Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 17 of 30
Found at i:5898198 original size:95 final size:95
Alignment explanation
Indices: 5898080--5898275 Score: 329
Period size: 95 Copynumber: 2.1 Consensus size: 95
5898070 ACTAGTCATG
* *
5898080 CAATGCCCATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCATGCAATGTCTTATCAAAAA
1 CAATGCCCATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGACTTATCAAAAA
5898145 CTAGTCACGCAATGTCCAAAGTCAATCACA
66 CTAGTCACGCAATGTCCAAAGTCAATCACA
* *
5898175 CAATGCCTATTAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGACTTATCAAAAA
1 CAATGCCCATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGACTTATCAAAAA
* * *
5898240 CTAGTCACGCAATGTCCAAAGTTAGTCACG
66 CTAGTCACGCAATGTCCAAAGTCAATCACA
5898270 CAATGC
1 CAATGC
5898276 TTTATAAAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (95 bp):
CAATGCCCATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGACTTATCAAAAA
CTAGTCACGCAATGTCCAAAGTCAATCACA
Found at i:5898390 original size:17 final size:17
Alignment explanation
Indices: 5898368--5898400 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5898358 CTTTCAGCAT
5898368 TTCTAATTGGATAGAAG
1 TTCTAATTGGATAGAAG
5898385 TTCTAATTGGATAGAA
1 TTCTAATTGGATAGAA
5898401 CTTGAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (17 bp):
TTCTAATTGGATAGAAG
Found at i:5899640 original size:38 final size:37
Alignment explanation
Indices: 5899568--5899673 Score: 133
Period size: 38 Copynumber: 2.8 Consensus size: 37
5899558 GAGGTATACA
* * *
5899568 AGTGTGGATGAGTGAATA-CCACCTTTATGGTAATGTG
1 AGTGTGGATGAATGAATACCCACCTTTATGATAATG-C
5899605 AGTGTGGATGAATGAATACCCACCTTTATGATAATGC
1 AGTGTGGATGAATGAATACCCACCTTTATGATAATGC
* * *
5899642 ATGTTTGGATGAATAAATACCCACATTTATGA
1 A-GTGTGGATGAATGAATACCCACCTTTATGA
5899674 CTATGTAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
37 18 0.30
38 43 0.70
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (37 bp):
AGTGTGGATGAATGAATACCCACCTTTATGATAATGC
Found at i:5899896 original size:38 final size:38
Alignment explanation
Indices: 5899845--5899960 Score: 146
Period size: 38 Copynumber: 3.0 Consensus size: 38
5899835 CTTACATCCG
* *
5899845 AGATAA-AGTGGATTGTACGATTATCTGA-GTTATGTCTT
1 AGATAATAG-GGATTGTACCATTATCT-ATGTTATGTCCT
5899883 AGATAATAGGGATTGTACCATTATCTATGTTATGTCCT
1 AGATAATAGGGATTGTACCATTATCTATGTTATGTCCT
* *
5899921 AGATAATGGGGATTGTACCATTATCCATGTGATATGTCCT
1 AGATAATAGGGATTGTACCATTATCTATGT--TATGTCCT
5899961 TGTGATAAGT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
37 1 0.01
38 59 0.84
39 2 0.03
40 8 0.11
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (38 bp):
AGATAATAGGGATTGTACCATTATCTATGTTATGTCCT
Found at i:5901207 original size:2 final size:2
Alignment explanation
Indices: 5901200--5901257 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
5901190 GCATCTCAAC
*
5901200 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5901242 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
5901258 ATTAAAACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5914234 original size:252 final size:249
Alignment explanation
Indices: 5913773--5914763 Score: 1045
Period size: 252 Copynumber: 3.9 Consensus size: 249
5913763 AAAAAAAAAA
* * * *
5913773 ACTAATTTTCATTATA-ATACTTTTTAT-CTCTACTAATATTCATTAATAGATTAAAATTTGTTC
1 ACTAATTTTCACTA-ACATTCTTTTTATCCT-TACTATTATTCATTAATAGATTAAAATTTG-TA
* ** * * *
5913836 ACCGTAAAATACTTTAAACTCAAGAATAAAAATTTAAAAGTTTAATTTCAACAAAAATTATGTTT
63 AGCGT-AAATACTTTAAACTTGAGAATATAAATTTAAATGTTTAATTTC-CCAAAAATTATGTTT
** ** * ** *
5913901 ATTTGACATAATTGGTTTGTTACGTTTAATCTTTCACATTTACGTCAATTTTTTGAA-AATCCTT
126 ATTTGACATAATTGACTTGTTATATTAAATCTCACACATTTACGTCAATATTTT-AACAATCCTT
* *
5913965 GTTCCAACTTTATAATTTTTTAGGTTAATTATTACTACTTTACGTTAAGGCTTTTCAACT
190 GTTCCACCTTTATAATTTTTTAGGTTAATTCTTACTACTTTACGTTAAGGCTTTTCAACT
* * *
5914025 ACCAATTTTCACTAACATTCTTTTTATCCTTATTATTATTCATTTATAGATTAAAATTTGTAAGC
1 ACTAATTTTCACTAACATTCTTTTTATCCTTACTATTATTCATTAATAGATTAAAATTTGTAAGC
* * * *
5914090 AGCAGTATGCTTTAAACTTGAGAACA-AAACTTTAAATGTTTAATTTCCCTAAAAATTATGTTTA
66 -GTA-AATACTTTAAACTTGAGAATATAAA-TTTAAATGTTTAATTTCCC-AAAAATTATGTTTA
* * *
5914154 TTTGAAATAATTAACTTGTTATATTAAATCTCACACATTTACGTCAATATTTTAACAATCCTT-A
127 TTTGACATAATTGACTTGTTATATTAAATCTCACACATTTACGTCAATATTTTAACAATCCTTGT
* ** * *
5914218 TCTCACCTTCATAATTTTTTATATTAATTCTTAC-AGCTTTACATTAAGGTTTTTCAACT
192 TC-CACCTTTATAATTTTTTAGGTTAATTCTTACTA-CTTTACGTTAAGGCTTTTCAACT
* * *
5914277 ACTAAATTTCACTATA-ATTAC-TTTTATTCTTACTATTATTCATTCATAGATTAAAATTTGTAA
1 ACTAATTTTCACTA-ACATT-CTTTTTATCCTTACTATTATTCATTAATAGATTAAAATTTGTAA
* * *
5914340 GGCGTAAAATACTTTAAACTTGAGAATATAAATTTAAATATTTAATTTCCCAAAAATTGTATTTA
64 -GCGT-AAATACTTTAAACTTGAGAATATAAATTTAAATGTTTAATTTCCCAAAAATTATGTTTA
* * * * *
5914405 TTTGACATAATTGACTTATTATGTTAAATCTCACACATTTACATCTATATTTTAACAATGCTTGT
127 TTTGACATAATTGACTTGTTATATTAAATCTCACACATTTACGTCAATATTTTAACAATCCTTGT
* * * * ** *
5914470 TCCAGCTTTATAATTTTTTACGG-TAATTCTTAATACTTGATGACAAGGCTTATCAACT
192 TCCACCTTTATAATTTTTTA-GGTTAATTCTTACTACTTTACGTTAAGGCTTTTCAACT
* * *
5914528 ACTGATTTTCACT-ACATT-TACTTTTATCATTACTATTATTCATGAATAGATTAAAATTTGTAA
1 ACTAATTTTCACTAACATTCT--TTTTATCCTTACTATTATTCATTAATAGATTAAAATTTGT-A
* * * * *
5914591 ACCGTTAAATAATTTAAACTTGAGAGTATAAATTTAAATGTTTAATTTTTCAAAAAATTATGTTT
63 AGCG-TAAATACTTTAAACTTGAGAATATAAATTTAAATGTTTAA-TTTCCCAAAAATTATGTTT
* * * * * *
5914656 ATTTGACATAATTGA-TGTGTCATACTAAATCTCACTCATTTACGGCAATATTTTGACAATGCTT
126 ATTTGACATAATTGACT-TGTTATATTAAATCTCACACATTTACGTCAATATTTTAACAATCCTT
* * * *
5914720 GTTCCACTTTTATAA-TTTTTACGTTAATTCTTATTGCTTTACGT
190 GTTCCACCTTTATAATTTTTTAGGTTAATTCTTACTACTTTACGT
5914764 CAAAGTTTTT
Statistics
Matches: 616, Mismatches: 97, Indels: 53
0.80 0.13 0.07
Matches are distributed among these distances:
249 1 0.00
250 4 0.01
251 230 0.37
252 371 0.60
253 10 0.02
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (249 bp):
ACTAATTTTCACTAACATTCTTTTTATCCTTACTATTATTCATTAATAGATTAAAATTTGTAAGC
GTAAATACTTTAAACTTGAGAATATAAATTTAAATGTTTAATTTCCCAAAAATTATGTTTATTTG
ACATAATTGACTTGTTATATTAAATCTCACACATTTACGTCAATATTTTAACAATCCTTGTTCCA
CCTTTATAATTTTTTAGGTTAATTCTTACTACTTTACGTTAAGGCTTTTCAACT
Found at i:5915407 original size:21 final size:22
Alignment explanation
Indices: 5915369--5915409 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5915359 ATAGAAAGAC
*
5915369 AAGTTAAGAAATAAAATAATGA
1 AAGTAAAGAAATAAAATAATGA
5915391 AAGTAAAGAAA-AAAATAAT
1 AAGTAAAGAAATAAAATAAT
5915410 AGAATAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (22 bp):
AAGTAAAGAAATAAAATAATGA
Found at i:5918450 original size:19 final size:19
Alignment explanation
Indices: 5918428--5918465 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5918418 ACTTCTAAAC
*
5918428 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
5918447 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
5918466 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:5919245 original size:2 final size:2
Alignment explanation
Indices: 5919238--5919263 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5919228 TTTTCGTAAT
5919238 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5919264 CACATATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5922438 original size:28 final size:27
Alignment explanation
Indices: 5922407--5922460 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
5922397 TTTCGGAGCA
*
5922407 TAGGGGTAAAATGATAATTTTGCCACCT
1 TAGGGGCAAAATGATAATTTT-CCACCT
*
5922435 TAGGGGCAAAATTATAATTTTCCACC
1 TAGGGGCAAAATGATAATTTTCCACC
5922461 ACCAGGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (27 bp):
TAGGGGCAAAATGATAATTTTCCACCT
Found at i:5931732 original size:5 final size:5
Alignment explanation
Indices: 5931724--5931754 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
5931714 CTAACCTAAT
*
5931724 TTAAC TTAAC TTAAC TTATC TTAAC TTAAC T
1 TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC T
5931755 GGACTTGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (5 bp):
TTAAC
Found at i:5931841 original size:14 final size:15
Alignment explanation
Indices: 5931800--5931841 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
5931790 TAAAACAACC
*
5931800 TTAAAATCAAAAACT
1 TTAAAATCCAAAACT
5931815 TTAAAATCCAAAACT
1 TTAAAATCCAAAACT
5931830 TTAAAA-CCAAAA
1 TTAAAATCCAAAA
5931842 TCTCTAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.24
Consensus pattern (15 bp):
TTAAAATCCAAAACT
Found at i:5950925 original size:20 final size:20
Alignment explanation
Indices: 5950896--5950940 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
5950886 TTTATTGAAT
* *
5950896 ATTATTATTTTATTT-AAACA
1 ATTATAATTTCATTTCAAA-A
5950916 ATTATAATTTCATTTCAAAA
1 ATTATAATTTCATTTCAAAA
5950936 ATTAT
1 ATTAT
5950941 TTTAGACATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATAATTTCATTTCAAAA
Found at i:5960347 original size:20 final size:20
Alignment explanation
Indices: 5960318--5960357 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
5960308 TTTGGGCAGC
5960318 CATGAATTT-ACCATGAAAA
1 CATGAATTTAACCATGAAAA
5960337 CATGAAATTTAACCATGAAAA
1 CATG-AATTTAACCATGAAAA
5960358 ATAAGGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
CATGAATTTAACCATGAAAA
Found at i:5962367 original size:97 final size:96
Alignment explanation
Indices: 5962052--5962435 Score: 545
Period size: 96 Copynumber: 4.0 Consensus size: 96
5962042 AGTGAAATTA
* * * *
5962052 AGAGTTTGAAGTATGAAATTGAAAAGTTGAAA-GCATTGTTGGAGTATGATAAAAGTAATCAAAA
1 AGAGTTTGAAGTGTGAAATTGAAAAGTT-AAAGGGATTATTGGAGTATGATAAAAATAATCAAAA
*
5962116 GCTGAAAGAAAAAGAAAAGCAACAGGAGTATG
65 GCTGAAAGAAAAAGAGAAGCAACAGGAGTATG
* * * * * *
5962148 AGAGTTCGAAGTGTGAAATTAAAAAGTTGAATGGATTATTGGAGTATGATAAAAATAGTCAAAAC
1 AGAGTTTGAAGTGTGAAATTGAAAAGTTAAAGGGATTATTGGAGTATGATAAAAATAATCAAAAG
* *
5962213 CTGAAAGAAAAAGAGAAACAACAGGATTATG
66 CTGAAAGAAAAAGAGAAGCAACAGGAGTATG
* *
5962244 AGAGTCTGAAGTGTGAAATTGAAAAGTTAAAGGGATTGTTGGAGTATGATAAAAATAATCAAAAG
1 AGAGTTTGAAGTGTGAAATTGAAAAGTTAAAGGGATTATTGGAGTATGATAAAAATAATCAAAAG
* *
5962309 CTAAAAGAAAAAAGAGAAGCAACAAGAGTATG
66 CTGAAAG-AAAAAGAGAAGCAACAGGAGTATG
* **
5962341 AGAGTTTGAAGTGTGAAATTGAAAAGTTGAAGAAATTATTGGAGTATGATAAAAATAATCAAAAG
1 AGAGTTTGAAGTGTGAAATTGAAAAGTTAAAGGGATTATTGGAGTATGATAAAAATAATCAAAAG
**
5962406 CTGAAAGAAAAAGAGAAGCAATGGGAGTAT
66 CTGAAAGAAAAAGAGAAGCAACAGGAGTAT
5962436 AAAGTTTTCG
Statistics
Matches: 253, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
95 2 0.01
96 164 0.65
97 87 0.34
ACGTcount: A:0.48, C:0.05, G:0.24, T:0.22
Consensus pattern (96 bp):
AGAGTTTGAAGTGTGAAATTGAAAAGTTAAAGGGATTATTGGAGTATGATAAAAATAATCAAAAG
CTGAAAGAAAAAGAGAAGCAACAGGAGTATG
Found at i:5962393 original size:193 final size:192
Alignment explanation
Indices: 5962052--5962422 Score: 593
Period size: 193 Copynumber: 1.9 Consensus size: 192
5962042 AGTGAAATTA
* *
5962052 AGAGTTTGAAGTATGAAATTGAAAAGTTGAAAGCATTGTTGGAGTATGATAAAAGTAATCAAAAG
1 AGAGTCTGAAGTATGAAATTGAAAAGTTGAAAGCATTGTTGGAGTATGATAAAAATAATCAAAAG
* * *
5962117 CTGAAAGAAAAAGAAAAGCAACAGGAGTATGAGAGTTCGAAGTGTGAAATTAAAAAGTTGAATGG
66 CTAAAAGAAAAAGAAAAGCAACAAGAGTATGAGAGTTCGAAGTGTGAAATTAAAAAGTTGAATGA
*
5962182 ATTATTGGAGTATGATAAAAATAGTCAAAACCTGAAAGAAAAAGAGAAACAACAGGATTATG
131 ATTATTGGAGTATGATAAAAATAATCAAAACCTGAAAGAAAAAGAGAAACAACAGGATTATG
* *
5962244 AGAGTCTGAAGTGTGAAATTGAAAAGTT-AAAGGGATTGTTGGAGTATGATAAAAATAATCAAAA
1 AGAGTCTGAAGTATGAAATTGAAAAGTTGAAA-GCATTGTTGGAGTATGATAAAAATAATCAAAA
* * *
5962308 GCTAAAAGAAAAAAGAGAAGCAACAAGAGTATGAGAGTTTGAAGTGTGAAATTGAAAAGTTGAA-
65 GCTAAAAG-AAAAAGAAAAGCAACAAGAGTATGAGAGTTCGAAGTGTGAAATTAAAAAGTTGAAT
*
5962372 GAAATTATTGGAGTATGATAAAAATAATCAAAAGCTGAAAGAAAAAGAGAA
129 G-AATTATTGGAGTATGATAAAAATAATCAAAACCTGAAAGAAAAAGAGAA
5962423 GCAATGGGAG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
191 3 0.02
192 64 0.39
193 97 0.59
ACGTcount: A:0.49, C:0.05, G:0.24, T:0.22
Consensus pattern (192 bp):
AGAGTCTGAAGTATGAAATTGAAAAGTTGAAAGCATTGTTGGAGTATGATAAAAATAATCAAAAG
CTAAAAGAAAAAGAAAAGCAACAAGAGTATGAGAGTTCGAAGTGTGAAATTAAAAAGTTGAATGA
ATTATTGGAGTATGATAAAAATAATCAAAACCTGAAAGAAAAAGAGAAACAACAGGATTATG
Found at i:5962861 original size:14 final size:14
Alignment explanation
Indices: 5962842--5962869 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5962832 GAGAGCTTGA
5962842 GGAAAACATATAAT
1 GGAAAACATATAAT
5962856 GGAAAACATATAAT
1 GGAAAACATATAAT
5962870 TGAATGGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
GGAAAACATATAAT
Found at i:5967402 original size:42 final size:42
Alignment explanation
Indices: 5967336--5967435 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
5967326 TGTTGATTTG
5967336 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
5967378 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
5967420 GACCCGGCTATATGCG
1 GACCCGGCTATGTGCG
5967436 CATAAGCCGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.20, C:0.24, G:0.34, T:0.22
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:5967491 original size:26 final size:26
Alignment explanation
Indices: 5967455--5967516 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
5967445 TTGCATATGA
5967455 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
5967481 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
5967507 GTTGATGATG
1 GATGATGATG
5967517 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:5969309 original size:14 final size:15
Alignment explanation
Indices: 5969285--5969313 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5969275 TTTTAGAGGA
5969285 ATATCCAAGGAAATG
1 ATATCCAAGGAAATG
5969300 ATAT-CAAGGAAATG
1 ATATCCAAGGAAATG
5969314 TAATCTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (15 bp):
ATATCCAAGGAAATG
Found at i:5975722 original size:27 final size:27
Alignment explanation
Indices: 5975671--5975722 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
5975661 ATATCCTGGT
*
5975671 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTGACCCTGA
*
5975698 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
5975723 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGA
Found at i:5989922 original size:19 final size:19
Alignment explanation
Indices: 5989898--5989935 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5989888 ACTTCTTAAC
5989898 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
5989917 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
5989936 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:5990387 original size:19 final size:18
Alignment explanation
Indices: 5990343--5990380 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
5990333 TTAATATTTT
5990343 AATATTATTTTATTATAA
1 AATATTATTTTATTATAA
*
5990361 AATATTATTTTATTCTAA
1 AATATTATTTTATTATAA
5990379 AA
1 AA
5990381 ATTTTATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTATTTTATTATAA
Found at i:5990657 original size:40 final size:39
Alignment explanation
Indices: 5990574--5990673 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 39
5990564 TGCCCGTGTG
* * * * *
5990574 CACGATGTGGGGGGATGAACACGATGGCATTATTTTGTG
1 CACGATGTGGGGGGATGCACACGATGACATTACTATGTA
5990613 CACGATGTGGGGGGATGCACACGATGAC-TCTAGCTATGTA
1 CACGATGTGGGGGGATGCACACGATGACAT-TA-CTATGTA
*
5990653 CACGATCTGGGGGGATGCACA
1 CACGATGTGGGGGGATGCACA
5990674 TGAGCTGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.02
39 28 0.53
40 24 0.45
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (39 bp):
CACGATGTGGGGGGATGCACACGATGACATTACTATGTA
Found at i:6010548 original size:35 final size:35
Alignment explanation
Indices: 6010498--6010726 Score: 235
Period size: 35 Copynumber: 6.5 Consensus size: 35
6010488 ATTAAGTTAC
* * *
6010498 GCCTAATAAACTAAATTGTTTAATTGAA-TCATTGA
1 GCCTAATTAATTAAATTGTTTAATT-AAGTCATTGG
*
6010533 GCCTAATTAATTAAATTATTTAATTAAGTCATTGG
1 GCCTAATTAATTAAATTGTTTAATTAAGTCATTGG
**** * *
6010568 GCCTAATTAATTAAATTAAACAATTATGTTATTGG
1 GCCTAATTAATTAAATTGTTTAATTAAGTCATTGG
* * *
6010603 GCCTAATTGATTGAATTTGTTTAATTAAGTCATTAG
1 GCCTAATTAATT-AAATTGTTTAATTAAGTCATTGG
* * * **
6010639 GCCTACTTGATTAAAATTGTTTAATTAAATTGTTGG
1 GCCTAATTAATT-AAATTGTTTAATTAAGTCATTGG
* *
6010675 GCTTAATTAATTAAATTGTTTAATTAAGTTATTGG
1 GCCTAATTAATTAAATTGTTTAATTAAGTCATTGG
*
6010710 GCCTAATTGATTAAATT
1 GCCTAATTAATTAAATT
6010727 AAACAATTAA
Statistics
Matches: 160, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
34 2 0.01
35 105 0.66
36 53 0.33
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (35 bp):
GCCTAATTAATTAAATTGTTTAATTAAGTCATTGG
Found at i:6010683 original size:107 final size:106
Alignment explanation
Indices: 6010509--6010726 Score: 271
Period size: 107 Copynumber: 2.1 Consensus size: 106
6010499 CCTAATAAAC
*
6010509 TAAA-TTGTTTAATTGAATCATTGAGCCTAATTAATTAAATTATTTAATTAAGTCATTGGGCCTA
1 TAAATTTGTTTAATTGAATCATTGAGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCCTA
*
6010573 ATTAATTAAATTAAACAATTATGTTATTGGGCCTAATTGAT
66 ATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
* * * * **
6010614 TGAATTTGTTTAATT-AAGTCATT-AGGCCTACTTGATTAAAATTGTTTAATTAAATTGTTGGGC
1 TAAATTTGTTTAATTGAA-TCATTGA-GCCTAATTAATT-AAATTATTTAATTAAATCATTGGGC
* ****
6010677 TTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGAT
63 CTAATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
6010721 TAAATT
1 TAAATT
6010727 AAACAATTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
105 6 0.06
106 25 0.26
107 64 0.67
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (106 bp):
TAAATTTGTTTAATTGAATCATTGAGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCCTA
ATTAATTAAATTAAACAATTAAGTTATTGGGCCTAATTGAT
Found at i:6010748 original size:71 final size:70
Alignment explanation
Indices: 6010536--6010749 Score: 266
Period size: 71 Copynumber: 3.0 Consensus size: 70
6010526 TCATTGAGCC
* * *
6010536 TAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTAAACAATTATGTTATT
1 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGATTAAATTAAACAATTAAGTTATT
*
6010601 GGGCC
66 GGGCT
* * * * **** * *
6010606 TAATTGATTGAATTTGTTTAATTAAGTCATTAGGCCTACTTGATTAAAATTGTTTAATTAAATTG
1 TAATTAATT-AAATTGTTTAATTAAGTCATTGGGCCTAATTGATT-AAATTAAACAATTAAGTTA
6010671 TTGGGCT
64 TTGGGCT
*
6010678 TAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTTAAT
1 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGATTAAATTAAACAATTAAGTT-AT
6010743 TGGGCT
65 TGGGCT
6010749 T
1 T
6010750 CTTAAGGACT
Statistics
Matches: 116, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
70 21 0.18
71 69 0.59
72 26 0.22
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (70 bp):
TAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGATTAAATTAAACAATTAAGTTATT
GGGCT
Found at i:6012904 original size:28 final size:29
Alignment explanation
Indices: 6012863--6012927 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
6012853 GTCTATGGGC
* *
6012863 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
6012891 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
*
6012921 AAATTTT
1 AATTTTT
6012928 AAAAATTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:6014076 original size:13 final size:13
Alignment explanation
Indices: 6014058--6014082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6014048 AGAGAAATTG
6014058 TGATTTTATAAAA
1 TGATTTTATAAAA
6014071 TGATTTTATAAA
1 TGATTTTATAAA
6014083 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:6024223 original size:28 final size:29
Alignment explanation
Indices: 6024182--6024241 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
6024172 GTCTATGGGC
*
6024182 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
6024210 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
6024240 AA
1 AA
6024242 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:6028129 original size:19 final size:19
Alignment explanation
Indices: 6028102--6028139 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6028092 CCATTTAACT
*
6028102 TATTAGAGTATGATTTGAG
1 TATTAGAGTATAATTTGAG
*
6028121 TATTGGAGTATAATTTGAG
1 TATTAGAGTATAATTTGAG
6028140 GGTTTGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATAATTTGAG
Found at i:6039520 original size:74 final size:74
Alignment explanation
Indices: 6039442--6039702 Score: 326
Period size: 74 Copynumber: 3.5 Consensus size: 74
6039432 TCTGACAAGT
* *
6039442 GCTCTTAGTTGACTAACAATGCTTCTTAGTCGATTAAGTCT-TCTCTATCTTGTGTTTGAAATTT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGT-TGTCTCTATCTTCTGTTTGAAATTT
*
6039506 CTAGCAGTGA
65 CTGGCAGTGA
* * * * *
6039516 GCTCTTAGTTGACTAACCATGCTTCTTAGTCGATTAAGTTGTCTTTGTCTTCTATTTGAAATTTC
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTTGTCTCTATCTTCTGTTTGAAATTTC
6039581 TGGCAGTGA
66 TGGCAGTGA
* * * * * ** *
6039590 GCACTTAGTCGACTAACAATGCTTTTTAGTCAATTAAGTTGTCTCTATCTTTTGATCCAAGTTTC
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTTGTCTCTATCTTCTGTTTGAAATTTC
6039655 TGGCAGTGA
66 TGGCAGTGA
* * * *
6039664 GCTCTTAGTCGACTAACCATACTTCTTGGTCGACTAAGT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGT
6039703 CTTTTCTATT
Statistics
Matches: 160, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
73 1 0.01
74 159 0.99
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (74 bp):
GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTTGTCTCTATCTTCTGTTTGAAATTTC
TGGCAGTGA
Found at i:6042163 original size:63 final size:63
Alignment explanation
Indices: 6042082--6042295 Score: 337
Period size: 61 Copynumber: 3.5 Consensus size: 63
6042072 AATGCAACCA
6042082 TGCATGTGTGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCGTG
1 TGCATGTGTGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCGTG
** * * *
6042145 TGCATGTGTGGAGTGGGCAGTGCACATGCTAGTAATGATGATGTCATGATTATTACAACCGT-
1 TGCATGTGTGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCGTG
6042207 T-CATGTGTGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAA-C-TG
1 TGCATGTGTGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCGTG
* *
6042267 TGCATGTGCGGAGTGGGAAGTGCACATGC
1 TGCATGTGTGGAGTGGGCAGTGCACATGC
6042296 TAGTGATGAT
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
59 1 0.01
60 2 0.01
61 76 0.55
62 1 0.01
63 57 0.42
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (63 bp):
TGCATGTGTGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCGTG
Found at i:6044631 original size:43 final size:43
Alignment explanation
Indices: 6044584--6044692 Score: 157
Period size: 43 Copynumber: 2.6 Consensus size: 43
6044574 TCATATGCAT
6044584 TCCCTACTCGCACATAGCTAGGTCAACAGCGGCTTATGCGCAC
1 TCCCTACTCGCACATAGCTAGGTCAACAGCGGCTTATGCGCAC
* * * *
6044627 TCCCTACTCGCACATAGCTGGGTTAGCATCGGCTTATGCGCAC
1 TCCCTACTCGCACATAGCTAGGTCAACAGCGGCTTATGCGCAC
* *
6044670 T-GCTACTCGCACATAGCCAGGTC
1 TCCCTACTCGCACATAGCTAGGTC
6044693 GATATCATCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 18 0.31
43 40 0.69
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.23
Consensus pattern (43 bp):
TCCCTACTCGCACATAGCTAGGTCAACAGCGGCTTATGCGCAC
Found at i:6052893 original size:25 final size:25
Alignment explanation
Indices: 6052859--6052921 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
6052849 AAAGAAAAGA
6052859 AATAGAAAATAAATGGGCATGGCCC
1 AATAGAAAATAAATGGGCATGGCCC
*
6052884 AATAGAAAATAAGTGGGCATGGCCC
1 AATAGAAAATAAATGGGCATGGCCC
*
6052909 AATAGGAAATAAA
1 AATAGAAAATAAA
6052922 AATAAATGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.16
Consensus pattern (25 bp):
AATAGAAAATAAATGGGCATGGCCC
Found at i:6065281 original size:20 final size:20
Alignment explanation
Indices: 6065264--6065301 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6065254 CCTCAAATCT
6065264 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
6065284 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
6065302 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:6076665 original size:20 final size:20
Alignment explanation
Indices: 6076640--6076716 Score: 154
Period size: 20 Copynumber: 3.9 Consensus size: 20
6076630 TGAAAAATTT
6076640 TTCAATAAAATAATATTTTA
1 TTCAATAAAATAATATTTTA
6076660 TTCAATAAAATAATATTTTA
1 TTCAATAAAATAATATTTTA
6076680 TTCAATAAAATAATATTTTA
1 TTCAATAAAATAATATTTTA
6076700 TTCAATAAAATAATATT
1 TTCAATAAAATAATATT
6076717 AAAATATTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
TTCAATAAAATAATATTTTA
Found at i:6080597 original size:22 final size:26
Alignment explanation
Indices: 6080572--6080627 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 26
6080562 TAAAAATTCA
6080572 AGGTTTTTGTTGCT-G-AA-TTTT-G
1 AGGTTTTTGTTGCTGGAAATTTTTGG
*
6080594 AGG-TTATGTTGCTGGAAATTTTTGG
1 AGGTTTTTGTTGCTGGAAATTTTTGG
6080619 AGGTTTTTG
1 AGGTTTTTG
6080628 CTACCATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.33
22 4 0.15
23 2 0.07
24 4 0.15
25 4 0.15
26 4 0.15
ACGTcount: A:0.16, C:0.04, G:0.30, T:0.50
Consensus pattern (26 bp):
AGGTTTTTGTTGCTGGAAATTTTTGG
Found at i:6080999 original size:25 final size:24
Alignment explanation
Indices: 6080971--6081033 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
6080961 AAAGAAAAGA
6080971 AATAGAAGATAAATAGGCATGGCCC
1 AATAGAA-ATAAATAGGCATGGCCC
* *
6080996 AATAGAAAATAAGTGGGCATGGCCC
1 AATAG-AAATAAATAGGCATGGCCC
6081021 AATAGGAAATAAA
1 AATA-GAAATAAA
6081034 AATAAATGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 30 0.91
26 3 0.09
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.16
Consensus pattern (24 bp):
AATAGAAATAAATAGGCATGGCCC
Found at i:6081490 original size:43 final size:43
Alignment explanation
Indices: 6081419--6081592 Score: 222
Period size: 43 Copynumber: 4.0 Consensus size: 43
6081409 TAAAGGGGGC
* * *
6081419 TATCAAATCTCATAGAAAACGATGACTCAAAATGTTTTGTTTT
1 TATCAAATCTAATAGAAAATGACGACTCAAAATGTTTTGTTTT
* * *
6081462 TATCAAATCTAACAAAAAATGACAACTCAAAATGTTTTGTTTT
1 TATCAAATCTAATAGAAAATGACGACTCAAAATGTTTTGTTTT
* * * *
6081505 CATCAAATCTAATAGAAAATGATGATTCAAAACGTTTTGTTTT
1 TATCAAATCTAATAGAAAATGACGACTCAAAATGTTTTGTTTT
* * * *
6081548 TATCAAATCTCATAGAAAACGACGATTCAAAATATTTTGTTTT
1 TATCAAATCTAATAGAAAATGACGACTCAAAATGTTTTGTTTT
6081591 TA
1 TA
6081593 AGATGACAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 112 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (43 bp):
TATCAAATCTAATAGAAAATGACGACTCAAAATGTTTTGTTTT
Found at i:6082526 original size:34 final size:34
Alignment explanation
Indices: 6082483--6082552 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
6082473 TTTATTGAAA
6082483 CACCTGCGAGTGACAGGATGTCAGATAATTAACC
1 CACCTGCGAGTGACAGGATGTCAGATAATTAACC
6082517 CACCTGCGAGTGACAGGATGTCAGATAATTAACC
1 CACCTGCGAGTGACAGGATGTCAGATAATTAACC
6082551 CA
1 CA
6082553 GAGAAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (34 bp):
CACCTGCGAGTGACAGGATGTCAGATAATTAACC
Found at i:6083284 original size:9 final size:9
Alignment explanation
Indices: 6083270--6083311 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
6083260 GGTCATCTTT
6083270 CTCTCTCAA
1 CTCTCTCAA
*
6083279 CTCTCTGAA
1 CTCTCTCAA
*
6083288 CTATCTCAA
1 CTCTCTCAA
6083297 CTCTGCT-AA
1 CTCT-CTCAA
6083306 CTCTCT
1 CTCTCT
6083312 GTTAAACATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 2 0.07
9 24 0.86
10 2 0.07
ACGTcount: A:0.21, C:0.38, G:0.05, T:0.36
Consensus pattern (9 bp):
CTCTCTCAA
Found at i:6083678 original size:31 final size:31
Alignment explanation
Indices: 6083636--6083779 Score: 209
Period size: 31 Copynumber: 4.7 Consensus size: 31
6083626 TTAGGTGTCA
*
6083636 ATGC-TGGCGTGTTACAACACTTTACGTTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
6083666 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
* *
6083697 ATGCATGGCGTGTTACCACATTTTACGTTTT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
* * **
6083728 ATGCATGGTGTGTTATAACATTTTATATTAT
1 ATGCATGGCGTGTTACAACATTTTACGTTAT
*
6083759 ATGCATGGCGTGTAACAACAT
1 ATGCATGGCGTGTTACAACAT
6083780 AACTGACAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
30 4 0.04
31 97 0.96
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (31 bp):
ATGCATGGCGTGTTACAACATTTTACGTTAT
Found at i:6087349 original size:31 final size:31
Alignment explanation
Indices: 6087290--6087349 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
6087280 TGAATGACAT
* * *
6087290 CTTGTGGTGACACGCTGAGTGGGAGCAGATG
1 CTTGTGGTGACACACTAAGTGGCAGCAGATG
6087321 CTTGTGGTGACACACTAAGT-GCATGCAGA
1 CTTGTGGTGACACACTAAGTGGCA-GCAGA
6087350 CTTATGGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.23
Consensus pattern (31 bp):
CTTGTGGTGACACACTAAGTGGCAGCAGATG
Found at i:6087476 original size:31 final size:30
Alignment explanation
Indices: 6087441--6087565 Score: 75
Period size: 31 Copynumber: 4.3 Consensus size: 30
6087431 AACTTATGGC
*
6087441 GTGACACGCTGACTTGTTGCAGTCTCGTGGG
1 GTGACACGCTGACTTGTTGCAGACTC-TGGG
* * *
6087472 GTGACACG--G-CATG-GGCA-AAT-TGGG
1 GTGACACGCTGACTTGTTGCAGACTCTGGG
* * * *
6087496 GTGACATGCTGA-GTGCATGCAGACTTCTGGC
1 GTGACACGCTGACTTG-TTGCAGAC-TCTGGG
* *
6087527 GTGACACGCTGACTTGTTGCAGTCTTGTGGG
1 GTGACACGCTGACTTGTTGCAGAC-TCTGGG
6087558 GTGACACG
1 GTGACACG
6087566 GCACGGCCAA
Statistics
Matches: 70, Mismatches: 15, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
24 11 0.16
26 4 0.06
27 3 0.04
28 6 0.09
29 2 0.03
30 1 0.01
31 41 0.59
32 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.26
Consensus pattern (30 bp):
GTGACACGCTGACTTGTTGCAGACTCTGGG
Found at i:6087527 original size:86 final size:86
Alignment explanation
Indices: 6087322--6087736 Score: 532
Period size: 86 Copynumber: 4.9 Consensus size: 86
6087312 GAGCAGATGC
* * * * * *
6087322 TTGTGGTGACACACTAAGTGCATGCAGACTTATGGCATGACATGCTGACTTGTAGTAGTC-T-T-
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
*
6087384 GGGTGACATGGCACGGGCCAA
66 GGGTGACACGGCACGGGCCAA
* * * * * *
6087405 TTGTGGTGACACACTGACTGAATGGAAACTTATGGCGTGACACGCTGACTTGTTGCAGTCTCGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
* *
6087470 GGGTGACACGGCATGGGCAAA
66 GGGTGACACGGCACGGGCCAA
* * *
6087491 TTGGGGTGACATGCTGAGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
6087556 GGGTGACACGGCAC-GGCCAA
66 GGGTGACACGGCACGGGCCAA
* * * * *
6087576 TTGTGGTGACACGCTGAGTGAATGCAAACTTATGGCATGACACACTTACTTGTTGCAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
6087641 GGGTGACACGGCACGGGCCAA
66 GGGTGACACGGCACGGGCCAA
* * * * * **
6087662 TTGTGGTGACATGCTGAGTGCATGCAGACTTCTTGTGTGACACGCTGACTTATTATAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGCAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
6087727 GGGTGACACG
66 GGGTGACACG
6087737 TCATGCCCCA
Statistics
Matches: 284, Mismatches: 44, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
83 51 0.18
85 77 0.27
86 156 0.55
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (86 bp):
TTGTGGTGACACGCTGAGTGCATGCAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTG
GGGTGACACGGCACGGGCCAA
Found at i:6087632 original size:171 final size:172
Alignment explanation
Indices: 6087338--6087736 Score: 590
Period size: 171 Copynumber: 2.3 Consensus size: 172
6087328 TGACACACTA
* * * * *
6087338 AGTGCATGCAGACTTATGGCATGACATGCTGACTTGTAGTAGTC-T-T-GGGTGACATGGCACGG
1 AGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGTAGTCTTGTGGGGTGACACGGCACGG
* * *
6087400 GCCAATTGTGGTGACACACTGACTGAATGGAAACTTATGGCGTGACACGCTGACTTGTTGCAGTC
66 GCCAATTGTGGTGACACACTGACTGAATGCAAACTTATGGCATGACACACTGACTTGTTGCAGTC
*
6087465 TCGTGGGGTGACACGGCATGGGCAAATTGGGGTGACATGCTG
131 TCGTGGGGTGACACGGCACGGGCAAATTGGGGTGACATGCTG
*
6087507 AGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCAC-G
1 AGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGTAGTCTTGTGGGGTGACACGGCACGG
* * *
6087571 GCCAATTGTGGTGACACGCTGAGTGAATGCAAACTTATGGCATGACACACTTACTTGTTGCAGTC
66 GCCAATTGTGGTGACACACTGACTGAATGCAAACTTATGGCATGACACACTGACTTGTTGCAGTC
* * *
6087636 TTGTGGGGTGACACGGCACGGGCCAATTGTGGTGACATGCTG
131 TCGTGGGGTGACACGGCACGGGCAAATTGGGGTGACATGCTG
* * * *
6087678 AGTGCATGCAGACTTCTTGTGTGACACGCTGACTTATTATAGTCTTGTGGGGTGACACG
1 AGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGTAGTCTTGTGGGGTGACACG
6087737 TCATGCCCCA
Statistics
Matches: 206, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
169 39 0.19
170 1 0.00
171 153 0.74
172 13 0.06
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (172 bp):
AGTGCATGCAGACTTCTGGCGTGACACGCTGACTTGTTGTAGTCTTGTGGGGTGACACGGCACGG
GCCAATTGTGGTGACACACTGACTGAATGCAAACTTATGGCATGACACACTGACTTGTTGCAGTC
TCGTGGGGTGACACGGCACGGGCAAATTGGGGTGACATGCTG
Found at i:6089588 original size:31 final size:31
Alignment explanation
Indices: 6089553--6089633 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
6089543 AGAAAGAAAT
* **
6089553 AAATGTTGTTACACACCATGCATATCAAGTA
1 AAATGTTGTAACACACCAAACATATCAAGTA
* *
6089584 AAATGTTGTAACACGCCAAACATATCAAGTC
1 AAATGTTGTAACACACCAAACATATCAAGTA
* *
6089615 AAATGTTGTGACACGCCAA
1 AAATGTTGTAACACACCAA
6089634 TCACTGTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (31 bp):
AAATGTTGTAACACACCAAACATATCAAGTA
Found at i:6089721 original size:55 final size:55
Alignment explanation
Indices: 6089661--6090008 Score: 355
Period size: 55 Copynumber: 6.3 Consensus size: 55
6089651 TCGTTACACT
* * * *
6089661 AACAGCTGTGACACGAT-AAAACCACAAAAAATCAGTTAACTCACAACACGCTAGG
1 AACAGCCGTGACACGCTAAAAACC-CAAAAAATCAGTTAACCCACAACACGCCAGG
* * * *
6089716 AACAGCCGTGACACGCTAAAAATCC-AAAAATCCAATTAACCCACAACACTCCAAG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAAT-CAGTTAACCCACAACACGCCAGG
* * * * *
6089771 AATAGCCATGACACGTTAAAAACCTAAAAAATCAGTTAACCCACAACACACCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAATCAGTTAACCCACAACACGCCAGG
* * * * * * * *
6089826 AATAGCCATGACATGCCAAAAA-CCAAAAAATCCAGTTAATCAACTACACGTCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAAT-CAGTTAACCCACAACACGCCAGG
* *
6089881 AACAGCTGTGACACGCTAAAAACCCAAAAAATCAATTAACCCACAACACGCCA-G
1 AACAGCCGTGACACGCTAAAAACCCAAAAAATCAGTTAACCCACAACACGCCAGG
* * * *
6089935 ATACAGCCGTGACACG-TCAAAAACCCAAAAATTTAGTTAACCGACAACACACCAGG
1 A-ACAGCCGTGACACGCT-AAAAACCCAAAAAATCAGTTAACCCACAACACGCCAGG
* *
6089991 AACAGCCATGACATGCTA
1 AACAGCCGTGACACGCTA
6090009 GGAACAGCCG
Statistics
Matches: 241, Mismatches: 43, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
54 17 0.07
55 201 0.83
56 23 0.10
ACGTcount: A:0.45, C:0.28, G:0.12, T:0.14
Consensus pattern (55 bp):
AACAGCCGTGACACGCTAAAAACCCAAAAAATCAGTTAACCCACAACACGCCAGG
Found at i:6089884 original size:165 final size:164
Alignment explanation
Indices: 6089685--6090006 Score: 463
Period size: 165 Copynumber: 2.0 Consensus size: 164
6089675 GATAAAACCA
*
6089685 CAAAAAATCAGTTAACTCACAACACGCTAGGAACAGCCGTGACACGCTAAAAATCC-AAAAATCC
1 CAAAAAATCAGTTAACTCACAACACGCTAGGAACAGCCGTGACACGCTAAAAACCCAAAAAAT-C
* * * *
6089749 AATTAACCCACAACACTCCAAGA-ATAGCCATGACACGTTAAAAACCTAAAAAATCAGTTAACCC
65 AATTAACCCACAACACGCC-AGATACAGCCATGACACGTCAAAAACCCAAAAAATCAGTTAACCC
*
6089813 ACAACACACCAGGAATAGCCATGACATGCCAAAAAC
129 ACAACACACCAGGAACAGCCATGACATGCCAAAAAC
* *
6089849 CAAAAAATCCAGTTAA-TCAACTACACG-TCAGGAACAGCTGTGACACGCTAAAAACCCAAAAAA
1 CAAAAAAT-CAGTTAACTC-ACAACACGCT-AGGAACAGCCGTGACACGCTAAAAACCCAAAAAA
* * *
6089912 TCAATTAACCCACAACACGCCAGATACAGCCGTGACACGTCAAAAACCCAAAAATTTAGTTAACC
63 TCAATTAACCCACAACACGCCAGATACAGCCATGACACGTCAAAAACCCAAAAAATCAGTTAACC
*
6089977 GACAACACACCAGGAACAGCCATGACATGC
128 CACAACACACCAGGAACAGCCATGACATGC
6090007 TAGGAACAGC
Statistics
Matches: 141, Mismatches: 12, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
164 14 0.10
165 121 0.86
166 6 0.04
ACGTcount: A:0.45, C:0.29, G:0.12, T:0.14
Consensus pattern (164 bp):
CAAAAAATCAGTTAACTCACAACACGCTAGGAACAGCCGTGACACGCTAAAAACCCAAAAAATCA
ATTAACCCACAACACGCCAGATACAGCCATGACACGTCAAAAACCCAAAAAATCAGTTAACCCAC
AACACACCAGGAACAGCCATGACATGCCAAAAAC
Found at i:6090013 original size:20 final size:20
Alignment explanation
Indices: 6089988--6090028 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6089978 ACAACACACC
6089988 AGGAACAGCCATGACATGCT
1 AGGAACAGCCATGACATGCT
*
6090008 AGGAACAGCCGTGACATGCT
1 AGGAACAGCCATGACATGCT
6090028 A
1 A
6090029 AAAATCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.27, T:0.15
Consensus pattern (20 bp):
AGGAACAGCCATGACATGCT
Found at i:6093701 original size:43 final size:44
Alignment explanation
Indices: 6093653--6093779 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 44
6093643 AAGATGACAA
* * * *
6093653 AAATCTCATA-AAAATCGATGGCTCAAAATGTTTTATTTTTATT
1 AAATCTAATAGAAAATCGATGACTCAAAATGTTTTGTTTTTATC
* ** *
6093696 AAATCTAATAGAAAAT-AACAACTCAAAATGTTTTGTTTTCATC
1 AAATCTAATAGAAAATCGATGACTCAAAATGTTTTGTTTTTATC
* * *
6093739 AAATTTTATAGAAAA-CGATGACTCAAAATATTTTGTTTTTA
1 AAATCTAATAGAAAATCGATGACTCAAAATGTTTTGTTTTTA
6093780 AGATGACAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
43 62 0.93
44 5 0.07
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (44 bp):
AAATCTAATAGAAAATCGATGACTCAAAATGTTTTGTTTTTATC
Found at i:6095204 original size:16 final size:16
Alignment explanation
Indices: 6095185--6095215 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6095175 GTCTTTTCCT
6095185 TTCTTCTTCTTCTTTC
1 TTCTTCTTCTTCTTTC
*
6095201 TTCTTTTTCTTCTTT
1 TTCTTCTTCTTCTTT
6095216 TTTATATGTT
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTCTTCTTCTTTC
Found at i:6095209 original size:9 final size:9
Alignment explanation
Indices: 6095183--6095217 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
6095173 CGGTCTTTTC
6095183 CTTTCTTCTT
1 CTTT-TTCTT
6095193 CTTCTTTCTT
1 CTT-TTTCTT
6095203 CTTTTTCTT
1 CTTTTTCTT
6095212 CTTTTT
1 CTTTTT
6095218 TATATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 12 0.50
10 11 0.46
11 1 0.04
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
CTTTTTCTT
Found at i:6099744 original size:15 final size:16
Alignment explanation
Indices: 6099724--6099756 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6099714 AACACGATTA
6099724 ATATAA-TTAAAATTT
1 ATATAATTTAAAATTT
*
6099739 ATATAATTTATAATTT
1 ATATAATTTAAAATTT
6099755 AT
1 AT
6099757 TTATACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATTTAAAATTT
Found at i:6101268 original size:49 final size:49
Alignment explanation
Indices: 6101179--6101307 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 49
6101169 TTTAAAAATT
* * * * *
6101179 ATTATTATATATATATATATATATAAATGG-CTCCTCCAAAATTTTTTAGA
1 ATTATT-TATTTATATATAT-TTTTAATGGTCTCCTCCAAAAATTTATAGA
* *
6101229 ATTATTTATTTATATATATGTTTTAATGGTC-CCTTCAAAAATTTATGGA
1 ATTATTTATTTATATATAT-TTTTAATGGTCTCCTCCAAAAATTTATAGA
6101278 ATTATTTATTTACTATATATTTTTAATGGT
1 ATTATTTATTTA-TATATATTTTTAATGGT
6101308 TCTCTCAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 55 0.80
50 14 0.20
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (49 bp):
ATTATTTATTTATATATATTTTTAATGGTCTCCTCCAAAAATTTATAGA
Found at i:6103083 original size:14 final size:14
Alignment explanation
Indices: 6103064--6103094 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6103054 TGATAATTAA
6103064 TGAATGTCACTATT
1 TGAATGTCACTATT
6103078 TGAATGTCACTATT
1 TGAATGTCACTATT
6103092 TGA
1 TGA
6103095 TAGAGATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (14 bp):
TGAATGTCACTATT
Found at i:6108474 original size:22 final size:22
Alignment explanation
Indices: 6108446--6108491 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6108436 TAATAGTATG
6108446 ACATGAATGTATCTTGAGACTT
1 ACATGAATGTATCTTGAGACTT
6108468 ACATGAATGTATCTTGAGACTT
1 ACATGAATGTATCTTGAGACTT
6108490 AC
1 AC
6108492 TTTTTCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (22 bp):
ACATGAATGTATCTTGAGACTT
Found at i:6108599 original size:43 final size:42
Alignment explanation
Indices: 6108552--6108696 Score: 182
Period size: 43 Copynumber: 3.4 Consensus size: 42
6108542 ACGATGATTA
*
6108552 AAAATGTTTTGTTTTTATCAAATCTAATAGAAAATGACAATTC
1 AAAATATTTTGTTTTTATCAAATCTAATAGAAAATGAC-ATTC
* * * *
6108595 AAAATGTTTTGTTTTCATTAAATCTAATAAAAAATGACATTC
1 AAAATATTTTGTTTTTATCAAATCTAATAGAAAATGACATTC
* * * * *
6108637 AAAATATTTTGGTTTTATGAAATTTTATAGAAAATGACTACTC
1 AAAATATTTTGTTTTTATCAAATCTAATAGAAAATGAC-ATTC
6108680 AAAATATTTTGTTTTTA
1 AAAATATTTTGTTTTTA
6108697 AGATGACAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.39
43 54 0.61
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (42 bp):
AAAATATTTTGTTTTTATCAAATCTAATAGAAAATGACATTC
Found at i:6108930 original size:17 final size:17
Alignment explanation
Indices: 6108908--6108940 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6108898 AAGGAAATAC
6108908 TTATATAGGAATTTTAA
1 TTATATAGGAATTTTAA
*
6108925 TTATATATGAATTTTA
1 TTATATAGGAATTTTA
6108941 TTACAGGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TTATATAGGAATTTTAA
Found at i:6109125 original size:13 final size:13
Alignment explanation
Indices: 6109093--6109156 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
6109083 CCTGCAATTA
*
6109093 AATAAAGAATAA-
1 AATAAATAATAAT
* * *
6109105 ATTAAATACTATT
1 AATAAATAATAAT
6109118 AATAAATAATAAT
1 AATAAATAATAAT
*
6109131 AATAAA-AA-ATT
1 AATAAATAATAAT
6109142 AA-AAATAATAAT
1 AATAAATAATAAT
6109154 AAT
1 AAT
6109157 GTCTCAAGCA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
10 3 0.08
11 6 0.15
12 14 0.36
13 16 0.41
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:6112395 original size:50 final size:50
Alignment explanation
Indices: 6112338--6112437 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
6112328 ACCCCAAACC
6112338 CGTTTACAACTACCCGTTTATATTTTTTTTTATTTAAATAATTGAATAAA
1 CGTTTACAACTACCCGTTTATATTTTTTTTTATTTAAATAATTGAATAAA
6112388 CGTTTACAACTACCCGTTTATATTTTTTTTTATTTAAATAATTGAATAAA
1 CGTTTACAACTACCCGTTTATATTTTTTTTTATTTAAATAATTGAATAAA
6112438 ATTGATGCTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (50 bp):
CGTTTACAACTACCCGTTTATATTTTTTTTTATTTAAATAATTGAATAAA
Found at i:6114386 original size:43 final size:43
Alignment explanation
Indices: 6114325--6114498 Score: 231
Period size: 43 Copynumber: 4.0 Consensus size: 43
6114315 TAAAGGGGGC
* *
6114325 TATCAAATCTCATAGAAAACGATGACTCAAAATGTTTTGTTTT
1 TATCAAATCTAATAGAAAACGACGACTCAAAATGTTTTGTTTT
* * *
6114368 TATCAAATCTAACAGAAAATGACAACTCAAAATGTTTTGTTTT
1 TATCAAATCTAATAGAAAACGACGACTCAAAATGTTTTGTTTT
* * * * *
6114411 CATCAAATCTAATAGAAAATGATGATTCAAAACGTTTTGTTTT
1 TATCAAATCTAATAGAAAACGACGACTCAAAATGTTTTGTTTT
* * *
6114454 TATCAAATCTCATAGAAAACGACGATTCAAAATATTTTGTTTT
1 TATCAAATCTAATAGAAAACGACGACTCAAAATGTTTTGTTTT
6114497 TA
1 TA
6114499 AGATGACAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (43 bp):
TATCAAATCTAATAGAAAACGACGACTCAAAATGTTTTGTTTT
Found at i:6117667 original size:9 final size:9
Alignment explanation
Indices: 6117653--6117694 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
6117643 GGTCATCTTT
6117653 CTCTCTCAA
1 CTCTCTCAA
*
6117662 CTCTCTGAA
1 CTCTCTCAA
*
6117671 CTGTCTCAA
1 CTCTCTCAA
6117680 CTCTGCT-AA
1 CTCT-CTCAA
6117689 CTCTCT
1 CTCTCT
6117695 GTTAAGCATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 2 0.07
9 24 0.86
10 2 0.07
ACGTcount: A:0.19, C:0.38, G:0.07, T:0.36
Consensus pattern (9 bp):
CTCTCTCAA
Found at i:6118061 original size:31 final size:31
Alignment explanation
Indices: 6118023--6118162 Score: 181
Period size: 31 Copynumber: 4.5 Consensus size: 31
6118013 CTGTCAACGC
*
6118023 TGGCGTGTTACAACACTTTACATTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
*
6118054 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
* * * *
6118085 TGACGTGTTACCATATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
* * * *
6118116 TGGTGAGTTATAACATTTTATATTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
*
6118147 TGGCGTGTAACAACAT
1 TGGCGTGTTACAACAT
6118163 AACTGACAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 92 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACATTATATGCA
Found at i:6121731 original size:31 final size:31
Alignment explanation
Indices: 6121672--6121731 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
6121662 TGAATGACAT
* * *
6121672 CTTGTGGTGACACGCTGAGTGGGAGCAGATG
1 CTTGTGGTGACACACTAAGTGGCAGCAGATG
6121703 CTTGTGGTGACACACTAAGT-GCATGCAGA
1 CTTGTGGTGACACACTAAGTGGCA-GCAGA
6121732 CTTATGGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.23
Consensus pattern (31 bp):
CTTGTGGTGACACACTAAGTGGCAGCAGATG
Found at i:6121858 original size:31 final size:31
Alignment explanation
Indices: 6121823--6121947 Score: 86
Period size: 31 Copynumber: 4.3 Consensus size: 31
6121813 AACTTATGGT
6121823 GTGACACGCTGACTTGTTGCAGTCTTGTGGG
1 GTGACACGCTGACTTGTTGCAGTCTTGTGGG
* * **
6121854 GTGACACG--G-CATG-GGCA--AAT-TGGG
1 GTGACACGCTGACTTGTTGCAGTCTTGTGGG
* * * ** * *
6121878 GTGACATGCTGA-GTGCATGCAAACTTCTGGC
1 GTGACACGCTGACTTG-TTGCAGTCTTGTGGG
6121909 GTGACACGCTGACTTGTTGCAGTCTTGTGGG
1 GTGACACGCTGACTTGTTGCAGTCTTGTGGG
6121940 GTGACACG
1 GTGACACG
6121948 GCACGGNNNN
Statistics
Matches: 68, Mismatches: 17, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
24 11 0.16
25 1 0.01
26 3 0.04
27 3 0.04
28 6 0.09
29 1 0.01
30 1 0.01
31 40 0.59
32 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.26
Consensus pattern (31 bp):
GTGACACGCTGACTTGTTGCAGTCTTGTGGG
Found at i:6121902 original size:86 final size:86
Alignment explanation
Indices: 6121708--6121953 Score: 327
Period size: 86 Copynumber: 2.9 Consensus size: 86
6121698 AGATGCTTGT
* * * * * *
6121708 GGTGACACACTAAGTGCATGCAGACTTATGGCATGACATGCTGACTTGTAGTAGTC-T-T-GGGT
1 GGTGACACACTGAGTGCATGCAAACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGT
* *
6121770 GACACGGCACGGGCCAATTGT
66 GACACGGCACGGGCAAATTGG
* * * *
6121791 GGTGACACACTGACTGAATGGAAACTTATGGTGTGACACGCTGACTTGTTGCAGTCTTGTGGGGT
1 GGTGACACACTGAGTGCATGCAAACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGT
*
6121856 GACACGGCATGGGCAAATTGG
66 GACACGGCACGGGCAAATTGG
** *
6121877 GGTGACATGCTGAGTGCATGCAAACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGT
1 GGTGACACACTGAGTGCATGCAAACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGT
6121942 GACACGGCACGG
66 GACACGGCACGG
6121954 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
83 46 0.33
84 1 0.01
85 1 0.01
86 91 0.65
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (86 bp):
GGTGACACACTGAGTGCATGCAAACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGT
GACACGGCACGGGCAAATTGG
Found at i:6122221 original size:86 final size:86
Alignment explanation
Indices: 6122076--6122290 Score: 331
Period size: 86 Copynumber: 2.5 Consensus size: 86
6122066 NNNNNNNNNN
* *
6122076 TGGCGTGGCACGCTGACTTGTTGCAGTCTTGCGGGGTGACACGGCACGGGCCAATTGTGGCGACA
1 TGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCACGGGCCAATTGTGGCGACA
6122141 CGCTGAGTGAATGCAAACTTA
66 CGCTGAGTGAATGCAAACTTA
* * *
6122162 TGGCGTGACACACTAACTTGTTGCAGTCTTGTGGGGTGACACGGCACGGGCCAATTGTGGTGACA
1 TGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCACGGGCCAATTGTGGCGACA
* * *
6122227 TGCTGAGTGCATGCAAACTTC
66 CGCTGAGTGAATGCAAACTTA
* * *
6122248 TGGTGTGACACGCTGACTTATTACAGTCTTGTGGGGTGACACG
1 TGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACG
6122291 CCATGCCCCA
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 116 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (86 bp):
TGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCACGGGCCAATTGTGGCGACA
CGCTGAGTGAATGCAAACTTA
Found at i:6124281 original size:55 final size:54
Alignment explanation
Indices: 6124215--6124587 Score: 370
Period size: 55 Copynumber: 6.8 Consensus size: 54
6124205 TCGTTACACT
* * *
6124215 AACAGCCGTGACACGGTAAAACCACAAAAAATCAGTTAACTCACAACACGCCAAG
1 AACAGCCGTGACACGCTAAAACC-CAAAAAATCAGTTAACCCACAACACGCCAGG
* * *
6124270 AACAGCCGTGACACGCTAAAAATCC-AAAAATCCAGTTAACCCACAACACTCCAAG
1 AACAGCCGTGACACGCT-AAAACCCAAAAAAT-CAGTTAACCCACAACACGCCAGG
* * * *
6124325 AATAGCCGTGACACGCTAAAAACCTAAAAAACCAGTTAACCCACAACACACCAGG
1 AACAGCCGTGACACGCT-AAAACCCAAAAAATCAGTTAACCCACAACACGCCAGG
* * * *** * *
6124380 AATAGCCGTGACACGCCAAAAACCAAAAAATCCAGTTAATTAACTACACGTCAGG
1 AACAGCCGTGACACGCTAAAACCCAAAAAAT-CAGTTAACCCACAACACGCCAGG
** * *
6124435 AACAGTTGTGACATGCTAAAAACCCAAAAAATCAATTAACCCACAACACGCCAGG
1 AACAGCCGTGACACGCT-AAAACCCAAAAAATCAGTTAACCCACAACACGCCAGG
* * * * ** *
6124490 TACAGCCGTGACACGCAAAAAACCCAAAAATTTAGTTAACTGACAACACACCAGG
1 AACAGCCGTGACACGC-TAAAACCCAAAAAATCAGTTAACCCACAACACGCCAGG
* ** *
6124545 AACAGCCGTGACACGTTAAAAATTCAAAAAACCAGTTAACCCA
1 AACAGCCGTGACACGCT-AAAACCCAAAAAATCAGTTAACCCA
6124588 TAATAAGACA
Statistics
Matches: 258, Mismatches: 53, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
54 17 0.07
55 218 0.84
56 23 0.09
ACGTcount: A:0.45, C:0.28, G:0.13, T:0.14
Consensus pattern (54 bp):
AACAGCCGTGACACGCTAAAACCCAAAAAATCAGTTAACCCACAACACGCCAGG
Found at i:6124411 original size:110 final size:109
Alignment explanation
Indices: 6124215--6124587 Score: 435
Period size: 110 Copynumber: 3.4 Consensus size: 109
6124205 TCGTTACACT
* * * *
6124215 AACAGCCGTGACACGGT-AAAACCACAAAAAATCAGTTAACTCACAACACGCCAAGAACAGCCGT
1 AACAGCCGTGACACGCTAAAAACC-CAAAAAACCAGTTAACCCACAACACGCCAGGAACAGCCGT
* ** *
6124279 GACACGCTAAAAATCCAAAAATCCAGTTAACCCACAACACTCCAAG
65 GACACGC-AAAAAACCAAAAATCCAGTTAACTAACAACACTCCAGG
* * * *
6124325 AATAGCCGTGACACGCTAAAAACCTAAAAAACCAGTTAACCCACAACACACCAGGAATAGCCGTG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCAGGAACAGCCGTG
* * *
6124390 ACACGCCAAAAACCAAAAAATCCAGTTAATTAACTACACGT-CAGG
66 ACACGCAAAAAACC-AAAAATCCAGTTAACTAACAACAC-TCCAGG
** * * * *
6124435 AACAGTTGTGACATGCTAAAAACCCAAAAAATCAATTAACCCACAACACGCCAGGTACAGCCGTG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCAGGAACAGCCGTG
** * *
6124500 ACACGCAAAAAACCCAAAAATTTAGTTAACTGACAACACACCAGG
66 ACACGCAAAAAA-CCAAAAATCCAGTTAACTAACAACACTCCAGG
* **
6124545 AACAGCCGTGACACGTTAAAAATTCAAAAAACCAGTTAACCCA
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCA
6124588 TAATAAGACA
Statistics
Matches: 218, Mismatches: 40, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
109 6 0.03
110 203 0.93
111 9 0.04
ACGTcount: A:0.45, C:0.28, G:0.13, T:0.14
Consensus pattern (109 bp):
AACAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCAGGAACAGCCGTG
ACACGCAAAAAACCAAAAATCCAGTTAACTAACAACACTCCAGG
Found at i:6124455 original size:165 final size:165
Alignment explanation
Indices: 6124215--6124584 Score: 449
Period size: 165 Copynumber: 2.2 Consensus size: 165
6124205 TCGTTACACT
* * *
6124215 AACAGCCGTGACACGGTAAAACCACAAAAAAT-CAGTTAACTCACAACACGCCAAGAACAGCCGT
1 AACAGCCGTGACACGCTAAAAAC-CAAAAAATCCAGTTAACTAACAACACGCCAAGAACAGCCGT
* * * * *
6124279 GACACGCTAAAAATCC-AAAAATCCAGTTAACCCACAACACTCCAAGAATAGCCGTGACACGCTA
65 GACACGCTAAAAACCCAAAAAAT-CAATTAACCCACAACACGCCAAGAACAGCCGTGACACGCAA
*
6124343 AAAACCTAAAAAACCAGTTAACCCACAACACACCAGG
129 AAAACCCAAAAAACCAGTTAACCCACAACACACCAGG
* * * * * * **
6124380 AATAGCCGTGACACGCCAAAAACCAAAAAATCCAGTTAATTAACTACACGTCAGGAACAGTTGTG
1 AACAGCCGTGACACGCTAAAAACCAAAAAATCCAGTTAACTAACAACACGCCAAGAACAGCCGTG
* * *
6124445 ACATGCTAAAAACCCAAAAAATCAATTAACCCACAACACGCCAGGTACAGCCGTGACACGCAAAA
66 ACACGCTAAAAACCCAAAAAATCAATTAACCCACAACACGCCAAGAACAGCCGTGACACGCAAAA
*** **
6124510 AACCCAAAAATTTAGTTAACTGACAACACACCAGG
131 AACCCAAAAAACCAGTTAACCCACAACACACCAGG
* *
6124545 AACAGCCGTGACACGTTAAAAATTCAAAAAA-CCAGTTAAC
1 AACAGCCGTGACACGCTAAAAA-CCAAAAAATCCAGTTAAC
6124585 CCATAATAAG
Statistics
Matches: 172, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
164 8 0.05
165 151 0.88
166 13 0.08
ACGTcount: A:0.45, C:0.28, G:0.13, T:0.14
Consensus pattern (165 bp):
AACAGCCGTGACACGCTAAAAACCAAAAAATCCAGTTAACTAACAACACGCCAAGAACAGCCGTG
ACACGCTAAAAACCCAAAAAATCAATTAACCCACAACACGCCAAGAACAGCCGTGACACGCAAAA
AACCCAAAAAACCAGTTAACCCACAACACACCAGG
Found at i:6124632 original size:2 final size:2
Alignment explanation
Indices: 6124625--6124658 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6124615 TCAAAAACCC
6124625 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6124659 TNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6130147 original size:21 final size:21
Alignment explanation
Indices: 6130121--6130169 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
6130111 TCGATCATTC
*
6130121 AAAAAAAAT-TAAAAATATTTT
1 AAAAATAATATAAAAAT-TTTT
*
6130142 AGAAAATAATATTAAAATTTTT
1 A-AAAATAATATAAAAATTTTT
6130164 AAAAAT
1 AAAAAT
6130170 TTAATTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 12 0.50
23 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAATAATATAAAAATTTTT
Found at i:6134964 original size:23 final size:23
Alignment explanation
Indices: 6134912--6134965 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
6134902 AATATTGAAA
*
6134912 AGTTGTGTCTATTATGTTTCAAC
1 AGTTGTGTCTATTATGTTGCAAC
* * *
6134935 A-TATGTGTCTGTTGTGTTGCAAT
1 AGT-TGTGTCTATTATGTTGCAAC
6134958 AGTTGTGT
1 AGTTGTGT
6134966 TGGTTGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 23 0.92
24 1 0.04
ACGTcount: A:0.19, C:0.09, G:0.24, T:0.48
Consensus pattern (23 bp):
AGTTGTGTCTATTATGTTGCAAC
Found at i:6135858 original size:3 final size:3
Alignment explanation
Indices: 6135843--6135877 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
6135833 ATGAAATTGG
*
6135843 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6135878 GAGTAAGCTT
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:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6138656 original size:13 final size:13
Alignment explanation
Indices: 6138638--6138662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6138628 GGAAAATGAG
6138638 ATTTTATAAAATA
1 ATTTTATAAAATA
6138651 ATTTTATAAAAT
1 ATTTTATAAAAT
6138663 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:6139564 original size:2 final size:2
Alignment explanation
Indices: 6139557--6139584 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6139547 GATGTTTTCA
6139557 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6139585 TGTTTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6143423 original size:13 final size:13
Alignment explanation
Indices: 6143405--6143430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6143395 GAAAAATGAG
6143405 ATTTTATAAAATT
1 ATTTTATAAAATT
6143418 ATTTTATAAAATT
1 ATTTTATAAAATT
6143431 TTTGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:6161745 original size:20 final size:20
Alignment explanation
Indices: 6161720--6161765 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
6161710 CTTCTAAACC
6161720 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
6161740 TCAAATTATGCTCCAATAAG
1 TCAAATCATACTCCAATAAG
6161760 TCAAAT
1 TCAAAT
6161766 GGGGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:6165312 original size:118 final size:118
Alignment explanation
Indices: 6165100--6165492 Score: 475
Period size: 118 Copynumber: 3.3 Consensus size: 118
6165090 GGGACGAGCT
* * * * * * * *
6165100 GTGTCACCCCACAAT-ATAGCAAGAACTTAGCATGTCACCATAGAAATCTGCATGCACTCAGCGT
1 GTGTCACCCCACAATAAT-GCAAGAAGTCAGCGTGTCACCATAAAAATCAGCAAGAACTCAACGT
* * *
6165164 GTCACGCCAACTATCTGCTTCCACTCAGCATGTCACCACAAAATGGGGCGTGCC
65 GTCACGCCAACTATCTGGTTCCACTCAGCATGTCACCACAAGATGGGGAGTGCC
* * * * * *
6165218 GTGGCACCCTACAATACTGTAAGAAGTCAGCGTGTCATCATAAAAATCAGCAAGAAGTCAACGTG
1 GTGTCACCCCACAATAATGCAAGAAGTCAGCGTGTCACCATAAAAATCAGCAAGAACTCAACGTG
* * * *
6165283 TCACGCTAGCTATCTGGTTCCACTCAGCATGTCACCGCAAGATGGGGTGTGCC
66 TCACGCCAACTATCTGGTTCCACTCAGCATGTCACCACAAGATGGGGAGTGCC
* * * * * *
6165336 GTGTCACCCCACAATAATGCAAAAAGTCAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTG
1 GTGTCACCCCACAATAATGCAAGAAGTCAGCGTGTCACCATAAAAATCAGCAAGAACTCAACGTG
* ** *
6165401 TCACGCCAACTATTTGGTTCCACTCAGTGTGTCACCATAAGAT-GGGAGTGCC
66 TCACGCCAACTATCTGGTTCCACTCAGCATGTCACCACAAGATGGGGAGTGCC
*
6165453 GTGTCACCCCACAATAATGCAAGAAGTCAGCATGTCACCA
1 GTGTCACCCCACAATAATGCAAGAAGTCAGCGTGTCACCA
6165493 CAGAAATCTA
Statistics
Matches: 232, Mismatches: 42, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
117 46 0.20
118 185 0.80
119 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (118 bp):
GTGTCACCCCACAATAATGCAAGAAGTCAGCGTGTCACCATAAAAATCAGCAAGAACTCAACGTG
TCACGCCAACTATCTGGTTCCACTCAGCATGTCACCACAAGATGGGGAGTGCC
Found at i:6167851 original size:2 final size:2
Alignment explanation
Indices: 6167844--6167917 Score: 82
Period size: 2 Copynumber: 37.0 Consensus size: 2
6167834 NNNNNNNNNN
**
6167844 TA TA TA TA TA TA TA TA TA TA TA TA GTA GT- TA GG T- TA GT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA TA TA TA TA -TA TA
6167884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6167918 ACTTTTAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.05
2 56 0.88
3 5 0.08
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6170371 original size:14 final size:14
Alignment explanation
Indices: 6170347--6170384 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
6170337 GATATCTTTT
6170347 TAAAG-AACTCTAC
1 TAAAGAAACTCTAC
6170360 TAAAGAAACTCTAC
1 TAAAGAAACTCTAC
*
6170374 CAAAGAAACTC
1 TAAAGAAACTC
6170385 CTCACAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.18
Consensus pattern (14 bp):
TAAAGAAACTCTAC
Found at i:6174055 original size:31 final size:31
Alignment explanation
Indices: 6174020--6174083 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
6174010 TCTACTTGTA
6174020 AAAATGAGCCCAAATACCTTAAAACCAGAGG
1 AAAATGAGCCCAAATACCTTAAAACCAGAGG
* *
6174051 AAAATGTGCCCAAATACCTTAAAACCATAGG
1 AAAATGAGCCCAAATACCTTAAAACCAGAGG
6174082 AA
1 AA
6174084 TAAATCTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.16
Consensus pattern (31 bp):
AAAATGAGCCCAAATACCTTAAAACCAGAGG
Found at i:6179187 original size:13 final size:14
Alignment explanation
Indices: 6179161--6179217 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 14
6179151 TGTAAACACC
6179161 TAAAAAATAATAAA
1 TAAAAAATAATAAA
*
6179175 TAAAAAAT-TTAAA
1 TAAAAAATAATAAA
* *
6179188 T-TATAATAA-AATA
1 TAAAAAATAATAA-A
6179201 TAAAAAA-AATAAA
1 TAAAAAATAATAAA
6179214 TAAA
1 TAAA
6179218 GAAAAAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
12 6 0.18
13 14 0.42
14 13 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAAAATAATAAA
Found at i:6179187 original size:23 final size:25
Alignment explanation
Indices: 6179161--6179206 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
6179151 TGTAAACACC
6179161 TAAAAAATAAT-AAATA-AAAAATT
1 TAAAAAATAATAAAATATAAAAATT
**
6179184 TAAATTATAATAAAATATAAAAA
1 TAAAAAATAATAAAATATAAAAA
6179207 AAATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 5 0.26
25 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
TAAAAAATAATAAAATATAAAAATT
Found at i:6180477 original size:11 final size:10
Alignment explanation
Indices: 6180456--6180491 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
6180446 GATACAGATC
6180456 TAAATAAAAAA
1 TAAA-AAAAAA
6180467 TAGAAAAAAAA
1 TA-AAAAAAAA
6180478 TAAAAAAAAA
1 TAAAAAAAAA
6180488 TAAA
1 TAAA
6180492 TAATCCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 12 0.50
11 10 0.42
12 2 0.08
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:6194428 original size:21 final size:22
Alignment explanation
Indices: 6194404--6194451 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
6194394 AAAAAATAGA
6194404 AAAAAACAAAAAAATAAT-AAT
1 AAAAAACAAAAAAATAATCAAT
* * *
6194425 -AAAAATAAATAAATAATCCAT
1 AAAAAACAAAAAAATAATCAAT
6194446 AAAAAA
1 AAAAAA
6194452 TGACAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 15 0.68
21 2 0.09
22 5 0.23
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAAAACAAAAAAATAATCAAT
Found at i:6195754 original size:69 final size:69
Alignment explanation
Indices: 6195651--6195786 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
6195641 AGTGTCAACA
* * *
6195651 TTTAGAGGGATGTTAGTCTCTTAAAGGAAAATATATTTTCAGAAAACTGGTTGGAAGAGAGATCT
1 TTTAAAGGGATGTTAGTCTCTTAAAGGAAAATATATTTCCAGAAAACTGATTGGAAGAGAGATCT
6195716 AAAC
66 AAAC
** *
6195720 TTTAAAGGGATGTTAGAT-T-TTAAAGGATTGATATATTTCCAGAAAATTGATTGGAAGAGAGAT
1 TTTAAAGGGATGTTAG-TCTCTTAAAGGA-AAATATATTTCCAGAAAACTGATTGGAAGAGAGAT
6195783 CTAA
64 CTAA
6195787 TATTTCAAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
68 8 0.14
69 50 0.85
70 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (69 bp):
TTTAAAGGGATGTTAGTCTCTTAAAGGAAAATATATTTCCAGAAAACTGATTGGAAGAGAGATCT
AAAC
Found at i:6201882 original size:52 final size:52
Alignment explanation
Indices: 6201821--6201925 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
6201811 TAAAAAAGGT
* * *
6201821 TGACAATGAAAGTTTCATTGAG-CAGAGGAAATTGGTTAGTAACAGAAATTGG
1 TGACAATGAAAGTTTCACTGAGCCA-AGGAAAATGGTTAGTAACACAAATTGG
6201873 TGACAATGAAAGTTTCACTGAGCCAAGGAAAATGGTTAGTAACACAAATTGG
1 TGACAATGAAAGTTTCACTGAGCCAAGGAAAATGGTTAGTAACACAAATTGG
6201925 T
1 T
6201926 AACATGCACA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 47 0.96
53 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (52 bp):
TGACAATGAAAGTTTCACTGAGCCAAGGAAAATGGTTAGTAACACAAATTGG
Found at i:6203486 original size:72 final size:72
Alignment explanation
Indices: 6203340--6203487 Score: 167
Period size: 72 Copynumber: 2.1 Consensus size: 72
6203330 CGATTGTTTC
* * *
6203340 CAAACTTGACATATTCCCCATCCACTTCGGTATCCCACCAAAAATTGTGTTATTGCTTAAATCTA
1 CAAACTTGACAAATTCCCCATCCACTTCGGTATCCCACCAAAAATTGTATTATTGCTTAAATCCA
6203405 ATATAGA
66 ATATAGA
* * * *
6203412 CAAACTTGACAAATTCTCCATCCATCTT-GGTATCTCATCAAAGAGTTG-ATTATTGC-TAACAT
1 CAAACTTGACAAATTCCCCATCCA-CTTCGGTATCCCACCAAA-AATTGTATTATTGCTTAA-AT
* *
6203474 CCGATATTGA
63 CCAATATAGA
6203484 CAAA
1 CAAA
6203488 TCTGAGCAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
71 3 0.05
72 54 0.84
73 7 0.11
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
CAAACTTGACAAATTCCCCATCCACTTCGGTATCCCACCAAAAATTGTATTATTGCTTAAATCCA
ATATAGA
Found at i:6204480 original size:31 final size:31
Alignment explanation
Indices: 6204442--6204502 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
6204432 CAAATAAATG
* *
6204442 AAAAAAAAATCATACACAAACGCCGTCACTA
1 AAAAAAAAAACATACACAAACGACGTCACTA
6204473 AAAAAAAAAACATACACAAACGACGTCACT
1 AAAAAAAAAACATACACAAACGACGTCACT
6204503 TATTGACTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.57, C:0.25, G:0.07, T:0.11
Consensus pattern (31 bp):
AAAAAAAAAACATACACAAACGACGTCACTA
Found at i:6213304 original size:14 final size:13
Alignment explanation
Indices: 6213281--6213328 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
6213271 TATTTTTATC
*
6213281 TAAATTTAAAATA
1 TAAATATAAAATA
6213294 TTAAATATAAAACTA
1 -TAAATATAAAA-TA
6213309 TAATATATAAAATA
1 TAA-ATATAAAATA
6213323 TAAATA
1 TAAATA
6213329 GTTAAACACA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 3 0.10
14 18 0.58
15 10 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATATAAAATA
Found at i:6213328 original size:15 final size:15
Alignment explanation
Indices: 6213287--6213328 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6213277 TATCTAAATT
6213287 TAAAATATTAAATATA
1 TAAAATA-TAAATATA
*
6213303 -AAACTAT-AATATA
1 TAAAATATAAATATA
6213316 TAAAATATAAATA
1 TAAAATATAAATA
6213329 GTTAAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 6 0.27
14 7 0.32
15 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAATATAAATATA
Found at i:6213334 original size:15 final size:14
Alignment explanation
Indices: 6213281--6213334 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
6213271 TATTTTTATC
6213281 TAAAT-TTAAAATA
1 TAAATATTAAAATA
6213294 TTAAATA-TAAAACTA
1 -TAAATATTAAAA-TA
6213309 T-AATATATAAAATA
1 TAAATAT-TAAAATA
6213323 TAAATAGTTAAA
1 TAAATA-TTAAA
6213335 CACAATATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 4 0.12
14 14 0.41
15 15 0.44
16 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
TAAATATTAAAATA
Found at i:6213388 original size:17 final size:16
Alignment explanation
Indices: 6213362--6213394 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
6213352 TATACAGTGA
6213362 TTAAATATATAAATAG
1 TTAAATATATAAATAG
6213378 TTAAATAATATAAATAG
1 TTAAAT-ATATAAATAG
6213395 AAAGAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TTAAATATATAAATAG
Found at i:6223925 original size:19 final size:19
Alignment explanation
Indices: 6223901--6223938 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6223891 CTGTCAAACC
*
6223901 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
6223920 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
6223939 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:6236754 original size:28 final size:27
Alignment explanation
Indices: 6236718--6236770 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6236708 ATATCCTGGT
*
6236718 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
6236745 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
6236771 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:6236838 original size:20 final size:20
Alignment explanation
Indices: 6236815--6236860 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
6236805 CTTCTAAACC
6236815 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
6236835 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
6236855 TCAAAT
1 TCAAAT
6236861 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:6239880 original size:27 final size:27
Alignment explanation
Indices: 6239832--6239884 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
6239822 AAAAACCAAC
*
6239832 TTATAACACATGTAATTGCTTAATTAT
1 TTATAACACATGTAATTACTTAATTAT
6239859 TTATAACACAT-TACATTACTTAATTA
1 TTATAACACATGTA-ATTACTTAATTA
6239885 AATAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (27 bp):
TTATAACACATGTAATTACTTAATTAT
Found at i:6247495 original size:37 final size:37
Alignment explanation
Indices: 6247453--6247525 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
6247443 AAGGTAGAGT
* * *
6247453 GGTTGTGTTTTAACCATAATAAGGTA-TTGTATTGAAA
1 GGTTGTGCTTGAACCATAA-AAGGCATTTGTATTGAAA
*
6247490 GGTTGTGCTTGATCCATAAAAGGCATTTGTATTGAA
1 GGTTGTGCTTGAACCATAAAAGGCATTTGTATTGAA
6247526 CTTTATTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 5 0.16
37 26 0.84
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (37 bp):
GGTTGTGCTTGAACCATAAAAGGCATTTGTATTGAAA
Found at i:6255149 original size:19 final size:19
Alignment explanation
Indices: 6255125--6255172 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
6255115 TCAAAATGGT
*
6255125 AATTCGGAGTTTGATGATC
1 AATTCGGAGTTCGATGATC
6255144 AATTCGGAGTTCGATGATC
1 AATTCGGAGTTCGATGATC
6255163 AATTCGGAGT
1 AATTCGGAGT
6255173 CAAATCGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (19 bp):
AATTCGGAGTTCGATGATC
Found at i:6263919 original size:2 final size:2
Alignment explanation
Indices: 6263912--6263949 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6263902 ATTAAAGGAA
6263912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6263950 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6264028 original size:2 final size:2
Alignment explanation
Indices: 6264021--6264060 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
6264011 NTAAGTAATA
*
6264021 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6264061 TGGTTGTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6265384 original size:108 final size:107
Alignment explanation
Indices: 6265249--6265458 Score: 300
Period size: 108 Copynumber: 2.0 Consensus size: 107
6265239 TAAAATGACT
* *
6265249 AAAAATGTTGATTTGATTACAACTTTCACGATTTTCAAATATACATTC-TTTGAAAATTATTCAA
1 AAAAATGTTGATTTGATTACAACTTTCACGATTTACAAATACACATTCTTTTG-AAATTATTCAA
* * *
6265313 CT-CTTACTCAATTTACCTTTTATTTAAATTTGCTCAAATTAGA
65 -TGATTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAGA
* *
6265356 AAAATATGTTGATTT-AGTTACAATTTTCACTATTTACAAATACACATTCTTTTGAAATTATTCA
1 AAAA-ATGTTGATTTGA-TTACAACTTTCACGATTTACAAATACACATTCTTTTGAAATTATTCA
6265420 ATGATTACCCAATTTACCTTTTATTTAAATTTACTCAAA
64 ATGATTACCCAATTTACCTTTTATTTAAATTTACTCAAA
6265459 ATTTCTTATA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
107 6 0.07
108 82 0.89
109 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (107 bp):
AAAAATGTTGATTTGATTACAACTTTCACGATTTACAAATACACATTCTTTTGAAATTATTCAAT
GATTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAGA
Found at i:6266525 original size:67 final size:67
Alignment explanation
Indices: 6266439--6266607 Score: 198
Period size: 67 Copynumber: 2.5 Consensus size: 67
6266429 TATTTGGTGA
* * * * *
6266439 GTTTTGGTTAATCCCGTGAAAAACCATTGTTG-TAGATTGTAGTTGAGCCTTTGAAAAACCACTT
1 GTTTTGGTTGAGCCCGTGAAAAACCATTG-TGAAAGACTATAGTTGAGCCTTTGAAAAACCACTT
6266503 TGG
65 TGG
* * *
6266506 GTTTTGGTTGAGCCTGTGAAAAACCATTGTGAAAGGCTATGGTTGAGCCTTTGAAAAACCACTTT
1 GTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGACTATAGTTGAGCCTTTGAAAAACCACTTT
6266571 GG
66 GG
* * * *
6266573 GTTTTAGTTGATCTCG-GTAAAAACTATTGTGAAAG
1 GTTTTGGTTGAGCCCGTG-AAAAACCATTGTGAAAG
6266608 GTTTTGGTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 3 0.03
67 84 0.97
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (67 bp):
GTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGACTATAGTTGAGCCTTTGAAAAACCACTTT
GG
Found at i:6266526 original size:32 final size:32
Alignment explanation
Indices: 6266480--6266583 Score: 129
Period size: 32 Copynumber: 3.2 Consensus size: 32
6266470 GTAGATTGTA
6266480 GTTGAGCCTTTGAAAAACCACTTTGGGTTTTG
1 GTTGAGCCTTTGAAAAACCACTTTGGGTTTTG
* * *
6266512 GTTGAGCCTGTGAAAAACCA-TTGTGAAAGGCTATG
1 GTTGAGCCTTTGAAAAACCACTT-TG---GGTTTTG
*
6266547 GTTGAGCCTTTGAAAAACCACTTTGGGTTTTA
1 GTTGAGCCTTTGAAAAACCACTTTGGGTTTTG
6266579 GTTGA
1 GTTGA
6266584 TCTCGGTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
31 2 0.03
32 30 0.50
35 26 0.43
36 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (32 bp):
GTTGAGCCTTTGAAAAACCACTTTGGGTTTTG
Found at i:6266616 original size:67 final size:67
Alignment explanation
Indices: 6266480--6266608 Score: 206
Period size: 67 Copynumber: 1.9 Consensus size: 67
6266470 GTAGATTGTA
* *
6266480 GTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGAGCCTGTGAAAAACCATTGTGAAAGGCTA
1 GTTGAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCCGGTGAAAAACCATTGTGAAAGGCTA
6266545 TG
66 TG
* *
6266547 GTTGAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGATCTCGGT-AAAAACTATTGTGAAAGG
1 GTTGAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGC-CGGTGAAAAACCATTGTGAAAGG
6266609 TTTTGGTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
67 54 0.95
68 3 0.05
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (67 bp):
GTTGAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCCGGTGAAAAACCATTGTGAAAGGCTA
TG
Found at i:6268804 original size:42 final size:42
Alignment explanation
Indices: 6268738--6268862 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 42
6268728 TGTTGATGTG
* *
6268738 GACCAGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* *
6268780 GATCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* * * *
6268822 GACCCGGCTCTATGCGAGTGGGAGTACGCATAAGCCGTTGC
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
6268863 ATATGAGATG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.22
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:6278457 original size:35 final size:33
Alignment explanation
Indices: 6278365--6278473 Score: 121
Period size: 35 Copynumber: 3.2 Consensus size: 33
6278355 TAATCCCGTG
*
6278365 AAAACCATTGTTATAGGGTGTGGTTGAGCCTTTGA
1 AAAACCATTG-TA-AGGTTGTGGTTGAGCCTTTGA
* * *
6278400 AAAACCATTCT-AGGTTTTGGTTGAGCCTGTGA
1 AAAACCATTGTAAGGTTGTGGTTGAGCCTTTGA
* *
6278432 AAAACTATTGTGAAAGGTTGTGGTTGACCCTTTGA
1 AAAACCATTGT--AAGGTTGTGGTTGAGCCTTTGA
6278467 AAAACCA
1 AAAACCA
6278474 CTTTGCGTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
32 27 0.44
34 1 0.02
35 33 0.54
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (33 bp):
AAAACCATTGTAAGGTTGTGGTTGAGCCTTTGA
Found at i:6278484 original size:67 final size:67
Alignment explanation
Indices: 6278347--6278517 Score: 197
Period size: 67 Copynumber: 2.6 Consensus size: 67
6278337 TAGTTGTTGA
* * * * * * *
6278347 GTTTTGGTTAATCCCGTG-AAAACCATTGTTATAGGGTGTGGTTGAGCCTTTGAAAAACCATTCT
1 GTTTTGGTTGATCCTGTGAAAAACTATTGTGAAAGGTTGTGGTTGACCCTTTGAAAAACCATTCT
6278411 AG
66 AG
*
6278413 GTTTTGGTTGAGCCTGTGAAAAACTATTGTGAAAGGTTGTGGTTGACCCTTTGAAAAACCACTT-
1 GTTTTGGTTGATCCTGTGAAAAACTATTGTGAAAGGTTGTGGTTGACCCTTTGAAAAACCA-TTC
6278477 T-G
65 TAG
* *
6278479 CGTTTTAGTTGATCTTG-GTAAAAACTATTGTGAAAGGTT
1 -GTTTTGGTTGATCCTGTG-AAAAACTATTGTGAAAGGTT
6278518 TTGGCTAAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
66 17 0.19
67 71 0.79
68 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (67 bp):
GTTTTGGTTGATCCTGTGAAAAACTATTGTGAAAGGTTGTGGTTGACCCTTTGAAAAACCATTCT
AG
Found at i:6285171 original size:24 final size:25
Alignment explanation
Indices: 6285144--6285229 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 25
6285134 CTTCTCCCAT
6285144 TTCTTTTTAATTGGACCATGTCC-A
1 TTCTTTTTAATTGGACCATGTCCAA
*
6285168 TTCTTTTCTTTATTGGACCATGTCCAA
1 TTC-TTT-TTAATTGGACCATGTCCAA
* * * *
6285195 TTTTTTTCTTTATTAGACTATGTCCAA
1 -TTCTTT-TTAATTGGACCATGTCCAA
6285222 TT-TTTTTA
1 TTCTTTTTA
6285230 TGCTTGTTGG
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
24 5 0.09
25 6 0.11
26 18 0.34
27 22 0.42
28 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.53
Consensus pattern (25 bp):
TTCTTTTTAATTGGACCATGTCCAA
Found at i:6285201 original size:27 final size:27
Alignment explanation
Indices: 6285153--6285228 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
6285143 TTTCTTTTTA
*
6285153 ATTGGACCATGTCC-ATTCTTTTCTTT
1 ATTGGACCATGTCCAATTTTTTTCTTT
6285179 ATTGGACCATGTCCAATTTTTTTCTTT
1 ATTGGACCATGTCCAATTTTTTTCTTT
* *
6285206 ATTAGACTATGTCCAATTTTTTT
1 ATTGGACCATGTCCAATTTTTTT
6285229 ATGCTTGTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 14 0.30
27 32 0.70
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (27 bp):
ATTGGACCATGTCCAATTTTTTTCTTT
Found at i:6285662 original size:34 final size:34
Alignment explanation
Indices: 6285622--6285702 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
6285612 ACTTTTTTAG
* *
6285622 CCTCCAAAATCAGTAGAAAAATGGCACTTTCCAA
1 CCTCCAAAACCAGTAAAAAAATGGCACTTTCCAA
*
6285656 CCTCCAAAACCAGTAAAAAAATGGCACTTTCCAG
1 CCTCCAAAACCAGTAAAAAAATGGCACTTTCCAA
6285690 CCTCCAAAACCAG
1 CCTCCAAAACCAG
6285703 CCCTCAAATG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.41, C:0.31, G:0.11, T:0.17
Consensus pattern (34 bp):
CCTCCAAAACCAGTAAAAAAATGGCACTTTCCAA
Found at i:6289789 original size:21 final size:22
Alignment explanation
Indices: 6289747--6289788 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6289737 TAACACAGTA
6289747 AATTTTAAAACAACTTTAAAAC
1 AATTTTAAAACAACTTTAAAAC
*
6289769 AATTTTAAACCAACTTTAAA
1 AATTTTAAAACAACTTTAAA
6289789 CCCAAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTTTAAAACAACTTTAAAAC
Found at i:6289790 original size:11 final size:11
Alignment explanation
Indices: 6289750--6289788 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
6289740 CACAGTAAAT
6289750 TTTAAAACAAC
1 TTTAAAACAAC
*
6289761 TTTAAAACAAT
1 TTTAAAACAAC
*
6289772 TTTAAACCAAC
1 TTTAAAACAAC
6289783 TTTAAA
1 TTTAAA
6289789 CCCAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:6291834 original size:104 final size:103
Alignment explanation
Indices: 6291654--6291858 Score: 392
Period size: 104 Copynumber: 2.0 Consensus size: 103
6291644 ATTATCACGA
6291654 CCTATTTGTCCAAATCCAAATTTCTCCATCCATAATCGAAGGATATATCATTTCATTAATCTTTC
1 CCTATTTGTCCAAATCCAAATTTCTCCATCCATAATCGAAGGATATATCATTTCATTAATCTTTC
6291719 ATTAGGAGCATTCATTTTAAGATCTCTCCAACACTGNGG
66 ATTAGGAGCATTCATTTTAAGATCTCTCCAACACTG-GG
6291758 CCTATTTGTCCAAATCCAAATTTCTCCATCCATAATCGAAGGATATATCATTTCATTAATCTTTC
1 CCTATTTGTCCAAATCCAAATTTCTCCATCCATAATCGAAGGATATATCATTTCATTAATCTTTC
*
6291823 ATTAGGAGCATTCGTTTTAAGATCTCTCCAACACTG
66 ATTAGGAGCATTCATTTTAAGATCTCTCCAACACTG
6291859 ACTCGTGGCA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 100 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.36
Consensus pattern (103 bp):
CCTATTTGTCCAAATCCAAATTTCTCCATCCATAATCGAAGGATATATCATTTCATTAATCTTTC
ATTAGGAGCATTCATTTTAAGATCTCTCCAACACTGGG
Found at i:6292061 original size:5 final size:5
Alignment explanation
Indices: 6292053--6292085 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
6292043 ACCTAACCTG
6292053 ACTTA ACTTA AC-TA ACTTA ACTTA ACTTA ACTT
1 ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTT
6292086 GGGCCACGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
ACTTA
Found at i:6292072 original size:14 final size:15
Alignment explanation
Indices: 6292053--6292085 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6292043 ACCTAACCTG
6292053 ACTTAACTTAAC-TA
1 ACTTAACTTAACTTA
6292067 ACTTAACTTAACTTA
1 ACTTAACTTAACTTA
6292082 ACTT
1 ACTT
6292086 GGGCCACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (15 bp):
ACTTAACTTAACTTA
Found at i:6292136 original size:15 final size:15
Alignment explanation
Indices: 6292116--6292164 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
6292106 CGATTTCTTA
*
6292116 AAAAACTTTAAAACC
1 AAAAACTTTAAAATC
6292131 AAAAACTTTAAAATC
1 AAAAACTTTAAAATC
* *
6292146 TAAAGCTTTAAAATC
1 AAAAACTTTAAAATC
6292161 AAAA
1 AAAA
6292165 TCTCTGATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.24
Consensus pattern (15 bp):
AAAAACTTTAAAATC
Done.