTATT-ATA-AAT-AATA-TAAAAAAAATATAAATTAATATTATAAATT
3257662 TATAAAA
1 TATAAAA
3257669 ATTTTATTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
59 30 0.54
60 6 0.11
61 3 0.05
62 9 0.16
63 8 0.14
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (59 bp):
TATAAAATAATTTTTTATTATAAATAATATAAAAAAAATATAAATTAATATTATAAATT
Found at i:3258054 original size:19 final size:18
Alignment explanation
Indices: 3258004--3258056 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
3257994 CAGTAAAACA
3258004 TATTTATAATTTATATTTT
1 TATTTATAATTT-TATTTT
3258023 TA-TTA-AAGTTTTATTTT
1 TATTTATAA-TTTTATTTT
3258040 TATTTATAATCTTTATT
1 TATTTATAAT-TTTATT
3258057 ATTCAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 10 0.33
19 10 0.33
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TATTTATAATTTTATTTT
Found at i:3258472 original size:23 final size:22
Alignment explanation
Indices: 3258444--3258488 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
3258434 GAAATAGTAA
3258444 TTTATCAAAAAATATAATTATAT
1 TTTATCAAAAAATA-AATTATAT
*
3258467 TTTATCAAAAAGTAAATTATAT
1 TTTATCAAAAAATAAATTATAT
3258489 CATGAGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTATCAAAAAATAAATTATAT
Found at i:3259462 original size:16 final size:15
Alignment explanation
Indices: 3259378--3259479 Score: 53
Period size: 16 Copynumber: 6.4 Consensus size: 15
3259368 TGCAACATAT
* *
3259378 AATATTGTAATAATA
1 AATATTTTAAAAATA
*
3259393 AATA-TTTAAAAATT
1 AATATTTTAAAAATA
* *
3259407 AATTTTATATAATAAATT
1 AATATT-T-TAA-AAATA
* *
3259425 AATTTTGTGTATAAATA
1 AATATT-T-TAAAAATA
*
3259442 TATATTTTAAAAAATA
1 AATATTTT-AAAAATA
*
3259458 AATATATTAAAAATA
1 AATATTTTAAAAATA
3259473 ATATATT
1 A-ATATT
3259480 ATAATAAAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
14 10 0.15
15 14 0.21
16 18 0.27
17 11 0.16
18 14 0.21
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AATATTTTAAAAATA
Found at i:3259475 original size:14 final size:14
Alignment explanation
Indices: 3259437--3259506 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 14
3259427 TTTTGTGTAT
*
3259437 AAATATATATTTTAAA
1 AAATA-ATATATT-AA
3259453 AAATAAATATATTAA
1 AAAT-AATATATTAA
3259468 AAATAATATATTATA
1 AAATAATATATTA-A
* *
3259483 ATAAAAATTTACTTAA
1 A-AATAATATA-TTAA
3259499 AAATAATA
1 AAATAATA
3259507 ATTTAATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
14 9 0.20
15 13 0.29
16 19 0.42
17 4 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAATATATTAA
Found at i:3259519 original size:26 final size:29
Alignment explanation
Indices: 3259454--3259522 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
3259444 TATTTTAAAA
*
3259454 AATAAATATA-TTAAAAATAATATATTAT
1 AATAAATTTACTTAAAAATAATATATTAT
3259482 AATAAAAATTTACTTAAAAATAATA-ATT-T
1 AAT--AAATTTACTTAAAAATAATATATTAT
3259511 AAT-AATTTACTT
1 AATAAATTTACTT
3259523 TTTAAGTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
26 9 0.24
28 3 0.08
29 4 0.11
30 9 0.24
31 12 0.32
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AATAAATTTACTTAAAAATAATATATTAT
Found at i:3259638 original size:16 final size:16
Alignment explanation
Indices: 3259619--3259662 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
3259609 AAAAAAGCCT
3259619 AAACTCGAAAAGGCCC
1 AAACTCGAAAAGGCCC
*
3259635 AAACTCGAAAAAGGCTC
1 AAACTCG-AAAAGGCCC
*
3259652 GAACTCGAAAA
1 AAACTCGAAAA
3259663 AGCATAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.48, C:0.25, G:0.18, T:0.09
Consensus pattern (16 bp):
AAACTCGAAAAGGCCC
Found at i:3259672 original size:16 final size:16
Alignment explanation
Indices: 3259610--3259682 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 16
3259600 CCAAACCCAA
3259610 AAAAAGCCTAAACTCG
1 AAAAAGCCTAAACTCG
* *
3259626 AAAAGGCCCAAACTCG
1 AAAAAGCCTAAACTCG
* *
3259642 AAAAAGGCTCGAACTCG
1 AAAAAGCCT-AAACTCG
* *
3259659 AAAAAGCATAAACTTG
1 AAAAAGCCTAAACTCG
*
3259675 AATAAGCC
1 AAAAAGCC
3259683 CGAACCCAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
16 31 0.70
17 13 0.30
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.12
Consensus pattern (16 bp):
AAAAAGCCTAAACTCG
Found at i:3259964 original size:16 final size:16
Alignment explanation
Indices: 3259943--3260002 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
3259933 AATAAAAAGT
3259943 AAATTATTATTTAATA
1 AAATTATTATTTAATA
** *
3259959 AAATTAAAAATTAA-A
1 AAATTATTATTTAATA
*
3259974 AAAATATTATTTAAT-
1 AAATTATTATTTAATA
*
3259989 TAATATATTATTTA
1 AAAT-TATTATTTA
3260003 TTTTATATTA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
15 13 0.39
16 20 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTATTATTTAATA
Found at i:3260782 original size:18 final size:17
Alignment explanation
Indices: 3260759--3260820 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
3260749 ATTTTTTAAA
3260759 ATTAAATAAAAATAATAT
1 ATTAAATAAAAATAAT-T
*
3260777 ATTAAAT-AAAAT-TTT
1 ATTAAATAAAAATAATT
*
3260792 ATTAAATAATAATTAATT
1 ATTAAATAA-AAATAATT
*
3260810 AATAAATAAAA
1 ATTAAATAAAA
3260821 TTTTGAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 8 0.22
16 2 0.05
17 10 0.27
18 17 0.46
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTAAATAAAAATAATT
Found at i:3260796 original size:15 final size:15
Alignment explanation
Indices: 3260776--3260824 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
3260766 AAAAATAATA
3260776 TATTAAATAAAATTT
1 TATTAAATAAAATTT
3260791 TATTAAATAATAATTAAT
1 TATTAAATAA-AATT--T
*
3260809 TAATAAATAAAATTT
1 TATTAAATAAAATTT
3260824 T
1 T
3260825 GAATTATACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 12 0.40
16 4 0.13
17 4 0.13
18 10 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTAAATAAAATTT
Found at i:3260800 original size:33 final size:33
Alignment explanation
Indices: 3260759--3260824 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3260749 ATTTTTTAAA
*
3260759 ATTAAATAA-AAATAATATATTAAATAAAATTTT
1 ATTAAATAATAAATAAT-TAATAAATAAAATTTT
*
3260792 ATTAAATAATAATTAATTAATAAATAAAATTTT
1 ATTAAATAATAAATAATTAATAAATAAAATTTT
3260825 GAATTATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
ATTAAATAATAAATAATTAATAAATAAAATTTT
Found at i:3262230 original size:28 final size:26
Alignment explanation
Indices: 3262180--3262232 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
3262170 AATTAAAGTT
3262180 ATTTAATTATCATTTAAAAAAATTAC
1 ATTTAATTATCATTTAAAAAAATTAC
* *
3262206 ATTTAATATATTATTTTAATAAAATTA
1 ATTTAAT-TATCA-TTTAAAAAAATTA
3262233 AAATAAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 4 0.17
28 12 0.52
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTTAATTATCATTTAAAAAAATTAC
Found at i:3266275 original size:57 final size:56
Alignment explanation
Indices: 3266178--3266288 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 56
3266168 TATATTAAAG
* *
3266178 ATTACTATGTCATTTTATGCATTTAGGTACATTTAAGTCATTTTTTATGATTTATAA
1 ATTACTATGTCATTTCATGCATTTAGGTACATTT-AGTCATTTTCTATGATTTATAA
*
3266235 ATTACTATGTCATTTCATGCATTTTAGAGTTAC-TTT-GTCATTTTCTATGTTTTA
1 ATTACTATGTCATTTCATGCA-TTTAG-G-TACATTTAGTCATTTTCTATGATTTA
3266289 GAGACTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
57 36 0.75
58 5 0.10
59 4 0.08
60 3 0.06
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (56 bp):
ATTACTATGTCATTTCATGCATTTAGGTACATTTAGTCATTTTCTATGATTTATAA
Found at i:3266287 original size:28 final size:29
Alignment explanation
Indices: 3266214--3266291 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
3266204 GTACATTTAA
* *
3266214 GTCATTTTTTATGATTTATA-AATTACTAT
1 GTCATTTTCTATGATTT-TAGAGTTACTAT
*
3266243 GTCA-TTTC-ATGCATTTTAGAGTTACTTT
1 GTCATTTTCTATG-ATTTTAGAGTTACTAT
3266271 GTCATTTTCTATG-TTTTAGAG
1 GTCATTTTCTATGATTTTAGAG
3266292 ACTATTATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
27 5 0.12
28 26 0.62
29 8 0.19
30 3 0.07
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.53
Consensus pattern (29 bp):
GTCATTTTCTATGATTTTAGAGTTACTAT
Found at i:3266442 original size:58 final size:58
Alignment explanation
Indices: 3266183--3266665 Score: 227
Period size: 58 Copynumber: 8.4 Consensus size: 58
3266173 TAAAGATTAC
* * * * * * *
3266183 TATGTCATTTTATGCA-TTTAGGTA-CATTTAAGTCATTTTTTATGATTTATAAATTAC
1 TATGTCATTTCATGCATTTTA-ATATCATTTTAGTCATTTTTTATGATTTAGAGACTAT
* * *
3266240 TATGTCATTTCATGCATTTTAGAGT-T-ACTTT-GTCATTTTCTATGTTTTAGAGACTAT
1 TATGTCATTTCATGCATTTTA-A-TATCATTTTAGTCATTTTTTATGATTTAGAGACTAT
* * * * * ** * *
3266297 TATATAATTTTATGCATTTTAAGATCATTTTAGTCATTTTTTACGACCTGGAGACCAT
1 TATGTCATTTCATGCATTTTAATATCATTTTAGTCATTTTTTATGATTTAGAGACTAT
* * * * ** * * *
3266355 TATG-CAAGTTGAAGCATTTTTATGCCATTTTTGTCATTTTTTATGATTTAGAGATTTT
1 TATGTC-ATTTCATGCATTTTAATATCATTTTAGTCATTTTTTATGATTTAGAGACTAT
* * * * * * *
3266413 TATGTCATTTCATGCACTTTAATATCATTTTAGTAAATTCTCATAATTTAG-GCCTATT
1 TATGTCATTTCATGCATTTTAATATCATTTTAGTCATTTTTTATGATTTAGAGACTA-T
** * * * * *
3266471 TATG-CATTCTCAT-CTATTTTAAGGTCATTCTAGTAATTTTTTATG-TCTTAAAGATTTT
1 TATGTCATT-TCATGC-ATTTTAATATCATTTTAGTCATTTTTTATGAT-TTAGAGACTAT
* * * * * *
3266529 TATG-CAATTTCATACATTTTAAGACCATTTTAGTCATTTTCTATGCTTAAG-GTACTAT
1 TATGTC-ATTTCATGCATTTTAATATCATTTTAGTCATTTTTTATGATTTAGAG-ACTAT
* ** * * * * * * *
3266587 TATGTAATTTCATATATTTTTACA-CTATTTTAGTCATTTTTCATGATATAAAAACTCT
1 TATGTCATTTCATGCATTTTAATATC-ATTTTAGTCATTTTTTATGATTTAGAGACTAT
** *
3266645 TATGAAATTTTATGCATTTTA
1 TATGTCATTTCATGCATTTTA
3266666 TCACCATTCT
Statistics
Matches: 313, Mismatches: 93, Indels: 39
0.70 0.21 0.09
Matches are distributed among these distances:
56 2 0.01
57 67 0.21
58 235 0.75
59 9 0.03
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (58 bp):
TATGTCATTTCATGCATTTTAATATCATTTTAGTCATTTTTTATGATTTAGAGACTAT
Found at i:3272118 original size:2 final size:2
Alignment explanation
Indices: 3272111--3272137 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3272101 CTACTCACCA
3272111 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3272138 ATTTACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3276433 original size:11 final size:11
Alignment explanation
Indices: 3276417--3276442 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3276407 CATGTAACAC
3276417 ATGTAAAGTAT
1 ATGTAAAGTAT
3276428 ATGTAAAGTAT
1 ATGTAAAGTAT
3276439 ATGT
1 ATGT
3276443 GTTTAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (11 bp):
ATGTAAAGTAT
Found at i:3277438 original size:21 final size:21
Alignment explanation
Indices: 3277413--3277463 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
3277403 GTTCGAAATA
*
3277413 TTATAAATTTATATAA-ACTTT
1 TTATATATTTA-ATAATACTTT
*
3277434 TTATATA-TTAATAATTCTTT
1 TTATATATTTAATAATACTTT
3277454 TTATATATTT
1 TTATATATTT
3277464 TTTAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATATATTTAATAATACTTT
Found at i:3277518 original size:27 final size:25
Alignment explanation
Indices: 3277488--3277546 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
3277478 TATTTATGTC
3277488 ATATTTAT-ATTATTTTTGTATCACATT
1 ATATTTATAATTATTTTT-T-T-ACATT
*
3277515 ATATTT-TAATTATTTTTTTATATT
1 ATATTTATAATTATTTTTTTACATT
3277539 ATATTTAT
1 ATATTTAT
3277547 GTTGTATCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 10 0.34
25 2 0.07
26 2 0.07
27 15 0.52
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (25 bp):
ATATTTATAATTATTTTTTTACATT
Found at i:3277596 original size:18 final size:18
Alignment explanation
Indices: 3277557--3277598 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3277547 GTTGTATCTC
* *
3277557 AATTTATTTTATTTTTAT
1 AATTTATTTTAATTTCAT
3277575 AATTTATTGTTAATTTCA-
1 AATTTATT-TTAATTTCAT
3277593 AATTTA
1 AATTTA
3277599 GTTATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
AATTTATTTTAATTTCAT
Found at i:3277685 original size:22 final size:22
Alignment explanation
Indices: 3277647--3277709 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 22
3277637 TAATAATTAT
3277647 TTAATATAA-T-TTAATTTAAA
1 TTAATATAATTATTAATTTAAA
3277667 TTAATATAATTATTAATTT-AA
1 TTAATATAATTATTAATTTAAA
* *
3277688 TTAA-ATATTTATAAATATTAAA
1 TTAATATAATTATTAAT-TTAAA
3277710 AAACTCTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 19 0.51
21 9 0.24
22 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATATAATTATTAATTTAAA
Found at i:3277698 original size:34 final size:35
Alignment explanation
Indices: 3277624--3277698 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
3277614 TTTTTAAAAG
*
3277624 ATATTTAAATAAATAATAATTATTTAATATAATTT
1 ATATTTAAATAAATAATAATTATTTAATATAATTA
* *
3277659 A-ATTTAAATTAAT-ATAATTA-TTAATTTAATTAA
1 ATATTTAAATAAATAATAATTATTTAATATAATT-A
3277692 ATATTTA
1 ATATTTA
3277699 TAAATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 10 0.29
33 8 0.23
34 16 0.46
35 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATATTTAAATAAATAATAATTATTTAATATAATTA
Found at i:3277700 original size:26 final size:27
Alignment explanation
Indices: 3277649--3277708 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
3277639 ATAATTATTT
3277649 AATA-TAATTTAATTTAAATTAATATA
1 AATATTAATTTAATTTAAATTAATATA
* *
3277675 ATTATTAATTTAA-TTAAA-TATTTATA
1 AATATTAATTTAATTTAAATTA-ATATA
3277701 AATATTAA
1 AATATTAA
3277709 AAAACTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 19 0.66
27 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AATATTAATTTAATTTAAATTAATATA
Found at i:3281236 original size:33 final size:32
Alignment explanation
Indices: 3281146--3281240 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 32
3281136 TTGACCATCT
3281146 TGAACAATCTGACTTGCTTGTTAATGAAGAAA
1 TGAACAATCTGACTTGCTTGTTAATGAAGAAA
** * * *
3281178 --AA-TTTGCTGAAGTTG-ATGTTCATGAAGAAGA
1 TGAACAAT-CTG-ACTTGCTTGTTAATGAAGAA-A
3281209 TGAACAATCTGACTTGCTTGTTAATGAAGAAA
1 TGAACAATCTGACTTGCTTGTTAATGAAGAAA
3281241 AAAGTGCCGA
Statistics
Matches: 46, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
29 1 0.02
30 17 0.37
31 5 0.11
32 5 0.11
33 17 0.37
34 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (32 bp):
TGAACAATCTGACTTGCTTGTTAATGAAGAAA
Found at i:3281253 original size:63 final size:63
Alignment explanation
Indices: 3281146--3281275 Score: 197
Period size: 63 Copynumber: 2.1 Consensus size: 63
3281136 TTGACCATCT
** *
3281146 TGAACAATCTGACTTGCTTGTTAATGAAGAAAAATTTGCTGAAGTTGATGTTCATGAAGAAGA
1 TGAACAATCTGACTTGCTTGTTAATGAAGAAAAAAGTGCCGAAGTTGATGTTCATGAAGAAGA
* ** *
3281209 TGAACAATCTGACTTGCTTGTTAATGAAGAAAAAAGTGCCGAAGTTGATTTTGGTGAGGAAGA
1 TGAACAATCTGACTTGCTTGTTAATGAAGAAAAAAGTGCCGAAGTTGATGTTCATGAAGAAGA
3281272 TGAA
1 TGAA
3281276 GATTATCTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (63 bp):
TGAACAATCTGACTTGCTTGTTAATGAAGAAAAAAGTGCCGAAGTTGATGTTCATGAAGAAGA
Found at i:3281988 original size:24 final size:24
Alignment explanation
Indices: 3281956--3282013 Score: 109
Period size: 23 Copynumber: 2.5 Consensus size: 24
3281946 CATATTGACG
3281956 ATATCTTAGAAGATTTGTGAAATA
1 ATATCTTAGAAGATTTGTGAAATA
3281980 ATATCTTAG-AGATTTGTGAAATA
1 ATATCTTAGAAGATTTGTGAAATA
3282003 ATATCTTAGAA
1 ATATCTTAGAA
3282014 AATTATAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.70
24 10 0.30
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (24 bp):
ATATCTTAGAAGATTTGTGAAATA
Found at i:3286691 original size:23 final size:24
Alignment explanation
Indices: 3286651--3286705 Score: 103
Period size: 23 Copynumber: 2.3 Consensus size: 24
3286641 CATATTGACG
3286651 ATATCTTAGAAGATTTGTGAAATA
1 ATATCTTAGAAGATTTGTGAAATA
3286675 ATATCTTAG-AGATTTGTGAAATA
1 ATATCTTAGAAGATTTGTGAAATA
3286698 ATATCTTA
1 ATATCTTA
3286706 AAAAATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 22 0.71
24 9 0.29
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (24 bp):
ATATCTTAGAAGATTTGTGAAATA
Found at i:3289603 original size:28 final size:29
Alignment explanation
Indices: 3289552--3289606 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
3289542 ATATATTTTT
*
3289552 ATATAATAAAAAATATTTAATATATAAAA
1 ATATAATAAAAAATATATAATATATAAAA
* *
3289581 ATATAA-AATAAATATATATTATATAA
1 ATATAATAAAAAATATATAATATATAA
3289607 TTATAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
ATATAATAAAAAATATATAATATATAAAA
Found at i:3289945 original size:15 final size:14
Alignment explanation
Indices: 3289887--3289946 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
3289877 TTAAAAATAT
*
3289887 TTATAAAATGGTAA
1 TTATAAAATAGTAA
*
3289901 TTACAAAATAGTAA
1 TTATAAAATAGTAA
* *
3289915 TAATAAAA-A-TAT
1 TTATAAAATAGTAA
3289927 TTATAAATATAGTAA
1 TTATAAA-ATAGTAA
3289942 TTATA
1 TTATA
3289947 TTAAATAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
12 8 0.22
13 2 0.06
14 19 0.53
15 7 0.19
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.37
Consensus pattern (14 bp):
TTATAAAATAGTAA
Found at i:3290248 original size:19 final size:19
Alignment explanation
Indices: 3290224--3290261 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3290214 TTCACATAAT
3290224 TAAATTCAA-TATCTATTTA
1 TAAATTCAATTAT-TATTTA
*
3290243 TAAATTTAATTATTATTTA
1 TAAATTCAATTATTATTTA
3290262 ATTTTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATTCAATTATTATTTA
Found at i:3290732 original size:21 final size:21
Alignment explanation
Indices: 3290707--3290746 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3290697 GTTGATGTAT
*
3290707 CTTTTAACTATACTGACATGA
1 CTTTTAACTATAATGACATGA
* *
3290728 CTTTTGACTCTAATGACAT
1 CTTTTAACTATAATGACAT
3290747 AATATTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (21 bp):
CTTTTAACTATAATGACATGA
Found at i:3291469 original size:13 final size:13
Alignment explanation
Indices: 3291451--3291475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3291441 AATAAAAAAA
3291451 TTAATATTTTAAT
1 TTAATATTTTAAT
3291464 TTAATATTTTAA
1 TTAATATTTTAA
3291476 AATTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATATTTTAAT
Found at i:3291918 original size:21 final size:21
Alignment explanation
Indices: 3291894--3291936 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3291884 TTATTTCAAA
3291894 ATATAATAT-TTTTAAAATTTT
1 ATATAATATATTTT-AAATTTT
*
3291915 ATATAATATATTTTTAATTTT
1 ATATAATATATTTTAAATTTT
3291936 A
1 A
3291937 AAATTACGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATAATATATTTTAAATTTT
Found at i:3293235 original size:21 final size:21
Alignment explanation
Indices: 3293211--3293252 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3293201 ATTTACGTAT
*
3293211 CTTTTGACTATATTGATATGA
1 CTTTTGACTATAATGATATGA
*
3293232 CTTTTGACTCTAATGATATGA
1 CTTTTGACTATAATGATATGA
3293253 TATTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (21 bp):
CTTTTGACTATAATGATATGA
Found at i:3295220 original size:16 final size:16
Alignment explanation
Indices: 3295174--3295256 Score: 80
Period size: 16 Copynumber: 5.2 Consensus size: 16
3295164 TCTGAACTCG
* * *
3295174 AATTCAAATAAGTTCA
1 AATTTAAATAAATTTA
*
3295190 AACTTAAA-AATATTTA
1 AATTTAAATAA-ATTTA
3295206 AATTTAAATAAATTTA
1 AATTTAAATAAATTTA
3295222 AATTTAAA-AAATTTTA
1 AATTTAAATAAA-TTTA
* *
3295238 AACTCAAATAAATTTA
1 AATTTAAATAAATTTA
3295254 AAT
1 AAT
3295257 CTGAACCCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
15 5 0.09
16 45 0.82
17 5 0.09
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.37
Consensus pattern (16 bp):
AATTTAAATAAATTTA
Found at i:3295252 original size:32 final size:32
Alignment explanation
Indices: 3295177--3295256 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
3295167 GAACTCGAAT
* * * *
3295177 TCAAATAAGTTCAAACTTAAAAATATTTAAAT
1 TCAAATAAATTTAAATTTAAAAATATTTAAAC
*
3295209 TTAAATAAATTTAAATTTAAAAA-ATTTTAAAC
1 TCAAATAAATTTAAATTTAAAAATA-TTTAAAC
3295241 TCAAATAAATTTAAAT
1 TCAAATAAATTTAAAT
3295257 CTGAACCCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 1 0.02
32 40 0.98
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (32 bp):
TCAAATAAATTTAAATTTAAAAATATTTAAAC
Found at i:3296283 original size:2 final size:2
Alignment explanation
Indices: 3296276--3296305 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3296266 AATCCAACAA
3296276 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
3296306 GGAAATATGA
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):
AT
Found at i:3296456 original size:18 final size:18
Alignment explanation
Indices: 3296419--3296457 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3296409 TTTTGCATTA
*
3296419 AAATATTTTTTTAAATTT
1 AAATATTTTTTTAAAATT
3296437 AAAT-TTTTTTTAATAATT
1 AAATATTTTTTTAA-AATT
3296455 AAA
1 AAA
3296458 GTTGTAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATTTTTTTAAAATT
Found at i:3297044 original size:21 final size:21
Alignment explanation
Indices: 3296996--3297043 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
3296986 AAGAAATAAA
* *
3296996 TTGTTGTT-TTTCTTTTTTTC
1 TTGTTTTTGTTTCTGTTTTTC
3297016 TTGTTTTTGTTTCTGTTTTTC
1 TTGTTTTTGTTTCTGTTTTTC
3297037 -TGTTTTT
1 TTGTTTTT
3297044 TTTTTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.79
Consensus pattern (21 bp):
TTGTTTTTGTTTCTGTTTTTC
Found at i:3297054 original size:20 final size:20
Alignment explanation
Indices: 3296996--3297056 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
3296986 AAGAAATAAA
* *
3296996 TTGTTGTTTTTCTTTTTTTC
1 TTGTTTTTTTTTTTTTTTTC
* *
3297016 TTGTTTTTGTTTCTGTTTTTC
1 TTGTTTTT-TTTTTTTTTTTC
3297037 -TGTTTTTTTTTTTCTTTTTC
1 TTGTTTTTTTTTTT-TTTTTC
3297057 CCGTTATGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 4 0.11
20 20 0.57
21 11 0.31
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (20 bp):
TTGTTTTTTTTTTTTTTTTC
Found at i:3302379 original size:16 final size:16
Alignment explanation
Indices: 3302326--3302379 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
3302316 ATATTGTATT
3302326 AATATTATTT-TTATA
1 AATATTATTTATTATA
* * *
3302341 TATAATAATTTATTTTA
1 AAT-ATTATTTATTATA
*
3302358 ATTATTATTTATTATA
1 AATATTATTTATTATA
3302374 AATATT
1 AATATT
3302380 GATATATTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
15 2 0.07
16 22 0.76
17 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATATTATTTATTATA
Found at i:3302393 original size:31 final size:30
Alignment explanation
Indices: 3302322--3302408 Score: 81
Period size: 32 Copynumber: 2.8 Consensus size: 30
3302312 ATTAATATTG
*
3302322 TATTAA-TATTATTTTTATATATAATAATTTA
1 TATTAATTATTATTTAT-TATA-AATAATTTA
*
3302353 TTTTAATTATTATTTATTATAAAT-ATTGATA
1 TATTAATTATTATTTATTATAAATAATT--TA
3302384 TATTAATTATTTATATTA-TATAAAT
1 TATTAATTA-TTAT-TTATTATAAAT
3302409 TTTGGTTGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 3 0.06
30 3 0.06
31 19 0.40
32 20 0.42
33 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TATTAATTATTATTTATTATAAATAATTTA
Found at i:3304329 original size:2 final size:2
Alignment explanation
Indices: 3304322--3304348 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3304312 TATATTAGAA
3304322 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 A
3304349 ATAACTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3305104 original size:28 final size:28
Alignment explanation
Indices: 3305073--3305128 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
3305063 CCCATTTTTT
3305073 TAATTTTAT-AAAAATAATAAATTAAATA
1 TAATTTTATAAAAAATAAT-AATTAAATA
*
3305101 TAATTTTTTAAAAAATAATAATTAAATA
1 TAATTTTATAAAAAATAATAATTAAATA
3305129 ATTTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
TAATTTTATAAAAAATAATAATTAAATA
Found at i:3306063 original size:11 final size:11
Alignment explanation
Indices: 3306047--3306081 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
3306037 ATAAGTTAGA
3306047 TCCCCCAAAGC
1 TCCCCCAAAGC
3306058 TCCCCCAAAGC
1 TCCCCCAAAGC
3306069 TCCCCCAAAGC
1 TCCCCCAAAGC
3306080 TC
1 TC
3306082 AATCATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.54, G:0.09, T:0.11
Consensus pattern (11 bp):
TCCCCCAAAGC
Found at i:3307028 original size:12 final size:12
Alignment explanation
Indices: 3307011--3307036 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3307001 TTTTTTGTTC
3307011 ATATATATACAT
1 ATATATATACAT
3307023 ATATATATACAT
1 ATATATATACAT
3307035 AT
1 AT
3307037 GTGTGTGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATATACAT
Found at i:3308168 original size:19 final size:19
Alignment explanation
Indices: 3308132--3308170 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3308122 GGTAAATTAC
*
3308132 AAATATTATTATAAAATAT
1 AAATATTATAATAAAATAT
3308151 AAATATTA-AATAATAATAT
1 AAATATTATAATAA-AATAT
3308170 A
1 A
3308171 TTATTCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATTATAATAAAATAT
Done.