Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 99 of 185
Found at i:31446506 original size:29 final size:29
Alignment explanation
Indices: 31446449--31446507 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
31446439 TCGTGGAAGA
* *
31446449 GGTGGAGAACTTGTTCGTTGAGAGCTCGT
1 GGTGAAGAACTTGTTCGTTGAGAACTCGT
*
31446478 GGTGAAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAACTTGTTCGTTGAGAACTCGT
31446507 G
1 G
31446508 TCAAGGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.12, G:0.36, T:0.32
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCGTTGAGAACTCGT
Found at i:31447235 original size:42 final size:42
Alignment explanation
Indices: 31447176--31447257 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
31447166 ATATATTAAT
31447176 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
1 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
31447218 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACA
1 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACA
31447258 ACACCTCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (42 bp):
AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
Found at i:31453950 original size:25 final size:25
Alignment explanation
Indices: 31453904--31453951 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
31453894 TTAGAGAATA
* * *
31453904 TTTCATACCATTCTTTCCTAATTCT
1 TTTCATACCACTCATTCATAATTCT
*
31453929 TTTCATGCCACTCATTCATAATT
1 TTTCATACCACTCATTCATAATT
31453952 TTGTTGTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTCATACCACTCATTCATAATTCT
Found at i:31454284 original size:61 final size:61
Alignment explanation
Indices: 31454176--31454348 Score: 183
Period size: 61 Copynumber: 2.8 Consensus size: 61
31454166 ATAGAGATAT
* * * *
31454176 TGCCACAAAGGCTTTTTCTTTTCAT-TC-AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTT
1 TGCCACAAAGGC--TGTCTTTT-ATATCTAGTACTCGCTACAAAAGCTTTCCTATCCAGAATTA
* *
31454238 TTCCACAAAGGCTGTCTTTTATATCTAGTACTCGCTACAAAAGCTTTCCTATCCAGAGTTA
1 TGCCACAAAGGCTGTCTTTTATATCTAGTACTCGCTACAAAAGCTTTCCTATCCAGAATTA
* * * *
31454299 TGCCAAAAAGGCTGTCCTTTACAT-TCATTACTCG-TCACAAAAGCTTTCCT
1 TGCCACAAAGGCTGTCTTTTATATCT-AGTACTCGCT-ACAAAAGCTTTCCT
31454349 TTTAAAGCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
59 2 0.02
60 11 0.11
61 72 0.75
62 11 0.11
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (61 bp):
TGCCACAAAGGCTGTCTTTTATATCTAGTACTCGCTACAAAAGCTTTCCTATCCAGAATTA
Found at i:31459198 original size:13 final size:13
Alignment explanation
Indices: 31459178--31459212 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
31459168 CAAAGTCAAG
31459178 AAAAATTTTGTTA
1 AAAAATTTTGTTA
*
31459191 AGAAATTTTGTTA
1 AAAAATTTTGTTA
31459204 AAAAATTTT
1 AAAAATTTT
31459213 ACCGTTTACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (13 bp):
AAAAATTTTGTTA
Found at i:31459870 original size:25 final size:25
Alignment explanation
Indices: 31459842--31459927 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
31459832 TGTTCCACCC
*
31459842 CACATCTCGTAGGAGCTTACCGATT
1 CACAGCTCGTAGGAGCTTACCGATT
* *
31459867 CACAGCTCGTATGAGCTTACTGATT
1 CACAGCTCGTAGGAGCTTACCGATT
* * * * *
31459892 TATAGCTTG-AGAGAGCATACCAATT
1 CACAGCTCGTAG-GAGCTTACCGATT
*
31459917 CATAGCTCGTA
1 CACAGCTCGTA
31459928 TAAGCATACA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (25 bp):
CACAGCTCGTAGGAGCTTACCGATT
Found at i:31462647 original size:82 final size:82
Alignment explanation
Indices: 31462561--31462717 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 82
31462551 AAAGGATTGC
* * * * *
31462561 CACAAAGGCTTTTATATT-ATATATGAGACAAATGCTTTCTGTACAAAGGTTCGCCACAAAGGCT
1 CACAAACGCTTTTAT-TTCAGATATGACAAAAATGCTTTCTGTACAAAGGTTCGCCACAAAGACT
31462625 TTCCTTTCAGAGGCTCGG
65 TTCCTTTCAGAGGCTCGG
* * * * *
31462643 CACAAACGCTTTTCTTTCAGATATGCCAAAAATGCTTTCTGTACAGAGGTTTGCCATAAAGACTT
1 CACAAACGCTTTTATTTCAGATATGACAAAAATGCTTTCTGTACAAAGGTTCGCCACAAAGACTT
*
31462708 TTCTTTCAGA
66 TCCTTTCAGA
31462718 TACACCACAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 2 0.03
82 61 0.97
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (82 bp):
CACAAACGCTTTTATTTCAGATATGACAAAAATGCTTTCTGTACAAAGGTTCGCCACAAAGACTT
TCCTTTCAGAGGCTCGG
Found at i:31462745 original size:54 final size:54
Alignment explanation
Indices: 31462651--31462764 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
31462641 GGCACAAACG
** * * * *
31462651 CTTTTCTTTCAGATATGCCAAAAATGCTTTCTGTACAGAGGTTTGCCATAAAGA
1 CTTTTCTTTCAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
* * *
31462705 CTTTTCTTTCAGATACACCACAAAGGATTTTTATAAAGAGGTTTGCCATAAAGG
1 CTTTTCTTTCAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
31462759 CTTTTC
1 CTTTTC
31462765 CTTTATAGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTTTCTTTCAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
Found at i:31462903 original size:28 final size:28
Alignment explanation
Indices: 31462607--31463021 Score: 174
Period size: 28 Copynumber: 14.9 Consensus size: 28
31462597 TTCTGTACAA
* *
31462607 AGGTTCGCCACAAAGGCTTTCCTTTCAG
1 AGGTTCGCCACAAAGGCTTTTCTTTAAG
* * * *
31462635 AGGCTCGGCACAAACGCTTTTCTTTCAG
1 AGGTTCGCCACAAAGGCTTTTCTTTAAG
* * *
31462663 A--TAT-GCCAAAAATGC-TTTCTGTACAG
1 AGGT-TCGCCACAAAGGCTTTTCTTTA-AG
* * * *
31462689 AGGTTTGCCATAAAGACTTTTCTTTCAG
1 AGGTTCGCCACAAAGGCTTTTCTTTAAG
* * * *
31462717 A--TACACCACAAAGGATTTT-TATAAAG
1 AGGTTCGCCACAAAGGCTTTTCT-TTAAG
* *
31462743 AGGTTTGCCATAAAGGCTTTTCCTTTATAG
1 AGGTTCGCCACAAAGGCTTTT-CTTTA-AG
** * **
31462773 AGGTTTTCCACAAAGG-TTGTCTAGACAG
1 AGGTTCGCCACAAAGGCTTTTCTTTA-AG
* *
31462801 TGGTTCGCCACAAAAGCTTTTCTTTAAG
1 AGGTTCGCCACAAAGGCTTTTCTTTAAG
* * *
31462829 AGGTTTGCCATAAAGGCTTTT-TGTAAAG
1 AGGTTCGCCACAAAGGCTTTTCT-TTAAG
* * * * *
31462857 AGGTTCACCAAAAACGCTTTCCTTTTAG
1 AGGTTCGCCACAAAGGCTTTTCTTTAAG
* *
31462885 AGGCTCGCCACAAAGGCTTTTCTTTCAG
1 AGGTTCGCCACAAAGGCTTTTCTTTAAG
* * * * * *
31462913 A--TACACCAAAAAGG--TTTATGTACAA
1 AGGTTCGCCACAAAGGCTTTTCTTTA-AG
* *
31462938 AGGTTCGCTACAAAGGC-TTTCTTTTCAG
1 AGGTTCGCCACAAAGGCTTTTC-TTTAAG
* * *
31462966 AGGTTTGCCACAAAGGTTTATTTTTTTATAG
1 AGGTTCGCCACAAAGG-CT-TTTCTTTA-AG
* * *
31462997 AGGTTTGCAACAAAGGCTATTCTTT
1 AGGTTCGCCACAAAGGCTTTTCTTT
31463022 TAGAAATGCC
Statistics
Matches: 278, Mismatches: 85, Indels: 47
0.68 0.21 0.11
Matches are distributed among these distances:
24 5 0.02
25 9 0.03
26 36 0.13
27 12 0.04
28 150 0.54
29 25 0.09
30 21 0.08
31 20 0.07
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (28 bp):
AGGTTCGCCACAAAGGCTTTTCTTTAAG
Found at i:31471603 original size:5 final size:6
Alignment explanation
Indices: 31471591--31471618 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31471581 TTAAACTAAA
31471591 TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTAT
31471619 ATATCAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:31472759 original size:19 final size:19
Alignment explanation
Indices: 31472718--31472760 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
31472708 TTTGAATTAA
31472718 TCAAAATTTGTTTGGATAAT
1 TCAAAATTTGTTTGGAT-AT
*
31472738 TCAAATTTTGATTTGGAT-T
1 TCAAAATTTG-TTTGGATAT
31472757 TCAA
1 TCAA
31472761 CTAATTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (19 bp):
TCAAAATTTGTTTGGATAT
Found at i:31475467 original size:62 final size:62
Alignment explanation
Indices: 31475372--31475498 Score: 227
Period size: 62 Copynumber: 2.0 Consensus size: 62
31475362 TCGTATAATA
* *
31475372 TATATTATATTATAAGGCCTTAGGTTCCAAGTGTCACATCTCAAAAATGGAGTTAGAAGAAT
1 TATATTATATTACAAGGCCTTAGGTTCCAAGTGTCACATCTCAAAAATGAAGTTAGAAGAAT
*
31475434 TATATTATATTACAAGGCCTTAGGTTTCAAGTGTCACATCTCAAAAATGAAGTTAGAAGAAT
1 TATATTATATTACAAGGCCTTAGGTTCCAAGTGTCACATCTCAAAAATGAAGTTAGAAGAAT
31475496 TAT
1 TAT
31475499 GTTTGTGGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (62 bp):
TATATTATATTACAAGGCCTTAGGTTCCAAGTGTCACATCTCAAAAATGAAGTTAGAAGAAT
Found at i:31475853 original size:13 final size:13
Alignment explanation
Indices: 31475837--31475861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31475827 ACCAAAAAGG
31475837 TTTTACTAAAATA
1 TTTTACTAAAATA
31475850 TTTTACTAAAAT
1 TTTTACTAAAAT
31475862 TATGACTCAG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTACTAAAATA
Found at i:31478444 original size:28 final size:29
Alignment explanation
Indices: 31478408--31478468 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
31478398 GACGTCTTTA
*
31478408 TGGCTATCTCTATTAAA-GGAAGCCTATG
1 TGGCGATCTCTATTAAATGGAAGCCTATG
*
31478436 TGGCGATCTCTATTAAATGGAAGCCTTTG
1 TGGCGATCTCTATTAAATGGAAGCCTATG
31478465 TGGC
1 TGGC
31478469 TAACTCAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (29 bp):
TGGCGATCTCTATTAAATGGAAGCCTATG
Found at i:31478467 original size:29 final size:28
Alignment explanation
Indices: 31478236--31478468 Score: 151
Period size: 26 Copynumber: 8.4 Consensus size: 28
31478226 CATATAAGTG
* * *
31478236 AGCCTTTGTGGCTATCT-T-TGAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAAGGA
* * *
31478262 CGCCTTTGTGGCTATCTCTA--AAAAGA
1 AGCCTTTGTGGCGATCTCTATTAAAGGA
*
31478288 AGCCTTTGTGGCAATCTCTACTATAAA-GA
1 AGCCTTTGTGGCGATCTCTA-T-TAAAGGA
* * * *
31478317 TGCCTTTGTAGCGACCTCTGTTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAA-GGA
* * * *
31478346 AGCCTTTTTGGATG-TTTCTGTTAAAGGA
1 AGCCTTTGTGG-CGATCTCTATTAAAGGA
* *
31478374 AGCCTTTGTGGCTATATCTA--AATA-GA
1 AGCCTTTGTGGCGATCTCTATTAA-AGGA
* * * *
31478400 CGTCTTTATGGCTATCTCTATTAAAGGA
1 AGCCTTTGTGGCGATCTCTATTAAAGGA
*
31478428 AGCCTATGTGGCGATCTCTATTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAA-GGA
31478457 AGCCTTTGTGGC
1 AGCCTTTGTGGC
31478469 TAACTCAGCT
Statistics
Matches: 161, Mismatches: 31, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
26 58 0.36
27 7 0.04
28 42 0.26
29 50 0.31
30 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (28 bp):
AGCCTTTGTGGCGATCTCTATTAAAGGA
Found at i:31482250 original size:24 final size:24
Alignment explanation
Indices: 31482212--31482351 Score: 81
Period size: 24 Copynumber: 5.8 Consensus size: 24
31482202 TCCCATTACA
**
31482212 TGGCTCTCACAAGCTTCCCGATAT
1 TGGCTCTCATGAGCTTCCCGATAT
* *
31482236 TGGCTCGCATGAGCTTTCCGAT-T
1 TGGCTCTCATGAGCTTCCCGATAT
* * *
31482259 ACGGCTCTTATGAGCTTCCCGATTAA
1 -TGGCTCTCATGAGCTTCCCGA-TAT
* * *
31482285 TAGTTCTC-TGGAGCTTCTCGATATT
1 TGGCTCTCAT-GAGCTTCCCGATA-T
* * *
31482310 TGGCTCTCTTGAGCTTCTCG-TTT
1 TGGCTCTCATGAGCTTCCCGATAT
31482333 ATGGCTCGT-ATGAGCTTCC
1 -TGGCTC-TCATGAGCTTCC
31482352 TATTATATGG
Statistics
Matches: 88, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.02
24 53 0.60
25 32 0.36
26 1 0.01
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.36
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGATAT
Found at i:31485824 original size:16 final size:15
Alignment explanation
Indices: 31485798--31485827 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
31485788 TGAATTTTTT
31485798 AAATAATATTATTTC
1 AAATAATATTATTTC
31485813 AAATATATATTATTT
1 AAATA-ATATTATTT
31485828 ATAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATAATATTATTTC
Found at i:31495368 original size:13 final size:13
Alignment explanation
Indices: 31495350--31495376 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31495340 GAAATATAAA
31495350 AATTGATATTTTT
1 AATTGATATTTTT
31495363 AATTGATATTTTT
1 AATTGATATTTTT
31495376 A
1 A
31495377 TAATTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
AATTGATATTTTT
Found at i:31501149 original size:35 final size:35
Alignment explanation
Indices: 31501103--31501304 Score: 138
Period size: 35 Copynumber: 5.5 Consensus size: 35
31501093 ATATCTGTCG
*
31501103 GTTTATCTGACTAGTGCTGGGCGCAACCTTCGTCA
1 GTTTATCTGACTAGTGCTGGGCACAACCTTCGTCA
**
31501138 GTTTATCTGACTAGTGCAT-GGCACACTATTATATCTGTCA
1 GTTTATCTGACTAGTGC-TGGGCACA--A-CCT-TC-GTCA
** * *
31501178 GTTTATCCAACTAGCGCTGGGTACAACCTTCGTCA
1 GTTTATCTGACTAGTGCTGGGCACAACCTTCGTCA
* * * * *
31501213 GTTTATTTGACTAGTGCAGGGCAC-ACTGTTTTATATGTCG
1 GTTTATCTGACTAGTGCTGGGCACAAC----CT-T-CGTCA
* * * *
31501253 GTTTATCCGACTAGCGTTGGGCACAACCTTCGTTA
1 GTTTATCTGACTAGTGCTGGGCACAACCTTCGTCA
31501288 GTTTATCTGACTAGTGC
1 GTTTATCTGACTAGTGC
31501305 AAGGCACACT
Statistics
Matches: 123, Mismatches: 30, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
34 2 0.02
35 60 0.49
36 4 0.03
37 3 0.02
38 3 0.02
39 4 0.03
40 45 0.37
41 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (35 bp):
GTTTATCTGACTAGTGCTGGGCACAACCTTCGTCA
Found at i:31501182 original size:75 final size:75
Alignment explanation
Indices: 31501092--31501363 Score: 364
Period size: 75 Copynumber: 3.6 Consensus size: 75
31501082 TGTAATTATG
* * * *
31501092 TATATCTGTCGGTTTATCTGACTAGTGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGCAT
1 TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAGTTTATCTGACTAGTGCAA
31501157 GGCACACTAT
66 GGCACACTAT
* * * * *
31501167 TATATCTGTCAGTTTATCCAACTAGCGCTGGGTACAACCTTCGTCAGTTTATTTGACTAGTGCAG
1 TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAGTTTATCTGACTAGTGCAA
*
31501232 GGCACACTGT
66 GGCACACTAT
* * * *
31501242 TTTATATGTCGGTTTATCCGACTAGCGTTGGGCACAACCTTCGTTAGTTTATCTGACTAGTGCAA
1 TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAGTTTATCTGACTAGTGCAA
31501307 GGCACACTAT
66 GGCACACTAT
* * * * **
31501317 TATATCTGCCGATTTATCCGGCTAGCACTGGGTGCAACCTTCGTCAG
1 TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAG
31501364 ACACATCATT
Statistics
Matches: 168, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 168 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (75 bp):
TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAGTTTATCTGACTAGTGCAA
GGCACACTAT
Found at i:31503705 original size:25 final size:25
Alignment explanation
Indices: 31503664--31503723 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
31503654 TCAAAGTTTA
* *
31503664 TATTTTTTTTGTCAATTTGA-CATT
1 TATTTTTTTAGTAAATTTGACCATT
*
31503688 TATTTTTTTAGTTAAATTTGACCCTT
1 TATTTTTTTAG-TAAATTTGACCATT
*
31503714 AATTTTTTTA
1 TATTTTTTTA
31503724 AATAAAGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.33
25 8 0.27
26 12 0.40
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTTTTAGTAAATTTGACCATT
Found at i:31504080 original size:2 final size:2
Alignment explanation
Indices: 31504069--31504105 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
31504059 AAAATAAATA
31504069 AT AT AT -T AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31504106 AATAATTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31505515 original size:48 final size:48
Alignment explanation
Indices: 31505433--31505526 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
31505423 TTTCTTGGCT
* *
31505433 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
31505481 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
31505527 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:31508030 original size:48 final size:48
Alignment explanation
Indices: 31507948--31508041 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
31507938 TTTCTTGGCT
* * *
31507948 TAAAAATGCCTAAGTCAGCCTAATTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAATTTCCAACAATAAAGGATTCAACCG
*
31507996 TAAAAACGCCTAAGTTAG-CTCAA-TTCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AATTTC-CAACAATAAAGGATTCAAC
31508042 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.12
48 35 0.88
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAATTTCCAACAATAAAGGATTCAACCG
Found at i:31510728 original size:6 final size:7
Alignment explanation
Indices: 31510711--31510735 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31510701 ATTTACATTC
31510711 TTTTTTA
1 TTTTTTA
31510718 TTTTTTA
1 TTTTTTA
31510725 TTTTTTA
1 TTTTTTA
31510732 TTTT
1 TTTT
31510736 GCTTAAGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:31510832 original size:16 final size:16
Alignment explanation
Indices: 31510791--31510832 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
31510781 TCAGATTTGA
31510791 TTTTTTAAAATTATTTT
1 TTTTTTAAAA-TATTTT
*
31510808 TTATTTAAAA-ATTTAT
1 TTTTTTAAAATATTT-T
31510824 TTTTTTAAA
1 TTTTTTAAA
31510833 TAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
17 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTTAAAATATTTT
Found at i:31513540 original size:24 final size:24
Alignment explanation
Indices: 31513513--31513558 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31513503 TTATTAACAT
*
31513513 TGTTTGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
*
31513537 TGTTCGTGAACATGTTCGATTA
1 TGTTCGTGAACATGTTCAATTA
31513559 AGTTAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:31517744 original size:10 final size:10
Alignment explanation
Indices: 31517729--31517796 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
31517719 ATAATTTTTT
31517729 TAAAAAATTA
1 TAAAAAATTA
* *
31517739 TAAAAATTTG
1 TAAAAAATTA
*
31517749 TAAACAATTA
1 TAAAAAATTA
**
31517759 TTCAAAATTA
1 TAAAAAATTA
31517769 TAAAAATATTA
1 TAAAAA-ATTA
31517780 -AATAAAATT-
1 TAA-AAAATTA
31517789 TAAAAAAT
1 TAAAAAAT
31517797 AAAATATTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
9 5 0.11
10 33 0.73
11 7 0.16
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:31517786 original size:21 final size:19
Alignment explanation
Indices: 31517762--31517802 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
31517752 ACAATTATTC
*
31517762 AAAATTATAAAAATATTAAAT
1 AAAATT-TAAAAA-ATAAAAT
31517783 AAAATTTAAAAAATAAAAT
1 AAAATTTAAAAAATAAAAT
31517802 A
1 A
31517803 TTAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 6 0.32
21 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTTAAAAAATAAAAT
Found at i:31517796 original size:30 final size:29
Alignment explanation
Indices: 31517727--31517796 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 29
31517717 AAATAATTTT
* *
31517727 TTTAAAAAATTATAAAAATTTGTAAACAA
1 TTTAAAAAATTATAAAAATTTGAAAAAAA
**
31517756 TTATTCAAAATTATAAAAATATT-AAATAAAA
1 TT-TAAAAAATTATAAAAAT-TTGAAA-AAAA
31517787 TTTAAAAAAT
1 TTTAAAAAAT
31517797 AAAATATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
29 2 0.06
30 23 0.72
31 7 0.22
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (29 bp):
TTTAAAAAATTATAAAAATTTGAAAAAAA
Found at i:31517798 original size:14 final size:15
Alignment explanation
Indices: 31517779--31517808 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
31517769 TAAAAATATT
31517779 AAATAAAAT-TTAAA
1 AAATAAAATATTAAA
31517793 AAATAAAATATTAAA
1 AAATAAAATATTAAA
31517808 A
1 A
31517809 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAATATTAAA
Found at i:31521193 original size:20 final size:19
Alignment explanation
Indices: 31521121--31521195 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
31521111 GAACACAATA
* *
31521121 AAAAAAGGAGAAATCAAAGG
1 AAAAAAGAAGAAA-AAAAGG
31521141 AGTAAAAAGAAGAAAAAAAGG
1 A--AAAAAGAAGAAAAAAAGG
*
31521162 AAAAATAAAAGAAAAAAATGG
1 AAAAA-AGAAGAAAAAAA-GG
*
31521183 AAAGAAGAAGAAA
1 AAAAAAGAAGAAA
31521196 GAGTACAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.09
20 19 0.41
21 12 0.26
22 11 0.24
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAAAAGAAGAAAAAAAGG
Found at i:31528425 original size:24 final size:24
Alignment explanation
Indices: 31528380--31528426 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31528370 TATATATACC
31528380 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
31528404 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
31528427 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:31529197 original size:23 final size:24
Alignment explanation
Indices: 31529166--31529235 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 24
31529156 TTTGTTTTAT
31529166 TATTATATAATATAATATATATAA
1 TATTATATAATATAATATATATAA
* *
31529190 TA-TATATACT-TAAACATATATAA
1 TATTATATAATAT-AATATATATAA
*
31529213 TATTATAATATTATAATATATAT
1 TATTAT-ATAATATAATATATAT
31529236 TTTAACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 1 0.03
23 19 0.50
24 5 0.13
25 12 0.32
26 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTATATAATATAATATATATAA
Found at i:31529208 original size:25 final size:22
Alignment explanation
Indices: 31529179--31529235 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
31529169 TATATAATAT
31529179 AATATATATAATATATATACTTAA
1 AATATATATAATATA-ATA-TTAA
* *
31529203 ACATATATAATATTATAATATTAT
1 A-ATATAT-ATAATATAATATTAA
31529227 AATATATAT
1 AATATATAT
31529236 TTTAACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 2 0.07
23 6 0.21
24 5 0.17
25 9 0.31
26 7 0.24
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATATATAATATAATATTAA
Found at i:31530517 original size:16 final size:17
Alignment explanation
Indices: 31530493--31530525 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
31530483 ATGGAAAGAA
31530493 AATTATTTTT-TCTTTT
1 AATTATTTTTATCTTTT
*
31530509 AATTTTTTTTATCTTTT
1 AATTATTTTTATCTTTT
31530526 CTACCAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
AATTATTTTTATCTTTT
Found at i:31530586 original size:15 final size:17
Alignment explanation
Indices: 31530558--31530594 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
31530548 GAAAATTTAT
31530558 ATTTTTCATCCTTT-CA
1 ATTTTTCATCCTTTCCA
*
31530574 ATTTTTC-TTCTTTCCA
1 ATTTTTCATCCTTTCCA
31530590 ATTTT
1 ATTTT
31530595 CTTTTTACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTCATCCTTTCCA
Found at i:31537767 original size:21 final size:22
Alignment explanation
Indices: 31537712--31537768 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
31537702 TGCGGGGTCA
*
31537712 ACACG-CCCGTGTAGGAGGAGGC
1 ACACGACCAGTGT-GGAGGAGGC
* *
31537734 ACACGGCCA-TGTGGATGAGGC
1 ACACGACCAGTGTGGAGGAGGC
31537755 ACA-GACCAGTGTGG
1 ACACGACCAGTGTGG
31537769 GCCAGGGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 16 0.53
22 8 0.27
23 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.39, T:0.12
Consensus pattern (22 bp):
ACACGACCAGTGTGGAGGAGGC
Found at i:31539780 original size:106 final size:106
Alignment explanation
Indices: 31539595--31539808 Score: 356
Period size: 106 Copynumber: 2.0 Consensus size: 106
31539585 TGAATTAAAA
* * * *
31539595 TTTAAGAGGATATTTGGCTATTTGTTCGAACGAGAAATCGAAACCTAGCACGTTAGGACACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGACACGTTT
* *
31539660 TCTCGATTTTCCAAACTCAAAATATTGCCTTACTTTGAAAT
66 CCTCGATTTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
*
31539701 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGACACGTTT
*
31539766 CCTCGATTTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
66 CCTCGATTTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
31539807 TT
1 TT
31539809 GTTACGAATT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGACACGTTT
CCTCGATTTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
Found at i:31540498 original size:23 final size:24
Alignment explanation
Indices: 31540451--31540499 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
31540441 GTGTTCTTGA
* *
31540451 TTTTGATCTTTTCTATTTACTTTT
1 TTTTCATCTTTTCTATTTACATTT
*
31540475 TTTTCATCTTTT-TATTTCCATTT
1 TTTTCATCTTTTCTATTTACATTT
31540498 TT
1 TT
31540500 GTATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTCATCTTTTCTATTTACATTT
Found at i:31541371 original size:14 final size:13
Alignment explanation
Indices: 31541352--31541399 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
31541342 GTTACTACTA
*
31541352 TTATATCATTAGTT
1 TTATATTATTA-TT
31541366 TTATATTATTATT
1 TTATATTATTATT
*
31541379 GTTATATTTTTATT
1 -TTATATTATTATT
31541393 TTATATT
1 TTATATT
31541400 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:31541481 original size:20 final size:20
Alignment explanation
Indices: 31541456--31541512 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
31541446 TAACTATTTA
*
31541456 TATATATCTTTATATCTTAT
1 TATATATCTATATATCTTAT
* *
31541476 TATATATCTATATGTCTTGT
1 TATATATCTATATATCTTAT
* *
31541496 TATATATATATGTATCT
1 TATATATCTATATATCT
31541513 CTTTATAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:31545155 original size:8 final size:8
Alignment explanation
Indices: 31545142--31545216 Score: 82
Period size: 8 Copynumber: 9.2 Consensus size: 8
31545132 AGACTCAAAA
31545142 AAAAAATC
1 AAAAAATC
31545150 AAAAAATC
1 AAAAAATC
31545158 AAAAAATC
1 AAAAAATC
31545166 AAAAAAAAATC
1 ---AAAAAATC
*
31545177 AAAAAATA
1 AAAAAATC
31545185 AAAAAAT-
1 AAAAAATC
*
31545192 AAAAAAAC
1 AAAAAATC
*
31545200 -AAAAATA
1 AAAAAATC
31545207 AAAAAATC
1 AAAAAATC
31545215 AA
1 AA
31545217 GGTCAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
7 11 0.19
8 38 0.67
11 8 0.14
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:31545163 original size:19 final size:18
Alignment explanation
Indices: 31545136--31545190 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
31545126 GAGTTCAGAC
*
31545136 TCAAAAAAAAAATCAAAAAA
1 TCAAAAAATAAA--AAAAAA
31545156 TCAAAAAATCAAAAAAAAA
1 TCAAAAAAT-AAAAAAAAA
31545175 TCAAAAAATAAAAAAA
1 TCAAAAAATAAAAAAA
31545191 TAAAAAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 7 0.21
19 15 0.45
20 8 0.24
21 3 0.09
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (18 bp):
TCAAAAAATAAAAAAAAA
Found at i:31545176 original size:27 final size:26
Alignment explanation
Indices: 31545139--31545213 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 26
31545129 TTCAGACTCA
*
31545139 AAAAAAAAATCAAAAAATCAAAAAAT
1 AAAAAAAAATCAAAAAATAAAAAAAT
31545165 CAAAAAAAAATCAAAAAATAAAAAAAT
1 -AAAAAAAAATCAAAAAATAAAAAAAT
31545192 --AAAAAAA-C-AAAAATAAAAAAAT
1 AAAAAAAAATCAAAAAATAAAAAAAT
31545214 CAAGGTCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
22 14 0.30
23 1 0.02
24 7 0.15
27 25 0.53
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.11
Consensus pattern (26 bp):
AAAAAAAAATCAAAAAATAAAAAAAT
Found at i:31545189 original size:35 final size:35
Alignment explanation
Indices: 31545142--31545209 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
31545132 AGACTCAAAA
* *
31545142 AAAAAATCAAAAAATCAAAAAATCAAAAA-AAAATC
1 AAAAAATAAAAAAAT-AAAAAAACAAAAATAAAATC
31545177 AAAAAATAAAAAAATAAAAAAACAAAAATAAAA
1 AAAAAATAAAAAAATAAAAAAACAAAAATAAAA
31545210 AAATCAAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (35 bp):
AAAAAATAAAAAAATAAAAAAACAAAAATAAAATC
Found at i:31545209 original size:19 final size:18
Alignment explanation
Indices: 31545150--31545209 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
31545140 AAAAAAAATC
*
31545150 AAAAAATCAAAAAATCAAA
1 AAAAAAT-AAAAAAACAAA
* *
31545169 AAAAAAT-CAAAAA-ATA
1 AAAAAATAAAAAAACAAA
31545185 AAAAAATAAAAAAACAAA
1 AAAAAATAAAAAAACAAA
31545203 AATAAAA
1 AA-AAAA
31545210 AAATCAAGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 9 0.27
17 9 0.27
18 4 0.12
19 11 0.33
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAATAAAAAAACAAA
Found at i:31545260 original size:15 final size:16
Alignment explanation
Indices: 31545232--31545264 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
31545222 AAAATAGGAG
31545232 AAAAAGAAAGAAGAAA
1 AAAAAGAAAGAAGAAA
31545248 AAAAAGAAA-AAGAAA
1 AAAAAGAAAGAAGAAA
31545263 AA
1 AA
31545265 GGAGAGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAGAAA
Found at i:31546098 original size:8 final size:8
Alignment explanation
Indices: 31546046--31546126 Score: 80
Period size: 8 Copynumber: 10.2 Consensus size: 8
31546036 CTTTGAGTAA
31546046 AAAAAATG
1 AAAAAATG
*
31546054 ATGAAAATG
1 A-AAAAATG
*
31546063 AAAAAA-A
1 AAAAAATG
31546070 AAAGAAGATG
1 AAA-AA-ATG
31546080 -AAAAATG
1 AAAAAATG
31546087 -AAAAATG
1 AAAAAATG
31546094 AAAAAATG
1 AAAAAATG
31546102 AAAAAATG
1 AAAAAATG
*
31546110 AAAAAGT-
1 AAAAAATG
31546117 AAAAAATG
1 AAAAAATG
31546125 AA
1 AA
31546127 GAGGCTAAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
7 19 0.31
8 32 0.52
9 10 0.16
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:31546098 original size:15 final size:15
Alignment explanation
Indices: 31546047--31546126 Score: 74
Period size: 15 Copynumber: 5.1 Consensus size: 15
31546037 TTTGAGTAAA
*
31546047 AAAAATGATGAAAATG
1 AAAAATGA-AAAAATG
**
31546063 AAAAAAAAAAGAAGATG
1 AAAAATGAAA-AA-ATG
31546080 AAAAATG-AAAAATG
1 AAAAATGAAAAAATG
31546094 AAAAAATGAAAAAATG
1 -AAAAATGAAAAAATG
31546110 AAAAA-GTAAAAAATG
1 AAAAATG-AAAAAATG
31546125 AA
1 AA
31546127 GAGGCTAAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
14 4 0.07
15 25 0.46
16 17 0.31
17 8 0.15
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (15 bp):
AAAAATGAAAAAATG
Found at i:31546120 original size:23 final size:22
Alignment explanation
Indices: 31546046--31546126 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
31546036 CTTTGAGTAA
*
31546046 AAAAAATGATGAAAATGAAAAA-
1 AAAAAATGA-AAAAATGAAAAAT
*
31546068 AAAAAGAAGATGAAAAATGAAAAAT
1 AAAAA-ATGA--AAAAATGAAAAAT
31546093 GAAAAAATGAAAAAATGAAAAAGT
1 -AAAAAATGAAAAAATGAAAAA-T
31546117 AAAAAATGAA
1 AAAAAATGAA
31546127 GAGGCTAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
22 5 0.10
23 25 0.50
24 12 0.24
25 3 0.06
26 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (22 bp):
AAAAAATGAAAAAATGAAAAAT
Found at i:31548237 original size:88 final size:88
Alignment explanation
Indices: 31547381--31548195 Score: 1075
Period size: 88 Copynumber: 9.4 Consensus size: 88
31547371 TTGGTTACAG
* ** * * *
31547381 TGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-ACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
* * * **
31547443 AGCATTGCCT-TCATTGGTT-ACA
66 AACCTTGCCTCTC-TCGGTTGTGA
* ** * * * *
31547465 GTGGAGCTGGTTAAAGA-AGCAGATCTTGCTTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-AC
1 -TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
* * * *
31547527 AAGCCTGGCCT-TCATTGGTTG-CA
65 AAACCTTGCCTCTC-TCGGTTGTGA
* * ** * * * * * *
31547550 GTGGAGATGGTTAAAGA-AGCAGATCTTGCCTTTCTGCATTAACAGTGAAGCAGATTGAAAACAC
1 -TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
31547614 AAACCTTGCCTCTCTCGGTTGTGA
65 AAACCTTGCCTCTCTCGGTTGTGA
* *
31547638 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAAGTTGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
*
31547703 AACCTTACCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* *
31547726 TGGAACTGGTTGAAGAC--AA-ATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
31547788 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
*
31547811 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
31547876 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
31547899 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
31547964 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * * *
31547987 TGGAGTTGGTTGAAGACAAAAGATCTTGACTTCCTGCATTGACAGCGAAGTAGGTCAAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
* *
31548052 AACCTTGCCTCTCTCGTTTTTGA
66 AACCTTGCCTCTCTCGGTTGTGA
*
31548075 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
31548140 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
31548163 TGGAGCTGGTTGAAGACAACAA-ATCTTGCCTTC
1 TGGAGCTGGTTGAAGACAA-AAGATCTTGCCTTC
31548196 TTGTACTGAT
Statistics
Matches: 676, Mismatches: 44, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
85 211 0.31
86 3 0.00
87 33 0.05
88 427 0.63
89 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (88 bp):
TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
AACCTTGCCTCTCTCGGTTGTGA
Found at i:31548399 original size:50 final size:50
Alignment explanation
Indices: 31548334--31548894 Score: 591
Period size: 50 Copynumber: 11.2 Consensus size: 50
31548324 GCAATTTAAA
* * ** * *
31548334 AGATTGAAGCCACAACGGCAAATCTTACTTTTCTAGTATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * * *
31548384 AGATTGAAGCTACAACAGCAGATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAA-C
*
31548434 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * ** *
31548484 AGATTGAAGCTACAACAGCGGATCTTAC-TTCCTTGACATTGTAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
* * *
31548534 AGATTGAAGCTACAACATCGGATCTTACTTTCCTAGCGTTGCAGTGGATC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * * *
31548584 AGATTGAAGCTACAACATCGGATCTTAC-TTCCTTGACATTGCAAT-TAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
*
31548633 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * ** *
31548683 AGATTGAAGCTACAACAGCGGATCTCACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
* *
31548733 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAGC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * ** *
31548783 AGATTGAAGCTACAACAGTGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
* * *
31548833 AGATTGAAGCTACAACAGCGGATTTTAC-TTCCCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GC-ATTGCAGTGGAAC
31548883 AGATTGAAGCTA
1 AGATTGAAGCTA
31548895 TGACGGTGAA
Statistics
Matches: 421, Mismatches: 75, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
49 55 0.13
50 354 0.84
51 12 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
Found at i:31548476 original size:100 final size:100
Alignment explanation
Indices: 31548321--31549042 Score: 932
Period size: 100 Copynumber: 7.2 Consensus size: 100
31548311 GAAACCATAG
* * * ** * **
31548321 ATTGCAATTTAAAAGATTGAAGCCACAACGGCAAATCTTACTTTTCTAGTATTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
31548386 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
*
31548421 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
31548486 ATTGAAGCTACAACAGCGGATCTTACTTCCTTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * *
31548521 ATTGTAATTAAAAAGATTGAAGCTACAACATCGGATCTTACTTTCCTAGCGTTGCAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
* *
31548586 ATTGAAGCTACAACATCGGATCTTACTTCCTTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
31548621 ATTGCAATT-AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
31548685 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
*
31548720 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
31548785 ATTGAAGCTACAACAGTGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * *
31548820 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATTTTAC-TTCCCAGGCGATGCAGCGGAACA
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACA
** * * * ** *
31548884 GATTGAAGCTATGACGGTGAATCTCGCTTCCCCGAC
65 GATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * * * * * * ** *
31548920 ATCGCAACTCAAAAGATTCAAGCCACAA-TGTCGAATCTTAC-TTCCCAGGCAATGCAGCGGAAC
1 ATTGCAATTAAAAAGATTGAAGCTACAACAG-CGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
* * * * *
31548983 AGATTGAAGCTACGACAGTGAATCTCA-TTTCCTCGAC
64 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GAC
* *
31549020 ATTGCAAGTAAATAGATTGAAGC
1 ATTGCAATTAAAAAGATTGAAGC
31549043 CACGACTGTG
Statistics
Matches: 562, Mismatches: 56, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
99 104 0.19
100 458 0.81
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
Found at i:31548888 original size:299 final size:300
Alignment explanation
Indices: 31548321--31549042 Score: 979
Period size: 299 Copynumber: 2.4 Consensus size: 300
31548311 GAAACCATAG
* * * * *
31548321 ATTGCAATTTAAAAGATTGAAGCCACAACGGCAAATCTTACTTTTCTAGTATTGCAGTGGAACAG
1 ATTGCAACTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAG
* * *
31548386 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACA
66 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
31548451 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
131 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
* * * * * *
31548516 TTGACATTGTAATTAAAAAGATTGAAGCTACAACATCGGATCTTACTTTCCTAGCGTTGCAGTGG
196 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCCAGCGATGCAGCGG
* * * **
31548581 ATCAGATTGAAGCTACAAC-ATCGGATCTTACTTCCTTGAC
261 AACAGATTGAAGCTACAACGAT-GAATCTCACTTCCCCGAC
* * *
31548621 ATTGCAA-TTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAACTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAG
31548685 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
66 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
* *
31548750 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAGCAGATTGAAGCTACAACAGTGGATCTTACTTCC
131 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
*
31548815 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATTTTAC-TTCCCAGGCGATGCAGCG
196 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCCA-GCGATGCAGCG
** * *
31548879 GAACAGATTGAAGCTATGACGGTGAATCTCGCTTCCCCGAC
260 GAACAGATTGAAGCTACAACGATGAATCTCACTTCCCCGAC
* * * * * * *
31548920 ATCGCAACTCAAAAGATTCAAGCCACAA-TGTCGAATCTTAC-TTCCCAGGCAATGCAGCGGAAC
1 ATTGCAACTTAAAAGATTGAAGCCACAACAG-CGAATCTTACTTTCCTA-GCATTGCAGTGGAAC
* * * * * *
31548983 AGATTGAAGCTACGACAGTGAATCTCA-TTTCCTCGACATTGCAAGTAAATAGATTGAAGC
64 AGATTGAAGCTACAACAGCGGATCTCACTTCCCT-GACATTGCAATTAAAAAGATTGAAGC
31549043 CACGACTGTG
Statistics
Matches: 372, Mismatches: 44, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
298 5 0.01
299 273 0.73
300 94 0.25
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (300 bp):
ATTGCAACTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAG
ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCCAGCGATGCAGCGG
AACAGATTGAAGCTACAACGATGAATCTCACTTCCCCGAC
Found at i:31549041 original size:50 final size:50
Alignment explanation
Indices: 31548381--31549065 Score: 451
Period size: 50 Copynumber: 13.7 Consensus size: 50
31548371 ATTGCAGTGG
** *
31548381 AACAGATTGAAGCTACAACAGCAGATCTTACTTCC-CTGACATTGCAATTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTC-GACATTGCAAGTA
* * * *
31548431 AGA-AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTGG
1 A-ACAGATTGAAGCTACAACAGTGGATCTTAC-TTCCTCGACATTGCAAGT-A
* * * *
31548481 AACAGATTGAAGCTACAACAGCGGATCTTACTTCCTTGACATTGTAATTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTCGACATTGCAAGTA
* * * *
31548531 AAAAGATTGAAGCTACAACA-TCGGATCTTACTTTCCTAG-CGTTGC-AGTGG
1 AACAGATTGAAGCTACAACAGT-GGATCTTAC-TTCCTCGACATTGCAAGT-A
* * *
31548581 ATCAGATTGAAGCTACAACA-TCGGATCTTACTTCCTTGACATTGCAATTA
1 AACAGATTGAAGCTACAACAGT-GGATCTTACTTCCTCGACATTGCAAGTA
* * * *
31548631 AA-AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTGG
1 AACAGATTGAAGCTACAACAGTGGATCTTAC-TTCCTCGACATTGCAAGT-A
* * *
31548680 AACAGATTGAAGCTACAACAGCGGATCTCACTTCC-CTGACATTGCAATTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTC-GACATTGCAAGTA
* * * * *
31548730 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTGG
1 AACAGATTGAAGCTACAACAGTGGATCTTAC-TTCCTCGACATTGCAAGT-A
* *
31548780 AGCAGATTGAAGCTACAACAGTGGATCTTACTTCC-CTGACATTGCAATTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTC-GACATTGCAAGTA
* * * * **
31548830 AAAAGATTGAAGCTACAACAGCGGATTTTACTTCC-CAGGCGA-TGC-AGCGG
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTC-GAC-ATTGCAAG-TA
** * * ** * * *
31548880 AACAGATTGAAGCTATGACGGTGAATCTCGCTTCCCCGACATCGCAACTCA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTCGACATTGCAAGT-A
* * * * * * **
31548931 AA-AGATTCAAGCCACAA-TGTCGAATCTTACTTCC-CAGGCAATGC-AGCGG
1 AACAGATTGAAGCTACAACAGT-GGATCTTACTTCCTC-GACATTGCAAG-TA
* * * *
31548980 AACAGATTGAAGCTACGACAGTGAATCTCATTTCCTCGACATTGCAAGTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTCGACATTGCAAGTA
* * * * *
31549030 AATAGATTGAAGCCACGACTGTGAATCTTACTTCCT
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCT
31549066 GAAATTGTAG
Statistics
Matches: 499, Mismatches: 98, Indels: 76
0.74 0.15 0.11
Matches are distributed among these distances:
48 2 0.00
49 70 0.14
50 392 0.79
51 35 0.07
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (50 bp):
AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTCGACATTGCAAGTA
Found at i:31550440 original size:14 final size:13
Alignment explanation
Indices: 31550421--31550468 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
31550411 GTTACTACTA
*
31550421 TTATATCATTAGTT
1 TTATATTATTA-TT
31550435 TTATATTATTATT
1 TTATATTATTATT
*
31550448 GTTATATTTTTATT
1 -TTATATTATTATT
31550462 TTATATT
1 TTATATT
31550469 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:31550550 original size:20 final size:20
Alignment explanation
Indices: 31550525--31550581 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
31550515 TAACTATTTA
*
31550525 TATATATCTTTATATCTTAT
1 TATATATCTATATATCTTAT
* *
31550545 TATATATCTATATGTCTTGT
1 TATATATCTATATATCTTAT
* *
31550565 TATATATATATGTATCT
1 TATATATCTATATATCT
31550582 CTTTATAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:31551580 original size:19 final size:19
Alignment explanation
Indices: 31551556--31551599 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
31551546 CAATTTAAAG
31551556 TAATAAATAAAAAAGATAA
1 TAATAAATAAAAAAGATAA
* *
31551575 TAATAAATGAATAAGATAA
1 TAATAAATAAAAAAGATAA
31551594 -AATAAA
1 TAATAAA
31551600 AGCTAATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
TAATAAATAAAAAAGATAA
Found at i:31551675 original size:14 final size:14
Alignment explanation
Indices: 31551656--31551682 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31551646 AGATAAATAA
31551656 AATATTAAATAAAC
1 AATATTAAATAAAC
31551670 AATATTAAATAAA
1 AATATTAAATAAA
31551683 ACTTTCCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATTAAATAAAC
Found at i:31561542 original size:10 final size:11
Alignment explanation
Indices: 31561510--31561539 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
31561500 ATTTATATGT
31561510 GTTTTATTTTC
1 GTTTTATTTTC
31561521 -TTTTATTTTC
1 GTTTTATTTTC
31561531 GTTTTATTT
1 GTTTTATTT
31561540 CGTATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (11 bp):
GTTTTATTTTC
Found at i:31565792 original size:20 final size:20
Alignment explanation
Indices: 31565767--31565806 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
31565757 TTCACCTCAT
31565767 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
31565787 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
31565807 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:31574588 original size:50 final size:50
Alignment explanation
Indices: 31574531--31574788 Score: 243
Period size: 50 Copynumber: 5.2 Consensus size: 50
31574521 GCAGTGGAAC
* *
31574531 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTAAAA
* * * *** * ** *
31574581 AGATTGAAGCCACAACGGCGGGTCTTACTTCCCT-AGCAGTGCAGTGGAAC
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGTTAAAA
* *
31574631 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTAAAA
* * * *** ** * *
31574681 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGC-GGTAGAAC
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTA-AAA
*
31574731 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAGTTAAACA
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTAAA-A
31574782 A-ATTGAA
1 AGATTGAA
31574789 AATTTCAGAT
Statistics
Matches: 156, Mismatches: 47, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
49 3 0.02
50 148 0.95
51 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTAAAA
Found at i:31574676 original size:100 final size:100
Alignment explanation
Indices: 31574501--31574788 Score: 463
Period size: 100 Copynumber: 2.9 Consensus size: 100
31574491 CCCTAGCNCG
*
31574501 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
1 GATCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
*
31574566 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCA
*
31574601 GGTCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
1 GATCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
31574666 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCA
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCA
* * * *
31574701 GATCTTACTTCCCT-GACGGTGCGGTAGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCC
1 GATCTTACTTCCCTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCT
* *
31574765 GACATTGCAGTTAAACAA-ATTGAA
65 GATATTGCAATTAAA-AAGATTGAA
31574789 AATTTCAGAT
Statistics
Matches: 176, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
99 1 0.01
100 173 0.98
101 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (100 bp):
GATCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
ATATTGCAATTAAAAAGATTGAAGCCACAACGGCA
Found at i:31575695 original size:10 final size:11
Alignment explanation
Indices: 31575680--31575708 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
31575670 TTTATATGTG
31575680 TTTTATTTTC-
1 TTTTATTTTCA
31575690 TTTTATTTTCA
1 TTTTATTTTCA
31575701 TTTTATTT
1 TTTTATTT
31575709 CGTATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:31581352 original size:102 final size:102
Alignment explanation
Indices: 31581169--31581371 Score: 320
Period size: 102 Copynumber: 2.0 Consensus size: 102
31581159 TGCTTGATAC
*
31581169 GGTAACGAGTCAAAGTCTAAGTGTAGGTCCCAGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAAT
1 GGTAACGAGTCAAAGTCTAAGTGGAGGTCCCAGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAAT
* * *
31581234 ATAATCGGGGGACAATTGACAGTTGTTATGTGATCAA
66 ATAATCAGGGGACAATTGACAGTCGTTATGCGATCAA
31581271 GGTAACGAGTCAAAGTCTAAGTGGAGG-CCCTAGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAA
1 GGTAACGAGTCAAAGTCTAAGTGGAGGTCCC-AGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAA
* *
31581335 TATAA-CAAGGGGTCAATTGACGGTCGTTATGCGATCA
65 TATAATC-AGGGGACAATTGACAGTCGTTATGCGATCA
31581372 CGAGTTCAAG
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
101 4 0.04
102 89 0.96
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (102 bp):
GGTAACGAGTCAAAGTCTAAGTGGAGGTCCCAGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAAT
ATAATCAGGGGACAATTGACAGTCGTTATGCGATCAA
Found at i:31582581 original size:13 final size:13
Alignment explanation
Indices: 31582563--31582590 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31582553 ATTTAAAATT
31582563 TAATTATATTAAA
1 TAATTATATTAAA
31582576 TAATTATATTAAA
1 TAATTATATTAAA
31582589 TA
1 TA
31582591 TTCTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTATATTAAA
Found at i:31585500 original size:12 final size:12
Alignment explanation
Indices: 31585483--31585507 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31585473 ACGGGTGTGT
31585483 GCCAAGCCGTGC
1 GCCAAGCCGTGC
31585495 GCCAAGCCGTGC
1 GCCAAGCCGTGC
31585507 G
1 G
31585508 GGTCACACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.40, G:0.36, T:0.08
Consensus pattern (12 bp):
GCCAAGCCGTGC
Found at i:31587224 original size:18 final size:18
Alignment explanation
Indices: 31587191--31587225 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31587181 AAAAGAAAAT
**
31587191 AATATTATATCTAATATA
1 AATATTATATAAAATATA
31587209 AATATTATATAAAATAT
1 AATATTATATAAAATAT
31587226 TTTAAATGAA
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:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATTATATAAAATATA
Found at i:31594554 original size:19 final size:19
Alignment explanation
Indices: 31594529--31594574 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
31594519 TTTTTTTTTC
31594529 AAATTTTTT-A-TTTTTAT
1 AAATTTTTTCATTTTTTAT
31594546 AAATTTTTTCATTTTTTAT
1 AAATTTTTTCATTTTTTAT
31594565 AAATTATTTT
1 AAATT-TTTT
31594575 AACTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.35
18 1 0.04
19 12 0.46
20 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
AAATTTTTTCATTTTTTAT
Found at i:31594581 original size:19 final size:19
Alignment explanation
Indices: 31594540--31594596 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
31594530 AATTTTTTAT
**
31594540 TTTTATAAATT-TTTTCATT
1 TTTTATAAATTATTTT-AAC
31594559 TTTTATAAATTATTTTAAC
1 TTTTATAAATTATTTTAAC
*
31594578 TTTTAAAAAATTATATTTA
1 TTTT-ATAAATTAT-TTTA
31594597 CATGTTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.50
20 12 0.38
21 4 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTATAAATTATTTTAAC
Found at i:31594581 original size:20 final size:20
Alignment explanation
Indices: 31594539--31594596 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
31594529 AAATTTTTTA
* *
31594539 TTTTTATAAATT-TTTTCAT
1 TTTTTATAAATTATTTTAAC
31594558 TTTTTATAAATTATTTTAAC
1 TTTTTATAAATTATTTTAAC
* *
31594578 TTTTAAAAAATTATATTTA
1 TTTTTATAAATTAT-TTTA
31594597 CATGTTTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.36
20 17 0.52
21 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTATAAATTATTTTAAC
Found at i:31595277 original size:31 final size:29
Alignment explanation
Indices: 31595202--31595280 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
31595192 TGTTTTCCCC
*
31595202 ATGTTACATTTTAGTCACTTATATTTGAA
1 ATGTAACATTTTAGTCACTTATATTTGAA
* * **
31595231 ATGTTACGTTTTAGTCACTTATATTATTGTC
1 ATGTAACATTTTAGTCACTTATA-T-TTGAA
*
31595262 TTGTAACATTTTAGTCACT
1 ATGTAACATTTTAGTCACT
31595281 GGGTGTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (29 bp):
ATGTAACATTTTAGTCACTTATATTTGAA
Found at i:31595491 original size:25 final size:27
Alignment explanation
Indices: 31595463--31595519 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
31595453 AGGAATGAAA
*
31595463 AAAACAATAATAAAA-AAGAAAA-G-TT
1 AAAACAAT-ATAAAAGAAAAAAATGCTT
*
31595488 AAAAGAATATAAAAGAAAAAAATGCTT
1 AAAACAATATAAAAGAAAAAAATGCTT
31595515 AAAAC
1 AAAAC
31595520 GAAACAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.23
25 13 0.50
26 1 0.04
27 6 0.23
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (27 bp):
AAAACAATATAAAAGAAAAAAATGCTT
Found at i:31599740 original size:22 final size:21
Alignment explanation
Indices: 31599705--31599757 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
31599695 CACCACATTG
31599705 TGGATGAAACCACTCATTGTTA
1 TGGAT-AAACCACTCATTGTTA
* *
31599727 TGGATAAACACACTTATTGTTG
1 TGGATAAAC-CACTCATTGTTA
*
31599749 TAGATAAAC
1 TGGATAAAC
31599758 TGCTCATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (21 bp):
TGGATAAACCACTCATTGTTA
Found at i:31602280 original size:25 final size:25
Alignment explanation
Indices: 31602252--31602312 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
31602242 AGCATGTAAT
**
31602252 TGGGAAGCTCTTTTGAGCCATATAA
1 TGGGAAGCTCTAGTGAGCCATATAA
* *
31602277 TGGGAAGCTCAAGTGAGCCATGTAA
1 TGGGAAGCTCTAGTGAGCCATATAA
*
31602302 CGGGAAGCTCT
1 TGGGAAGCTCT
31602313 GAAGAGCCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (25 bp):
TGGGAAGCTCTAGTGAGCCATATAA
Found at i:31602319 original size:25 final size:24
Alignment explanation
Indices: 31602240--31602333 Score: 66
Period size: 25 Copynumber: 3.8 Consensus size: 24
31602230 TATGTCCATG
* *
31602240 AGAG-CATGTAATTGGGAAGCTCTTT
1 AGAGCCATGTAA-CGGGAAGCTC-TA
* * *
31602265 TGAGCCATATAATGGGAAGCTC-A
1 AGAGCCATGTAACGGGAAGCTCTA
31602288 AGTGAGCCATGTAACGGGAAGCTCTGA
1 A--GAGCCATGTAACGGGAAGCTCT-A
* *
31602315 AGAGCCATTTAACAGGAAG
1 AGAGCCATGTAACGGGAAG
31602334 GTTATACGAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
25 48 0.86
26 6 0.11
27 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (24 bp):
AGAGCCATGTAACGGGAAGCTCTA
Found at i:31603453 original size:13 final size:13
Alignment explanation
Indices: 31603437--31603467 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31603427 TTTCTTTGTA
31603437 ATTATTTTATTTT
1 ATTATTTTATTTT
*
31603450 ATTATTTTGTTTT
1 ATTATTTTATTTT
31603463 ATTAT
1 ATTAT
31603468 ATATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
ATTATTTTATTTT
Found at i:31603479 original size:8 final size:8
Alignment explanation
Indices: 31603462--31603507 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
31603452 TATTTTGTTT
31603462 TATT-ATA
1 TATTAATA
31603469 TATTAATA
1 TATTAATA
31603477 TATTAATA
1 TATTAATA
31603485 TA-TAATA
1 TATTAATA
*
31603492 TAATATATA
1 TATTA-ATA
31603501 TACTTAA
1 TA-TTAA
31603508 CACTTAAGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 11 0.32
8 15 0.44
9 6 0.18
10 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
TATTAATA
Found at i:31605451 original size:17 final size:19
Alignment explanation
Indices: 31605415--31605451 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
31605405 TTTGATTTAT
31605415 TTAATTTTACTTTATCAAAA
1 TTAATTTTA-TTTATCAAAA
31605435 TTAATTTT-TTT-TCAAAA
1 TTAATTTTATTTATCAAAA
31605452 ATCACTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
20 8 0.47
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTTTATTTATCAAAA
Found at i:31607859 original size:20 final size:20
Alignment explanation
Indices: 31607830--31607869 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31607820 TTGTACGGGA
* *
31607830 TTGCAATTTGGTGTCTCTGT
1 TTGCAATTTGATGCCTCTGT
*
31607850 TTGCACTTTGATGCCTCTGT
1 TTGCAATTTGATGCCTCTGT
31607870 ATTTACACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (20 bp):
TTGCAATTTGATGCCTCTGT
Found at i:31614943 original size:34 final size:35
Alignment explanation
Indices: 31614874--31614947 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 35
31614864 TTGTTGGATA
*
31614874 TATATATGTATGCATTCGGCATATGTGGATTATAAG
1 TATATATG-ATGCATTCGGCATATGTAGATTATAAG
31614910 TATATATG-TGCATTCGGCACT-TGTAG-TTGATAAG
1 TATATATGATGCATTCGGCA-TATGTAGATT-ATAAG
31614944 TATA
1 TATA
31614948 AATATATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
33 2 0.06
34 24 0.69
35 1 0.03
36 8 0.23
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (35 bp):
TATATATGATGCATTCGGCATATGTAGATTATAAG
Found at i:31622459 original size:32 final size:32
Alignment explanation
Indices: 31622423--31622483 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
31622413 CATGAGCTAG
31622423 GTCAAGTTGGGCGTGTGAGCCAGACAGGCGGA
1 GTCAAGTTGGGCGTGTGAGCCAGACAGGCGGA
* * *
31622455 GTCAATTTGGGCGTGTGGGCCATACAGGC
1 GTCAAGTTGGGCGTGTGAGCCAGACAGGC
31622484 TTGTGGGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.41, T:0.20
Consensus pattern (32 bp):
GTCAAGTTGGGCGTGTGAGCCAGACAGGCGGA
Found at i:31623753 original size:24 final size:25
Alignment explanation
Indices: 31623721--31623786 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
31623711 CAGCTCGAAA
* *
31623721 GAGCATCCCGTTAT-TAGGTCTCAT
1 GAGCTTCCCGTTATATAGGTCTCAC
* **
31623745 GAGCTTCCCGTTATATAGTTCTTGC
1 GAGCTTCCCGTTATATAGGTCTCAC
31623770 GAGCTTCCCGTTA-ATAG
1 GAGCTTCCCGTTATATAG
31623787 CTCTTCAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGGTCTCAC
Found at i:31623791 original size:24 final size:25
Alignment explanation
Indices: 31623745--31623791 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
31623735 TAGGTCTCAT
*
31623745 GAGCTTCCCGTTATATAGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
31623770 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
31623792 CAGAGCATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:31623797 original size:24 final size:24
Alignment explanation
Indices: 31623720--31623797 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
31623710 ACAGCTCGAA
* * *
31623720 AGAGCATCCCGTTATTAGGTC-TC
1 AGAGCTTCCCGTTAATAGCTCTTC
*
31623743 ATGAGCTTCCCGTTATATAGTTCTTGC
1 A-GAGCTTCCCGTTA-ATAGCTCTT-C
31623770 -GAGCTTCCCGTTAATAGCTCTTC
1 AGAGCTTCCCGTTAATAGCTCTTC
31623793 AGAGC
1 AGAGC
31623798 ATCGCGATCG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.04
24 24 0.52
25 18 0.39
26 1 0.02
27 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (24 bp):
AGAGCTTCCCGTTAATAGCTCTTC
Found at i:31623963 original size:25 final size:24
Alignment explanation
Indices: 31623913--31623970 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
31623903 GCCTCTCCGC
31623913 AGCTTCCCGATATTGGCTAGCTTG
1 AGCTTCCCGATATTGGCTAGCTTG
*
31623937 AGCCTTCCCGATATTGGCTTG-TATG
1 AG-CTTCCCGATATTGGCTAGCT-TG
31623962 AGCTTCCCG
1 AGCTTCCCG
31623971 TTAATAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 10 0.32
25 21 0.68
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.33
Consensus pattern (24 bp):
AGCTTCCCGATATTGGCTAGCTTG
Found at i:31624068 original size:26 final size:25
Alignment explanation
Indices: 31623959--31624070 Score: 97
Period size: 25 Copynumber: 4.5 Consensus size: 25
31623949 ATTGGCTTGT
* *
31623959 ATGAGCTTCCCGTTA-ATAGCT-AT
1 ATGAGCTTCCCGTTATATGGCTCAC
* * *
31623982 TTAGAGCTTCTCGTTACATGGCTCAC
1 AT-GAGCTTCCCGTTATATGGCTCAC
*
31624008 ATGAGCTTTCCGTTATATGGCTCGA-
1 ATGAGCTTCCCGTTATATGGCTC-AC
*
31624033 AAGAGCTTCCCGTT-TATGTGCTCAC
1 ATGAGCTTCCCGTTATATG-GCTCAC
31624058 ATGAGCATTCCCG
1 ATGAGC-TTCCCG
31624071 AATATGAATT
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.01
24 17 0.24
25 44 0.62
26 9 0.13
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCAC
Found at i:31626003 original size:24 final size:24
Alignment explanation
Indices: 31625912--31626003 Score: 62
Period size: 24 Copynumber: 3.8 Consensus size: 24
31625902 GCTCTTTGTG
* * *
31625912 AGCTTCCCGTTAATGGCTC-TCCGC
1 AGCTTCCCGATAATGGCTCGT-TGA
* *
31625936 AGCTTCCTGATATTGGCTCGCTTGA
1 AGCTTCCCGATAATGGCTCG-TTGA
* * *
31625961 ACCTTCCCGATATTAGCTCGTATG-
1 AGCTTCCCGATAATGGCTCGT-TGA
*
31625985 AGCTTCCCGTTAATGGCTC
1 AGCTTCCCGATAATGGCTC
31626004 TCCGGAGCTT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
24 32 0.60
25 20 0.38
26 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.33
Consensus pattern (24 bp):
AGCTTCCCGATAATGGCTCGTTGA
Found at i:31627429 original size:8 final size:8
Alignment explanation
Indices: 31627418--31627447 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
31627408 AAGAAAATAA
*
31627418 ATATATGG
1 ATATATGT
31627426 ATATATGT
1 ATATATGT
31627434 ATATATGT
1 ATATATGT
31627442 ATATAT
1 ATATAT
31627448 TTAATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (8 bp):
ATATATGT
Found at i:31628371 original size:20 final size:19
Alignment explanation
Indices: 31628346--31628450 Score: 79
Period size: 20 Copynumber: 5.4 Consensus size: 19
31628336 CTTGTTTACA
31628346 TTGATTTGATTCTCAATCTT
1 TTGATTTGATTCTCAATC-T
** * *
31628366 TTGATTTCTTTC-CATTACA
1 TTGATTTGATTCTCAAT-CT
31628385 TTGATTTGATTCTCAATCTT
1 TTGATTTGATTCTCAATC-T
** * *
31628405 TTGATTTCTTTC-CATTACA
1 TTGATTTGATTCTCAAT-CT
31628424 TTGATTTGATTCTCAATCCT
1 TTGATTTGATTCTCAAT-CT
31628444 TTGATTT
1 TTGATTT
31628451 CTTTCCATTA
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
19 27 0.43
20 36 0.57
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (19 bp):
TTGATTTGATTCTCAATCT
Found at i:31628395 original size:39 final size:39
Alignment explanation
Indices: 31628341--31628461 Score: 233
Period size: 39 Copynumber: 3.1 Consensus size: 39
31628331 AAAATCTTGT
31628341 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
31628380 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
*
31628419 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
31628458 TTAC
1 TTAC
31628462 TGTTTTGCTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.53
Consensus pattern (39 bp):
TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
Found at i:31632194 original size:6 final size:6
Alignment explanation
Indices: 31632183--31632216 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
31632173 TCTTCCTCCC
*
31632183 CCCAAA CCCAAA CCCAAA CCCCAAC CCCAAA CCC
1 CCCAAA CCCAAA CCCAAA -CCCAAA CCCAAA CCC
31632217 CTCCTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCAAA
Found at i:31632211 original size:13 final size:13
Alignment explanation
Indices: 31632182--31632217 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
31632172 TTCTTCCTCC
31632182 CCCCAAA-CCCAA
1 CCCCAAACCCCAA
*
31632194 ACCCAAACCCCAA
1 CCCCAAACCCCAA
31632207 CCCCAAACCCC
1 CCCCAAACCCC
31632218 TCCTTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.39, C:0.61, G:0.00, T:0.00
Consensus pattern (13 bp):
CCCCAAACCCCAA
Found at i:31637828 original size:17 final size:17
Alignment explanation
Indices: 31637776--31637829 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
31637766 ATATATTATC
*
31637776 AAAATTATAAAAAATAG
1 AAAATTATAAAAAATAT
31637793 AAAATTATAAAAACCATAT
1 AAAATTATAAAAA--ATAT
31637812 AAAATT-TAAAAATATAT
1 AAAATTATAAAAA-ATAT
31637829 A
1 A
31637830 TACAATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 18 0.55
18 6 0.18
19 9 0.27
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:31639116 original size:26 final size:26
Alignment explanation
Indices: 31639080--31639130 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
31639070 CTTTGTTGTC
31639080 AATTACCTCATATGTTTTCAAATATA
1 AATTACCTCATATGTTTTCAAATATA
31639106 AATTACCTCATATGTTTTCAAATAT
1 AATTACCTCATATGTTTTCAAATAT
31639131 CAAAGAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (26 bp):
AATTACCTCATATGTTTTCAAATATA
Found at i:31648644 original size:20 final size:20
Alignment explanation
Indices: 31648621--31648675 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
31648611 GATAAACCCA
31648621 TAGAAATTTTGGTATA-ACCT
1 TAGAAATTTTGGTA-AGACCT
* * *
31648641 TAGAAGTTTTGGCAAGACTT
1 TAGAAATTTTGGTAAGACCT
*
31648661 TAGCAATTTTGGTAA
1 TAGAAATTTTGGTAA
31648676 ATCTAAGATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (20 bp):
TAGAAATTTTGGTAAGACCT
Found at i:31654243 original size:18 final size:18
Alignment explanation
Indices: 31654220--31654271 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
31654210 GAAACTCTAT
*
31654220 ATCCTTTTGGGATTTTAA
1 ATCCTTTAGGGATTTTAA
31654238 ATCCTTTAGGGATTTTAA
1 ATCCTTTAGGGATTTTAA
*
31654256 ATCCTTTAGGAATTTT
1 ATCCTTTAGGGATTTT
31654272 CATATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (18 bp):
ATCCTTTAGGGATTTTAA
Found at i:31657926 original size:43 final size:42
Alignment explanation
Indices: 31657841--31657985 Score: 157
Period size: 43 Copynumber: 3.4 Consensus size: 42
31657831 CGAGACTACA
* * *
31657841 TGTAAGACCATATCTGG-GATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATGTCTGGACAT-TGGCATCGATATGAGATTTCG
* *
31657883 TGTAAGACCATGTCTCGGACATTGGCATGGATATGTGATTTCG
1 TGTAAGACCATGTCT-GGACATTGGCATCGATATGAGATTTCG
* * * * *
31657926 TGTAAGACCATGGCTGGGCTATTGGCATCGATACGAGATTACA
1 TGTAAGACCATGTCTGGAC-ATTGGCATCGATATGAGATTTCG
*
31657969 TGTAAGACCATATCTGG
1 TGTAAGACCATGTCTGG
31657986 GATATGACAT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 17 0.20
43 67 0.78
44 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGACATTGGCATCGATATGAGATTTCG
Found at i:31669662 original size:9 final size:10
Alignment explanation
Indices: 31669647--31669674 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
31669637 AACTTTTCCG
31669647 TATTTTTTAT
1 TATTTTTTAT
31669657 TATTTTTTAT
1 TATTTTTTAT
31669667 TATTTTTT
1 TATTTTTT
31669675 CCTTAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:31671374 original size:20 final size:21
Alignment explanation
Indices: 31671331--31671379 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
31671321 AATAGAAATC
*
31671331 AATAGAATTGTTATTTTGGAA
1 AATAGAATTGTTATTTTAGAA
31671352 AATAGAA-T-TTATATTTAGAA
1 AATAGAATTGTTAT-TTTAGAA
31671372 AATA-AATT
1 AATAGAATT
31671380 CTCACTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (21 bp):
AATAGAATTGTTATTTTAGAA
Found at i:31693429 original size:28 final size:28
Alignment explanation
Indices: 31693389--31693472 Score: 159
Period size: 28 Copynumber: 3.0 Consensus size: 28
31693379 TCTACTCAAA
31693389 AAGAGGAGAAAAAAGGGTGAATTTTGGT
1 AAGAGGAGAAAAAAGGGTGAATTTTGGT
*
31693417 AGGAGGAGAAAAAAGGGTGAATTTTGGT
1 AAGAGGAGAAAAAAGGGTGAATTTTGGT
31693445 AAGAGGAGAAAAAAGGGTGAATTTTGGT
1 AAGAGGAGAAAAAAGGGTGAATTTTGGT
31693473 TTTCTCCGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (28 bp):
AAGAGGAGAAAAAAGGGTGAATTTTGGT
Found at i:31694173 original size:3 final size:3
Alignment explanation
Indices: 31694082--31694158 Score: 100
Period size: 3 Copynumber: 25.3 Consensus size: 3
31694072 GAATTTGATG
*
31694082 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * **
31694130 TCA TCA TTA GCA TTA TTA TTA TTTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA T
31694159 ATACCTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:31694186 original size:17 final size:15
Alignment explanation
Indices: 31694148--31694186 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
31694138 AGCATTATTA
31694148 TTATTTATTATATAC
1 TTATTTATTATATAC
*
31694163 CTATTTATTATATTTAC
1 TTATTTATTATA--TAC
31694180 TTATTTA
1 TTATTTA
31694187 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTTATTATATAC
Found at i:31695537 original size:10 final size:10
Alignment explanation
Indices: 31695522--31695546 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31695512 CAAACAAATG
31695522 ATTTTATGAA
1 ATTTTATGAA
31695532 ATTTTATGAA
1 ATTTTATGAA
31695542 ATTTT
1 ATTTT
31695547 TTTAAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (10 bp):
ATTTTATGAA
Found at i:31695633 original size:21 final size:19
Alignment explanation
Indices: 31695577--31695625 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 19
31695567 TTTTGCATAC
31695577 TTTTAATTTTAAAAATATA
1 TTTTAATTTTAAAAATATA
31695596 TTTTAATTTTAAAAATATA
1 TTTTAATTTTAAAAATATA
31695615 TTTATAATTTT
1 TTT-TAATTTT
31695626 CTAAAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAATTTTAAAAATATA
Found at i:31695639 original size:20 final size:19
Alignment explanation
Indices: 31695580--31695645 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 19
31695570 TGCATACTTT
*
31695580 TAATTTTAAAAATATATTT
1 TAATTTTAAAAATATATTA
31695599 TAATTTTAAAAATATATTTA
1 TAATTTTAAAAATATA-TTA
* *
31695619 TAATTTTCTAAAATAGATTA
1 TAATTTT-AAAAATATATTA
*
31695639 TGATTTT
1 TAATTTT
31695646 TTTTAATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
19 16 0.39
20 18 0.44
21 7 0.17
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
TAATTTTAAAAATATATTA
Found at i:31697391 original size:45 final size:44
Alignment explanation
Indices: 31697327--31697418 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
31697317 TAGATGTGTG
*
31697327 ATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAATGGA
1 ATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAATGAA
*
31697372 ATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATGAA
1 ATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATGAA
31697416 ATG
1 ATG
31697419 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (44 bp):
ATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATGAA
Found at i:31697800 original size:119 final size:119
Alignment explanation
Indices: 31697556--31697913 Score: 646
Period size: 119 Copynumber: 3.0 Consensus size: 119
31697546 TTAATCATAT
*
31697556 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-T
* *
31697621 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACCATAAAATATAA
65 AATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
31697676 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTACTAAAATTCTTAATATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
31697741 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
31697795 TTTAAAATAATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
31697860 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
66 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
31697913 T
1 T
31697914 ATTTTTATTT
Statistics
Matches: 230, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
118 5 0.02
119 165 0.72
120 60 0.26
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.42
Consensus pattern (119 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:31700702 original size:18 final size:18
Alignment explanation
Indices: 31700681--31700720 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
31700671 AGATTTGGAA
31700681 AAGAAAGAAACGTAGGAG
1 AAGAAAGAAACGTAGGAG
*
31700699 AAGAAGGAAACGTAGGAG
1 AAGAAAGAAACGTAGGAG
31700717 AAGA
1 AAGA
31700721 TGCCGAGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.35, T:0.05
Consensus pattern (18 bp):
AAGAAAGAAACGTAGGAG
Found at i:31704977 original size:2 final size:2
Alignment explanation
Indices: 31704970--31705000 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31704960 CACAATCTAA
31704970 TC TC 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 TC TC T
31705001 TATGGTTGTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:31710303 original size:22 final size:22
Alignment explanation
Indices: 31710267--31710326 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
31710257 GCGAGCTTAT
* *
31710267 ATGATTATGTGTTATGTGAGCC
1 ATGAATATATGTTATGTGAGCC
* *
31710289 ATGTATTTATGTTATGTGAGCC
1 ATGAATATATGTTATGTGAGCC
31710311 ATGAATATATGTTATG
1 ATGAATATATGTTATG
31710327 CAAACCCTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (22 bp):
ATGAATATATGTTATGTGAGCC
Found at i:31710398 original size:33 final size:33
Alignment explanation
Indices: 31710329--31710404 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
31710319 ATGTTATGCA
* * *
31710329 AACCCTAGGATTATGTGAGACTATATGTATATG
1 AACCCTAGGATTATGCGAGACTATATGCATACG
* *
31710362 AACCCTAGGATTATGCGA-ACCTTTATGCATCCG
1 AACCCTAGGATTATGCGAGA-CTATATGCATACG
31710395 AACCCTAGGA
1 AACCCTAGGA
31710405 ACATTCAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (33 bp):
AACCCTAGGATTATGCGAGACTATATGCATACG
Found at i:31710444 original size:29 final size:28
Alignment explanation
Indices: 31710393--31710654 Score: 139
Period size: 29 Copynumber: 9.0 Consensus size: 28
31710383 TTTATGCATC
* *
31710393 CGAACCCTAGGAACATTCAAGCCTATATG
1 CGAACCCTAGGAA-ATGCGAGCCTATATG
*
31710422 CGAACCCTAGGTAAATGTGAGCCTATATG
1 CGAACCCTAGG-AAATGCGAGCCTATATG
* * ** *
31710451 CGAACCTTAGGAACTTATGAGCCTGTATG
1 CGAACCCTAGGAA-ATGCGAGCCTATATG
*
31710480 CGAACCCTA-GAAACTTGCGAGCCTGTATG
1 CGAACCCTAGGAAA--TGCGAGCCTATATG
* * * * *
31710509 CAAACCCTAGGTACACGCAAGCCTATATA
1 CGAACCCTAGG-AAATGCGAGCCTATATG
* * * *
31710538 CGAACCTTAGGAACTTGCGAGCCTGTATT
1 CGAACCCTAGGAA-ATGCGAGCCTATATG
* * * * * *
31710567 TGAGCCCCAGGTACATGTGAGCTTATATG
1 CGAACCCTAGG-AAATGCGAGCCTATATG
* * * **
31710596 CAAACCTTAGGAACCTGCGAGTTTATATG
1 CGAACCCTAGGAA-ATGCGAGCCTATATG
** *
31710625 CGAACCCTAGGTGCATGTGAGCCTATATG
1 CGAACCCTAGG-AAATGCGAGCCTATATG
31710654 C
1 C
31710655 CATGCGAACC
Statistics
Matches: 171, Mismatches: 52, Indels: 20
0.70 0.21 0.08
Matches are distributed among these distances:
28 7 0.04
29 158 0.92
30 4 0.02
31 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (28 bp):
CGAACCCTAGGAAATGCGAGCCTATATG
Found at i:31710515 original size:87 final size:87
Alignment explanation
Indices: 31710393--31710565 Score: 231
Period size: 87 Copynumber: 2.0 Consensus size: 87
31710383 TTTATGCATC
* * * ** *
31710393 CGAACCCTAGGAACATTCAAGCCTATATGCGAACCCTAGGTAAATGTGAGCCTATATGCGAACCT
1 CGAACCCTAGAAACATTCAAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
*
31710458 TAGGAACTTATGAGCCTGTATG
66 TAGGAACTTACGAGCCTGTATG
* * *
31710480 CGAACCCTAGAAAC-TTGCGAGCCTGTATGCAAACCCTAGGTACACGCAAGCCTATATACGAACC
1 CGAACCCTAGAAACATT-CAAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACC
*
31710544 TTAGGAACTTGCGAGCCTGTAT
65 TTAGGAACTTACGAGCCTGTAT
31710566 TTGAGCCCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 2 0.03
87 72 0.97
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (87 bp):
CGAACCCTAGAAACATTCAAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
TAGGAACTTACGAGCCTGTATG
Found at i:31710579 original size:58 final size:58
Alignment explanation
Indices: 31710470--31710616 Score: 159
Period size: 58 Copynumber: 2.5 Consensus size: 58
31710460 GGAACTTATG
* * * *
31710470 AGCCTGTATGCGAACCCTAGAAACTTGCGAGCCTGTATGCAAACCCTAGGTACACGCA
1 AGCCTATATGCGAACCTTAGGAACTTGCGAGCCTGTATGCAAACCCCAGGTACACGCA
* *** * * **
31710528 AGCCTATATACGAACCTTAGGAACTTGCGAGCCTGTATTTGAGCCCCAGGTACATGTG
1 AGCCTATATGCGAACCTTAGGAACTTGCGAGCCTGTATGCAAACCCCAGGTACACGCA
* * *
31710586 AGCTTATATGCAAACCTTAGGAACCTGCGAG
1 AGCCTATATGCGAACCTTAGGAACTTGCGAG
31710617 TTTATATGCG
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (58 bp):
AGCCTATATGCGAACCTTAGGAACTTGCGAGCCTGTATGCAAACCCCAGGTACACGCA
Found at i:31710596 original size:87 final size:87
Alignment explanation
Indices: 31710393--31710606 Score: 221
Period size: 87 Copynumber: 2.5 Consensus size: 87
31710383 TTTATGCATC
* * * * * * ** *
31710393 CGAACCCTAGGAACATTCAAGCCTATATGCGAACCCTAGGTAAATGTGAGCCTATATGCGAACCT
1 CGAACCCCAGAAACATGCGAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
*
31710458 TAGGAACTTATGAGCCTGTATG
66 TAGGAACTTACGAGCCTGTATG
* * * *
31710480 CGAACCCTAGAAACTTGCGAGCCTGTATGCAAACCCTAGGTACACGCAAGCCTATATACGAACCT
1 CGAACCCCAGAAACATGCGAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
* *
31710545 TAGGAACTTGCGAGCCTGTATT
66 TAGGAACTTACGAGCCTGTATG
* * ** * * *
31710567 TGAGCCCCAGGTACATGTGAGCTTATATGCAAACCTTAGG
1 CGAACCCCAGAAACATGCGAGCCTATATGCAAACCCTAGG
31710607 AACCTGCGAG
Statistics
Matches: 103, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 103 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (87 bp):
CGAACCCCAGAAACATGCGAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
TAGGAACTTACGAGCCTGTATG
Found at i:31710686 original size:34 final size:34
Alignment explanation
Indices: 31710622--31710687 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
31710612 GCGAGTTTAT
* ** *
31710622 ATGCGAACCCTAGGTGCATGTGAGCCTATATGCC
1 ATGCGAACCCTAAGAACATGCGAGCCTATATGCC
*
31710656 ATGCGAACCCTAAGAACATGCGAGCTTATATG
1 ATGCGAACCCTAAGAACATGCGAGCCTATATG
31710688 ATCATGTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (34 bp):
ATGCGAACCCTAAGAACATGCGAGCCTATATGCC
Found at i:31712305 original size:2 final size:2
Alignment explanation
Indices: 31712298--31712323 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31712288 CATATCTATC
31712298 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
31712324 AGAAGGTGGT
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:31713342 original size:106 final size:106
Alignment explanation
Indices: 31713155--31713346 Score: 321
Period size: 106 Copynumber: 1.8 Consensus size: 106
31713145 AGATTTAAGG
* * *
31713155 GGATATTTGGCTATTTAGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAA
1 GGATATTCGACTATTTAGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTCTCTCGAA
*
31713220 TTTCCAAACGTAAAATATTGCCTCACTTTGAAATTTCGAAA
66 TTTCCAAACGCAAAATATTGCCTCACTTTGAAATTTCGAAA
* *
31713261 GGATATTCGACTATTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCATGTTCTCTCGAA
1 GGATATTCGACTATTTAGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTCTCTCGAA
*
31713326 TTTCCAAACGCGAAATATTGC
66 TTTCCAAACGCAAAATATTGC
31713347 TTTATTTGAA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 79 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (106 bp):
GGATATTCGACTATTTAGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTCTCTCGAA
TTTCCAAACGCAAAATATTGCCTCACTTTGAAATTTCGAAA
Done.