Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 58 of 91
Found at i:20736357 original size:88 final size:90
Alignment explanation
Indices: 20736196--20736359 Score: 242
Period size: 88 Copynumber: 1.8 Consensus size: 90
20736186 TGAAGACAAC
* * * **
20736196 TCTTGTCTTTAATTAAGACAAACATATTTTATCTTGTCTAAATTGAGACAATTATGTTTTATTGT
1 TCTTGTCTTAAATTAAGAAAAACATATTTTATCTTGTCTAAATTAAGACAAACATGTTTTATTGT
*
20736261 CTAGATTAAGATAAAAAAATATTTT
66 CTAAATTAAGATAAAAAAATATTTT
* *
20736286 TCTTGTCTTAAATTAAGAAAAACATATTTT-T-TTGTCTAAATTAATACAAACATGTTTTCTTGT
1 TCTTGTCTTAAATTAAGAAAAACATATTTTATCTTGTCTAAATTAAGACAAACATGTTTTATTGT
20736349 CTAAATTAAGA
66 CTAAATTAAGA
20736360 CAAACATGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
88 37 0.56
89 1 0.02
90 28 0.42
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (90 bp):
TCTTGTCTTAAATTAAGAAAAACATATTTTATCTTGTCTAAATTAAGACAAACATGTTTTATTGT
CTAAATTAAGATAAAAAAATATTTT
Found at i:20741284 original size:19 final size:19
Alignment explanation
Indices: 20741260--20741323 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
20741250 GGTGGATGTA
20741260 CACGATGGCACTGACTGTG
1 CACGATGGCACTGACTGTG
**** **
20741279 CACGATGTGGGGGGA-TGCA
1 CACGATG-GCACTGACTGTG
20741298 CACGATGGCACTGACTGTG
1 CACGATGGCACTGACTGTG
20741317 CACGATG
1 CACGATG
20741324 TGGGGGGATG
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
18 3 0.10
19 25 0.81
20 3 0.10
ACGTcount: A:0.22, C:0.23, G:0.36, T:0.19
Consensus pattern (19 bp):
CACGATGGCACTGACTGTG
Found at i:20741368 original size:40 final size:38
Alignment explanation
Indices: 20741237--20741377 Score: 187
Period size: 38 Copynumber: 3.7 Consensus size: 38
20741227 GAGAGTGTCG
* * * *
20741237 TGTGAACGTTGTGGGTGGATGTACACGATGGCACTGAC
1 TGTGCACGATGTGGGGGGATGCACACGATGGCACTGAC
20741275 TGTGCACGATGTGGGGGGATGCACACGATGGCACTGAC
1 TGTGCACGATGTGGGGGGATGCACACGATGGCACTGAC
*
20741313 TGTGCACGATGTGGGGGGATGCACACGAT-G-ACTTCGGC
1 TGTGCACGATGTGGGGGGATGCACACGATGGCAC-T-GAC
20741351 TATGTGCACGATGTGGGGGGATGCACA
1 --TGTGCACGATGTGGGGGGATGCACA
20741378 TGAGTCGGAT
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
36 2 0.02
37 2 0.02
38 65 0.69
40 25 0.27
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.22
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGATGGCACTGAC
Found at i:20741648 original size:21 final size:22
Alignment explanation
Indices: 20741602--20741648 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
20741592 GGTGACCTAT
20741602 TTCTCGCTGCAGCGAGAAAGCA
1 TTCTCGCTGCAGCGAGAAAGCA
*
20741624 TTCTTGCTGCAGCGAGAAA-CA
1 TTCTCGCTGCAGCGAGAAAGCA
20741645 TTCT
1 TTCT
20741649 GTTTTGGCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (22 bp):
TTCTCGCTGCAGCGAGAAAGCA
Found at i:20754982 original size:42 final size:41
Alignment explanation
Indices: 20754920--20755033 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 41
20754910 ATGTGGACTT
** *
20754920 GGCTATGTGCGAGTAAGAGTGCACATAAGTCGTTGCTGGCCC
1 GGCTATGTGCGAGTGGGAGTGCACATAAG-CGTTGCTGACCC
* *
20754962 GGTTATGTGCGAGTGGGAGTGCACATAAGCTGTTGCTGACCT
1 GGCTATGTGCGAGTGGGAGTGCACATAAGC-GTTGCTGACCC
20755004 GGCTATGTGCGAGTGGGAGTGCACATAAGC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGC
20755034 CGTTACATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.02
42 64 0.98
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (41 bp):
GGCTATGTGCGAGTGGGAGTGCACATAAGCGTTGCTGACCC
Found at i:20763445 original size:35 final size:33
Alignment explanation
Indices: 20763406--20763565 Score: 134
Period size: 32 Copynumber: 4.8 Consensus size: 33
20763396 CCAAGCTTAG
*
20763406 CCAAAACCTTTCACAATGGTTTTTACAGGGATCAA
1 CCAAAACCTTTCA-AATGGTTTTT-CAGGGCTCAA
*
20763441 CCAAAACC---CAAAGTGGTTTTTCAAAGGCTCAA
1 CCAAAACCTTTCAAA-TGGTTTTTC-AGGGCTCAA
*
20763473 CCACAACCTTTCATAATGGTTTTTCATGGGCTCAA
1 CCAAAACCTTTCA-AATGGTTTTTCA-GGGCTCAA
* *
20763508 CCAAAACC---CAAAGTGATTTTTCAAAGGCTCAA
1 CCAAAACCTTTCAAA-TGGTTTTTC-AGGGCTCAA
* *
20763540 CCACAACCTTTCACAATGATTTTTCA
1 CCAAAACCTTTCA-AATGGTTTTTCA
20763566 CAAGCTCAAA
Statistics
Matches: 104, Mismatches: 8, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
31 5 0.05
32 48 0.46
33 1 0.01
34 2 0.02
35 44 0.42
36 4 0.04
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (33 bp):
CCAAAACCTTTCAAATGGTTTTTCAGGGCTCAA
Found at i:20763573 original size:35 final size:34
Alignment explanation
Indices: 20763457--20763574 Score: 136
Period size: 35 Copynumber: 3.5 Consensus size: 34
20763447 CCCAAAGTGG
*
20763457 TTTTTCAAAGGCTCAACCACAACCTTTCATAATGG
1 TTTTTCAAAGGCTCAACCACAACCTTTCA-AATGA
** *
20763492 TTTTTCATGGGCTCAACCAAAACC---CAAAGTGA
1 TTTTTCAAAGGCTCAACCACAACCTTTCAAA-TGA
20763524 TTTTTCAAAGGCTCAACCACAACCTTTCACAATGA
1 TTTTTCAAAGGCTCAACCACAACCTTTCA-AATGA
20763559 TTTTTCACAA-GCTCAA
1 TTTTTCA-AAGGCTCAA
20763575 ACAAAACCCA
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
31 2 0.03
32 25 0.36
35 39 0.56
36 4 0.06
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (34 bp):
TTTTTCAAAGGCTCAACCACAACCTTTCAAATGA
Found at i:20763573 original size:67 final size:67
Alignment explanation
Indices: 20763410--20763584 Score: 262
Period size: 67 Copynumber: 2.6 Consensus size: 67
20763400 GCTTAGCCAA
* *
20763410 AACCTTTCACAATGGTTTTT-ACAGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCACA-GGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAAC
20763474 CAC
65 CAC
* **
20763477 AACCTTTCATAATGGTTTTTCATGGGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACAGGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
20763542 AC
66 AC
* * *
20763544 AACCTTTCACAATGATTTTTCACAAGCTCAAACAAAACCCA
1 AACCTTTCACAATGGTTTTTCACAGGCTCAACCAAAACCCA
20763585 TCACCTAACT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
67 95 0.99
68 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACAGGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
AC
Found at i:20764624 original size:68 final size:68
Alignment explanation
Indices: 20764538--20764761 Score: 233
Period size: 68 Copynumber: 3.3 Consensus size: 68
20764528 TTGTATGAAA
* * *
20764538 TATGATATGTTACAATGTATGCA-ATGTTATTTGCACGTACTATATGAGATAAGAATGAGCACAT
1 TATGCTATGTTGCAATGTATGCATATGTTATTT-CACATACTATATGAGATAAGAATGAGCACAT
20764602 GATG
65 GATG
* * * *
20764606 TATGTTATGTTGCAATGTA--CATGATGTTGTTTCCACATACTATATGAGATGAGAATGAGTACA
1 TATGCTATGTTGCAATGTATGCAT-ATGTTATTT-CACATACTATATGAGATAAGAATGAGCACA
20764669 TGATG
64 TGATG
* * * * * * *
20764674 TGTGCTATGTTGCAATGTATGTGATAAG-GAGTTT-ACATACTATATTAGATAATAATGAGCACT
1 TATGCTATGTTGCAATGTATG-CATATGTTA-TTTCACATACTATATGAGATAAGAATGAGCACA
20764737 TGATG
64 TGATG
*
20764742 TATGCGATGTTGCAATGTAT
1 TATGCTATGTTGCAATGTAT
20764762 ATGATGACGA
Statistics
Matches: 130, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
66 2 0.02
68 121 0.93
70 5 0.04
71 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (68 bp):
TATGCTATGTTGCAATGTATGCATATGTTATTTCACATACTATATGAGATAAGAATGAGCACATG
ATG
Found at i:20764785 original size:68 final size:68
Alignment explanation
Indices: 20764575--20764806 Score: 259
Period size: 68 Copynumber: 3.4 Consensus size: 68
20764565 TATTTGCACG
* * ** *
20764575 TACTATATGAGATAAGAATGAGCACATGATGTATGTTATGTTGCAATGTACATGATGTTGTTTCC
1 TACTATATGAGATAAGAATGAGCACATGATGTATGCTATGTTGCAATGTATATGATGACGATTCC
20764640 ACA
66 ACA
* * * * * *
20764643 TACTATATGAGATGAGAATGAGTACATGATGTGTGCTATGTTGCAATGTATGTGATAAGGAGTT-
1 TACTATATGAGATAAGAATGAGCACATGATGTATGCTATGTTGCAATGTATATGATGACGA-TTC
*
20764707 TACA
65 CACA
* * * *
20764711 TACTATATTAGATAATAATGAGCACTTGATGTATGCGATGTTGCAATGTATATGATGACGATTCC
1 TACTATATGAGATAAGAATGAGCACATGATGTATGCTATGTTGCAATGTATATGATGACGATTCC
20764776 ACA
66 ACA
* * * * *
20764779 TGCTATATAAGATGAGTATGAGTACATG
1 TACTATATGAGATAAGAATGAGCACATG
20764807 TTTAAGATAC
Statistics
Matches: 133, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
67 2 0.02
68 129 0.97
69 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.34
Consensus pattern (68 bp):
TACTATATGAGATAAGAATGAGCACATGATGTATGCTATGTTGCAATGTATATGATGACGATTCC
ACA
Found at i:20771469 original size:28 final size:30
Alignment explanation
Indices: 20771406--20771472 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 30
20771396 GCAAATTTTT
*
20771406 AAAAATTACACTTTTACCCCCGTAAAAGTG
1 AAAAATTACACTTTTACCCCCGAAAAAGTG
* *
20771436 AAAAATTACATTTTTA-CCCC-AAAAATTG
1 AAAAATTACACTTTTACCCCCGAAAAAGTG
20771464 AAAAATTAC
1 AAAAATTAC
20771473 CAAAATGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 15 0.44
29 4 0.12
30 15 0.44
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.28
Consensus pattern (30 bp):
AAAAATTACACTTTTACCCCCGAAAAAGTG
Found at i:20776049 original size:6 final size:6
Alignment explanation
Indices: 20776032--20776062 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
20776022 TTTCACTCAC
*
20776032 AAAGAG AGAGAG AAAGAG AAAGAG AAAGAG A
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG A
20776063 GAGTTGCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:20776049 original size:12 final size:12
Alignment explanation
Indices: 20776032--20776065 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
20776022 TTTCACTCAC
20776032 AAAGAGAGAGAG
1 AAAGAGAGAGAG
*
20776044 AAAGAGAAAGAG
1 AAAGAGAGAGAG
20776056 AAAGAGAGAG
1 AAAGAGAGAG
20776066 TTGCTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (12 bp):
AAAGAGAGAGAG
Found at i:20782476 original size:22 final size:23
Alignment explanation
Indices: 20782433--20782476 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
20782423 GTTATGAAAA
20782433 ATAACTAAAAGGAACAAATAAAG
1 ATAACTAAAAGGAACAAATAAAG
*
20782456 ATAACTAAAA-GAACAATTAAA
1 ATAACTAAAAGGAACAAATAAA
20782477 AAGAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.16
Consensus pattern (23 bp):
ATAACTAAAAGGAACAAATAAAG
Found at i:20791725 original size:21 final size:20
Alignment explanation
Indices: 20791677--20791716 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20791667 AGCTCTTTGG
*
20791677 AGAAAAAAGTCAATTCTTGA
1 AGAAAAAAGTCAATCCTTGA
*
20791697 AGCAAAAAGGTCAATCCTTG
1 AG-AAAAAAGTCAATCCTTG
20791717 TGGAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (20 bp):
AGAAAAAAGTCAATCCTTGA
Found at i:20800858 original size:38 final size:40
Alignment explanation
Indices: 20800769--20800877 Score: 150
Period size: 38 Copynumber: 2.8 Consensus size: 40
20800759 CACACCCGGC
* *
20800769 TCATGTACATCCCCCAACATCATGCACATAGCCGGTGCCA
1 TCATGTACATCCCCCCACATCATGCACATAGCCAGTGCCA
* * *
20800809 TCATGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCA
1 TCATGTACATCCCCCCACATCATGCACATAGCCAGTGCCA
*
20800847 TCGTGTACATCCCCCCACATCATGCACATAG
1 TCATGTACATCCCCCCACATCATGCACATAG
20800878 GCACTATCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 32 0.54
39 2 0.03
40 25 0.42
ACGTcount: A:0.26, C:0.39, G:0.15, T:0.21
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCATGCACATAGCCAGTGCCA
Found at i:20800999 original size:2 final size:2
Alignment explanation
Indices: 20800992--20801019 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20800982 CATGCACAAC
20800992 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
20801020 NNNNNNNNNN
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:20805278 original size:37 final size:37
Alignment explanation
Indices: 20805237--20805307 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
20805227 CATACTATTA
* * *
20805237 TCCTCAATTGTCTTAGATAGTGGGGATCGTACCACTT
1 TCCTCAATTATCCTAGATAGTGAGGATCGTACCACTT
20805274 TCCTCAATTATCCTAGATAGTGAGGATCGTACCA
1 TCCTCAATTATCCTAGATAGTGAGGATCGTACCA
20805308 TTGTCCTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (37 bp):
TCCTCAATTATCCTAGATAGTGAGGATCGTACCACTT
Found at i:20822815 original size:34 final size:34
Alignment explanation
Indices: 20822777--20822886 Score: 123
Period size: 34 Copynumber: 3.2 Consensus size: 34
20822767 TTCCAAGCTC
* *
20822777 AAGCATAAACCTCACAATACCTTTTAGCGAGAGT
1 AAGCATAAACCTCACAATGCCTTTTAACGAGAGT
* * * *
20822811 AAGCACAACCCTCACAATGCTTTTTAACGAGAGC
1 AAGCATAAACCTCACAATGCCTTTTAACGAGAGT
* * *
20822845 AAGCCTAATCCTTACAATGCCTTTTAAC-AGGAGT
1 AAGCATAAACCTCACAATGCCTTTTAACGA-GAGT
20822879 AAGCATAA
1 AAGCATAA
20822887 CCCACACTAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
33 1 0.02
34 61 0.98
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.24
Consensus pattern (34 bp):
AAGCATAAACCTCACAATGCCTTTTAACGAGAGT
Found at i:20826443 original size:7 final size:7
Alignment explanation
Indices: 20826431--20826464 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
20826421 CATGAAGCCC
20826431 CAAAAAA
1 CAAAAAA
20826438 CAAAAAAA
1 C-AAAAAA
20826446 CAAAAAA
1 CAAAAAA
*
20826453 CAAAAAG
1 CAAAAAA
20826460 CAAAA
1 CAAAA
20826465 GACATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (7 bp):
CAAAAAA
Found at i:20833396 original size:64 final size:64
Alignment explanation
Indices: 20833289--20833436 Score: 208
Period size: 64 Copynumber: 2.3 Consensus size: 64
20833279 GCACTAGGCT
* * ** * *
20833289 CTTGGACAACTTGTGGATTTATTTACTAGTGCCATTTTTATGGATTACCATTGGAGGCTAGACA
1 CTTGGACAACTTGTGGATTTATTCACTAGTGCCACTTGCATGGATCACCATTAGAGGCTAGACA
* *
20833353 CTTGGACAATTTGTGGATTTATTCACTATTGCCACTTGCATGGATCACCATTAGAGGCTAGACA
1 CTTGGACAACTTGTGGATTTATTCACTAGTGCCACTTGCATGGATCACCATTAGAGGCTAGACA
*
20833417 CTCGGACAACTTGTGG-TTTA
1 CTTGGACAACTTGTGGATTTA
20833437 CTACAACTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
63 4 0.05
64 70 0.95
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (64 bp):
CTTGGACAACTTGTGGATTTATTCACTAGTGCCACTTGCATGGATCACCATTAGAGGCTAGACA
Found at i:20833932 original size:41 final size:41
Alignment explanation
Indices: 20833887--20833971 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
20833877 ACAAAAGACA
* * *
20833887 TTAATATAAGTCAAGATACTAGCATTTGTTATATTTCTTTC
1 TTAATATAAGTCAAAAGACTAGCATTTGTTATATTTCTTAC
* *
20833928 TTAATATAAGTCAAAAGAGTAGCATTTGTTGTATTTCTTAC
1 TTAATATAAGTCAAAAGACTAGCATTTGTTATATTTCTTAC
20833969 TTA
1 TTA
20833972 TAATGTAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (41 bp):
TTAATATAAGTCAAAAGACTAGCATTTGTTATATTTCTTAC
Found at i:20836587 original size:31 final size:31
Alignment explanation
Indices: 20836539--20836659 Score: 149
Period size: 31 Copynumber: 3.9 Consensus size: 31
20836529 AACTAGTTCA
*
20836539 TCAACTTTTTT-TGTTTTTCAATTTAATCCT
1 TCAACTTTTTTCTCTTTTTCAATTTAATCCT
*
20836569 TCAACTTTTTTCTCTTTTTCAATTTAGTCCT
1 TCAACTTTTTTCTCTTTTTCAATTTAATCCT
*
20836600 TTAA-TATTTTTCTCTTTTT-AATTTTAATCCT
1 TCAACT-TTTTTCTCTTTTTCAA-TTTAATCCT
* * *
20836631 CCAACATTTTTCTCTTCTTCAATTTAATC
1 TCAACTTTTTTCTCTTTTTCAATTTAATC
20836660 TTTATTCCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
30 14 0.18
31 62 0.79
32 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.02, T:0.58
Consensus pattern (31 bp):
TCAACTTTTTTCTCTTTTTCAATTTAATCCT
Found at i:20837213 original size:17 final size:19
Alignment explanation
Indices: 20837191--20837235 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
20837181 AAATATTTGA
20837191 TTCTTTTTTAC-TTTT-AT
1 TTCTTTTTTACATTTTCAT
*
20837208 TTCTTTTTTGCATTTTCAT
1 TTCTTTTTTACATTTTCAT
20837227 TCTCTTTTT
1 T-TCTTTTT
20837236 CTCAATTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 10 0.42
18 4 0.17
19 3 0.12
20 7 0.29
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (19 bp):
TTCTTTTTTACATTTTCAT
Found at i:20839943 original size:19 final size:18
Alignment explanation
Indices: 20839906--20839946 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
20839896 AATGTAACCT
* *
20839906 AAAATATTAAACAAAATA
1 AAAATATAAAAAAAAATA
20839924 AAAATATAAAAAATAAATA
1 AAAATATAAAAAA-AAATA
20839943 AAAA
1 AAAA
20839947 AATTAAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATATAAAAAAAAATA
Found at i:20839954 original size:19 final size:18
Alignment explanation
Indices: 20839906--20839954 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
20839896 AATGTAACCT
*
20839906 AAAATATTAAACAAAATA
1 AAAATATTAAAAAAAATA
*
20839924 AAAATATAAAAAATAAATA
1 AAAATATTAAAAA-AAATA
*
20839943 AAAAAATTAAAA
1 AAAATATTAAAA
20839955 GGATGAGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATATTAAAAAAAATA
Found at i:20840803 original size:19 final size:19
Alignment explanation
Indices: 20840775--20840811 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20840765 CATTGTTATA
*
20840775 TCATCATGTCAGTGCCACT
1 TCATCATGTCAATGCCACT
*
20840794 TCATCGTGTCAATGCCAC
1 TCATCATGTCAATGCCAC
20840812 ATAGTACTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (19 bp):
TCATCATGTCAATGCCACT
Found at i:20842584 original size:15 final size:15
Alignment explanation
Indices: 20842550--20842589 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
20842540 AGATAAAGTT
* *
20842550 TTATTTA-ATTTTTT
1 TTATTTATATTATTA
20842564 TTATTTATATTATTA
1 TTATTTATATTATTA
20842579 TTATTTATATT
1 TTATTTATATT
20842590 TATTTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTATATTATTA
Found at i:20842755 original size:15 final size:16
Alignment explanation
Indices: 20842735--20842764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20842725 CTGTTATGTA
20842735 GATTTT-ATTTTTAAT
1 GATTTTAATTTTTAAT
20842750 GATTTTAATTTTTAA
1 GATTTTAATTTTTAA
20842765 AAATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (16 bp):
GATTTTAATTTTTAAT
Found at i:20844620 original size:121 final size:122
Alignment explanation
Indices: 20844405--20844648 Score: 436
Period size: 121 Copynumber: 2.0 Consensus size: 122
20844395 CAAGGCCAAT
*
20844405 TTTTTAAATGAGAAACCCCTTTTCCCTTATAGCCAAGTAATCTTCAAAAAGGCTACCAAATCTCT
1 TTTTTAAATGAGAAACCCCTTCTCCCTTATAGCCAAGTAATCTTCAAAAAGGCTACCAAATCTCT
* * *
20844470 ATATATATTTACTGCATTCATTTATTCATTCAAGCTGTTGCATGTAAATTCCATCAA
66 ATATATATTTACTCCATTCATTTATTCATTCAAGCGGCTGCATGTAAATTCCATCAA
*
20844527 TTTTTAAATGAGAAACCCC-TCTCCCTTATAGCCACGTAATCTTCAAAAAGGCTACCAAATCTCT
1 TTTTTAAATGAGAAACCCCTTCTCCCTTATAGCCAAGTAATCTTCAAAAAGGCTACCAAATCTCT
20844591 ATATATATTTACTCCATTCATTTATTCATTCAAGCGGCTGCATGTAAATTCCATCAA
66 ATATATATTTACTCCATTCATTTATTCATTCAAGCGGCTGCATGTAAATTCCATCAA
20844648 T
1 T
20844649 CTATGTATCT
Statistics
Matches: 117, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
121 98 0.84
122 19 0.16
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (122 bp):
TTTTTAAATGAGAAACCCCTTCTCCCTTATAGCCAAGTAATCTTCAAAAAGGCTACCAAATCTCT
ATATATATTTACTCCATTCATTTATTCATTCAAGCGGCTGCATGTAAATTCCATCAA
Found at i:20848801 original size:15 final size:16
Alignment explanation
Indices: 20848775--20848804 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20848765 TTTTTAATTT
20848775 TTAAAAATTAAAATCA
1 TTAAAAATTAAAATCA
20848791 TTAAAAA-TAAAATC
1 TTAAAAATTAAAATC
20848805 CACATAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAATCA
Found at i:20849826 original size:2 final size:2
Alignment explanation
Indices: 20849819--20849844 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20849809 TGCAGTGTAA
20849819 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
20849845 TTAAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20851398 original size:13 final size:13
Alignment explanation
Indices: 20851380--20851409 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20851370 TGCTAATTGA
*
20851380 TTTCTTTTTTTTT
1 TTTCTTTTTTATT
20851393 TTTCTTTTTTATT
1 TTTCTTTTTTATT
20851406 TTTC
1 TTTC
20851410 CCTATAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTCTTTTTTATT
Found at i:20869269 original size:40 final size:40
Alignment explanation
Indices: 20869223--20869324 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
20869213 GCATCATCTT
*
20869223 TGGTACAAATATATGATTCAGTATGCTGTTTTATTAAGTA
1 TGGTACAGATATATGATTCAGTATGCTGTTTTATTAAGTA
*
20869263 TGGTACAGATATATGATTCAGTATGCTGTTTTATTAAGTT
1 TGGTACAGATATATGATTCAGTATGCTGTTTTATTAAGTA
* *
20869303 TGGTACAGATACATTATTCAGT
1 TGGTACAGATATATGATTCAGT
20869325 GTTTCTCCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (40 bp):
TGGTACAGATATATGATTCAGTATGCTGTTTTATTAAGTA
Found at i:20869960 original size:6 final size:6
Alignment explanation
Indices: 20869949--20869973 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20869939 AGCAGCGCCT
20869949 GCAGGG GCAGGG GCAGGG GCAGGG G
1 GCAGGG GCAGGG GCAGGG GCAGGG G
20869974 GGGGCTCACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.68, T:0.00
Consensus pattern (6 bp):
GCAGGG
Found at i:20870869 original size:63 final size:63
Alignment explanation
Indices: 20870788--20870908 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 63
20870778 GGTCATCTTT
* * *
20870788 CTCTCTCAACTCTCTGAACTGTCTCAACTCTGGCAAGTCTCTGTTGAGCACCATCGTCGCCAG
1 CTCTCTCAACTCTCTGAACGGTATCAACTCTGGCAACTCTCTGTTGAGCACCATCGTCGCCAG
* * * *
20870851 CTCTCTCAGA-TCTTTGAACGGTATGAGCTCTGTCAACTCTCTGTTGAGCACCATCGTC
1 CTCTCTCA-ACTCTCTGAACGGTATCAACTCTGGCAACTCTCTGTTGAGCACCATCGTC
20870909 ATCGGGCTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 49 0.98
64 1 0.02
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.31
Consensus pattern (63 bp):
CTCTCTCAACTCTCTGAACGGTATCAACTCTGGCAACTCTCTGTTGAGCACCATCGTCGCCAG
Found at i:20871567 original size:31 final size:31
Alignment explanation
Indices: 20871268--20871559 Score: 397
Period size: 31 Copynumber: 9.4 Consensus size: 31
20871258 CACGACATTG
* * *
20871268 ATGCATGGCGTGTCACGACATTTGAC-TTGAT
1 ATGCATGGCGTGTTACCACATTTTACGTT-AT
* *
20871299 ATGCATGGCGTGTTACAACATTTAACGTTAT
1 ATGCATGGCGTGTTACCACATTTTACGTTAT
*
20871330 ATGCATGGCGTGTTACCACATTTTATGTTAT
1 ATGCATGGCGTGTTACCACATTTTACGTTAT
* * *
20871361 ATGCATGGCGTGTTACCACATTTTTCATTAA
1 ATGCATGGCGTGTTACCACATTTTACGTTAT
*
20871392 ATGCATGGCGTGTTACCACATTTTATGTTAT
1 ATGCATGGCGTGTTACCACATTTTACGTTAT
*
20871423 ATGCATGGCGTGTTACCACATTTTACGCTAT
1 ATGCATGGCGTGTTACCACATTTTACGTTAT
* * *
20871454 ATGCATGGGGTGTTACAACATTTTACGCTAT
1 ATGCATGGCGTGTTACCACATTTTACGTTAT
* *
20871485 ATGCATGACGTGTGACCACATTTTACGTTAT
1 ATGCATGGCGTGTTACCACATTTTACGTTAT
*
20871516 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTTACCACATTTTACGTTAT
* *
20871547 ATACATGACGTGT
1 ATGCATGGCGTGT
20871560 AACAACATGA
Statistics
Matches: 232, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
31 230 0.99
32 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (31 bp):
ATGCATGGCGTGTTACCACATTTTACGTTAT
Found at i:20876374 original size:31 final size:31
Alignment explanation
Indices: 20876331--20876400 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
20876321 GCCAATTTTG
*
20876331 GTGACACACTGAGTGCAA-GTAGACTTATGGC
1 GTGACACACTGAGT-CAATGCAGACTTATGGC
* * *
20876362 GTGACACGCTGAGTTAATGCAGACTTATGGT
1 GTGACACACTGAGTCAATGCAGACTTATGGC
20876393 GTGACACA
1 GTGACACA
20876401 TTGACTTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (31 bp):
GTGACACACTGAGTCAATGCAGACTTATGGC
Found at i:20876429 original size:117 final size:115
Alignment explanation
Indices: 20876221--20876464 Score: 353
Period size: 117 Copynumber: 2.1 Consensus size: 115
20876211 AGTGGATGTT
* * * *
20876221 ACACTGAGTGCATGCAGACTTGGCGTAACATGCTGAGTTAATGCAGACTTCTGGCGTGACACGCT
1 ACACTGAGTGCAAGCAGACTTGGCGTAACACGCTGAGTTAATGCAGACTTATGGCGTGACACACT
* * * *
20876286 GACTTGTTACATTCTTGTGGGGTGACATGGCAGGGGCCAATTTTGGTGAC
66 GACTTGTTACAGTCTTGTGGGATGACACGGCAGGGGCCAATTGTGGTGAC
* * *
20876336 ACACTGAGTGCAAGTAGACTTATGGCGTGACACGCTGAGTTAATGCAGACTTATGGTGTGACACA
1 ACACTGAGTGCAAGCAGAC-T-TGGCGTAACACGCTGAGTTAATGCAGACTTATGGCGTGACACA
* *
20876401 TTGACTTGTTGCAGTCTTGTGGGATGACACGGCAGGGGCCAATTGTGGTGAC
64 CTGACTTGTTACAGTCTTGTGGGATGACACGGCAGGGGCCAATTGTGGTGAC
20876453 ACACTGAGTGCA
1 ACACTGAGTGCA
20876465 TCCAAATACT
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 17 0.15
116 1 0.01
117 96 0.84
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (115 bp):
ACACTGAGTGCAAGCAGACTTGGCGTAACACGCTGAGTTAATGCAGACTTATGGCGTGACACACT
GACTTGTTACAGTCTTGTGGGATGACACGGCAGGGGCCAATTGTGGTGAC
Found at i:20878703 original size:31 final size:31
Alignment explanation
Indices: 20878668--20878752 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
20878658 AGAAAGAAAT
*
20878668 AAATGTTGTTACACGCCATGCATATCAAGTA
1 AAATGTTGTAACACGCCATGCATATCAAGTA
*
20878699 AAATGTTGTAACACGCCATGCATATCAAGTC
1 AAATGTTGTAACACGCCATGCATATCAAGTA
* *
20878730 AAATGTCGTGACACGCCATGCAT
1 AAATGTTGTAACACGCCATGCAT
20878753 CAGTGTCGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (31 bp):
AAATGTTGTAACACGCCATGCATATCAAGTA
Found at i:20878844 original size:55 final size:55
Alignment explanation
Indices: 20878785--20878963 Score: 209
Period size: 55 Copynumber: 3.3 Consensus size: 55
20878775 CCCATGTGAC
* * * *
20878785 CAGTTAACCCACAACATACCAAGAACAGCTGTGACACGCCAAAAACCC-ATAAAT
1 CAGTTAACCCACAACATGCCAGGAACAGCTGTGACACGCTAAAAACCCAAAAAAT
* * * *
20878839 CCAGTTAACCCACGACATGCTAGGAACAGCCGTGACACGCTAAAGACCCAAAAAAT
1 -CAGTTAACCCACAACATGCCAGGAACAGCTGTGACACGCTAAAAACCCAAAAAAT
* * * * *
20878895 CAGTAAACCCACAACACGTCAGGAATAG-TCGTGACATGCTAAAAACCCAAAAAAT
1 CAGTTAACCCACAACATGCCAGGAACAGCT-GTGACACGCTAAAAACCCAAAAAAT
20878950 CAGTTAACCCACAA
1 CAGTTAACCCACAA
20878964 TGCGCCATAT
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
55 99 0.95
56 5 0.05
ACGTcount: A:0.43, C:0.30, G:0.14, T:0.13
Consensus pattern (55 bp):
CAGTTAACCCACAACATGCCAGGAACAGCTGTGACACGCTAAAAACCCAAAAAAT
Found at i:20879437 original size:23 final size:23
Alignment explanation
Indices: 20879400--20879460 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
20879390 TTCTTTCACA
20879400 CCATGGTGTGTCACATATTAAAC
1 CCATGGTGTGTCACATATTAAAC
* *
20879423 CCATGGCGTGCCACATATTAAAC
1 CCATGGTGTGTCACATATTAAAC
20879446 CCATGGTGTGTCACA
1 CCATGGTGTGTCACA
20879461 CGTTCAAGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (23 bp):
CCATGGTGTGTCACATATTAAAC
Found at i:20879472 original size:23 final size:23
Alignment explanation
Indices: 20879400--20879508 Score: 85
Period size: 23 Copynumber: 4.7 Consensus size: 23
20879390 TTCTTTCACA
* *
20879400 CCATGGTGTGTCACATATTAAAC
1 CCATGGCGTGTCACACATTAAAC
* *
20879423 CCATGGCGTGCCACATATTAAAC
1 CCATGGCGTGTCACACATTAAAC
* * * *
20879446 CCATGGTGTGTCACACGTTCAAG
1 CCATGGCGTGTCACACATTAAAC
* * * *
20879469 CCATGCCGTGTCCCACGTTTTAA-
1 CCATGGCGTGTCACAC-ATTAAAC
*
20879492 CCATGGCGTGTCCCACA
1 CCATGGCGTGTCACACA
20879509 CTCTAAACGC
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
23 66 0.94
24 4 0.06
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (23 bp):
CCATGGCGTGTCACACATTAAAC
Found at i:20879617 original size:104 final size:104
Alignment explanation
Indices: 20879475--20880001 Score: 553
Period size: 104 Copynumber: 5.1 Consensus size: 104
20879465 CAAGCCATGC
* * * * * * **
20879475 CGTGTCCCACGTTTTAACCATGGCGTGTCCCACACTCTAAACGCTGCCGTGTCATACCCGTCCCA
1 CGTGTCACACGTTCTCACCATGGCGTGTCACACACTCTAAACCCTGCCGTGTCACACCCGTGTCA
* *
20879540 CATATTCTCACCGTGCCGTCTCAGACATTATCACCCTGT
66 CACATTCTCACCGTGCCGTCTCACACATTATCACCCTGT
* * * **
20879579 CGTGTCACA-GATTCTCTCCATGGCATGTCACACACTCTAAACCCTACCGTGTCACACTGGTGTC
1 CGTGTCACACG-TTCTCACCATGGCGTGTCACACACTCTAAACCCTGCCGTGTCACACCCGTGTC
* * * * * *
20879643 AAACATTATCACTGTGCTGTTTCACACATTATGACCCTGT
65 ACACATTCTCACCGTGCCGTCTCACACATTATCACCCTGT
* * * * *
20879683 CGTGTCACACGTTCTGACCATAGTGTGTCACACACTCTAAACGCTGTCGTGTCACACCCGTGTCA
1 CGTGTCACACGTTCTCACCATGGCGTGTCACACACTCTAAACCCTGCCGTGTCACACCCGTGTCA
* * * *
20879748 CATATTCTTACCGTGCCATCGCACACATTATCACCCTGT
66 CACATTCTCACCGTGCCGTCTCACACATTATCACCCTGT
* * * *
20879787 CGTGTCACA-GATTCCCTCCATGGCGTGTCACACACTCTAAACCTTGTCGTGTCACACCCGTGTC
1 CGTGTCACACG-TTCTCACCATGGCGTGTCACACACTCTAAACCCTGCCGTGTCACACCCGTGTC
* * * * * * *
20879851 ACACATTATCACTGTGCCGTTTCACATATTATAACCTTCT
65 ACACATTCTCACCGTGCCGTCTCACACATTATCACCCTGT
* * * *
20879891 CATGTCACACG-TCTGACCATGGCGTGTCACAAACTCTAAACCCTGCCGTGTCACACCCTTGT--
1 CGTGTCACACGTTCTCACCATGGCGTGTCACACACTCTAAACCCTGCCGTGTCACACCCGTGTCA
* * *
20879953 CACATTCTCACCCTGCCCTCTCACACATTAGCACCCTGAT
66 CACATTCTCACCGTGCCGTCTCACACATTATCACCCTG-T
20879993 -GTGTCACAC
1 CGTGTCACAC
20880002 ACTCTAAACC
Statistics
Matches: 340, Mismatches: 78, Indels: 13
0.79 0.18 0.03
Matches are distributed among these distances:
101 36 0.11
102 1 0.00
103 46 0.14
104 255 0.75
105 2 0.01
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (104 bp):
CGTGTCACACGTTCTCACCATGGCGTGTCACACACTCTAAACCCTGCCGTGTCACACCCGTGTCA
CACATTCTCACCGTGCCGTCTCACACATTATCACCCTGT
Found at i:20879690 original size:23 final size:23
Alignment explanation
Indices: 20879664--20879739 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
20879654 CTGTGCTGTT
20879664 TCACACATTATGACCCTGTCGTG
1 TCACACATTATGACCCTGTCGTG
* * *
20879687 TCACACGTTCTGACCATAGT-GTG
1 TCACACATTATGACCCT-GTCGTG
* *
20879710 TCACACACTCTA-AACGCTGTCGTG
1 TCACACA-T-TATGACCCTGTCGTG
20879734 TCACAC
1 TCACAC
20879740 CCGTGTCACA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
23 25 0.61
24 15 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.28
Consensus pattern (23 bp):
TCACACATTATGACCCTGTCGTG
Found at i:20879863 original size:208 final size:208
Alignment explanation
Indices: 20879475--20880000 Score: 709
Period size: 208 Copynumber: 2.5 Consensus size: 208
20879465 CAAGCCATGC
* * * * * **
20879475 CGTGTCCCACGTTTTAACCATGGCGTGTCCCACACTCTAAACGCTGCCGTGTCATACCCGTCCCA
1 CGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGCCGTGTCACACCCGTGTCA
* * *
20879540 CATATTCTCACCGTGCCGTCTCAGACATTATCACCCTGTCGTGTCACAGATTCTCTCCATGGCAT
66 CATATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCATGGCAT
** *
20879605 GTCACACACTCTAAACCCTACCGTGTCACACTGGTGTCAAACATTATCACTGTGCTGTTTCACAC
131 GTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCAAACATTATCACTGTGCCGTTTCACAC
* *
20879670 ATTATGACCCTGT
196 ATTATAACCCTCT
* * *
20879683 CGTGTCACACGTTCTGACCATAGTGTGTCACACACTCTAAACGCTGTCGTGTCACACCCGTGTCA
1 CGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGCCGTGTCACACCCGTGTCA
* * *
20879748 CATATTCTTACCGTGCCATCGCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCATGGCGT
66 CATATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCATGGCAT
* ** * *
20879813 GTCACACACTCTAAACCTTGTCGTGTCACACCCGTGTCACACATTATCACTGTGCCGTTTCACAT
131 GTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCAAACATTATCACTGTGCCGTTTCACAC
*
20879878 ATTATAACCTTCT
196 ATTATAACCCTCT
* * * *
20879891 CATGTCACACG-TCTGACCATGGCGTGTCACAAACTCTAAACCCTGCCGTGTCACACCCTTGTCA
1 CGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGCCGTGTCACACCCGTGTCA
* * *
20879955 C--ATTCTCACCCTGCCCTCTCACACATTAGCACCCTGAT-GTGTCACA
66 CATATTCTCACCGTGCCATCTCACACATTATCACCCTG-TCGTGTCACA
20880001 CACTCTAAAC
Statistics
Matches: 278, Mismatches: 39, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
205 38 0.14
206 1 0.00
207 48 0.17
208 191 0.69
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (208 bp):
CGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACGCTGCCGTGTCACACCCGTGTCA
CATATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCATGGCAT
GTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCAAACATTATCACTGTGCCGTTTCACAC
ATTATAACCCTCT
Found at i:20880918 original size:81 final size:79
Alignment explanation
Indices: 20880812--20880981 Score: 279
Period size: 81 Copynumber: 2.1 Consensus size: 79
20880802 TTTTATTATT
*
20880812 AAATAAAAAAAATCAAAATCTTAAAAAAATATGATAATAATAAATAAATAACAAAAAAAAAAAAG
1 AAATAAAAAAAATAAAAATCTTAAAAAAATATGATAATAATAAATAAATAACAAAAAAAAAAAAG
20880877 AGATAAAAACCAAAA
66 AGATAAAAACC-AAA
* *
20880892 AAATAAAAAAAGA-AAANAATCTTAAAAAAATATGATAATAATAAATAAATAACAAAATATAAAA
1 AAATAAAAAAA-ATAAA-AATCTTAAAAAAATATGATAATAATAAATAAATAACAAAAAAAAAAA
20880956 AGAGATAAAAACCAAA
64 AGAGATAAAAACCAAA
20880972 AAATAAAAAA
1 AAATAAAAAA
20880982 GAATTCAAAT
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
80 26 0.31
81 59 0.69
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.16
Consensus pattern (79 bp):
AAATAAAAAAAATAAAAATCTTAAAAAAATATGATAATAATAAATAAATAACAAAAAAAAAAAAG
AGATAAAAACCAAA
Found at i:20889304 original size:12 final size:11
Alignment explanation
Indices: 20889287--20889340 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
20889277 ATATTCATTG
20889287 TTATTATCTTTT
1 TTATTAT-TTTT
20889299 TTATTATTTTT
1 TTATTATTTTT
* *
20889310 TAATTA--TTA
1 TTATTATTTTT
20889319 TTATTATTTTAT
1 TTATTATTTT-T
20889331 TTATT-TTTTT
1 TTATTATTTTT
20889341 AATTATATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 7 0.20
10 1 0.03
11 15 0.43
12 12 0.34
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTTTT
Found at i:20889320 original size:29 final size:30
Alignment explanation
Indices: 20889287--20889346 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
20889277 ATATTCATTG
*
20889287 TTATTATCTTTTTTA-TTA-TTTTTTAATTA
1 TTATTAT-TATTTTATTTATTTTTTTAATTA
20889316 TTATTATTATTTTATTTATTTTTTTAATTA
1 TTATTATTATTTTATTTATTTTTTTAATTA
20889346 T
1 T
20889347 ATACATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.21
29 10 0.36
30 12 0.43
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (30 bp):
TTATTATTATTTTATTTATTTTTTTAATTA
Found at i:20889321 original size:17 final size:18
Alignment explanation
Indices: 20889299--20889335 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20889289 ATTATCTTTT
20889299 TTATTATT-TTTTAATTA
1 TTATTATTATTTTAATTA
*
20889316 TTATTATTATTTTATTTA
1 TTATTATTATTTTAATTA
20889334 TT
1 TT
20889336 TTTTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTATTATTTTAATTA
Found at i:20891360 original size:60 final size:60
Alignment explanation
Indices: 20891228--20892334 Score: 1165
Period size: 60 Copynumber: 18.6 Consensus size: 60
20891218 AAGTTTGATT
* * * * * * * *
20891228 TAGGCACGACCTATCTTAAAATAGGTTTGATTT-AAAATTTGAAATTCTTAAACTTAATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * ** * *
20891287 TAAGCTCGACCTATCTCAAAATAGGTTCGATTTAAAAAATTAAAATTTTTAAACTTGATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * * ** * *
20891347 TAAGCTCAACCTATCTCAGAATAGGTTTGATTT-AGGAATTGAAATTCCTAGATTTAATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * * * *
20891406 TAGGCTCAACCTATCTCAAAATAGGTTCGATTTAAAAAATTAAAATTTCTAAACTTAATT
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * ** * **
20891466 TAGGCTTGACCTATC-CTAGAATAGGTTTGATTTAAAAGTTTGAAATTCCTCTACTTAATC
1 TAGGCTCGACCTATCTC-AGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * * * * * *
20891526 TAGGATCGGCCTATCTCAGAACATGTTCGAGTTTAAAAAATTGAAATTCTTAGACTTAATT
1 TAGGCTCGACCTATCTCAGAATAGGTTCGA-TTTAAAAAATTAAAATTCCTAGACTTAATC
* * * *
20891587 TAGGCTCGACCTATCTTAGAACAGGTTCGATTTAAAAAATGAGAATTCCTAGACTTAATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * *
20891647 TAGGCTCGACCTATCTCAGAATAGGTTTGATTT-AAAAA-TAGGAATTCTTAGACTTAATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTA-AAATTCCTAGACTTAATC
* * * * * *
20891706 TAGGCTCGACCTATCTCAGAACATGTTCGATTTAAAAAATGAGAATTCCTAAACTTAATA
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
** * * * *
20891766 TAGGCTTAACCTATCTCAAAATAGGTTCGATTTAAAAAATGAGAATTCTTAGACTTAATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * *
20891826 TAGGCTCGACCTATCTCA-AACAGGTTCGA-TTAAAAAATTAAAATTTCTAGACTTGATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * *
20891884 TAGGCTCGACCTATCTCACAATAGGTTCGATTTAAAAACTTAAAATTCCTAGACTTGATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * * * *
20891944 TAGGCTCGACTTATCTCACAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATT
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * * * * *
20892004 TAGGCTCGACCTATGTTAGAACAGGTTCGATTT-AAAACTTGAAATTCCTAGACTTGATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * ** * * ** *
20892063 TAGGCTCGACCTATTTCACAGCAGGTTCGATTTAAAAGATTGAAATTATTAGACTTAATT
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * * * * *
20892123 TAGGCTTGACTTATATCAGAACAGATTCGATTT-AAAAATTAAAATTCCTAGACTTGATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * ** * * *
20892182 TAGACTCGACCTATCTCACAATAGGTTCGATTTAAAAAATTAAAATTTTTAAATTTGATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* * * * *
20892242 TAGGCTCGACCTATCTCACAATAGGTTCGATTT-AAAAA-TGAAATTTCTAAACTTGATC
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
* *
20892300 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
1 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAA
20892335 TTCTTTAATG
Statistics
Matches: 890, Mismatches: 145, Indels: 26
0.84 0.14 0.02
Matches are distributed among these distances:
58 92 0.10
59 252 0.28
60 494 0.56
61 52 0.06
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (60 bp):
TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTAATC
Found at i:20891418 original size:119 final size:119
Alignment explanation
Indices: 20891222--20892334 Score: 1198
Period size: 119 Copynumber: 9.3 Consensus size: 119
20891212 ATTTCTAAGT
* * * * * * * *
20891222 TTGATTTAGGCACGACCTATCTTAAAATAGGTTTGATTTAAAATTTGAAATTCTTAAACTTAATC
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAAACTTAATC
* * ** *
20891287 TAAGCTCGACCTATCTCAAAATAGGTTCGATTTAAAAAATTAAAATTTTTAAAC
66 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGAC
* * * * * ** * *
20891341 TTGATCTAAGCTCAACCTATCTCAGAATAGGTTTGATTTAGGAATTGAAATTCCTAGATTTAATC
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAAACTTAATC
* * * *
20891406 TAGGCTCAACCTATCTCAAAATAGGTTCGATTTAAAAAATTAAAATTTCTAAAC
66 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGAC
* * * * * * * **
20891460 TTAATTTAGGCTTGACCTATC-CTAGAATAGGTTTGATTTAAAAGTTTGAAATTCCTCTACTTAA
1 TTGATCTAGGCTCGACCTATCTC-ACAACAGGTTCGATTTAAAA-ATTGAAATTCCTAAACTTAA
* * * * * *
20891524 TCTAGGATCGGCCTATCTCAGAACATGTTCGAGTTTAAAAAATTGAAATTCTTAGAC
64 TCTAGGCTCGACCTATCTCAGAATAGGTTCGA-TTTAAAAAATTAAAATTCCTAGAC
* * * * * *
20891581 TTAATTTAGGCTCGACCTATCTTAGAACAGGTTCGATTTAAAAAATGAGAATTCCTAGACTTAAT
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGA-AATTCCTAAACTTAAT
* * *
20891646 CTAGGCTCGACCTATCTCAGAATAGGTTTGATTT-AAAAA-TAGGAATTCTTAGAC
65 CTAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTA-AAATTCCTAGAC
* * * *
20891700 TTAATCTAGGCTCGACCTATCTCAGAACATGTTCGATTTAAAAAATGAGAATTCCTAAACTTAAT
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGA-AATTCCTAAACTTAAT
* ** * * * *
20891765 ATAGGCTTAACCTATCTCAAAATAGGTTCGATTTAAAAAATGAGAATTCTTAGAC
65 CTAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGAC
* * * * * *
20891820 TTAATCTAGGCTCGACCTATCTCA-AACAGGTTCGATTAAAAAATTAAAATTTCTAGACTTGATC
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAAACTTAATC
* *
20891884 TAGGCTCGACCTATCTCACAATAGGTTCGATTTAAAAACTTAAAATTCCTAGAC
66 TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGAC
* *
20891938 TTGATCTAGGCTCGACTTATCTCACAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAAT
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTT-AAAAATTGAAATTCCTAAACTTAAT
* * * * * *
20892003 TTAGGCTCGACCTATGTTAGAACAGGTTCGATTT-AAAACTTGAAATTCCTAGAC
65 CTAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGAC
* * ** *
20892057 TTGATCTAGGCTCGACCTATTTCACAGCAGGTTCGATTTAAAAGATTGAAATTATTAGACTTAAT
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAA-ATTGAAATTCCTAAACTTAAT
* * * * * *
20892122 TTAGGCTTGACTTATATCAGAACAGATTCGATTT-AAAAATTAAAATTCCTAGAC
65 CTAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGAC
* * * ** * *
20892176 TTGATCTAGACTCGACCTATCTCACAATAGGTTCGATTTAAAAAATTAAAATTTTTAAATTTGAT
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTT-AAAAATTGAAATTCCTAAACTTAAT
* * * *
20892241 CTAGGCTCGACCTATCTCACAATAGGTTCGATTT-AAAAA-TGAAATTTCTAAAC
65 CTAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGAC
20892294 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
1 TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
20892335 TTCTTTAATG
Statistics
Matches: 859, Mismatches: 123, Indels: 26
0.85 0.12 0.03
Matches are distributed among these distances:
117 2 0.00
118 136 0.16
119 478 0.56
120 144 0.17
121 99 0.12
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (119 bp):
TTGATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAAACTTAATC
TAGGCTCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGAC
Found at i:20891541 original size:179 final size:179
Alignment explanation
Indices: 20891228--20892334 Score: 1233
Period size: 179 Copynumber: 6.2 Consensus size: 179
20891218 AAGTTTGATT
* * * * * * * *
20891228 TAGGCACGACCTATCTTAAAATAGGTTTGATTT-AAAATTTGAAATTCTTAAACTTAATCTAAGC
1 TAGGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATCTAGGC
* ** * * *
20891292 TCGACCTATCTCAAAATAGGTTCGATTTAAAAAATTAAAATTTTTAAACTTGATCTAAGCTCAAC
66 TCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTGATCTAGGCTCGAC
* * * ** *
20891357 CTATCTCAGAATAGGTTTGATTTAGGAATTGAAATTCCTAGATTTAATC
131 CTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
* * * *
20891406 TAGGCTCAACCTATCTCAAAATAGGTTCGATTTAAAAAATTAAAATTTCTAAACTTAATTTAGGC
1 TAGGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATCTAGGC
* * ** * ** * * *
20891471 TTGACCTATC-CTAGAATAGGTTTGATTTAAAAGTTTGAAATTCCTCTACTTAATCTAGGATCGG
66 TCGACCTATCTC-AGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTGATCTAGGCTCGA
* * * *
20891535 CCTATCTCAGAACATGTTCGAGTTTAAAAAATTGAAATTCTTAGACTTAATT
130 CCTATCTCACAACAGGTTCGA-TTT-AAAAATTGAAATTCCTAGACTTAATC
* * * * *
20891587 TAGGCTCGACCTATCTTAGAACAGGTTCGATTTAAAAAATGAGAATTCCTAGACTTAATCTAGGC
1 TAGGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATCTAGGC
* * * *
20891652 TCGACCTATCTCAGAATAGGTTTGATTT-AAAAA-TAGGAATTCTTAGACTTAATCTAGGCTCGA
66 TCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTA-AAATTCCTAGACTTGATCTAGGCTCGA
* * * * *
20891715 CCTATCTCAGAACATGTTCGATTTAAAAAATGAGAATTCCTAAACTTAATA
130 CCTATCTCACAACAGGTTCGATTTAAAAATTGA-AATTCCTAGACTTAATC
** * * * * *
20891766 TAGGCTTAACCTATCTCAAAATAGGTTCGATTTAAAAAATGAGAATTCTTAGACTTAATCTAGGC
1 TAGGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATCTAGGC
* *
20891831 TCGACCTATCTCA-AACAGGTTCGA-TTAAAAAATTAAAATTTCTAGACTTGATCTAGGCTCGAC
66 TCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTGATCTAGGCTCGAC
* * *
20891894 CTATCTCACAATAGGTTCGATTTAAAAACTTAAAATTCCTAGACTTGATC
131 CTATCTCACAACAGGTTCGATTTAAAAA-TTGAAATTCCTAGACTTAATC
* * *
20891944 TAGGCTCGACTTATCTCACAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATTTAGGC
1 TAGGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATCTAGGC
* * * * *
20892009 TCGACCTATGTTAGAACAGGTTCGATTT-AAAACTTGAAATTCCTAGACTTGATCTAGGCTCGAC
66 TCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTGATCTAGGCTCGAC
* * ** *
20892073 CTATTTCACAGCAGGTTCGATTTAAAAGATTGAAATTATTAGACTTAATT
131 CTATCTCACAACAGGTTCGATTTAAAA-ATTGAAATTCCTAGACTTAATC
* * * * * * * *
20892123 TAGGCTTGACTTATATCAGAACAGATTCGATTT-AAAAATTAAAATTCCTAGACTTGATCTAGAC
1 TAGGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATCTAGGC
* ** * *
20892187 TCGACCTATCTCACAATAGGTTCGATTTAAAAAATTAAAATTTTTAAATTTGATCTAGGCTCGAC
66 TCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTGATCTAGGCTCGAC
* * * *
20892252 CTATCTCACAATAGGTTCGATTTAAAAA-TGAAATTTCTAAACTTGATC
131 CTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
*
20892300 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
1 TAGGCTCGACCTATCTCAAAACAGGTTCGATTTAA
20892335 TTCTTTAATG
Statistics
Matches: 784, Mismatches: 130, Indels: 30
0.83 0.14 0.03
Matches are distributed among these distances:
177 45 0.06
178 234 0.30
179 351 0.45
180 51 0.07
181 102 0.13
182 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (179 bp):
TAGGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAATTAAAATTCCTAAACTTAATCTAGGC
TCGACCTATCTCAGAATAGGTTCGATTTAAAAAATTAAAATTCCTAGACTTGATCTAGGCTCGAC
CTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
Found at i:20903526 original size:21 final size:19
Alignment explanation
Indices: 20903502--20903546 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
20903492 TTATATATTC
*
20903502 ATTATTATTATCTTTTTTTT
1 ATTATTATTAT-TATTTTTT
20903522 AATTATTATTATTATTTTTT
1 -ATTATTATTATTATTTTTT
20903542 ATTAT
1 ATTAT
20903547 ATACATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 11 0.48
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTATTATTATTATTTTTT
Found at i:20912306 original size:16 final size:18
Alignment explanation
Indices: 20912276--20912309 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20912266 CAAACTATTA
20912276 GTTTCTCTCTAATTTTGT
1 GTTTCTCTCTAATTTTGT
20912294 GTTTCTCT-T-ATTTTGT
1 GTTTCTCTCTAATTTTGT
20912310 TTGACTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.09, C:0.15, G:0.12, T:0.65
Consensus pattern (18 bp):
GTTTCTCTCTAATTTTGT
Found at i:20913498 original size:25 final size:26
Alignment explanation
Indices: 20913468--20913526 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
20913458 TGCAACCAAG
* *
20913468 TATATCAACTTGTGGCCTAGCCA-CA
1 TATATCAACCTGTGACCTAGCCAGCA
*
20913493 TATATCAACCTGTGACCTTGCCATGCA
1 TATATCAACCTGTGACCTAGCCA-GCA
20913520 TATATCA
1 TATATCA
20913527 CAGACTGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 20 0.69
27 9 0.31
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (26 bp):
TATATCAACCTGTGACCTAGCCAGCA
Found at i:20913937 original size:2 final size:2
Alignment explanation
Indices: 20913930--20913976 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
20913920 TAAAACTCTT
*
20913930 TA TA TA TA TG 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
20913972 TA TA T
1 TA TA T
20913977 TACATAAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20914022 original size:2 final size:2
Alignment explanation
Indices: 20914015--20914059 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
20914005 ACTTACTTAT
20914015 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
20914057 TA T
1 TA T
20914060 TCTACATAAA
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:20914072 original size:85 final size:84
Alignment explanation
Indices: 20913929--20914087 Score: 284
Period size: 85 Copynumber: 1.9 Consensus size: 84
20913919 CTAAAACTCT
*
20913929 TTATATATATGTATATATATATATATATATATATATATATATATATATTACATAAACAATTTTGA
1 TTATATATATATATATATATATATATATATATATATATATATATATATTACATAAACAATTTTGA
20913994 AATCAACTTNAACTTACTTA
66 AATCAACTT-AACTTACTTA
20914014 TTATATATATATATATATATATATATATATATATATATATATATAT-TCTACATAAACAATTTTG
1 TTATATATATATATATATATATATATATATATATATATATATATATAT-TACATAAACAATTTTG
20914078 AAATCAACTT
65 AAATCAACTT
20914088 GTATCCACAA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
84 1 0.01
85 71 0.99
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (84 bp):
TTATATATATATATATATATATATATATATATATATATATATATATATTACATAAACAATTTTGA
AATCAACTTAACTTACTTA
Found at i:20917118 original size:20 final size:20
Alignment explanation
Indices: 20917092--20917137 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
20917082 AATCTTACCT
* *
20917092 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
20917113 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
20917134 TTTT
1 TTTT
20917138 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:20917139 original size:22 final size:22
Alignment explanation
Indices: 20917097--20917137 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
20917087 TACCTTTTTT
*
20917097 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
20917119 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
20917138 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:20923040 original size:21 final size:20
Alignment explanation
Indices: 20923016--20923063 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
20923006 AATCTTACCT
* *
20923016 TTTTTCACTTGTTTCTTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
20923037 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
20923058 TTTTTC
1 TTTTTC
20923064 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.58
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:20927955 original size:15 final size:15
Alignment explanation
Indices: 20927935--20927965 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20927925 AGCCTCATAT
20927935 AAAACATATGAAAAC
1 AAAACATATGAAAAC
*
20927950 AAAACATATGAGAAC
1 AAAACATATGAAAAC
20927965 A
1 A
20927966 TAAAGAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAACATATGAAAAC
Found at i:20928280 original size:158 final size:158
Alignment explanation
Indices: 20928086--20928478 Score: 612
Period size: 157 Copynumber: 2.5 Consensus size: 158
20928076 AAAAAAATAA
* ** * * *
20928086 AACTATAAA-ATATCAATACAAATTGTAAATCTAAACCACTAAACCATGAATAACAAAATAAATC
1 AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
*
20928150 AGAGTTAAAAAAAATACTATGACCATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAACT
66 AAAGTTAAAAAAAATACTATGACCATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAACT
* * *
20928215 CAGAACCAAGTATCACTACTATTTCAAT
131 CAAAACCAAGGACCACTACTATTTCAAT
20928243 AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
1 AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
* * *
20928308 AAAGTT-AAAAAAATACTATGATCATTACAGTAAGGGCAAAAAACAAAATAGAGTATCAAAAACT
66 AAAGTTAAAAAAAATACTATGACCATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAACT
*
20928372 CAAAACCGAGGACCACTACTATTTCAAT
131 CAAAACCAAGGACCACTACTATTTCAAT
* *
20928400 AACTGTAAACATATAAATACAAATCATAAACCCAAATCACTAAACCAAGAATAACAAAATAAATC
1 AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
*
20928465 AAAG-CAAAAAAAAT
66 AAAGTTAAAAAAAAT
20928479 GTCATGATCG
Statistics
Matches: 217, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
157 162 0.75
158 55 0.25
ACGTcount: A:0.55, C:0.18, G:0.07, T:0.20
Consensus pattern (158 bp):
AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
AAAGTTAAAAAAAATACTATGACCATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAACT
CAAAACCAAGGACCACTACTATTTCAAT
Found at i:20928486 original size:157 final size:157
Alignment explanation
Indices: 20928086--20928526 Score: 609
Period size: 157 Copynumber: 2.8 Consensus size: 157
20928076 AAAAAAATAA
* ** * * *
20928086 AACTATAAA-ATATCAATACAAATTGTAAATCTAAACCACTAAACCATGAATAACAAAATAAATC
1 AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
* *
20928150 AGAGTTAAAAAAAATACTATGACCATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAACT
66 AAAG-TAAAAAAAATACTATGATCATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAACT
* * *
20928215 CAGAACCAAGTATCACTACTATTTCAAT
130 CAAAACCAAGGACCACTACTATTTCAAT
20928243 AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
1 AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
* * *
20928308 AAAGTTAAAAAAATACTATGATCATTACAGTAAGGGCAAAAAACAAAATAGAGTATCAAAAACTC
66 AAAGTAAAAAAAATACTATGATCATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAACTC
*
20928373 AAAACCGAGGACCACTACTATTTCAAT
131 AAAACCAAGGACCACTACTATTTCAAT
* *
20928400 AACTGTAAACATATAAATACAAATCATAAACCCAAATCACTAAACCAAGAATAACAAAATAAATC
1 AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
* * * * * * * *
20928465 AAAGCAAAAAAAAT-GTCATGATCGA-TACAAGAAGTGCAAATAATAGAACAGAGTACCAAAAA
66 AAAGTAAAAAAAATACT-ATGATC-ATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAA
20928527 ATAAATAAAA
Statistics
Matches: 253, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
156 1 0.00
157 198 0.78
158 54 0.21
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.19
Consensus pattern (157 bp):
AACTGTAAACATATCAATACAAATCATAAACCCAAACCACTAAACCAAGAATAACAAAATAAATC
AAAGTAAAAAAAATACTATGATCATTACAATAAGGGCAAAAAACAAAATAGAGTACCAAAAACTC
AAAACCAAGGACCACTACTATTTCAAT
Found at i:20931785 original size:22 final size:24
Alignment explanation
Indices: 20931757--20931800 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
20931747 TTCATCACTT
*
20931757 ATTCTTA-CAACCA-TATTTCATA
1 ATTCTTATCAACAAGTATTTCATA
20931779 ATTCTTATCAACAAGTATTTCA
1 ATTCTTATCAACAAGTATTTCA
20931801 ATACTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 5 0.26
24 7 0.37
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (24 bp):
ATTCTTATCAACAAGTATTTCATA
Found at i:20932847 original size:38 final size:39
Alignment explanation
Indices: 20932766--20932863 Score: 155
Period size: 38 Copynumber: 2.5 Consensus size: 39
20932756 AACTCATGTT
*
20932766 CATCCCCCCACATCGTGCACATAGCAGGTGCCATCTGTG
1 CATCCCCCCACATCGTGCACATAGCAGGTGCCATCTGTA
*
20932805 CATCCCCCCACATCGTGCACA-ATCA-GTGCCATCGTGTA
1 CATCCCCCCACATCGTGCACATAGCAGGTGCCATC-TGTA
20932843 CATCCCCCCACATCGTGCACA
1 CATCCCCCCACATCGTGCACA
20932864 CAGGCACTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
37 8 0.14
38 27 0.48
39 21 0.38
ACGTcount: A:0.22, C:0.42, G:0.16, T:0.19
Consensus pattern (39 bp):
CATCCCCCCACATCGTGCACATAGCAGGTGCCATCTGTA
Found at i:20932986 original size:2 final size:2
Alignment explanation
Indices: 20932979--20933010 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20932969 ATCATGCACA
20932979 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
20933011 CATCATTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20933869 original size:20 final size:20
Alignment explanation
Indices: 20933844--20933882 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20933834 GAAGAAAAAG
*
20933844 TTGCTGGAAGCTTGAAGAAT
1 TTGCTGGAAACTTGAAGAAT
*
20933864 TTGCTGGAAATTTGAAGAA
1 TTGCTGGAAACTTGAAGAA
20933883 GTTTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (20 bp):
TTGCTGGAAACTTGAAGAAT
Found at i:20936619 original size:66 final size:66
Alignment explanation
Indices: 20936514--20936695 Score: 292
Period size: 66 Copynumber: 2.8 Consensus size: 66
20936504 AAATTGCAGA
* ** *
20936514 CAGAGAGCTCTTAGTCGACTAACTTGACTGACTAAGTTGGTTCTGTTTCTGGTTTGCAAATTCTG
1 CAGAGAGCACTTAGTCGACTAACTTGGTTGACTAAGTTGGTTCTGTTTCTGGTTTGCAAATTCTA
20936579 G
66 G
* * * *
20936580 CAGAAAGCACTTAGTCGACTGACTTGGTTGACTAAGTTGGTTCTATTTCTGGTTTGCAGATTCTA
1 CAGAGAGCACTTAGTCGACTAACTTGGTTGACTAAGTTGGTTCTGTTTCTGGTTTGCAAATTCTA
20936645 G
66 G
20936646 CAGAGAGCACTTAGTCGACTAACTTGGTTGACTAAGTTGGTTCTGTTTCT
1 CAGAGAGCACTTAGTCGACTAACTTGGTTGACTAAGTTGGTTCTGTTTCT
20936696 CAAACTCTTC
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 105 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (66 bp):
CAGAGAGCACTTAGTCGACTAACTTGGTTGACTAAGTTGGTTCTGTTTCTGGTTTGCAAATTCTA
G
Found at i:20966986 original size:56 final size:56
Alignment explanation
Indices: 20966916--20967079 Score: 185
Period size: 56 Copynumber: 3.0 Consensus size: 56
20966906 ACGGAATTCC
* *
20966916 GTTGGAAAAGCATTTCCCAAAGAAAATTCTGTTGGAAATTTGCAATGGAATTTTTT
1 GTTGGAAAAGCATTTCCCAAAGAAAATTCTGTTGGAAATTTCCAACGGAATTTTTT
* ** * *
20966972 GTTGGAATAGCATTTCCCATGGAAAATT-TCGTTGGAAATTTCCAACGGACTTTGTT
1 GTTGGAAAAGCATTTCCCAAAGAAAATTCT-GTTGGAAATTTCCAACGGAATTTTTT
* *
20967028 GTCT-GAAGAGCATTT-CCAACAG-AATTTC-GTTGGAAATTTCCAACGGAATTTT
1 GT-TGGAAAAGCATTTCCCAA-AGAAAATTCTGTTGGAAATTTCCAACGGAATTTT
20967080 CCATTGGTGA
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
54 22 0.24
55 8 0.09
56 60 0.66
57 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (56 bp):
GTTGGAAAAGCATTTCCCAAAGAAAATTCTGTTGGAAATTTCCAACGGAATTTTTT
Found at i:20969517 original size:6 final size:6
Alignment explanation
Indices: 20969508--20969552 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
20969498 AGTTTCTTTG
* * * *
20969508 TCTTCA TCTTCA ACTTCA TTTTCA TCTTCA TCTTTA TTTTCA TCT
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCT
20969553 CCTTCCATGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.56
Consensus pattern (6 bp):
TCTTCA
Found at i:20969533 original size:18 final size:18
Alignment explanation
Indices: 20969510--20969552 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
20969500 TTTCTTTGTC
20969510 TTCATCTTCAACTTCATT
1 TTCATCTTCAACTTCATT
* *
20969528 TTCATCTTCATCTTTATT
1 TTCATCTTCAACTTCATT
20969546 TTCATCT
1 TTCATCT
20969553 CCTTCCATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCATCTTCAACTTCATT
Found at i:20969582 original size:30 final size:30
Alignment explanation
Indices: 20969546--20969605 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20969536 CATCTTTATT
*
20969546 TTCATCTCCTTCCATGTCATCTTTTTCATC
1 TTCATCTCCTTCCATGTCATCTTCTTCATC
* **
20969576 TTCATCTCTTTGTATGTCATCTTCTTCATC
1 TTCATCTCCTTCCATGTCATCTTCTTCATC
20969606 CTCAATCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.13, C:0.30, G:0.05, T:0.52
Consensus pattern (30 bp):
TTCATCTCCTTCCATGTCATCTTCTTCATC
Found at i:20984106 original size:42 final size:42
Alignment explanation
Indices: 20984060--20984142 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
20984050 CATCTCATAT
*
20984060 GCAACGGCTTATGCACACTCTCACTCGCACATAGTCGGGTCA
1 GCAACGGCTTATGCACACTCTCACTCGCACATAGCCGGGTCA
** *
20984102 GCAACGGCTTATGTGCACTCTTACTCGCACATAGCCGGGTC
1 GCAACGGCTTATGCACACTCTCACTCGCACATAGCCGGGTC
20984143 CACATCAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.23
Consensus pattern (42 bp):
GCAACGGCTTATGCACACTCTCACTCGCACATAGCCGGGTCA
Found at i:20994625 original size:18 final size:19
Alignment explanation
Indices: 20994602--20994645 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
20994592 GTTTTTTTTT
20994602 AATTAATAAAA-TATAAAA
1 AATTAATAAAATTATAAAA
*
20994620 AATTAATAAAATTATATAA
1 AATTAATAAAATTATAAAA
*
20994639 TATTAAT
1 AATTAAT
20994646 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTAATAAAATTATAAAA
Found at i:20994638 original size:10 final size:9
Alignment explanation
Indices: 20994602--20994645 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
20994592 GTTTTTTTTT
20994602 AATTAATAA
1 AATTAATAA
20994611 AATATAA-AA
1 AAT-TAATAA
20994620 AATTAATAA
1 AATTAATAA
20994629 AATTATATAA
1 AATTA-ATAA
*
20994639 TATTAAT
1 AATTAAT
20994646 TTTAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 3 0.10
9 17 0.55
10 11 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTAATAA
Found at i:21007417 original size:74 final size:74
Alignment explanation
Indices: 21007339--21007589 Score: 276
Period size: 74 Copynumber: 3.4 Consensus size: 74
21007329 TTAGTTGACC
* * * *
21007339 AAGAAGCATGGTTATTCAACTAAGAGCACATTGCCAGAAATCTTAATTACAAGACAGAGAGAACT
1 AAGAAGCACGATTAGTCAACTAAGAGCACATTGCCAGAAATCTTAATTACAAGATAGAGAGAACT
*
21007404 TAAGT-GACT
66 TAA-TCAACT
* * * * * * *
21007413 AAGAAGCACGATTAGTCAAATAAGAGCTCACTGCCAAAAATCTCAATTACAAGATAGAGGGAACA
1 AAGAAGCACGATTAGTCAACTAAGAGCACATTGCCAGAAATCTTAATTACAAGATAGAGAGAACT
21007478 TAATCAACT
66 TAATCAACT
* * * *
21007487 AAAAAGCACGACTAGTCAACTAAGAGCTCATTGCCAGAAATTTTAAATT-CAAGATAGAGA-AGA
1 AAGAAGCACGATTAGTCAACTAAGAGCACATTGCCAGAAATCTT-AATTACAAGATAGAGAGA-A
21007550 CTTAATCAACT
64 CTTAATCAACT
* *
21007561 AAGAAGGA-TAGTTAGTCAACTAAGAGCAC
1 AAGAAGCACGA-TTAGTCAACTAAGAGCAC
21007590 TCTGTCTGAA
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
73 3 0.02
74 140 0.95
75 4 0.03
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (74 bp):
AAGAAGCACGATTAGTCAACTAAGAGCACATTGCCAGAAATCTTAATTACAAGATAGAGAGAACT
TAATCAACT
Found at i:21012076 original size:13 final size:13
Alignment explanation
Indices: 21012055--21012094 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
21012045 AGTTCCACTC
21012055 GAGAGAAAGAAAA
1 GAGAGAAAGAAAA
21012068 -AGAAGAAAGAAAA
1 GAG-AGAAAGAAAA
*
21012081 GAGAGAAAGGAAA
1 GAGAGAAAGAAAA
21012094 G
1 G
21012095 GAAAGGCTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (13 bp):
GAGAGAAAGAAAA
Found at i:21013451 original size:57 final size:56
Alignment explanation
Indices: 21013372--21013485 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 56
21013362 TATTTTGATT
21013372 ATATGTATATATATATATATATATATATATAAGCTATATACGTAAAGGATTTTTAA
1 ATATGTATATATATATATATATATATATATAAGCTATATACGTAAAGGATTTTTAA
21013428 NATATGTATATATATATATATATATATATATAAGCTATATACGTAAAGGATTTTTAA
1 -ATATGTATATATATATATATATATATATATAAGCTATATACGTAAAGGATTTTTAA
21013485 A
1 A
21013486 CTAGCAAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 1 0.02
57 56 0.98
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (56 bp):
ATATGTATATATATATATATATATATATATAAGCTATATACGTAAAGGATTTTTAA
Found at i:21013468 original size:2 final size:2
Alignment explanation
Indices: 21013371--21013459 Score: 56
Period size: 2 Copynumber: 45.0 Consensus size: 2
21013361 CTATTTTGAT
* **
21013371 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA -A GC 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
** * * * * * *
21013412 CG TA AA GGA TT TT TA -A NA TA TG 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
21013454 TA TA TA
1 TA TA TA
21013460 AGCTATATAC
Statistics
Matches: 67, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
1 2 0.03
2 64 0.96
3 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (2 bp):
TA
Found at i:21020102 original size:17 final size:17
Alignment explanation
Indices: 21020080--21020114 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21020070 AAAAGATCAT
*
21020080 GCATACATTAAGGGGGA
1 GCATACACTAAGGGGGA
*
21020097 GCATACACTCAGGGGGA
1 GCATACACTAAGGGGGA
21020114 G
1 G
21020115 AAATTACTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.37, T:0.14
Consensus pattern (17 bp):
GCATACACTAAGGGGGA
Found at i:21020646 original size:73 final size:74
Alignment explanation
Indices: 21020473--21020648 Score: 243
Period size: 73 Copynumber: 2.4 Consensus size: 74
21020463 TTAGTTGACC
*
21020473 AAGAAGCATGGTTAGTCAACTAAGAGCAT-ACTGCCAGAAATCTAAATTACAAGACAGAAGGAAC
1 AAGAAGCATGGTTAGTCAACTAAGAGC-TCACTGCCAGAAATCTAAATTACAAGACAGAAGAAAC
21020537 TTAATCGACT
65 TTAATCGACT
* *
21020547 AAGAAGCATGGTTAGTCAACTAAGAGCTCACTGCCA-AAATTTCAAATT-CAAGATA-AAGAAGA
1 AAGAAGCATGGTTAGTCAACTAAGAGCTCACTGCCAGAAATCT-AAATTACAAGACAGAAGAA-A
21020609 CTTAATCGACT
64 CTTAATCGACT
* * *
21020620 AAGAAGCGTAGTTAGTCAACTGAGAGCTC
1 AAGAAGCATGGTTAGTCAACTAAGAGCTC
21020649 TCTATCTGAA
Statistics
Matches: 93, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
72 4 0.04
73 50 0.54
74 39 0.42
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (74 bp):
AAGAAGCATGGTTAGTCAACTAAGAGCTCACTGCCAGAAATCTAAATTACAAGACAGAAGAAACT
TAATCGACT
Found at i:21021141 original size:11 final size:11
Alignment explanation
Indices: 21021125--21021155 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
21021115 AGCCATTGTA
21021125 AAAGCTTGGTG
1 AAAGCTTGGTG
21021136 AAAGCTTGGTG
1 AAAGCTTGGTG
21021147 AAAGCTTGG
1 AAAGCTTGG
21021156 GAATTCCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.35, T:0.26
Consensus pattern (11 bp):
AAAGCTTGGTG
Found at i:21029417 original size:19 final size:19
Alignment explanation
Indices: 21029390--21029427 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21029380 CCATTTGACT
21029390 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
21029409 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
21029428 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:21037488 original size:19 final size:19
Alignment explanation
Indices: 21037461--21037498 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21037451 CCATTTGACT
21037461 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
21037480 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
21037499 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:21041536 original size:68 final size:68
Alignment explanation
Indices: 21041454--21041720 Score: 320
Period size: 68 Copynumber: 3.9 Consensus size: 68
21041444 CACCTACATG
* * * *
21041454 CTTACTCATCTCATAAGGTCTATGGAAAATAAATCATATACATAATCTTATGGCATTCATCATGC
1 CTTAATCATCTCATAAGGTATATGGAATATACATCATATACATAATCTTATGGCATTCATCATGC
* *
21041519 TTT
66 ATA
* * * * *
21041522 CTCAATCATCTCATATA-GTATATGGAATATACATCATATATATAATCTCATGGTATTCATCATA
1 CTTAATCATCTCATA-AGGTATATGGAATATACATCATATACATAATCTTATGGCATTCATCATG
*
21041586 CACA
65 CATA
* * * * ***
21041590 CTTAATCACCTCATATGGTATATGTAATTTACATCATATACATAATCTTATAATATTCATCATGC
1 CTTAATCATCTCATAAGGTATATGGAATATACATCATATACATAATCTTATGGCATTCATCATGC
21041655 ATA
66 ATA
* * *
21041658 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTTATCAT
1 CTTAATCATCTCATAAGGTATATGGAATATACATCATATACATAATCTTATGGCATTCATCAT
21041721 ACCAAACATG
Statistics
Matches: 168, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
68 167 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (68 bp):
CTTAATCATCTCATAAGGTATATGGAATATACATCATATACATAATCTTATGGCATTCATCATGC
ATA
Found at i:21045671 original size:21 final size:21
Alignment explanation
Indices: 21045647--21045737 Score: 128
Period size: 21 Copynumber: 4.3 Consensus size: 21
21045637 ATCCTAGAAT
21045647 TTGTTTGAATGATATTTGAAC
1 TTGTTTGAATGATATTTGAAC
21045668 TTGTTTGAATGATATTTGAAC
1 TTGTTTGAATGATATTTGAAC
* * *
21045689 TTGTTTAAATGATTTTTGAAG
1 TTGTTTGAATGATATTTGAAC
* *
21045710 TTATTTGAATGAGTTTTTGAAC
1 TTGTTTGAATGA-TATTTGAAC
21045732 TTGTTT
1 TTGTTT
21045738 AAATAGTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
21 49 0.79
22 13 0.21
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (21 bp):
TTGTTTGAATGATATTTGAAC
Found at i:21045745 original size:21 final size:21
Alignment explanation
Indices: 21045661--21045769 Score: 98
Period size: 21 Copynumber: 5.1 Consensus size: 21
21045651 TTGAATGATA
* *
21045661 TTTGAACTTGTTTGAAT-GATA
1 TTTGAACTTGTTTAAATAG-TT
21045682 TTTGAACTTGTTTAAAT-GATT
1 TTTGAACTTGTTTAAATAG-TT
* * *
21045703 TTTGAAGTTATTTGAATGAGTT
1 TTTGAACTTGTTTAAAT-AGTT
21045725 TTTGAACTTGTTTAAATAGTT
1 TTTGAACTTGTTTAAATAGTT
*
21045746 TTT-AAATGTGTTTAAATAAGTT
1 TTTGAACT-TGTTTAAAT-AGTT
21045768 TT
1 TT
21045770 AAAGTACCTT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.04
21 49 0.65
22 22 0.29
23 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (21 bp):
TTTGAACTTGTTTAAATAGTT
Found at i:21045768 original size:43 final size:43
Alignment explanation
Indices: 21045682--21045769 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
21045672 TTGAATGATA
* * *
21045682 TTTGAACTTGTTTAAATGATTTTTGAAGTTATTTGAATGAGTT
1 TTTGAACTTGTTTAAATGATTTTTAAAGTTATTTAAATAAGTT
*
21045725 TTTGAACTTGTTTAAAT-AGTTTTTAAA-TGTGTTTAAATAAGTT
1 TTTGAACTTGTTTAAATGA-TTTTTAAAGT-TATTTAAATAAGTT
21045768 TT
1 TT
21045770 AAAGTACCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 2 0.05
43 37 0.95
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (43 bp):
TTTGAACTTGTTTAAATGATTTTTAAAGTTATTTAAATAAGTT
Found at i:21051921 original size:15 final size:15
Alignment explanation
Indices: 21051901--21051951 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
21051891 TTCTTAAAAC
21051901 AACTTTAAAATCCAA
1 AACTTTAAAATCCAA
21051916 AACTTTAAAATCCAA
1 AACTTTAAAATCCAA
*
21051931 AGCTTTAAAAT-CAA
1 AACTTTAAAATCCAA
21051945 AATCTTT
1 AA-CTTT
21051952 GATCTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.12
15 29 0.88
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (15 bp):
AACTTTAAAATCCAA
Found at i:21052326 original size:21 final size:20
Alignment explanation
Indices: 21052301--21052360 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
21052291 AGATGTCTAA
*
21052301 AATAATTATTTGAAATGAAAT
1 AATAATTATTTG-AATAAAAT
* *
21052322 TATAATTGTTTGAATAAAAT
1 AATAATTATTTGAATAAAAT
21052342 AATAA-TATTT-AATAAAAT
1 AATAATTATTTGAATAAAAT
21052360 A
1 A
21052361 TTATATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 9 0.26
19 4 0.12
20 11 0.32
21 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
AATAATTATTTGAATAAAAT
Found at i:21054600 original size:19 final size:19
Alignment explanation
Indices: 21054576--21054613 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21054566 ACTTCTAAAC
21054576 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
21054595 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
21054614 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:21059612 original size:32 final size:32
Alignment explanation
Indices: 21059571--21059636 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
21059561 AAAACATGTA
21059571 TGTAATTTTTCTTGAAGATTTGAACTAGAATG
1 TGTAATTTTTCTTGAAGATTTGAACTAGAATG
21059603 TGTAATTTTTCTTGAAGATTTGAACTAGAATG
1 TGTAATTTTTCTTGAAGATTTGAACTAGAATG
21059635 TG
1 TG
21059637 AAACATGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (32 bp):
TGTAATTTTTCTTGAAGATTTGAACTAGAATG
Found at i:21062290 original size:19 final size:18
Alignment explanation
Indices: 21062256--21062291 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21062246 GAAATTAAAA
*
21062256 TATTTTATTGAATAGTTT
1 TATTTTATTAAATAGTTT
21062274 TATTTTATTCAAATAGTT
1 TATTTTATT-AAATAGTT
21062292 GCAATATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (18 bp):
TATTTTATTAAATAGTTT
Found at i:21070227 original size:42 final size:42
Alignment explanation
Indices: 21070181--21070320 Score: 192
Period size: 42 Copynumber: 3.3 Consensus size: 42
21070171 ACTATGTAGA
* *
21070181 AGTGCACATGAGCTGTGCTGACCCAGCCATGTGTGGTGTAAG
1 AGTGCACATGAGCTGTGCTAACCCAGCCATGTGCGGTGTAAG
* *
21070223 AGTGCACATGAGCTGTGCTAACCCAGCCATGTACGGTGTATG
1 AGTGCACATGAGCTGTGCTAACCCAGCCATGTGCGGTGTAAG
* * *
21070265 AGTGCACATGAGCTGTGCTAACCCTGCTATGTGCGGTGT-GG
1 AGTGCACATGAGCTGTGCTAACCCAGCCATGTGCGGTGTAAG
*
21070306 TAGTGCACATAAGCT
1 -AGTGCACATGAGCT
21070321 AAGACAGAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 1 0.01
42 87 0.99
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (42 bp):
AGTGCACATGAGCTGTGCTAACCCAGCCATGTGCGGTGTAAG
Found at i:21070303 original size:84 final size:84
Alignment explanation
Indices: 21070159--21070320 Score: 211
Period size: 84 Copynumber: 1.9 Consensus size: 84
21070149 GATAATTATG
* * *
21070159 ACCCAACCATGTACTATGTAGAAGTGCACATGAGCTGTGCTGACCCAGCCATGTGTGGTGTAAG-
1 ACCCAACCATGTACGATGTAGAAGTGCACATGAGCTGTGCTAACCCAGCCATGTGCGGTGT-AGT
*
21070223 AGTGCACATGAGCTGTGCTA
65 AGTGCACATAAGCTGTGCTA
* * * * *
21070243 ACCCAGCCATGTACGGTGTATG-AGTGCACATGAGCTGTGCTAACCCTGCTATGTGCGGTGTGGT
1 ACCCAACCATGTACGATGTA-GAAGTGCACATGAGCTGTGCTAACCCAGCCATGTGCGGTGTAGT
21070307 AGTGCACATAAGCT
65 AGTGCACATAAGCT
21070321 AAGACAGAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 1 0.01
84 65 0.97
85 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (84 bp):
ACCCAACCATGTACGATGTAGAAGTGCACATGAGCTGTGCTAACCCAGCCATGTGCGGTGTAGTA
GTGCACATAAGCTGTGCTA
Found at i:21077566 original size:2 final size:2
Alignment explanation
Indices: 21077559--21077601 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
21077549 GGCCGGTCTT
* *
21077559 TA TA TA TA TG TT TA TA TA TGA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
21077602 GAGTTTTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21077585 original size:21 final size:21
Alignment explanation
Indices: 21077559--21077598 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21077549 GGCCGGTCTT
* *
21077559 TATATATATGTTTATATATGA
1 TATATATATATATATATATGA
21077580 TATATATATATATATATAT
1 TATATATATATATATATAT
21077599 ATAGAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATATATATATATATATATGA
Found at i:21087042 original size:28 final size:28
Alignment explanation
Indices: 21087011--21087074 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
21087001 TAAAATTACA
*
21087011 ATTTTGCCCCTGGAGTGGTAAAATGTCT
1 ATTTTGCCCCTGGAGTGGCAAAATGTCT
*
21087039 ATTTTGCCCCTGGGGTGGCAAAATGTCT
1 ATTTTGCCCCTGGAGTGGCAAAATGTCT
*
21087067 ATGTTGCC
1 ATTTTGCC
21087075 TTTATCCTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (28 bp):
ATTTTGCCCCTGGAGTGGCAAAATGTCT
Found at i:21094795 original size:21 final size:19
Alignment explanation
Indices: 21094771--21094812 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
21094761 TAATTTAAAA
21094771 TAAAATAACATAAAATTAGAC
1 TAAAATAAC-TAAAATTA-AC
*
21094792 TAAAATAACTTAAATTAAC
1 TAAAATAACTAAAATTAAC
21094811 TA
1 TA
21094813 CTCAACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAATAACTAAAATTAAC
Found at i:21096292 original size:42 final size:42
Alignment explanation
Indices: 21096237--21096377 Score: 169
Period size: 42 Copynumber: 3.4 Consensus size: 42
21096227 TGTTGATGTG
* * *
21096237 GACCCAGCTATGTGCGAGTAGGAGTGCGCATACGCCGATGAT
1 GACCCAGCTATGTGCGAGTAAGAGTGTGCATAAGCCGATGAT
* *
21096279 GACCC-GACTATGTGCGAGTATA-AATGTACATAAGCCGATGAT
1 GACCCAG-CTATGTGCGAGTA-AGAGTGTGCATAAGCCGATGAT
* * *
21096321 GACTCAGCTATATGCGAGTAAGAGTGTGCATAAGCCGATGCT
1 GACCCAGCTATGTGCGAGTAAGAGTGTGCATAAGCCGATGAT
*
21096363 GACCCAGCCATGTGC
1 GACCCAGCTATGTGC
21096378 TAGTGGGGAA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 79 0.96
43 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (42 bp):
GACCCAGCTATGTGCGAGTAAGAGTGTGCATAAGCCGATGAT
Found at i:21103223 original size:21 final size:22
Alignment explanation
Indices: 21103199--21103242 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
21103189 CTGCAGGAGA
*
21103199 AAATTTATCGATACATT-ATCC
1 AAATGTATCGATACATTCATCC
*
21103220 AAATGTATCGATAGATTCATCC
1 AAATGTATCGATACATTCATCC
21103242 A
1 A
21103243 TAAGAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (22 bp):
AAATGTATCGATACATTCATCC
Found at i:21106328 original size:62 final size:61
Alignment explanation
Indices: 21106182--21106356 Score: 185
Period size: 62 Copynumber: 2.9 Consensus size: 61
21106172 TATCATCACT
* * *
21106182 TACTCGTGGGAACTGCCAACGCCACCATATACAAATC-GAGACTTC-AGGTCCCCCTTTACC
1 TACTCGTGGGATCTGCCAACGCCACCATATACAAATCGGGGA-TTCAAGTTCCCCCTTTACC
* * * * **
21106242 TACTCGAGGGATTTGCCTATGCCACCATATACAAATCGGGGATTCAAGTTCCTCGTTTTACC
1 TACTCGTGGGATCTGCCAACGCCACCATATACAAATCGGGGATTCAAGTTCC-CCCTTTACC
* * * * *
21106304 TACTCTTGGGATCTGCCCACGCCACCATATATATATCGGGGCTTCAAG-TCCCC
1 TACTCGTGGGATCTGCCAACGCCACCATATACAAATCGGGGATTCAAGTTCCCC
21106357 ATTTTGCAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
60 36 0.38
61 11 0.12
62 47 0.50
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (61 bp):
TACTCGTGGGATCTGCCAACGCCACCATATACAAATCGGGGATTCAAGTTCCCCCTTTACC
Found at i:21107226 original size:63 final size:59
Alignment explanation
Indices: 21107159--21107367 Score: 212
Period size: 63 Copynumber: 3.4 Consensus size: 59
21107149 ATCGTTCTCC
21107159 CTCTCCTTTTTCTCTCTTCTTTTTTCTTCTCTATTTTCCTTCTCCTCAGCATCGCTGCTCCCT
1 CTCTCCTTTTTCT-TCTTCTTTTTTCTTCTCT-TTTTCCTTCTCCTC-GC-TCGCTGCTCCCT
* *
21107222 CTCTCCTTTTTCTTCTTTCTTTTTAT-TTCTCTCTTCTT-CTTCTCCCCGACGTCGCTGTTCCCT
1 CTCTCCTTTTTCTTC-TTCTTTTT-TCTTCTCT-TT-TTCCTTCTCCTCG-C-TCGCTGCTCCCT
* * *
21107285 CTCTCTTTTTTCTTC-T-TTTTTTCTTCCCTTTTCTCCTTCTCCTCG-TNGCCATGCTCCCT
1 CTCTCCTTTTTCTTCTTCTTTTTTCTTCTCTTTT-TCCTTCTCCTCGCTCG-C-TGCTCCCT
*
21107344 CTCTCCTTTTTCTTTTTCTTTTTT
1 CTCTCCTTTTTCTTCTTCTTTTTT
21107368 TCTTTTCTCT
Statistics
Matches: 124, Mismatches: 11, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
57 2 0.02
58 2 0.02
59 24 0.19
60 20 0.16
61 7 0.06
62 3 0.02
63 63 0.51
64 3 0.02
ACGTcount: A:0.03, C:0.36, G:0.05, T:0.56
Consensus pattern (59 bp):
CTCTCCTTTTTCTTCTTCTTTTTTCTTCTCTTTTTCCTTCTCCTCGCTCGCTGCTCCCT
Found at i:21107351 original size:122 final size:123
Alignment explanation
Indices: 21107156--21107388 Score: 302
Period size: 123 Copynumber: 1.9 Consensus size: 123
21107146 ACCATCGTTC
*
21107156 TCCCTCTCCTTTTTCTCTCTTCTTTTTTCTTCTCTATTTTCCTTCTCCTCAGCATCGCTGCTCCC
1 TCCCTCTCCTTTTTCTCTCTTCTTTTTTCTTCCCTATTTTCCTTCTCCTCAG-ATCGCTGCTCCC
21107221 TCTCTCCTTTTTCTTCTTTC-TTTTT-ATTTCTCTCTTCTTCTTCTCCCCGACGTCGCTGT
65 TCTCTCCTTTTTCTT-TTTCTTTTTTCATTTCTCTCTTCTT-TTCTCCCCGACGTCGCTGT
*
21107280 TCCCTCT-CTCTTTT-T-TCTTCTTTTTTTCTTCCCT-TTTCTCCTTCTCCTC-G-TNGCCATGC
1 TCCCTCTCCT-TTTTCTCTCTTC-TTTTTTCTTCCCTATTT-TCCTTCTCCTCAGATCG-C-TGC
*
21107339 TCCCTCTCTCCTTTTTCTTTTTCTTTTTTTCTTTTCTCTCTTCTTTTCTC
61 TCCCTCTCTCCTTTTTCTTTTTC-TTTTTTCATTTCTCTCTTCTTTTCTC
21107389 AAACGTAGTT
Statistics
Matches: 98, Mismatches: 3, Indels: 17
0.83 0.03 0.14
Matches are distributed among these distances:
120 2 0.02
121 5 0.05
122 31 0.32
123 36 0.37
124 24 0.24
ACGTcount: A:0.03, C:0.36, G:0.04, T:0.57
Consensus pattern (123 bp):
TCCCTCTCCTTTTTCTCTCTTCTTTTTTCTTCCCTATTTTCCTTCTCCTCAGATCGCTGCTCCCT
CTCTCCTTTTTCTTTTTCTTTTTTCATTTCTCTCTTCTTTTCTCCCCGACGTCGCTGT
Found at i:21107427 original size:121 final size:122
Alignment explanation
Indices: 21107155--21107427 Score: 306
Period size: 121 Copynumber: 2.2 Consensus size: 122
21107145 CACCATCGTT
* *
21107155 CTCCCTCTC-CTTTTTCTCTCTTCTTTTTTCTTCTCTATTTTCCTTCTCCTCAGCATCGCTGCTC
1 CTCCCTCTCTCTTTTT-TCT-TCCTTTTTTCTTCCCTATTTTCCTTCTCCTCAG-ATCGCTGCTC
** * *
21107219 CCTCTCTCCTTTTTCTTCTTTCTTTTTATTTCTCTCTTCTTCTTCTCCCCGACGTCGCTG
63 CCTCTCTCCTTTTTCTTCTTTCTTTTTATTTCTCTCTTCTTCTTCTCCCAAACGTAGCTA
* * *
21107279 TTCCCTCTCTCTTTTTTCTTCTTTTTTTCTTCCCT-TTTCTCCTTCTCCTC-G-TNGCCATGCTC
1 CTCCCTCTCTCTTTTTTCTTCCTTTTTTCTTCCCTATTT-TCCTTCTCCTCAGATCG-C-TGCTC
* * * * *
21107341 CCTCTCTCCTTTTTCTT-TTTCTTTTTTTCTTTTCTC-TCTTCTTTTCTCAAACGTAGTTA
63 CCTCTCTCCTTTTTCTTCTTTCTTTTTAT-TTCTCTCTTCTTCTTCTCCCAAACGTAGCTA
*
21107400 CTCCTTCTCTCTTTTTTCTTCCTTTTTT
1 CTCCCTCTCTCTTTTTTCTTCCTTTTTT
21107428 TTTGTCTTTC
Statistics
Matches: 127, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
120 2 0.02
121 52 0.41
122 32 0.25
123 24 0.19
124 11 0.09
125 6 0.05
ACGTcount: A:0.04, C:0.35, G:0.04, T:0.56
Consensus pattern (122 bp):
CTCCCTCTCTCTTTTTTCTTCCTTTTTTCTTCCCTATTTTCCTTCTCCTCAGATCGCTGCTCCCT
CTCTCCTTTTTCTTCTTTCTTTTTATTTCTCTCTTCTTCTTCTCCCAAACGTAGCTA
Found at i:21111666 original size:60 final size:62
Alignment explanation
Indices: 21111572--21111727 Score: 199
Period size: 60 Copynumber: 2.5 Consensus size: 62
21111562 ATATATCATC
* *
21111572 ACCTACCCGTGGGAACTGCCCACGCCACCATATACAAATCAGGACTCCAGG-TCCCC-CTTT
1 ACCTACTCGTGGGATCTGCCCACGCCACCATATACAAATCAGGACTCCAGGTTCCCCTCTTT
* * * * * * * *
21111632 GCCTACTCGTGGGATTTGCCTACGGCACCATATACAAATCGGGGCTTCAGGTTCCCCTTTTT
1 ACCTACTCGTGGGATCTGCCCACGCCACCATATACAAATCAGGACTCCAGGTTCCCCTCTTT
*
21111694 ACCTACTCGTGGGATCTGCCCATGCCACCATATA
1 ACCTACTCGTGGGATCTGCCCACGCCACCATATA
21111728 TATATCGGGG
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
60 42 0.53
61 5 0.06
62 32 0.41
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (62 bp):
ACCTACTCGTGGGATCTGCCCACGCCACCATATACAAATCAGGACTCCAGGTTCCCCTCTTT
Found at i:21111735 original size:62 final size:62
Alignment explanation
Indices: 21111572--21111754 Score: 217
Period size: 62 Copynumber: 3.0 Consensus size: 62
21111562 ATATATCATC
* * * * * *
21111572 ACCTACCCGTGGGAACTGCCCACGCCACCATATACAAATCAGGACTCCAGG-TCCCC-CTTT
1 ACCTACTCGTGGGATCTGCCCACGCCACCATATACAAATCGGGGCTTCAGGTTCCCCTTTTT
* * * *
21111632 GCCTACTCGTGGGATTTGCCTACGGCACCATATACAAATCGGGGCTTCAGGTTCCCCTTTTT
1 ACCTACTCGTGGGATCTGCCCACGCCACCATATACAAATCGGGGCTTCAGGTTCCCCTTTTT
* * * * *
21111694 ACCTACTCGTGGGATCTGCCCATGCCACCATATATATATCGGGGCTTTAGGTCCCCCTTTT
1 ACCTACTCGTGGGATCTGCCCACGCCACCATATACAAATCGGGGCTTCAGGTTCCCCTTTT
21111755 GCAATCAAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
60 42 0.41
61 5 0.05
62 55 0.54
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (62 bp):
ACCTACTCGTGGGATCTGCCCACGCCACCATATACAAATCGGGGCTTCAGGTTCCCCTTTTT
Found at i:21112415 original size:5 final size:5
Alignment explanation
Indices: 21112407--21112435 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
21112397 CTCTCTCCTC
21112407 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
21112436 TCTTCCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:21112848 original size:23 final size:24
Alignment explanation
Indices: 21112822--21112900 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 24
21112812 CTACTCCCTC
21112822 TCTCTTTTTTCTTCCTTTTTTT-T
1 TCTCTTTTTTCTTCCTTTTTTTCT
*
21112845 TCTCTTTCTTC-TCTCTTCTTCTTTCT
1 TCTCTTTTTTCTTC-CTT-TT-TTTCT
* * *
21112871 TGT-TTTTTTCTCCCTTTTTTCCT
1 TCTCTTTTTTCTTCCTTTTTTTCT
*
21112894 TTTCTTT
1 TCTCTTT
21112901 CTTTTCTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
22 2 0.05
23 19 0.43
24 7 0.16
25 12 0.27
26 4 0.09
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.72
Consensus pattern (24 bp):
TCTCTTTTTTCTTCCTTTTTTTCT
Found at i:21112903 original size:36 final size:34
Alignment explanation
Indices: 21112820--21112904 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
21112810 AGCTACTCCC
* *
21112820 TCTCTCTTTTTTCTTCCTTTTTTTTTCTCTTTCT
1 TCTCTCTTCTTTCTTTCTTTTTTTTTCTCTTTCT
*
21112854 TCTCTCTTC-TTCTTTCTTGTTTTTTTCTCCCTTTTT
1 TCTCTCTTCTTTCTTTCTT-TTTTTTTCT--CTTTCT
*
21112890 TC-CTTTTCTTTCTTT
1 TCTCTCTTCTTTCTTT
21112905 TCTGTTCAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
33 8 0.19
34 17 0.40
35 5 0.12
36 13 0.30
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.72
Consensus pattern (34 bp):
TCTCTCTTCTTTCTTTCTTTTTTTTTCTCTTTCT
Found at i:21112966 original size:13 final size:13
Alignment explanation
Indices: 21112948--21112972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21112938 TTCTTCTTCC
21112948 TTATTTTATTTTA
1 TTATTTTATTTTA
21112961 TTATTTTATTTT
1 TTATTTTATTTT
21112973 TTTCTTCTTT
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:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:21118084 original size:39 final size:40
Alignment explanation
Indices: 21117999--21118075 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
21117989 TGCATTCTCG
* * * *
21117999 CTGCAGCGAGAAACTTTTTGTTTTCTGGGTTGCAATTTCA
1 CTGCAGCGAGAAACATTCTGTTTTCTGGGTAGAAATTTCA
21118039 CTGCAGCGAGAAACATTCTG-TTTCTGGGTAGAAATTT
1 CTGCAGCGAGAAACATTCTGTTTTCTGGGTAGAAATTT
21118076 TGTTGCAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 15 0.45
40 18 0.55
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (40 bp):
CTGCAGCGAGAAACATTCTGTTTTCTGGGTAGAAATTTCA
Found at i:21119578 original size:11 final size:11
Alignment explanation
Indices: 21119562--21119594 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
21119552 ATACGCGAGG
21119562 AAATAATAATA
1 AAATAATAATA
*
21119573 AAATAATAATT
1 AAATAATAATA
21119584 AAATAATAATA
1 AAATAATAATA
21119595 CTTTTCTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATAATAATA
Found at i:21128981 original size:24 final size:23
Alignment explanation
Indices: 21128954--21129011 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
21128944 AACGTTAAAT
21128954 ACATAGTTAAAAAACATAATAAGA
1 ACATA-TTAAAAAACATAATAAGA
** *
21128978 ACATATTATTTAAATATAATAAGA
1 ACATATTA-AAAAACATAATAAGA
21129002 ACATATTAAA
1 ACATATTAAA
21129012 CATCTTCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (23 bp):
ACATATTAAAAAACATAATAAGA
Found at i:21129922 original size:88 final size:90
Alignment explanation
Indices: 21129822--21129993 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 90
21129812 GATATCAAGT
* * ** *
21129822 CACTTACTTGATTTGTTGCAACCA-AAAAAAAAACC-AACCATTGAAATCCTTTTAAAGCTTGGA
1 CACTTACCTGATTTGCTAAAACCATAAAAAAAAACCGAACCATTGAAATCCTTTTAAAGCTTGAA
*
21129885 GATGATGAAAACAAAATAATAGCAA
66 GATAATGAAAACAAAATAATAGCAA
* ** * *
21129910 CACTTACCTGATTTGCTAAAACTATAAATCAAAACCGAATCATTGAAATCCTTTTGAAGCTTGAA
1 CACTTACCTGATTTGCTAAAACCATAAAAAAAAACCGAACCATTGAAATCCTTTTAAAGCTTGAA
21129975 GATAATGAAAACAAAATAA
66 GATAATGAAAACAAAATAA
21129994 GTCCCAAACT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 19 0.27
89 9 0.13
90 43 0.61
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (90 bp):
CACTTACCTGATTTGCTAAAACCATAAAAAAAAACCGAACCATTGAAATCCTTTTAAAGCTTGAA
GATAATGAAAACAAAATAATAGCAA
Found at i:21130124 original size:19 final size:19
Alignment explanation
Indices: 21130081--21130117 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21130071 GAAATATAAG
*
21130081 AGAAAGTATTTAGAGGGAA
1 AGAAAATATTTAGAGGGAA
21130100 AGAAAATATTTAGAGGGA
1 AGAAAATATTTAGAGGGA
21130118 GTAAAAAGAT
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:0.49, C:0.00, G:0.30, T:0.22
Consensus pattern (19 bp):
AGAAAATATTTAGAGGGAA
Found at i:21130467 original size:2 final size:2
Alignment explanation
Indices: 21130460--21130490 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21130450 CTTTTTCACC
21130460 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
21130491 TTAATTAATT
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:21130934 original size:20 final size:20
Alignment explanation
Indices: 21130909--21130952 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21130899 TTTTGGCCCC
* *
21130909 ATTTGACTTATTGGAGTATG
1 ATTTGACTAATTGAAGTATG
*
21130929 ATTTGAGTAATTGAAGTATG
1 ATTTGACTAATTGAAGTATG
21130949 ATTT
1 ATTT
21130953 TGAGGTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (20 bp):
ATTTGACTAATTGAAGTATG
Done.