Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 20 of 199
Found at i:6519964 original size:30 final size:29
Alignment explanation
Indices: 6519922--6520015 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
6519912 AGTATATAGT
6519922 AAAATTATATTTAACTCTCTTAAAATGATA
1 AAAATTATATTTAA-TCTCTTAAAATGATA
* *
6519952 AAAAGTTA-ATTTAATCTTTTAAAATTATA
1 AAAA-TTATATTTAATCTCTTAAAATGATA
* *
6519981 AAAA--ATA-TAAAT-TATTAAAATGAT-
1 AAAATTATATTTAATCTCTTAAAATGATA
6520005 AAAATTATATT
1 AAAATTATATT
6520016 ATCGTAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
24 4 0.07
25 10 0.19
26 8 0.15
27 2 0.04
29 17 0.31
30 10 0.19
31 3 0.06
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAATTATATTTAATCTCTTAAAATGATA
Found at i:6519994 original size:16 final size:18
Alignment explanation
Indices: 6519971--6520013 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
6519961 TTTAATCTTT
6519971 TAAAATTATAAAAAAT-A
1 TAAAATTATAAAAAATGA
*
6519988 T-AAATTAT-TAAAATGA
1 TAAAATTATAAAAAATGA
6520004 TAAAATTATA
1 TAAAATTATA
6520014 TTATCGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 5 0.23
16 9 0.41
17 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAATTATAAAAAATGA
Found at i:6520009 original size:17 final size:16
Alignment explanation
Indices: 6519971--6520012 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6519961 TTTAATCTTT
6519971 TAAAATTA-TAAAAAA
1 TAAAATTATTAAAAAA
*
6519986 TATAAATTATTAAAATGA
1 TA-AAATTATTAAAA-AA
6520004 TAAAATTAT
1 TAAAATTAT
6520013 ATTATCGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 6 0.26
17 12 0.52
18 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAAATTATTAAAAAA
Found at i:6523722 original size:28 final size:28
Alignment explanation
Indices: 6523678--6523731 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
6523668 TTTTTTCAAA
*
6523678 AAAATTTGGAGATTTAATTAAAATTTTT
1 AAAATTTGGAGAATTAATTAAAATTTTT
*
6523706 AAAATTTGTGA-AATTAATTAGAATTT
1 AAAATTTG-GAGAATTAATTAAAATTT
6523732 CAAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (28 bp):
AAAATTTGGAGAATTAATTAAAATTTTT
Found at i:6523737 original size:28 final size:28
Alignment explanation
Indices: 6523677--6523737 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
6523667 TTTTTTTCAA
* *
6523677 AAAAATTTGGAGATTTAATTAAAATTTT
1 AAAAATTTGGAGAATTAATTAAAATTTC
* *
6523705 TAAAATTTGTGA-AATTAATTAGAATTTC
1 AAAAATTTG-GAGAATTAATTAAAATTTC
6523733 AAAAA
1 AAAAA
6523738 AAAATTAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (28 bp):
AAAAATTTGGAGAATTAATTAAAATTTC
Found at i:6525318 original size:92 final size:92
Alignment explanation
Indices: 6525161--6525341 Score: 353
Period size: 92 Copynumber: 2.0 Consensus size: 92
6525151 CCAAATTGGT
*
6525161 ACCTCAGTTGATTATCAGTCCAACCAACCGATCTGATTTTGAAAATAGTACTTAAACCGGCTAAA
1 ACCTCAGTTGATTATCAGTCCAACCAACCGATCTGATTTTGAAAATAGTACTTAAAACGGCTAAA
6525226 TCCATATTTTTAAAAAATATTATTAAC
66 TCCATATTTTTAAAAAATATTATTAAC
6525253 ACCTCAGTTGATTATCAGTCCAACCAACCGATCTGATTTTGAAAATAGTACTTAAAACGGCTAAA
1 ACCTCAGTTGATTATCAGTCCAACCAACCGATCTGATTTTGAAAATAGTACTTAAAACGGCTAAA
6525318 TCCATATTTTTAAAAAATATTATT
66 TCCATATTTTTAAAAAATATTATT
6525342 TTGTTAATAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (92 bp):
ACCTCAGTTGATTATCAGTCCAACCAACCGATCTGATTTTGAAAATAGTACTTAAAACGGCTAAA
TCCATATTTTTAAAAAATATTATTAAC
Found at i:6528284 original size:13 final size:13
Alignment explanation
Indices: 6528268--6528317 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
6528258 TTTAAACCAA
6528268 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
* *
6528281 ACTTTTCCACAGT
1 ACTTTTCAAAAGT
*
6528294 ACTTTTCAAAAGC
1 ACTTTTCAAAAGT
6528307 ACTTTTCAAAA
1 ACTTTTCAAAA
6528318 ATAATGAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:6528286 original size:26 final size:26
Alignment explanation
Indices: 6528257--6528312 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
6528247 AACACTCAAA
*
6528257 TTTTAAACCA-AACTTTTCAAAAGTAC
1 TTTTAAA-CAGAACTTTTCAAAAGCAC
** *
6528283 TTTTCCACAGTACTTTTCAAAAGCAC
1 TTTTAAACAGAACTTTTCAAAAGCAC
6528309 TTTT
1 TTTT
6528313 CAAAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (26 bp):
TTTTAAACAGAACTTTTCAAAAGCAC
Found at i:6534394 original size:50 final size:51
Alignment explanation
Indices: 6534313--6534422 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 51
6534303 AGACTATAAT
* * * * **
6534313 TACTAGTAATTGTAGTCCTCGAAGGAGCGATATCTCTGCTCATCATAGGTA
1 TACTATTAACTGTAGTCCTCGAAGGAACGATATCTCTGCTCACCATAACTA
*
6534364 TACTATTAACTGTAGTTCT-GAAGGAACGATATCTCTGCTCACCATAACTA
1 TACTATTAACTGTAGTCCTCGAAGGAACGATATCTCTGCTCACCATAACTA
6534414 TACTATTAA
1 TACTATTAA
6534423 TTGATAACTG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
50 36 0.69
51 16 0.31
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (51 bp):
TACTATTAACTGTAGTCCTCGAAGGAACGATATCTCTGCTCACCATAACTA
Found at i:6535873 original size:27 final size:25
Alignment explanation
Indices: 6535835--6535899 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 25
6535825 TTCACAAACC
*
6535835 AAATAAA-ATTAATTATTAACTTTT
1 AAATAAATATTAATTATTAAATTTT
* *
6535859 AAATATAAATATTAAATCTTAAATTTT
1 -AA-ATAAATATTAATTATTAAATTTT
*
6535886 GAATAAATATTAAT
1 AAATAAATATTAAT
6535900 AACATGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 13 0.39
26 6 0.18
27 14 0.42
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (25 bp):
AAATAAATATTAATTATTAAATTTT
Found at i:6546907 original size:29 final size:30
Alignment explanation
Indices: 6546872--6546935 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
6546862 TCTTTAAATT
*
6546872 TTTTATAATCTTCTTACGA-CTTTATAAAA
1 TTTTATAATCTTCTTACGATCTTAATAAAA
* * *
6546901 TTTTATAATTTTTTTATGATCTTAATAAAA
1 TTTTATAATCTTCTTACGATCTTAATAAAA
6546931 TTTTA
1 TTTTA
6546936 GAATTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (30 bp):
TTTTATAATCTTCTTACGATCTTAATAAAA
Found at i:6546931 original size:30 final size:29
Alignment explanation
Indices: 6546872--6546943 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
6546862 TCTTTAAATT
* * *
6546872 TTTTATAATCTTCTTACGACTTTATAAAA
1 TTTTATAATTTTTTTACGACTTAATAAAA
*
6546901 TTTTATAATTTTTTTATGATCTTAATAAAA
1 TTTTATAATTTTTTTACGA-CTTAATAAAA
*
6546931 TTTTAGAATTTTT
1 TTTTATAATTTTT
6546944 ATAATTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 16 0.43
30 21 0.57
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (29 bp):
TTTTATAATTTTTTTACGACTTAATAAAA
Found at i:6547030 original size:27 final size:28
Alignment explanation
Indices: 6546938--6547061 Score: 100
Period size: 28 Copynumber: 4.5 Consensus size: 28
6546928 AAATTTTAGA
*
6546938 ATTTTTATAATTTTT-TTACAATTTGTAAT
1 ATTTTTATAATTTTTATTA-AAATT-TAAT
* * *
6546967 -TTTTTCTAA-TTTTAGATAAACTTTAAAT
1 ATTTTTATAATTTTTA-TTAAAATTT-AAT
6546995 ATTTTTAT-ATTTTTATTAAAATTTAAT
1 ATTTTTATAATTTTTATTAAAATTTAAT
* *
6547022 ATTTTTATAACTTTTATT--AATTT-TT
1 ATTTTTATAATTTTTATTAAAATTTAAT
*
6547047 ATTTTTATCATTTTT
1 ATTTTTATAATTTTT
6547062 TGCCACATGT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
25 14 0.18
26 5 0.06
27 16 0.20
28 31 0.39
29 13 0.16
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (28 bp):
ATTTTTATAATTTTTATTAAAATTTAAT
Found at i:6547307 original size:93 final size:92
Alignment explanation
Indices: 6547122--6547335 Score: 261
Period size: 93 Copynumber: 2.3 Consensus size: 92
6547112 ATTAAGGACG
* ** *
6547122 GTTCAAGTACCCAATTGAGTGC-AAAAAAGGGCAGGGGCTTAATTGTGTTTTTTTGAAAAAAATT
1 GTTCAAGTGCCCAATTGAGTGCAAAAAAAAAGCAAGGGCTTAATTGTGTTTTTTTGAAAAAAATT
* * * *
6547186 TGAGGGCCTTTTTAATGCATTTTGAAA
66 TAAGGGCCTTTTTAATACATTATAAAA
* * * *
6547213 GTTCAAGTGCCTAATTGAGTGCAAAAAAAAAGTAAGGGCTTAATTGCTTTTTTTTTTG-TAAAAA
1 GTTCAAGTGCCCAATTGAGTGCAAAAAAAAAGCAAGGGCTTAATTG--TGTTTTTTTGAAAAAAA
*
6547277 TTTAAGGGTCTTTTTAATACATTATAAAA
64 TTTAAGGGCCTTTTTAATACATTATAAAA
* *
6547306 GTTCAAGTGCCCAAGTGAATGCAAAAAAAA
1 GTTCAAGTGCCCAATTGAGTGCAAAAAAAA
6547336 CAGGGACTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
91 20 0.19
92 19 0.18
93 56 0.54
94 9 0.09
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (92 bp):
GTTCAAGTGCCCAATTGAGTGCAAAAAAAAAGCAAGGGCTTAATTGTGTTTTTTTGAAAAAAATT
TAAGGGCCTTTTTAATACATTATAAAA
Found at i:6547357 original size:93 final size:92
Alignment explanation
Indices: 6547169--6547358 Score: 224
Period size: 93 Copynumber: 2.1 Consensus size: 92
6547159 CTTAATTGTG
* * * * * * *
6547169 TTTTTTTGAAAAAAATTTGAGGGCCTTTTTAATGCATTTTGAAAGTTCAAGTGCCTAATTGAGTG
1 TTTTTTTGAAAAAAATTTAAGGGCCTTTTTAATACATTATAAAAGTTCAAGTGCCCAAGTGAATG
* *
6547234 CAAAAAAAAAGTAAGGGCTTAATTGCTTT
66 CAAAAAAAAAG--AGGACTTAATTGATTT
* *
6547263 TTTTTTTG-TAAAAATTTAAGGGTCTTTTTAATACATTATAAAAGTTCAAGTGCCCAAGTGAATG
1 TTTTTTTGAAAAAAATTTAAGGGCCTTTTTAATACATTATAAAAGTTCAAGTGCCCAAGTGAATG
*
6547327 CAAAAAAAACAG-GGACTTAATT-ATTA
66 CAAAAAAAA-AGAGGACTTAATTGATTT
6547353 TTTTTT
1 TTTTTT
6547359 AAATTAAGAG
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
90 8 0.10
91 9 0.11
93 56 0.67
94 10 0.12
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (92 bp):
TTTTTTTGAAAAAAATTTAAGGGCCTTTTTAATACATTATAAAAGTTCAAGTGCCCAAGTGAATG
CAAAAAAAAAGAGGACTTAATTGATTT
Found at i:6549219 original size:10 final size:10
Alignment explanation
Indices: 6549204--6549275 Score: 53
Period size: 10 Copynumber: 7.6 Consensus size: 10
6549194 CCATAACATA
6549204 TTTATAATAT
1 TTTATAATAT
*
6549214 TTTATAATAA
1 TTTATAATAT
* *
6549224 TTAATAGT-T
1 TTTATAATAT
6549233 TTTAT-ATAT
1 TTTATAATAT
*
6549242 TTT-TAAAAT
1 TTTATAATAT
* *
6549251 CTTATGATAT
1 TTTATAATAT
*
6549261 TTAATAAT-T
1 TTTATAATAT
6549270 TTTATA
1 TTTATA
6549276 GATTTTCTAT
Statistics
Matches: 45, Mismatches: 14, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
8 2 0.04
9 19 0.42
10 24 0.53
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (10 bp):
TTTATAATAT
Found at i:6549242 original size:37 final size:37
Alignment explanation
Indices: 6549201--6549280 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 37
6549191 TTTCCATAAC
* * *
6549201 ATATTTATAATATTTTATAATAATTAATAGTTTTTAT
1 ATATTTATAAAATCTTATAATAATTAATAATTTTTAT
* * *
6549238 ATATTTTTAAAATCTTATGATATTTAATAATTTTTAT
1 ATATTTATAAAATCTTATAATAATTAATAATTTTTAT
*
6549275 AGATTT
1 ATATTT
6549281 TCTATCATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (37 bp):
ATATTTATAAAATCTTATAATAATTAATAATTTTTAT
Found at i:6549274 original size:19 final size:18
Alignment explanation
Indices: 6549201--6549280 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
6549191 TTTCCATAAC
6549201 ATATTT-ATAATATTTTAT
1 ATATTTAATAAT-TTTTAT
* *
6549219 AATAATTAATAGTTTTTAT
1 -ATATTTAATAATTTTTAT
*
6549238 ATATTTTTAA-AA-TCTTAT
1 ATA--TTTAATAATTTTTAT
6549256 GATATTTAATAATTTTTAT
1 -ATATTTAATAATTTTTAT
*
6549275 AGATTT
1 ATATTT
6549281 TCTATCATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
17 5 0.10
18 15 0.31
19 20 0.42
20 8 0.17
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (18 bp):
ATATTTAATAATTTTTAT
Found at i:6549508 original size:36 final size:35
Alignment explanation
Indices: 6549458--6549528 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
6549448 CCTAAAATAG
* *
6549458 TTTAAAAAAATCAATTAAATCCTCTTAAAATAATT
1 TTTAAAAAAATCAATTAAACCCTCATAAAATAATT
*
6549493 TTTATAAAAAGTCAATTAAACCCTCATAAAATAATT
1 TTTA-AAAAAATCAATTAAACCCTCATAAAATAATT
6549529 AAAAAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (35 bp):
TTTAAAAAAATCAATTAAACCCTCATAAAATAATT
Found at i:6550210 original size:12 final size:12
Alignment explanation
Indices: 6550189--6550223 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6550179 AAAATGCTGA
*
6550189 AATCAAAATCAT
1 AATCAGAATCAT
*
6550201 CATCAGAATCAT
1 AATCAGAATCAT
6550213 AATCAGAATCA
1 AATCAGAATCA
6550224 CTTACTAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (12 bp):
AATCAGAATCAT
Found at i:6559367 original size:19 final size:19
Alignment explanation
Indices: 6559338--6559376 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6559328 TAGGTGTAAA
*
6559338 ATAATATTTATGATTTTTTT
1 ATAATATTTAT-ATATTTTT
6559358 ATAA-ATTTATATATTTTT
1 ATAATATTTATATATTTTT
6559376 A
1 A
6559377 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
ATAATATTTATATATTTTT
Found at i:6560086 original size:21 final size:21
Alignment explanation
Indices: 6560062--6560102 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6560052 CATAAAGTAA
*
6560062 AAGCACATCTTTAAATAGCAG
1 AAGCACATCATTAAATAGCAG
6560083 AAGCACATCATTAAATAGCA
1 AAGCACATCATTAAATAGCA
6560103 AACTCTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (21 bp):
AAGCACATCATTAAATAGCAG
Found at i:6562518 original size:58 final size:58
Alignment explanation
Indices: 6562416--6562535 Score: 127
Period size: 58 Copynumber: 2.1 Consensus size: 58
6562406 CTTGATCTTA
* * **
6562416 GCAACTTTTTCCACATTGGAGTCTGAACTATTTTTACCCGAGTTAGGCCC-AGAACTTG
1 GCAACTTTTTCCACATTGGAGCCTGAACTATTTTTACCCAAGTTAAACCCTA-AACTTG
* * * **
6562474 GCAAC-TTTTCTCATATTGGTGCCTGAACTTTTTTTATTCAAGTTAAACCCTAAACTTG
1 GCAACTTTTTC-CACATTGGAGCCTGAACTATTTTTACCCAAGTTAAACCCTAAACTTG
6562532 GCAA
1 GCAA
6562536 TGGTTCCCAC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
57 5 0.10
58 45 0.88
59 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (58 bp):
GCAACTTTTTCCACATTGGAGCCTGAACTATTTTTACCCAAGTTAAACCCTAAACTTG
Found at i:6564090 original size:18 final size:19
Alignment explanation
Indices: 6564069--6564104 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6564059 TTTGAAATTC
6564069 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
6564087 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
6564105 CAGAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:6567038 original size:134 final size:129
Alignment explanation
Indices: 6566832--6567161 Score: 409
Period size: 134 Copynumber: 2.5 Consensus size: 129
6566822 TTCAGTCTTT
* * *
6566832 AATTGAACTGAAAGAACACAAAAAGCAAATG-CTGTGCAGTTTGCCAATAGCTAAGAACAGTAAA
1 AATTGAACTGAAAGAACACAAAAAGCAAA-GACTGT--AGTTTGCAAAGAGCTAAGAACAG-CAA
6566896 ATCAACAAAAGGAG-CAATCAATAAAAATCAAACAATACAAAAAAAAAAGTAAAAACAGACAAAC
62 ATCAACAAAAGG-GTCAATCAATAAAAATCAAACAATAC---AAAAAAAGTAAAAACAGACAAAC
*
6566960 CCGTTTA
123 CCATTTA
* *
6566967 AATTTGAACTGAAAGAACACAAAAATCAAAGACTGTAATTTGCAAAGAGCTAAGAACAGCAGAAT
1 AA-TTGAACTGAAAGAACACAAAAAGCAAAGACTGTAGTTTGCAAAGAGCTAAGAACAGCA-AAT
* * * *
6567032 CAACAAAAGGGTCAGTCAATAAGAATCAAACAGTACAGAAAAAGTAAAAACAGACAAACCCATTT
64 CAACAAAAGGGTCAATCAATAAAAATCAAACAATACAAAAAAAGTAAAAACAGACAAACCCATTT
*
6567097 T
129 A
* *
6567098 AATTGAACTGAAAGAACAC-GAAAGCAAAGACTGTAGTTT--AAAGAACTAAGAACAGCTAAATC
1 AATTGAACTGAAAGAACACAAAAAGCAAAGACTGTAGTTTGCAAAGAGCTAAGAACAGC-AAATC
6567160 AA
65 AA
6567162 TCAATAAGAA
Statistics
Matches: 175, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
127 22 0.13
128 1 0.01
129 17 0.10
130 17 0.10
131 29 0.17
133 2 0.01
134 54 0.31
135 3 0.02
136 30 0.17
ACGTcount: A:0.53, C:0.16, G:0.15, T:0.16
Consensus pattern (129 bp):
AATTGAACTGAAAGAACACAAAAAGCAAAGACTGTAGTTTGCAAAGAGCTAAGAACAGCAAATCA
ACAAAAGGGTCAATCAATAAAAATCAAACAATACAAAAAAAGTAAAAACAGACAAACCCATTTA
Found at i:6567202 original size:130 final size:130
Alignment explanation
Indices: 6566834--6567202 Score: 340
Period size: 134 Copynumber: 2.8 Consensus size: 130
6566824 CAGTCTTTAA
* * * * * *
6566834 TTGAACTGAAAGAACACAAAAAGCAAATG-CTGTGCAGTTTGCCAATAGCTAAGAACAGTAAAAT
1 TTGAACTGAAAGAACACAAAAAGCAAA-GACTGT--AATTT-CAAAGAACTAAGAACAGCAGAAT
* * * *
6566898 CAACAAAAGGAGCAATCAATAA-AAATCAAACAATACAAAAAAAAAAGTAAAAACAGACAAACCC
62 CAACAAAAGAATCAATCAATAAGAAA-CAAAC-A-A-AACAGAAAAAGTAAAAACAGACAAACCC
*
6566962 GTTTAAAT
123 ATTTAAAT
* *
6566970 TTGAACTGAAAGAACACAAAAATCAAAGACTGTAATTTGCAAAGAGCTAAGAACAGCAGAATCAA
1 TTGAACTGAAAGAACACAAAAAGCAAAGACTGTAATTT-CAAAGAACTAAGAACAGCAGAATCAA
** * * ** *
6567035 CAAAAGGGTCAGTCAATAAGAATCAAACAGTACAGAAAAAGTAAAAACAGACAAACCCATTTTAA
65 CAAAAGAATCAATCAATAAGAAACAAACAAAACAGAAAAAGTAAAAACAGACAAACCCATTTAAA
6567100 -
130 T
* *
6567100 TTGAACTGAAAGAACAC-GAAAGCAAAGACTGTAGTTT-AAAGAACTAAGAACAGCTA-AATCAA
1 TTGAACTGAAAGAACACAAAAAGCAAAGACTGTAATTTCAAAGAACTAAGAACAGC-AGAATCAA
*
6567162 TCAATAAGAATCAAAT-AGTAAAGAAACTAAA-AAAACAGAAA
65 -CAA-AAGAATC-AATCAAT-AAGAAAC-AAACAAAACAGAAA
6567203 GAAACCCATT
Statistics
Matches: 198, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
127 22 0.11
128 4 0.02
129 24 0.12
130 33 0.17
131 33 0.17
133 1 0.01
134 48 0.24
135 3 0.02
136 30 0.15
ACGTcount: A:0.54, C:0.15, G:0.14, T:0.16
Consensus pattern (130 bp):
TTGAACTGAAAGAACACAAAAAGCAAAGACTGTAATTTCAAAGAACTAAGAACAGCAGAATCAAC
AAAAGAATCAATCAATAAGAAACAAACAAAACAGAAAAAGTAAAAACAGACAAACCCATTTAAAT
Found at i:6570753 original size:52 final size:52
Alignment explanation
Indices: 6570696--6570802 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 52
6570686 AAAATAAAAA
* * *
6570696 GTTTGTAATTTAAATATTTGTGTTATATAATTTGGTCTTTTTTGTCACTATC
1 GTTTGTAATTTAAACATTTGTGTTATATAATTTGATCATTTTTGTCACTATC
6570748 GTTTGTAATTTAAACATTTGTGTTATATAATTTGATCATTTTTGTCACTATC
1 GTTTGTAATTTAAACATTTGTGTTATATAATTTGATCATTTTTGTCACTATC
6570800 GTT
1 GTT
6570803 AAAATTACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.24, C:0.08, G:0.13, T:0.54
Consensus pattern (52 bp):
GTTTGTAATTTAAACATTTGTGTTATATAATTTGATCATTTTTGTCACTATC
Found at i:6571570 original size:17 final size:16
Alignment explanation
Indices: 6571548--6571581 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6571538 AAAATTAAAA
*
6571548 AATATTTATTTTATTTT
1 AATATTTA-ATTATTTT
6571565 AATATTTAATTATTTT
1 AATATTTAATTATTTT
6571581 A
1 A
6571582 TACATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATATTTAATTATTTT
Found at i:6573200 original size:18 final size:17
Alignment explanation
Indices: 6573160--6573193 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
6573150 TATGTGATAG
6573160 AAATTAAATAATATATA
1 AAATTAAATAATATATA
6573177 AAATTAACATAATATAT
1 AAATTAA-ATAATATAT
6573194 TATATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTAAATAATATATA
Found at i:6574821 original size:17 final size:17
Alignment explanation
Indices: 6574801--6574836 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6574791 TAGAATGATC
*
6574801 ATAAATTTAATTTTAAA
1 ATAAATTTAATATTAAA
*
6574818 ATAATTTTAATATTAAA
1 ATAAATTTAATATTAAA
6574835 AT
1 AT
6574837 TTTGTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAATTTAATATTAAA
Found at i:6579186 original size:18 final size:18
Alignment explanation
Indices: 6579163--6579197 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6579153 AAGCTCTTTG
6579163 GCTAACAATTTCTATCAA
1 GCTAACAATTTCTATCAA
6579181 GCTAACAATTTCTATCA
1 GCTAACAATTTCTATCA
6579198 TTGATCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (18 bp):
GCTAACAATTTCTATCAA
Found at i:6579570 original size:46 final size:46
Alignment explanation
Indices: 6579511--6579600 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
6579501 ATGAACGTAA
*
6579511 TCTTTTAATTTATATAAAAATTTAAAGCCGATGGTTCTTGCTTTAG
1 TCTTTTAATTTATATAAAAATTTAAAGACGATGGTTCTTGCTTTAG
6579557 TCTTTTAGA-TTATATAAAAATTTAAAGACGATGGTTCTTGCTTT
1 TCTTTTA-ATTTATATAAAAATTTAAAGACGATGGTTCTTGCTTT
6579601 TGTTGCTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 41 0.98
47 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (46 bp):
TCTTTTAATTTATATAAAAATTTAAAGACGATGGTTCTTGCTTTAG
Found at i:6580023 original size:10 final size:10
Alignment explanation
Indices: 6579989--6580024 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
6579979 ATTTTCGTAA
6579989 TTTTTATCATG
1 TTTTTAT-ATG
6580000 -TTTTATATG
1 TTTTTATATG
6580009 TTTTTATATG
1 TTTTTATATG
6580019 TTTTTA
1 TTTTTA
6580025 AAATTTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 3 0.12
10 21 0.88
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (10 bp):
TTTTTATATG
Found at i:6584912 original size:15 final size:15
Alignment explanation
Indices: 6584889--6584919 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6584879 AGGGTTTGAC
6584889 TCAAATACATCAGTG
1 TCAAATACATCAGTG
*
6584904 TCAACTACATCAGTG
1 TCAAATACATCAGTG
6584919 T
1 T
6584920 TTGAAGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (15 bp):
TCAAATACATCAGTG
Found at i:6588665 original size:27 final size:27
Alignment explanation
Indices: 6588612--6588663 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6588602 TATTAGTTAC
* * *
6588612 TTGAATTAATTACTGTTTTTATCAAAT
1 TTGAATTAATTACTGATATTATAAAAT
6588639 TTGAATTAATTA-TGATATTATAAAA
1 TTGAATTAATTACTGATATTATAAAA
6588664 ATAGGGATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (27 bp):
TTGAATTAATTACTGATATTATAAAAT
Found at i:6600831 original size:14 final size:15
Alignment explanation
Indices: 6600805--6600839 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6600795 AATCTGTAAT
6600805 AAAATATTTAAAAAA
1 AAAATATTTAAAAAA
*
6600820 TAAATA-TTAAAAAA
1 AAAATATTTAAAAAA
6600834 AAAATA
1 AAAATA
6600840 CATGATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATATTTAAAAAA
Found at i:6602615 original size:19 final size:20
Alignment explanation
Indices: 6602578--6602616 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6602568 AGACTTTATC
6602578 TAATAAACCATTGAAAAAAT
1 TAATAAACCATTGAAAAAAT
6602598 TAATAAACCATT-AAAAAAT
1 TAATAAACCATTGAAAAAAT
6602617 ATTTTCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (20 bp):
TAATAAACCATTGAAAAAAT
Found at i:6603518 original size:34 final size:34
Alignment explanation
Indices: 6603454--6603523 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
6603444 TACTTTCAAA
* *
6603454 AAAATTATATTTTATTTAAATTTAATTTAATTTT
1 AAAATTATATTTTAATTAAATTTAATTTAATCTT
*
6603488 AAAATTATA-TTTAATTCAA-TTACATATTAATCTT
1 AAAATTATATTTTAATTAAATTTA-AT-TTAATCTT
6603522 AA
1 AA
6603524 GATGAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 3 0.10
33 10 0.32
34 18 0.58
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (34 bp):
AAAATTATATTTTAATTAAATTTAATTTAATCTT
Found at i:6618120 original size:30 final size:30
Alignment explanation
Indices: 6618048--6618128 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
6618038 GTTGAACTAC
* * * * **
6618048 TGGGTCGGGTGACTGTGTCGGTGCTGTTGC
1 TGGGTCGGGTGATTGTATGGGTGCTGATAA
* *
6618078 TGGGCCTGGTGATTGTATGGGTGCTGATAA
1 TGGGTCGGGTGATTGTATGGGTGCTGATAA
*
6618108 TGGGTCGGGTGATTGTCTGGG
1 TGGGTCGGGTGATTGTATGGG
6618129 CCTCGTTGAT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.09, C:0.12, G:0.46, T:0.33
Consensus pattern (30 bp):
TGGGTCGGGTGATTGTATGGGTGCTGATAA
Found at i:6619767 original size:14 final size:15
Alignment explanation
Indices: 6619750--6619779 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6619740 TTTACGATCT
6619750 AAAA-AAAATTCAAA
1 AAAATAAAATTCAAA
6619764 AAAATAAAATTCAAA
1 AAAATAAAATTCAAA
6619779 A
1 A
6619780 CTTTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAATTCAAA
Found at i:6619811 original size:28 final size:29
Alignment explanation
Indices: 6619769--6619824 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
6619759 TCAAAAAAAT
6619769 AAAATTCAAAACTTTTTTAAAAATAATTA
1 AAAATTCAAAACTTTTTTAAAAATAATTA
*
6619798 AAAATT-AAAGCTTTTTTAAAAATAATT
1 AAAATTCAAAACTTTTTTAAAAATAATT
6619825 TGAGAGGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAATTCAAAACTTTTTTAAAAATAATTA
Found at i:6619886 original size:10 final size:10
Alignment explanation
Indices: 6619821--6619897 Score: 100
Period size: 11 Copynumber: 7.2 Consensus size: 10
6619811 TTTTAAAAAT
6619821 AATTTGAGAGG
1 AATTTGAGA-G
6619832 AATTTGAGAAG
1 AATTTGAG-AG
6619843 AATTTGAGAAG
1 AATTTGAG-AG
6619854 AATTTGAGAG
1 AATTTGAGAG
6619864 AATATTAGAGAG
1 AAT-TT-GAGAG
*
6619876 AATTTGGGAG
1 AATTTGAGAG
6619886 AATTTGAGAG
1 AATTTGAGAG
6619896 AA
1 AA
6619898 AGGATTAAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
10 20 0.33
11 32 0.52
12 9 0.15
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:6622070 original size:60 final size:59
Alignment explanation
Indices: 6622004--6622134 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 59
6621994 AGCCAGCTAG
* * *
6622004 TGACCAAACAAGACAAAATT-GAATAGTTGGGTGACTATTTTGTAACTTTTCATAGTTGGA
1 TGACCAAA-AA-ACAAAATTAGAATAGTTGAGTGACCATTTTATAACTTTTCATAGTTGGA
* * * *
6622064 TGACCAAAAAAGAAATTTACTAATAGTTGAGTGACCATTTTATAACTTTTCATGGTT-GA
1 TGACCAAAAAACAAAATTA-GAATAGTTGAGTGACCATTTTATAACTTTTCATAGTTGGA
*
6622123 CTGACAAAAAAA
1 -TGACCAAAAAA
6622135 AACCCATAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
58 6 0.10
59 4 0.07
60 50 0.83
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (59 bp):
TGACCAAAAAACAAAATTAGAATAGTTGAGTGACCATTTTATAACTTTTCATAGTTGGA
Found at i:6627523 original size:41 final size:41
Alignment explanation
Indices: 6627478--6627559 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
6627468 TATGAGACTT
*
6627478 GTACTGAAAGATATTTAATTTTTAGTAAATAATGGATAGAG
1 GTACTGAAAGATATTTAATTTTTAGTAAATAAGGGATAGAG
6627519 GTACTGAAAGATATTTAATTTTTAGTAAATAAGGGATAGAG
1 GTACTGAAAGATATTTAATTTTTAGTAAATAAGGGATAGAG
6627560 CTGCCTAGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.35
Consensus pattern (41 bp):
GTACTGAAAGATATTTAATTTTTAGTAAATAAGGGATAGAG
Found at i:6636518 original size:262 final size:263
Alignment explanation
Indices: 6635799--6637899 Score: 1418
Period size: 262 Copynumber: 8.0 Consensus size: 263
6635789 ACTAAACACA
* * * ** ** **
6635799 GCTAACCGATAACTAAAGCCCCTTAAAAGGCCCCATTGACACCATTCAGGAAGAAGTCAAACACG
1 GCTAA-CGATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTCG
* * * ** * * *
6635864 AGCACCTAGTCTATCAAGTTAATTCCTCCATCACTCAAACCAGTCAATCTCACCGATGTTATCC-
65 AGCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAG-TATCCT
* * * *
6635928 ATAT-GGCTACTAGTTACATATGCAGAGTCAACAC--AGTATTTCAC----A---AGCAAAGAAA
129 ACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAA
* * * *
6635983 CAGAGGAAACACAATTAATAGTTTACTAAACTCACCAAGAGGCTT-AACTCCCCTCC-ATTGACA
194 CAGAGGAAACACAATTACTAGTTCAC-AAACTCACCAAGATGATTGAACTCCCCTCCAATTGACA
***
6636046 CATGGC
258 CACAAC
* * * * ** *
6636052 GCTAACCGATAACTAACACCCCTTAAAAGGATCCATTGACACCGTGGAACAAGAAGTCAAATTCA
1 GCTAA-CGATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTCG
* * * *
6636117 AGCACCTAGTCTCTAAAGTCAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAATGTTATCCT
65 AGCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAG-TATCCT
** *
6636182 ACATGGGCTACAACTTAAATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAA
129 ACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAA
* *
6636247 CAAAGGAAACACGATTACTAGTTCACAGAACTCACC-A-A-GATTGAACT-CCCTCCAATTGACA
194 CAGAGGAAACACAATTACTAGTTCACA-AACTCACCAAGATGATTGAACTCCCCTCCAATTGACA
*
6636308 CACAAT
258 CACAAC
* * * * *
6636314 GCTAACTGATAACAAAAACCCCCTTAAAAGGCTCCTTTGACACTGTTCAACAATAAGTCAAATTT
1 GCTAAC-GATAACTAAAA-CCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTC
** * * *
6636379 GAGC-GTTCAGTCTATTGAGTTAATTCTTCCTTTTCTCAAACTAGTCAATCTCATCAAAGTATCC
64 GAGCACCT-AGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAGTATCC
* * ** * * * **
6636443 TATATAAGC-AGCTACTGCCATATGCAAAGTCAACAGAAAGTATTTCCCAT-TCAGTTAGGGAAG
128 TACATAAGCTA-CAACTTACATATGCAGAGTCAACACAAAGTATTTCACATAT-AGTTAGCAAAG
* *
6636506 AAACAGAGGAAACACAATTAAC-AGTTCACTAAACTCACCGAGATGATTGAACT-CCCT-GATCA
191 AAACAGAGGAAACACAATT-ACTAGTTCAC-AAACTCACCAAGATGATTGAACTCCCCTCCA--A
6636568 TTGACACACAAC
252 TTGACACACAAC
* * * * * *
6636580 GCAAAGCCATAA-TAAAA-CCCTTAAAAAGCCCCATTGACACCGCTCAACATGAAGTCAAATTCG
1 GCTAA-CGATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTCG
* * * ** *
6636643 AGCACCTAGTCT-CTAAGGTCAAATTCTTCCCTCACTCAAACTAGTCAATCTCACCAATGTCATC
65 AGCACCTAGTCTATTAA-GT-TAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAGT-ATC
** *
6636707 CTACATGGGCTACAACTTACATATGCAGAGTCAACACAAGGTATTTCACATATAGTTAGCAAAGA
127 CTACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGA
* *
6636772 AAC--A--AAAGA-AA--ACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCCTCCAATTGA
192 AACAGAGGAAACACAATTACTAGTTCAC-AAACTCACCAAGATGATTGAACTCCCCTCCAATTGA
*
6636830 CACACAAT
256 CACACAAC
* * *
6636838 GCTAACAGATAACTAAAA-CCCTTAAAAACCTCCATTGAGACTGCTCAACAAGAAGTCAAA-TCT
1 GCTAAC-GATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTC-
* *
6636901 GAGCACCTAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATCTCATCAACA-TATCC
64 GAGCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAA-AGTATCC
* * * * * * * * * * **
6636965 CAGATAAGCTACTACTTCCGTATGCATAGTCAACAGAAAGAATTTCCCATTTAGTTAGTGAAGAA
128 TACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAA
* *
6637030 ACAGGGGAAACACAATTAAC-AGTTCACTGAACTCACCAAGATGATTGAACTCCCCTCC-ATTG-
193 ACAGAGGAAACACAATT-ACTAGTTCAC-AAACTCACCAAGATGATTGAACTCCCCTCCAATTGA
*
6637092 -ATACAAC
256 CACACAAC
* * * *
6637099 ACTAACGCATAATTAAAACCCCTTAAAAATCTCCATTGACACT-TCTCAACAAGAAGTCAAATTG
1 GCTAACG-ATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGT-TCAACAAGAAGTCAAATTC
* * * * *
6637163 GAGCACATAGTCTACTAAGCTAATTCTTCCATTGCTCAAACTAGTCAATCACACCAAAATGCCAA
64 GAGCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACC-AAA-G----
* * * * * **
6637228 ATTATCCTACAT--G-GACTACTTACACATGCAGAGTCAACAC--AGTATTTCACACACAACTAG
123 --TATCCTACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAG
* * * *
6637288 CAGAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAAGATTGAACTCCCCTCC
186 CAAAGAAACAGAGGAAACACAATTACTAGTTCAC-AAACTCACCAAGATGATTGAACTCCCCTCC
* * *
6637353 -ATTGAAACAAAAT
250 AATTGACACACAAC
* * * * *
6637366 GCTAACCGATAATTAAAACCCCTT-AAAAGGTGCCATGGACACTGTTCAAGAACAAGTCAAATTC
1 GCTAA-CGATAACTAAAACCCCTTAAAAAGCT-CCATTGACACTGTTCAACAAGAAGTCAAATTC
* * * * *
6637430 AAGCACCTAGTGGTCCTAGTCT-A-CTAAGTTTTTCCTTTGCTCAAACT-GTTCAATCACATCAA
64 GAGCACCTA---GT-CTA-T-TAAGTTAA-TTCTTCCTTTGCTCAAACTAG-TCAATCTCACCAA
* * ** * * * * * ***
6637492 TTGGCTAATCCTATATGGGTTACTACTTACATATACAGAGCCAACACCAAGTATTTCACACGCAG
121 --AG-T-ATCCTACATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAG
* ** * * * * * * * *
6637557 CTAGTGAAGAATCAGAGGAAACACGATTAATAATTCACTAAACTCGCCAAGAGGACTGAATTCCC
182 TTAGCAAAGAAACAGAGGAAACACAATTACTAGTTCAC-AAACTCACCAAGATGATTGAACTCCC
* **
6637622 CTCC-ATTGACACATAGT
246 CTCCAATTGACACACAAC
* * * * * * ** * * *
6637639 GCTAGCTGATAATTAAAACCTCTT-ATAGGCGCCATTGACACCATTCAAGAAGAAGTCAATTTCA
1 GCTAAC-GATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTCG
* ** * * * *
6637703 AGCACCAGCTGGTCCTAGTCT-A-TTAAGGTT-TTGATTTGCTCAAACAAGTCGACCACACCAAT
65 AGCA-C--CTAGT-CTA-T-TAAGTTAA--TTCTTCCTTTGCTCAAACTAGTCAATCTCACCAA-
* * * ** * * * * *
6637765 GGGTTAATCTTAAATGAAG-TATTACTCACACATGCAGAGTCCATACAAAATATTTCACATATAG
121 -AG-T-ATCCTACAT-AAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAG
* * ** * * *
6637829 CTAGCTAAGAAACAGAGGAAACACAACCAATAGTTCACTAAAACTCACCAAGAGGATTGAACTCT
182 TTAGCAAAGAAACAGAGGAAACACAATTACTAGTTCAC--AAACTCACCAAGATGATTGAACTCC
6637894 CCTCCA
245 CCTCCA
6637900 TAGCCATCAA
Statistics
Matches: 1488, Mismatches: 267, Indels: 165
0.77 0.14 0.09
Matches are distributed among these distances:
253 108 0.07
254 3 0.00
255 27 0.02
257 69 0.05
258 82 0.06
259 61 0.04
260 7 0.00
261 40 0.03
262 204 0.14
263 148 0.10
264 113 0.08
265 146 0.10
266 27 0.02
267 80 0.05
268 12 0.01
270 11 0.01
271 33 0.02
272 175 0.12
273 140 0.09
275 2 0.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (263 bp):
GCTAACGATAACTAAAACCCCTTAAAAAGCTCCATTGACACTGTTCAACAAGAAGTCAAATTCGA
GCACCTAGTCTATTAAGTTAATTCTTCCTTTGCTCAAACTAGTCAATCTCACCAAAGTATCCTAC
ATAAGCTACAACTTACATATGCAGAGTCAACACAAAGTATTTCACATATAGTTAGCAAAGAAACA
GAGGAAACACAATTACTAGTTCACAAACTCACCAAGATGATTGAACTCCCCTCCAATTGACACAC
AAC
Found at i:6637050 original size:522 final size:520
Alignment explanation
Indices: 6635977--6637393 Score: 1697
Period size: 522 Copynumber: 2.7 Consensus size: 520
6635967 TTCACAAGCA
* * * *
6635977 AAGAAACAGAGGAAACACAATTAATAGTTTACTAAACTCACCAAGAGGCTT-AACTCCCCTCCAT
1 AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGATGATTGAACTCCCCTCCAT
*** * * * *
6636041 TGACACATGGCGCTAACCGATAACTAACACCCCTTAAAAGGATCCATTGACACCG-TGGAACAAG
66 TGACACACAACGCTAACC-ATAACTAA-AACCCTTAAAAAGCTCCATTGACACCGCT-CAACAAG
* *
6636105 AAGTCAAATTCAAGCACCTAGTCTCTAAAGTCAATTCTTCCTTTGCTCAAACTAGTCAATCTCAC
128 AAGTCAAATTCGAGCACCTAGTCTCT-AAGTCAATTCTTCCATTGCTCAAACTAGTCAATCTCAC
*
6636170 CAATGTTATCCTACATGGGCTACAACTTAAATATGCAGAGTCAACACAAAGTATTTCACATATAG
192 CAATGTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACAC-AAGTATTTCACATATAG
*
6636235 TTAGCAAAGAAACAAAGGAAACACGATTACTAGTTCACAGAACTCACC-A-AGATTGAACT-CCC
256 TTAGCAAAGAAACAAA--AAACA--A-TACTAGTTCACAAAACTCACCAAGAGATTGAACTCCCC
* * ** * *
6636297 TCCAATTGACACACAATGCTAACTGATAACAAAAACCCCCTTAAAAGGCTCCTTTGACACTGTTC
316 TCCAATTGACACACAATGCTAACAGATAACTAAAA-CCCCTTAAAAACCTCCATTGACACTGCTC
* * ** * * *
6636362 AACAATAAGTCAAATTTGAGCGTTCAGTCTATTGAGTTAATTCTTCCTTTTCTCAAACTAGTCAA
380 AACAAGAAGTCAAATCTGAGCCCTCAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAA
* * *
6636427 TCTCATCAAAGTATCCTATATAAGCAGCTACTGCCATATGCAAAGTCAACAGAAAGTATTTCCCA
445 TCTCATCAAAGTATCCCAGATAAGCAGCTACTGCCATATGCAAAGTCAACAGAAAGAATTTCCCA
6636492 TTCAGTTAGGG
510 TTCAGTTAGGG
* *
6636503 AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCGAGATGATTGAACT-CCCTGATC
1 AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGATGATTGAACTCCCCT--CC
* * *
6636567 ATTGACACACAACGCAAAGCCATAA-TAAAACCCTTAAAAAGCCCCATTGACACCGCTCAACATG
64 ATTGACACACAACGCTAA-CCATAACTAAAACCCTTAAAAAGCTCCATTGACACCGCTCAACAAG
* **
6636631 AAGTCAAATTCGAGCACCTAGTCTCTAAGGTCAAATTCTTCCCTCACTCAAACTAGTCAATCTCA
128 AAGTCAAATTCGAGCACCTAGTCTCTAA-GTC-AATTCTTCCATTGCTCAAACTAGTCAATCTCA
*
6636696 CCAATGTCATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAGGTATTTCACATATA
191 CCAATGTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAA-GTATTTCACATATA
*
6636761 GTTAGCAAAGAAACAAAAGA-AA-ACTAGTTCACAAAACTCACCAAGAGGATTGAACTCCCCTCC
255 GTTAGCAAAGAAACAAAAAACAATACTAGTTCACAAAACTCACCAAGA-GATTGAACTCCCCTCC
*
6636824 AATTGACACACAATGCTAACAGATAACTAAAA-CCCTTAAAAACCTCCATTGAGACTGCTCAACA
319 AATTGACACACAATGCTAACAGATAACTAAAACCCCTTAAAAACCTCCATTGACACTGCTCAACA
6636888 AGAAGTCAAATCTGAGCACCT-AGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATCT
384 AGAAGTCAAATCTGAGC-CCTCAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATCT
* * *
6636952 CATCAACA-TATCCCAGATAAGCTA-CTACTTCCGTATGCATAGTCAACAGAAAGAATTTCCCAT
448 CATCAA-AGTATCCCAGATAAGC-AGCTACTGCCATATGCAAAGTCAACAGAAAGAATTTCCCAT
* *
6637015 TTAGTTAGTG
511 TCAGTTAGGG
* *
6637025 AAGAAACAGGGGAAACACAATTAACAGTTCACTGAACTCACCAAGATGATTGAACTCCCCTCCAT
1 AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGATGATTGAACTCCCCTCCAT
* * * * **
6637090 TG--ATACAACACTAACGCATAATTAAAACCCCTTAAAAATCTCCATTGACACTTCTCAACAAGA
66 TGACACACAACGCTAAC-CATAACTAAAA-CCCTTAAAAAGCTCCATTGACACCGCTCAACAAGA
* * *
6637153 AGTCAAATTGGAGCACATAGTCTACTAAG-CTAATTCTTCCATTGCTCAAACTAGTCAATCACAC
129 AGTCAAATTCGAGCACCTAGTCT-CTAAGTC-AATTCTTCCATTGCTCAAACTAGTCAATCTCAC
* *
6637217 CAAAATGCCAAATTATCCTACAT-GG--ACTACTTACACATGCAGAGTCAACAC-AGTATTTCAC
192 C--AATG-----TTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAGTATTTCAC
* * ** * * * *
6637278 ACACAACTAGCAGAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAAGATTGA
250 ATATAGTTAGCAAAGAAACA-A--AAA-ACAA-TACTAGTTCACAAAACTCACCAAG-AGATTGA
* * * *
6637343 ACTCCCCTCC-ATTGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAA
309 ACTCCCCTCCAATTGACACACAATGCTAACAGATAACTAAAACCCCTTAAAA
6637394 GGTGCCATGG
Statistics
Matches: 774, Mismatches: 81, Indels: 69
0.84 0.09 0.07
Matches are distributed among these distances:
518 1 0.00
519 14 0.02
520 55 0.07
521 58 0.07
522 230 0.30
523 18 0.02
524 61 0.08
525 6 0.01
526 111 0.14
527 126 0.16
528 46 0.06
529 47 0.06
530 1 0.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (520 bp):
AAGAAACAGAGGAAACACAATTAACAGTTCACTAAACTCACCAAGATGATTGAACTCCCCTCCAT
TGACACACAACGCTAACCATAACTAAAACCCTTAAAAAGCTCCATTGACACCGCTCAACAAGAAG
TCAAATTCGAGCACCTAGTCTCTAAGTCAATTCTTCCATTGCTCAAACTAGTCAATCTCACCAAT
GTTATCCTACATGGGCTACAACTTACATATGCAGAGTCAACACAAGTATTTCACATATAGTTAGC
AAAGAAACAAAAAACAATACTAGTTCACAAAACTCACCAAGAGATTGAACTCCCCTCCAATTGAC
ACACAATGCTAACAGATAACTAAAACCCCTTAAAAACCTCCATTGACACTGCTCAACAAGAAGTC
AAATCTGAGCCCTCAGTCTATTAAGTTAAGTCTTCCTTTGCTCAAACTAGTCAATCTCATCAAAG
TATCCCAGATAAGCAGCTACTGCCATATGCAAAGTCAACAGAAAGAATTTCCCATTCAGTTAGGG
Found at i:6637847 original size:272 final size:272
Alignment explanation
Indices: 6637025--6637900 Score: 778
Period size: 272 Copynumber: 3.2 Consensus size: 272
6637015 TTAGTTAGTG
* * * * *
6637025 AAGAAACAGGGGAAACACAATTAACAGTTCACTGAACTCACCAAGATGATTGAACTCCCCTCCAT
1 AAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCAT
* * ** * * * *
6637090 TGATACAACA--CTAA-CGCATAATTAAAACCCCTTAAAAATCTCCATTGACA-CTTCTCAACAA
66 TGAAACAAAATGCTAACCG-ATAATTAAAACCCCTTAAAAGGCGCCATGGACACCAT-TCAAGAA
* ** *
6637151 GAAGTCAAATTGGAGCA-C-A-TAGT-CTA--CTAAGCTAA--TTCTTCCA-TTGCTCAAACTAG
129 CAAGTCAAATTCAAGCACCTAGTGGTCCTAGTCT-A-CTAAGGTT-TT-CATTTGCTCAAAC-AG
* * * *
6637207 -TCAATCACACCAAAAT-GCCAAATTATCCTACATG-G--ACTACTTACACATGCAGAGT-CAAC
189 TTCAACCACACC--AATGGGC---TAATCCTAAATGAGTTACTACTTACACATGCAGAGTCCAAC
* *
6637266 ACAGTATTTCACACACAACTAGC-
249 AAAGTATTTCACACACAGCTAGCT
*
6637289 AGAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAAGATTGAACTCCCCTCCA
1 A-AGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCA
* **
6637354 TTGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAAGGTGCCATGGACACTGTTCAAGAAC
65 TTGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAAGGCGCCATGGACACCATTCAAGAAC
* * * *
6637419 AAGTCAAATTCAAGCACCTAGTGGTCCTAGTCTACTAAGTTTTTCCTTTGCTCAAACTGTTCAAT
130 AAGTCAAATTCAAGCACCTAGTGGTCCTAGTCTACTAAGGTTTTCATTTGCTCAAACAGTTCAAC
* * * * * *
6637484 CACATCAATTGGCTAATCCTATATGGGTTACTACTTACATATACAGAG-CCAACACCAAGTATTT
195 CACACCAATGGGCTAATCCTAAATGAGTTACTACTTACACATGCAGAGTCCAACA--AAGTATTT
*
6637548 CACACGCAGCTAG-T
258 CACACACAGCTAGCT
* * * * *
6637562 GAAGAATCAGAGGAAACACGATTAATAATTCACTAAACTCGCCAAGAGGACTGAATTCCCCTCCA
1 -AAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCA
* * * * * * * * *
6637627 TTGACACATAGTGCTAGCTGATAATTAAAACCTCTT-ATAGGCGCCATTGACACCATTCAAGAAG
65 TTGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAAGGCGCCATGGACACCATTCAAGAAC
* * * *
6637691 AAGTCAATTTCAAGCACC-AGCTGGTCCTAGTCTATTAAGGTTTTGATTTGCTCAAACAAG-TCG
130 AAGTCAAATTCAAGCACCTAG-TGGTCCTAGTCTACTAAGGTTTTCATTTGCTCAAAC-AGTTCA
* * * * *
6637754 ACCACACCAATGGGTTAATCTTAAATGAAG-TATTACTCACACATGCAGAGTCCATACAAAATAT
193 ACCACACCAATGGGCTAATCCTAAATG-AGTTACTACTTACACATGCAGAGTCCA-ACAAAGTAT
* *
6637818 TTCACATATAGCTAGCT
256 TTCACACACAGCTAGCT
** * *
6637835 AAGAAACAGAGGAAACACAACCAATAGTTCACTAAAACTCACCAAGAGGATTGAACTCTCCTCCA
1 AAGAAACAGAGGAAACACAATTAATAATTCACT-AAACTCACCAAGAGGATTGAACTCCCCTCCA
6637900 T
65 T
6637901 AGCCATCAAG
Statistics
Matches: 502, Mismatches: 79, Indels: 53
0.79 0.12 0.08
Matches are distributed among these distances:
264 1 0.00
265 67 0.13
267 52 0.10
268 14 0.03
269 2 0.00
270 6 0.01
271 35 0.07
272 178 0.35
273 143 0.28
274 4 0.01
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (272 bp):
AAGAAACAGAGGAAACACAATTAATAATTCACTAAACTCACCAAGAGGATTGAACTCCCCTCCAT
TGAAACAAAATGCTAACCGATAATTAAAACCCCTTAAAAGGCGCCATGGACACCATTCAAGAACA
AGTCAAATTCAAGCACCTAGTGGTCCTAGTCTACTAAGGTTTTCATTTGCTCAAACAGTTCAACC
ACACCAATGGGCTAATCCTAAATGAGTTACTACTTACACATGCAGAGTCCAACAAAGTATTTCAC
ACACAGCTAGCT
Found at i:6639800 original size:21 final size:21
Alignment explanation
Indices: 6639757--6639800 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6639747 TTAAAATATT
* *
6639757 AAAAATTTTATAAAAACGTAA
1 AAAAATTCTATAAAAACATAA
6639778 AAAAATTCTATAAAAA-ATAA
1 AAAAATTCTATAAAAACATAA
6639798 AAA
1 AAA
6639801 TATTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAAATTCTATAAAAACATAA
Found at i:6640388 original size:36 final size:34
Alignment explanation
Indices: 6640320--6640428 Score: 96
Period size: 34 Copynumber: 3.1 Consensus size: 34
6640310 ATTTTAAATA
* *
6640320 AATTTTATTAATTTTATATTTTTTATAA--TTTAT
1 AATTTT-TTATTTTTATATATTTTATAATGTTTAT
*
6640353 AATTTATTTGATTTTTATGTATTTTATAATGTTTAT
1 AATTT-TTT-ATTTTTATATATTTTATAATGTTTAT
* * *
6640389 AAGTTTTTTATTTTTTTCTTATTCTTATAATGTTTTT
1 AA-TTTTTTATTTTTAT-ATATT-TTATAATGTTTAT
6640426 AAT
1 AAT
6640429 GATTTTATGG
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
33 7 0.11
34 17 0.27
35 7 0.11
36 15 0.24
37 17 0.27
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (34 bp):
AATTTTTTATTTTTATATATTTTATAATGTTTAT
Found at i:6645190 original size:29 final size:28
Alignment explanation
Indices: 6645149--6645213 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 28
6645139 GATTTCCCGG
* *
6645149 AAAAAGGATCATTCCGGTAAATAATTAA
1 AAAAAGGGTCATTCCGATAAATAATTAA
* * **
6645177 AAAAAGGGTCCATTTCGATAATTTTTTAA
1 AAAAAGGGT-CATTCCGATAAATAATTAA
6645206 AAAAAGGG
1 AAAAAGGG
6645214 CTTTTATTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (28 bp):
AAAAAGGGTCATTCCGATAAATAATTAA
Found at i:6646563 original size:16 final size:16
Alignment explanation
Indices: 6646542--6646572 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6646532 TTTATAAGTT
*
6646542 TATAATGTTCCAAATC
1 TATAATATTCCAAATC
6646558 TATAATATTCCAAAT
1 TATAATATTCCAAAT
6646573 TCATAGTAGA
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:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (16 bp):
TATAATATTCCAAATC
Found at i:6650622 original size:30 final size:30
Alignment explanation
Indices: 6650586--6650646 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
6650576 GCTTTACAGG
6650586 TCAACCAATTTAATAACTTTTCCGAACTGA
1 TCAACCAATTTAATAACTTTTCCGAACTGA
6650616 TCAACCAATTTAATAACTTTTCCGAACTGA
1 TCAACCAATTTAATAACTTTTCCGAACTGA
6650646 T
1 T
6650647 ACCCCGATCC
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:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (30 bp):
TCAACCAATTTAATAACTTTTCCGAACTGA
Found at i:6650849 original size:5 final size:5
Alignment explanation
Indices: 6650839--6650866 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6650829 TACCAGCACG
6650839 CATAT CATAT CATAT CATAT CATAT CAT
1 CATAT CATAT CATAT CATAT CATAT CAT
6650867 TTCCTAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:6653328 original size:16 final size:16
Alignment explanation
Indices: 6653307--6653339 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6653297 GCAGACGCAA
6653307 AGCAGCATAGCACCAT
1 AGCAGCATAGCACCAT
6653323 AGCAGCATAGCACCAT
1 AGCAGCATAGCACCAT
6653339 A
1 A
6653340 AGTCAATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.12
Consensus pattern (16 bp):
AGCAGCATAGCACCAT
Found at i:6654634 original size:254 final size:254
Alignment explanation
Indices: 6654209--6655044 Score: 897
Period size: 254 Copynumber: 3.2 Consensus size: 254
6654199 AAGCATGTTT
* *
6654209 AATTGGAATAAACAATTAATTAAATAAATCTCGAGTT-GCAGCGAAAAAAACTTCAAAAGCAACG
1 AATTGGAATAAACAATTAATTAAAGAAATCTCGA-TTAGCA--GTAAAAAACTTCAAAAGCAACG
* * *
6654273 GAGAGAAACCAGTAAAATGCAATGCAATCTCGTCAACTAAGTATTACACTGTTTTTGGCTGAACT
63 GAGAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACT
* * * * *
6654338 ATGTTAAACTTGAATAAACAGCTAATTAAAAAAATCTTGATTAGCAGTGAAC-AAAAAGAATCAA
128 ATGTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTGAACAAAAAAGAAGCAA
* * * *
6654402 AAGAAAAATGCAAT-TAATCACATATGACTAAGTATTACACTGTTTTCTGTTGAACTAAGGTC
193 AAGAAAAATGCAATAAAATCACAT-CGACTAAGTATTACACTGTTATCTGATGAACTAAGGTC
* *
6654464 AATTGGAATTAACAATTAATTGAAGAAATCTCGATTAGCAGTAAAAGAACTTCAAAAGCAACGGA
1 AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGCAGTAAAA-AACTTCAAAAGCAACGGA
6654529 GAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTAT
65 GAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTAT
6654594 GTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTGCAAAAAAACAAAAAAAGA
130 GTTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTG------AAC-AAAAAAGA
* **
6654659 AGCAAAAGCAAAATGCAATAAAATCACATCGACTAAGTATTACACTGTTATCTGATGAACTAATT
188 AGCAAAAGAAAAATGCAATAAAATCACATCGACTAAGTATTACACTGTTATCTGATGAACTAAGG
6654724 TC
253 TC
* * * * * * *
6654726 AATTGGAATAAACAACTAATCAAAGAAATCTTGTATTAGCATTGAAAAACAATCAAAAGCAAATT
1 AATTGGAATAAACAATTAATTAAAGAAATCTCG-ATTAGCAGTAAAAAAC-TTCAAAAGC-AA-C
* * * ** * * * * *
6654791 AGAAAAAAAAAAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTTATCT-GATGGA
62 GGAGAGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTT-TTTGGATGAA
* * *
6654855 CTAAGTTCAATTGGAATAAACAACTAATCAAAGAAATCTTGGATTAGCAGTGAAAAACAATCAAA
126 CTATGTTCAATTTGAATAAACAACTAATTAAAGAAATCTT-GATTAGCAGTG---AACAA--AAA
* * *
6654920 AGCAAATTAGAAAAAGAAAAACAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTT
185 AG---A--AGCAAAAG------A--AAAATGCAATAAAATCACATCGACTAAGTATTACACTGTT
*
6654985 ATCTGATGAACTAAGTTC
237 ATCTGATGAACTAAGGTC
* * * *
6655003 AATTCGAATAAACAATTAATTAAACAAATCTTGAGTAGCAGT
1 AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGCAGT
6655045 TTAAAAAAAA
Statistics
Matches: 497, Mismatches: 52, Indels: 43
0.84 0.09 0.07
Matches are distributed among these distances:
253 5 0.01
254 125 0.25
255 34 0.07
260 3 0.01
262 90 0.18
263 33 0.07
264 7 0.01
265 88 0.18
266 13 0.03
267 1 0.00
269 7 0.01
276 7 0.01
277 84 0.17
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (254 bp):
AATTGGAATAAACAATTAATTAAAGAAATCTCGATTAGCAGTAAAAAACTTCAAAAGCAACGGAG
AGAAACCAGTAAAATGCAATACAATCTCGTCGACTAAGTATTACACTGTTTTTGGATGAACTATG
TTCAATTTGAATAAACAACTAATTAAAGAAATCTTGATTAGCAGTGAACAAAAAAGAAGCAAAAG
AAAAATGCAATAAAATCACATCGACTAAGTATTACACTGTTATCTGATGAACTAAGGTC
Found at i:6654815 original size:137 final size:139
Alignment explanation
Indices: 6654652--6655044 Score: 630
Period size: 137 Copynumber: 2.8 Consensus size: 139
6654642 AAAAAAACAA
* * *
6654652 AAAAAGAAGCAAAAGCAAAATGCAATAAAATCACATCGACTAAGTATTACACTGTTATCTGATGA
1 AAAAAGAA--AAAAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTTATCTGATGA
* * *
6654717 ACTAATTTCAATTGGAATAAACAACTAATCAAAGAAATCTTGTATTAGCATTGAAAAACAATCAA
64 ACTAAGTTCAATTGGAATAAACAACTAATCAAAGAAATCTTGGATTAGCAGTGAAAAACAATCAA
6654782 AAGCAAATTAG
129 AAGCAAATTAG
*
6654793 -AAAA-AAAAAAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTTATCTGATGGAC
1 AAAAAGAAAAAAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTTATCTGATGAAC
6654856 TAAGTTCAATTGGAATAAACAACTAATCAAAGAAATCTTGGATTAGCAGTGAAAAACAATCAAAA
66 TAAGTTCAATTGGAATAAACAACTAATCAAAGAAATCTTGGATTAGCAGTGAAAAACAATCAAAA
6654921 GCAAATTAG
131 GCAAATTAG
6654930 AAAAAGAAAAACAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTTATCTGATGAA
1 AAAAAGAAAAA-AGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTTATCTGATGAA
* * * * *
6654995 CTAAGTTCAATTCGAATAAACAATTAATTAAACAAATCTT-GAGTAGCAGT
65 CTAAGTTCAATTGGAATAAACAACTAATCAAAGAAATCTTGGATTAGCAGT
6655045 TTAAAAAAAA
Statistics
Matches: 236, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
137 124 0.53
138 4 0.02
139 16 0.07
140 92 0.39
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.24
Consensus pattern (139 bp):
AAAAAGAAAAAAGTAAAATACAATACAATCACATCGACTAAGTATTACACTGTTATCTGATGAAC
TAAGTTCAATTGGAATAAACAACTAATCAAAGAAATCTTGGATTAGCAGTGAAAAACAATCAAAA
GCAAATTAG
Found at i:6656106 original size:23 final size:24
Alignment explanation
Indices: 6656067--6656115 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
6656057 ATGGTTTTTG
*
6656067 AATATTATTTGATAATATTTC-AA
1 AATATTATTTCATAATATTTCTAA
6656090 AATATT-TTTCATAAATATTTCTAA
1 AATATTATTTCAT-AATATTTCTAA
6656114 AA
1 AA
6656116 ATATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (24 bp):
AATATTATTTCATAATATTTCTAA
Found at i:6666747 original size:17 final size:17
Alignment explanation
Indices: 6666725--6666770 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
6666715 AATGACATTG
6666725 TAATGAATTTAAATTTA
1 TAATGAATTTAAATTTA
*** *
6666742 TAATGAATTTTTTTTTG
1 TAATGAATTTAAATTTA
6666759 TAATGAATTTAA
1 TAATGAATTTAA
6666771 CGATATCAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TAATGAATTTAAATTTA
Found at i:6676387 original size:21 final size:21
Alignment explanation
Indices: 6676360--6676414 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
6676350 AACAGCGGTG
*
6676360 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
* * *
6676381 GCTGTGAGATTGGGTATTGTA
1 GCGGTGAGATTAGGTACTGTA
6676402 GCGGTGAGATTAG
1 GCGGTGAGATTAG
6676415 AAACAATGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.07, G:0.38, T:0.33
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:6680441 original size:56 final size:56
Alignment explanation
Indices: 6680363--6680477 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
6680353 TTTTAATATA
6680363 GGTTATGCTCATCCAGTTGAGGGAATACATGTCCTTGTTGACATACAAAATATGGT
1 GGTTATGCTCATCCAGTTGAGGGAATACATGTCCTTGTTGACATACAAAATATGGT
*
6680419 GGTTATGCTCATCCAGTTGAGGGAATACATGTTCTTGTTGACATACAAAATATGGT
1 GGTTATGCTCATCCAGTTGAGGGAATACATGTCCTTGTTGACATACAAAATATGGT
6680475 GGT
1 GGT
6680478 GATTGAATTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
GGTTATGCTCATCCAGTTGAGGGAATACATGTCCTTGTTGACATACAAAATATGGT
Found at i:6685510 original size:21 final size:22
Alignment explanation
Indices: 6685469--6685511 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6685459 TCAATACTCG
*
6685469 ATTTTTTTTAATTTTATATTAA
1 ATTTTTTTTAATTTCATATTAA
*
6685491 ATTTTTTTTTATTTCA-ATTAA
1 ATTTTTTTTAATTTCATATTAA
6685512 GTACTCGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTTTTTAATTTCATATTAA
Found at i:6689693 original size:60 final size:62
Alignment explanation
Indices: 6689570--6689697 Score: 138
Period size: 60 Copynumber: 2.1 Consensus size: 62
6689560 TTGGGATAAT
* * * * *
6689570 AATAAGTTTAACTCTCCAATGTTCACAGATTCTATCAATTTTGTTTTAATTCTAAAAAATTC
1 AATAAATTTAACTCTCCAATGTTCACACATTCTATCAATTTAGTCTTAATTATAAAAAATTC
* * * *
6689632 AATAAATTTAACTCT-CAACT-TT-ACACATTTTATCAATTTAGTCTTATTTATTAAAGATTC
1 AATAAATTTAACTCTCCAA-TGTTCACACATTCTATCAATTTAGTCTTAATTATAAAAAATTC
6689692 AA-AAAT
1 AATAAAT
6689698 GTAAAATGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 4 0.07
60 32 0.57
61 5 0.09
62 15 0.27
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (62 bp):
AATAAATTTAACTCTCCAATGTTCACACATTCTATCAATTTAGTCTTAATTATAAAAAATTC
Found at i:6689758 original size:22 final size:23
Alignment explanation
Indices: 6689733--6689779 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
6689723 AAAGAGTTTG
6689733 TTTTTGAT-AAAAAT-ACATAAAA
1 TTTTT-ATAAAAAATGACATAAAA
6689755 -TTTTATAAAAAATGACATAAAA
1 TTTTTATAAAAAATGACATAAAA
6689777 TTT
1 TTT
6689780 ATTTATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.09
21 10 0.45
22 8 0.36
23 2 0.09
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
TTTTTATAAAAAATGACATAAAA
Found at i:6690976 original size:31 final size:31
Alignment explanation
Indices: 6690941--6691000 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
6690931 CACTGCACTA
6690941 AAAAATTATG-ATGTTAATCTCTATACTTTAC
1 AAAAATTATGAAT-TTAATCTCTATACTTTAC
* *
6690972 AAAAATTATGAATTTAGTCTCTGTACTTT
1 AAAAATTATGAATTTAATCTCTATACTTT
6691001 GATTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (31 bp):
AAAAATTATGAATTTAATCTCTATACTTTAC
Found at i:6696719 original size:12 final size:12
Alignment explanation
Indices: 6696688--6696712 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6696678 ACAACAATAG
6696688 GAAAAGTATATT
1 GAAAAGTATATT
6696700 GAAAAGTATATT
1 GAAAAGTATATT
6696712 G
1 G
6696713 CCAAGTAGGA
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:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (12 bp):
GAAAAGTATATT
Found at i:6703090 original size:7 final size:7
Alignment explanation
Indices: 6703078--6703104 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6703068 ATATGGATTG
6703078 TAACATA
1 TAACATA
6703085 TAACATA
1 TAACATA
6703092 TAACATA
1 TAACATA
6703099 TAACAT
1 TAACAT
6703105 TGTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (7 bp):
TAACATA
Found at i:6704376 original size:17 final size:18
Alignment explanation
Indices: 6704354--6704390 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6704344 AAAATTTTTT
6704354 AAAATAAAAATA-TATTA
1 AAAATAAAAATAGTATTA
*
6704371 AAAATAAAAGTAGTATTA
1 AAAATAAAAATAGTATTA
6704389 AA
1 AA
6704391 TCAATTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATAAAAATAGTATTA
Found at i:6705601 original size:31 final size:29
Alignment explanation
Indices: 6705542--6705601 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
6705532 TTTAGATGTA
*
6705542 ACATTGAACATTTTCAAAATCTAGATACC
1 ACATTGAACATTTTCAAAATATAGATACC
*
6705571 ACATTGAACATTTTACAAAAATATATATACC
1 ACATTGAACATTTT-C-AAAATATAGATACC
6705602 GTAATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 14 0.52
30 1 0.04
31 12 0.44
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (29 bp):
ACATTGAACATTTTCAAAATATAGATACC
Found at i:6706058 original size:27 final size:29
Alignment explanation
Indices: 6706013--6706071 Score: 95
Period size: 27 Copynumber: 2.1 Consensus size: 29
6706003 AAAATTTATC
6706013 AAAATATTATAACTTTTTTTTATTTACCAA
1 AAAATATTATAAC-TTTTTTTATTTACCAA
6706043 AAAATA-TATAA-TTTTTTTATTTACCAA
1 AAAATATTATAACTTTTTTTATTTACCAA
6706070 AA
1 AA
6706072 TATTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 18 0.62
29 5 0.17
30 6 0.21
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (29 bp):
AAAATATTATAACTTTTTTTATTTACCAA
Found at i:6706175 original size:27 final size:27
Alignment explanation
Indices: 6706145--6706211 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
6706135 CGCCAATGAG
6706145 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
6706172 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
6706199 ATTGGCGGCACCA
1 ATTGGCGGCACCA
6706212 CTTAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:6706264 original size:4 final size:4
Alignment explanation
Indices: 6706255--6706400 Score: 108
Period size: 4 Copynumber: 36.0 Consensus size: 4
6706245 GAAGGAGAGG
* *
6706255 GAAA GAAA GAAA GAAA GAAG GAAA GAAA GAAA GGAGAG GAAA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA
* * *
6706304 -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA
1 GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA
*
6706352 G-AA G-AA GAAAA GGAAAA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA
1 GAAA GAAA G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
6706397 GAAA
1 GAAA
6706401 AGGAAAGGAG
Statistics
Matches: 118, Mismatches: 12, Indels: 24
0.77 0.08 0.16
Matches are distributed among these distances:
3 20 0.17
4 70 0.59
5 21 0.18
6 7 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:6706342 original size:44 final size:44
Alignment explanation
Indices: 6706294--6706422 Score: 173
Period size: 39 Copynumber: 3.1 Consensus size: 44
6706284 AAAGGAGAGG
6706294 AAAGAAAAAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAAAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
* *
6706338 AAAGAAAGAAAGAAGAA-G-AAGAAAAGGAAAAGAG-A-AG-AAA
1 AAAGAAA-AAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
*
6706378 AAAG--AAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAAAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
6706420 AAA
1 AAA
6706423 AAGAAGAAGA
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
37 7 0.09
38 2 0.03
39 15 0.20
40 8 0.11
41 4 0.05
42 7 0.09
43 15 0.20
44 8 0.11
45 8 0.11
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (44 bp):
AAAGAAAAAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
Found at i:6706345 original size:48 final size:46
Alignment explanation
Indices: 6706293--6706427 Score: 136
Period size: 44 Copynumber: 3.0 Consensus size: 46
6706283 GAAAGGAGAG
* *
6706293 GAAAGAAAAAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA-AAA
1 GAAAG-AAAAAAAAGAA-G-AAGAAAAGGAAAAGAGAAGAAAAAAGAAA
*
6706341 GAAAG--AAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAA
1 GAAAGAAAAAAAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAA
** * * *
6706385 GAAAG-AAGGAAAGAA-AAGGAAAGGAGAAGAGAAAAAAAAAGAA
1 GAAAGAAAAAAAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAA
6706428 GAAGAAGAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
43 23 0.30
44 34 0.45
45 14 0.18
48 5 0.07
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (46 bp):
GAAAGAAAAAAAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAA
Found at i:6706425 original size:18 final size:18
Alignment explanation
Indices: 6706296--6706432 Score: 71
Period size: 18 Copynumber: 7.1 Consensus size: 18
6706286 AGGAGAGGAA
*
6706296 AGAAAAAAAAAGAAGGAA-
1 AGAAAAAAAAAGGA-GAAG
**
6706314 AGAAAAGGAAAGGAGAAG
1 AGAAAAAAAAAGGAGAAG
*
6706332 AGAAAAAAAGAAAGA-AAG
1 AGAAAAAAA-AAGGAGAAG
* *
6706350 AAGAAGAAGAAAAGGAAAAG
1 -AGAA-AAAAAAAGGAGAAG
* *
6706370 AGAAGAAAAAAGAAAGAAAG
1 AGAAAAAAAAAG-GAG-AAG
6706390 AAGGAAAGAAAAGGAAAGGAGAAG
1 -A-G-AA-AAAA--AAAGGAGAAG
*
6706414 AGAAAAAAAAAGAAGAAG
1 AGAAAAAAAAAGGAGAAG
6706432 A
1 A
6706433 AGAGGGAAGG
Statistics
Matches: 91, Mismatches: 15, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
17 3 0.03
18 37 0.41
19 17 0.19
20 14 0.15
21 3 0.03
22 2 0.02
23 3 0.03
24 6 0.07
25 2 0.02
26 4 0.04
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAGGAGAAG
Found at i:6706427 original size:44 final size:41
Alignment explanation
Indices: 6706246--6706422 Score: 210
Period size: 38 Copynumber: 4.4 Consensus size: 41
6706236 GGGGGGGCAG
* *
6706246 AAGGAG-AGGGAAAGAAAGAAAGAAAGAAGGAAAGAAA-GA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGGAAAGAAAGGA
*
6706285 AAGGAG-AG-GAAAGAAA-AAA-AAAGAAGGAAAGAAAAGGA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGGAAAG-AAAGGA
*
6706323 AAGGAGAAGAGAAAAAAAGAAAGAAAGAA-G-AAG-AAGAA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGGAAAGAAAGGA
*
6706361 AAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGA
1 AAGGAGAAGAG-A-AAAAAAGAAAGAAAGAAGGAAAG-AAAGGA
6706405 AAGGAGAAGAGAAAAAAA
1 AAGGAGAAGAGAAAAAAA
6706423 AAGAAGAAGA
Statistics
Matches: 121, Mismatches: 5, Indels: 21
0.82 0.03 0.14
Matches are distributed among these distances:
36 12 0.10
37 6 0.05
38 30 0.25
39 11 0.09
40 27 0.22
41 5 0.04
42 15 0.12
43 1 0.01
44 14 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (41 bp):
AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGGAAAGAAAGGA
Found at i:6706433 original size:34 final size:35
Alignment explanation
Indices: 6706340--6706443 Score: 120
Period size: 39 Copynumber: 2.9 Consensus size: 35
6706330 AGAGAAAAAA
* *
6706340 AGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAG
1 AGAAAGAAAAAAGAAGAAGAAAAGGAAAGGAGAAG
*
6706375 AAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAG
1 -AGAAAGAAA-AAAGAA-G-AAGAAAAGGAAAGGAGAAG
* *
6706414 AGAAA-AAAAAAGAAGAAGAAGAGGGAAGGA
1 AGAAAGAAAAAAGAAGAAGAAAAGGAAAGGA
6706444 AGGAAGGGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
34 13 0.22
35 1 0.02
36 14 0.24
37 8 0.14
38 5 0.08
39 18 0.31
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (35 bp):
AGAAAGAAAAAAGAAGAAGAAAAGGAAAGGAGAAG
Found at i:6706447 original size:82 final size:82
Alignment explanation
Indices: 6706256--6706466 Score: 260
Period size: 82 Copynumber: 2.6 Consensus size: 82
6706246 AAGGAGAGGG
* * * *
6706256 AAAGAAAGAAAGAAAGAAG-GAAAGAAAGAAAGGAGAGGAAAGAAA-AAAAAAGAAGGAAAGAAA
1 AAAGAAAGAAAG-AAGAAGAGGAAGAAGGAAAAGAGAAGAAA-AAAGAAAAAAGAAGGAAAGAAA
6706319 AGGAAAGGAGAAGAGAAAA
64 AGGAAAGGAGAAGAGAAAA
*
6706338 AAAGAAAGAAAGAAGAAGAAGAA-AAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAAA
1 AAAGAAAGAAAGAAGAAGAGGAAGAAGGAAAAGAGAAGAAAAAAGAAA-AAAGAAGGAAAGAAAA
6706402 GGAAAGGAGAAGAG-AAA
65 GGAAAGGAGAAGAGAAAA
*
6706419 AAA-AAAG-AAGAAGAAGAGG--GAAGGAAGGAAGGGAA-AAAAAAGAAAAAA
1 AAAGAAAGAAAGAAGAAGAGGAAGAAGGAA--AAGAGAAGAAAAAAGAAAAAA
6706467 AAGTAATTTT
Statistics
Matches: 116, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
78 9 0.08
79 21 0.18
80 13 0.11
81 29 0.25
82 44 0.38
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (82 bp):
AAAGAAAGAAAGAAGAAGAGGAAGAAGGAAAAGAGAAGAAAAAAGAAAAAAGAAGGAAAGAAAAG
GAAAGGAGAAGAGAAAA
Found at i:6707079 original size:11 final size:11
Alignment explanation
Indices: 6707063--6707090 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6707053 GCAGAGGAAA
6707063 GGGTTTATTGC
1 GGGTTTATTGC
6707074 GGGTTTATTGC
1 GGGTTTATTGC
6707085 GGGTTT
1 GGGTTT
6707091 TTTAGCAAAA
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:0.07, C:0.07, G:0.39, T:0.46
Consensus pattern (11 bp):
GGGTTTATTGC
Found at i:6707827 original size:161 final size:158
Alignment explanation
Indices: 6707331--6707858 Score: 564
Period size: 161 Copynumber: 3.3 Consensus size: 158
6707321 GTTTATGATA
6707331 TTTTTTAAAGTAAT-AAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTA
1 TTTTTTAAAGTAATAAAAAT--GGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTA
*
6707395 CTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGTACTGAAATAAT
64 CTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAA-AAAATATACTGAAATAAT
6707460 ATAAAACAATAAAATACGAGAATAATATATT
128 ATAAAACAATAAAATACGAGAATAATATATT
* * * *
6707491 TTTGTTTAAAGTAATAAAAATCGG-GAAAATAATACGAGCAAATGGCATG-GGTAAGGGT-TATT
1 TTT-TTTAAAGTAATAAAAAT-GGAGAAAAAAATACGAACAAATGGCA-GAAGTAAGAGTGTATT
* * * * * * *
6707553 --T---TTTTACACCAAATTAATTTAAATAA-CACACTAGAGAAATAAATTTC-AAACATTATGC
63 ACTAACTTTTATA--AAATTCA--GAAATAATTA-A-TACA-AAAT--ATTTCAAAAAAATAT--
* * ** *
6707611 AATGAAATAATGTAAAATTATAAAATTA-GA-AAT--TATGATA
117 ACTGAAATAATATAAAACAATAAAA-TACGAGAATAATAT-ATT
6707651 TTTTTTAAAGTAATAAAATATGGAGAAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTA
1 TTTTTTAAAGTAATAAAA-ATGGAG-AAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTA
6707716 CTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAAAAATATACTGAAATAATA
64 CTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAAAAATATACTGAAATAATA
6707781 TAAAACAATAAAATACGAGAATAATATATT
129 TAAAACAATAAAATACGAGAATAATATATT
* * * *
6707811 TTTATTTAAAGTAATAAAAATCGAGAAAATAATACGAGCAAAGGGCAG
1 TTT-TTTAAAGTAATAAAAATGGAGAAAAAAATACGAACAAATGGCAG
6707859 GGGTAAGGCT
Statistics
Matches: 298, Mismatches: 37, Indels: 67
0.74 0.09 0.17
Matches are distributed among these distances:
154 6 0.02
156 6 0.02
157 4 0.01
158 30 0.10
159 55 0.18
160 65 0.22
161 69 0.23
162 40 0.13
163 9 0.03
164 2 0.01
165 6 0.02
167 6 0.02
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (158 bp):
TTTTTTAAAGTAATAAAAATGGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTACT
AACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAAAAATATACTGAAATAATATA
AAACAATAAAATACGAGAATAATATATT
Found at i:6707874 original size:320 final size:320
Alignment explanation
Indices: 6707255--6708043 Score: 1330
Period size: 320 Copynumber: 2.5 Consensus size: 320
6707245 TATTCTCCCT
* * *
6707255 TAACACACTAAATTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAATACTA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAT--TA
**
6707320 -AGTTTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTA
64 GAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTA
*
6707384 AGAGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATGT
129 AGAGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATAT
*
6707449 ACTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTGTTTAAAGTAATAAAAATCG
194 ACTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCG
* * * *
6707514 GGAAAATAATACGAGCAAATGGCATGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
259 AGAAAATAATACGAGCAAAGGGCAGGGGTAAGGCTTATTTTTTTACACCAAATTAATTTAAA
* *
6707576 TAACACACTAGAGAAATAAATTTCAAACATTATGCAATGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
**
6707641 AATTATGATATTTTTTAAAGTAATAAAATATGGAGAAAAAAAATACGAACAAATGGCAGAAGTAA
66 AATTATGATATTTTTTAAAGTAATAAAATGCGGAG-AAAAAAATACGAACAAATGGCAGAAGTAA
6707706 GAGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAA-AAAATATA
130 GAGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATATA
6707770 CTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGA
195 CTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGA
*
6707835 GAAAATAATACGAGCAAAGGGCAGGGGTAAGGCTTATTTTTTTACACCAATTTAATTTAAA
260 GAAAATAATACGAGCAAAGGGCAGGGGTAAGGCTTATTTTTTTACACCAAATTAATTTAAA
*
6707896 TAACATACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
* * *
6707961 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAATAAG
66 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAG
* * *
6708026 ATTTTTTTACTAACTTTT
131 AGTGTATTACTAACTTTT
6708044 TTTTCAACTT
Statistics
Matches: 439, Mismatches: 27, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
319 44 0.10
320 254 0.58
321 141 0.32
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (320 bp):
TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAG
AGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATATAC
TGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAG
AAAATAATACGAGCAAAGGGCAGGGGTAAGGCTTATTTTTTTACACCAAATTAATTTAAA
Found at i:6707979 original size:159 final size:156
Alignment explanation
Indices: 6707269--6708026 Score: 597
Period size: 159 Copynumber: 4.7 Consensus size: 156
6707259 ACACTAAATT
* **
6707269 AATAAATTTCAAACATGATGCACTGAAATAATGTAAAATTATAAAATACTA-AGTTTATGATATT
1 AATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAT--TAGAAATTATGATATT
6707333 TTTTAAAGTAAT-AAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTACT
64 TTTTAAAGTAATAAAAAT-C-GAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTA-T
* *
6707397 AACTTTTATAAAATTCAGAAATAATTAATACAA
126 -A-TTTTACAAAATTCAGAAATAATAAATACAA
* ** * * ** *
6707430 AAT--ATTTCAAAGAAAATGTACTGAAATAATATAAAACAATAAAA-TACGAGAATAATAT-ATT
1 AATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTA-GA-AAT--TATGATA
* * * * *
6707491 TTTGTTTAAAGTAATAAAAATCGGGAAAATAATACGAGCAAATGGCATG-GGTAAGGGT-TATT-
62 TTT-TTTAAAGTAATAAAAATCGAGAAAAAAATACGAACAAATGGCA-GAAGTAAGAGTGTATTA
* * * * *
6707553 T-TTTTACACCAAATTAATTTAAATAACACACTAGAGA
125 TATTTTACA--AAATTCA--GAAATAATA-AATACA-A
*
6707590 AATAAATTTCAAACATTATGCAATGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTT
1 AATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTT
*
6707655 TTAAAGTAATAAAATATGGAGAAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTACTAA
66 TTAAAGTAATAAAA-ATCGAG-AAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTA-T-A
* *
6707720 CTTTTATAAAATTCAGAAATAATTAATACAA
127 -TTTTACAAAATTCAGAAATAATAAATACAA
* * * **
6707751 AAT--ATTTCAAAAAAATAT--ACTGAAATAATATAAAACAATAAAA-TACGAGAATAATAT-AT
1 AATAAATTTC-AAACATTATGCACTGAAATAATGTAAAATTATAAAATTA-GA-AAT--TATGAT
* * * * **
6707810 TTTTATTTAAAGTAATAAAAATCGAGAAAATAATACGAGCAAAGGGCAGGGGTAAG-GCT-TATT
61 ATTT-TTTAAAGTAATAAAAATCGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAG-TGTATT
* * **
6707873 -T-TTTTACACCAATTTA-ATTTAAATAACATACTAGA
124 ATATTTTACA-AAATTCAGAAAT-AATAA-ATAC-A-A
6707908 GTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
1 --AATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
* * *
6707973 TTTTAAAGTAAT-AAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAATAAGA
64 TTTTAAAGTAATAAAAAT-C-GAGAAAAAAATACGAACAAATGGCAGAAGTAAGA
6708027 TTTTTTTACT
Statistics
Matches: 470, Mismatches: 77, Indels: 100
0.73 0.12 0.15
Matches are distributed among these distances:
153 8 0.02
154 15 0.03
155 4 0.01
156 10 0.02
157 4 0.01
158 40 0.09
159 113 0.24
160 102 0.22
161 79 0.17
162 72 0.15
163 10 0.02
164 1 0.00
165 6 0.01
167 6 0.01
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (156 bp):
AATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTT
TTAAAGTAATAAAAATCGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATTATATTTT
ACAAAATTCAGAAATAATAAATACAA
Found at i:6711928 original size:52 final size:49
Alignment explanation
Indices: 6711855--6712209 Score: 437
Period size: 46 Copynumber: 7.3 Consensus size: 49
6711845 AGATCAAGTG
* ** *
6711855 ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACA
1 ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
*
6711904 AGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
6711953 ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
1 ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
*
6712002 AGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
6712051 ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
1 ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
* *
6712100 AGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAACAAGAGAC-
1 A-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
** * *
6712151 --AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-
1 ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
6712197 --AAAGTGATAAGTG
1 ATAAAGTGATAAGTG
6712210 GCTGCACTTA
Statistics
Matches: 277, Mismatches: 14, Indels: 33
0.85 0.04 0.10
Matches are distributed among these distances:
46 141 0.51
48 2 0.01
49 5 0.02
50 3 0.01
52 126 0.45
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (49 bp):
ATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
Found at i:6711966 original size:98 final size:98
Alignment explanation
Indices: 6711846--6712198 Score: 589
Period size: 98 Copynumber: 3.6 Consensus size: 98
6711836 GAGTACTTCA
* *
6711846 GATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAA
1 GATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAA
6711911 AGTGATAAGTAATAGCTTCGGCTATACTTATCT
66 AGTGATAAGTAATAGCTTCGGCTATACTTATCT
* *
6711944 GATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAA
1 GATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAA
6712009 AGTGATAAGTAATAGCTTCGGCTATACTTATCT
66 AGTGATAAGTAATAGCTTCGGCTATACTTATCT
* * *
6712042 GATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGAAA
1 GATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAA
*
6712107 AGTGATAAGTGATAGCTTCGGCTATACTTATCT
66 AGTGATAAGTAATAGCTTCGGCTATACTTATCT
* * * * *
6712140 GAACAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 GATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
6712199 AGTGATAAGT
Statistics
Matches: 242, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 242 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
GATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAA
AGTGATAAGTAATAGCTTCGGCTATACTTATCT
Found at i:6712221 original size:37 final size:37
Alignment explanation
Indices: 6712173--6712318 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
6712163 GATAGCTTTA
*
6712173 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6712210 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6712247 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
6712284 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6712319 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:6713606 original size:3 final size:3
Alignment explanation
Indices: 6713592--6713626 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
6713582 TCTTAATATT
*
6713592 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
6713627 TAATAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:6713900 original size:27 final size:27
Alignment explanation
Indices: 6713870--6713958 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
6713860 CGAATAGTGC
*
6713870 CGCCAATCAATATGGCACCATTGGTGT
1 CGCCAATCGATATGGCACCATTGGTGT
* *
6713897 CGCCAAT-GGTATTGGCACCATTGGTGC
1 CGCCAATCGATA-TGGCACCATTGGTGT
* * * * *
6713924 CACCAATGGTTTTGGCACCTTTGGTGT
1 CGCCAATCGATATGGCACCATTGGTGT
6713951 CGCCAATC
1 CGCCAATC
6713959 CCATTTGCGT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.04
27 46 0.92
28 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (27 bp):
CGCCAATCGATATGGCACCATTGGTGT
Found at i:6714064 original size:28 final size:28
Alignment explanation
Indices: 6714027--6714098 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
6714017 GTTTTTTTTT
*
6714027 TATATATTTTGGTAAATAAAAAAAATTA
1 TATATATTTTGATAAATAAAAAAAATTA
6714055 TATATATTTTGATAAATAAAAAAAATTA
1 TATATATTTTGATAAATAAAAAAAATTA
6714083 TA-ATATTTTGATAAAT
1 TATATATTTTGATAAAT
6714099 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 14 0.33
28 29 0.67
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (28 bp):
TATATATTTTGATAAATAAAAAAAATTA
Found at i:6717933 original size:26 final size:27
Alignment explanation
Indices: 6717881--6717933 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
6717871 ATGTTATACA
6717881 TTTTTTTATTTACCAAAAAATATATAAT
1 TTTTTTTATTTACC-AAAAATATATAAT
6717909 TTTTTTTATTTACC-AAAATATATAA
1 TTTTTTTATTTACCAAAAATATATAA
6717934 AAAAAACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 11 0.44
28 14 0.56
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTTTTTATTTACCAAAAATATATAAT
Found at i:6718029 original size:27 final size:27
Alignment explanation
Indices: 6717998--6718066 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
6717988 CAAGGGAACA
6717998 CTGTTGGCGGCACCAAACAAGGATTCC
1 CTGTTGGCGGCACCAAACAAGGATTCC
* *
6718025 TTGTTGGCGGCACCAAACAAGGGTTCC
1 CTGTTGGCGGCACCAAACAAGGATTCC
6718052 CTGTTGGCGGCACCA
1 CTGTTGGCGGCACCA
6718067 CTCGTGTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.20
Consensus pattern (27 bp):
CTGTTGGCGGCACCAAACAAGGATTCC
Found at i:6718355 original size:3 final size:3
Alignment explanation
Indices: 6718349--6718383 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6718339 AAAAATTTTA
6718349 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6718384 AGATGTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6718456 original size:61 final size:61
Alignment explanation
Indices: 6718355--6718505 Score: 159
Period size: 61 Copynumber: 2.5 Consensus size: 61
6718345 TTTATATTAT
* * * * *
6718355 TATTATTATTATTATTATTATTA-TTATTAA-GATGTTAGTTAGTATTATTGTTAGTA-A-AAA
1 TATTAATATTATTATT-GTGTTAGTTATTAATAATTTTAGTTAGTATTATT-TT-GTATATAAA
* *
6718415 -ATTAGTATTATTTTTGTAGTTAGTTATTAATAATTTTAGTTAGTATTATTTTGTATATAAA
1 TATTAATATTATTATTGT-GTTAGTTATTAATAATTTTAGTTAGTATTATTTTGTATATAAA
6718476 TTATTAATATTATTATTGTGTTAGTTATTA
1 -TATTAATATTATTATTGTGTTAGTTATTA
6718506 GGATTAGTGG
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
58 1 0.01
59 19 0.25
60 10 0.13
61 20 0.26
62 11 0.14
63 15 0.20
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.56
Consensus pattern (61 bp):
TATTAATATTATTATTGTGTTAGTTATTAATAATTTTAGTTAGTATTATTTTGTATATAAA
Found at i:6720268 original size:10 final size:10
Alignment explanation
Indices: 6720255--6720393 Score: 53
Period size: 10 Copynumber: 14.1 Consensus size: 10
6720245 TCCTTCCCTC
6720255 TTCTTCTTCT
1 TTCTTCTTCT
* *
6720265 TTCTTTTTTTT
1 TTC-TTCTTCT
*
6720276 TCTCTTCTCCT
1 T-TCTTCTTCT
6720287 TTCCTT-TTCT
1 TT-CTTCTTCT
*
6720297 TTC--CTTAT
1 TTCTTCTTCT
6720305 TT-TTCTTTCT
1 TTCTTC-TTCT
* **
6720315 TTCCTCCCCT
1 TTCTTCTTCT
6720325 TTCCTT-TTCT
1 TT-CTTCTTCT
6720335 TTC--CTTCT
1 TTCTTCTTCT
6720343 TT-TTCTTTCT
1 TTCTTC-TTCT
* *
6720353 TTCCTCTCCT
1 TTCTTCTTCT
*
6720363 TTCCTT-TTCC
1 TT-CTTCTTCT
*
6720373 TTCTTTTTCT
1 TTCTTCTTCT
6720383 TTCTTCTTCT
1 TTCTTCTTCT
6720393 T
1 T
6720394 CCCCTCTCCT
Statistics
Matches: 92, Mismatches: 21, Indels: 32
0.63 0.14 0.22
Matches are distributed among these distances:
8 11 0.12
9 7 0.08
10 50 0.54
11 22 0.24
12 2 0.02
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:6720274 original size:38 final size:37
Alignment explanation
Indices: 6720220--6720387 Score: 163
Period size: 38 Copynumber: 4.6 Consensus size: 37
6720210 ATAAAAATTA
6720220 CCTTTT-TTTCTTTTTTTTCTTTCCTTCCTTCCCTCTT
1 CCTTTTCTTTCTTTTTTTTCTTTCCTTCCTTCCCT-TT
*
6720257 -CTTCTTCTTTCTTTTTTTT-TCT-CTT-C-T-CCTTT
1 CCTT-TTCTTTCTTTTTTTTCTTTCCTTCCTTCCCTTT
* * *
6720289 CCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCCCTTT
1 CCTTTTCTTT-CTTTTTTTTCTTTCCTTCCTTCCCTTT
* *
6720327 CCTTTTCTTTCCTTCTTTTTCTTTCTTTCC-TCTCCTTT
1 CCTTTTCTTT-CTTTTTTTTCTTTCCTTCCTTC-CCTTT
*
6720365 CCTTTTCCTTCTTTTTCTTTCTT
1 CCTTTTCTTTCTTTTT-TTTCTT
6720388 CTTCTTCCCC
Statistics
Matches: 111, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
32 8 0.07
33 14 0.13
34 3 0.03
35 3 0.03
36 7 0.06
37 10 0.09
38 66 0.59
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (37 bp):
CCTTTTCTTTCTTTTTTTTCTTTCCTTCCTTCCCTTT
Found at i:6720313 original size:18 final size:18
Alignment explanation
Indices: 6720227--6720387 Score: 93
Period size: 18 Copynumber: 8.8 Consensus size: 18
6720217 TTACCTTTTT
6720227 TTCTTTTT-TTTCTTTCC
1 TTCTTTTTCTTTCTTTCC
* **
6720244 TTCCTTCCCTCTTC-TT-C
1 TTCTTTTTCT-TTCTTTCC
*
6720261 TTCTTTCTT-TTTTTTTCTC
1 TTCTTT-TTCTTTCTTTC-C
*
6720280 TTCTCCTTTCCTTTTCTTTCC
1 TTCT--TTTTC-TTTCTTTCC
*
6720301 TTATTTTTCTTTCTTTCC
1 TTCTTTTTCTTTCTTTCC
* * *
6720319 TCCCCTTTCCTTTTCTTTCC
1 T-TCTTTTTC-TTTCTTTCC
6720339 TTCTTTTTCTTTCTTTCC
1 TTCTTTTTCTTTCTTTCC
* *
6720357 -TCTCCTTTC-CT-TTTCC
1 TTCT-TTTTCTTTCTTTCC
6720373 TTCTTTTTCTTTCTT
1 TTCTTTTTCTTTCTT
6720388 CTTCTTCCCC
Statistics
Matches: 106, Mismatches: 22, Indels: 31
0.67 0.14 0.19
Matches are distributed among these distances:
16 11 0.10
17 22 0.21
18 28 0.26
19 21 0.20
20 11 0.10
21 6 0.06
22 7 0.07
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTTCTTTCTTTCC
Found at i:6720346 original size:14 final size:14
Alignment explanation
Indices: 6720329--6720390 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
6720319 TCCCCTTTCC
6720329 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
6720343 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
6720358 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
6720377 TTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
6720390 T
1 T
6720391 CTTCCCCTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
13 6 0.15
14 14 0.35
15 3 0.08
16 4 0.10
18 4 0.10
19 3 0.08
20 6 0.15
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:6720354 original size:28 final size:28
Alignment explanation
Indices: 6720227--6720390 Score: 66
Period size: 28 Copynumber: 6.2 Consensus size: 28
6720217 TTACCTTTTT
*
6720227 TTCTTTTT-TTTCTTTCC--TTCCTTCC
1 TTCTTTTTCTTTCTTTCCTTTTCTTTCC
* *
6720252 CTCTTCTTC-TTCTTT-CTTTT-TTT--
1 TTCTTTTTCTTTCTTTCCTTTTCTTTCC
* *
6720275 TTC-TCTTC-TCCTTTCCTTTTCTTTCC
1 TTCTTTTTCTTTCTTTCCTTTTCTTTCC
* ***
6720301 TTATTTTTCTTTCTTTCCTCCCCTTTCC
1 TTCTTTTTCTTTCTTTCCTTTTCTTTCC
* *
6720329 TT-TTCTTTCCTTCTTT-TTCTTTCTTTCC
1 TTCTT-TTTCTTTCTTTCCT-TTTCTTTCC
* * * *
6720357 TCTCCTTTCCTTTTCCTTCTTTTTCTTT-C
1 T-TCTTTTTC-TTTCTTTCCTTTTCTTTCC
6720386 TTCTT
1 TTCTT
6720391 CTTCCCCTCT
Statistics
Matches: 103, Mismatches: 21, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
22 10 0.10
23 7 0.07
24 4 0.04
25 14 0.14
26 4 0.04
27 7 0.07
28 36 0.35
29 6 0.06
30 13 0.13
31 2 0.02
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (28 bp):
TTCTTTTTCTTTCTTTCCTTTTCTTTCC
Found at i:6720404 original size:30 final size:34
Alignment explanation
Indices: 6720298--6720407 Score: 93
Period size: 38 Copynumber: 3.2 Consensus size: 34
6720288 TCCTTTTCTT
* * * *
6720298 TCCTTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTT
1 TCCTTCTTTTTCTTTCTTTCCTCTCC-TTCC---CCTC
* * *
6720336 TCCTTCTTTTTCTTTCTTTCCTCTCCTTTCCTTT
1 TCCTTCTTTTTCTTTCTTTCCTCTCCTTCCCCTC
6720370 TCCTTCTTTTTCTTTC-TT-CT-T-CTTCCCCTC
1 TCCTTCTTTTTCTTTCTTTCCTCTCCTTCCCCTC
6720400 TCCTTCTT
1 TCCTTCTT
6720408 CCCCCCACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
30 14 0.22
31 1 0.02
32 2 0.03
33 2 0.03
34 18 0.28
37 3 0.05
38 24 0.38
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.63
Consensus pattern (34 bp):
TCCTTCTTTTTCTTTCTTTCCTCTCCTTCCCCTC
Found at i:6728163 original size:26 final size:26
Alignment explanation
Indices: 6728131--6728183 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6728121 TTCCAGAATT
6728131 ATATTTAAAATAAAATATAATTATTA
1 ATATTTAAAATAAAATATAATTATTA
6728157 ATATTTAAAATAAAATATAATTATTA
1 ATATTTAAAATAAAATATAATTATTA
6728183 A
1 A
6728184 ATATAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATTTAAAATAAAATATAATTATTA
Found at i:6728187 original size:13 final size:13
Alignment explanation
Indices: 6728143--6728194 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
6728133 ATTTAAAATA
6728143 AAATATAATTATT
1 AAATATAATTATT
* * *
6728156 AATATTTAA-AATA
1 AA-ATATAATTATT
6728169 AAATATAATTATT
1 AAATATAATTATT
6728182 AAATATAATTATT
1 AAATATAATTATT
6728195 TAACTTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
12 5 0.16
13 21 0.68
14 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATATAATTATT
Found at i:6741895 original size:30 final size:30
Alignment explanation
Indices: 6741859--6741929 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
6741849 CTTGGGGGTC
6741859 TATCAGTGCTTTTCCTCGGTTTCTCCCTGG
1 TATCAGTGCTTTTCCTCGGTTTCTCCCTGG
*
6741889 TATCAGTGCTTTTCCTTGGTTTCTCCCTGG
1 TATCAGTGCTTTTCCTCGGTTTCTCCCTGG
*
6741919 TATCGGTGCTT
1 TATCAGTGCTT
6741930 CTTCGTGGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.07, C:0.27, G:0.21, T:0.45
Consensus pattern (30 bp):
TATCAGTGCTTTTCCTCGGTTTCTCCCTGG
Found at i:6741946 original size:30 final size:30
Alignment explanation
Indices: 6741859--6741946 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
6741849 CTTGGGGGTC
*
6741859 TATCAGTGCTTTTCC-TCGGTTTCTCCCTGG
1 TATCAGTGCTTTTCCGT-GGCTTCTCCCTGG
* *
6741889 TATCAGTGCTTTTCCTTGGTTTCTCCCTGG
1 TATCAGTGCTTTTCCGTGGCTTCTCCCTGG
* *
6741919 TATCGGTGCTTCTT-CGTGGCTTGTCCCT
1 TATCAGTGCTT-TTCCGTGGCTTCTCCCT
6741947 TTGATCCATA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
30 49 0.94
31 3 0.06
ACGTcount: A:0.06, C:0.28, G:0.22, T:0.44
Consensus pattern (30 bp):
TATCAGTGCTTTTCCGTGGCTTCTCCCTGG
Found at i:6742690 original size:4 final size:4
Alignment explanation
Indices: 6742683--6742737 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
6742673 ATATATGCAT
*
6742683 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
6742731 ATAC ATA
1 ATAC ATA
6742738 TGTGTATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:6743017 original size:43 final size:43
Alignment explanation
Indices: 6742884--6743021 Score: 106
Period size: 43 Copynumber: 3.2 Consensus size: 43
6742874 TACATATTCA
*
6742884 CATTTAAAATTGTTTTCCCTAGCTGAAGTTGCAAGTACTTGTG
1 CATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTG
** * ** * * * *
6742927 CATTTAAAA--GAATACAGT-GTCTATAAATAT--ATGTACTTATTCA
1 CATTTAAAATTGTTTTCCCTAG-CT-GAAGT-TGCATGTACTT-GT-G
6742970 CATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTG
1 CATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTG
6743013 CATTTAAAA
1 CATTTAAAA
6743022 GAATACAGTA
Statistics
Matches: 66, Mismatches: 19, Indels: 20
0.63 0.18 0.19
Matches are distributed among these distances:
40 1 0.02
41 13 0.20
42 4 0.06
43 29 0.44
44 4 0.06
45 14 0.21
46 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (43 bp):
CATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTG
Found at i:6743023 original size:86 final size:86
Alignment explanation
Indices: 6742878--6743122 Score: 420
Period size: 86 Copynumber: 2.9 Consensus size: 86
6742868 TGTATATACA
*
6742878 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCAAGTACTTGTGCATTTAAAAGAATACA
1 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
6742943 GTGTCTATAAATATATGTACT
66 GTGTCTATAAATATATGTACT
6742964 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
1 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
* *
6743029 GTATCTATAAATATATGTATT
66 GTGTCTATAAATATATGTACT
* * * *
6743050 TATTCACATTTAAAATTGTTTTCCCTAGCTGAA-TTACATGTACGTGTGCATTGAAAAGAATCCA
1 TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
6743114 GTGTCTATA
66 GTGTCTATA
6743123 GCTGTAAAAG
Statistics
Matches: 151, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 35 0.23
86 116 0.77
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (86 bp):
TATTCACATTTAAAATTGTTTTCCCTAGCTGAAGTTGCATGTACTTGTGCATTTAAAAGAATACA
GTGTCTATAAATATATGTACT
Found at i:6746059 original size:43 final size:43
Alignment explanation
Indices: 6745998--6746082 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
6745988 TCAATTTGGT
* *
6745998 ACCTAAACTTAACACTTTTTCTTAAGTTGGTACTTAATCTTTA
1 ACCTAAACTTAACACTTTTTCTTAAATTGGTACCTAATCTTTA
* *
6746041 ACCTAAACTTGACTCTTTTTCTTAAATTGGTACCTAATCTTT
1 ACCTAAACTTAACACTTTTTCTTAAATTGGTACCTAATCTTT
6746083 TTTTGTTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (43 bp):
ACCTAAACTTAACACTTTTTCTTAAATTGGTACCTAATCTTTA
Found at i:6746081 original size:24 final size:24
Alignment explanation
Indices: 6746054--6746130 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
6746044 TAAACTTGAC
6746054 TCTTTTTCTTAAATTGGTACCTAA
1 TCTTTTTCTTAAATTGGTACCTAA
* * *
6746078 TCTTTTTTTGTTCGATTTGG----T-A
1 TC--TTTTTCTT-AAATTGGTACCTAA
6746100 TCTTTTTCTTAAATTGGTACCTAA
1 TCTTTTTCTTAAATTGGTACCTAA
6746124 TCTTTTT
1 TCTTTTT
6746131 TTGTTCGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
19 5 0.13
20 7 0.18
22 3 0.08
23 2 0.05
24 10 0.26
26 7 0.18
27 5 0.13
ACGTcount: A:0.18, C:0.14, G:0.10, T:0.57
Consensus pattern (24 bp):
TCTTTTTCTTAAATTGGTACCTAA
Found at i:6746097 original size:27 final size:27
Alignment explanation
Indices: 6746067--6746145 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
6746057 TTTTCTTAAA
6746067 TTGGTACCTAATCTTTTTTTGTTCGAT
1 TTGGTACCTAATCTTTTTTTGTTCGAT
* * *
6746094 TTGG----T-ATC--TTTTTCTT-AAA
1 TTGGTACCTAATCTTTTTTTGTTCGAT
6746113 TTGGTACCTAATCTTTTTTTGTTCGAT
1 TTGGTACCTAATCTTTTTTTGTTCGAT
6746140 TTGGTA
1 TTGGTA
6746146 TTTGAACTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
19 5 0.13
20 7 0.18
22 3 0.08
23 2 0.05
24 3 0.08
26 7 0.18
27 11 0.29
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.56
Consensus pattern (27 bp):
TTGGTACCTAATCTTTTTTTGTTCGAT
Found at i:6746114 original size:46 final size:46
Alignment explanation
Indices: 6746054--6746146 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
6746044 TAAACTTGAC
6746054 TCTTTTTCTTAAATTGGTACCTAATCTTTTTTTGTTCGATTTGGTA
1 TCTTTTTCTTAAATTGGTACCTAATCTTTTTTTGTTCGATTTGGTA
6746100 TCTTTTTCTTAAATTGGTACCTAATCTTTTTTTGTTCGATTTGGTA
1 TCTTTTTCTTAAATTGGTACCTAATCTTTTTTTGTTCGATTTGGTA
6746146 T
1 T
6746147 TTGAACTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (46 bp):
TCTTTTTCTTAAATTGGTACCTAATCTTTTTTTGTTCGATTTGGTA
Found at i:6746586 original size:13 final size:13
Alignment explanation
Indices: 6746568--6746592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6746558 GCTAAAAAAA
6746568 TTTAGGTACCAAG
1 TTTAGGTACCAAG
6746581 TTTAGGTACCAA
1 TTTAGGTACCAA
6746593 TTATTCTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TTTAGGTACCAAG
Found at i:6747743 original size:17 final size:18
Alignment explanation
Indices: 6747686--6747749 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 18
6747676 TAAAAAAAGT
*
6747686 TAAATTAA-AAAATATAA
1 TAAATTAATAAAATATTA
* *
6747703 TATATTAATAATATTATTA
1 TAAATTAATAA-AATATTA
6747722 GTAAATTAATAAAAT-TTA
1 -TAAATTAATAAAATATTA
6747740 TAAATATAAT
1 TAAAT-TAAT
6747750 TTTACTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 12 0.32
18 9 0.24
19 7 0.18
20 10 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAATTAATAAAATATTA
Found at i:6747780 original size:20 final size:19
Alignment explanation
Indices: 6747735--6747787 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
6747725 AATTAATAAA
6747735 ATTTA-TAAATATAATTTT
1 ATTTATTAAATATAATTTT
* *
6747753 ACTTATTAAATATTATTTT
1 ATTTATTAAATATAATTTT
6747772 CATTTATTAAAATATA
1 -ATTTATT-AAATATA
6747788 TTGACGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 6 0.21
21 6 0.21
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTATTAAATATAATTTT
Found at i:6751281 original size:15 final size:16
Alignment explanation
Indices: 6751241--6751282 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
6751231 CTTTTTCATA
6751241 AATATTTCTAAAAAAAC
1 AATATTT-TAAAAAAAC
*
6751258 AATAATTTAAAAAAA-
1 AATATTTTAAAAAAAC
*
6751273 ATTATTTTAA
1 AATATTTTAA
6751283 CTACTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 8 0.36
16 8 0.36
17 6 0.27
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATTTTAAAAAAAC
Found at i:6762684 original size:6 final size:6
Alignment explanation
Indices: 6762661--6762725 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
6762651 AAGCCGTGGG
* * *
6762661 TTCTTCT TTCTTT CTCTTT TTCTTT TTCTTTCT TTCTAT TTCGTTT TGC-TT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TTC-TT-T TTCTTT TTC-TTT TTCTTT
*
6762712 TTCTCT TTCTTT TT
1 TTCTTT TTCTTT TT
6762726 TTATTATTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
5 4 0.09
6 26 0.57
7 12 0.26
8 4 0.09
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.74
Consensus pattern (6 bp):
TTCTTT
Found at i:6764214 original size:19 final size:19
Alignment explanation
Indices: 6764190--6764253 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
6764180 TATTCATAAA
* *
6764190 AAAGGGAGGAAATCAATAT
1 AAAGGGAGAAAATCAATGT
*
6764209 AAAGGG-GAAAATCAGTGT
1 AAAGGGAGAAAATCAATGT
* *
6764227 AAAGAGAAAAAATCAATGT
1 AAAGGGAGAAAATCAATGT
6764246 AAAGGGAG
1 AAAGGGAG
6764254 GAAGAAAGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.53, C:0.05, G:0.28, T:0.14
Consensus pattern (19 bp):
AAAGGGAGAAAATCAATGT
Found at i:6765089 original size:24 final size:22
Alignment explanation
Indices: 6765062--6765130 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 22
6765052 TTATTGTATA
6765062 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTA-ATTTATCATG-T
6765086 TTATTATTTGTAATTTATCATGT
1 TTATTATTT-TAATTTATCATGT
* *
6765109 ATATTTATTTCAAATTTATCAT
1 TTA-TTATTT-TAATTTATCAT
6765131 TAATATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.08
24 35 0.88
25 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (22 bp):
TTATTATTTTAATTTATCATGT
Found at i:6765115 original size:27 final size:27
Alignment explanation
Indices: 6765056--6765117 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 27
6765046 CTAAGTTTAT
6765056 TGTATA-TTATTATTTTAGATTTATCA
1 TGTATATTTATTATTTTAGATTTATCA
6765082 TG--T-TTTATTATTTGTA-ATTTATCA
1 TGTATATTTATTATTT-TAGATTTATCA
6765106 TGTATATTTATT
1 TGTATATTTATT
6765118 TCAAATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
24 20 0.65
25 2 0.06
26 3 0.10
27 6 0.19
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.61
Consensus pattern (27 bp):
TGTATATTTATTATTTTAGATTTATCA
Found at i:6765148 original size:21 final size:24
Alignment explanation
Indices: 6765056--6765138 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
6765046 CTAAGTTTAT
* *
6765056 TGTATATTATTATTTTAGATTTATCA
1 TGTATA-T-TTATTTCAAATTTATCA
* **
6765082 TGT-TTTATTATTTGTAATTTATCA
1 TGTATAT-TTATTTCAAATTTATCA
6765106 TGTATATTTATTTCAAATTTATCA
1 TGTATATTTATTTCAAATTTATCA
6765130 T-TAATATTT
1 TGT-ATATTT
6765139 TTAAATTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
23 1 0.02
24 41 0.85
25 3 0.06
26 3 0.06
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TGTATATTTATTTCAAATTTATCA
Found at i:6766487 original size:19 final size:19
Alignment explanation
Indices: 6766450--6766487 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6766440 AGATATCATG
*
6766450 TATTAATAAATTAAAAAAA
1 TATTAATAAATAAAAAAAA
6766469 TATTAA-AAATAAAACAAAA
1 TATTAATAAATAAAA-AAAA
6766488 ACAATGAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
TATTAATAAATAAAAAAAA
Found at i:6767381 original size:20 final size:19
Alignment explanation
Indices: 6767348--6767385 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6767338 GAATAAACAA
6767348 AAAAGTAAAAGCTAAAATT
1 AAAAGTAAAAGCTAAAATT
*
6767367 AAAATTAAAATGCTAAAAT
1 AAAAGTAAAA-GCTAAAAT
6767386 GATGAATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (19 bp):
AAAAGTAAAAGCTAAAATT
Found at i:6767485 original size:6 final size:6
Alignment explanation
Indices: 6767476--6767507 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
6767466 TCCTTCATCT
6767476 TCACCA TCACCA TCACCA TCACCA TCACCA TC
1 TCACCA TCACCA TCACCA TCACCA TCACCA TC
6767508 TTCAAGGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (6 bp):
TCACCA
Done.