Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 72 of 204
Found at i:21613083 original size:84 final size:84
Alignment explanation
Indices: 21612972--21613148 Score: 329
Period size: 85 Copynumber: 2.1 Consensus size: 84
21612962 TATTTTTTTG
*
21612972 CCCATGCCCTTTATTTATTAATCCTTACATAATGCACTA-CCCAACATGTTTATGACATGTTTTT
1 CCCATGCTCTTTATTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTT
21613036 AGCCATAACATCTTGTCCA
66 AGCCATAACATCTTGTCCA
21613055 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTA-TTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
21613120 TAGCCATAACATCTTGTCCA
65 TAGCCATAACATCTTGTCCA
21613140 CCCATGCTC
1 CCCATGCTC
21613149 ATGGCCGGCC
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
83 12 0.13
84 26 0.29
85 53 0.58
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (84 bp):
CCCATGCTCTTTATTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTT
AGCCATAACATCTTGTCCA
Found at i:21615840 original size:40 final size:40
Alignment explanation
Indices: 21615804--21615894 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
21615794 TCCGAAGGTA
* *
21615804 TTTGTGCGAGTTATTAATTCCGGGTTAAGTCTCGAAGGCC
1 TTTGTGCGAGATACTAATTCCGGGTTAAGTCTCGAAGGCC
21615844 TTTGTGCGAGATACTAATTCCGGGTTAAGTCTCGAAGGCC
1 TTTGTGCGAGATACTAATTCCGGGTTAAGTCTCGAAGGCC
21615884 TTTGTGCGAGA
1 TTTGTGCGAGA
21615895 ACGGTTTCTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (40 bp):
TTTGTGCGAGATACTAATTCCGGGTTAAGTCTCGAAGGCC
Found at i:21617308 original size:40 final size:40
Alignment explanation
Indices: 21616917--21617299 Score: 550
Period size: 40 Copynumber: 9.6 Consensus size: 40
21616907 CCAGCATGAT
* * * * * * *
21616917 TGCTCCTCGGGACCTAGCCCGGATATAACACCAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*** * * *
21616957 TGCTCTTCGGGGTTTAGCACAGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
21616997 TGCTCTTCGGGACTTAGCCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
21617037 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
21617077 TGCTCTTCGGAACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
21617117 TGCTCTTCGAAACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
21617157 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
21617197 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
21617237 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
21617277 TGCTCTTCGGGATTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
21617300 CATTTCACTC
Statistics
Matches: 314, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 314 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:21618572 original size:37 final size:37
Alignment explanation
Indices: 21618522--21618600 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21618512 TTATTACGAA
* * *
21618522 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21618559 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21618596 GTCTT
1 GTCTT
21618601 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21618836 original size:47 final size:47
Alignment explanation
Indices: 21618719--21619193 Score: 754
Period size: 47 Copynumber: 10.3 Consensus size: 47
21618709 CCCTTCGGGA
* * * * * *
21618719 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21618766 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21618812 CTTATCACATATATACACTTTCACATTCATCACATCCGCCATTACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21618859 CTTGTCACATATATACACTTTCACATTCATCACAT----C-TTA---
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21618898 -TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21618944 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21618991 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21619038 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21619085 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21619132 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21619179 CTTATCACATATATA
1 CTTATCACATATATA
21619194 TACACTGTGT
Statistics
Matches: 400, Mismatches: 18, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
38 33 0.08
42 4 0.01
43 4 0.01
46 39 0.10
47 320 0.80
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21618884 original size:16 final size:16
Alignment explanation
Indices: 21618863--21618922 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
21618853 TTACGCCTTG
21618863 TCACATATATACACTT
1 TCACATATATACACTT
21618879 TCACAT-TCATCACATCTTATT
1 TCACATAT-AT-ACA-C---TT
21618900 ATCACATATATACACTT
1 -TCACATATATACACTT
21618917 TCACAT
1 TCACAT
21618923 TCATCACATC
Statistics
Matches: 36, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
15 1 0.03
16 14 0.39
17 5 0.14
18 1 0.03
20 1 0.03
21 5 0.14
22 8 0.22
23 1 0.03
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.38
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:21618953 original size:22 final size:22
Alignment explanation
Indices: 21618925--21619047 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
21618915 TTTCACATTC
21618925 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
21618947 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
21618971 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
*** *** *
21618994 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
21619018 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
21619041 ATCACAT
1 ATCACAT
21619048 ATATACACTT
Statistics
Matches: 67, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
22 23 0.34
23 14 0.21
24 14 0.21
25 16 0.24
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:21621425 original size:85 final size:85
Alignment explanation
Indices: 21621296--21621474 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
21621286 TATTTTATTG
*
21621296 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
21621361 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
21621381 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
21621446 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
21621466 CCCATGCTC
1 CCCATGCTC
21621475 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:21637415 original size:35 final size:35
Alignment explanation
Indices: 21637369--21637438 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
21637359 AATGAAACAA
21637369 GAATGTCATGACAAAGCCACTACAGAAAAGAAGAT
1 GAATGTCATGACAAAGCCACTACAGAAAAGAAGAT
21637404 GAATGTCATGACAAAGCCACTACAGAAAAGAAGAT
1 GAATGTCATGACAAAGCCACTACAGAAAAGAAGAT
21637439 TAAGGAACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (35 bp):
GAATGTCATGACAAAGCCACTACAGAAAAGAAGAT
Found at i:21639146 original size:18 final size:19
Alignment explanation
Indices: 21639118--21639154 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21639108 GCATTCACAT
21639118 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
21639137 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
21639155 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:21641007 original size:38 final size:38
Alignment explanation
Indices: 21640927--21641008 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
21640917 ATCGTATTGT
* * *** *
21640927 TATTCAGGCTTAGTGCCTAACATGCCTAGTGCTGGTGT
1 TATTCAGGCTTAGTGCCTAACACGCCTAATGCCAATGC
* *
21640965 TATTCAGGCTTAGTGCCTAGCACGCTTAATGCCAATGC
1 TATTCAGGCTTAGTGCCTAACACGCCTAATGCCAATGC
21641003 TATTCA
1 TATTCA
21641009 TGATTGGTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (38 bp):
TATTCAGGCTTAGTGCCTAACACGCCTAATGCCAATGC
Found at i:21641071 original size:38 final size:38
Alignment explanation
Indices: 21641020--21641117 Score: 151
Period size: 38 Copynumber: 2.6 Consensus size: 38
21641010 GATTGGTGTT
*
21641020 GGTGTTATTCAGGCTTATTGCCTAGCAGGCTTAGTGCC
1 GGTGTTATTCAGGCTTATTGCCTAGCAAGCTTAGTGCC
* *
21641058 GGTGTTATTCAGGCATAGTGCCTAGCAAGCTTAGTGCC
1 GGTGTTATTCAGGCTTATTGCCTAGCAAGCTTAGTGCC
**
21641096 AATGTTATTCAGGCTTATTGCC
1 GGTGTTATTCAGGCTTATTGCC
21641118 GGTGTAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
GGTGTTATTCAGGCTTATTGCCTAGCAAGCTTAGTGCC
Found at i:21641096 original size:98 final size:98
Alignment explanation
Indices: 21640924--21641106 Score: 285
Period size: 98 Copynumber: 1.9 Consensus size: 98
21640914 TGAATCGTAT
* * * *
21640924 TGTTATTCAGGCTTAGTGCCTAACATGCCTAGTGCTGGTGTTATTCAGGCTTAGTGCCTAGCACG
1 TGTTATTCAGGCTTAGTGCCTAACAGGCCTAGTGCCGGTGTTATTCAGGCATAGTGCCTAGCAAG
21640989 CTTAATGCCAATGCTATTCATGATTGGTGTTGG
66 CTTAATGCCAATGCTATTCATGATTGGTGTTGG
* * *
21641022 TGTTATTCAGGCTTATTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCATAGTGCCTAGCAAG
1 TGTTATTCAGGCTTAGTGCCTAACAGGCCTAGTGCCGGTGTTATTCAGGCATAGTGCCTAGCAAG
* *
21641087 CTTAGTGCCAATGTTATTCA
66 CTTAATGCCAATGCTATTCA
21641107 GGCTTATTGC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 76 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (98 bp):
TGTTATTCAGGCTTAGTGCCTAACAGGCCTAGTGCCGGTGTTATTCAGGCATAGTGCCTAGCAAG
CTTAATGCCAATGCTATTCATGATTGGTGTTGG
Found at i:21649398 original size:335 final size:335
Alignment explanation
Indices: 21648788--21649460 Score: 1148
Period size: 335 Copynumber: 2.0 Consensus size: 335
21648778 AGTATTTGAT
* * * *
21648788 GACATAGAGGGAACTGAATCTGAGACAGTAACGGTGGTTAGAGCTATTGAAAGATTATGACCTTG
1 GACATAGAAGGAACTGAATCTGAGACAGCAACAGTGGTTAGAGCTATTGAAAGATTATGACCTCG
* *
21648853 TGATTGATTACCATCCTGGGAAGGTAAATGTTGTTGCAAATGCTTTAAGCCACAAATCATTGTTT
66 TGATTAATTACCATCCTAGGAAGGTAAATGTTGTTGCAAATGCTTTAAGCCACAAATCATTGTTT
21648918 ACTTTAAGAACAATGAACGCACATTTATCCCTAGAGAGTGATGGTTCTGTTATAGCTAAGCTTAG
131 ACTTTAAGAACAATGAACGCACATTTATCCCTAGAGAGTGATGGTTCTGTTATAGCTAAGCTTAG
* * *
21648983 GGCTAGGCCGTTATTTCTTCAGTGAATTTGGGAATTACAAAGTGATGACCTGAAGTTAGTAGCCA
196 GGCTAGGCCGTTATTTCTTCAGCGAATTCGAGAATTACAAAGTGATGACCTGAAGTTAGTAGCCA
*
21649048 AACGAGAGCTGATCCAGAGTGATTCGACTATGGGATTCATTATGAGTGACAATGGTATGATGTAT
261 AACGAGAGCTGATCCAGAGTGATTCGACTACGGGATTCATTATGAGTGACAATGGTATGATGTAT
21649113 TTTCATAATC
326 TTTCATAATC
21649123 GACATAGAAGGAACTGAATCTGAGACAGCAACAGTGGTTAGAGCTATTGAAAGATTATGACCTCG
1 GACATAGAAGGAACTGAATCTGAGACAGCAACAGTGGTTAGAGCTATTGAAAGATTATGACCTCG
** *** *
21649188 TGATTAATTACCATCCTAGGAAGGTAAATGTTGTTGCAGGTGCTTTAAGCTGTAAATGATTGTTT
66 TGATTAATTACCATCCTAGGAAGGTAAATGTTGTTGCAAATGCTTTAAGCCACAAATCATTGTTT
* * *
21649253 GCTTTAAGAACAATGAACGCACATTTATCCTTGGAGAGTGATGGTTCTGTTATAGCTAAGCTTAG
131 ACTTTAAGAACAATGAACGCACATTTATCCCTAGAGAGTGATGGTTCTGTTATAGCTAAGCTTAG
* *
21649318 GGCTAGGTCGTTATTTCTTCAGCGAATTCGAGAATTACGAAGTGATGACCTGAAGTTAGTAGCCA
196 GGCTAGGCCGTTATTTCTTCAGCGAATTCGAGAATTACAAAGTGATGACCTGAAGTTAGTAGCCA
21649383 AACGAGAGCTGATCCAGAGTGATTCGACTACGGGATTCATTATGAGTGACAATGGTATGATGTAT
261 AACGAGAGCTGATCCAGAGTGATTCGACTACGGGATTCATTATGAGTGACAATGGTATGATGTAT
*
21649448 TTTGATAATC
326 TTTCATAATC
21649458 GAC
1 GAC
21649461 TGTGTATTCT
Statistics
Matches: 316, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
335 316 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (335 bp):
GACATAGAAGGAACTGAATCTGAGACAGCAACAGTGGTTAGAGCTATTGAAAGATTATGACCTCG
TGATTAATTACCATCCTAGGAAGGTAAATGTTGTTGCAAATGCTTTAAGCCACAAATCATTGTTT
ACTTTAAGAACAATGAACGCACATTTATCCCTAGAGAGTGATGGTTCTGTTATAGCTAAGCTTAG
GGCTAGGCCGTTATTTCTTCAGCGAATTCGAGAATTACAAAGTGATGACCTGAAGTTAGTAGCCA
AACGAGAGCTGATCCAGAGTGATTCGACTACGGGATTCATTATGAGTGACAATGGTATGATGTAT
TTTCATAATC
Found at i:21651965 original size:38 final size:38
Alignment explanation
Indices: 21651914--21652004 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
21651904 TGAATCGTAT
21651914 TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCC-A
1 TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGA
21651951 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGA
1 -TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGA
21651990 TGTTATTCAGGCTTA
1 TGTTATTCAGGCTTA
21652005 TTGTCGGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 51 0.98
39 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGA
Found at i:21652003 original size:22 final size:21
Alignment explanation
Indices: 21651914--21652004 Score: 76
Period size: 16 Copynumber: 4.7 Consensus size: 21
21651904 TGAATCGTAT
21651914 TGTTATTCAGGCTTAGTGCC-
1 TGTTATTCAGGCTTAGTGCCA
*
21651934 ---TA-GCAGGCTTAGTGCCA
1 TGTTATTCAGGCTTAGTGCCA
21651951 GTGTTATTCAGGCTTAGTGCC-
1 -TGTTATTCAGGCTTAGTGCCA
*
21651972 ---TA-GCAGGCTTAGTGCCGA
1 TGTTATTCAGGCTTAGTGCC-A
21651990 TGTTATTCAGGCTTA
1 TGTTATTCAGGCTTA
21652005 TTGTCGGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
16 26 0.47
17 4 0.07
21 4 0.07
22 21 0.38
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTTATTCAGGCTTAGTGCCA
Found at i:21658042 original size:31 final size:30
Alignment explanation
Indices: 21657981--21658043 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
21657971 GCTTTTTGAA
* * *
21657981 AATATTTAAAAAAAGAGGCATCTAATTTTT
1 AATATTTAAAAAAAGAGGCACCAAAATTTT
21658011 AATATTTACAAAAAAGA-GCAACCAAAATTTT
1 AATATTTA-AAAAAAGAGGC-ACCAAAATTTT
21658042 AA
1 AA
21658044 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (30 bp):
AATATTTAAAAAAAGAGGCACCAAAATTTT
Found at i:21662290 original size:50 final size:50
Alignment explanation
Indices: 21662210--21662450 Score: 270
Period size: 50 Copynumber: 4.8 Consensus size: 50
21662200 ATTTGGGTAA
* * *
21662210 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCTCCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
21662260 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
21662310 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
21662360 AGAACTCCCATGTAAGTCCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
21662409 AAACATCCCATGTAAAACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21662451 TGTTATTATC
Statistics
Matches: 160, Mismatches: 30, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 121 0.76
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:21667488 original size:21 final size:20
Alignment explanation
Indices: 21667464--21667509 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
21667454 TGAAATACAA
21667464 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
21667485 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
21667505 T-AACC
1 TCAACC
21667510 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:21674180 original size:12 final size:12
Alignment explanation
Indices: 21674163--21674188 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21674153 TTGAAGGTGA
21674163 TCTACTGATCAT
1 TCTACTGATCAT
21674175 TCTACTGATCAT
1 TCTACTGATCAT
21674187 TC
1 TC
21674189 ATCCTCATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.08, T:0.42
Consensus pattern (12 bp):
TCTACTGATCAT
Found at i:21681966 original size:51 final size:50
Alignment explanation
Indices: 21681911--21682037 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 50
21681901 GTCACATGTT
* * * *
21681911 TAGTACTATGTGCAAGCCACTATGTGTACCGGAAGGCTTTGGTAACGTGTG
1 TAGTACTATGTGCAAGCCACTACGTGAACCGGAAAG-TTTGATAACGTGTG
* * *
21681962 TAGTACTATGTGCAGGCTACTACGTGAACCGGAAAGTTTGATCACGTGTG
1 TAGTACTATGTGCAAGCCACTACGTGAACCGGAAAGTTTGATAACGTGTG
* *
21682012 TAGTATTATGTG-AAGGCTACTACGTG
1 TAGTACTATGTGCAA-GCCACTACGTG
21682038 TCTCGAATGA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
49 1 0.02
50 34 0.52
51 31 0.47
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
TAGTACTATGTGCAAGCCACTACGTGAACCGGAAAGTTTGATAACGTGTG
Found at i:21682029 original size:50 final size:51
Alignment explanation
Indices: 21681852--21682037 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 51
21681842 TGCCTATAAA
* * * * * * * * *
21681852 CACGTGTGTAGTACTAAGTGTAGGTTACTACGTGTATC-GATAGATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCT-TTGAT
* * * * * * *
21681903 CACATGTTTAGTACTATGTGCAA-GCCACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTG-AAGGCTACTACGTGAACCGGAAAGCTTTGAT
* *
21681954 AACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCTTTGAT
*
21682004 CACGTGTGTAGTATTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
21682038 TCTCGAATGA
Statistics
Matches: 108, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 37 0.34
51 66 0.61
52 5 0.05
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCTTTGAT
Found at i:21689647 original size:50 final size:50
Alignment explanation
Indices: 21689585--21689722 Score: 188
Period size: 50 Copynumber: 2.8 Consensus size: 50
21689575 CGATAGATAA
* * * * * *
21689585 TGGTCACATGTGTAGTACTATGTGCAGGCTAC-ATGTGTACTGGAAGGCTT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAG-TT
21689635 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGTT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGTT
* *
21689685 TGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTG
21689723 TATCAAATGA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 69 0.87
51 10 0.13
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGTT
Found at i:21692456 original size:42 final size:43
Alignment explanation
Indices: 21692392--21692495 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 43
21692382 TTTCGAGGTG
* *
21692392 TGATTTCGTGTAAGACCATGTTTGTGACATTGACATCG-TATA
1 TGATTTCGTGTAAGACCATGTTTGGGACAGTGACATCGATATA
*
21692434 TGATTTCGTGTAAGACCCTGTTTGGGACAGTGACATCGATATA
1 TGATTTCGTGTAAGACCATGTTTGGGACAGTGACATCGATATA
* ** *
21692477 TTATAACATGTAAGACCAT
1 TGATTTCGTGTAAGACCAT
21692496 ATCTAGGATA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 35 0.66
43 18 0.34
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTTTGGGACAGTGACATCGATATA
Found at i:21693113 original size:48 final size:48
Alignment explanation
Indices: 21693056--21693210 Score: 213
Period size: 48 Copynumber: 3.2 Consensus size: 48
21693046 GATAAGATGT
*
21693056 TGTCCATTTTTTAGTATATTAATGTTGTCCACATTGATGCTTAATTGC
1 TGTCCATTTTTTAGTATATTAATGTTGTCCAAATTGATGCTTAATTGC
* * *
21693104 TGTCCATTTTTGAGTATATTAATGTTATCCAAATTTATGCTTAATTGC
1 TGTCCATTTTTTAGTATATTAATGTTGTCCAAATTGATGCTTAATTGC
* * * * *
21693152 TG-CCTATTTTTTAGTTTATTAATGCTGTCCAAATTGGTGCTTAAATGT
1 TGTCC-ATTTTTTAGTATATTAATGTTGTCCAAATTGATGCTTAATTGC
21693200 TGTCCATTTTT
1 TGTCCATTTTT
21693211 GTACAAATCA
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.02
48 89 0.96
49 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (48 bp):
TGTCCATTTTTTAGTATATTAATGTTGTCCAAATTGATGCTTAATTGC
Found at i:21693901 original size:13 final size:13
Alignment explanation
Indices: 21693883--21693907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21693873 TTTAAATTAG
21693883 TTATGTGTTTTAA
1 TTATGTGTTTTAA
21693896 TTATGTGTTTTA
1 TTATGTGTTTTA
21693908 TTAATATGGT
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:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTATGTGTTTTAA
Found at i:21710384 original size:104 final size:104
Alignment explanation
Indices: 21710204--21710406 Score: 379
Period size: 104 Copynumber: 2.0 Consensus size: 104
21710194 AAGCTTTTAC
*
21710204 TTACATCAAAGTATACAAGTCATGCATACATAGCCTGTCATTCAGTTAGGATTTAAGTATGCCAC
1 TTACATCAAAGTATACAAGTCATGCATACATAGCCCGTCATTCAGTTAGGATTTAAGTATGCCAC
21710269 ACTATGAACGTCACAAGTGAATAAATCCATAAACAAATT
66 ACTATGAACGTCACAAGTGAATAAATCCATAAACAAATT
**
21710308 TTACATCAAAGTATATGAGTCATGCATACATAGCCCGTCATTCAGTTAGGATTTAAGTATGCCAC
1 TTACATCAAAGTATACAAGTCATGCATACATAGCCCGTCATTCAGTTAGGATTTAAGTATGCCAC
21710373 ACTATGAACGTCACAAGTGAATAAATCCATAAAC
66 ACTATGAACGTCACAAGTGAATAAATCCATAAAC
21710407 GGATTTAGGA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (104 bp):
TTACATCAAAGTATACAAGTCATGCATACATAGCCCGTCATTCAGTTAGGATTTAAGTATGCCAC
ACTATGAACGTCACAAGTGAATAAATCCATAAACAAATT
Found at i:21712415 original size:53 final size:53
Alignment explanation
Indices: 21712340--21712442 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
21712330 TGCTTATAAA
*
21712340 ATTTTGAGTCTGTTGAATATAGGAATACGTGAAATAGGTTTAGTAATTAATTT
1 ATTTTGAGTCTGTTGAACATAGGAATACGTGAAATAGGTTTAGTAATTAATTT
* *
21712393 ATTTTGAGTCTGTTGAACATAGGAATATGTGAGATAGGTTTAGTAATTAA
1 ATTTTGAGTCTGTTGAACATAGGAATACGTGAAATAGGTTTAGTAATTAA
21712443 GTAAGTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (53 bp):
ATTTTGAGTCTGTTGAACATAGGAATACGTGAAATAGGTTTAGTAATTAATTT
Found at i:21714437 original size:20 final size:20
Alignment explanation
Indices: 21714408--21714448 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21714398 AAAACCTAAG
21714408 AAACCAAAAGAATA-AATCTA
1 AAACCAAAAGAA-AGAATCTA
*
21714428 AAACCTAAAGAAAGAATCTA
1 AAACCAAAAGAAAGAATCTA
21714448 A
1 A
21714449 GCCAATGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (20 bp):
AAACCAAAAGAAAGAATCTA
Found at i:21720387 original size:20 final size:20
Alignment explanation
Indices: 21720364--21720406 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21720354 TACACTTCGA
*
21720364 TGCCCCTGTTCGCACATTGG
1 TGCCCCTATTCGCACATTGG
* *
21720384 TGCCCCTATTTGCACTTTGG
1 TGCCCCTATTCGCACATTGG
21720404 TGC
1 TGC
21720407 TTCTTACTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.33, G:0.23, T:0.35
Consensus pattern (20 bp):
TGCCCCTATTCGCACATTGG
Found at i:21728327 original size:365 final size:365
Alignment explanation
Indices: 21727740--21728462 Score: 1446
Period size: 365 Copynumber: 2.0 Consensus size: 365
21727730 CCATTTTTGA
21727740 ATCTGTATAAATTTTAGAAGTTTCCATTGATGAATCTTGAAATTTTTTTTGATGATAACTATGTG
1 ATCTGTATAAATTTTAGAAGTTTCCATTGATGAATCTTGAAATTTTTTTTGATGATAACTATGTG
21727805 TTTGAAGCTTTGATTGTTTTGTGAAGTGATTTTTGTTAGATTTTGATTTAAGGATTAAATTGTTA
66 TTTGAAGCTTTGATTGTTTTGTGAAGTGATTTTTGTTAGATTTTGATTTAAGGATTAAATTGTTA
21727870 AAATGTCAATATTTCAAGGTTTGATAGTGAATTTTAGGTATAATAGGGACTGCTAAAGAGCCTAG
131 AAATGTCAATATTTCAAGGTTTGATAGTGAATTTTAGGTATAATAGGGACTGCTAAAGAGCCTAG
21727935 AATATTTTGCTATAATTTGGTCGAAAATGGTCAATTTGATGAATATCGTGTTAGAGGATTAAATT
196 AATATTTTGCTATAATTTGGTCGAAAATGGTCAATTTGATGAATATCGTGTTAGAGGATTAAATT
21728000 GTAAAAGTTGTAAAAGTTTAGGGAAATTGTGTAATTAAAGAAAAGTTAAGGGTCGTATACATTGA
261 GTAAAAGTTGTAAAAGTTTAGGGAAATTGTGTAATTAAAGAAAAGTTAAGGGTCGTATACATTGA
21728065 ATGGAATGTGAAATATGTATGAGATTAATATTTGATGAAT
326 ATGGAATGTGAAATATGTATGAGATTAATATTTGATGAAT
21728105 ATCTGTATAAATTTTAGAAGTTTCCATTGATGAATCTTGAAATTTTTTTTGATGATAACTATGTG
1 ATCTGTATAAATTTTAGAAGTTTCCATTGATGAATCTTGAAATTTTTTTTGATGATAACTATGTG
21728170 TTTGAAGCTTTGATTGTTTTGTGAAGTGATTTTTGTTAGATTTTGATTTAAGGATTAAATTGTTA
66 TTTGAAGCTTTGATTGTTTTGTGAAGTGATTTTTGTTAGATTTTGATTTAAGGATTAAATTGTTA
21728235 AAATGTCAATATTTCAAGGTTTGATAGTGAATTTTAGGTATAATAGGGACTGCTAAAGAGCCTAG
131 AAATGTCAATATTTCAAGGTTTGATAGTGAATTTTAGGTATAATAGGGACTGCTAAAGAGCCTAG
21728300 AATATTTTGCTATAATTTGGTCGAAAATGGTCAATTTGATGAATATCGTGTTAGAGGATTAAATT
196 AATATTTTGCTATAATTTGGTCGAAAATGGTCAATTTGATGAATATCGTGTTAGAGGATTAAATT
21728365 GTAAAAGTTGTAAAAGTTTAGGGAAATTGTGTAATTAAAGAAAAGTTAAGGGTCGTATACATTGA
261 GTAAAAGTTGTAAAAGTTTAGGGAAATTGTGTAATTAAAGAAAAGTTAAGGGTCGTATACATTGA
21728430 ATGGAATGTGAAATATGTATGAGATTAATATTT
326 ATGGAATGTGAAATATGTATGAGATTAATATTT
21728463 TGTATTTAAT
Statistics
Matches: 358, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
365 358 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (365 bp):
ATCTGTATAAATTTTAGAAGTTTCCATTGATGAATCTTGAAATTTTTTTTGATGATAACTATGTG
TTTGAAGCTTTGATTGTTTTGTGAAGTGATTTTTGTTAGATTTTGATTTAAGGATTAAATTGTTA
AAATGTCAATATTTCAAGGTTTGATAGTGAATTTTAGGTATAATAGGGACTGCTAAAGAGCCTAG
AATATTTTGCTATAATTTGGTCGAAAATGGTCAATTTGATGAATATCGTGTTAGAGGATTAAATT
GTAAAAGTTGTAAAAGTTTAGGGAAATTGTGTAATTAAAGAAAAGTTAAGGGTCGTATACATTGA
ATGGAATGTGAAATATGTATGAGATTAATATTTGATGAAT
Found at i:21731736 original size:42 final size:42
Alignment explanation
Indices: 21731656--21731737 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
21731646 CGTTTTCTCT
* * **
21731656 ATGCCATAGTCCAACTATGGTTTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
21731698 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
21731738 CACATCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:21734343 original size:45 final size:45
Alignment explanation
Indices: 21734275--21734368 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
21734265 AACAGATACT
* * *
21734275 CGGTGGATTCAGCACATAACAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
* * *
21734320 CGGTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
21734365 CGGT
1 CGGT
21734369 TCACATAGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
Found at i:21734489 original size:50 final size:51
Alignment explanation
Indices: 21734365--21734513 Score: 187
Period size: 50 Copynumber: 2.9 Consensus size: 51
21734355 CAATGATGTT
* * * * *
21734365 CGGTTCACATAGGAGCCTGCACATAGTACAACACATGTGATCGA-AACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATCACTATC
* *
21734416 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATC
*
21734466 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
21734514 TTCACTTTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
49 4 0.05
50 43 0.51
51 37 0.44
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (51 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATC
Found at i:21742605 original size:30 final size:29
Alignment explanation
Indices: 21742571--21742649 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
21742561 AGCTTCAGTT
*
21742571 ATCAAATTATGAAAGGGGATGGTGACAACC
1 ATCAAA-TATGAAAAGGGATGGTGACAACC
* **
21742601 ATCAACA-ATGAAAAGCGATGGTGACGCCC
1 ATCAA-ATATGAAAAGGGATGGTGACAACC
21742630 ATCAAACTATGAAAAGGGAT
1 ATCAAA-TATGAAAAGGGAT
21742650 AGCTTCGACT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
28 1 0.02
29 23 0.56
30 16 0.39
31 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (29 bp):
ATCAAATATGAAAAGGGATGGTGACAACC
Found at i:21742612 original size:29 final size:30
Alignment explanation
Indices: 21742579--21742649 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
21742569 TTATCAAATT
*
21742579 ATGAAAGGGGATGGTGACAACCATC-AACA
1 ATGAAAAGGGATGGTGACAACCATCAAACA
* ** *
21742608 ATGAAAAGCGATGGTGACGCCCATCAAACT
1 ATGAAAAGGGATGGTGACAACCATCAAACA
21742638 ATGAAAAGGGAT
1 ATGAAAAGGGAT
21742650 AGCTTCGACT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 21 0.60
30 14 0.40
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACAACCATCAAACA
Found at i:21742671 original size:30 final size:30
Alignment explanation
Indices: 21742462--21742775 Score: 210
Period size: 30 Copynumber: 10.5 Consensus size: 30
21742452 TCGATAAATA
* * *
21742462 AAAAGGGATAGCTTCGACTAT-AGATCAATA
1 AAAAGGGATAGCTTCGACTATCAAAT-TATG
* * ***
21742492 AAAAGGGATAGCTTTGACTATCGACCAATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* **
21742522 AAAAGGGATAGCTTTGACTATTGAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* *
21742552 AAAAGAGATAGCTTC-AGTTATCAAATTATG
1 AAAAGGGATAGCTTCGA-CTATCAAATTATG
* * * * *
21742582 AAAGGGGAT-GGTGACAACCATCAACA--ATG
1 AAAAGGGATAGCT-TCGACTATCAA-ATTATG
* * * * * *
21742611 AAAAGCGAT-GGTGACGCCCATCAAACTATG
1 AAAAGGGATAGCT-TCGACTATCAAATTATG
*
21742641 AAAAGGGATAGCTTCGACTATCGAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* *
21742671 AAAAAGGATAGCTTCGGCTATCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
*
21742701 AAAAGGGATAGCTTCGGCTATCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* * * * * * *
21742731 AAAAGAGAT-GGTGACAACCATCAAAATAAG
1 AAAAGGGATAGCT-TCGACTATCAAATTATG
21742761 AAAAGGGATAGCTTC
1 AAAAGGGATAGCTTC
21742776 AGCTATCGAA
Statistics
Matches: 227, Mismatches: 47, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
28 1 0.00
29 28 0.12
30 192 0.85
31 6 0.03
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.23
Consensus pattern (30 bp):
AAAAGGGATAGCTTCGACTATCAAATTATG
Found at i:21742801 original size:60 final size:59
Alignment explanation
Indices: 21742604--21742811 Score: 197
Period size: 60 Copynumber: 3.5 Consensus size: 59
21742594 GACAACCATC
* ** *
21742604 AACAATGAAAAGCGATGGTGACGCCCATCAAACTATGAAAAGGGATAGCTTCGACTATCG
1 AACAATGAAAAGAGATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTCG-CTATCG
** * * ** * * *
21742664 AATTATGAAAA-AGGATAGCT-TCGGCTATCAAATTATGAAAAGGGATAGCTTCGGCTATCA
1 AACAATGAAAAGA-GAT-GGTGACAACCATCAAAATATGAAAAGGGATAGCTTC-GCTATCG
** *
21742724 AATTATGAAAAGAGATGGTGACAACCATCAAAATAAGAAAAGGGATAGCTTCAGCTATCG
1 AACAATGAAAAGAGATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTC-GCTATCG
21742784 AACAATGGAAAAG-GATGGTGACAACCAT
1 AACAAT-GAAAAGAGATGGTGACAACCAT
21742812 TGCGATTTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
59 2 0.02
60 110 0.90
61 10 0.08
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (59 bp):
AACAATGAAAAGAGATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTCGCTATCG
Found at i:21749680 original size:12 final size:12
Alignment explanation
Indices: 21749671--21749695 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21749661 TAAGAACAGG
21749671 GGCTAGAACACA
1 GGCTAGAACACA
21749683 GGCTAGAACACA
1 GGCTAGAACACA
21749695 G
1 G
21749696 ATGTGTGTCC
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:0.40, C:0.24, G:0.28, T:0.08
Consensus pattern (12 bp):
GGCTAGAACACA
Found at i:21754222 original size:19 final size:19
Alignment explanation
Indices: 21754194--21754232 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
21754184 TAATATTTAG
*
21754194 TTTAGGTATTAAATGTGTC
1 TTTAGGTATTAAATATGTC
* *
21754213 TTTAGTTATTTAATATGTC
1 TTTAGGTATTAAATATGTC
21754232 T
1 T
21754233 AAGTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (19 bp):
TTTAGGTATTAAATATGTC
Found at i:21756422 original size:26 final size:23
Alignment explanation
Indices: 21756393--21756452 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 23
21756383 CAAGTAAGGT
*
21756393 AAAAGAAAAACGAGAGGAGAGAAATG
1 AAAAGAAAAA-GAGA-GAGAGAAA-C
*
21756419 AAAATGAAGAAAGCGAGAGAGAAAC
1 AAAA-GAA-AAAGAGAGAGAGAAAC
21756444 AAAAGAAAA
1 AAAAGAAAA
21756453 TATGAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
23 2 0.07
24 3 0.10
25 4 0.13
26 12 0.40
27 6 0.20
28 3 0.10
ACGTcount: A:0.65, C:0.05, G:0.27, T:0.03
Consensus pattern (23 bp):
AAAAGAAAAAGAGAGAGAGAAAC
Found at i:21756493 original size:17 final size:16
Alignment explanation
Indices: 21756471--21756528 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 16
21756461 AAACGAGTGC
21756471 AAAAGAAAGAGAGCCTG
1 AAAAGAAAGAGAG-CTG
21756488 AAAAGAAA-ACGAG-TG
1 AAAAGAAAGA-GAGCTG
21756503 AAAAAGAAAGAGAGCTTG
1 -AAAAGAAAGAGAGC-TG
21756521 AAAAGAAA
1 AAAAGAAA
21756529 ACAAGTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.06
16 12 0.33
17 20 0.56
18 2 0.06
ACGTcount: A:0.60, C:0.07, G:0.26, T:0.07
Consensus pattern (16 bp):
AAAAGAAAGAGAGCTG
Found at i:21756498 original size:33 final size:32
Alignment explanation
Indices: 21756461--21756562 Score: 141
Period size: 33 Copynumber: 3.1 Consensus size: 32
21756451 AATATGAATG
*
21756461 AAACGAGTGCAAAAGAAAGAGAGCCTGAAAAGA
1 AAACGAGTG-AAAAGAAAGAGAGCTTGAAAAGA
21756494 AAACGAGTGAAAAAGAAAGAGAGCTTGAAAAGA
1 AAACGAGTG-AAAAGAAAGAGAGCTTGAAAAGA
* *
21756527 AAACAAGTGAATAAGAGAGAGAGCTTGAAAATGA
1 AAACGAGTGAA-AAGAAAGAGAGCTTGAAAA-GA
21756561 AA
1 AA
21756563 CGTGCGAAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 2 0.03
33 57 0.90
34 4 0.06
ACGTcount: A:0.56, C:0.08, G:0.26, T:0.10
Consensus pattern (32 bp):
AAACGAGTGAAAAGAAAGAGAGCTTGAAAAGA
Found at i:21756509 original size:16 final size:15
Alignment explanation
Indices: 21756461--21756542 Score: 60
Period size: 17 Copynumber: 5.0 Consensus size: 15
21756451 AATATGAATG
21756461 AAACGAGTGCAAAAGA
1 AAACGAGTG-AAAAGA
21756477 AAGA-GAGCCTGAAAAGA
1 AA-ACGAG--TGAAAAGA
21756494 AAACGAGTGAAAAAGA
1 AAACGAGTG-AAAAGA
21756510 AAGA-GAGCTTGAAAAGA
1 AA-ACGAG--TGAAAAGA
*
21756527 AAACAAGTGAATAAGA
1 AAACGAGTGAA-AAGA
21756543 GAGAGAGCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 20
0.72 0.01 0.26
Matches are distributed among these distances:
15 6 0.11
16 22 0.40
17 23 0.42
18 4 0.07
ACGTcount: A:0.57, C:0.09, G:0.26, T:0.09
Consensus pattern (15 bp):
AAACGAGTGAAAAGA
Found at i:21757921 original size:27 final size:27
Alignment explanation
Indices: 21757888--21757942 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
21757878 AGATAATATC
*
21757888 ATAAATTAGGTGTAGCTTTGGAGGCTA
1 ATAAATTAAGTGTAGCTTTGGAGGCTA
21757915 ATAAATTAAGTGTAGCTTTGGAGGCTA
1 ATAAATTAAGTGTAGCTTTGGAGGCTA
21757942 A
1 A
21757943 GTATTTGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (27 bp):
ATAAATTAAGTGTAGCTTTGGAGGCTA
Found at i:21759793 original size:27 final size:27
Alignment explanation
Indices: 21759762--21759850 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
21759752 CCTAATATTT
*
21759762 GTAAAATGACTATAATGCCCCTATAGG
1 GTAAAATGACCATAATGCCCCTATAGG
* * *
21759789 GTAAAATGACCGTAATTCCCCTGTAGG
1 GTAAAATGACCATAATGCCCCTATAGG
* * * * *
21759816 GTAAAATGATCGTGATGCCCTTGTA-G
1 GTAAAATGACCATAATGCCCCTATAGG
21759842 GTAAAATGA
1 GTAAAATGA
21759851 TTGTAATACC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
26 10 0.19
27 44 0.81
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCATAATGCCCCTATAGG
Found at i:21759844 original size:26 final size:27
Alignment explanation
Indices: 21759774--21759857 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
21759764 AAAATGACTA
* *
21759774 TAATGCCCCTATAGGGTAAAATGACCG
1 TAATGCCCCTGTAGGGTAAAATGATCG
*
21759801 TAATTCCCCTGTAGGGTAAAATGATCG
1 TAATGCCCCTGTAGGGTAAAATGATCG
* * *
21759828 TGATGCCCTTGTA-GGTAAAATGATTG
1 TAATGCCCCTGTAGGGTAAAATGATCG
21759854 TAAT
1 TAAT
21759858 ACCTCTATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 15 0.31
27 34 0.69
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (27 bp):
TAATGCCCCTGTAGGGTAAAATGATCG
Found at i:21759984 original size:48 final size:47
Alignment explanation
Indices: 21759923--21760032 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 47
21759913 CCCCTCGAGG
* *
21759923 TTAAATGATTGATTTGTCCGAGAT-GTAAATGACTAATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCCGAGATAGT--ATGACTAATTTGTCTGTGAA
* * *
21759971 TTAAATGACTGATTTGTCTGTGATAGGTATGACTAATTTTTCTGTGAA
1 TTAAATGACTGATTTGTCCGAGATA-GTATGACTAATTTGTCTGTGAA
**
21760019 TTGTATGACTGATT
1 TTAAATGACTGATT
21760033 CTGAGCATGG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 51 0.96
50 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (47 bp):
TTAAATGACTGATTTGTCCGAGATAGTATGACTAATTTGTCTGTGAA
Found at i:21759989 original size:24 final size:24
Alignment explanation
Indices: 21759923--21759994 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
21759913 CCCCTCGAGG
* * *
21759923 TTAAATGATTGATTTGTCCGAGAT
1 TTAAATGACTGATTTGTCTGTGAT
* *
21759947 GTAAATGACTAATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
21759971 TTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
21759995 AGGTATGACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:21760002 original size:24 final size:24
Alignment explanation
Indices: 21759951--21760028 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
21759941 CGAGATGTAA
* **
21759951 ATGACTAATTTGTCTGTGATTTAA
1 ATGACTAATTTGTCTGTGATATGT
* *
21759975 ATGACTGATTTGTCTGTGATAGGT
1 ATGACTAATTTGTCTGTGATATGT
*
21759999 ATGACTAATTTTTCTGTGA-ATTGT
1 ATGACTAATTTGTCTGTGATA-TGT
21760023 ATGACT
1 ATGACT
21760029 GATTCTGAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.45
Consensus pattern (24 bp):
ATGACTAATTTGTCTGTGATATGT
Found at i:21760257 original size:32 final size:32
Alignment explanation
Indices: 21760206--21760296 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 32
21760196 TGCGATGCTG
* * *
21760206 CTGATGGCTTTGTGTCGATCATATTACCGTTA
1 CTGATGGCTGTGTGCCGATCATATTACCGCTA
* * *
21760238 CTG-TAGGGTGTGTGCCGATCATATCACTGCTA
1 CTGAT-GGCTGTGTGCCGATCATATTACCGCTA
* *
21760270 CTGATGGCTTTGTGCCAATCATATTAC
1 CTGATGGCTGTGTGCCGATCATATTAC
21760297 TATACTTATG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
31 1 0.02
32 45 0.96
33 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (32 bp):
CTGATGGCTGTGTGCCGATCATATTACCGCTA
Found at i:21770032 original size:19 final size:19
Alignment explanation
Indices: 21770004--21770046 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
21769994 ACTTGGATTT
*
21770004 CCACTGAGCCAAGAGTTAG
1 CCACTAAGCCAAGAGTTAG
*
21770023 CCACTAAGCCAAGAGTTGG
1 CCACTAAGCCAAGAGTTAG
21770042 CCACT
1 CCACT
21770047 GATGTTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.16
Consensus pattern (19 bp):
CCACTAAGCCAAGAGTTAG
Found at i:21774451 original size:23 final size:22
Alignment explanation
Indices: 21774409--21774454 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21774399 ATTCATACTA
*
21774409 AAAAATGTGCATAAAAAGAAAT
1 AAAAATGTGCAAAAAAAGAAAT
*
21774431 AAAAATGTG-AAAGAAAGAGAAT
1 AAAAATGTGCAAAAAAAGA-AAT
21774453 AA
1 AA
21774455 GTGAGGATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.65, C:0.02, G:0.17, T:0.15
Consensus pattern (22 bp):
AAAAATGTGCAAAAAAAGAAAT
Found at i:21780451 original size:27 final size:27
Alignment explanation
Indices: 21780420--21780597 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21780410 TAAATTGTAC
21780420 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21780447 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21780473 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21780501 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21780529 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21780556 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21780583 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21780598 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21780534 original size:82 final size:81
Alignment explanation
Indices: 21780421--21780576 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21780411 AAATTGTACA
* *
21780421 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21780485 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21780502 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21780567 TGCGAGTTGA
65 TGCGAATTGA
21780577 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21780588 original size:82 final size:81
Alignment explanation
Indices: 21780417--21780597 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21780407 GATTAAATTG
* *
21780417 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21780482 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21780498 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21780562 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21780580 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21780598 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21782586 original size:19 final size:19
Alignment explanation
Indices: 21782559--21782595 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21782549 TTATTCTAAG
21782559 ATTTATCTACCTAAATAAT
1 ATTTATCTACCTAAATAAT
*
21782578 ATTTCTCTACCTAAATAA
1 ATTTATCTACCTAAATAA
21782596 CTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTATCTACCTAAATAAT
Found at i:21788377 original size:16 final size:17
Alignment explanation
Indices: 21788346--21788379 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
21788336 CAATTCAGTC
21788346 CAAAATTCAAACTTTTG
1 CAAAATTCAAACTTTTG
*
21788363 CAAAATT-ACACTTTTG
1 CAAAATTCAAACTTTTG
21788379 C
1 C
21788380 CCCTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAAATTCAAACTTTTG
Found at i:21790945 original size:27 final size:27
Alignment explanation
Indices: 21790900--21790965 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
21790890 AGATAAAGCA
*
21790900 CGCCACTAAGGCGATCCATTCAAAATT
1 CGCCACAAAGGCGATCCATTCAAAATT
* *
21790927 TGCCACAAAGGC-ATCCCATTCAAAGTT
1 CGCCACAAAGGCGAT-CCATTCAAAATT
*
21790954 CACCACAAAGGC
1 CGCCACAAAGGC
21790966 TATTCATAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (27 bp):
CGCCACAAAGGCGATCCATTCAAAATT
Found at i:21794012 original size:35 final size:35
Alignment explanation
Indices: 21793965--21794033 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
21793955 TTAATTAATC
*
21793965 AGCTTTGACAATTGGAGTTCCCGAACAGTCATTGG
1 AGCTTTGACAATTGGAGTTCCCGAACAGCCATTGG
*
21794000 AGCTTTGTCAATTGGAGTTCCCGAACAGCCATTG
1 AGCTTTGACAATTGGAGTTCCCGAACAGCCATTG
21794034 AGGTAGACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (35 bp):
AGCTTTGACAATTGGAGTTCCCGAACAGCCATTGG
Found at i:21797725 original size:15 final size:15
Alignment explanation
Indices: 21797705--21797747 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
21797695 TTCTAAATTA
*
21797705 TTTTTTCCTTTCTTT
1 TTTTTTCATTTCTTT
*
21797720 TTTTTTGATTTCTTT
1 TTTTTTCATTTCTTT
*
21797735 TCTTTTTCTTTTC
1 T-TTTTTCATTTC
21797748 CATTTTTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTTCATTTCTTT
Found at i:21797736 original size:20 final size:21
Alignment explanation
Indices: 21797708--21797746 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
21797698 TAAATTATTT
21797708 TTTCCTTTCTTTTT-TTTTGA
1 TTTCCTTTCTTTTTCTTTTGA
*
21797728 TTTCTTTTCTTTTTCTTTT
1 TTTCCTTTCTTTTTCTTTT
21797747 CCATTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTCCTTTCTTTTTCTTTTGA
Found at i:21824433 original size:30 final size:30
Alignment explanation
Indices: 21824397--21824466 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
21824387 CCACATATGA
* **
21824397 CACACGGCCGTGTCGCCCAGTTGTGTGCCT
1 CACACGGCCATGTCGCCCAGCCGTGTGCCT
* *
21824427 CACACGGCCATGTCGCCTAGCCGTGTGCTT
1 CACACGGCCATGTCGCCCAGCCGTGTGCCT
21824457 CACACGGCCA
1 CACACGGCCA
21824467 AGTCACACGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.14, C:0.39, G:0.27, T:0.20
Consensus pattern (30 bp):
CACACGGCCATGTCGCCCAGCCGTGTGCCT
Found at i:21827361 original size:22 final size:21
Alignment explanation
Indices: 21827333--21827383 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
21827323 AAGGTGGAAG
* *
21827333 TTATGTGGCAGTTTATTTGCAA
1 TTATGTGGCAG-GTATTAGCAA
*
21827355 TTATGTGGCCGGTATTAGCAA
1 TTATGTGGCAGGTATTAGCAA
21827376 TTATGTGG
1 TTATGTGG
21827384 TGGCTTGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (21 bp):
TTATGTGGCAGGTATTAGCAA
Found at i:21836709 original size:9 final size:10
Alignment explanation
Indices: 21836689--21836713 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21836679 AACAAACTTG
21836689 AAAACATAAA
1 AAAACATAAA
21836699 AAAACATAAA
1 AAAACATAAA
21836709 AAAAC
1 AAAAC
21836714 GAGACTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAACATAAA
Found at i:21851407 original size:22 final size:21
Alignment explanation
Indices: 21851382--21851424 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
21851372 ATTAAGTTAG
* *
21851382 AGGGATATTTTTATGTTTAAAA
1 AGGG-TATTTTTAGGGTTAAAA
*
21851404 AGGGTGTTTTTAGGGTTAAAA
1 AGGGTATTTTTAGGGTTAAAA
21851425 TTTGGGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.42
Consensus pattern (21 bp):
AGGGTATTTTTAGGGTTAAAA
Found at i:21857987 original size:27 final size:27
Alignment explanation
Indices: 21857948--21859272 Score: 1264
Period size: 27 Copynumber: 49.2 Consensus size: 27
21857938 AATGGGCCTC
*
21857948 TAAAATTATTGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
21857975 TAAAATTACTGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
21858002 TAAAATTA-TCGAAATACCCTCGATGGG
1 TAAAATTACT-GAAATACCCTCGATGGG
** *
21858029 TAAAATTACCAAAATACCCCCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
21858056 TAAAATTA-TCGAAATACCC-CTGATGGG
1 TAAAATTACT-GAAATACCCTC-GATGGG
*
21858083 TAAAATTA-TAGAAATACCC-CTGATCGG
1 TAAAATTACT-GAAATACCCTC-GATGGG
* * *
21858110 TAAAATTACCGAAAGACCCTCCATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
** *
21858137 TAAAATTACCAAAATA-CCTCTGATCGG
1 TAAAATTACTGAAATACCCTC-GATGGG
* *
21858164 TTAAATTACTGAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* * *
21858191 TAAAATTACCGAAATACCTTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* * * *
21858218 TAAAAATACTAAAATACCCCCAATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* * *
21858245 TCAAATTAC-AAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* * *
21858271 TAAAATTACTAAAATACCCTCAAAGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
21858298 TAAAATTA-TCGAAATACCC-CTGATAGG
1 TAAAATTACT-GAAATACCCTC-GATGGG
* *
21858325 TAAAATTACCGAAATACCC-CTAATGGG
1 TAAAATTACTGAAATACCCTC-GATGGG
*
21858352 TAAAATTA-TCGAAATACCC-CTAATGGG
1 TAAAATTACT-GAAATACCCTC-GATGGG
* *
21858379 TAAAATTACTAAAATACCCTCAATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
21858406 TAAAATTA-TCGAAATACCCCCGATGGG
1 TAAAATTACT-GAAATACCCTCGATGGG
*
21858433 TAAAATTACCGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
** *
21858460 TAAAATTACCAAAATACCC-CTGATAGG
1 TAAAATTACTGAAATACCCTC-GATGGG
*
21858487 TAAAATTA-TCGAAATGCCC-CTGATGGG
1 TAAAATTACT-GAAATACCCTC-GATGGG
* *
21858514 TAAAATTA-TAGAAATACCCTTGATCGG
1 TAAAATTACT-GAAATACCCTCGATGGG
* *
21858541 TAAAATTATTGAAAGACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* **
21858568 TAAAATTGCCAAAATA-CCTCTGATGGG
1 TAAAATTACTGAAATACCCTC-GATGGG
*
21858595 TAAAATTACTGAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
21858622 TAAAATTA-TCAAAATACCCTTGATGGG
1 TAAAATTACT-GAAATACCCTCGATGGG
* * *
21858649 TAAATTTACTAAAATACCCCCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
21858676 TCAAATTA-TAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* **
21858702 TAACATTACCAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
21858729 TAAAATTA-TCAAAATACCCTCGATAGG
1 TAAAATTACT-GAAATACCCTCGATGGG
** *
21858756 TAAAATTACAAAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
21858783 TAAAATTACTAAAATACCCTCAAAT-GG
1 TAAAATTACTGAAATACCCTC-GATGGG
* *
21858810 TAAAATTA-TCGAAATACCCTTGATAGG
1 TAAAATTACT-GAAATACCCTCGATGGG
* *
21858837 TAAAATTA-TCGAAATACCCCCAATGGG
1 TAAAATTACT-GAAATACCCTCGATGGG
* *
21858864 TAAAATTA-TCGAAATACCC-CTAATGGA
1 TAAAATTACT-GAAATACCCTC-GATGGG
*
21858891 TAAAATTACTGAAATACCCTCGATGTG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
21858918 TAAAATTA-TCGTAATACCCTTGATGGG
1 TAAAATTACT-GAAATACCCTCGATGGG
* *
21858945 TAAAATTACTAAAATA-CCT-TATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
21858970 TAAAATTACCGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
21858997 TAAAATTA-TCGAAATACCCCCGATGGG
1 TAAAATTACT-GAAATACCCTCGATGGG
**
21859024 TAAAATTA-TCGAAATACCCTCGAAAGG
1 TAAAATTACT-GAAATACCCTCGATGGG
* *
21859051 TAAAATTACTGAAATACCTTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* **
21859078 TAAAATTATTGAAATACCCTAAAAT-GG
1 TAAAATTACTGAAATACCCT-CGATGGG
**
21859105 TAAAATTACCAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* * *
21859132 TAAAATTACTAAAATACCATCAATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
21859159 TAAAATTACAGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
21859186 TAAAATTA-TGAAAATACCC-CTAAAGGG
1 TAAAATTACTG-AAATACCCTC-GATGGG
*
21859213 T-AAATTGACCGAAATACCCTCGATGGG
1 TAAAATT-ACTGAAATACCCTCGATGGG
* *
21859240 TAAAATTATTGAAATACCC-CTATAGGG
1 TAAAATTACTGAAATACCCTCGAT-GGG
21859267 TAAAAT
1 TAAAAT
21859273 GACCGTTATA
Statistics
Matches: 1100, Mismatches: 149, Indels: 98
0.82 0.11 0.07
Matches are distributed among these distances:
25 19 0.02
26 83 0.08
27 972 0.88
28 26 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATGGG
Found at i:21859497 original size:26 final size:26
Alignment explanation
Indices: 21859468--21859544 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
21859458 TTGCCACAAA
* * *
21859468 TACTGTTATTGGTAGCTTTGATGCTT
1 TACTGTTACTGGAAGCTTTGATGCGT
* *
21859494 TACTGATACTGGAAGCTCTT-CTGCGT
1 TACTGTTACTGGAAGCT-TTGATGCGT
* *
21859520 TACTGTTACTGGCAGCTTTGCTGCG
1 TACTGTTACTGGAAGCTTTGATGCG
21859545 ATATTGGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.05
26 38 0.90
27 2 0.05
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGATGCGT
Found at i:21860805 original size:35 final size:35
Alignment explanation
Indices: 21860765--21860889 Score: 124
Period size: 35 Copynumber: 3.5 Consensus size: 35
21860755 TAGTCTTTGT
*
21860765 TTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGTTGGACTAGCTCTCATGAGCA
* **
21860800 TTGGTGTGTTTTGGAGGGACTAGCTCTCATGAGCA
1 TTGGTGTGTTTCGGTTGGACTAGCTCTCATGAGCA
* * * * * * *
21860835 CTGGTGTGTTTCAGTTGGATTGGATCTGATGAGAA
1 TTGGTGTGTTTCGGTTGGACTAGCTCTCATGAGCA
* *
21860870 TCTGGTGTATTTTGGTTGGA
1 T-TGGTGTGTTTCGGTTGGA
21860890 TTCACGATGT
Statistics
Matches: 71, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
35 56 0.79
36 15 0.21
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.39
Consensus pattern (35 bp):
TTGGTGTGTTTCGGTTGGACTAGCTCTCATGAGCA
Found at i:21865621 original size:29 final size:30
Alignment explanation
Indices: 21865563--21865621 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
21865553 TGCCTTTGAA
* *
21865563 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACTAAATTTT
*
21865593 AATATTTACAAAAAG-GGCAACTAAATTTT
1 AATATTTACAAAAAGAGACAACTAAATTTT
21865622 GAAAATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACTAAATTTT
Found at i:21872579 original size:22 final size:22
Alignment explanation
Indices: 21872545--21872597 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
21872535 TAACCCAAAT
21872545 TAAATT-AAATTAAATTAGATTA
1 TAAATTAAAATT-AATTAGATTA
*
21872567 -AAATTAAAATTAATTATATTA
1 TAAATTAAAATTAATTAGATTA
21872588 TAAATTAAAA
1 TAAATTAAAA
21872598 CACATAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATTAAAATTAATTAGATTA
Found at i:21872596 original size:5 final size:5
Alignment explanation
Indices: 21872541--21872579 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
21872531 TATTTAACCC
*
21872541 AAATT AAATT AAATT AAATT AGATT AAAATT AAAATT AA
1 AAATT AAATT AAATT AAATT AAATT -AAATT -AAATT AA
21872580 TTATATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:21881126 original size:27 final size:27
Alignment explanation
Indices: 21881088--21881151 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
21881078 GAACACGCTA
* *
21881088 GAAAAAGAAGTCTTTGTGGCTATATAT
1 GAAAAAGAAGTCTTTGTGACGATATAT
* *
21881115 GAAAAGGAAGTCTTTGTGACGATCTAT
1 GAAAAAGAAGTCTTTGTGACGATATAT
21881142 GAAAAAGAAG
1 GAAAAAGAAG
21881152 CCTTCATGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.27
Consensus pattern (27 bp):
GAAAAAGAAGTCTTTGTGACGATATAT
Found at i:21885561 original size:43 final size:42
Alignment explanation
Indices: 21885506--21885587 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
21885496 GTTCAAATAT
* *
21885506 GATTAAACTTAATCATTTTAA-TATTAAATTAATATAATATTTA
1 GATTAAACTTAAT-A-TTAAACTATTAAATTAATAGAATATTTA
*
21885549 GATTAAATTTAATATTAAATCTATTAAATTAATAGAATA
1 GATTAAACTTAATATTAAA-CTATTAAATTAATAGAATA
21885588 CTTATCTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.12
42 1 0.03
43 29 0.85
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (42 bp):
GATTAAACTTAATATTAAACTATTAAATTAATAGAATATTTA
Found at i:21885653 original size:20 final size:18
Alignment explanation
Indices: 21885603--21885654 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
21885593 CTACAAGATA
21885603 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
21885620 AATATTAAGA-TAATCAGTTT
1 AATATTAA-ATTAAT-A-TTT
21885640 AATATTAAATTAATA
1 AATATTAAATTAATA
21885655 AAATAGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:21887010 original size:11 final size:12
Alignment explanation
Indices: 21886980--21887012 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21886970 GTCACAAGTG
21886980 AATTAATTCACA
1 AATTAATTCACA
*
21886992 AATGAATTCA-A
1 AATTAATTCACA
21887003 AATTAATTCA
1 AATTAATTCA
21887013 TCTTGGGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:21888566 original size:27 final size:27
Alignment explanation
Indices: 21888533--21888861 Score: 374
Period size: 27 Copynumber: 12.3 Consensus size: 27
21888523 GGGTATAATA
* * *
21888533 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTGTGGGGGTAATTTG
* * *
21888560 GTTATTTTACCCTATAGGGGTAATTTG
1 GTCATTTTACCCTGTGGGGGTAATTTG
* *
21888587 GTCATTTTACCTTGTGGGGGAAATTTG
1 GTCATTTTACCCTGTGGGGGTAATTTG
* * *
21888614 ATCATTTTACCCTATGGGGGTAATTTA
1 GTCATTTTACCCTGTGGGGGTAATTTG
* **
21888641 GTCAGTTTACCCTGTGGGGGTAATTCA
1 GTCATTTTACCCTGTGGGGGTAATTTG
* * * * * *
21888668 ATCATGTTACCTTAT-AGGGTAATTCG
1 GTCATTTTACCCTGTGGGGGTAATTTG
*
21888694 GTCATTTTACCCTGTGGGGGTAATTAG
1 GTCATTTTACCCTGTGGGGGTAATTTG
* *
21888721 GTCATTTTACCCTGTGAGGGTAATTCG
1 GTCATTTTACCCTGTGGGGGTAATTTG
* *
21888748 GTCATTTTACCCTGTAGGGGTAATTCG
1 GTCATTTTACCCTGTGGGGGTAATTTG
*
21888775 ATCATTTTACCCTGTGGGGGTAATTT-
1 GTCATTTTACCCTGTGGGGGTAATTTG
* *
21888801 GTCATTTTACCCTGTGGGAGTAATTCG
1 GTCATTTTACCCTGTGGGGGTAATTTG
* *
21888828 GTCATTTTACCCTGCGGGGGTATTTTG
1 GTCATTTTACCCTGTGGGGGTAATTTG
21888855 GTCATTT
1 GTCATTT
21888862 ATCGACCTCT
Statistics
Matches: 255, Mismatches: 45, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 43 0.17
27 212 0.83
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTGTGGGGGTAATTTG
Found at i:21888729 original size:107 final size:105
Alignment explanation
Indices: 21888566--21888862 Score: 369
Period size: 107 Copynumber: 2.8 Consensus size: 105
21888556 TTTGGTTATT
* * * * *
21888566 TTACCCTATAGGGGTAATTTGGTCATTTTACCTTGTGGGGGAAATTTGATCATTTTACCCTATGG
1 TTACCCTATA-GGGTAA-TTGGTCATTTTACCCTGTGGGGGTAATTAGGTCATTTTACCCTGTGG
* *
21888631 GGGTAATTTAGTCAGTTTACCCTGTGGGGGTAATTCAATCATG
64 GGGTAATTTGGTCA-TTTACCCTGTAGGGGTAATTCAATCATG
* *
21888674 TTACCTTATAGGGTAATTCGGTCATTTTACCCTGTGGGGGTAATTAGGTCATTTTACCCTGTGAG
1 TTACCCTATAGGGTAATT-GGTCATTTTACCCTGTGGGGGTAATTAGGTCATTTTACCCTGTGGG
* * *
21888739 GGTAATTCGGTCATTTTACCCTGTAGGGGTAATTCGATCATT
65 GGTAATTTGGTCA-TTTACCCTGTAGGGGTAATTCAATCATG
* * * * * *
21888781 TTACCCTGTGGGGGTAATTTGTCATTTTACCCTGTGGGAGTAATTCGGTCATTTTACCCTGCGGG
1 TTACCCTAT-AGGGTAATTGGTCATTTTACCCTGTGGGGGTAATTAGGTCATTTTACCCTGTGGG
*
21888846 GGTATTTTGGTCATTTA
65 GGTAATTTGGTCATTTA
21888863 TCGACCTCTG
Statistics
Matches: 164, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
106 6 0.04
107 141 0.86
108 17 0.10
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (105 bp):
TTACCCTATAGGGTAATTGGTCATTTTACCCTGTGGGGGTAATTAGGTCATTTTACCCTGTGGGG
GTAATTTGGTCATTTACCCTGTAGGGGTAATTCAATCATG
Found at i:21889129 original size:19 final size:19
Alignment explanation
Indices: 21889073--21889121 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
21889063 GTGTAGGGCC
21889073 CACGAGCCCATTGAGCCCA
1 CACGAGCCCATTGAGCCCA
21889092 CACGAGCCCATTGAGCCCA
1 CACGAGCCCATTGAGCCCA
21889111 CACGA-CCCATT
1 CACGAGCCCATT
21889122 TCGGCCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.27, C:0.43, G:0.18, T:0.12
Consensus pattern (19 bp):
CACGAGCCCATTGAGCCCA
Found at i:21892118 original size:60 final size:59
Alignment explanation
Indices: 21892044--21892173 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 59
21892034 TTGATCCTAA
* * * *
21892044 TATAAAAAGTTCAATAAATTTAGCTCTCAATGTTTACAAAATTTGTCATTTTACTTCAAAT
1 TATAAAAA--TCAATAAATTTAGCTATCAATATTTACAAAATGTATCATTTTACTTCAAAT
* * *
21892105 TCTTAAAAATCAATAAATTTAGCTATCAATATTTACAAAATGTATCATTTTAGTTCTAAT
1 T-ATAAAAATCAATAAATTTAGCTATCAATATTTACAAAATGTATCATTTTACTTCAAAT
21892165 TATAAAAAT
1 TATAAAAAT
21892174 TTCAAAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 7 0.12
60 46 0.77
61 1 0.02
62 6 0.10
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (59 bp):
TATAAAAATCAATAAATTTAGCTATCAATATTTACAAAATGTATCATTTTACTTCAAAT
Found at i:21892145 original size:31 final size:30
Alignment explanation
Indices: 21892054--21892145 Score: 73
Period size: 31 Copynumber: 3.0 Consensus size: 30
21892044 TATAAAAAGT
*
21892054 TCAATAAATTTAGCTCTCAATGTTTACAAAA
1 TCAATAAATTTAGCT-TCAATATTTACAAAA
*** * *
21892085 TTTGTCATTTTA-CTTCAA-ATTCTTA-AAAA
1 TCAATAAATTTAGCTTCAATA-T-TTACAAAA
21892114 TCAATAAATTTAGCTATCAATATTTACAAAA
1 TCAATAAATTTAGCT-TCAATATTTACAAAA
21892145 T
1 T
21892146 GTATCATTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
29 16 0.36
30 10 0.23
31 17 0.39
32 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.40
Consensus pattern (30 bp):
TCAATAAATTTAGCTTCAATATTTACAAAA
Found at i:21892157 original size:31 final size:30
Alignment explanation
Indices: 21892062--21892157 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 30
21892052 GTTCAATAAA
* * *
21892062 TTTAGCTCTCAATGTTTACAAAATTTGTCAT
1 TTTAGCT-TCAATATTTACAAAATCTATCAT
* * *
21892093 TTTA-CTTCAA-ATTCTTA-AAAATCAATAAA
1 TTTAGCTTCAATA-T-TTACAAAATCTATCAT
*
21892122 TTTAGCTATCAATATTTACAAAATGTATCAT
1 TTTAGCT-TCAATATTTACAAAATCTATCAT
21892153 TTTAG
1 TTTAG
21892158 TTCTAATTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
29 16 0.33
30 10 0.20
31 22 0.45
32 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.43
Consensus pattern (30 bp):
TTTAGCTTCAATATTTACAAAATCTATCAT
Found at i:21892847 original size:60 final size:60
Alignment explanation
Indices: 21892779--21892902 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
21892769 TTTTTTTAAT
* * *
21892779 TTTTAGAATTAGAA-TTAAATTGATAAATTTTGCAAACGTTGAGAGCTAAATTTATAGAAC
1 TTTTAGAATTAGAACTAAAATT-ACAAATTTTGCAAACATTGAGAGCTAAATTTATAGAAC
** * * * * *
21892839 TTTTAGAATTCTAACTAAAATTACAAATTTTGTAAACATTGAGGGCTAAGTTTATTGAAT
1 TTTTAGAATTAGAACTAAAATTACAAATTTTGCAAACATTGAGAGCTAAATTTATAGAAC
21892899 TTTT
1 TTTT
21892903 TATATTTAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 47 0.89
61 6 0.11
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (60 bp):
TTTTAGAATTAGAACTAAAATTACAAATTTTGCAAACATTGAGAGCTAAATTTATAGAAC
Found at i:21895781 original size:18 final size:19
Alignment explanation
Indices: 21895760--21895802 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
21895750 ATTAAATGTA
*
21895760 AAAATGTAATTTTTAA-AT
1 AAAATGTAATTTTAAAGAT
*
21895778 AAAA-GTTATTTTAAAGAT
1 AAAATGTAATTTTAAAGAT
21895796 AAAATGT
1 AAAATGT
21895803 GAAATTGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 10 0.48
19 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (19 bp):
AAAATGTAATTTTAAAGAT
Found at i:21896069 original size:19 final size:21
Alignment explanation
Indices: 21896034--21896081 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
21896024 ATGGGGGTAA
*
21896034 AGGGTGAGAAGTAAAA-GTTT
1 AGGGGGAGAAGTAAAAGGTTT
21896054 AGGGGGAGAA-TAAAAGGTTT
1 AGGGGGAGAAGTAAAAGGTTT
*
21896074 TGGGGGAG
1 AGGGGGAG
21896082 TAAAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (21 bp):
AGGGGGAGAAGTAAAAGGTTT
Found at i:21900026 original size:15 final size:14
Alignment explanation
Indices: 21899985--21900027 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
21899975 GAAATGATTA
*
21899985 GTTTAGGATTTAAG
1 GTTTAGAATTTAAG
*
21899999 GTTTAAAATTTTAAG
1 GTTTAGAA-TTTAAG
21900014 GTTTTAGAATTTAA
1 G-TTTAGAATTTAA
21900028 TAAAAAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 6 0.25
15 12 0.50
16 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (14 bp):
GTTTAGAATTTAAG
Found at i:21900829 original size:27 final size:28
Alignment explanation
Indices: 21900778--21900847 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 28
21900768 AAAAATAAAA
*
21900778 ATTTACCAAAATAT-TATAACTTTTTTT
1 ATTTACCAAAATATATATAACATTTTTT
*
21900805 ATTTACCAAAAAATATATAA-ATTTTTT
1 ATTTACCAAAATATATATAACATTTTTT
21900832 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
21900848 CAAAAAAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTTACCAAAATATATATAACATTTTTT
Found at i:21901157 original size:19 final size:21
Alignment explanation
Indices: 21901119--21901157 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
21901109 TTTTTTTGAT
*
21901119 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
21901140 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
21901158 TTGTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:21901236 original size:3 final size:3
Alignment explanation
Indices: 21901230--21901257 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21901220 ATTATTATTA
21901230 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
21901258 CGTTAGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:21902052 original size:18 final size:18
Alignment explanation
Indices: 21902009--21902053 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
21901999 TTGACATGGT
*
21902009 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
21902027 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
21902045 TGGTGGCGA
1 TGGTGGCGA
21902054 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:21906440 original size:40 final size:40
Alignment explanation
Indices: 21906364--21906454 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
21906354 TAACTCATTC
* * *
21906364 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAATTGAAAACTCGCACA
** *
21906404 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTGAAAACTCGCACA
*
21906444 AAGGCCTTCGG
1 AATGCCTTCGG
21906455 ATCTTAGTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTGAAAACTCGCACA
Found at i:21910039 original size:159 final size:159
Alignment explanation
Indices: 21909594--21910045 Score: 387
Period size: 159 Copynumber: 2.8 Consensus size: 159
21909584 AGTTGAAAAA
* * * *
21909594 AAAAGTTAGTAAAAAAATCTTACTTCGGCCATTTATTCGTATTTTTTTCTCCGCATTTTATTACT
1 AAAAGTTAGT-AATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
** *
21909659 TTAAAAAATATCAT-AATTTCTAATTTTATAATTTTACATTATTTCTGTGCATAATGTTTGAAAT
65 TTAAAAAATATCATAAATTAGT-ATTTTATAATTTTACATTATTTCAGTGCAT-ATGTTTGAAA-
* * *
21909723 TTATTACTCTAGTGTGTTATTTAAATTAATTTGGTG
127 -TATTA-TCTA-TGTATTAATTAAATTAATTTGATG
* * * * *
21909759 AAAA---A--AATAACCCTTACCTCTACCCTTTGCTT-GTATTATTTTCT-CG-ATTTTTATTAC
1 AAAAGTTAGTAATAACTCTTACTTCTGCCATTTG-TTCGTATTTTTTTCTCCGCA-TTTTATTAC
* * * * * * * *
21909816 TTTAAATAAAAATAT-ATTATTCTCGTATTTTATTATTTTATATTATTTCAGTACATTTCTTTGA
64 TTT--A-AAAAATATCATAAAT-TAGTATTTTATAATTTTACATTATTTCAGTGCATATGTTTGA
* *
21909880 AATA-T-T-T-TGTATTAATTATATCTGAATTTTAT-
125 AATATTATCTATGTATTAATTAAAT-T-AATTTGATG
21909912 AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
1 AAAAGTTAGTAATA-ACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
* *
21909977 TTAAAAAATATCATAAACTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCGTGTTTGAAAT
65 TTAAAAAATATCATAAA-TTAGTATTTTATAATTTTACATTATTTCAGTGCAT-ATGTTTGAAAT
21910042 -TTAT
128 ATTAT
21910046 TAATTTAGTG
Statistics
Matches: 227, Mismatches: 37, Indels: 51
0.72 0.12 0.16
Matches are distributed among these distances:
152 11 0.05
153 5 0.02
154 7 0.03
155 1 0.00
156 1 0.00
157 10 0.04
158 55 0.24
159 65 0.29
160 28 0.12
161 37 0.16
162 3 0.01
165 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (159 bp):
AAAAGTTAGTAATAACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTT
TAAAAAATATCATAAATTAGTATTTTATAATTTTACATTATTTCAGTGCATATGTTTGAAATATT
ATCTATGTATTAATTAAATTAATTTGATG
Found at i:21910083 original size:158 final size:153
Alignment explanation
Indices: 21909611--21910084 Score: 361
Period size: 158 Copynumber: 3.0 Consensus size: 153
21909601 AGTAAAAAAA
* *
21909611 TCTTACTTCGGCCATTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCAT-AA
1 TCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAAA
** * * *
21909675 TTTCTAATTTTATAATTTTACATTATTTCTGTGCATAATGTTTGAAATTTATTACTCTAGTGTGT
66 TTAGT-ATTTTATAATTTTACATTATTTCAGTGCAT-ATGTTTGAAATTTATTAATTTAGTGTGT
* ** *
21909740 TATTTAAATTAATTTGGTGAAAAAAATAAC
129 TAATTAAA-TAA----AAGAAAATAATAAC
* * * * *
21909770 CCTTACCTCTACCCTTTGCTT-GTATTATTTTCT-CG-ATTTTTATTACTTTAAATAAAAATAT-
1 TCTTACTTCTGCCATTTG-TTCGTATTTTTTTCTCCGCA-TTTTATTACTTT--A-AAAAATATC
* * * * * * * *
21909831 ATTATTCTCGTATTTTATTATTTTATATTATTTCAGTACATTTCTTTGAAATATTTTGTATTAAT
61 ATAAAT-TAGTATTTTATAATTTTACATTATTTCAGTGCATATGTTTG-AA-A--TT-TATTAAT
* ** ** *
21909896 TATA-TCTG--AATTTTATAAAAGTTAGTAATACAC
120 T-TAGTGTGTTAATTAAATAAAAGAAAATAATA-AC
21909929 TCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAAA
1 TCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAAA
* *
21909994 CTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCGTGTTTGAAATTTATTAATTTAGTGTGT
66 -TTAGTATTTTATAATTTTACATTATTTCAGTGCAT-ATGTTTGAAATTTATTAATTTAGTGTGT
***
21910059 TAAGGGGGAATAAAAGAAAATAATAA
129 TAA--TTAAATAAAAGAAAATAATAA
21910085 ATAAGGAGGG
Statistics
Matches: 240, Mismatches: 50, Indels: 52
0.70 0.15 0.15
Matches are distributed among these distances:
153 2 0.01
154 11 0.05
155 2 0.01
156 2 0.01
157 11 0.05
158 70 0.29
159 56 0.23
160 24 0.10
161 39 0.16
162 6 0.03
163 4 0.02
164 2 0.01
165 9 0.04
166 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (153 bp):
TCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAAA
TTAGTATTTTATAATTTTACATTATTTCAGTGCATATGTTTGAAATTTATTAATTTAGTGTGTTA
ATTAAATAAAAGAAAATAATAAC
Found at i:21910904 original size:18 final size:17
Alignment explanation
Indices: 21910883--21910974 Score: 73
Period size: 18 Copynumber: 5.3 Consensus size: 17
21910873 TTCCCTCTTC
21910883 TTCTTCTTCTTTTTTCT
1 TTCTTCTTCTTTTTTCT
* *
21910900 CTTCTCCTT-TCCTTTTCT
1 -TTCTTCTTCT-TTTTTCT
21910918 TTC--CTTCTTTCTTTCT
1 TTCTTCTTCTTT-TTTCT
* *
21910934 TTTTTCTTCTCTTTTCCTT
1 TTCTTCTTCT-TTTTTC-T
*
21910953 TTCTTCTTCTTCTTTCT
1 TTCTTCTTCTTTTTTCT
21910970 TTCTT
1 TTCTT
21910975 TTTTTCTCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
15 4 0.07
16 8 0.14
17 10 0.17
18 25 0.42
19 12 0.20
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTTCTTCTTTTTTCT
Found at i:21910929 original size:4 final size:4
Alignment explanation
Indices: 21910913--21911045 Score: 96
Period size: 4 Copynumber: 32.0 Consensus size: 4
21910903 CTCCTTTCCT
*
21910913 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTT-C TTTC T-TTC
* *
21910959 -TTC -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTCC
1 TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTT-C
* *
21911004 TTTT TTTC TTTC TTTCC TCTC ATTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTT-C TTTC -TTTC TTTC TTTC TTTC TTTC
21911046 CCTCTCCTTC
Statistics
Matches: 105, Mismatches: 10, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
3 12 0.11
4 66 0.63
5 21 0.20
6 6 0.06
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:21910931 original size:22 final size:21
Alignment explanation
Indices: 21910906--21911046 Score: 107
Period size: 22 Copynumber: 6.7 Consensus size: 21
21910896 TTCTCTTCTC
21910906 CTTTCCTTTTCTTTCCTTCTTT
1 CTTT-CTTTTCTTTCCTTCTTT
21910928 CTTTC-TTT-TTT-CTTCTCTT
1 CTTTCTTTTCTTTCCTTCT-TT
* *
21910947 -TTCCTTTTCTTCTTCTTCTTT
1 CTTTCTTTTCTT-TCCTTCTTT
*
21910968 CTTTCTTTT-TTTCTCTTC-TC
1 CTTTCTTTTCTTTC-CTTCTTT
*
21910988 CTTTCCTTTTCTTTCCTTTTTTT
1 CTTT-CTTTTCTTTCC-TTCTTT
* * *
21911011 CTTTCTTTCCTCTCATTTCTTT
1 CTTTCTTTTCTTTC-CTTCTTT
21911033 CTTTC-TTTCTTTCC
1 CTTTCTTTTCTTTCC
21911047 CTCTCCTTCT
Statistics
Matches: 94, Mismatches: 13, Indels: 26
0.71 0.10 0.20
Matches are distributed among these distances:
18 8 0.09
19 8 0.09
20 11 0.12
21 22 0.23
22 40 0.43
23 5 0.05
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.70
Consensus pattern (21 bp):
CTTTCTTTTCTTTCCTTCTTT
Found at i:21910999 original size:43 final size:42
Alignment explanation
Indices: 21910878--21911018 Score: 188
Period size: 43 Copynumber: 3.5 Consensus size: 42
21910868 CTTCCTTCCC
21910878 TCTTCTTC-TTC-TTCTTTTTTCTCTTCTCCTTTCCTTTTCT
1 TCTTCTTCTTTCTTTCTTTTTTCTCTTCTCCTTTCCTTTTCT
* *
21910918 T-TCCTTCTTTCTTTC-TTTTT-TCTTCTCTTTTCCTTTTCT
1 TCTTCTTCTTTCTTTCTTTTTTCTCTTCTCCTTTCCTTTTCT
21910957 TCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
1 TCTTCTTCTTTCTTTC-TTTTTTCTCTTCTCCTTTCCTTTTC-T
21911001 TCCTT-TT-TTTCTTTCTTT
1 T-CTTCTTCTTTCTTTCTTT
21911019 CCTCTCATTT
Statistics
Matches: 89, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
39 24 0.27
40 22 0.25
41 3 0.03
42 8 0.09
43 25 0.28
44 4 0.04
45 3 0.03
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (42 bp):
TCTTCTTCTTTCTTTCTTTTTTCTCTTCTCCTTTCCTTTTCT
Found at i:21911002 original size:30 final size:29
Alignment explanation
Indices: 21910852--21910933 Score: 53
Period size: 29 Copynumber: 2.8 Consensus size: 29
21910842 TTACCTTTTT
* *
21910852 TTTTCTTT-TTTTTTTCCTTCCTTCCCTCTTC
1 TTTTCTTTCTTTTTTT-CTTTC-T-CCTCTCC
*
21910883 TTCTTC-TTC-TTTTTTCTCTTCTCCTTTCC
1 TT-TTCTTTCTTTTTTTCT-TTCTCCTCTCC
* *
21910912 TTTTCTTTCCTTCTTTCTTTCT
1 TTTTCTTTCTTTTTTTCTTTCT
21910934 TTTTTCTTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
28 3 0.07
29 14 0.33
30 10 0.24
31 12 0.29
32 3 0.07
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTCTTTCTTTTTTTCTTTCTCCTCTCC
Found at i:21911008 original size:30 final size:27
Alignment explanation
Indices: 21910891--21911046 Score: 112
Period size: 26 Copynumber: 5.7 Consensus size: 27
21910881 TCTTCTTCTT
21910891 CTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTTTTT-TCTT-T-CTTTCCTTTTCTTTC
*
21910921 CTTCTTTCTTTCTTT-TTT-CTTCTCTTTTC
1 C-T-TTT-TTTCTTTCTTTCCTTTTC-TTTC
*
21910950 CTTTTCTTC-TTC-TT-C-TTTCTTTC
1 CTTTTTTTCTTTCTTTCCTTTTCTTTC
*
21910973 TTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTTTTT-TCTT-T-CTTTCCTTTTCTTTC
*
21911003 CTTTTTTTCTTTCTTTCC-TCTCATTT-
1 CTTTTTTTCTTTCTTTCCTTTTC-TTTC
*
21911029 CTTTCTTTCTTTCTTTCC
1 CTTTTTTTCTTTCTTTCC
21911047 CTCTCCTTCT
Statistics
Matches: 105, Mismatches: 8, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
23 9 0.09
24 5 0.05
25 6 0.06
26 24 0.23
27 13 0.12
28 9 0.09
29 13 0.12
30 15 0.14
31 2 0.02
32 7 0.07
33 2 0.02
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (27 bp):
CTTTTTTTCTTTCTTTCCTTTTCTTTC
Found at i:21911039 original size:82 final size:79
Alignment explanation
Indices: 21910878--21911029 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 79
21910868 CTTCCTTCCC
*
21910878 TCTTCTTCTTCTTCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTCTTTTTTCTTC
1 TCTTCTTCTTCTTCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTCTTTTTTCCTC
*
21910943 TCTTTTCCTTTTCT
66 TCATTTCCTTTTCT
21910957 TCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC-T-TTT-TTTCTTTCTTT
1 TCTTCTTC-TTC-TTC-TTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTCTTT-TTT
21911019 CCTCTCATTTC
62 CCTCTCATTTC
21911030 TTTCTTTCTT
Statistics
Matches: 67, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
79 15 0.22
80 18 0.27
81 4 0.06
82 30 0.45
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (79 bp):
TCTTCTTCTTCTTCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTCTTTTTTCCTC
TCATTTCCTTTTCT
Found at i:21911056 original size:26 final size:26
Alignment explanation
Indices: 21911003--21911056 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
21910993 CTTTTCTTTC
* *
21911003 CTTTTTTTCTTTCTTTCCTCTCATTT
1 CTTTCTTTCTTTCTTTCCTCTCACTT
21911029 CTTTCTTTCTTTCTTTCCCTCTC-CTT
1 CTTTCTTTCTTTCTTT-CCTCTCACTT
21911055 CT
1 CT
21911057 GCCCCCCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (26 bp):
CTTTCTTTCTTTCTTTCCTCTCACTT
Found at i:21911162 original size:27 final size:27
Alignment explanation
Indices: 21911088--21911154 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
21911078 TATTATTAAG
21911088 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* * *
21911115 TGGTGCAGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
21911142 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
21911155 CCCATTGGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:21911259 original size:26 final size:28
Alignment explanation
Indices: 21911230--21911298 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 28
21911220 TTGTTTTTTG
21911230 ATATATTTTGGTAAAT-AAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
*
21911256 ATATTTTTTGGTAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
*
21911284 A-ATATTTTAGTAAAT
1 ATATATTTTGGTAAAT
21911299 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.39
27 18 0.47
28 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAGTTAT
Found at i:21915839 original size:73 final size:73
Alignment explanation
Indices: 21915715--21915867 Score: 270
Period size: 73 Copynumber: 2.1 Consensus size: 73
21915705 ATCACATTTT
*
21915715 AATGAATGAAATACATGCATGAGTTTAATTGAAAGCATGAACGATGAAGGTATAGACATCATAAA
1 AATG-ATGAAATACATGCATGAGTTAAATTGAAAGCATGAACGATGAAGGTATAGACATCATAAA
21915780 CATGAATCA
65 CATGAATCA
*
21915789 AATGATGAAATACATGCATGAGTTAAATTGAAAGCATGAACGATTAAGGTATAGACATCATAAAC
1 AATGATGAAATACATGCATGAGTTAAATTGAAAGCATGAACGATGAAGGTATAGACATCATAAAC
21915854 ATGAATCA
66 ATGAATCA
*
21915862 GATGAT
1 AATGAT
21915868 CTTTGTCAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 72 0.95
74 4 0.05
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (73 bp):
AATGATGAAATACATGCATGAGTTAAATTGAAAGCATGAACGATGAAGGTATAGACATCATAAAC
ATGAATCA
Found at i:21916196 original size:18 final size:18
Alignment explanation
Indices: 21916173--21916215 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21916163 GAAGAATGAA
21916173 GAATGAA-GAATGAAGAAT
1 GAATGAATG-ATGAAGAAT
*
21916191 GAATGAATGATGAAGGAT
1 GAATGAATGATGAAGAAT
*
21916209 GAGTGAA
1 GAATGAA
21916216 ATGGGAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.19
Consensus pattern (18 bp):
GAATGAATGATGAAGAAT
Found at i:21916210 original size:7 final size:7
Alignment explanation
Indices: 21916162--21916200 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
21916152 AAATAACAAG
21916162 TGAAGAA
1 TGAAGAA
21916169 TGAAGAA
1 TGAAGAA
21916176 TGAAGAA
1 TGAAGAA
21916183 TGAAGAA
1 TGAAGAA
21916190 TGAATGAA
1 TGAA-GAA
21916198 TGA
1 TGA
21916201 TGAAGGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (7 bp):
TGAAGAA
Found at i:21922257 original size:32 final size:33
Alignment explanation
Indices: 21922195--21922260 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
21922185 AGCTCAATGG
* *
21922195 TCTTGTGGTGTGAAAACTAGAATAGAAATAGCC
1 TCTTGTGGTGTGAAAACCAGAACAGAAATAGCC
*
21922228 TCTTGT-GTGTGAACAACCAGAACCG-AATAGCC
1 TCTTGTGGTGTGAA-AACCAGAACAGAAATAGCC
21922260 T
1 T
21922261 TAGCATGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (33 bp):
TCTTGTGGTGTGAAAACCAGAACAGAAATAGCC
Found at i:21922744 original size:15 final size:15
Alignment explanation
Indices: 21922721--21922750 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21922711 CCAGATTTTA
21922721 TTAAATTAATTAATT
1 TTAAATTAATTAATT
*
21922736 TTAAGTTAATTAATT
1 TTAAATTAATTAATT
21922751 AATTTAACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TTAAATTAATTAATT
Found at i:21923183 original size:50 final size:50
Alignment explanation
Indices: 21923108--21923206 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
21923098 AAAACTTGAA
*
21923108 AAGGACCATCACCTCTCGGCAATAGTTTGGATCTTCGTTGGGTTGGGAAG
1 AAGGACCATCACCTCTCGGCAATAGTTTGGATCTTCGTTGGGCTGGGAAG
21923158 AAGGACCATCACCTCTCGGCAATAGTTTGGATCTTCGTTGGGCTGGGAA
1 AAGGACCATCACCTCTCGGCAATAGTTTGGATCTTCGTTGGGCTGGGAA
21923207 CCATTCTTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (50 bp):
AAGGACCATCACCTCTCGGCAATAGTTTGGATCTTCGTTGGGCTGGGAAG
Found at i:21928827 original size:10 final size:11
Alignment explanation
Indices: 21928806--21928839 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
21928796 AGCTAGCAAT
21928806 TGAGCTTTAAA
1 TGAGCTTTAAA
21928817 TGAGC-TTAAA
1 TGAGCTTTAAA
21928827 TGAGCTTTAAA
1 TGAGCTTTAAA
21928838 TG
1 TG
21928840 TGCTGCTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (11 bp):
TGAGCTTTAAA
Found at i:21935057 original size:76 final size:76
Alignment explanation
Indices: 21934931--21935081 Score: 266
Period size: 76 Copynumber: 2.0 Consensus size: 76
21934921 AGCACTTAGT
*
21934931 AACCACCTTATAATCAATCATACGGGGAATCAGCACATAGCAACCCCTTTCATAATCAAGGATAC
1 AACCACCTTATAATCAATCATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATAC
21934996 GATGGAATCAC
66 GATGGAATCAC
* *
21935007 AACCACCTTATAATCAATGATACGGGGAATCAGCACATGGCAACCCCTTTCACAATCAAGGATAC
1 AACCACCTTATAATCAATCATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATAC
*
21935072 GGTGGAATCA
66 GATGGAATCA
21935082 GCACTTACCA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (76 bp):
AACCACCTTATAATCAATCATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATAC
GATGGAATCAC
Found at i:21935113 original size:42 final size:41
Alignment explanation
Indices: 21934836--21935116 Score: 210
Period size: 42 Copynumber: 6.9 Consensus size: 41
21934826 CCCGGTGGAG
* * *
21934836 TCAGCACTTAGCAACCACCTTATAATCAATGATATGGGGAA
1 TCAGCACATACCAACCACCTTATAATCAATGATACGGGGAA
* * * *
21934877 TCAACA-ATAGCAACC-CCTT-TCGCAATCAAGGATATGGTGGAA
1 TCAGCACATACCAACCACCTTAT---AATCAATGATACGG-GGAA
* ** *
21934919 TCAGCACTTAGTAACCACCTTATAATCAATCATACGGGGAA
1 TCAGCACATACCAACCACCTTATAATCAATGATACGGGGAA
* *
21934960 TCAGCACATAGCAACC-CCTTTCATAATCAAGGATAC---G-A
1 TCAGCACATACCAACCACC-TT-ATAATCAATGATACGGGGAA
*
21934998 T--GGA-AT-CACAACCACCTTATAATCAATGATACGGGGAA
1 TCAGCACATAC-CAACCACCTTATAATCAATGATACGGGGAA
** * *
21935036 TCAGCACATGGCAACC-CCTTTCACAATCAAGGATACGGTGGAA
1 TCAGCACATACCAACCACC-TT-ATAATCAATGATACGG-GGAA
*
21935079 TCAGCACTTACCAACCACCTTATAATCAATGATACGGG
1 TCAGCACATACCAACCACCTTATAATCAATGATACGGG
21935117 TTCACATAGT
Statistics
Matches: 192, Mismatches: 25, Indels: 46
0.73 0.10 0.17
Matches are distributed among these distances:
34 13 0.07
35 9 0.05
36 4 0.02
37 1 0.01
38 5 0.03
39 5 0.03
40 14 0.07
41 48 0.25
42 60 0.31
43 26 0.14
44 6 0.03
45 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (41 bp):
TCAGCACATACCAACCACCTTATAATCAATGATACGGGGAA
Found at i:21935282 original size:50 final size:50
Alignment explanation
Indices: 21935119--21935307 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 50
21935109 GATACGGGTT
* * * *
21935119 CACATAGTAGCCTACACATAGTACTACACATGTGACCATAACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-TAACTATCTGGTA
** * * * *
21935170 CATGTAGTAGCTTGCACATAGTACTACACACATGATCGAAGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAA-CTATCTGGTA
* * * * *
21935221 CGCATAGTAGCCTGCACATAATACTACACATGTGACCTATCTTTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAACTATCTGGTA
21935271 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
21935308 ATCGCTCTCA
Statistics
Matches: 113, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 45 0.40
51 68 0.60
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAACTATCTGGTA
Found at i:21935340 original size:101 final size:102
Alignment explanation
Indices: 21935116--21935341 Score: 258
Period size: 101 Copynumber: 2.2 Consensus size: 102
21935106 AATGATACGG
* **
21935116 GTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATAACTATCCGATACATGTAGTAGC
1 GTTCACATAGTAGCCTACACATAATACTACACATGTGACCATAACTATCCGATACACATAGTAGC
* * **
21935181 TTGCACATAGTACTACACACATGATCGAAGCTATCTG
66 CTGCACATAGTACTACACACATGATCCAAGCTATCAC
* * * * * * *
21935218 GTACGCATAGTAGCCTGCACATAATACTACACATGTGACC-TATCTTTCTGGTACACATAGTAGC
1 GTTCACATAGTAGCCTACACATAATACTACACATGTGACCATAACTATCCGATACACATAGTAGC
* * *
21935282 CTGCACATAGTACTACACACGTGA-CCATCGCTCTCAC
66 CTGCACATAGTACTACACACATGATCCA-AGCTATCAC
* *
21935319 TTTCACATAGTGGCCTACACATA
1 GTTCACATAGTAGCCTACACATA
21935342 GTCCGTGCCA
Statistics
Matches: 101, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
100 2 0.02
101 63 0.62
102 36 0.36
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAATACTACACATGTGACCATAACTATCCGATACACATAGTAGC
CTGCACATAGTACTACACACATGATCCAAGCTATCAC
Found at i:21936423 original size:43 final size:41
Alignment explanation
Indices: 21936329--21936608 Score: 214
Period size: 41 Copynumber: 7.0 Consensus size: 41
21936319 AAGGATCCCG
* * * *
21936329 GTGGAATTAGCACTTAGCAACCACCTTATAATCAATTATAC
1 GTGGAATCAGCACATAGCAACCACCTTACAATCAATGATAC
* *
21936370 GGGGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATAC
1 GTGGAATCAGCACATAGCAACCACC-TT-ACAATCAATGATAC
* *
21936412 AGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAC
1 -GTGGAATCAGCACATAGCAACCACCTTACAATCAATGATAC
* *
21936454 G-GGAAATCAGCACACAGCAACC-CCTTTC-A-CAAT--TAC
1 GTGG-AATCAGCACATAGCAACCACCTTACAATCAATGATAC
*
21936490 GGTGGAAT-----C--A-CAACCACCTTATAATCAATGATAC
1 -GTGGAATCAGCACATAGCAACCACCTTACAATCAATGATAC
* * * *
21936524 GGGGAATCAACACATAGCAACC-CCTTTCACAATCAAGGATATG
1 GTGGAATCAGCACATAGCAACCACC-TT-ACAATCAATGATA-C
* * *
21936567 GTGGAATCAGCACTTAGCAACCACCCTATAATCAATGATAC
1 GTGGAATCAGCACATAGCAACCACCTTACAATCAATGATAC
21936608 G
1 G
21936609 GGTTCACATA
Statistics
Matches: 188, Mismatches: 27, Indels: 48
0.71 0.10 0.18
Matches are distributed among these distances:
29 5 0.03
30 5 0.03
31 1 0.01
32 5 0.03
33 6 0.03
34 3 0.02
36 3 0.02
37 4 0.02
38 7 0.04
39 1 0.01
40 11 0.06
41 46 0.24
42 45 0.24
43 42 0.22
44 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (41 bp):
GTGGAATCAGCACATAGCAACCACCTTACAATCAATGATAC
Found at i:21936437 original size:84 final size:84
Alignment explanation
Indices: 21936329--21936486 Score: 280
Period size: 84 Copynumber: 1.9 Consensus size: 84
21936319 AAGGATCCCG
* * * *
21936329 GTGGAATTAGCACTTAGCAACCACCTTATAATCAATTATACGGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGAAATCAGCACACAGCAACCCC
21936394 TTTCACAATCAAGGATACA
66 TTTCACAATCAAGGATACA
21936413 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGAAATCAGCACACAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGAAATCAGCACACAGCAACCCC
21936478 TTTCACAAT
66 TTTCACAAT
21936487 TACGGTGGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.22
Consensus pattern (84 bp):
GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGAAATCAGCACACAGCAACCCC
TTTCACAATCAAGGATACA
Found at i:21936693 original size:51 final size:52
Alignment explanation
Indices: 21936613--21936805 Score: 232
Period size: 51 Copynumber: 3.8 Consensus size: 52
21936603 GATACGGGTT
*
21936613 CACATAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTATCCGATA
* * * * *
21936664 CACGTAGTAGCCTGCAAATAGTACTACACACGTGATCA-AAGCTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTATCCGATA
* * * * * * * *
21936715 CGCATAGTAGCCTTCACATAATACTACACATGCGACC-T-ATCTTTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTATCCGATA
21936765 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCA
21936806 ATTTCACTTT
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 42 0.36
51 73 0.63
52 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (52 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCAGCTATCCGATA
Found at i:21936787 original size:101 final size:101
Alignment explanation
Indices: 21936615--21936799 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
21936605 TACGGGTTCA
* * *
21936615 CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAATACTACACATGCGACCAT-ACTATCCGATACACATAGTAGCCTGCA
21936680 AATAGTACTACACACGTGATCAAAGCTATCCGATACG
65 AATAGTACTACACACGTGATCAAAGCTATCCGATACG
* * * *
21936717 CATAGTAGCCTTCACATAATACTACACATGCGACC-TATCTTTCTGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAATACTACACATGCGACCATA-CTATCCGATACACATAGTAGCCTGCA
* *
21936781 CATAGTACTACACATGTGA
65 AATAGTACTACACACGTGA
21936800 CCATCAATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 1 0.01
101 40 0.55
102 32 0.44
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACATAATACTACACATGCGACCATACTATCCGATACACATAGTAGCCTGCAA
ATAGTACTACACACGTGATCAAAGCTATCCGATACG
Found at i:21942359 original size:42 final size:42
Alignment explanation
Indices: 21942195--21942531 Score: 281
Period size: 42 Copynumber: 8.0 Consensus size: 42
21942185 CGTTACACGG
* * ** * * *
21942195 TGGAATCAGCACTTATCAACCACCTCATGTTCAAAGGATCCCGG
1 TGGAATCAGCACTTAGCAACCACCTTATAATC-AATGAT-ACGA
*
21942239 TGGAATCAGCACGTAGCAACCACCTTATAATCAATGATACG-
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGA
* * * * * *
21942280 GGGAATGAACACATAGCAA-CACCTTTCACAATAAATGATACGA
1 TGGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATACGA
* * *
21942323 TGGAATCAGCACTTAACAACCACCTTATAATTAATGATA-TA
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGA
* * * *
21942364 GGGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGA
1 TGGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATACGA
* *
21942407 TAGAATCAGCACTTAGCAACCACCTTATAATCAATGATATG-
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGA
* * * * * * * *
21942448 GGGAATTAGCACATAGCAACC-CATTTCACAATCAAGGATATGG
1 TGGAATCAGCACTTAGCAACCAC-CTT-ATAATCAATGATACGA
21942491 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACG
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACG
21942532 GGTTCACATA
Statistics
Matches: 233, Mismatches: 48, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
40 7 0.03
41 57 0.24
42 73 0.31
43 62 0.27
44 34 0.15
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.23
Consensus pattern (42 bp):
TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGA
Found at i:21942359 original size:84 final size:83
Alignment explanation
Indices: 21942239--21942533 Score: 437
Period size: 84 Copynumber: 3.5 Consensus size: 83
21942229 AGGATCCCGG
* * *
21942239 TGGAATCAGCACGTAGCAACCACCTTATAATCAATGATACGGGGAATGAACACATAGCAACACCT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAAC-CCT
* *
21942304 TTCACAATAAATGATACGA
65 TTCACAATCAAGGATACGA
* * **
21942323 TGGAATCAGCACTTAACAACCACCTTATAATTAATGATATAGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAA-CCCT
21942388 TTCACAATCAAGGATACGA
65 TTCACAATCAAGGATACGA
* * *
21942407 TAGAATCAGCACTTAGCAACCACCTTATAATCAATGATATGGGGAATTAGCACATAGCAACCCAT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCC-T
* *
21942472 TTCACAATCAAGGATATGG
65 TTCACAATCAAGGATACGA
21942491 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
21942534 TTCACATAGT
Statistics
Matches: 191, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
83 3 0.02
84 187 0.98
85 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (83 bp):
TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCTT
TCACAATCAAGGATACGA
Done.