Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 68 of 106
Found at i:25915552 original size:31 final size:29
Alignment explanation
Indices: 25915483--25915565 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
25915473 TATTTTTCAA
25915483 ATATTTTT-TTCAATTTAGTCCCTTAACAT
1 ATATTTTTGTTCAATTTAGT-CCTTAACAT
* * *
25915512 CTCAATTTTGTTCAATTTAGTCCTTGTACTAT
1 AT-ATTTTTGTTCAATTTAGTCCTT-AAC-AT
*
25915544 ATATTTTTGTTAAATTTAGTCC
1 ATATTTTTGTTCAATTTAGTCC
25915566 CTATGACATG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 1 0.02
30 9 0.20
31 31 0.70
32 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (29 bp):
ATATTTTTGTTCAATTTAGTCCTTAACAT
Found at i:25916202 original size:23 final size:23
Alignment explanation
Indices: 25916159--25916203 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25916149 TCCCCTACTT
*
25916159 CAATTCTCCCAAATTGCCTTCTA
1 CAATTCTCCCAAATTCCCTTCTA
25916182 CAATTCTCCCAAA-TCCACTTCT
1 CAATTCTCCCAAATTCC-CTTCT
25916204 TTAATTCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (23 bp):
CAATTCTCCCAAATTCCCTTCTA
Found at i:25917395 original size:25 final size:25
Alignment explanation
Indices: 25917346--25917404 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
25917336 TCCATGTAGA
** *
25917346 ATTTAAATATTATTTTTTTAAAAAT
1 ATTTAAATATTATTAATATAAAAAT
*
25917371 ATTTAAATATTATTAATATATAAAT
1 ATTTAAATATTATTAATATAAAAAT
* *
25917396 TTTTTAATA
1 ATTTAAATA
25917405 AAATCTACCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTAAATATTATTAATATAAAAAT
Found at i:25922010 original size:19 final size:17
Alignment explanation
Indices: 25921988--25922033 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
25921978 ATAAATCAAC
*
25921988 ATAAAATTAAAATAACTT
1 ATAAAAATAAAATAA-TT
*
25922006 AATAAAAATAAAGTAATT
1 -ATAAAAATAAAATAATT
25922024 ATAAAAATAA
1 ATAAAAATAA
25922034 CTAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 2 0.08
19 13 0.52
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
ATAAAAATAAAATAATT
Found at i:25926298 original size:22 final size:22
Alignment explanation
Indices: 25926246--25926298 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
25926236 TTTAATCCCT
*
25926246 TTAAAAATAATCAAGAAAAATA
1 TTAAAAATTATCAAGAAAAATA
25926268 TTAAAAATTATCAAGAAAAATA
1 TTAAAAATTATCAAGAAAAATA
25926290 TTAAAAATT
1 TTAAAAATT
25926299 TAAACTACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (22 bp):
TTAAAAATTATCAAGAAAAATA
Found at i:25927075 original size:15 final size:17
Alignment explanation
Indices: 25927055--25927094 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
25927045 ACATAAAATT
25927055 AAATAACTTAA-TA-AA
1 AAATAACTTAATTAGAA
25927070 AAATAAAC-TAATTAGAA
1 AAAT-AACTTAATTAGAA
25927087 AAATAACT
1 AAATAACT
25927095 AAAAATAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 7 0.33
16 8 0.38
17 6 0.29
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAACTTAATTAGAA
Found at i:25935259 original size:439 final size:438
Alignment explanation
Indices: 25934440--25935313 Score: 1649
Period size: 439 Copynumber: 2.0 Consensus size: 438
25934430 CTTTCATCAG
25934440 TAGCACTAGTACTAGTGCTTTCCTTTATCCGAACCTTCACTCCCAAATCCGATGAAGTCCAATTA
1 TAGCACTAGTACTAGTGCTTTCCTTTATCCGAACCTTCACTCCCAAATCCGATGAAGTCCAATTA
25934505 ATAGGAACTCTAAACGGATATCTTTCTAGATTATTGGGTTCAGAATGACATCGGCTTTCAGCGGT
66 ATAGGAACTCTAAACGGATATCTTTCTAGATTATTGGGTTCAGAATGACATCGGCTTTCAGCGGT
25934570 GGAATCTATTGATCCCTCACTAGTACAATGTGAGGTATCAAAATCACTGTCTCTCTTAGGCATAG
131 GGAATCTATTGATCCCTCACTAGTACAATGTGAGGTATCAAAATCACTGTCTCTCTTAGGCATAG
25934635 TAAGTGCAATCCGCGCACCACAACCTATACGTAACCAAATGGTAATTTCTTGATCATTTATATCC
196 TAAGTGCAATCCGCGCACCACAACCTATACGTAACCAAATGGTAATTTCTTGATCATTTATATCC
25934700 CACAAGGATAGGTAGGTTTGTACATGCAGATGTATCTATCCAACAAAATCTAATCTAACTTAACT
261 CACAAGGATAGGTAGGTTTGTACATGCAGATGTATCTATCCAACAAAATCTAATCTAACTTAACT
25934765 TAACTTGGGGTCACATTGACACTGTAGTTTTTTTTAAAACAACTTTAAAACCAAATGTTCTGACC
326 TAACTTGGGGTCACATTGACACTGTAGTTTTTTTTAAAACAACTTTAAAACCAAATGTTCTGACC
*
25934830 TTTAAAACCAAAAGCTCTTATACAAATAGAATTGTCACGACCCGGAAC
391 TTTAAAACCAAAAGCTCTGATACAAATAGAATTGTCACGACCCGGAAC
** * *
25934878 TNAGCACTAGTACTAGTGCTTTCCTTTATTTGAACCTTCGCTCCCAAATCCGATGGAGTCCAATT
1 T-AGCACTAGTACTAGTGCTTTCCTTTATCCGAACCTTCACTCCCAAATCCGATGAAGTCCAATT
*
25934943 AATAGGAACTTTAAACGGATATCTTTCTAGATTATTGGGTTCAGAATGACATCGGCTTTCAGCGG
65 AATAGGAACTCTAAACGGATATCTTTCTAGATTATTGGGTTCAGAATGACATCGGCTTTCAGCGG
25935008 TGGAATCTATTGATCCCTCACTAGTACAATGTGAGGTATCAAAATCACTGTCTCTCTTAGGCATA
130 TGGAATCTATTGATCCCTCACTAGTACAATGTGAGGTATCAAAATCACTGTCTCTCTTAGGCATA
25935073 GTAAGTGCAATCCGCGCACCACAACCTATACGTAACCAAATGGTAATTTCTTGATCATTTATATC
195 GTAAGTGCAATCCGCGCACCACAACCTATACGTAACCAAATGGTAATTTCTTGATCATTTATATC
25935138 CCACAAGGATAGGTAGGTTTGTACATGCAGATGTATCTATCCAACAAAATCTAATCTAACTTAAC
260 CCACAAGGATAGGTAGGTTTGTACATGCAGATGTATCTATCCAACAAAATCTAATCTAACTTAAC
25935203 TTAACTTGGGGTCACATTGACACTGTAGTTTTTTTTAAAACAACTTTAAAACCAAATGTTCTGAC
325 TTAACTTGGGGTCACATTGACACTGTAGTTTTTTTTAAAACAACTTTAAAACCAAATGTTCTGAC
* * * *
25935268 CTTTAAAACCAAATGCTCTGATACCACTCGAATTGTCACGACCCGG
390 CTTTAAAACCAAAAGCTCTGATACAAATAGAATTGTCACGACCCGG
25935314 TACTCCCCTT
Statistics
Matches: 425, Mismatches: 10, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
438 1 0.00
439 424 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (438 bp):
TAGCACTAGTACTAGTGCTTTCCTTTATCCGAACCTTCACTCCCAAATCCGATGAAGTCCAATTA
ATAGGAACTCTAAACGGATATCTTTCTAGATTATTGGGTTCAGAATGACATCGGCTTTCAGCGGT
GGAATCTATTGATCCCTCACTAGTACAATGTGAGGTATCAAAATCACTGTCTCTCTTAGGCATAG
TAAGTGCAATCCGCGCACCACAACCTATACGTAACCAAATGGTAATTTCTTGATCATTTATATCC
CACAAGGATAGGTAGGTTTGTACATGCAGATGTATCTATCCAACAAAATCTAATCTAACTTAACT
TAACTTGGGGTCACATTGACACTGTAGTTTTTTTTAAAACAACTTTAAAACCAAATGTTCTGACC
TTTAAAACCAAAAGCTCTGATACAAATAGAATTGTCACGACCCGGAAC
Found at i:25935274 original size:22 final size:22
Alignment explanation
Indices: 25935246--25935288 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
25935236 TTTAAAACAA
*
25935246 CTTTAAAACCAAATGTTCTGAC
1 CTTTAAAACCAAATGCTCTGAC
25935268 CTTTAAAACCAAATGCTCTGA
1 CTTTAAAACCAAATGCTCTGA
25935289 TACCACTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAATGCTCTGAC
Found at i:25945490 original size:25 final size:25
Alignment explanation
Indices: 25945469--25945531 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
25945459 TTATGGGCTC
25945469 TCCCCAATT-TTTTCCTATTGGGCCA
1 TCCCC-ATTCTTTTCCTATTGGGCCA
* *
25945494 TGCCCATTCTTTTCTTATTGGGCCA
1 TCCCCATTCTTTTCCTATTGGGCCA
*
25945519 -CGCCCACTCTTTT
1 TC-CCCATTCTTTT
25945532 TTTTTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.13, C:0.33, G:0.13, T:0.41
Consensus pattern (25 bp):
TCCCCATTCTTTTCCTATTGGGCCA
Found at i:25945647 original size:56 final size:58
Alignment explanation
Indices: 25945579--25945751 Score: 172
Period size: 59 Copynumber: 3.1 Consensus size: 58
25945569 TCCCGCCGAC
*
25945579 CTTCTTTCTCTCCCTTCTCCTCCCGCTGGCCTTCCTTCT-T-TCCTTTCCTTTTCTTT
1 CTTCTTTTTCTCCCTTCTCCTCCCGCTGGCCTTCCTTCTCTCTCCTTTCCTTTTCTTT
* *
25945635 CTTCTTTTTCT--C--CTCC-CAC-C-GGCCTTCCTTCTCTCTCCTTTCCTTTCCTTT
1 CTTCTTTTTCTCCCTTCTCCTCCCGCTGGCCTTCCTTCTCTCTCCTTTCCTTTTCTTT
* * *
25945686 CTT-TTCTTCTTTCCCTTCTCCTCCCG-TCGACCTTTCTTCTCTCTCCTTTCC-TTTCTTTT
1 CTTCTT-TT-TCTCCCTTCTCCTCCCGCT-GGCCTTCCTTCTCTCTCCTTTCCTTTTC-TTT
25945745 CTTCTTT
1 CTTCTTT
25945752 CCCTCCTCTC
Statistics
Matches: 95, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
49 12 0.13
50 4 0.04
51 22 0.23
52 6 0.06
54 2 0.02
56 14 0.15
57 2 0.02
58 3 0.03
59 28 0.29
60 2 0.02
ACGTcount: A:0.01, C:0.42, G:0.04, T:0.53
Consensus pattern (58 bp):
CTTCTTTTTCTCCCTTCTCCTCCCGCTGGCCTTCCTTCTCTCTCCTTTCCTTTTCTTT
Found at i:25945705 original size:59 final size:56
Alignment explanation
Indices: 25945616--25945747 Score: 176
Period size: 59 Copynumber: 2.3 Consensus size: 56
25945606 GGCCTTCCTT
*
25945616 CTTTCCTTTCCTTT-TCTTTCTTCTTTTTCTCCTCCCACCGGCCTTCCTTCTCTCTC
1 CTTTCCTTTCCTTTCT-TTTCTTCTTTTTCTCCTCCCACCGACCTTCCTTCTCTCTC
** *
25945672 CTTTCCTTTCCTTTCTTTTCTTCTTTCCCTTCTCCTCCCGTCGACCTTTCTTCTCTCTC
1 CTTTCCTTTCCTTTCTTTTCTTCTTT---TTCTCCTCCCACCGACCTTCCTTCTCTCTC
*
25945731 CTTTCCTTTCTTTTCTT
1 CTTTCCTTTCCTTTCTT
25945748 CTTTCCCTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
56 24 0.36
57 1 0.01
59 42 0.63
ACGTcount: A:0.02, C:0.41, G:0.03, T:0.55
Consensus pattern (56 bp):
CTTTCCTTTCCTTTCTTTTCTTCTTTTTCTCCTCCCACCGACCTTCCTTCTCTCTC
Found at i:25945880 original size:15 final size:15
Alignment explanation
Indices: 25945862--25945924 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
25945852 TTTTTCTATT
* *
25945862 TTTTCTTTTTTTTTC
1 TTTTCTTCTTCTTTC
*
25945877 TTTT-TTTTTCTTCTC
1 TTTTCTTCTTCTT-TC
*
25945892 TCTTCTTCTTCTTTC
1 TTTTCTTCTTCTTTC
25945907 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTTC
25945922 TTT
1 TTT
25945925 GGTCGACACT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 7 0.17
15 28 0.67
16 7 0.17
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTCTTCTTTC
Found at i:25945881 original size:11 final size:10
Alignment explanation
Indices: 25945860--25945920 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
25945850 TGTTTTTCTA
25945860 TTTTTTCTTT
1 TTTTTTCTTT
25945870 TTTTTTCTTT
1 TTTTTTCTTT
*
25945880 TTTTTTCTTC
1 TTTTTTCTTT
* * *
25945890 TCTCTTCTTC
1 TTTTTTCTTT
*
25945900 TTCTTTCTTT
1 TTTTTTCTTT
*
25945910 TCTTCTTCTTT
1 T-TTTTTCTTT
25945921 CTTTGGTCGA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
10 34 0.83
11 7 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:25946109 original size:20 final size:16
Alignment explanation
Indices: 25946094--25946127 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
25946084 TCATTTGCTA
25946094 TTATT-ATTATTTATT
1 TTATTAATTATTTATT
25946109 TTATTAATTATTTATT
1 TTATTAATTATTTATT
25946125 TTA
1 TTA
25946128 CTTCCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTAATTATTTATT
Found at i:25947400 original size:42 final size:42
Alignment explanation
Indices: 25947333--25947485 Score: 191
Period size: 42 Copynumber: 3.7 Consensus size: 42
25947323 GTAATGATAT
*
25947333 TGACCCGGCTATGTGCAAGTAGGAGTGTGCATAAGCCGATGC
1 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
** **
25947375 TGACTTGGCTATGTGCAAGGGGGAGTGCGCATAAGCCGATGC
1 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
* * *
25947417 TGACCCAGCTATGTGCGAGTAAGAGTGCGCATAAG-CGATGC
1 TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
** * *
25947458 TGACCCAACCATGTGCTAGTAGGAGTGC
1 TGACCCGGCTATGTGCAAGTAGGAGTGC
25947486 ATATGAGCTG
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 30 0.32
42 65 0.68
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (42 bp):
TGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGCCGATGC
Found at i:25947531 original size:2 final size:2
Alignment explanation
Indices: 25947526--25947556 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25947516 ATGGTGATGG
25947526 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 A
25947557 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25952220 original size:21 final size:22
Alignment explanation
Indices: 25952195--25952235 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
25952185 CCTAGGTGGA
*
25952195 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
25952216 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
25952236 AAAAAGGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:25952236 original size:20 final size:21
Alignment explanation
Indices: 25952195--25952239 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
25952185 CCTAGGTGGA
*
25952195 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
25952216 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
25952236 AAAA
1 AAAA
25952240 AGGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:25952240 original size:21 final size:20
Alignment explanation
Indices: 25952193--25952240 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
25952183 ACCCTAGGTG
*
25952193 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
25952213 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
25952235 GAAAAA
1 GAAAAA
25952241 GGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:25960244 original size:21 final size:22
Alignment explanation
Indices: 25960219--25960259 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
25960209 CCTAGGTGGA
25960219 AAAATTCAAGG-AAAAAGTGTG
1 AAAATTCAAGGCAAAAAGTGTG
*
25960240 AAAATTCAAGGCAACAAGTG
1 AAAATTCAAGGCAAAAAGTG
25960260 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGCAAAAAGTGTG
Found at i:25960265 original size:22 final size:21
Alignment explanation
Indices: 25960218--25960265 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
25960208 CCCTAGGTGG
*
25960218 AAAAATTCAAGGAAAAAGTGT
1 AAAAATTCAAGGAAAAAGTGA
* *
25960239 GAAAATTCAAGGCAACAAGTGA
1 AAAAATTCAAGG-AAAAAGTGA
25960261 AAAAA
1 AAAAA
25960266 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGGAAAAAGTGA
Found at i:25964327 original size:25 final size:25
Alignment explanation
Indices: 25964277--25964328 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
25964267 AAACTAACAT
* *
25964277 TATTAACTTAAAATAAATATTTAAA
1 TATTAACTTAAAATAAATAATAAAA
*
25964302 TATTAA-TTAAACTAAACTAATAAAA
1 TATTAACTTAAAATAAA-TAATAAAA
25964327 TA
1 TA
25964329 ACAAAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (25 bp):
TATTAACTTAAAATAAATAATAAAA
Found at i:25966069 original size:11 final size:11
Alignment explanation
Indices: 25966055--25966079 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25966045 CGCTTTCTCT
25966055 TCTCCAGTCCA
1 TCTCCAGTCCA
25966066 TCTCCAGTCCA
1 TCTCCAGTCCA
25966077 TCT
1 TCT
25966080 TCGAAGGCTC
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:0.16, C:0.44, G:0.08, T:0.32
Consensus pattern (11 bp):
TCTCCAGTCCA
Found at i:25969102 original size:45 final size:45
Alignment explanation
Indices: 25969038--25969126 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
25969028 GATACTTAAA
* *
25969038 CATGAGGATTGGGAAAATGTTAAGAGGTTACATATTTTCTTGAAG
1 CATGAGGATTGAGAAAATGTTAAGAGGTTAAATATTTTCTTGAAG
25969083 CATGAGGATTGAGAAAATGTTAAGAGGTTAAATATTTTCTTGAA
1 CATGAGGATTGAGAAAATGTTAAGAGGTTAAATATTTTCTTGAA
25969127 ACATTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (45 bp):
CATGAGGATTGAGAAAATGTTAAGAGGTTAAATATTTTCTTGAAG
Found at i:25974407 original size:54 final size:54
Alignment explanation
Indices: 25974335--25974498 Score: 231
Period size: 54 Copynumber: 3.0 Consensus size: 54
25974325 ATAAGCACAT
* *
25974335 ACACCACCATCTCACCCAGCACATGTGCATCCCCCCACATCGTTCACATAGCCAG
1 ACACCA-CATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAG
**
25974390 ACACTC-GGTCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAG
1 ACAC-CACATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAG
* ** *
25974444 ACACCACATCCCACCCAGCTCATGTGCATCCCCCCACATCACGTACATAGCCAG
1 ACACCACATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAG
25974498 A
1 A
25974499 TTCATCGTGT
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 91 0.94
55 4 0.04
56 1 0.01
ACGTcount: A:0.26, C:0.45, G:0.13, T:0.16
Consensus pattern (54 bp):
ACACCACATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAG
Found at i:25974561 original size:41 final size:41
Alignment explanation
Indices: 25974500--25974628 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 41
25974490 ATAGCCAGAT
*
25974500 TCATCGTGTGCAT-CCCTCACATCGTGCACAAGCAATATCA
1 TCATCGTATGCATCCCCTCACATCGTGCACAAGCAATATCA
* * * * *
25974540 TC-GCTTTATGCATCCCCTCACATCATGCATAAGCGATATCA
1 TCATC-GTATGCATCCCCTCACATCGTGCACAAGCAATATCA
* *
25974581 TCATCGTGTGCATCCCCCCACATCGTGCACAAGGGCAATATCA
1 TCATCGTATGCATCCCCTCACATCGTGCACAA--GCAATATCA
*
25974624 CCATC
1 TCATC
25974629 CACCTCCCTC
Statistics
Matches: 70, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
39 1 0.01
40 8 0.11
41 48 0.69
42 1 0.01
43 12 0.17
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.25
Consensus pattern (41 bp):
TCATCGTATGCATCCCCTCACATCGTGCACAAGCAATATCA
Found at i:25975333 original size:22 final size:22
Alignment explanation
Indices: 25975295--25975338 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25975285 ACTTCCATCA
25975295 AACACTTTCTAAGTTTACATGT
1 AACACTTTCTAAGTTTACATGT
*
25975317 AACACTATTCTCA-TTTACATGT
1 AACACT-TTCTAAGTTTACATGT
25975339 TACCACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (22 bp):
AACACTTTCTAAGTTTACATGT
Found at i:25980155 original size:53 final size:53
Alignment explanation
Indices: 25980087--25980206 Score: 159
Period size: 53 Copynumber: 2.3 Consensus size: 53
25980077 ATATTGATAC
* * *
25980087 ATGTATCAATGCATATTTCCCAAAATACCCTTCTCATGTTCTTCTTACCTTCA
1 ATGTATTAATACATATTTCCCAAAATACCCTTCTCATGTTCTTCATACCTTCA
* * * * * *
25980140 ATGTATTAATACATATTTCTCAAAATACCCTTTTCGTTTTCTTCATGCCTTTA
1 ATGTATTAATACATATTTCCCAAAATACCCTTCTCATGTTCTTCATACCTTCA
25980193 ATGTATTAATACAT
1 ATGTATTAATACAT
25980207 GGAGTGAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (53 bp):
ATGTATTAATACATATTTCCCAAAATACCCTTCTCATGTTCTTCATACCTTCA
Found at i:25985354 original size:19 final size:20
Alignment explanation
Indices: 25985330--25985374 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
25985320 ATACCAAACT
**
25985330 GACACCGGGGTGTTGT-AAA
1 GACACCGGGGCATTGTGAAA
*
25985349 GACACCTGGGCATTGTGAAA
1 GACACCGGGGCATTGTGAAA
25985369 GACACC
1 GACACC
25985375 AATCGTGGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (20 bp):
GACACCGGGGCATTGTGAAA
Found at i:25985432 original size:40 final size:40
Alignment explanation
Indices: 25985371--25985449 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
25985361 TTGTGAAAGA
* *
25985371 CACCAATCGTGGCGAGATTGAAAACCCCATTAAGGTGAAT
1 CACCAATCGTGGCAAGATTGAAAACCCCACTAAGGTGAAT
* *
25985411 CACCAATCTTGGCAAGGTTGAAAACCCCACTAAGGTGAA
1 CACCAATCGTGGCAAGATTGAAAACCCCACTAAGGTGAA
25985450 AAATAGCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAATCGTGGCAAGATTGAAAACCCCACTAAGGTGAAT
Found at i:25991984 original size:22 final size:22
Alignment explanation
Indices: 25991959--25992003 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
25991949 CGCTGCAGCA
25991959 AAAATGCATCCTCACTGCAGTG
1 AAAATGCATCCTCACTGCAGTG
*
25991981 AAAATGCATCCTCATTGCAGTG
1 AAAATGCATCCTCACTGCAGTG
25992003 A
1 A
25992004 GTTTTCGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (22 bp):
AAAATGCATCCTCACTGCAGTG
Found at i:25992285 original size:3 final size:3
Alignment explanation
Indices: 25992277--25992318 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
25992267 TGCACATACC
* *
25992277 CAT CAT CAT CAT CAT CA- CAC CAT C-C CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
25992319 GCTCATGCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 3 0.09
3 31 0.91
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.26
Consensus pattern (3 bp):
CAT
Found at i:25992371 original size:43 final size:43
Alignment explanation
Indices: 25992310--25992441 Score: 183
Period size: 43 Copynumber: 3.1 Consensus size: 43
25992300 CCCATCATCA
* * ** *
25992310 TCATCATCAGCTCATGCGCACTCCCTACTCGCACATGGCTGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
*
25992353 TCATCATCGGGTTATGCGCACTCCCTACTCGCACATAACCGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
* * *
25992396 TCATCCTCGGCTTATGCGCACTCCCTACTCGCACATAGCCGAG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
25992439 TCA
1 TCA
25992442 ATATAATTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (43 bp):
TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:25993264 original size:19 final size:21
Alignment explanation
Indices: 25993225--25993268 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
25993215 AGGGAAGAAG
25993225 AAGACAGCTGCTGGAAATTTC
1 AAGACAGCTGCTGGAAATTTC
25993246 AAGA-AGCTGCTGG-AATTTC
1 AAGACAGCTGCTGGAAATTTC
25993265 AAGA
1 AAGA
25993269 TATTTGTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (21 bp):
AAGACAGCTGCTGGAAATTTC
Found at i:25995043 original size:53 final size:53
Alignment explanation
Indices: 25994961--25995077 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
25994951 TTTGGTAATG
25994961 TATCAATACATCTCCATGGGTTTCATTTAATTCTGTCAATATATGAGGCATTA
1 TATCAATACATCTCCATGGGTTTCATTTAATTCTGTCAATATATGAGGCATTA
*
25995014 TATCAATACATCTCCATGGGTTTCCTTTAATTCTGTCAATATATGAGGCATTA
1 TATCAATACATCTCCATGGGTTTCATTTAATTCTGTCAATATATGAGGCATTA
*
25995067 TATCGATACAT
1 TATCAATACAT
25995078 TTCTTTACAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (53 bp):
TATCAATACATCTCCATGGGTTTCATTTAATTCTGTCAATATATGAGGCATTA
Found at i:25997279 original size:3 final size:3
Alignment explanation
Indices: 25997271--25997330 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
25997261 CATTTTTTAT
*
25997271 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25997319 TTA TTA TTA TTA
1 TTA TTA TTA TTA
25997331 GTTTTATGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:26000315 original size:29 final size:28
Alignment explanation
Indices: 26000276--26000332 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
26000266 CGCCCACTGT
*
26000276 CCCAGCACACTGCTTGACTCGCAGCTGA
1 CCCAGCACACTACTTGACTCGCAGCTGA
*
26000304 CCCAGCAGCACTACTTGGCTCGCAGCTGA
1 CCCAGCA-CACTACTTGACTCGCAGCTGA
26000333 TGGCTCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.21, C:0.39, G:0.23, T:0.18
Consensus pattern (28 bp):
CCCAGCACACTACTTGACTCGCAGCTGA
Found at i:26000594 original size:20 final size:20
Alignment explanation
Indices: 26000565--26000603 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26000555 CAGCAGACAG
*
26000565 CACAGGCAGCACGCACCCAT
1 CACAGACAGCACGCACCCAT
*
26000585 CACAGACAGCATGCACCCA
1 CACAGACAGCACGCACCCA
26000604 GCAAAGGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.44, G:0.18, T:0.05
Consensus pattern (20 bp):
CACAGACAGCACGCACCCAT
Found at i:26013492 original size:15 final size:15
Alignment explanation
Indices: 26013472--26013522 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
26013462 TTCTTAAAAC
26013472 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
26013487 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
26013502 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
26013517 ATCTTT
1 AACTTT
26013523 GATCTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:26016046 original size:19 final size:19
Alignment explanation
Indices: 26016022--26016058 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
26016012 CTTCTAAACT
26016022 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
26016041 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
26016059 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:26017992 original size:37 final size:35
Alignment explanation
Indices: 26017916--26017993 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
26017906 CAGCTCATGT
***
26017916 GCACTCCCTACACGCACAAGGCAATATCATCATGT
1 GCACTCCCTACACGCACAAGGCAATATCATCACAC
* **
26017951 GCACTCCCTACATGCACATATTTCAATATCATCACAC
1 GCACTCCCTACACGCACA-A-GGCAATATCATCACAC
26017988 GCACTC
1 GCACTC
26017994 TCGCCCACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 17 0.49
36 1 0.03
37 17 0.49
ACGTcount: A:0.31, C:0.36, G:0.10, T:0.23
Consensus pattern (35 bp):
GCACTCCCTACACGCACAAGGCAATATCATCACAC
Found at i:26018845 original size:30 final size:30
Alignment explanation
Indices: 26018811--26018868 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
26018801 GAGTTGGGAG
26018811 AAGGAAGAAGCAA-GAAAA-AAAAAGAAAAGA
1 AAGGAA-AA-CAAGGAAAAGAAAAAGAAAAGA
*
26018841 AAGGAAAACAAGGAAAAGAAAATGAAAA
1 AAGGAAAACAAGGAAAAGAAAAAGAAAA
26018869 ATCTTGACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 7 0.28
30 15 0.60
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.02
Consensus pattern (30 bp):
AAGGAAAACAAGGAAAAGAAAAAGAAAAGA
Found at i:26018856 original size:19 final size:19
Alignment explanation
Indices: 26018811--26018861 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
26018801 GAGTTGGGAG
*
26018811 AAGGAAGAAGCAAGAAAAAA
1 AAGGAA-AAGAAAGAAAAAA
* * *
26018831 AAAGAAAAGAAAGGAAAAC
1 AAGGAAAAGAAAGAAAAAA
26018850 AAGGAAAAGAAA
1 AAGGAAAAGAAA
26018862 ATGAAAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.73, C:0.04, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGGAAAAGAAAGAAAAAA
Found at i:26023549 original size:2 final size:2
Alignment explanation
Indices: 26023537--26023570 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
26023527 CGTATTTCAC
26023537 AT AT AT CAT 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 A
26023571 CTGAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26044404 original size:118 final size:117
Alignment explanation
Indices: 26044196--26044694 Score: 567
Period size: 111 Copynumber: 4.4 Consensus size: 117
26044186 AATGTCTAAT
* * * * *** * * *
26044196 AACTAGTGAACAAATGCCCCTAAACAAGAGGCGAATTGCACAAGTCACGCGTCACCACTATCGCA
1 AACTACTGAACAAAAGCCCCAAAACAACACATGAATTACACAAGTCACGCGCCACCACTCTCGCA
* * **
26044261 ATATATAACAATAGGTCACTTAATATATAAAAACCAGTCACGCAAGCCTAAAA
66 AT-CATAACAATAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* ** * *
26044314 AACTATTGAACAAAAGCTTCAAAACAACACATGAATTGCACAAGTCACGTGCCACCACTCTCGCA
1 AACTACTGAACAAAAGCCCCAAAACAACACATGAATTACACAAGTCACGCGCCACCACTCTCGCA
*
26044379 ATACATAACAATAGGTAACACAATATATAAAAACCAGTCACGCAAGCCT-AAA
66 AT-CATAACAATAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* * * *
26044431 AACTATTGAACAAAAGCCCCTAAACAACACATGAATTACACAAGTCACGCGACACCA--CTCACA
1 AACTACTGAACAAAAGCCCCAAAACAACACATGAATTACACAAGTCACGCGCCACCACTCTCGCA
*
26044494 CT-ATAAC---AGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
66 ATCATAACAATAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* * * * *
26044542 AACTACTAAACAATAGCCTCAAAACAACACATGAATTACACAAGTCATGCACCACCACTCTCG--
1 AACTACTGAACAAAAGCCCCAAAACAACACATGAATTACACAAGTCACGCGCCACCACTCTCGCA
* *
26044605 --C-T-ACAATAGGTAACGCAATATATAAAAACCATTCATGCAAGCCTAAAA
66 ATCATAACAATAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* *
26044653 AACTACAGAACAAAAGCCTCCAAAA-AACACATGAATTCCACA
1 AACTACTGAACAAAAGCC-CCAAAACAACACATGAATTACACA
26044695 CCACCACTCT
Statistics
Matches: 332, Mismatches: 41, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
108 2 0.01
109 1 0.00
110 36 0.11
111 122 0.37
112 5 0.02
113 8 0.02
115 6 0.02
117 54 0.16
118 98 0.30
ACGTcount: A:0.45, C:0.26, G:0.11, T:0.17
Consensus pattern (117 bp):
AACTACTGAACAAAAGCCCCAAAACAACACATGAATTACACAAGTCACGCGCCACCACTCTCGCA
ATCATAACAATAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
Found at i:26044598 original size:111 final size:111
Alignment explanation
Indices: 26044282--26044800 Score: 612
Period size: 111 Copynumber: 4.7 Consensus size: 111
26044272 TAGGTCACTT
*
26044282 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTATTGAACAAAAGCTTCAAAACAACACATG
1 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
* * ** * *
26044347 AATTGCACAAGTCACGTGCCACCACTCTCGCAATACATAACAATAGGTAACAC
66 AATTACACAAGTCATGCACCACCACTCT--C---AC-T-ACAACAGGTAACGC
* *
26044400 AATATATAAAAACCAGTCACGCAAGCCT-AAAAACTATTGAACAAAAGCCCCTAAACAACACATG
1 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
* * *
26044464 AATTACACAAGTCACGCGA-CACCACTCACACTATAACAGGTAACGC
66 AATTACACAAGTCATGC-ACCACCACTCTCACTACAACAGGTAACGC
* * *
26044510 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTAAACAATAGCCTCAAAACAACACATG
1 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
* *
26044575 AATTACACAAGTCATGCACCACCACTCTCGCTACAATAGGTAACGC
66 AATTACACAAGTCATGCACCACCACTCTCACTACAACAGGTAACGC
* * **
26044621 AATATATAAAAACCATTCATGCAAGCCTAAAAAACTACAGAACAAAAGCCTCCAAAA-AACACAT
1 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTATTGAACAAAAGCCT-CAAAACAACACAT
** * *
26044685 GAATT---C----CA--CACCACCACTCTCGTTACAACAGGTAATGT
65 GAATTACACAAGTCATGCACCACCACTCTCACTACAACAGGTAACGC
* *
26044723 AATATATAAAAACTAGTCACGCACTGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACAT
1 AATATATAAAAACCAGTCACGCA-AGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACAT
*
26044788 GAATTGCACAAGT
65 GAATTACACAAGT
26044801 TAGTCACACA
Statistics
Matches: 353, Mismatches: 35, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
102 51 0.14
103 37 0.10
104 2 0.01
106 1 0.00
108 1 0.00
110 40 0.11
111 129 0.37
112 7 0.02
115 1 0.00
117 56 0.16
118 28 0.08
ACGTcount: A:0.46, C:0.26, G:0.10, T:0.18
Consensus pattern (111 bp):
AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
AATTACACAAGTCATGCACCACCACTCTCACTACAACAGGTAACGC
Found at i:26044701 original size:102 final size:103
Alignment explanation
Indices: 26044591--26044797 Score: 292
Period size: 102 Copynumber: 2.0 Consensus size: 103
26044581 ACAAGTCATG
* * *
26044591 CACCACCACTCTCGCTACAATAGGTAACGCAATATATAAAAACCATTCATGCA-AGCCTAAAAAA
1 CACCACCACTCTCGCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCACAGCCTAAAAAA
26044655 CTACAGAACAAAAGCCTCCAAAA-AACACATGAATTCCA
66 CTACAGAACAAAAGCCT-CAAAACAACACATGAATTCCA
* * * * *
26044693 CACCACCACTCTCGTTACAACAGGTAATGTAATATATAAAAACTAGTCACGCACTGCCTAAAAAA
1 CACCACCACTCTCGCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCACAGCCTAAAAAA
** *
26044758 CTATTGAACAAAAGCCTCAAAACAACACATGAATTGCA
66 CTACAGAACAAAAGCCTCAAAACAACACATGAATTCCA
26044796 CA
1 CA
26044798 AGTTAGTCAC
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
102 51 0.55
103 41 0.45
ACGTcount: A:0.45, C:0.27, G:0.10, T:0.18
Consensus pattern (103 bp):
CACCACCACTCTCGCTACAACAGGTAACGCAATATATAAAAACCAGTCACGCACAGCCTAAAAAA
CTACAGAACAAAAGCCTCAAAACAACACATGAATTCCA
Found at i:26045482 original size:30 final size:30
Alignment explanation
Indices: 26045446--26045505 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
26045436 TCTCCTGTTG
*
26045446 GAATATGTGCAACTGGTCCCTTACACTCAA
1 GAATATGTGCAACTGGTCCCTCACACTCAA
26045476 GAATATGTGCAACTGGTCCCTCACACTCAA
1 GAATATGTGCAACTGGTCCCTCACACTCAA
26045506 AGGCACCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (30 bp):
GAATATGTGCAACTGGTCCCTCACACTCAA
Found at i:26046249 original size:102 final size:103
Alignment explanation
Indices: 26046094--26046281 Score: 261
Period size: 102 Copynumber: 1.8 Consensus size: 103
26046084 AACAGGTCAC
* * *
26046094 GCAATGCTCAACAAATATTCAGTCACGTAATATTCAATTACGTAATGCCTGTCACGCAACGCT-A
1 GCAATGCTCAACAAATATTCAATCACGTAATATTCAATCACGTAATACCTGTCACGCAACGCTCA
*
26046158 ACAAATATTCAGTCATGTAATGCCTATAAAGAACTCAT
66 ACAAATATTCAGTCAAGTAATGCCTATAAAGAACTCAT
* * * * * *
26046196 GCAATGCTCAATAAATATTCAATCAGGTAATATTCAGTCATGTATTACTTGTCACGCAACGCTCA
1 GCAATGCTCAACAAATATTCAATCACGTAATATTCAATCACGTAATACCTGTCACGCAACGCTCA
* *
26046261 ACATATATTTAGTCAAGTAAT
66 ACAAATATTCAGTCAAGTAAT
26046282 ATTCAGTCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
102 54 0.74
103 19 0.26
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (103 bp):
GCAATGCTCAACAAATATTCAATCACGTAATATTCAATCACGTAATACCTGTCACGCAACGCTCA
ACAAATATTCAGTCAAGTAATGCCTATAAAGAACTCAT
Found at i:26046285 original size:55 final size:55
Alignment explanation
Indices: 26046196--26046336 Score: 201
Period size: 55 Copynumber: 2.6 Consensus size: 55
26046186 AAGAACTCAT
* * * * * *
26046196 GCAATGCTCAATAAATATTCAATCAGGTAATATTCAGTCATGTATTACTTGTCAC
1 GCAACGCTCAACATATATTCAGTCAAGTAATATTCAGTCATGTATTACCTGTCAC
*
26046251 GCAACGCTCAACATATATTTAGTCAAGTAATATTCAGTCATGTATTACCTGTCAC
1 GCAACGCTCAACATATATTCAGTCAAGTAATATTCAGTCATGTATTACCTGTCAC
* *
26046306 GCAACGCTTAACATATATTCAGTCACGTAAT
1 GCAACGCTCAACATATATTCAGTCAAGTAAT
26046337 GCTTATAAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 76 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (55 bp):
GCAACGCTCAACATATATTCAGTCAAGTAATATTCAGTCATGTATTACCTGTCAC
Found at i:26048327 original size:40 final size:39
Alignment explanation
Indices: 26048272--26048366 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 39
26048262 GCCATGTAAA
26048272 CCAAACATGCTAAGGCACATAAGCCATATTAATGGCAAAT
1 CCAAACATGCTAAGGCACATAAGCCATATTAATGG-AAAT
* * *
26048312 CCAAACTTGTTAAGGCACGTAAGCCATATTAATGGAAATT
1 CCAAACATGCTAAGGCACATAAGCCATATTAATGGAAA-T
* *
26048352 ACAAATATGCTAAGG
1 CCAAACATGCTAAGG
26048367 TGTCATGATC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.06
40 44 0.94
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (39 bp):
CCAAACATGCTAAGGCACATAAGCCATATTAATGGAAAT
Found at i:26059537 original size:30 final size:30
Alignment explanation
Indices: 26059501--26059563 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
26059491 CAAAGCTTAA
*
26059501 AGATTCTAAAGGTCCAGTGCATAAGCATCG
1 AGATTCTAAAGGTCCAATGCATAAGCATCG
26059531 AGATTCTAAAGGTCCAATGCATAAGCATCG
1 AGATTCTAAAGGTCCAATGCATAAGCATCG
26059561 AGA
1 AGA
26059564 CCAAGCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (30 bp):
AGATTCTAAAGGTCCAATGCATAAGCATCG
Found at i:26059598 original size:33 final size:33
Alignment explanation
Indices: 26059556--26059625 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
26059546 AATGCATAAG
26059556 CATCGAGACCAAGCTTTTCAAGTATCAAAACCA
1 CATCGAGACCAAGCTTTTCAAGTATCAAAACCA
26059589 CATCGAGACCAAGCTTTTCAAGTATCAAAACCA
1 CATCGAGACCAAGCTTTTCAAGTATCAAAACCA
26059622 CATC
1 CATC
26059626 TCTAGATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (33 bp):
CATCGAGACCAAGCTTTTCAAGTATCAAAACCA
Found at i:26060714 original size:35 final size:35
Alignment explanation
Indices: 26060675--26060786 Score: 108
Period size: 35 Copynumber: 3.3 Consensus size: 35
26060665 GTTGATCTCA
*
26060675 TGAAAAATCATTGTTGTAGGTTGTGGTTGATCCTT
1 TGAAAAATCATTGTTGTAGGTTGTGGTTGAGCCTT
* **
26060710 TGAAAAA-CGA-T-TT-TAGGTTTTGGTTGAGCCCG
1 TGAAAAATC-ATTGTTGTAGGTTGTGGTTGAGCCTT
* *
26060742 TGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAATCATTGTTG-TAGGTTGTGGTTGAGCCTT
*
26060777 TAAAAAATCA
1 TGAAAAATCA
26060787 CTTTGGGTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
32 23 0.38
33 5 0.08
34 2 0.03
35 31 0.51
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (35 bp):
TGAAAAATCATTGTTGTAGGTTGTGGTTGAGCCTT
Found at i:26060734 original size:67 final size:67
Alignment explanation
Indices: 26060658--26060830 Score: 190
Period size: 67 Copynumber: 2.6 Consensus size: 67
26060648 TTAGTTGTTG
* * * * * *
26060658 GGTTTTGGTTGATCTCATGAAAAATCATTGTTG-TAGGTTGTGGTTGATCCTTTGAAAAA-CGAT
1 GGTTTTGGTTGATCCCATGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTAAAAAATC-AC
26060721 TTTA
64 TTTA
* *
26060725 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTAAAAAATCACTT
1 GGTTTTGGTTGATCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTAAAAAATCACTT
*
26060790 TG
66 TA
* * *
26060792 GGTTTTAGTTGATCCC-GGTAAAAACTATTGTGAAAGGTT
1 GGTTTTGGTTGATCCCATG-AAAAACCATTGTGAAAGGTT
26060831 TTGGCTAAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
66 3 0.03
67 86 0.96
68 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (67 bp):
GGTTTTGGTTGATCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTAAAAAATCACTT
TA
Found at i:26068443 original size:35 final size:34
Alignment explanation
Indices: 26068392--26068526 Score: 111
Period size: 35 Copynumber: 4.0 Consensus size: 34
26068382 GAAAAGTTAG
* * *
26068392 TTGTTG-GGTTTTGGTTGATCTCGTAAAAAACCA
1 TTGTTGAGGTTGTGGTTGAGCTCGTGAAAAACCA
*
26068425 TTGTTGTAGGTTGTGGTTGAGC-CTTTGAAAAACCA
1 TTGTTG-AGGTTGTGGTTGAGCTC-GTGAAAAACCA
* * *
26068460 CT-TTG-GGTTTTGGTTGAGCTTGTGAAAAACCA
1 TTGTTGAGGTTGTGGTTGAGCTCGTGAAAAACCA
*
26068492 TTG-TGAAAGGTTGTGGTTGAGC-CTTTGAAAAACCA
1 TTGTTG--AGGTTGTGGTTGAGCTC-GTGAAAAACCA
26068527 CTTTAGGTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
32 26 0.32
33 6 0.07
34 4 0.05
35 45 0.56
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (34 bp):
TTGTTGAGGTTGTGGTTGAGCTCGTGAAAAACCA
Found at i:26068473 original size:67 final size:67
Alignment explanation
Indices: 26068395--26068582 Score: 263
Period size: 67 Copynumber: 2.8 Consensus size: 67
26068385 AAGTTAGTTG
*
26068395 TTGGGTTTTGGTTGATCTCGTAAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCTCGTAAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
26068459 ACT
65 ACT
* * *
26068462 TTGGGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCTCGTAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
26068527 CT
66 CT
* * * * *
26068529 TTAGGTTTTAGTTGATCTCG-ATAAAAACTATTGTGAAAGGTTTTGGTTAAGCCT
1 TTGGGTTTTGGTTGATCTCGTA-AAAAACCATTGTGAAAGGTTGTGGTTGAGCCT
26068583 ACTAAAAGCC
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
66 2 0.02
67 105 0.98
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCTCGTAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
CT
Found at i:26068486 original size:32 final size:32
Alignment explanation
Indices: 26068433--26068543 Score: 127
Period size: 32 Copynumber: 3.4 Consensus size: 32
26068423 CATTGTTGTA
*
26068433 GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 GGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
26068465 GGTTTTGGTTGAG-CTTGTGAAAAACCA-TTGTG
1 GGTTTTGGTTGAGCCTT-TGAAAAACCACTT-TG
* *
26068497 AAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTA
1 ---GGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
*
26068532 GGTTTTAGTTGA
1 GGTTTTGGTTGA
26068544 TCTCGATAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
31 5 0.07
32 34 0.51
35 23 0.34
36 5 0.07
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (32 bp):
GGTTTTGGTTGAGCCTTTGAAAAACCACTTTG
Found at i:26079615 original size:104 final size:104
Alignment explanation
Indices: 26079463--26079671 Score: 310
Period size: 104 Copynumber: 2.0 Consensus size: 104
26079453 CTTTACTCAT
* * * * * *
26079463 ATCCTTCCTCCTGTGAAAAGGCCACCACCAATGTCAAACGTTTTTCCTTCCATGATCATATCCTT
1 ATCCTCCCTCATGTGAAAAAGCCACCACCAATGTCAAACGTCTATCCTTCCATGATCATATCCTC
* *
26079528 CATCTAATCCTATATCTCACTATCCACCCTCACGACACA
66 CATCTAATCCTATATCACACCATCCACCCTCACGACACA
* *
26079567 ATCCTCCCTCATGTGAAAAAGCCACCACCAATGTCAAATGTCTATCCTTCCATGATTATATCCTC
1 ATCCTCCCTCATGTGAAAAAGCCACCACCAATGTCAAACGTCTATCCTTCCATGATCATATCCTC
* *
26079632 CATCTAATCCTATCTCACACCATCCACCCTCATGACACA
66 CATCTAATCCTATATCACACCATCCACCCTCACGACACA
26079671 A
1 A
26079672 ACTACACGAC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 93 1.00
ACGTcount: A:0.29, C:0.36, G:0.07, T:0.28
Consensus pattern (104 bp):
ATCCTCCCTCATGTGAAAAAGCCACCACCAATGTCAAACGTCTATCCTTCCATGATCATATCCTC
CATCTAATCCTATATCACACCATCCACCCTCACGACACA
Found at i:26082001 original size:25 final size:26
Alignment explanation
Indices: 26081957--26082006 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
26081947 GGCCGGTCAT
*
26081957 ACAAAAAAATCAAAGGAACA-AAGAC
1 ACAAAAAAATCAAAGAAACAGAAGAC
26081982 ACAAAAAAA-CAAAGAAAACAGAAGA
1 ACAAAAAAATCAAAG-AAACAGAAGA
26082007 GAAGAATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 13 0.59
26 4 0.18
ACGTcount: A:0.72, C:0.14, G:0.12, T:0.02
Consensus pattern (26 bp):
ACAAAAAAATCAAAGAAACAGAAGAC
Found at i:26082546 original size:35 final size:34
Alignment explanation
Indices: 26082427--26082548 Score: 156
Period size: 34 Copynumber: 3.6 Consensus size: 34
26082417 TGGCTACTGG
26082427 AAATTTGAGCTGTTTGCTGCCAATTTGTGCAGAA
1 AAATTTGAGCTGTTTGCTGCCAATTTGTGCAGAA
* * *
26082461 AATTTTGAGTTGTTTGCTGCCAATTTGTGCATAA
1 AAATTTGAGCTGTTTGCTGCCAATTTGTGCAGAA
* *
26082495 AAGTTTGAGCTATTTGCTGCCAATTTTGTGCA-AA
1 AAATTTGAGCTGTTTGCTGCCAA-TTTGTGCAGAA
* *
26082529 AACATTGGAGCCGTTTGCTG
1 AA-ATTTGAGCTGTTTGCTG
26082549 GTAGTTTATG
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
34 55 0.72
35 21 0.28
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (34 bp):
AAATTTGAGCTGTTTGCTGCCAATTTGTGCAGAA
Found at i:26082732 original size:22 final size:22
Alignment explanation
Indices: 26082704--26082751 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
26082694 GAGAGGAAAG
*
26082704 GAAGAGAGGAAGTCACGGTGGT
1 GAAGAGAGGAAGACACGGTGGT
*
26082726 GAAGAGAGGAAGACATGGTGGT
1 GAAGAGAGGAAGACACGGTGGT
26082748 GAAG
1 GAAG
26082752 GGAGTGACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.46, T:0.12
Consensus pattern (22 bp):
GAAGAGAGGAAGACACGGTGGT
Found at i:26082882 original size:25 final size:25
Alignment explanation
Indices: 26082806--26082894 Score: 97
Period size: 25 Copynumber: 3.4 Consensus size: 25
26082796 AGAAAAGAAG
26082806 TAGAAAATAAAATTGGGCATGGCCCAAA
1 TAGAAAAT-AAA-TGGGCATGGCCC-AA
*
26082834 TAGAAAATAAATGGGCATGACCCAA
1 TAGAAAATAAATGGGCATGGCCCAA
* **
26082859 TAGAAAATAAGTGGGTGTGGCCCAA
1 TAGAAAATAAATGGGCATGGCCCAA
* *
26082884 AAGGAAATAAA
1 TAGAAAATAAA
26082895 CAAATAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
25 31 0.58
26 11 0.21
27 3 0.06
28 8 0.15
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.17
Consensus pattern (25 bp):
TAGAAAATAAATGGGCATGGCCCAA
Found at i:26085790 original size:38 final size:38
Alignment explanation
Indices: 26085747--26085844 Score: 178
Period size: 38 Copynumber: 2.6 Consensus size: 38
26085737 TGTATGTTTG
*
26085747 TGAGTGGTTATATCTTAACCAATTGAAAAGGTAGTGTT
1 TGAGTGGTTATATCTTAACCAATTCAAAAGGTAGTGTT
26085785 TGAGTGGTTATATCTTAACCAATTCAAAAGGTAGTGTT
1 TGAGTGGTTATATCTTAACCAATTCAAAAGGTAGTGTT
*
26085823 TGTGTGGTTATATCTTAACCAA
1 TGAGTGGTTATATCTTAACCAA
26085845 AGTAAAAGGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (38 bp):
TGAGTGGTTATATCTTAACCAATTCAAAAGGTAGTGTT
Found at i:26085900 original size:36 final size:36
Alignment explanation
Indices: 26085860--26085928 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
26085850 AAGGTAGAGT
* *
26085860 GGTTGTGCTTGATCCATAAAAGGTATTGTATTGCAA
1 GGTTGTGCTTGATCCATAAAAAGCATTGTATTGCAA
26085896 GGTTGTGCTTGATCCATAAAAAGCATTGTATTG
1 GGTTGTGCTTGATCCATAAAAAGCATTGTATTG
26085929 AATTTCATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.36
Consensus pattern (36 bp):
GGTTGTGCTTGATCCATAAAAAGCATTGTATTGCAA
Found at i:26090826 original size:40 final size:39
Alignment explanation
Indices: 26090762--26090864 Score: 136
Period size: 38 Copynumber: 2.6 Consensus size: 39
26090752 ACCCAGCTCA
* * *
26090762 TGTACATCCCCCCACATCGAGCACATAGCTGGAGTCATCG
1 TGTACATCCCCCCACATCGTGCACA-AGCTAGAGCCATCG
* * *
26090802 TGTGCATCCCCCCACATCGTGCAC-AGTTAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACAAGCTAGAGCCATCG
26090840 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
26090865 CGGGTACTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
38 33 0.60
40 22 0.40
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.21
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACAAGCTAGAGCCATCG
Found at i:26090988 original size:2 final size:2
Alignment explanation
Indices: 26090981--26091013 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26090971 AATGCACAAC
26090981 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 A
26091014 AACATAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26096129 original size:21 final size:22
Alignment explanation
Indices: 26096105--26096151 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
26096095 TTTTACCTTT
26096105 TTTTTCAC-TTGTTTCC-TTGAA
1 TTTTTCACATT-TTTCCTTTGAA
*
26096126 -TTTTCACATTTTTCCTTTGAT
1 TTTTTCACATTTTTCCTTTGAA
26096147 TTTTT
1 TTTTT
26096152 TCCAGCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 12 0.55
21 6 0.27
22 4 0.18
ACGTcount: A:0.13, C:0.17, G:0.06, T:0.64
Consensus pattern (22 bp):
TTTTTCACATTTTTCCTTTGAA
Found at i:26101148 original size:2 final size:2
Alignment explanation
Indices: 26101135--26101168 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
26101125 AATGCACAAA
* *
26101135 AT AT AA AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26101169 CAACATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 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:26101588 original size:42 final size:42
Alignment explanation
Indices: 26101520--26101661 Score: 169
Period size: 42 Copynumber: 3.4 Consensus size: 42
26101510 CTCCCCACTA
* *
26101520 GCACATGGCTGGGTCATCATCAGCTTATGCGCACTCCTACTC
1 GCACATAGCTGGGTCATCATCGGCTTATGCGCACTCCTACTC
* * * *
26101562 GTACATAGCTAGGTCATCATCGGCTTATGCACACTCCCACTC
1 GCACATAGCTGGGTCATCATCGGCTTATGCGCACTCCTACTC
* * *
26101604 GCACATA-ATCGGGTCATCATTGGCTTATGCGCACTCTTACTC
1 GCACATAGCT-GGGTCATCATCGGCTTATGCGCACTCCTACTC
* *
26101646 ACACATAGCCGGGTCA
1 GCACATAGCTGGGTCA
26101662 ATATCATTAC
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 81 0.99
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.26
Consensus pattern (42 bp):
GCACATAGCTGGGTCATCATCGGCTTATGCGCACTCCTACTC
Found at i:26103930 original size:11 final size:11
Alignment explanation
Indices: 26103916--26103945 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
26103906 AATAATATTT
26103916 TATTAATAAAA
1 TATTAATAAAA
*
26103927 TATTATTAAAA
1 TATTAATAAAA
26103938 TATTAATA
1 TATTAATA
26103946 TTTTATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:26105677 original size:35 final size:35
Alignment explanation
Indices: 26105633--26105705 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
26105623 GGAGTACGTG
* * *
26105633 TGATGATATTGAAATGTGCGTGTAGAGAGTGCATA
1 TGATGATATTGAAATGTGCATGTAAAGAGTGCACA
26105668 TGATGATATTGAAATGTGCATGTAAAGAGTGCACA
1 TGATGATATTGAAATGTGCATGTAAAGAGTGCACA
26105703 TGA
1 TGA
26105706 GCTGAGTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCATGTAAAGAGTGCACA
Found at i:26107356 original size:40 final size:39
Alignment explanation
Indices: 26107259--26107367 Score: 121
Period size: 39 Copynumber: 2.8 Consensus size: 39
26107249 AGATAGTGCC
* * *
26107259 CATGTGCACGATGTGGGGGGATGTACACGATGGCACTGA
1 CATGTGCACGATGTGGGGGGATGTACATGATGACACCGA
* * * *
26107298 C-TGTGCACGGTGTGGGGGGGATGCACATGATGACTCCGG
1 CATGTGCACGATGT-GGGGGGATGTACATGATGACACCGA
*
26107337 CTATGTGCACGATATGGGGGGATGTACATGA
1 C-ATGTGCACGATGTGGGGGGATGTACATGA
26107368 GCTAGGTGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
38 11 0.19
39 21 0.37
40 15 0.26
41 10 0.18
ACGTcount: A:0.21, C:0.17, G:0.39, T:0.22
Consensus pattern (39 bp):
CATGTGCACGATGTGGGGGGATGTACATGATGACACCGA
Found at i:26130294 original size:2 final size:2
Alignment explanation
Indices: 26130289--26130314 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26130279 TATGTACATG
26130289 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
26130315 CGAAATTTTT
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):
TA
Found at i:26130690 original size:25 final size:24
Alignment explanation
Indices: 26130662--26130718 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
26130652 GGCTTTTCCA
*
26130662 ATTTTTTCCTATTTGGGCTAAGCCC
1 ATTTTTTCCTA-TTGGGCCAAGCCC
* *
26130687 ATTTATCTCCTATTGGGCCATGCCC
1 ATTT-TTTCCTATTGGGCCAAGCCC
26130712 ATTTTTT
1 ATTTTTT
26130719 TTCTTTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.07
25 19 0.70
26 6 0.22
ACGTcount: A:0.16, C:0.25, G:0.14, T:0.46
Consensus pattern (24 bp):
ATTTTTTCCTATTGGGCCAAGCCC
Found at i:26130765 original size:46 final size:45
Alignment explanation
Indices: 26130714--26130800 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 45
26130704 CCATGCCCAT
*
26130714 TTTTTTTC-TTTTTCTTTCTTTTTCTCTC-TTCCACGTTTCTTCTTC
1 TTTTTTTCTTTTTTCTTTCTCTTTCTCTCATT-CACG-TTCTTCTTC
*
26130759 TTTTTTTCTTTTTTTTTTCTCTTTCTCTCATTCACGTTCTTC
1 TTTTTTTCTTTTTTCTTTCTCTTTCTCTCATTCACGTTCTTC
26130801 CTTTTTCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
45 14 0.37
46 22 0.58
47 2 0.05
ACGTcount: A:0.03, C:0.25, G:0.02, T:0.69
Consensus pattern (45 bp):
TTTTTTTCTTTTTTCTTTCTCTTTCTCTCATTCACGTTCTTCTTC
Found at i:26131122 original size:34 final size:33
Alignment explanation
Indices: 26131084--26131159 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 33
26131074 CACAAAGTTG
26131084 TCCAAATTTCCTGCACAAACTACCAGCAAACAGC
1 TCCAAATTT-CTGCACAAACTACCAGCAAACAGC
* **
26131118 TCCAATATTTCTGCACAAATTGGCAGCAAACAGC
1 TCCAA-ATTTCTGCACAAACTACCAGCAAACAGC
26131152 T-CAAATTT
1 TCCAAATTT
26131160 TCAATAGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 4 0.11
33 3 0.08
34 27 0.71
35 4 0.11
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (33 bp):
TCCAAATTTCTGCACAAACTACCAGCAAACAGC
Found at i:26132160 original size:11 final size:11
Alignment explanation
Indices: 26132144--26132171 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
26132134 ACATATAAAA
26132144 TATTAATATTT
1 TATTAATATTT
26132155 TATTAATATTT
1 TATTAATATTT
26132166 TATTAA
1 TATTAA
26132172 ATAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTAATATTT
Found at i:26135640 original size:179 final size:179
Alignment explanation
Indices: 26135338--26135697 Score: 659
Period size: 179 Copynumber: 2.0 Consensus size: 179
26135328 CTCACCCATC
26135338 ATGCTCATCTCATATTCCCCTTGCATCTCTTTTAGCAAAGTTCTCGCATAAAGCCTCATTAGTTG
1 ATGCTCATCTCATATTCCCCTTGCATCTCTTTTAGCAAAGTTCTCGCATAAAGCCTCATTAGTTG
26135403 CACAAAACACAATGTCATCCACATAAATTCGAACAACAATTAAATCACTTAAGTATCTTTTAAAA
66 CACAAAACACAATGTCATCCACATAAATTCGAACAACAATTAAATCACTTAAGTATCTTTTAAAA
26135468 AACAATGTTGTATCAATACTACCTCTAACATAACGTTTTTCAACCAGAA
131 AACAATGTTGTATCAATACTACCTCTAACATAACGTTTTTCAACCAGAA
*
26135517 ANTGCTCATCTCATATTCCCCTTGCATCTC-TTTAGCAAAGTTCTTGCATAAAGCCTCATTAGTT
1 A-TGCTCATCTCATATTCCCCTTGCATCTCTTTTAGCAAAGTTCTCGCATAAAGCCTCATTAGTT
* * * *
26135581 GCACCAAACACAATGTCATCCACATAAATTTGAACAACAATTAAATCACTTAAGTATCTTTTGAT
65 GCACAAAACACAATGTCATCCACATAAATTCGAACAACAATTAAATCACTTAAGTATCTTTTAAA
26135646 AAACAATGTTGTATCAATACTACCTCTAACATAACGTTTTTCAACCAGAA
130 AAACAATGTTGTATCAATACTACCTCTAACATAACGTTTTTCAACCAGAA
26135696 AT
1 AT
26135698 TTTGAAAGCC
Statistics
Matches: 175, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
178 1 0.01
179 146 0.83
180 28 0.16
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.32
Consensus pattern (179 bp):
ATGCTCATCTCATATTCCCCTTGCATCTCTTTTAGCAAAGTTCTCGCATAAAGCCTCATTAGTTG
CACAAAACACAATGTCATCCACATAAATTCGAACAACAATTAAATCACTTAAGTATCTTTTAAAA
AACAATGTTGTATCAATACTACCTCTAACATAACGTTTTTCAACCAGAA
Found at i:26139768 original size:24 final size:23
Alignment explanation
Indices: 26139727--26139774 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
26139717 CATCATTAAC
*
26139727 TTAAACTAAATATTTAAACATAAA
1 TTAAACTAAATATATAAA-ATAAA
26139751 TTAAACTAAACTA-ATAAAATAAA
1 TTAAACTAAA-TATATAAAATAAA
26139774 T
1 T
26139775 AAAAATACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 14 0.64
25 2 0.09
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (23 bp):
TTAAACTAAATATATAAAATAAA
Found at i:26142067 original size:394 final size:394
Alignment explanation
Indices: 26141339--26142092 Score: 1044
Period size: 394 Copynumber: 1.9 Consensus size: 394
26141329 GATGTGCACC
* * * * ** ** *
26141339 TTGTAGAAGATGTTGTGGGGAAGCCAACTTTTATCTTCAGTCATCATAGTAGTGTTGTGGTTATC
1 TTGTAGAAAATGTTGCGGGGAAGCCAACTTTCATCTTCAATCATCATAAAAGTGTTAAGGTTAGC
*
26141404 ACAAACGACAAGAGCTTCTTCATGGTCAACAAGAACTTCTTCTATCTCATCTTTATTGAGCATTT
66 ACAAACGACAAGAGCTTCTCCATGGTCAACAAGAACTTCTTCTATCTCATCTTTATTGAGCATTT
* * * *
26141469 CCATATCACCCTCTATTTCTTCCATGTTAGCTTATTCTATAACTTCTTTTACAAGGGAGATATTT
131 CCATATCACCCTCTATCTCTTCCATGCTAGCTTATTCCATAACTTCTTCTACAAGGGAGATATTT
* * * *
26141534 CTTGGATTTGGACAATCAAAAGCAATATGCTCAAATCCTTGGCATTAAAAACATTTTTTATTAAC
196 CTTGGATTTGGACAATCAAAAGCAATATGCCCAAATCCCTAGCATTAAAAACATTCTTTATTAAC
* * * *
26141599 ATTAGAAGCATGAATAGAAGTAGTTTTTTTATCATTATTGTTTGAAGTCTTAGAAAAGCTTACCT
261 ATTAGAAGAATGAATAAAAGTAGTTTCTTTATCATTATTGTTTGAAGTCTCAGAAAAGCTTACCT
26141664 TTGGAGGTGAAATGGTTACTGAACTTTATCTCCAATGACCTGAGATAAATTGATTGAGCTTATCC
326 TTGGAGGTGAAATGGTTACTGAACTTTATCTCCAATGACCTGAGATAAATTGATTGAGCTTATCC
26141729 GTGA
391 GTGA
* * *
26141733 TTGTAGAAAATGTTGCGGTGAAGCCAACTTTCATCTTCAATTATCTTAAAAGTGTTAAGGTT-GC
1 TTGTAGAAAATGTTGCGGGGAAGCCAACTTTCATCTTCAATCATCATAAAAGTGTTAAGGTTAGC
* ** * * * * * *
26141797 AACAAATGACAAGAGCTTCTCCATGGTTGATAAGAACTTTTTTTGTCTCATCTTTGTTGAGTATT
66 -ACAAACGACAAGAGCTTCTCCATGGTCAACAAGAACTTCTTCTATCTCATCTTTATTGAGCATT
* * *
26141862 TCCATCTCACCCTCTATCTCTTCCTTGCTAGCTTTTTCCATAACTTCTTCTACAAGGGAGATATT
130 TCCATATCACCCTCTATCTCTTCCATGCTAGCTTATTCCATAACTTCTTCTACAAGGGAGATATT
* * * * *
26141927 TCTTTGATTTGGATAATCAATAGCGATATGCCCAAATCCCTAGCATTTAAAACATTACTTT-TTA
195 TCTTGGATTTGGACAATCAAAAGCAATATGCCCAAATCCCTAGCATTAAAAACATT-CTTTATTA
** * *
26141991 ATGTTAGAAGAATGAATAAAAGTAGTTTCTTTATCATTATTGTTTGAAGTCTCGGAAGAGCTTAC
259 ACATTAGAAGAATGAATAAAAGTAGTTTCTTTATCATTATTGTTTGAAGTCTCAGAAAAGCTTAC
* *
26142056 CTTTGGAGGTGAAATGGTTATTGAACTTTGTCTCCAA
324 CTTTGGAGGTGAAATGGTTACTGAACTTTATCTCCAA
26142093 CGACTTAAGT
Statistics
Matches: 310, Mismatches: 48, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
393 1 0.00
394 306 0.99
395 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (394 bp):
TTGTAGAAAATGTTGCGGGGAAGCCAACTTTCATCTTCAATCATCATAAAAGTGTTAAGGTTAGC
ACAAACGACAAGAGCTTCTCCATGGTCAACAAGAACTTCTTCTATCTCATCTTTATTGAGCATTT
CCATATCACCCTCTATCTCTTCCATGCTAGCTTATTCCATAACTTCTTCTACAAGGGAGATATTT
CTTGGATTTGGACAATCAAAAGCAATATGCCCAAATCCCTAGCATTAAAAACATTCTTTATTAAC
ATTAGAAGAATGAATAAAAGTAGTTTCTTTATCATTATTGTTTGAAGTCTCAGAAAAGCTTACCT
TTGGAGGTGAAATGGTTACTGAACTTTATCTCCAATGACCTGAGATAAATTGATTGAGCTTATCC
GTGA
Found at i:26143387 original size:18 final size:18
Alignment explanation
Indices: 26143364--26143398 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26143354 TATTCATCGA
26143364 GGAATGACTCATTGACCG
1 GGAATGACTCATTGACCG
*
26143382 GGAATGACTTATTGACC
1 GGAATGACTCATTGACC
26143399 AAAGTTAAAT
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:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (18 bp):
GGAATGACTCATTGACCG
Found at i:26146914 original size:21 final size:22
Alignment explanation
Indices: 26146885--26146925 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
26146875 AAACCCTAGA
26146885 GTTTCTCGCTGCAGCGAGATTC
1 GTTTCTCGCTGCAGCGAGATTC
26146907 GTTT-TCGCTGCAGCGAGAT
1 GTTTCTCGCTGCAGCGAGAT
26146926 GCTACAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.32
Consensus pattern (22 bp):
GTTTCTCGCTGCAGCGAGATTC
Found at i:26153007 original size:117 final size:117
Alignment explanation
Indices: 26152800--26153034 Score: 425
Period size: 117 Copynumber: 2.0 Consensus size: 117
26152790 GAGGTGCACT
26152800 CAAATCCTACCTCGAGAGTTATCCTACGAGCCTCTCCAATCGAGGTAAGCTCAATAATTGGGAAC
1 CAAATCCTACCTCGAGAGTTATCCTACGAGCCTCTCCAATCGAGGTAAGCTCAATAATTGGGAAC
26152865 CGTGCCCCTCTAATTAGGCTAGCCCACGGAACCCCCGTCACTGCAGTGCCCA
66 CGTGCCCCTCTAATTAGGCTAGCCCACGGAACCCCCGTCACTGCAGTGCCCA
* * *
26152917 CAAATCCTACCTCGGGAGTTATTCTACGCGCCTCTCCAATCGAGGTAAGCTCAATAATTGGGAAC
1 CAAATCCTACCTCGAGAGTTATCCTACGAGCCTCTCCAATCGAGGTAAGCTCAATAATTGGGAAC
* *
26152982 CGTGCCCCTCTAATTAGGCTGGCCCATGGAACCCCCGTCACTGCAGTGCCCA
66 CGTGCCCCTCTAATTAGGCTAGCCCACGGAACCCCCGTCACTGCAGTGCCCA
26153034 C
1 C
26153035 TTTATAAGCC
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 113 1.00
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.21
Consensus pattern (117 bp):
CAAATCCTACCTCGAGAGTTATCCTACGAGCCTCTCCAATCGAGGTAAGCTCAATAATTGGGAAC
CGTGCCCCTCTAATTAGGCTAGCCCACGGAACCCCCGTCACTGCAGTGCCCA
Found at i:26153273 original size:13 final size:13
Alignment explanation
Indices: 26153255--26153279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26153245 ATTTTCAAAA
26153255 ATTTTATAAAATT
1 ATTTTATAAAATT
26153268 ATTTTATAAAAT
1 ATTTTATAAAAT
26153280 CCCATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:26154318 original size:8 final size:8
Alignment explanation
Indices: 26154281--26154328 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
26154271 TAATAAAATA
26154281 TTATTATT
1 TTATTATT
26154289 TTATTTACCTT
1 TTA-TTA--TT
*
26154300 TTAAATATT
1 TT-ATTATT
26154309 TTATTATT
1 TTATTATT
26154317 TTATTATT
1 TTATTATT
26154325 TTAT
1 TTAT
26154329 AGCCATCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 20 0.59
9 7 0.21
11 6 0.18
12 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (8 bp):
TTATTATT
Found at i:26162433 original size:33 final size:32
Alignment explanation
Indices: 26162395--26162456 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
26162385 TTAATTATTC
* *
26162395 CTAAATAATAGAAAAAAATATATTTGTTTACCT
1 CTAAATAATA-AAAAAAAGACATTTGTTTACCT
*
26162428 CTAAATAATAAAAATAAGACATTTGTTTA
1 CTAAATAATAAAAAAAAGACATTTGTTTA
26162457 TTTACCTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (32 bp):
CTAAATAATAAAAAAAAGACATTTGTTTACCT
Found at i:26163571 original size:117 final size:118
Alignment explanation
Indices: 26163362--26163575 Score: 340
Period size: 117 Copynumber: 1.8 Consensus size: 118
26163352 AATCAATTAG
* *
26163362 TAAATTTAGTAAAATTTAATATTATTTAGGAAAAAATGTTTTAGTAATTAAGCAATTAACTAAAT
1 TAAATTTAGTAAAATTTAATATTACTTA-GAAAAAATGTTTTAGTAACTAAGCAATTAACTAAAT
*
26163427 TAGTAATATTGTTTAATTTTAACTAATATTTAAATGGTAATTAATATTATTTAA
65 TAGTAATATTGTTTAATTTTAAATAATATTTAAATGGTAATTAATATTATTTAA
** * * *
26163481 TAAATTTAGTGCAATTTAATATTACTTA-AAAACATGTTTTAGTAACTAAGCATTTAACTAATTT
1 TAAATTTAGTAAAATTTAATATTACTTAGAAAAAATGTTTTAGTAACTAAGCAATTAACTAAATT
26163545 AGTAATATTGTTTAATTTTAAATAATATTTA
66 AGTAATATTGTTTAATTTTAAATAATATTTA
26163576 CCTAATTATG
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
117 62 0.71
119 25 0.29
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (118 bp):
TAAATTTAGTAAAATTTAATATTACTTAGAAAAAATGTTTTAGTAACTAAGCAATTAACTAAATT
AGTAATATTGTTTAATTTTAAATAATATTTAAATGGTAATTAATATTATTTAA
Found at i:26163787 original size:17 final size:17
Alignment explanation
Indices: 26163750--26163800 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
26163740 TTTAGTGAGG
* *
26163750 TAATTAAATAATCTAAT
1 TAATTAAATAATTTAAA
26163767 TAATTAAATAATTTAAA
1 TAATTAAATAATTTAAA
*
26163784 TAATCTAAGTAATTTAA
1 TAAT-TAAATAATTTAA
26163801 GCAATTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
TAATTAAATAATTTAAA
Found at i:26163801 original size:9 final size:9
Alignment explanation
Indices: 26163753--26163800 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
26163743 AGTGAGGTAA
26163753 TTAAATAAT
1 TTAAATAAT
* *
26163762 CTAATTAA-
1 TTAAATAAT
26163770 TTAAATAAT
1 TTAAATAAT
26163779 TTAAATAAT
1 TTAAATAAT
* *
26163788 CTAAGTAAT
1 TTAAATAAT
26163797 TTAA
1 TTAA
26163801 GCAATTATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
8 6 0.19
9 25 0.81
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (9 bp):
TTAAATAAT
Found at i:26171999 original size:21 final size:21
Alignment explanation
Indices: 26171957--26171999 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
26171947 CTTGTACCGG
*
26171957 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
26171978 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
26171999 T
1 T
26172000 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:26180764 original size:95 final size:95
Alignment explanation
Indices: 26180613--26180793 Score: 272
Period size: 95 Copynumber: 1.9 Consensus size: 95
26180603 TCATTACCGA
* *
26180613 CATGTGCACTGCCCACTCCACACATGCACAGTTGTGCATATCACAACAGCATCATTACCGACATG
1 CATGTGCACTGCCCACTCCACACATACACAGTTGTACATATCACAACAGCATCATTACCGACATG
26180678 TGCACTGCCCACTCCGCACATCATTACAAG
66 TGCACTGCCCACTCCGCACATCATTACAAG
** * * * *
26180708 CATGTGCACTGCCCACTCGGCACATACGCTGTTGTACATATCATAACAGCATCATTACCGGCATG
1 CATGTGCACTGCCCACTCCACACATACACAGTTGTACATATCACAACAGCATCATTACCGACATG
* *
26180773 TGCACTGCCCTCTTCGCACAT
66 TGCACTGCCCACTCCGCACAT
26180794 GAACGGTTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 76 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (95 bp):
CATGTGCACTGCCCACTCCACACATACACAGTTGTACATATCACAACAGCATCATTACCGACATG
TGCACTGCCCACTCCGCACATCATTACAAG
Found at i:26180772 original size:61 final size:60
Alignment explanation
Indices: 26180696--26180843 Score: 156
Period size: 61 Copynumber: 2.4 Consensus size: 60
26180686 CCACTCCGCA
** * * *
26180696 CATCATTACAAGCATGTGCACTGCCCAC-TCGGCACAT-ACGCTGTTGTACATATCATAACAG
1 CATCATTACCGGCATGTGCACTGCCCACTTC-GCACATAACG--GTTGTAAAAATCACAACAG
* * *
26180757 CATCATTACCGGCATGTGCACTGCCCTCTTCGCACATGAACGGTTGTAAAAATCGCGACAG
1 CATCATTACCGGCATGTGCACTGCCCACTTCGCACAT-AACGGTTGTAAAAATCACAACAG
* *
26180818 CGTCATTACCGACATGTGCACTGCCC
1 CATCATTACCGGCATGTGCACTGCCC
26180844 TCTACACACA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 69 0.93
62 2 0.03
63 3 0.04
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (60 bp):
CATCATTACCGGCATGTGCACTGCCCACTTCGCACATAACGGTTGTAAAAATCACAACAG
Found at i:26182546 original size:38 final size:40
Alignment explanation
Indices: 26182495--26182597 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
26182485 ATAGTGCCCG
*
26182495 TGTGCACGATGTGGGGGGATGTACACGATGGCACTGA-T-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCACCGACTA
* * **
26182533 TGTGCACGATGTGGGGGGATGCACATGATGGTGCCGACTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCACCGACTA
*
26182573 TATGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
26182598 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 32 0.57
39 1 0.02
40 23 0.41
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCACCGACTA
Found at i:26188950 original size:16 final size:16
Alignment explanation
Indices: 26188929--26188959 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26188919 TATCATGAAA
*
26188929 TCTTTCTCTCTCTCTC
1 TCTTTCTCTATCTCTC
26188945 TCTTTCTCTATCTCT
1 TCTTTCTCTATCTCT
26188960 ACACAGTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTTTCTCTATCTCTC
Found at i:26197792 original size:30 final size:32
Alignment explanation
Indices: 26197757--26197825 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
26197747 TATGGTTTTG
*
26197757 TTGAATATTAT-GTGCTAAG-TATTATGGATA
1 TTGAATATTATCGTGCTAAGCTACTATGGATA
* *
26197787 TTGAATA-TATCTTGCTTAGCTACTATGGATA
1 TTGAATATTATCGTGCTAAGCTACTATGGATA
*
26197818 TTGTATAT
1 TTGAATAT
26197826 CTTATTTAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 13 0.41
31 16 0.50
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (32 bp):
TTGAATATTATCGTGCTAAGCTACTATGGATA
Found at i:26199988 original size:42 final size:42
Alignment explanation
Indices: 26199935--26200054 Score: 168
Period size: 42 Copynumber: 2.9 Consensus size: 42
26199925 TATGCATCAG
* * *
26199935 CTTATGTGCACTCCCACTTGCACATAGCTGGGTCAACATCGA
1 CTTATGCGCACTCCCACTCGCACATAGCCGGGTCAACATCGA
* * *
26199977 TTTATGCGCACTCCCACTCGCACATAGCCGGGTCAGCATCGG
1 CTTATGCGCACTCCCACTCGCACATAGCCGGGTCAACATCGA
* *
26200019 CTTATGCACACTCCTACTCGCACATAGCCGGGTCAA
1 CTTATGCGCACTCCCACTCGCACATAGCCGGGTCAA
26200055 TATCATTGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (42 bp):
CTTATGCGCACTCCCACTCGCACATAGCCGGGTCAACATCGA
Found at i:26200084 original size:10 final size:10
Alignment explanation
Indices: 26200071--26200103 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
26200061 TGCACAACAT
26200071 TATTTATATA
1 TATTTATATA
26200081 TATTTATATA
1 TATTTATATA
*
26200091 TATATATATA
1 TATTTATATA
26200101 TAT
1 TAT
26200104 CAACATAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTATATA
Found at i:26203252 original size:34 final size:34
Alignment explanation
Indices: 26203153--26203249 Score: 106
Period size: 34 Copynumber: 2.9 Consensus size: 34
26203143 GAAGGAAGCT
* * * * * *
26203153 TTGGCGTGTAATATCTGGTGCTGAAGCTTTGACT
1 TTGGCGTGTAACATTTGATGCTAAAGCTTTGGCC
*
26203187 TTGGCTTGTAACATTTGATGCTAAAGCTTTGGCC
1 TTGGCGTGTAACATTTGATGCTAAAGCTTTGGCC
**
26203221 TTGGCGTGTAACATTTTTTGCTAAA-CTTT
1 TTGGCGTGTAACATTTGATGCTAAAGCTTT
26203250 TGGTGTGTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
33 4 0.08
34 49 0.92
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (34 bp):
TTGGCGTGTAACATTTGATGCTAAAGCTTTGGCC
Found at i:26203535 original size:30 final size:30
Alignment explanation
Indices: 26203499--26203559 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
26203489 AGAGAAAATT
26203499 TTTTCCTCCAAAGTTGTTATTCCCTTACTC
1 TTTTCCTCCAAAGTTGTTATTCCCTTACTC
26203529 TTTTCCTCCAAAGTTGTTATTCCCTTACTC
1 TTTTCCTCCAAAGTTGTTATTCCCTTACTC
26203559 T
1 T
26203560 ATTCATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.30, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTTCCTCCAAAGTTGTTATTCCCTTACTC
Found at i:26206987 original size:155 final size:154
Alignment explanation
Indices: 26206830--26207112 Score: 342
Period size: 150 Copynumber: 1.8 Consensus size: 154
26206820 TAACATTGTT
* * * *
26206830 TTTTTTTTTTTCAAAATAGCATGTAGCAAAATTTTTTTTGAACATGGCATGTAATAATAACATTT
1 TTTTTTGTTTTCAAAAT-G-ATGTAACAAAA-TTTTTTTGAACATGGCATATAATAACAACATTT
* * *
26206895 TTTAAACAT-AGCGTGTAACTT-G-CTC-A-TTTGTATTTCATTAGAACATAAATTTTTAGAGTT
63 TTTAAACATGA-CATATAACTTGGTCTCTACTTTGTATTTCATTAGAACATAAATTCTTAGAGTT
26206955 AAACACCTTAAACACAATATGCAATAAC
127 AAACACCTTAAACACAATATGCAATAAC
* * * * **
26206983 TTTTTTGTTTTCAATATGGTGTAATAACATTTTTTTGAACATGGTGTATAATAACAACATTTTTT
1 TTTTTTGTTTTCAAAATGATGTAACAAAATTTTTTTGAACATGGCATATAATAACAACATTTTTT
* * *
26207048 AAACATGATATATAACTTGGTCTCTATCTTTGTATTTCATTAGGACATAAATTCTTGGAGTTAAA
66 AAACATGACATATAACTTGGTCTCTA-CTTTGTATTTCATTAGAACATAAATTCTTAGAGTTAAA
26207113 TACTTTCATG
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
150 45 0.42
151 9 0.08
152 4 0.04
153 16 0.15
155 34 0.31
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (154 bp):
TTTTTTGTTTTCAAAATGATGTAACAAAATTTTTTTGAACATGGCATATAATAACAACATTTTTT
AAACATGACATATAACTTGGTCTCTACTTTGTATTTCATTAGAACATAAATTCTTAGAGTTAAAC
ACCTTAAACACAATATGCAATAAC
Found at i:26217405 original size:32 final size:33
Alignment explanation
Indices: 26217369--26217497 Score: 129
Period size: 35 Copynumber: 3.8 Consensus size: 33
26217359 TTTATCGGGA
26217369 TCAACCAAAACC-CAAAATGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAAATGGTTTTTCAAAGGC
* * * *
26217401 TCAACCATAACCTTTCACAATTGTTTTTC-ACGAGC
1 TCAACCAAAACC--TCAAAATGGTTTTTCAAAG-GC
* *
26217436 TCAGCCAAAACC-CAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAAATGGTTTTTCAAAGGC
*
26217468 TCAACCACAACCTACAATAATGGTTTTTCA
1 TCAACCAAAACCT-CAA-AATGGTTTTTCA
26217498 CGAGATCAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
32 34 0.45
33 2 0.03
34 5 0.07
35 35 0.46
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (33 bp):
TCAACCAAAACCTCAAAATGGTTTTTCAAAGGC
Found at i:26217427 original size:67 final size:67
Alignment explanation
Indices: 26217342--26217518 Score: 223
Period size: 67 Copynumber: 2.6 Consensus size: 67
26217332 GCTTATCCAA
* *
26217342 AACCTTTCACTATGGTTTTT-ATCGGGATCAACCAAAACCCAAAATGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGAGATCAACCAAAACCCAAAATGGTTTTTCAAAGGCTCAAC
*
26217406 CAT
65 CAC
* * * *
26217409 AACCTTTCACAATTGTTTTTCACGAGCTCAGCCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAATGGTTTTTCAAAGGCTCAACC
26217474 AC
66 AC
* * * *
26217476 AACC-TACAATAATGGTTTTTCACGAGATCAATCAAAATCCAAA
1 AACCTTTC-ACAATGGTTTTTCACGAGATCAACCAAAACCCAAA
26217519 CTAACTTTTC
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 2 0.02
67 91 0.97
68 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAATGGTTTTTCAAAGGCTCAACC
AC
Found at i:26217429 original size:35 final size:33
Alignment explanation
Indices: 26217369--26217497 Score: 113
Period size: 32 Copynumber: 3.8 Consensus size: 33
26217359 TTTATCGGGA
*
26217369 TCAACCAAAACC-CAAAATGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAAGTGGTTTTTCAAAGGC
* * *
26217401 TCAACCATAACCTTTCACAA-TTGTTTTTC-ACGAGC
1 TCAACCAAAACC--TCA-AAGTGGTTTTTCAAAG-GC
*
26217436 TCAGCCAAAACC-CAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAAGTGGTTTTTCAAAGGC
* *
26217468 TCAACCACAACCTACAATAATGGTTTTTCA
1 TCAACCAAAACCT-CAA-AGTGGTTTTTCA
26217498 CGAGATCAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
31 2 0.03
32 33 0.43
33 2 0.03
34 5 0.06
35 33 0.43
36 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (33 bp):
TCAACCAAAACCTCAAAGTGGTTTTTCAAAGGC
Found at i:26218598 original size:2 final size:2
Alignment explanation
Indices: 26218558--26218587 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26218548 TATATTCAGA
26218558 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
26218588 GCAGATATAT
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:26226356 original size:32 final size:33
Alignment explanation
Indices: 26226318--26226467 Score: 112
Period size: 35 Copynumber: 4.5 Consensus size: 33
26226308 TTTATCGGGA
26226318 TCAACCAAAACC-CAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAAGTGGTTTTTCAAAGGC
* * **
26226350 TTAACCACAACCTTTCACAA-TGGTTTTTCATGGGC
1 TCAACCAAAACC--TCA-AAGTGGTTTTTCAAAGGC
* * *
26226385 TCAACCAAAACC-CAAAGTGATTTTTTACAGGC
1 TCAACCAAAACCTCAAAGTGGTTTTTCAAAGGC
* * * *
26226417 TCAACCACAACCTACAACAATGGTTTTTC-ACGAGA
1 TCAACCAAAACCT-CAA-AGTGGTTTTTCAAAG-GC
26226452 TCAACCAAAA-CTCAAA
1 TCAACCAAAACCTCAAA
26226468 CTAACTTTTC
Statistics
Matches: 91, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
31 2 0.02
32 35 0.38
33 3 0.03
34 6 0.07
35 43 0.47
36 2 0.02
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.25
Consensus pattern (33 bp):
TCAACCAAAACCTCAAAGTGGTTTTTCAAAGGC
Found at i:26226374 original size:35 final size:33
Alignment explanation
Indices: 26226318--26226446 Score: 104
Period size: 32 Copynumber: 3.8 Consensus size: 33
26226308 TTTATCGGGA
*
26226318 TCAACCAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCACAACCTCACAA-TGGTTTTTCAAAGGC
* **
26226350 TTAACCACAACCTTTCACAATGGTTTTTCATGGGC
1 TCAACCACAACC--TCACAATGGTTTTTCAAAGGC
* * * *
26226385 TCAACCAAAACC-CA-AAGTGATTTTTTACAGGC
1 TCAACCACAACCTCACAA-TGGTTTTTCAAAGGC
26226417 TCAACCACAACCTACAACAATGGTTTTTCA
1 TCAACCACAACCT-C-ACAATGGTTTTTCA
26226447 CGAGATCAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
31 2 0.03
32 34 0.45
34 1 0.01
35 34 0.45
36 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.27
Consensus pattern (33 bp):
TCAACCACAACCTCACAATGGTTTTTCAAAGGC
Found at i:26226389 original size:67 final size:67
Alignment explanation
Indices: 26226291--26226467 Score: 214
Period size: 67 Copynumber: 2.6 Consensus size: 67
26226281 GGCTTAGCAA
* * * * *
26226291 AACCTTTGATAATGATTTTT-ATCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTTAAC
1 AACCTTTCACAATGGTTTTTCAT-GGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAAC
26226355 CAC
65 CAC
* * *
26226358 AACCTTTCACAATGGTTTTTCATGGGCTCAACCAAAACCCAAAGTGATTTTTTACAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCATGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
26226423 AC
66 AC
* * * *
26226425 AACC-TACAACAATGGTTTTTCACGAGATCAACCAAAACTCAAA
1 AACCTTTC-ACAATGGTTTTTCATGGGATCAACCAAAACCCAAA
26226468 CTAACTTTTC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
66 2 0.02
67 91 0.96
68 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCATGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
AC
Found at i:26230145 original size:15 final size:15
Alignment explanation
Indices: 26230095--26230145 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
26230085 ATTTCAAAAC
*
26230095 AACTTTAAACCCAAA
1 AACTTTAAAACCAAA
* *
26230110 AACTTTAAAATCTAA
1 AACTTTAAAACCAAA
*
26230125 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
*
26230140 ATCTTT
1 AACTTT
26230146 GATCTTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:26233165 original size:20 final size:20
Alignment explanation
Indices: 26233140--26233178 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26233130 AGCAGAATGC
26233140 TCTTAGTCGACTAACTTATG
1 TCTTAGTCGACTAACTTATG
*
26233160 TCTTAGTCGACTAAGTTAT
1 TCTTAGTCGACTAACTTAT
26233179 CTTTGTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (20 bp):
TCTTAGTCGACTAACTTATG
Found at i:26253583 original size:47 final size:48
Alignment explanation
Indices: 26253530--26253621 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
26253520 AAAGAAAACA
*
26253530 AAAATAGACTTTAA-TTTTCGTTTTTATCAGAAAATAGACTTTAAATC
1 AAAATAGACTTTAATTTTTCGTTTTTATCAGAAAATAAACTTTAAATC
* *
26253577 AAAATAGATTTTAATTTTTTGTTTTTATCAGAAAATAAACTTTAA
1 AAAATAGACTTTAATTTTTCGTTTTTATCAGAAAATAAACTTTAA
26253622 CTTTTTATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 13 0.32
48 28 0.68
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (48 bp):
AAAATAGACTTTAATTTTTCGTTTTTATCAGAAAATAAACTTTAAATC
Found at i:26261522 original size:17 final size:17
Alignment explanation
Indices: 26261474--26261523 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
26261464 GAAATTTCTC
26261474 TCTTACTTCCATTAAAAG
1 TCTT-CTTCCATTAAAAG
* *
26261492 TCTTTTTCCCTTAAAAG
1 TCTTCTTCCATTAAAAG
26261509 TTCTTCTT-CATTAAA
1 -TCTTCTTCCATTAAA
26261524 CACTTACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (17 bp):
TCTTCTTCCATTAAAAG
Found at i:26270655 original size:68 final size:68
Alignment explanation
Indices: 26270330--26270656 Score: 271
Period size: 68 Copynumber: 4.9 Consensus size: 68
26270320 ACATGCTTAC
*
26270330 TCATCTCATAAGGTATATGGAATTTACATCATATACATAAT-CTAATGGCATT--T-ATGC-TAG
1 TCATCTCATATGGTATATGGAA-TTACATCATATACATAATCCTAATGGCATTAATCATGCATA-
*
26270390 CTCAA
64 CTAAA
* * * * * *
26270395 TCATCTTATGTAGTATATGGAATATGCATCATATACATAGT-TTAATGGCATTAATCATGCATAC
1 TCATCTCATATGGTATATGGAAT-TACATCATATACATAATCCTAATGGCATTAATCATGCATAC
*
26270459 TCAA
65 TAAA
* * * * *
26270463 TCATCTCATGTAGTACATGGAATATACATCATATACAT-ATTCTCATGGCATTAATCATGCATAC
1 TCATCTCATATGGTATATGGAAT-TACATCATATACATAATCCTAATGGCATTAATCATGCATAC
26270527 TAAA
65 TAAA
* * * * * *
26270531 TCACCTCATAAGGTATATGGAATTTAGATCATATACA-ACAT-CTTATAGTA-TACATCATGCAT
1 TCATCTCATATGGTATATGGAA-TTACATCATATACATA-ATCCTAATGGCATTA-ATCATGCAT
* **
26270593 GCTTGA
63 ACTAAA
* * *
26270599 TCATATCATATGGTGTATGGAATTCACATCATATACATAATCCT-ATGGCATTCATCAT
1 TCATCTCATATGGTATATGGAATT-ACATCATATACATAATCCTAATGGCATTAATCAT
26270657 ACCAACATGC
Statistics
Matches: 214, Mismatches: 34, Indels: 25
0.78 0.12 0.09
Matches are distributed among these distances:
64 1 0.00
65 43 0.20
67 6 0.03
68 155 0.72
69 9 0.04
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (68 bp):
TCATCTCATATGGTATATGGAATTACATCATATACATAATCCTAATGGCATTAATCATGCATACT
AAA
Found at i:26274703 original size:16 final size:16
Alignment explanation
Indices: 26274679--26274709 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26274669 TAAAAATATA
26274679 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
*
26274695 AAAAGAATCAAAATC
1 AAAAAAATCAAAATC
26274710 TAAATTTTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:26276939 original size:21 final size:20
Alignment explanation
Indices: 26276915--26276953 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26276905 AAAACTAATA
*
26276915 AATAATAACCAAATTAAAAAG
1 AATAA-AACAAAATTAAAAAG
*
26276936 AATAACACAAAATTAAAA
1 AATAAAACAAAATTAAAA
26276954 TAACTCACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (20 bp):
AATAAAACAAAATTAAAAAG
Found at i:26277737 original size:26 final size:26
Alignment explanation
Indices: 26277708--26277803 Score: 156
Period size: 26 Copynumber: 3.7 Consensus size: 26
26277698 CATATCATCC
* *
26277708 TAATTTTGATAATTATAAGCAAGGGG
1 TAATTTTGACAATTATAAACAAGGGG
26277734 TAATTTTGACAATTATAAACAAGGGG
1 TAATTTTGACAATTATAAACAAGGGG
*
26277760 TAATTTTGACAATTATAAACAAGGGC
1 TAATTTTGACAATTATAAACAAGGGG
*
26277786 TAATTTTGATAATTATAA
1 TAATTTTGACAATTATAA
26277804 CTATATGCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (26 bp):
TAATTTTGACAATTATAAACAAGGGG
Found at i:26277789 original size:78 final size:76
Alignment explanation
Indices: 26277659--26277803 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 76
26277649 CCAAACTTAT
* *
26277659 TTTTGACAATTATAAACAAGGGGTAATTTTGTTAACAACCATATCATCCTAATTTTGATAATTAT
1 TTTTGACAATTATAAACAAGGGGTAATTTTG-T-ACAACCATAACAGCCTAATTTTGATAATTAT
26277724 AAGCAAGGGGTAA
64 AAGCAAGGGGTAA
** *
26277737 TTTTGACAATTATAAACAAGGGGTAATTTTG-ACAATTATAAACAAGGGCTAATTTTGATAATTA
1 TTTTGACAATTATAAACAAGGGGTAATTTTGTACAACCAT-AAC-A-GCCTAATTTTGATAATTA
26277801 TAA
63 TAA
26277804 CTATATGCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
75 6 0.10
76 2 0.03
77 1 0.02
78 50 0.85
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (76 bp):
TTTTGACAATTATAAACAAGGGGTAATTTTGTACAACCATAACAGCCTAATTTTGATAATTATAA
GCAAGGGGTAA
Found at i:26278479 original size:19 final size:19
Alignment explanation
Indices: 26278439--26278480 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
26278429 AAGCCTAAGG
* *
26278439 AATAAATGAATGATGGTAA
1 AATAAATGAATGAAGATAA
26278458 AATAAATGAA-GAAGATAGA
1 AATAAATGAATGAAGATA-A
26278477 AATA
1 AATA
26278481 CTAATAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:26279718 original size:80 final size:80
Alignment explanation
Indices: 26279598--26279920 Score: 409
Period size: 80 Copynumber: 4.0 Consensus size: 80
26279588 AGGGAGTGTG
* * * *
26279598 GATGATGAGAT-TGCCTATGTGCGTGATGTGGGGGGAGCACATGATGGCATTAGTTGTGTGCGAT
1 GATGATGATATATGCC-ATGTGCGCGATGTGGAGGGAGCACATGATGGCATTAGTTGTGCGCGAT
*
26279662 GTAGGGGTCACAAGAT
65 GTGGGGGTCACAAGAT
* **
26279678 GATGATGATATATGCCATGTGCGCGATGTGGAAGGAGCACATGATAACATTAGTTGTGCGCGATG
1 GATGATGATATATGCCATGTGCGCGATGTGGAGGGAGCACATGATGGCATTAGTTGTGCGCGATG
*
26279743 TGGGGGTCACACGAT
66 TGGGGGTCACAAGAT
* ** **
26279758 GATGATGATATATGCCATGTACGTTATGTGGAGGGAGCACATGATGGCATTAGTT-TGCATGATG
1 GATGATGATATATGCCATGTGCGCGATGTGGAGGGAGCACATGATGGCATTAGTTGTGCGCGATG
26279822 TGGGGGTGCACACA-AT
66 TGGGGGT-CACA-AGAT
* * * *
26279838 GATGATGATATATGCCATGTGCGCGATGTGGGGGGAGCACATGATGGCAATAGTTGTACACGATG
1 GATGATGATATATGCCATGTGCGCGATGTGGAGGGAGCACATGATGGCATTAGTTGTGCGCGATG
* *
26279903 TGGGAGTGCACATGAT
66 TGGGGGT-CACAAGAT
26279919 GA
1 GA
26279921 CTTCGACAAT
Statistics
Matches: 211, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
79 14 0.07
80 171 0.81
81 26 0.12
ACGTcount: A:0.25, C:0.13, G:0.35, T:0.26
Consensus pattern (80 bp):
GATGATGATATATGCCATGTGCGCGATGTGGAGGGAGCACATGATGGCATTAGTTGTGCGCGATG
TGGGGGTCACAAGAT
Found at i:26286929 original size:37 final size:37
Alignment explanation
Indices: 26286882--26287097 Score: 168
Period size: 37 Copynumber: 5.5 Consensus size: 37
26286872 AGGTTGCCTA
26286882 TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
1 TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
* * *
26286919 TGTGCACGATGGTGGGGTGCA-CACGATGATGATG-ATATATGCCA
1 TGTGCGCGAT-GTGGGG-GGAGCAC-ATGATG--GCAT-TA-G--T
*
26286963 TGTGCGCAATGTGGGGGGAGCACATGATGGCATTAGT
1 TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
** * *
26287000 TGTGCGCGATGT-GGGGGTCCACATGATGATGATGATATATGCCA
1 TGTGCGCGATGTGGGGGGAGCACATGATG--G--CAT-TA-G--T
* *
26287044 TGTTCGCGATGTGGGGGAAGCACATGATGGCATTAGT
1 TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
26287081 TGTGCGCGATGTGGGGG
1 TGTGCGCGATGTGGGGG
26287098 TGCATAGATG
Statistics
Matches: 140, Mismatches: 19, Indels: 40
0.70 0.10 0.20
Matches are distributed among these distances:
36 14 0.10
37 36 0.26
38 10 0.07
39 10 0.07
40 9 0.06
41 9 0.06
42 10 0.07
43 10 0.07
44 19 0.14
45 13 0.09
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.25
Consensus pattern (37 bp):
TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
Done.