Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 26 of 82
Found at i:8938402 original size:23 final size:24
Alignment explanation
Indices: 8938347--8938433 Score: 68
Period size: 27 Copynumber: 3.4 Consensus size: 24
8938337 AAGTAACAAG
* *
8938347 AAAGAAAAAATGGGCATGACCCAACAAG
1 AAAG-AAAAATGGGCATG-GCC--CAAT
*
8938375 AAAGAAAAATGGGTATGGCCCAAT
1 AAAGAAAAATGGGCATGGCCCAAT
8938399 AAGAAAGAAAAATGGGCATGGCCCAAT
1 ---AAAGAAAAATGGGCATGGCCCAAT
*
8938426 -TAGAAAAA
1 AAAGAAAAA
8938434 GATGAGAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
23 7 0.14
24 3 0.06
26 2 0.04
27 35 0.69
28 4 0.08
ACGTcount: A:0.52, C:0.14, G:0.23, T:0.11
Consensus pattern (24 bp):
AAAGAAAAATGGGCATGGCCCAAT
Found at i:8940348 original size:11 final size:11
Alignment explanation
Indices: 8940332--8940362 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8940322 ACTTTTTGGG
8940332 TTTAAAATTGT
1 TTTAAAATTGT
*
8940343 TTTAAAGTTGT
1 TTTAAAATTGT
8940354 TTTAAAATT
1 TTTAAAATT
8940363 TACAATGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (11 bp):
TTTAAAATTGT
Found at i:8942893 original size:2 final size:2
Alignment explanation
Indices: 8942886--8942918 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8942876 ATGCATGTAC
8942886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8942919 GTAATTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8944285 original size:33 final size:32
Alignment explanation
Indices: 8944235--8944297 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 32
8944225 ACAAAAGAAC
*
8944235 AAAGGAAAGAAAGAAGAA-AGAAGTAGCCGAGAG
1 AAAGGAAAGAAAAAAGAAGAGAA--AGCCGAGAG
8944268 AAAGGAAA-ACAAAAAGAAGAGAAAGCCGAG
1 AAAGGAAAGA-AAAAAGAAGAGAAAGCCGAG
8944298 CGTGAGAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 8 0.30
33 15 0.56
34 4 0.15
ACGTcount: A:0.60, C:0.08, G:0.30, T:0.02
Consensus pattern (32 bp):
AAAGGAAAGAAAAAAGAAGAGAAAGCCGAGAG
Found at i:8944826 original size:27 final size:27
Alignment explanation
Indices: 8944771--8944863 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
8944761 AAAAGAAAGT
**
8944771 AACAAGAAAGAAACAATGGGCATCACCC
1 AACAAGAAAGAAA-AATGGGCATGGCCC
* *
8944799 AACAAGAATGAAAAATGGGTATGGCCC
1 AACAAGAAAGAAAAATGGGCATGGCCC
*
8944826 AACAAAAAAGAAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGGCATGGCCC
**
8944853 AATTAGAAAGA
1 AACAAGAAAGA
8944864 GATGGGAAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 43 0.78
28 12 0.22
ACGTcount: A:0.51, C:0.17, G:0.22, T:0.11
Consensus pattern (27 bp):
AACAAGAAAGAAAAATGGGCATGGCCC
Found at i:8948612 original size:43 final size:43
Alignment explanation
Indices: 8948565--8948670 Score: 167
Period size: 43 Copynumber: 2.5 Consensus size: 43
8948555 CTTCTTACTC
* * * *
8948565 GCACATAGCCGAGTCATCATCAGTTCATGTGCATTCCCACACT
1 GCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCACACT
*
8948608 GCACATAGCTGGGTCATCATCAGCTCATTTGCACTCCCACACT
1 GCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCACACT
8948651 GCACATAGCTGGGTCATCAT
1 GCACATAGCTGGGTCATCAT
8948671 TATCACACAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (43 bp):
GCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCACACT
Found at i:8965036 original size:58 final size:57
Alignment explanation
Indices: 8964943--8965062 Score: 195
Period size: 58 Copynumber: 2.1 Consensus size: 57
8964933 AGGGTCTCAT
* *
8964943 CTTTGCATGCATAGCATTTATTAAATCACAAAAAATAAATCTATCACATGCATACTA
1 CTTTGCATGCATAACATTTATTAAATCACAAAAAATAAATCTATCACATGCAAACTA
* *
8965000 CTTTGCATTGCATAACATTTATTAAATTACATAAAATAAATCTATCACATGCAAACTA
1 CTTTGCA-TGCATAACATTTATTAAATCACAAAAAATAAATCTATCACATGCAAACTA
8965058 CTTTG
1 CTTTG
8965063 GATGATTATG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 7 0.12
58 51 0.88
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (57 bp):
CTTTGCATGCATAACATTTATTAAATCACAAAAAATAAATCTATCACATGCAAACTA
Found at i:8965716 original size:51 final size:51
Alignment explanation
Indices: 8965654--8965754 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
8965644 AAATTTTTAT
8965654 TACAAATTACAAATTAAAACATTTTTAATTTGTGCT-CTTAAACATTTTACC
1 TACAAATTACAAATTAAAACATTTTTAATTTGTGCTGC-TAAACATTTTACC
*
8965705 TACAAATTACAAATTAAAACATTTTTAATTTGTGTTGCTAAACATTTTAC
1 TACAAATTACAAATTAAAACATTTTTAATTTGTGCTGCTAAACATTTTAC
8965755 ACAACCTGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 47 0.98
52 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (51 bp):
TACAAATTACAAATTAAAACATTTTTAATTTGTGCTGCTAAACATTTTACC
Found at i:8972066 original size:11 final size:11
Alignment explanation
Indices: 8972050--8972077 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8972040 CACTGTAAAA
8972050 TTTAAAACAAC
1 TTTAAAACAAC
8972061 TTTAAAACAAC
1 TTTAAAACAAC
8972072 TTTAAA
1 TTTAAA
8972078 CCCAAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:8972096 original size:22 final size:22
Alignment explanation
Indices: 8972071--8972123 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
8972061 TTTAAAACAA
*
8972071 CTTTAAACCCAAAAG-TTTAGAT
1 CTTTAAACCCAAAAGCTAT-GAT
*
8972093 CTTTAAAACCAAAAGCTATGAT
1 CTTTAAACCCAAAAGCTATGAT
8972115 CTTTAAACC
1 CTTTAAACC
8972124 ATGCTCTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (22 bp):
CTTTAAACCCAAAAGCTATGAT
Found at i:8974640 original size:28 final size:27
Alignment explanation
Indices: 8974604--8974656 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
8974594 ATATCCTGGT
*
8974604 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
8974631 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
8974657 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:8978927 original size:30 final size:29
Alignment explanation
Indices: 8978822--8978990 Score: 139
Period size: 29 Copynumber: 5.7 Consensus size: 29
8978812 CTTTAACATG
* * *
8978822 TTTGCCTTAATTTAGACAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAATATTT
* * *
8978851 TTGGTCTTACTTTAGACAAGAAAATA-TG
1 TTTGTCTTAATTTAGACAAGAAAATATTT
*
8978879 TTTGGCTTAATTTAAGACAAGGAAAATATTT
1 TTTGTCTTAATTT-AGACAA-GAAAATATTT
* *
8978910 TTTGTCGTAATCTAGACAAGAATACATATTT
1 TTTGTCTTAATTTAGACAAGAA-A-ATATTT
* *
8978941 GTT-TC-AAATTTAGACAAGATAAA-ATTTT
1 TTTGTCTTAATTTAGACAAGA-AAATA-TTT
*
8978969 TTTGTCTTAATTATGGACAAGA
1 TTTGTCTTAATT-TAGACAAGA
8978991 GTTGTCTTAA
Statistics
Matches: 111, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
27 1 0.01
28 16 0.14
29 46 0.41
30 21 0.19
31 27 0.24
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (29 bp):
TTTGTCTTAATTTAGACAAGAAAATATTT
Found at i:8979167 original size:18 final size:17
Alignment explanation
Indices: 8979132--8979165 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8979122 ATAATAATAA
8979132 AATAAGAGTTATTATTT
1 AATAAGAGTTATTATTT
8979149 AATAACGAGTT-TTATTT
1 AATAA-GAGTTATTATTT
8979166 TATCAAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
AATAAGAGTTATTATTT
Found at i:8983883 original size:19 final size:19
Alignment explanation
Indices: 8983843--8983884 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8983833 AGACCTAAGG
* *
8983843 AATAAATGAATGATGGTAA
1 AATAAATGAATGAAGATAA
8983862 AATAAATGAA-GAAGATAGA
1 AATAAATGAATGAAGATA-A
8983881 AATA
1 AATA
8983885 TTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:8984847 original size:2 final size:2
Alignment explanation
Indices: 8984840--8984896 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
8984830 ATCCCTTTAN
8984840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8984882 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
8984897 GTATTGTACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8991285 original size:40 final size:40
Alignment explanation
Indices: 8991220--8991365 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
8991210 CACACCCGGC
*
8991220 TCATGTACATCCCCCTACATCGTGCACATAGTCGTCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCGTCACCA
* * *
8991260 TCATGTGCATCCCCCCACATTGTGCACATAGCCGTCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCGTCACCA
* * *
8991300 TCGTGTGCATCCCCCCACATCGTGCACA-A-TCAGT-GCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTC-GTCACCA
*
8991338 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
8991366 CAGGCACTAT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 31 0.32
39 3 0.03
40 62 0.65
ACGTcount: A:0.23, C:0.40, G:0.15, T:0.23
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGTCGTCACCA
Found at i:8991358 original size:19 final size:19
Alignment explanation
Indices: 8991298--8991361 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
8991288 TAGCCGTCAC
*
8991298 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
8991317 CATCGTGCACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
8991336 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
8991355 CATCGTG
1 CATCGTG
8991362 CACACAGGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 4 0.12
19 24 0.75
20 4 0.12
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.22
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:8994621 original size:25 final size:24
Alignment explanation
Indices: 8994584--8994671 Score: 113
Period size: 25 Copynumber: 3.5 Consensus size: 24
8994574 CCGATTTATT
*
8994584 TTTATTTCCTATTGGGACATGCCCA
1 TTTATTTTCTATTGGG-CATGCCCA
*
8994609 TTTATTTTGTATTGGGCGATGCCCA
1 TTTATTTTCTATTGGGC-ATGCCCA
*
8994634 CTTATTTTCTATTGGGCCATGCCCA
1 TTTATTTTCTATTGGG-CATGCCCA
*
8994659 TTTATTTTTTATT
1 TTTATTTTCTATT
8994672 TATTTTCTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (24 bp):
TTTATTTTCTATTGGGCATGCCCA
Found at i:8994982 original size:25 final size:25
Alignment explanation
Indices: 8994953--8995001 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
8994943 AAAAATCAGC
*
8994953 TTTCTTACC-CCAAAAATTTCAGCAT
1 TTTCTT-CCTCCAAAAATTGCAGCAT
8994978 TTTCTTCCTCCAAAAATTGCAGCA
1 TTTCTTCCTCCAAAAATTGCAGCA
8995002 AAAAGCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (25 bp):
TTTCTTCCTCCAAAAATTGCAGCAT
Found at i:8996531 original size:36 final size:36
Alignment explanation
Indices: 8996484--8996559 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
8996474 AGTGTGAACG
* * *
8996484 ATGGTATTAGCTGTGCGCGATGTGGGGGTACACACA
1 ATGGTATTAGCTGTGAGCGATATGAGGGTACACACA
* *
8996520 ATGGTATTAGCTGTGAGCGATATGAGGGTGCACACG
1 ATGGTATTAGCTGTGAGCGATATGAGGGTACACACA
8996556 ATGG
1 ATGG
8996560 CTTCGGCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.24, C:0.14, G:0.37, T:0.25
Consensus pattern (36 bp):
ATGGTATTAGCTGTGAGCGATATGAGGGTACACACA
Found at i:9002908 original size:43 final size:43
Alignment explanation
Indices: 9002856--9002965 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
9002846 TCACCAGCTC
** *
9002856 ATGCGCACTCCCTACTCGCACAT-GGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAATC-GGGTCATC-CTCGGCTT
* *
9002899 ATGCACACTCCCTATTCGCACATAATCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCCTCGGCTT
9002942 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
9002966 GCCGAGTCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 56 0.97
44 1 0.02
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCGGGTCATCCTCGGCTT
Found at i:9029979 original size:67 final size:68
Alignment explanation
Indices: 9029875--9030050 Score: 207
Period size: 67 Copynumber: 2.6 Consensus size: 68
9029865 GCTCAGCGAA
* * * * * *
9029875 AACCTTTTACACTAGTTTTTCACTG-GCTAAACTAAAACCCAAAGTCGTTTTTCAAAGGCTTAAC
1 AACCTTTCACAATGGTTTTTCACTGAGCTCAACCAAAACCCAAAGTCGTTTTTCAAAGGCTCAAC
*
9029939 CAT
66 CAC
* *
9029942 AACCTTTCACAATGGTTTTTCA-TGAGCTCAACCAAAACCCAATGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCACTGAGCTCAACCAAAACCCAAAGTCGTTTTTCAAAGGCTCAAC
9030006 CAC
66 CAC
* * *
9030009 AACC-TACAACAATGGTTTTT-ACCGAGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCACTGAGCTCAACCAAAACCCAA
9030051 CAACAAACTT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
66 5 0.05
67 89 0.95
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (68 bp):
AACCTTTCACAATGGTTTTTCACTGAGCTCAACCAAAACCCAAAGTCGTTTTTCAAAGGCTCAAC
CAC
Found at i:9032577 original size:23 final size:23
Alignment explanation
Indices: 9032551--9032608 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 23
9032541 TCATTAGTCT
* *
9032551 TCAAGCATTATTCTCAATTATCA
1 TCAAGCATTATTATCAATCATCA
9032574 TCAAG---TATTATCAATCATCA
1 TCAAGCATTATTATCAATCATCA
9032594 TCAAGCATTCATTAT
1 TCAAGCATT-ATTAT
9032609 TTATTCTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (23 bp):
TCAAGCATTATTATCAATCATCA
Found at i:9049161 original size:30 final size:28
Alignment explanation
Indices: 9049127--9049186 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
9049117 TTTTTGAAAT
* *
9049127 TTACACTTTTGTCCCCATAAAAGTGAAAAA
1 TTACA-TTTT-TCCCCAAAAAACTGAAAAA
*
9049157 TTACATTTTTGCCCAAAAAACTGAAAAA
1 TTACATTTTTCCCCAAAAAACTGAAAAA
9049185 TT
1 TT
9049187 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 18 0.67
29 4 0.15
30 5 0.19
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (28 bp):
TTACATTTTTCCCCAAAAAACTGAAAAA
Found at i:9050456 original size:17 final size:16
Alignment explanation
Indices: 9050434--9050485 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 16
9050424 ACGATTAAAA
9050434 TATTTCATCTAAATAT
1 TATTTCATCTAAATAT
9050450 GTATTTCATAACATAAATAT
1 -TATTTCAT--C-TAAATAT
*
9050470 TCATTTCATTTAAATA
1 T-ATTTCATCTAAATA
9050486 ATCAATATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 14 0.47
19 2 0.07
20 14 0.47
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (16 bp):
TATTTCATCTAAATAT
Found at i:9051816 original size:27 final size:27
Alignment explanation
Indices: 9051773--9051832 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
9051763 TCTCCCTAAC
9051773 TTCTTTCTATTGGGCCATACCCA-TTT
1 TTCTTTCTATTGGGCCATACCCACTTT
* *
9051799 TTCTTTCTTGTTGGGCCATGCCCACTTT
1 TTCTTTC-TATTGGGCCATACCCACTTT
9051827 TTCTTT
1 TTCTTT
9051833 TCTTTCCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.23
27 14 0.47
28 9 0.30
ACGTcount: A:0.10, C:0.27, G:0.13, T:0.50
Consensus pattern (27 bp):
TTCTTTCTATTGGGCCATACCCACTTT
Found at i:9051835 original size:5 final size:5
Alignment explanation
Indices: 9051825--9051871 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
9051815 CATGCCCACT
* * *
9051825 TTTTC TTTTC TTTCC TTTTA TTTTA TTTTC TTTTC -TTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
9051872 TTTCTTTCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
4 8 0.22
5 29 0.78
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:9052075 original size:34 final size:34
Alignment explanation
Indices: 9052036--9052113 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
9052026 TATTGACTTC
* *
9052036 AAAATCAGTAAC-TAAGCTGCTCTATT-TCTCCTAA
1 AAAATCAGCAACTTAA-CTGCACTATTCTC-CCTAA
* *
9052070 AAAATCAGCAGCTTAACTGCACTATTCTCCCTCA
1 AAAATCAGCAACTTAACTGCACTATTCTCCCTAA
9052104 AAAATCAGCA
1 AAAATCAGCA
9052114 GTCAAAGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (34 bp):
AAAATCAGCAACTTAACTGCACTATTCTCCCTAA
Found at i:9052179 original size:35 final size:35
Alignment explanation
Indices: 9052139--9052236 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 35
9052129 ATTAACAACC
9052139 AAACCACACCTTTCAGCCTTCAAAATCAACAACT-A
1 AAACCACACCTTTCAGCCTTCAAAATCAAC-ACTAA
* * * *
9052174 AAACCATACCATTCAGCCTTCAAAATCAGCAGTAA
1 AAACCACACCTTTCAGCCTTCAAAATCAACACTAA
** * *
9052209 AAATTACACTTTTCAACCTTCAAAATCA
1 AAACCACACCTTTCAGCCTTCAAAATCA
9052237 GCAGCAAAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 2 0.04
35 50 0.96
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.23
Consensus pattern (35 bp):
AAACCACACCTTTCAGCCTTCAAAATCAACACTAA
Found at i:9055275 original size:67 final size:67
Alignment explanation
Indices: 9055148--9055309 Score: 209
Period size: 67 Copynumber: 2.4 Consensus size: 67
9055138 AGCTTTACAA
* * * * * * *
9055148 TGGCTTTT-ATAAGGCTCAGCCAAAACCTTTTACACTAGTTTTTCACGGGCTAAACTAAAACCTA
1 TGGCTTTTCA-AAGGCTCAACCACAACCTTTCACAATAGTTTTTCACGAGCTAAACCAAAACCCA
9055212 AAG
65 AAG
* * * *
9055215 TGGTTTTTCAAAGGCTCAACTACAACCTTTCACAATGGTTTTTCACGAGCTTAACCAAAACCCAA
1 TGGCTTTTCAAAGGCTCAACCACAACCTTTCACAATAGTTTTTCACGAGCTAAACCAAAACCCAA
9055280 AG
66 AG
9055282 TGGCTTTTCAAAGGCTCAACCACAACCT
1 TGGCTTTTCAAAGGCTCAACCACAACCT
9055310 ACAATAATGG
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
67 80 0.99
68 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (67 bp):
TGGCTTTTCAAAGGCTCAACCACAACCTTTCACAATAGTTTTTCACGAGCTAAACCAAAACCCAA
AG
Found at i:9055303 original size:32 final size:32
Alignment explanation
Indices: 9055185--9055308 Score: 90
Period size: 32 Copynumber: 3.8 Consensus size: 32
9055175 TTTTACACTA
** * * *
9055185 GTTTTTCACGGGCTAAACTAAAACCTAAAGTG
1 GTTTTTCAAAGGCTCAACCAAAACCCAAAGTG
* *
9055217 GTTTTTCAAAGGCTCAACTACAACCTTTCACAA-TG
1 GTTTTTCAAAGGCTCAACCAAAACC---CA-AAGTG
* *
9055252 GTTTTTC-ACGAGCTTAACCAAAACCCAAAGTG
1 GTTTTTCAAAG-GCTCAACCAAAACCCAAAGTG
* *
9055284 GCTTTTCAAAGGCTCAACCACAACC
1 GTTTTTCAAAGGCTCAACCAAAACC
9055309 TACAATAATG
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
31 2 0.03
32 43 0.60
33 2 0.03
34 2 0.03
35 21 0.29
36 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (32 bp):
GTTTTTCAAAGGCTCAACCAAAACCCAAAGTG
Found at i:9056192 original size:80 final size:79
Alignment explanation
Indices: 9056100--9056258 Score: 291
Period size: 80 Copynumber: 2.0 Consensus size: 79
9056090 GCTATATCAA
*
9056100 AAACATATAGAGTCAACATTTTCTTTCTCTTATTTTTTATGATGACAAAATGCTCCTAGATTAAA
1 AAACATATAGAGTCAACATTCTCTTTCTCTTATTTTTTATGATGACAAAATGCTCCTAGATTAAA
9056165 AGTGTAATGTCTAT
66 AGTGTAATGTCTAT
*
9056179 NAAACATATAGAGTCAACATTCTCTTTTTCTTATTTTTTATGATGACAAAATGCTCCTAGATTAA
1 -AAACATATAGAGTCAACATTCTCTTTCTCTTATTTTTTATGATGACAAAATGCTCCTAGATTAA
9056244 AAGTGTAATGTCTAT
65 AAGTGTAATGTCTAT
9056259 GTTCAATATG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (79 bp):
AAACATATAGAGTCAACATTCTCTTTCTCTTATTTTTTATGATGACAAAATGCTCCTAGATTAAA
AGTGTAATGTCTAT
Found at i:9058770 original size:33 final size:35
Alignment explanation
Indices: 9058733--9058807 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 35
9058723 TCATGGAACA
*
9058733 TCTCCAAACAT-AGGGCATATCATTATCCTTAA-G
1 TCTCCAAACATGAGGGCATATCATCATCCTTAATG
* * *
9058766 TCTCC-AATATGAGGGTATATCATCATCTTTAATG
1 TCTCCAAACATGAGGGCATATCATCATCCTTAATG
9058800 TCTCCAAA
1 TCTCCAAA
9058808 TGTCAGCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 4 0.11
33 23 0.66
34 6 0.17
35 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (35 bp):
TCTCCAAACATGAGGGCATATCATCATCCTTAATG
Found at i:9067158 original size:37 final size:37
Alignment explanation
Indices: 9067111--9067229 Score: 175
Period size: 37 Copynumber: 3.2 Consensus size: 37
9067101 AATGCAATAT
*
9067111 CATCATCATGTGTGCACTCCCTCCTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* * *
9067148 CATCATCATGTGTGCACTCCCTACTCGTACACTTTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* **
9067185 CACCATCATGTGTGCACTCCCTACTTACACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
9067222 CATCATCA
1 CATCATCA
9067230 CACAACATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.24, C:0.37, G:0.09, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:9069391 original size:100 final size:99
Alignment explanation
Indices: 9069218--9069417 Score: 337
Period size: 100 Copynumber: 2.0 Consensus size: 99
9069208 TTAAAGTTCC
9069218 TTTCCAAGTCTAATTTTGATTACTAATCATTTCTATATTTCCAATGTCATAGCTAATTTGCTCGT
1 TTTCCAAGTCTAATTTTGATTACTAATCATTTCTATATTTCCAATGTCATAGCTAATTTGCTCGT
* * *
9069283 CATCAATCACTTGCAACATATCTAGCTTGATATT
66 CATCAATCACCTACAACATATCTAACTTGATATT
* *
9069317 NTTTCCAAGTCTCATTTTGATTACTAATCATTTCTATATTTCCAATGTCATAGCTATTTTGCTCG
1 -TTTCCAAGTCTAATTTTGATTACTAATCATTTCTATATTTCCAATGTCATAGCTAATTTGCTCG
*
9069382 TCATCAATCACCTACAAGATATCTAACTTGATATT
65 TCATCAATCACCTACAACATATCTAACTTGATATT
9069417 T
1 T
9069418 CTCAAATTTA
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 1 0.01
100 93 0.99
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (99 bp):
TTTCCAAGTCTAATTTTGATTACTAATCATTTCTATATTTCCAATGTCATAGCTAATTTGCTCGT
CATCAATCACCTACAACATATCTAACTTGATATT
Found at i:9073998 original size:16 final size:17
Alignment explanation
Indices: 9073977--9074012 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9073967 TATTTTATTT
*
9073977 TTTCTAT-TGGAATATA
1 TTTCTATATAGAATATA
9073993 TTTCTATATAGAATATA
1 TTTCTATATAGAATATA
9074010 TTT
1 TTT
9074013 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (17 bp):
TTTCTATATAGAATATA
Found at i:9074618 original size:37 final size:37
Alignment explanation
Indices: 9074567--9074685 Score: 177
Period size: 37 Copynumber: 3.2 Consensus size: 37
9074557 AATGCAATAT
* *
9074567 CATCATCATTTGTGCACTCCCTCCTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* *
9074604 CATCATCATGTGTGCATTCCCTACTCGCACAC-TCTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
*
9074641 CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
9074678 CATCATCA
1 CATCATCA
9074686 CACAACATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
36 2 0.03
37 69 0.95
38 2 0.03
ACGTcount: A:0.24, C:0.38, G:0.08, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:9074701 original size:20 final size:21
Alignment explanation
Indices: 9074678--9074721 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
9074668 CACACTTCAA
* *
9074678 CATCATCACACAACAT-TATT
1 CATCAACACAAAACATATATT
9074698 CATCAACACAAAACATATATT
1 CATCAACACAAAACATATATT
9074719 CAT
1 CAT
9074722 ATATATACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (21 bp):
CATCAACACAAAACATATATT
Found at i:9081847 original size:38 final size:39
Alignment explanation
Indices: 9081748--9081850 Score: 122
Period size: 38 Copynumber: 2.6 Consensus size: 39
9081738 ACCCTGCTCA
*
9081748 TGTACATCCCCCCACATCGTGCAC-ATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACAATAG-CGG-ACCATAG
* * *
9081788 TGTGCATGCCCCCACATCGTGCACAATTAG-TG-CCATAG
1 TGTACATCCCCCCACATCGTGCACAA-TAGCGGACCATAG
9081826 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
9081851 CGGGCACTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
38 28 0.51
40 23 0.42
41 1 0.02
42 3 0.05
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.20
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACAATAGCGGACCATAG
Found at i:9086207 original size:27 final size:29
Alignment explanation
Indices: 9086162--9086215 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
9086152 ACAAGTGCTA
* *
9086162 GGGCGAAAAATTTACTGATTTT-CCCTCG
1 GGGCGAAAAAATGACTGATTTTGCCCTCG
9086190 GGGCGAAAAAATGA-TGATTTTGCCCT
1 GGGCGAAAAAATGACTGATTTTGCCCT
9086216 TCTACTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (29 bp):
GGGCGAAAAAATGACTGATTTTGCCCTCG
Found at i:9089279 original size:74 final size:72
Alignment explanation
Indices: 9089153--9089429 Score: 277
Period size: 74 Copynumber: 3.8 Consensus size: 72
9089143 AATTTTCAAA
* * * *
9089153 CAGTGTGCTCTTTGTTGACTAATATACTTCATAGTCGACTAAGTCTTCTCTGTCTTGTAATTGAA
1 CAGTGAGCTCTTAGTTGACTAATATACTTCTTAGTCGACTAAGTCCTCTCTGTCTTGTAATTGAA
*
9089218 TTCTCTAG
66 TT-TCTGG
* *
9089226 CAGTGAGCTCTTAGTTGACTAACTATGCTTCTTAGTCGATTAAGTCCTCTCTGTCTTG-AATTTG
1 CAGTGAGCTCTTAGTTGACTAA-TATACTTCTTAGTCGACTAAGTCCTCTCTGTCTTGTAA-TT-
* *
9089290 GAAATTATGG
63 GAATTTCTGG
* * * ** * * *
9089300 CAGTAAGCTCCTAGTTGACTAATCATACTTCTTAGTTGTTTAAGTTCTCTTTGTCTTGTAACTGA
1 CAGTGAGCTCTTAGTTGACTAAT-ATACTTCTTAGTCGACTAAGTCCTCTCTGTCTTGTAATTGA
9089365 GATTTCTGG
65 -ATTTCTGG
* * * * * *
9089374 CAGTGTGCTCTTAGTTGACTAACCATGCTTCTTGGTCGACTAAGTCTTCTTTGTCT
1 CAGTGAGCTCTTAGTTGACTAA-TATACTTCTTAGTCGACTAAGTCCTCTCTGTCT
9089430 CACAATCTGT
Statistics
Matches: 167, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
73 25 0.15
74 136 0.81
75 6 0.04
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (72 bp):
CAGTGAGCTCTTAGTTGACTAATATACTTCTTAGTCGACTAAGTCCTCTCTGTCTTGTAATTGAA
TTTCTGG
Found at i:9097002 original size:14 final size:13
Alignment explanation
Indices: 9096983--9097023 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
9096973 CAATCTTCAA
*
9096983 ACAATCAGTTAAGC
1 ACAATCA-TAAAGC
9096997 ACAATCATAAAGC
1 ACAATCATAAAGC
*
9097010 ATAATCATAAAGC
1 ACAATCATAAAGC
9097023 A
1 A
9097024 TATTTCAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.51, C:0.20, G:0.10, T:0.20
Consensus pattern (13 bp):
ACAATCATAAAGC
Found at i:9097015 original size:13 final size:13
Alignment explanation
Indices: 9096993--9097025 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9096983 ACAATCAGTT
*
9096993 AAGCACAATCATA
1 AAGCATAATCATA
9097006 AAGCATAATCATA
1 AAGCATAATCATA
9097019 AAGCATA
1 AAGCATA
9097026 TTTCAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (13 bp):
AAGCATAATCATA
Found at i:9101292 original size:74 final size:72
Alignment explanation
Indices: 9101142--9101411 Score: 278
Period size: 74 Copynumber: 3.7 Consensus size: 72
9101132 CAGACAGTGT
* * * *
9101142 GCTCTTAGTTGACTAA-TATACTTCTTAGTCGATTATGTTTTCTTTGTCTT-ATAATTGAATTCT
1 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTGA-AATTGAATT-T
*
9101205 CTGACAGTGA
64 CTGGCAGT-A
* * * *
9101215 GCTCTTAGTTGACTAACTATGCTTCTTAGTCAATTAAGTCTTCTCTGTCTTGAATTTGGAATTTC
1 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTGAAATT-GAATTTC
*
9101280 TGGTAGTAA
65 TGGCAGT-A
* * * *
9101289 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGT-TCTCTTTGTCTTGTAACTAAGATTT
1 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCT-TCTCTGTCTTGAAATTGA-ATTT
*
9101353 TTGGCATGT-
64 CTGGCA-GTA
* * *
9101362 GCTCTTAGTTGACTAACCATGCTTCTTGGTCGACTAAGTCTTCTCTGTCT
1 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCT
9101412 CACAATCTGC
Statistics
Matches: 167, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
73 62 0.37
74 97 0.58
75 8 0.05
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (72 bp):
GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTGAAATTGAATTTCT
GGCAGTA
Found at i:9101373 original size:147 final size:147
Alignment explanation
Indices: 9101142--9101411 Score: 391
Period size: 147 Copynumber: 1.8 Consensus size: 147
9101132 CAGACAGTGT
* * * * *
9101142 GCTCTTAGTTGACTAATATACTTCTTAGTCGATTATGTTTTCTTTGTCTTATAATTGAATTCTCT
1 GCTCTTAGTTGACTAACATACTTCTTAGTCGATTAAGTTCTCTTTGTCTTATAACTAAATTCTCT
* *
9101207 GACAGTGAGCTCTTAGTTGACTAACTATGCTTCTTAGTCAATTAAGTCTTCTCTGTCTTGAATTT
66 GACAGTGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCAACTAAGTCTTCTCTGTCTTGAATTT
9101272 GGAATTTCTGGTAGTAA
131 GGAATTTCTGGTAGTAA
*
9101289 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTTCTCTTTGTCTTGTAACTAAGATT-T
1 GCTCTTAGTTGACTAA-CATACTTCTTAGTCGATTAAGTTCTCTTTGTCTTATAACTAA-ATTCT
* * * * *
9101353 TTGGCA-TGTGCTCTTAGTTGACTAACCATGCTTCTTGGTCGACTAAGTCTTCTCTGTCT
64 CTGACAGTGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCAACTAAGTCTTCTCTGTCT
9101412 CACAATCTGC
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
147 64 0.59
148 41 0.38
149 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (147 bp):
GCTCTTAGTTGACTAACATACTTCTTAGTCGATTAAGTTCTCTTTGTCTTATAACTAAATTCTCT
GACAGTGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCAACTAAGTCTTCTCTGTCTTGAATTT
GGAATTTCTGGTAGTAA
Found at i:9102266 original size:19 final size:21
Alignment explanation
Indices: 9102240--9102285 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
9102230 CAAAAATCGA
*
9102240 TCTCTTTT-CTTTTTCTTTCT
1 TCTCTTTTCCCTTTTCTTTCT
9102260 T-TCTTTTCCCTTTTCTTTCT
1 TCTCTTTTCCCTTTTCTTTCT
9102280 TCTCTT
1 TCTCTT
9102286 GATTCTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
TCTCTTTTCCCTTTTCTTTCT
Found at i:9103268 original size:39 final size:38
Alignment explanation
Indices: 9103169--9103306 Score: 156
Period size: 39 Copynumber: 3.7 Consensus size: 38
9103159 GTGCCGGTAG
* *
9103169 TGTGCGGTGTGGGAGAGCACACGCCGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATG-AGATGATATATGCCA
9103208 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGA-GATGATATATGCCA
* * * *
9103247 TGTGTGGTGTGGGAGTGCACATGAG--GATAT-TACTA
1 TGTGCGGTGTGGGAGAGCACATGAGATGATATATGCCA
* * *
9103282 TGTGTGATGTGGGAGTGCACATGAG
1 TGTGCGGTGTGGGAGAGCACATGAG
9103307 TTGAGTTGAG
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
35 27 0.30
36 5 0.05
38 1 0.01
39 58 0.64
ACGTcount: A:0.23, C:0.13, G:0.38, T:0.26
Consensus pattern (38 bp):
TGTGCGGTGTGGGAGAGCACATGAGATGATATATGCCA
Found at i:9141393 original size:19 final size:20
Alignment explanation
Indices: 9141366--9141411 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
9141356 AGGAGACAAG
*
9141366 ATAAAATTTTTA-AAATAAA
1 ATAATATTTTTATAAATAAA
*
9141385 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATAAATAAA
9141404 ATAATATT
1 ATAATATT
9141412 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATAAATAAA
Found at i:9141860 original size:20 final size:20
Alignment explanation
Indices: 9141815--9141852 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9141805 TTTTGGCCCC
*
9141815 ATTTGACTTATTGGAGTATA
1 ATTTGACTCATTGGAGTATA
9141835 ATTTGACTCATTGGAGTA
1 ATTTGACTCATTGGAGTA
9141853 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTGACTCATTGGAGTATA
Found at i:9141936 original size:27 final size:27
Alignment explanation
Indices: 9141906--9141963 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
9141896 TTGGAGTAAA
* *
9141906 AGGGTAAAGTAGTAATTTTGCCACC-CC
1 AGGGCAAAATAGTAATTTT-CCACCACC
*
9141933 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATAGTAATTTTCCACCACC
9141961 AGG
1 AGG
9141964 ACATTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATAGTAATTTTCCACCACC
Found at i:9146533 original size:35 final size:35
Alignment explanation
Indices: 9146487--9146763 Score: 229
Period size: 35 Copynumber: 7.9 Consensus size: 35
9146477 TCCTTAAGAA
***
9146487 GCCCAATTAACTTAATTGTTTAATTTAATCAATTAG
1 GCCCAA-TAACTTAATTAAATAATTTAATCAATTAG
* * *
9146523 GCCCAATAACTTAAGTAAATAATTTAATTAATTAA
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* * * *
9146558 GCCCAACAATTTAATGAAACAATTTTAATCAAGTT-G
1 GCCCAATAACTTAATTAAATAA-TTTAATCAA-TTAG
* * * *
9146594 GCCTAATGACTTAATTAAACAAATTCAATCAATTAG
1 GCCCAATAACTTAATTAAA-TAATTTAATCAATTAG
** *
9146630 GCCCAATAACTTAATTATTTAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* * *
9146665 GCCCAATGACTTAATTAAACAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* * * * * *
9146700 GCCTAATGATTTAATTAAACAATTTAGTTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATCAATTAG
* *
9146735 G--C-ACAACTTAATTAAACAATTTTAATCAA
1 GCCCAATAACTTAATTAAATAA-TTTAATCAA
9146764 GTCCTTGAGA
Statistics
Matches: 196, Mismatches: 40, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
32 14 0.07
33 7 0.04
35 119 0.61
36 52 0.27
37 4 0.02
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.36
Consensus pattern (35 bp):
GCCCAATAACTTAATTAAATAATTTAATCAATTAG
Found at i:9146632 original size:107 final size:106
Alignment explanation
Indices: 9146508--9146721 Score: 304
Period size: 107 Copynumber: 2.0 Consensus size: 106
9146498 TTAATTGTTT
* *
9146508 AATTTAATCAATTAGGCCCAATAACTTAAGTAAATAATTTAATTAATTAAGCCCAACAATTTAAT
1 AATTCAATCAATTAGGCCCAATAACTTAAGTAAATAATTTAATTAATTAAGCCCAACAACTTAAT
9146573 GAAACAATTTTAATCAAGTT-GGCCTAATGACTTAATTAAACA
66 GAAACAA-TTTAATCAA-TTAGGCCTAATGACTTAATTAAACA
* ** * **
9146615 AATTCAATCAATTAGGCCCAATAACTTAATTATTTAATTTAATTAATTAGGCCCAATGACTTAAT
1 AATTCAATCAATTAGGCCCAATAACTTAAGTAAATAATTTAATTAATTAAGCCCAACAACTTAAT
* * *
9146680 TAAACAATTTAATTAATTAGGCCTAATGATTTAATTAAACA
66 GAAACAATTTAATCAATTAGGCCTAATGACTTAATTAAACA
9146721 A
1 A
9146722 TTTAGTTAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 2 0.02
106 30 0.32
107 63 0.66
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (106 bp):
AATTCAATCAATTAGGCCCAATAACTTAAGTAAATAATTTAATTAATTAAGCCCAACAACTTAAT
GAAACAATTTAATCAATTAGGCCTAATGACTTAATTAAACA
Found at i:9149976 original size:37 final size:37
Alignment explanation
Indices: 9149935--9150069 Score: 112
Period size: 37 Copynumber: 3.5 Consensus size: 37
9149925 TGATTGCCTA
9149935 TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
1 TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
* *
9149972 TGTGCGCGATGTTGGGGTGCA-CACGATGATGATG-ATATATGCCA
1 TGTGCGCGATG-TGGGG-GGAGCAC-ATGATG--GCAT-TA-G--T
** *
9150016 TGTGCATGATGTGGGGGGAGCACATGATGGCAGTAGT
1 TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
**
9150053 TGTGCGTAATGTGGGGG
1 TGTGCGCGATGTGGGGG
9150070 TGTACACGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
37 26 0.33
38 8 0.10
39 9 0.12
40 5 0.06
41 4 0.05
42 9 0.12
43 8 0.10
44 9 0.12
ACGTcount: A:0.20, C:0.13, G:0.41, T:0.26
Consensus pattern (37 bp):
TGTGCGCGATGTGGGGGGAGCACATGATGGCATTAGT
Found at i:9156284 original size:37 final size:37
Alignment explanation
Indices: 9156177--9156286 Score: 103
Period size: 37 Copynumber: 3.0 Consensus size: 37
9156167 CCTCAGCTCT
* **** * * *
9156177 TGTGCACTCCCTACACGCACAAGAGAATACCACCATA
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
** *
9156214 TGTGCACTCCCTACTCGCACATTTCAATGTCATCATG
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
* *
9156251 TGTGCACTCCCTACTCGCATACCTCATTATCATCAT
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCAT
9156287 ACAACATTAT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.12, T:0.27
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
Found at i:9164590 original size:43 final size:43
Alignment explanation
Indices: 9164542--9164660 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
9164532 TCACCAGCTC
** * *
9164542 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
9164585 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
9164628 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
9164661 ATATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:9165481 original size:19 final size:20
Alignment explanation
Indices: 9165447--9165484 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
9165437 GAAGAAGACC
9165447 AGTTGCTGGAAAATTCAAGA
1 AGTTGCTGGAAAATTCAAGA
9165467 AGTTGCTGG-AAATTCAAG
1 AGTTGCTGGAAAATTCAAG
9165485 GTATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
AGTTGCTGGAAAATTCAAGA
Found at i:9167135 original size:39 final size:39
Alignment explanation
Indices: 9167063--9167173 Score: 129
Period size: 39 Copynumber: 2.9 Consensus size: 39
9167053 GCACGCGCTG
* * * * *
9167063 ATGATAAATGCCATGTGCGGTGTTGAAGAGCACATGATA
1 ATGATATATGCCATGTGCGGTGTGGGAGTGCACATGAGA
* *
9167102 ATGATATATGCCATGTGTGGTGTGGGAGTGCACATGAGG
1 ATGATATATGCCATGTGCGGTGTGGGAGTGCACATGAGA
*
9167141 AT-AT-TA-GCTATGTGCGGTGTGGGAGTGCACATG
1 ATGATATATGCCATGTGCGGTGTGGGAGTGCACATG
9167174 TGCTAAGTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 25 0.40
37 2 0.03
38 2 0.03
39 34 0.54
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (39 bp):
ATGATATATGCCATGTGCGGTGTGGGAGTGCACATGAGA
Found at i:9172523 original size:25 final size:25
Alignment explanation
Indices: 9172494--9172553 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
9172484 GTGGTCGCAA
*
9172494 CCACGTATATCAACTCA-TGGCCTGG
1 CCACGTATAACAACT-AGTGGCCTGG
*
9172519 CCACGTATAACAACTAGTGGCCTTG
1 CCACGTATAACAACTAGTGGCCTGG
*
9172544 CCACATATAA
1 CCACGTATAA
9172554 TCACAAACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (25 bp):
CCACGTATAACAACTAGTGGCCTGG
Found at i:9186242 original size:60 final size:60
Alignment explanation
Indices: 9186149--9186267 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
9186139 AAAGTTTTTT
* **
9186149 GCTGCAGCAAAATTGTAACCCAGAAACAGAAAGTTTCTCACTGTAGCGAGAATGAATTTC
1 GCTGCAACAAAATTGTAACCCAGAAACAGAAAGTTTCTCACTACAGCGAGAATGAATTTC
* * *
9186209 GCTGCAACAAAATTGTAACTCAGAAACAGAAAGTTTCTCGCTACAGCGATAATGAATTT
1 GCTGCAACAAAATTGTAACCCAGAAACAGAAAGTTTCTCACTACAGCGAGAATGAATTT
9186268 TGTTGCAGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (60 bp):
GCTGCAACAAAATTGTAACCCAGAAACAGAAAGTTTCTCACTACAGCGAGAATGAATTTC
Found at i:9186720 original size:43 final size:43
Alignment explanation
Indices: 9186673--9186762 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
9186663 ACATGGTTGG
*
9186673 GTCATCATCAGG-TTACGCGTACTCCCTACTTGCACATAACCAA
1 GTCATCATC-GGCTTACGCGTACTCCCTACTCGCACATAACCAA
* * *
9186716 GTCATCCTCGGCTTATGCGTACTCCCTACTCGCACATAACCGA
1 GTCATCATCGGCTTACGCGTACTCCCTACTCGCACATAACCAA
9186759 GTCA
1 GTCA
9186763 ATGTCATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 2 0.05
43 40 0.95
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (43 bp):
GTCATCATCGGCTTACGCGTACTCCCTACTCGCACATAACCAA
Found at i:9188950 original size:21 final size:21
Alignment explanation
Indices: 9188924--9188980 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
9188914 TTCTACTTCA
9188924 AATGTATCGATACATTTGGAC
1 AATGTATCGATACATTTGGAC
9188945 AATGTATCGATACATTTGGAC
1 AATGTATCGATACATTTGGAC
9188966 AATGTATCGATACAT
1 AATGTATCGATACAT
9188981 GTTCATCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTTGGAC
Found at i:9202198 original size:2 final size:2
Alignment explanation
Indices: 9202191--9202238 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
9202181 AGAATTCATG
* *
9202191 TA TA TA TA T- TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9202232 TA TA TA T
1 TA TA TA T
9202239 GNNNNNNNNN
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9202322 original size:2 final size:2
Alignment explanation
Indices: 9202315--9202359 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9202305 NNNNNNNNNN
9202315 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9202357 TA T
1 TA T
9202360 GGACATTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9202500 original size:36 final size:33
Alignment explanation
Indices: 9202453--9202618 Score: 181
Period size: 36 Copynumber: 4.7 Consensus size: 33
9202443 AACTCAGCTC
*
9202453 ATGTGCACTCCCACACCGCACATAGCTAATATCCTT
1 ATGTGCACTCCCACACCGCACATGGC-AATAT-C-T
9202489 ATGTGCACTCCCACACCGCACATGGCAAATATC-
1 ATGTGCACTCCCACACCGCACATGGC-AATATCT
*
9202522 ATGTGCACTCCCACACCGCACATGGCATATATTAT
1 ATGTGCACTCCCACACCGCACATGGCA-ATA-TCT
9202557 CATGTGCACTCCCACACCGCACATGGCACATATCAT
1 -ATGTGCACTCCCACACCGCACATGGCA-ATATC-T
*
9202593 CATCGTGTGCACTCCTACACCGCACA
1 -A---TGTGCACTCCCACACCGCACA
9202619 CCACCATCAC
Statistics
Matches: 116, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
32 1 0.01
33 29 0.25
34 1 0.01
35 2 0.02
36 63 0.54
39 20 0.17
ACGTcount: A:0.28, C:0.37, G:0.14, T:0.22
Consensus pattern (33 bp):
ATGTGCACTCCCACACCGCACATGGCAATATCT
Found at i:9202531 original size:33 final size:33
Alignment explanation
Indices: 9202451--9202592 Score: 203
Period size: 36 Copynumber: 4.1 Consensus size: 33
9202441 TCAACTCAGC
* *
9202451 TCATGTGCACTCCCACACCGCACATAGCTAATA
1 TCATGTGCACTCCCACACCGCACATGGCAAATA
9202484 TCCTTATGTGCACTCCCACACCGCACATGGCAAATA
1 T-C--ATGTGCACTCCCACACCGCACATGGCAAATA
9202520 TCATGTGCACTCCCACACCGCACATGGCATATATTA
1 TCATGTGCACTCCCACACCGCACATGGCA-A-A-TA
*
9202556 TCATGTGCACTCCCACACCGCACATGGCACATA
1 TCATGTGCACTCCCACACCGCACATGGCAAATA
9202589 TCAT
1 TCAT
9202593 CATCGTGTGC
Statistics
Matches: 100, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
33 34 0.34
34 3 0.03
35 2 0.02
36 61 0.61
ACGTcount: A:0.28, C:0.36, G:0.13, T:0.23
Consensus pattern (33 bp):
TCATGTGCACTCCCACACCGCACATGGCAAATA
Found at i:9202562 original size:69 final size:69
Alignment explanation
Indices: 9202451--9202592 Score: 223
Period size: 69 Copynumber: 2.1 Consensus size: 69
9202441 TCAACTCAGC
* *
9202451 TCATGTGCACTCCCACACCGCACATAGCTAATATCCTTATGTGCACTCCCACACCGCACATGGCA
1 TCATGTGCACTCCCACACCGCACATAGCTAATATCATCATGTGCACTCCCACACCGCACATGGCA
9202516 AATA
66 AATA
* *
9202520 TCATGTGCACTCCCACACCGCACATGGC-ATATATTATCATGTGCACTCCCACACCGCACATGGC
1 TCATGTGCACTCCCACACCGCACATAGCTA-ATATCATCATGTGCACTCCCACACCGCACATGGC
*
9202584 ACATA
65 AAATA
9202589 TCAT
1 TCAT
9202593 CATCGTGTGC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
68 1 0.01
69 66 0.99
ACGTcount: A:0.28, C:0.36, G:0.13, T:0.23
Consensus pattern (69 bp):
TCATGTGCACTCCCACACCGCACATAGCTAATATCATCATGTGCACTCCCACACCGCACATGGCA
AATA
Found at i:9202633 original size:39 final size:38
Alignment explanation
Indices: 9202523--9202634 Score: 97
Period size: 39 Copynumber: 2.9 Consensus size: 38
9202513 GCAAATATCA
* * * *
9202523 TGTGCACTCCCACACCGCACATG--GCATA-TATTATCA
1 TGTGCACTCCCACACCGCACA-GCCACATACCATCATCG
* *
9202559 TGTGCACTCCCACACCGCACATGGCACATATCATCATCG
1 TGTGCACTCCCACACCGCACA-GCCACATACCATCATCG
*
9202598 TGTGCACTCCTACACCGCACA-CCACCATCACCATCAT
1 TGTGCACTCCCACACCGCACAGCCA-CAT-ACCATCAT
9202635 TGTCACAACC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
36 23 0.36
37 2 0.03
38 7 0.11
39 32 0.50
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.21
Consensus pattern (38 bp):
TGTGCACTCCCACACCGCACAGCCACATACCATCATCG
Found at i:9203395 original size:39 final size:39
Alignment explanation
Indices: 9203304--9203455 Score: 184
Period size: 39 Copynumber: 4.0 Consensus size: 39
9203294 TCAACTCAGC
* *
9203304 TCATGTGCACTCCCACACCGCACATAGCTAATATC--C-
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
*
9203340 TCATGTGCACTCCCACACCGTACATGGCAAATATCATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
* * * *
9203379 TCATGTGCTCTTCCACACCACACATGGCATATATCATCA
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
* * * *
9203418 TCATGTGCTCTCCCACATCGCATATGGCATATATCATC
1 TCATGTGCACTCCCACACCGCACATGGCAAATATCATC
9203456 GACGTGTTCT
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
36 32 0.32
38 1 0.01
39 68 0.67
ACGTcount: A:0.28, C:0.34, G:0.12, T:0.26
Consensus pattern (39 bp):
TCATGTGCACTCCCACACCGCACATGGCAAATATCATCA
Found at i:9204384 original size:24 final size:25
Alignment explanation
Indices: 9204337--9204386 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
9204327 ACAAGGAGGT
*
9204337 AGGAGAAGGAAAAGTAAGAAAAGAA
1 AGGAGAAGGAAAAGTAAAAAAAGAA
9204362 AGGA-AAGGAAAAG-AAAAACAAGAA
1 AGGAGAAGGAAAAGTAAAAA-AAGAA
9204386 A
1 A
9204387 AAAAAACTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.68, C:0.02, G:0.28, T:0.02
Consensus pattern (25 bp):
AGGAGAAGGAAAAGTAAAAAAAGAA
Found at i:9210057 original size:38 final size:38
Alignment explanation
Indices: 9209995--9210070 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
9209985 ACACTCAGCT
* *
9209995 CATGTGCACTCCCTACACATACATTTCAATATCATCAC
1 CATGTGCACTCCCTACACACACATTTCAACATCATCAC
***
9210033 CATGTGCACTCCCTACTTGCACATTTCAACATCATCAC
1 CATGTGCACTCCCTACACACACATTTCAACATCATCAC
9210071 ATGCACTCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.29, C:0.36, G:0.07, T:0.29
Consensus pattern (38 bp):
CATGTGCACTCCCTACACACACATTTCAACATCATCAC
Found at i:9212643 original size:39 final size:39
Alignment explanation
Indices: 9212590--9212768 Score: 186
Period size: 39 Copynumber: 4.6 Consensus size: 39
9212580 GCTAATATTC
* * * *
9212590 TCATATGCACTCTCACACTACACATGGCAAATATCATCA
1 TCATGTGCTCTCTCACACTGCACATGGCATATATCATCA
* *
9212629 TCATGTGCTCTCTCACACCGCACATGGCATA-ATCACCA
1 TCATGTGCTCTCTCACACTGCACATGGCATATATCATCA
*
9212667 TCATGTGCTCTCCCACA-TCGCACATGGCATATATCATCA
1 TCATGTGCTCTCTCACACT-GCACATGGCATATATCATCA
* * *
9212706 TCATGTGCTCT-TCCACACTGTACATGACATATATCATTGA
1 TCATGTGCTCTCT-CACACTGCACATGGCATATATCA-TCA
* * *
9212746 T-GTGTGCTCTCCCACACCGCACA
1 TCATGTGCTCTCTCACACTGCACA
9212769 CTATCGGCAC
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 34 0.29
39 79 0.68
40 4 0.03
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (39 bp):
TCATGTGCTCTCTCACACTGCACATGGCATATATCATCA
Found at i:9212702 original size:77 final size:78
Alignment explanation
Indices: 9212610--9212768 Score: 207
Period size: 77 Copynumber: 2.1 Consensus size: 78
9212600 TCTCACACTA
*
9212610 CACATGGCAAATATCATCATCATGTGCTC-TCTCACACCGCACATGGCATA-ATCA-CCATCATG
1 CACATGGCAAATATCATCATCATGTGCTCTTC-CACACCGCACATGACATATATCATCCAT-ATG
*
9212672 TGCTCTCCCACATCG
64 TGCTCTCCCACACCG
* * * ** *
9212687 CACATGGCATATATCATCATCATGTGCTCTTCCACACTGTACATGACATATATCATTGATGTGTG
1 CACATGGCAAATATCATCATCATGTGCTCTTCCACACCGCACATGACATATATCATCCATATGTG
9212752 CTCTCCCACACCG
66 CTCTCCCACACCG
9212765 CACA
1 CACA
9212769 CTATCGGCAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
77 43 0.61
78 26 0.37
79 2 0.03
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (78 bp):
CACATGGCAAATATCATCATCATGTGCTCTTCCACACCGCACATGACATATATCATCCATATGTG
CTCTCCCACACCG
Found at i:9215394 original size:27 final size:27
Alignment explanation
Indices: 9215364--9215418 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9215354 ACGTGAGCCG
9215364 GGAGTGATTATGATGATATTGATGCTT
1 GGAGTGATTATGATGATATTGATGCTT
9215391 GGAGTGATTATGATGATATTGATGCTT
1 GGAGTGATTATGATGATATTGATGCTT
9215418 G
1 G
9215419 TCTATGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.31, T:0.40
Consensus pattern (27 bp):
GGAGTGATTATGATGATATTGATGCTT
Found at i:9230386 original size:14 final size:14
Alignment explanation
Indices: 9230369--9230407 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
9230359 AAAAAAAAAA
9230369 AAGGGAAAAACTTG
1 AAGGGAAAAACTTG
9230383 AAGGGAAAAACTTG
1 AAGGGAAAAACTTG
*
9230397 AAGGGCAAAAC
1 AAGGGAAAAAC
9230408 AATAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.51, C:0.10, G:0.28, T:0.10
Consensus pattern (14 bp):
AAGGGAAAAACTTG
Found at i:9230722 original size:21 final size:20
Alignment explanation
Indices: 9230676--9230723 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
9230666 AGGAGAGAGA
9230676 AAGG-AAAAAAGAATAAAGG
1 AAGGAAAAAAAGAATAAAGG
9230695 AAGGAAAAAAAGGAA-AAAGG
1 AAGGAAAAAAA-GAATAAAGG
9230715 AAGAGAAAA
1 AAG-GAAAA
9230724 GCTCGGAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (20 bp):
AAGGAAAAAAAGAATAAAGG
Found at i:9231909 original size:39 final size:39
Alignment explanation
Indices: 9231857--9232072 Score: 287
Period size: 39 Copynumber: 5.6 Consensus size: 39
9231847 GTGTCGGTAG
* * **
9231857 TGTGCGCTGTGGGAGAGCACA-CACCAATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGA-TGATGATATATGCCA
* *
9231896 TGTGCGGTATGGGAGAGCACATGGTGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
*
9231935 TGTGTGGTGTGGGAGAGCACATGATGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
9231974 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
* * * *
9232013 TGTGCAGTGTGGGAGTGCACATGAGGAT-AT-TA-GCTA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
*
9232049 TGTGCGGTGTGGGAGTGCACATGA
1 TGTGCGGTGTGGGAGAGCACATGA
9232073 GCTGAGTTGA
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
36 26 0.16
37 2 0.01
38 2 0.01
39 131 0.81
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (39 bp):
TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
Found at i:9236025 original size:36 final size:36
Alignment explanation
Indices: 9235985--9236071 Score: 140
Period size: 36 Copynumber: 2.4 Consensus size: 36
9235975 ATCATCAGTG
**
9235985 TGTGCACTCCCACACCGTACACCACCATCA-TCGTCA
1 TGTGCACTCCCACACCACACACCACCATCACT-GTCA
9236021 TGTGCACTCCCACACCACACACCACCATCACTGTCA
1 TGTGCACTCCCACACCACACACCACCATCACTGTCA
9236057 TGTGCACTCCCACAC
1 TGTGCACTCCCACAC
9236072 AGCACACGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
36 47 0.98
37 1 0.02
ACGTcount: A:0.25, C:0.46, G:0.10, T:0.18
Consensus pattern (36 bp):
TGTGCACTCCCACACCACACACCACCATCACTGTCA
Found at i:9240915 original size:22 final size:22
Alignment explanation
Indices: 9240890--9240958 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
9240880 TCCATATTTT
9240890 TTTTTCTTCCTTTCTTTCTTTC
1 TTTTTCTTCCTTTCTTTCTTTC
* *
9240912 TTTTCCTTCATTTCTTT-TTCTC
1 TTTTTCTTCCTTTCTTTCTT-TC
*
9240934 TCTTGCTTC-TCCTTTTTTTCTTTC
1 T-TT--TTCTTCCTTTCTTTCTTTC
9240958 T
1 T
9240959 CTAGCCGCCG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
21 2 0.05
22 18 0.49
23 2 0.05
24 11 0.30
25 4 0.11
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (22 bp):
TTTTTCTTCCTTTCTTTCTTTC
Found at i:9240946 original size:28 final size:28
Alignment explanation
Indices: 9240900--9240956 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9240890 TTTTTCTTCC
* * *
9240900 TTTCTTTCTTTCTTTTCCTTCATTTCTT
1 TTTCTCTCTTGCTTCTCCTTCATTTCTT
**
9240928 TTTCTCTCTTGCTTCTCCTTTTTTTCTT
1 TTTCTCTCTTGCTTCTCCTTCATTTCTT
9240956 T
1 T
9240957 CTCTAGCCGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTCTCTCTTGCTTCTCCTTCATTTCTT
Found at i:9241089 original size:35 final size:35
Alignment explanation
Indices: 9241071--9241138 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
9241061 TCCCACAAAC
*
9241071 CAACGGCACAACCTCTCTTTCCTCTCTCAAAAAAA
1 CAACGGCACAACCTCTCTTTACTCTCTCAAAAAAA
* * * *
9241106 CAGCGGCACAACCTTTCTTTCCTCTTTCAAAAA
1 CAACGGCACAACCTCTCTTTACTCTCTCAAAAA
9241139 TCAGCAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.35, G:0.07, T:0.26
Consensus pattern (35 bp):
CAACGGCACAACCTCTCTTTACTCTCTCAAAAAAA
Found at i:9242180 original size:19 final size:20
Alignment explanation
Indices: 9242158--9242196 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9242148 TTAATATTTT
9242158 AATATTATATTA-TTCAAAA
1 AATATTATATTATTTCAAAA
*
9242177 AATATTATTTTATTTCAAAA
1 AATATTATATTATTTCAAAA
9242197 TTCTCCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATTATATTATTTCAAAA
Found at i:9252800 original size:216 final size:216
Alignment explanation
Indices: 9252419--9252823 Score: 577
Period size: 216 Copynumber: 1.9 Consensus size: 216
9252409 CCAAGGAATT
* *
9252419 TCCTTTAAAATATTTTTAAGTGCTCTTCACCCTCTCTAGCCCTCCTTTTAGGGCTAACAAGAAAG
1 TCCTTTAAAATATTTTTAAGTGCTATTCACCCTCTCTAGCACTCCTTTTAGGGCTAACAAGAAAG
* * *
9252484 AGATTTCAAATTTGTTTAAGTTAAATGATTTAGTAAAGTTATTTGGTTTGGAGAGAAAATAATTA
66 AAATTTCAAATTTGTTTAAGTTAAATGATTTAGTAAAGTTATTTGGTTTAGAGAGAAAAAAATTA
** * * *
9252549 TTGGATTGATTCGTGAAAAAAGAGAATGTGAGAAAGGGTGAAAACTATGTACAAAGGAAGGGTTT
131 TTGGATTGATTCCCGAAAAAAGAAAATGAGAGAAAGGGTGAAAACTATGTAAAAAGGAAGGGTTT
9252614 AAGAAAATTCAAACTGTGTGC
196 AAGAAAATTCAAACTGTGTGC
*
9252635 TCCTTTAAAATATTTTTAAGTGCTATTCA-CCTCCTCT-GACACT-CTTTTTGGGACTAACAAGA
1 TCCTTTAAAATATTTTTAAGTGCTATTCACCCT-CTCTAG-CACTCCTTTTAGGG-CTAACAAGA
* * * *
9252697 AAGAAATTTCAAATTTGTTTGAGTTGAA-GATTTTAGTATAGTTATTTGGTTTAGAGTGAAAAAA
63 AAGAAATTTCAAATTTGTTTAAGTTAAATGA-TTTAGTAAAGTTATTTGGTTTAGAGAGAAAAAA
* *
9252761 ATTATTTGATTGATTCACCG-AAAAAGAAAATGAGAGAAAGGGTGAAAACTGTGTAAAAAGGAA
127 ATTATTGGATTGATTC-CCGAAAAAAGAAAATGAGAGAAAGGGTGAAAACTATGTAAAAAGGAA
9252824 AAATGAAATC
Statistics
Matches: 167, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
215 14 0.08
216 152 0.91
217 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (216 bp):
TCCTTTAAAATATTTTTAAGTGCTATTCACCCTCTCTAGCACTCCTTTTAGGGCTAACAAGAAAG
AAATTTCAAATTTGTTTAAGTTAAATGATTTAGTAAAGTTATTTGGTTTAGAGAGAAAAAAATTA
TTGGATTGATTCCCGAAAAAAGAAAATGAGAGAAAGGGTGAAAACTATGTAAAAAGGAAGGGTTT
AAGAAAATTCAAACTGTGTGC
Found at i:9254692 original size:2 final size:2
Alignment explanation
Indices: 9254681--9254768 Score: 117
Period size: 2 Copynumber: 44.5 Consensus size: 2
9254671 AAGACACAAT
9254681 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
9254722 TA TA TG TG TNA TA TA TA TT TA TA T- TA TA TA TA TT TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9254764 TA TA T
1 TA TA T
9254769 GTGTGTGTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
1 2 0.03
2 74 0.96
3 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9259134 original size:2 final size:2
Alignment explanation
Indices: 9259127--9259168 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
9259117 GGGTCGTGAC
9259127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9259169 TTGTTGACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9259493 original size:2 final size:2
Alignment explanation
Indices: 9259486--9259513 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9259476 TTTAATATTA
9259486 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9259514 TAAGATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9263282 original size:131 final size:131
Alignment explanation
Indices: 9263110--9263357 Score: 374
Period size: 131 Copynumber: 1.9 Consensus size: 131
9263100 TAATAAAATT
* * * *
9263110 ATAAATAAATTTATTATTTTATTATTAGTTCTTTTTGAAAAGTTAATTAATGATTAAGGTAGAGA
1 ATAAATAAATTTATTATTTAATTAGTAATTCTTTTTGAAAAGTTAATCAATGATTAAGGTAGAGA
*
9263175 TAAATTTTAAT-AAAAGTGAATT-TCTATATATAACTTTATGTCTATTTCTTAACATTAGATTCA
66 T-AATTTTAATCAAAAGTGAGTTCT-TATATATAACTTTATGTCTATTTCTTAACATTAGATTCA
9263238 GTC
129 GTC
* * *
9263241 ATAAATAAATTTATTATTTAATTAGTAATTCTTTTTGAAAAGTTAATCAGTGATTAAGTTAGATA
1 ATAAATAAATTTATTATTTAATTAGTAATTCTTTTTGAAAAGTTAATCAATGATTAAGGTAGAGA
**
9263306 TAATTTTTTTCAAAAGTGAGTTCTTATATATAACTTTATGTCTATTTCTTAA
66 TAATTTTAATCAAAAGTGAGTTCTTATATATAACTTTATGTCTATTTCTTAA
9263358 TTTTGTTATT
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
130 7 0.07
131 97 0.92
132 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.47
Consensus pattern (131 bp):
ATAAATAAATTTATTATTTAATTAGTAATTCTTTTTGAAAAGTTAATCAATGATTAAGGTAGAGA
TAATTTTAATCAAAAGTGAGTTCTTATATATAACTTTATGTCTATTTCTTAACATTAGATTCAGT
C
Found at i:9265956 original size:12 final size:12
Alignment explanation
Indices: 9265939--9265976 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
9265929 AATGCCAGGC
*
9265939 GGAGGAGGAGGA
1 GGAGGAGGTGGA
9265951 GGAGGAGGTGGA
1 GGAGGAGGTGGA
*
9265963 GGCGGAGGTGGA
1 GGAGGAGGTGGA
9265975 GG
1 GG
9265977 CATTGGAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.24, C:0.03, G:0.68, T:0.05
Consensus pattern (12 bp):
GGAGGAGGTGGA
Found at i:9268509 original size:2 final size:2
Alignment explanation
Indices: 9268502--9268532 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9268492 TGCAAATTAT
9268502 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9268533 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9268537 original size:2 final size:2
Alignment explanation
Indices: 9268532--9268565 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9268522 TATATATATA
9268532 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T- TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
9268566 ATCATATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:9279026 original size:52 final size:51
Alignment explanation
Indices: 9278878--9279032 Score: 170
Period size: 52 Copynumber: 3.0 Consensus size: 51
9278868 CCATTCATGT
* * * *
9278878 CTTAACACATTTACTTATGTGTATACACATTCATCTAATCATGTTCCATTCATAG
1 CTTAACACATATACTTATGTGTATAAACATTCATCTAATCA---T-AATCCATAG
* * * *
9278933 CTTAACTCATAT--TTGTGTGCATAAACATTGCATCTAGTCATAATCCATAG
1 CTTAACACATATACTTATGTGTATAAACATT-CATCTAATCATAATCCATAG
9278983 CTTAACACATATACTTATGTGTATAAACATGTCATCTAATCATAATCCAT
1 CTTAACACATATACTTATGTGTATAAACAT-TCATCTAATCATAATCCAT
9279033 TCATGGCTCA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
50 18 0.21
51 1 0.01
52 31 0.37
53 15 0.18
54 9 0.11
55 10 0.12
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (51 bp):
CTTAACACATATACTTATGTGTATAAACATTCATCTAATCATAATCCATAG
Found at i:9280019 original size:31 final size:31
Alignment explanation
Indices: 9279976--9280090 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
9279966 AGTCCCTGCC
* *
9279976 ATTTT-TTTCTTTTCAAGTTAGTCCCCCAAT
1 ATTTTCTTTCTTTTCAATTTAGTCCTCCAAT
* *
9280006 ATTTTCTTTCTTTTTAATTTGGTCCTCCAAT
1 ATTTTCTTTCTTTTCAATTTAGTCCTCCAAT
* *
9280037 ATTTTTTTTCTTTTCAATTTAGTCCTCCAAC
1 ATTTTCTTTCTTTTCAATTTAGTCCTCCAAT
9280068 ATTTTCTTTCTTTTCAATTTAGT
1 ATTTTCTTTCTTTTCAATTTAGT
9280091 TTTTCTCCCA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 5 0.07
31 70 0.93
ACGTcount: A:0.18, C:0.20, G:0.05, T:0.57
Consensus pattern (31 bp):
ATTTTCTTTCTTTTCAATTTAGTCCTCCAAT
Found at i:9280200 original size:44 final size:44
Alignment explanation
Indices: 9280152--9280238 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
9280142 CTTATTTTCC
*
9280152 TTGGAAACTTAGCATTATAGAATCAAGGATTTCAACTATTATCA
1 TTGGAAACTTAGCATTACAGAATCAAGGATTTCAACTATTATCA
* *
9280196 TTGGAAACTTAGCATTACAGACTCAAGGATTTCAACTGTTATC
1 TTGGAAACTTAGCATTACAGAATCAAGGATTTCAACTATTATC
9280239 CTTAGAACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (44 bp):
TTGGAAACTTAGCATTACAGAATCAAGGATTTCAACTATTATCA
Found at i:9284452 original size:86 final size:84
Alignment explanation
Indices: 9284303--9284552 Score: 335
Period size: 86 Copynumber: 3.0 Consensus size: 84
9284293 TAATATGTTA
* * * *
9284303 TTAAGTTTACATCGAAGTTCAAATAATATAAATTAATTTTTCATTTGTTAGTTGATAAGTTCAAC
1 TTAAGTTTACATC--AGTTCAAATAATATAAATTAATTTTTCATTTGTTAATTTATAAATTCAAT
*
9284368 AAATATAAAAATTTTATATAT
64 TAATATAAAAATTTTATATAT
* * * * *
9284389 TTAAGTTTCCATTATTGTTCAAGTAATATAAATTAATTTTTTATTTGTTAATTTACAAATTCAAT
1 TTAAGTTTACATCA--GTTCAAATAATATAAATTAATTTTTCATTTGTTAATTTATAAATTCAAT
9284454 TAATATAAAAATTTTATATAT
64 TAATATAAAAATTTTATATAT
*
9284475 TTAAGTTTACATCA--T-AAATAATATAAATTAATTTTACATTTGTTAATTTATAAATTCAATTA
1 TTAAGTTTACATCAGTTCAAATAATATAAATTAATTTTTCATTTGTTAATTTATAAATTCAATTA
*
9284537 ATATAAAAAGTTTATA
66 ATATAAAAATTTTATA
9284553 AGTAATATCA
Statistics
Matches: 145, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
81 58 0.40
82 1 0.01
84 1 0.01
86 85 0.59
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (84 bp):
TTAAGTTTACATCAGTTCAAATAATATAAATTAATTTTTCATTTGTTAATTTATAAATTCAATTA
ATATAAAAATTTTATATAT
Found at i:9284458 original size:42 final size:42
Alignment explanation
Indices: 9284320--9284543 Score: 160
Period size: 42 Copynumber: 5.4 Consensus size: 42
9284310 TACATCGAAG
* * * * *
9284320 TTCAAATAATATAAATTAATTTT-TCATTTGTTAGTTGATAAG
1 TTCAATTAATATAAATTAATTTTAT-ATTTGTTAATTTACAAA
** * * *
9284362 TTCAACAAATATAAA--AATTTTATATAT-TTAAGTTTCCATTATTG
1 TTCAATTAATATAAATTAATTTTATATTTGTTAA-TTTACA--A--A
* *
9284406 TTCAAGTAATATAAATTAATTTTTTATTTGTTAATTTACAAA
1 TTCAATTAATATAAATTAATTTTATATTTGTTAATTTACAAA
* *
9284448 TTCAATTAATATAAA--AATTTTATATAT-TTAAGTTTACATCA
1 TTCAATTAATATAAATTAATTTTATATTTGTTAA-TTTACA-AA
* * *
9284489 -T-AAATAATATAAATTAATTTTACATTTGTTAATTTATAAA
1 TTCAATTAATATAAATTAATTTTATATTTGTTAATTTACAAA
9284529 TTCAATTAATATAAA
1 TTCAATTAATATAAA
9284544 AAGTTTATAA
Statistics
Matches: 143, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
39 18 0.13
40 30 0.21
41 18 0.13
42 43 0.30
44 15 0.10
46 15 0.10
47 4 0.03
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (42 bp):
TTCAATTAATATAAATTAATTTTATATTTGTTAATTTACAAA
Found at i:9288205 original size:21 final size:21
Alignment explanation
Indices: 9288159--9288200 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
9288149 AATGACATAA
*
9288159 TATTTGAAAAAATTCTTAAGT
1 TATTTGAAAAAATTCTTAAAT
9288180 TATTT-AAAAAATT-TTAAAT
1 TATTTGAAAAAATTCTTAAAT
9288199 TA
1 TA
9288201 AATTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 8 0.40
21 5 0.25
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (21 bp):
TATTTGAAAAAATTCTTAAAT
Found at i:9306908 original size:19 final size:19
Alignment explanation
Indices: 9306868--9306909 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9306858 AGGCCTAAGG
* *
9306868 AATAAATGAATGAGGGTAA
1 AATAAATGAATGAAGATAA
9306887 AATAAATGAA-GAAGATATA
1 AATAAATGAATGAAGATA-A
9306906 AATA
1 AATA
9306910 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:9307639 original size:2 final size:2
Alignment explanation
Indices: 9307632--9307678 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
9307622 TAAGATGCTG
9307632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
9307675 AT AT
1 AT AT
9307679 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9322760 original size:29 final size:27
Alignment explanation
Indices: 9322708--9322834 Score: 83
Period size: 29 Copynumber: 4.4 Consensus size: 27
9322698 ACGTGTTTGC
*
9322708 CTTAATTTAGATAATAAAACATGTTAGGT
1 CTTAATTTAGATAA-GAAACATGTT-GGT
* *
9322737 TTTAATTTAGATAAGAAACTATGTTTGT
1 CTTAATTTAGATAAGAAAC-ATGTTGGT
* * * *
9322765 CTTAATTTAAGACAAGAAAAATATTTTTTGT
1 CTTAATTT-AGATAAG--AAACA-TGTTGGT
* * *
9322796 CTTAATCTAGATAAGAAAACATATTTGT
1 CTTAATTTAGATAAG-AAACATGTTGGT
*
9322824 CTCAATTTAGA
1 CTTAATTTAGA
9322835 CAAGGCAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
28 28 0.35
29 29 0.36
30 7 0.09
31 16 0.20
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (27 bp):
CTTAATTTAGATAAGAAACATGTTGGT
Found at i:9322770 original size:28 final size:28
Alignment explanation
Indices: 9322701--9322834 Score: 126
Period size: 28 Copynumber: 4.6 Consensus size: 28
9322691 AGCTTTAACG
* *
9322701 TGTTTGCCTTAATTTAGATAATAAAACA
1 TGTTTGTCTTAATTTAGATAAGAAAACA
* *
9322729 TGTTAGGTTTTAATTTAGATAAG-AAACTA
1 TGTT-TGTCTTAATTTAGATAAGAAAAC-A
* *
9322758 TGTTTGTCTTAATTTAAGACAAGAAAAATA
1 TGTTTGTCTTAATTT-AGATAAG-AAAACA
* *
9322788 TTTTTTGTCTTAATCTAGATAAGAAAACA
1 -TGTTTGTCTTAATTTAGATAAGAAAACA
* *
9322817 TATTTGTCTCAATTTAGA
1 TGTTTGTCTTAATTTAGA
9322835 CAAGGCAAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
28 32 0.38
29 30 0.35
30 7 0.08
31 16 0.19
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (28 bp):
TGTTTGTCTTAATTTAGATAAGAAAACA
Found at i:9322798 original size:31 final size:29
Alignment explanation
Indices: 9322738--9322858 Score: 113
Period size: 28 Copynumber: 4.1 Consensus size: 29
9322728 ATGTTAGGTT
* * *
9322738 TTAATTTAGATAAG-AAACTATGTTTGTC
1 TTAATTTAGACAAGAAAAATATTTTTGTC
9322766 TTAATTTAAGACAAGAAAAATATTTTTTGTC
1 TTAATTT-AGACAAGAAAAATA-TTTTTGTC
* *
9322797 TTAATCTAGATAAGAAAACATA--TTTGTC
1 TTAATTTAGACAAGAAAA-ATATTTTTGTC
* * *
9322825 TCAATTTAGACAAGGCAAAATATTTTTGTT
1 TTAATTTAGACAA-GAAAAATATTTTTGTC
9322855 TTAA
1 TTAA
9322859 GTAAAGACAA
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
28 26 0.35
29 10 0.13
30 23 0.31
31 16 0.21
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (29 bp):
TTAATTTAGACAAGAAAAATATTTTTGTC
Found at i:9322812 original size:59 final size:59
Alignment explanation
Indices: 9322738--9322851 Score: 160
Period size: 59 Copynumber: 1.9 Consensus size: 59
9322728 ATGTTAGGTT
* * *
9322738 TTAATTTAGATAAG-AAACTATGTTTGTCTTAATTTAAGACAA-GAAAAATATTTTTTGTC
1 TTAATCTAGATAAGAAAAC-ATATTTGTCTCAATTT-AGACAAGGAAAAATATTTTTTGTC
*
9322797 TTAATCTAGATAAGAAAACATATTTGTCTCAATTTAGACAAGGCAAAATATTTTT
1 TTAATCTAGATAAGAAAACATATTTGTCTCAATTTAGACAAGGAAAAATATTTTT
9322852 GTTTTAAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 6 0.12
59 39 0.80
60 4 0.08
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.39
Consensus pattern (59 bp):
TTAATCTAGATAAGAAAACATATTTGTCTCAATTTAGACAAGGAAAAATATTTTTTGTC
Found at i:9322814 original size:30 final size:30
Alignment explanation
Indices: 9322703--9322851 Score: 103
Period size: 28 Copynumber: 5.1 Consensus size: 30
9322693 CTTTAACGTG
* * * *
9322703 TTTGCCTTAATTTAGATAA-TAAAACATGT
1 TTTGTCTTAATTTAGATAAGAAAAATATTT
** * * *
9322732 TAGGTTTTAATTTAGATAAG-AAACTA-TG
1 TTTGTCTTAATTTAGATAAGAAAAATATTT
*
9322760 TTTGTCTTAATTTAAGACAAGAAAAATATTT
1 TTTGTCTTAATTT-AGATAAGAAAAATATTT
*
9322791 TTTGTCTTAATCTAGATAAGAAAACATA---
1 TTTGTCTTAATTTAGATAAGAAAA-ATATTT
* * *
9322819 TTTGTCTCAATTTAGACAAGGCAAAATATTT
1 TTTGTCTTAATTTAGATAA-GAAAAATATTT
9322850 TT
1 TT
9322852 GTTTTAAGTA
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
28 29 0.32
29 29 0.32
30 15 0.16
31 18 0.20
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTGTCTTAATTTAGATAAGAAAAATATTT
Found at i:9325668 original size:62 final size:62
Alignment explanation
Indices: 9325569--9325938 Score: 452
Period size: 62 Copynumber: 6.0 Consensus size: 62
9325559 TTCGACATCA
* * * *
9325569 TTACCTACTTGTGGGAACTACCCACGCCACCCA-ATATAAATCGAGGCTTCAGATCCCCCTTT
1 TTACCTACTCGTGGGAACTACTCACGCCA-CCATATATAAATCGGGGCTTCAGGTCCCCCTTT
* * * * * * * *
9325631 TTACTTACTCGTGAGAACTACTTACACCATCATATATAAATCGAGGCTTCAAGT--CTCTTT
1 TTACCTACTCGTGGGAACTACTCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
*
9325691 TTACCTACTTGTGGGAACTA-TCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
1 TTACCTACTCGTGGGAACTACT-CACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
* * * *
9325753 TTACTTACTTGTGAGAACTACCCACGCCACCATATATAAATCGGGGCTTTC-GGTCCCCCTTT
1 TTACCTACTCGTGGGAACTACTCACGCCACCATATATAAATCGGGGC-TTCAGGTCCCCCTTT
* *
9325815 TTACCTACTCTTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCC--T
1 TTACCTACTCGTGGGAACTACTCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
* *
9325875 TTACCTACTCGTGGGAACTACTCACACCACC-TAATATAAATTGGGGCTTCAGGT-CCCCTTT
1 TTACCTACTCGTGGGAACTACTCACGCCACCAT-ATATAAATCGGGGCTTCAGGTCCCCCTTT
9325936 TTA
1 TTA
9325939 AATCAAATAT
Statistics
Matches: 268, Mismatches: 30, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
59 6 0.02
60 98 0.37
61 9 0.03
62 152 0.57
63 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.29
Consensus pattern (62 bp):
TTACCTACTCGTGGGAACTACTCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
Found at i:9325787 original size:122 final size:123
Alignment explanation
Indices: 9325569--9325938 Score: 511
Period size: 122 Copynumber: 3.0 Consensus size: 123
9325559 TTCGACATCA
* *
9325569 TTACCTACTTGTGGGAACTACCCACGCCACCCA-ATATAAATCGAGGCTTCAGATCCCCCTTTTT
1 TTACCTACTTGTGGGAACTACCCACGCCA-CCATATATAAATCGGGGCTTCAGGTCCCCCTTTTT
* * * *
9325633 ACTTACTCGTGAGAACTACTTACACCATCATATATAAATCGAGGCTTCAAGT-CTCTTT
65 ACTTACTCGTGAGAACTACTCACACCACCATATATAAATCGGGGCTTCAAGTCCCCTTT
*
9325691 TTACCTACTTGTGGGAACTATCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTTTA
1 TTACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTTTA
* * * *
9325756 CTTACTTGTGAGAACTACCCACGCCACCATATATAAATCGGGGCTTTC-GGTCCCCCTTT
66 CTTACTCGTGAGAACTACTCACACCACCATATATAAATCGGGGC-TTCAAGT-CCCCTTT
9325815 TTACCTACTCT-TGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCC--TTT
1 TTACCTACT-TGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTTT
* * * *
9325877 ACCTACTCGTGGGAACTACTCACACCACC-TAATATAAATTGGGGCTTCAGGTCCCCTTT
65 ACTTACTCGTGAGAACTACTCACACCACCAT-ATATAAATCGGGGCTTCAAGTCCCCTTT
9325936 TTA
1 TTA
9325939 AATCAAATAT
Statistics
Matches: 223, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
121 17 0.08
122 141 0.63
123 3 0.01
124 61 0.27
125 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.29
Consensus pattern (123 bp):
TTACCTACTTGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTTTA
CTTACTCGTGAGAACTACTCACACCACCATATATAAATCGGGGCTTCAAGTCCCCTTT
Found at i:9325883 original size:184 final size:183
Alignment explanation
Indices: 9325569--9325938 Score: 496
Period size: 184 Copynumber: 2.0 Consensus size: 183
9325559 TTCGACATCA
*
9325569 TTACCTACTTGTGGGAACTACCCACGCCACCCAATATAAATCGAGGCTTCAGATCCCCCTTTTTA
1 TTACCTACTTGTGAGAACTACCCACGCCACCCAATATAAATCGAGGCTTCAGATCCCCCTTTTTA
* ** * * **
9325634 CTTACTCGTGAGAACTACTTACACCATCATATATAAATCGAGGCTTCAAGTCTCTTTTTACCTAC
66 CCTACTCGTGAGAACTACCCACACCACCATATATAAATCGAGGCTTCAAGTCCCCCTTTACCTAC
* *
9325699 TTGTGGGAACTA-TCCACGCCACC-ATATATAAATCGGGGCTTCAGGTCCCCCTTT
131 TCGTGGGAACTACT-CACACCACCTA-ATATAAATCGGGGCTTCAGGT-CCCCTTT
* * *
9325753 TTACTTACTTGTGAGAACTACCCACGCCA-CCATATATAAATCGGGGCTTTC-GGTCCCCCTTTT
1 TTACCTACTTGTGAGAACTACCCACGCCACCCA-ATATAAATCGAGGC-TTCAGATCCCCCTTTT
* * * * *
9325816 TACCTACTCTTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTACCT
64 TACCTACTCGTGAGAACTACCCACACCACCATATATAAATCGAGGCTTCAAGTCCCCCTTTACCT
*
9325881 ACTCGTGGGAACTACTCACACCACCTAATATAAATTGGGGCTTCAGGTCCCCTTT
129 ACTCGTGGGAACTACTCACACCACCTAATATAAATCGGGGCTTCAGGTCCCCTTT
9325936 TTA
1 TTA
9325939 AATCAAATAT
Statistics
Matches: 163, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
183 13 0.08
184 145 0.89
185 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.29
Consensus pattern (183 bp):
TTACCTACTTGTGAGAACTACCCACGCCACCCAATATAAATCGAGGCTTCAGATCCCCCTTTTTA
CCTACTCGTGAGAACTACCCACACCACCATATATAAATCGAGGCTTCAAGTCCCCCTTTACCTAC
TCGTGGGAACTACTCACACCACCTAATATAAATCGGGGCTTCAGGTCCCCTTT
Found at i:9326459 original size:316 final size:315
Alignment explanation
Indices: 9325862--9326488 Score: 1150
Period size: 315 Copynumber: 2.0 Consensus size: 315
9325852 AAATCGGGGC
9325862 TTCAGGTCCCCCTTTACCTACTCGTGGGAACTACTCACACCACCTAATATAAATTGGGGCTTCAG
1 TTCAGGTCCCCCTTTACCTACTCGTGGGAACTACTCACACCACCTAATATAAATTGGGGCTTCAG
9325927 GTCCCCTTTTTAAATCAAATATCAATAATCGACAATTACTATTTTGTGCACAAAGACCACACTTG
66 GTCCCCTTTTTAAATCAAATATCAATAATCGACAATTACTATTTTGTGCACAAAGACCACACTTG
*
9325992 ACCTGGTGTGGTAACAAGTCCTACCTAGCAAATCTCAATCACGTTCAAATGAAAATCATTGCAAT
131 ACCTGGTGTGGTAACAAGTCCTACCTAGCAAATCTCAATCACGTTCAAATGAAAATCATTCCAAT
*
9326057 TTAATGCATTTGCAAAACATAATAGTTTGTAAACAATATAATCACAAATCAATGTTGTGCACATT
196 TTAATGCATTTACAAAACATAATAGTTTGTAAACAATATAATCACAAATCAATGTTGTGCACATT
9326122 TTATCTCAAAGCATGGTATATTTACCAAATCAGCATGCTAAGTGAAATAANAAGAT
261 TTATCTCAAAGCATGGTATATTTACCAAATCAGCATGCTAAGTGAAATAA-AAGAT
9326178 TTCAGGT-CCCCTTTACCTACTCGTGGGAACTACTCACACCACCTAATATAAATTGGGGCTTCAG
1 TTCAGGTCCCCCTTTACCTACTCGTGGGAACTACTCACACCACCTAATATAAATTGGGGCTTCAG
*
9326242 GTCCCCTTTTTTAATCAAATATCAATAATCGACAATTACTATTTTGTGCACAAAGACCACACTTG
66 GTCCCCTTTTTAAATCAAATATCAATAATCGACAATTACTATTTTGTGCACAAAGACCACACTTG
*
9326307 ACCTGGTGTGGTAACAAGTCCTACCTAGCAAATCTCAATCACGTTCAAATGAAAAT-ATATACCC
131 ACCTGGTGTGGTAACAAGTCCTACCTAGCAAATCTCAATCACGTTCAAATGAAAATCAT-T-CCA
* **
9326371 TTTTAATGCATTTACAAAACATAATAGTTTGTAAACAATATAATCACAAATCAATGTTGTGCTTA
194 ATTTAATGCATTTACAAAACATAATAGTTTGTAAACAATATAATCACAAATCAATGTTGTGCACA
9326436 TTTTATCTCAAAGCATGGTATATTTACCAAATCAGCATGCTAAGTGAAATAAA
259 TTTTATCTCAAAGCATGGTATATTTACCAAATCAGCATGCTAAGTGAAATAAA
9326489 TAATTTATCA
Statistics
Matches: 302, Mismatches: 7, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
314 2 0.01
315 179 0.59
316 121 0.40
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.30
Consensus pattern (315 bp):
TTCAGGTCCCCCTTTACCTACTCGTGGGAACTACTCACACCACCTAATATAAATTGGGGCTTCAG
GTCCCCTTTTTAAATCAAATATCAATAATCGACAATTACTATTTTGTGCACAAAGACCACACTTG
ACCTGGTGTGGTAACAAGTCCTACCTAGCAAATCTCAATCACGTTCAAATGAAAATCATTCCAAT
TTAATGCATTTACAAAACATAATAGTTTGTAAACAATATAATCACAAATCAATGTTGTGCACATT
TTATCTCAAAGCATGGTATATTTACCAAATCAGCATGCTAAGTGAAATAAAAGAT
Found at i:9326625 original size:2 final size:2
Alignment explanation
Indices: 9326618--9326664 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
9326608 AAGCATGTAG
* * *
9326618 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GCT AT AT TT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
9326661 AT AT
1 AT AT
9326665 TAAAGAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 37 0.97
3 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9327143 original size:12 final size:13
Alignment explanation
Indices: 9327108--9327144 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
9327098 TCGGCCTTCT
9327108 TTCTCTCTTTTTC
1 TTCTCTCTTTTTC
*
9327121 TTCT-TCCTTTTC
1 TTCTCTCTTTTTC
9327133 TTCTCT-TTTTTC
1 TTCTCTCTTTTTC
9327145 CTTTTCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TTCTCTCTTTTTC
Found at i:9327737 original size:4 final size:4
Alignment explanation
Indices: 9327695--9327769 Score: 59
Period size: 4 Copynumber: 19.0 Consensus size: 4
9327685 TATTCCTTCT
* * * *
9327695 TTTA TTT- TATTA TTT- TTTA TTCA TTCA TTCA TTCA -TTA TTTA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
9327741 -TTA TTTTA TTTA TTTA TTTA TTTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA
9327770 ACTTCAGTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
3 9 0.15
4 45 0.73
5 8 0.13
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:9327988 original size:74 final size:73
Alignment explanation
Indices: 9327873--9328022 Score: 192
Period size: 74 Copynumber: 2.0 Consensus size: 73
9327863 AGGTATTACA
* * * * * * * *
9327873 AGCTTACTGCCAAAAATTGGGTTCAGAGACAGAGGCAACTTAATTGATTAAGAAGTATTGTTAGT
1 AGCTTACTGCCAAAAACTGGGATAAAAGACAGAGACAACTTAATTGACTAAGAAGCATAGTTAGT
*
9327938 TGACTAAG
66 TAACTAAG
* *
9327946 AGCTTACTGCCAGAAACTGGGAATAAAAGACAGAGACGACTTAATTGACTAAGAAGCATAGTTAG
1 AGCTTACTGCCAAAAACTGGG-ATAAAAGACAGAGACAACTTAATTGACTAAGAAGCATAGTTAG
9328011 TTAACTAAG
65 TTAACTAAG
9328020 AGC
1 AGC
9328023 ATTCTATCAG
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
73 19 0.29
74 46 0.71
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (73 bp):
AGCTTACTGCCAAAAACTGGGATAAAAGACAGAGACAACTTAATTGACTAAGAAGCATAGTTAGT
TAACTAAG
Found at i:9330242 original size:37 final size:38
Alignment explanation
Indices: 9330189--9330310 Score: 187
Period size: 37 Copynumber: 3.3 Consensus size: 38
9330179 CAATGTTGTG
*
9330189 TGATGATG-TTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
*
9330226 TGATGATGATAG-AGTGTGCGAGCAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
* *
9330263 TGATGATG-TTGAAGTGTGCGAGTAGAGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
9330300 TGATGATGATA
1 TGATGATGATA
9330311 TATTGAGTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
36 2 0.03
37 71 0.93
38 3 0.04
ACGTcount: A:0.30, C:0.11, G:0.36, T:0.24
Consensus pattern (38 bp):
TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:9341237 original size:37 final size:38
Alignment explanation
Indices: 9341193--9341304 Score: 183
Period size: 37 Copynumber: 3.0 Consensus size: 38
9341183 GAATAATGTT
9341193 GAAGTGTGCGAGTAAGGAGTGCACACATGATGATGATA
1 GAAGTGTGCGAGTAAGGAGTGCACACATGATGATGATA
* *
9341231 G-AGTGTGCGAGTAGGGAGTGCACACATGATGATG-TT
1 GAAGTGTGCGAGTAAGGAGTGCACACATGATGATGATA
*
9341267 GAAGTGTGCGAGTAAAGAGTGCACACATGATGATGATA
1 GAAGTGTGCGAGTAAGGAGTGCACACATGATGATGATA
9341305 TTGCATTGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.03
37 63 0.94
38 2 0.03
ACGTcount: A:0.32, C:0.11, G:0.35, T:0.22
Consensus pattern (38 bp):
GAAGTGTGCGAGTAAGGAGTGCACACATGATGATGATA
Found at i:9343034 original size:3 final size:3
Alignment explanation
Indices: 9343026--9343071 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
9343016 CTGGAGCTTA
9343026 AAG AAG AAG AAG AAG AAG -AG AAG AGAG AAG CAA- AAG AA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG -AAG AAG AAG AAG AAG
9343070 AA
1 AA
9343072 AAACATTACC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 6 0.16
3 27 0.71
4 5 0.13
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9347699 original size:37 final size:37
Alignment explanation
Indices: 9347652--9347770 Score: 186
Period size: 37 Copynumber: 3.2 Consensus size: 37
9347642 AATGCAATAT
*
9347652 CATCATCATGTGTGCACTCTCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* *
9347689 CATCATCATGTGTGCACTCCCTACTTGCACAC-TCTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
*
9347726 CATCATCATGTGTGCACTCCCTACTCGCACACTTTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
9347763 CATCATCA
1 CATCATCA
9347771 CACAACATTA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.03
37 71 0.96
38 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.10, T:0.30
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:9353173 original size:73 final size:73
Alignment explanation
Indices: 9353023--9353218 Score: 207
Period size: 73 Copynumber: 2.7 Consensus size: 73
9353013 GCCGGTTTAG
* *** * *
9353023 AGACAGAGACAACTTAATCGACTAAGAAGTATCA-TTAGTAGACTAAGAGCTTACCGTTAGAAGC
1 AGACAGAGACAACTTAATCGACTAAGAAGTAT-AGTTAGTCGACTAAGAGCTTACCACCAAAAAC
** *
9353087 TGGGTTCAG
65 TGGAATCAA
* * *
9353096 AGACAGAGACAACTTAATCGACTAAGAAGTATTGTTGGTCGACTAAGAGCTTACTACCAAAAACT
1 AGACAGAGACAACTTAATCGACTAAGAAGTATAGTTAGTCGACTAAGAGCTTACCACCAAAAACT
9353161 GAGAAT-AA
66 G-GAATCAA
** * **
9353169 AGACAGAGATGACTTAATTGACTAAGAAACATAGTTAGTCGACTAAGAGC
1 AGACAGAGACAACTTAATCGACTAAGAAGTATAGTTAGTCGACTAAGAGC
9353219 ATTCTATCAG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
73 100 0.98
74 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (73 bp):
AGACAGAGACAACTTAATCGACTAAGAAGTATAGTTAGTCGACTAAGAGCTTACCACCAAAAACT
GGAATCAA
Found at i:9357701 original size:51 final size:51
Alignment explanation
Indices: 9357553--9357678 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
9357543 TAATTACTTC
* * * *
9357553 ATGGAAATCGAGGGCTTATGTGTAGAATGGTTAATTGGGTGGAAATTGCCTT
1 ATGG-AATGGAGGGCTTATGTGTTGAATGGTTAATTGGATTGAAATTGCCTT
* * *
9357605 ATGGAATTGAGGGTTTATGTGTTGAGTGGTTAATTGGATTGAAATTGCCTT
1 ATGGAATGGAGGGCTTATGTGTTGAATGGTTAATTGGATTGAAATTGCCTT
*
9357656 ATGGAATGGAGGGCTTCTGTGTT
1 ATGGAATGGAGGGCTTATGTGTT
9357679 AATAAGGTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 61 0.94
52 4 0.06
ACGTcount: A:0.24, C:0.06, G:0.33, T:0.37
Consensus pattern (51 bp):
ATGGAATGGAGGGCTTATGTGTTGAATGGTTAATTGGATTGAAATTGCCTT
Found at i:9359366 original size:2 final size:2
Alignment explanation
Indices: 9359361--9359485 Score: 166
Period size: 2 Copynumber: 63.0 Consensus size: 2
9359351 CAAACCTCTC
*
9359361 TA TA TA GTA AA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** *
9359402 TA TA TA TA TA TA TA TA TA NC TA CTC TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
9359444 TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9359486 AGCATATACA
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
1 3 0.03
2 102 0.94
3 3 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9363761 original size:17 final size:17
Alignment explanation
Indices: 9363696--9363767 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 17
9363686 AACTAAACTA
9363696 AGAAAAATAAACATAAAATT
1 AGAAAAATAAAC-T--AATT
*
9363716 AGCATAAAATAAAATAACTTT
1 AG-A-AAAATAAACTAA--TT
*
9363737 ATAAAAATAAACTAATT
1 AGAAAAATAAACTAATT
9363754 AGAAAAAT-AACTAA
1 AGAAAAATAAACTAA
9363768 ATCTTAACCT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 6 0.14
17 9 0.20
19 13 0.30
20 3 0.07
21 5 0.11
22 8 0.18
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (17 bp):
AGAAAAATAAACTAATT
Found at i:9363765 original size:16 final size:16
Alignment explanation
Indices: 9363726--9363767 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
9363716 AGCATAAAAT
*
9363726 AAAATAACT--TTATA
1 AAAATAACTAATTAGA
9363740 AAAATAAACTAATTAGA
1 AAAAT-AACTAATTAGA
9363757 AAAATAACTAA
1 AAAATAACTAA
9363768 ATCTTAACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 5 0.21
15 4 0.17
16 6 0.25
17 9 0.38
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAATAACTAATTAGA
Found at i:9373006 original size:51 final size:49
Alignment explanation
Indices: 9372930--9373029 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 49
9372920 ACAGCAATTT
*
9372930 AGAGTGGTTCGATCCAAGACCTACATCCATTACCTTGATTATCCAACCAA
1 AGAGTGGTTCGATCCAAGACCTACATCCAGTA-CTTGATTATCCAACCAA
9372980 NAGAGTGGTTCGATCCAAGACCTACATCCAGTACTTGATTATCCAACCAA
1 -AGAGTGGTTCGATCCAAGACCTACATCCAGTACTTGATTATCCAACCAA
9373030 GGATTTTCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 17 0.35
51 31 0.65
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
AGAGTGGTTCGATCCAAGACCTACATCCAGTACTTGATTATCCAACCAA
Done.