Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 230 of 770
Found at i:69003073 original size:40 final size:40
Alignment explanation
Indices: 69003029--69003220 Score: 321
Period size: 40 Copynumber: 4.8 Consensus size: 40
69003019 GAGAATTGAG
69003029 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
69003069 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
69003109 AGTGATGTATCCGGACTAAGCTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
69003149 AGTGATGTATCCGAACTAAGTTCCGAAGAGCATTCGTTCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
69003189 AGTGATGTATCCGGGCTAGGTCCCGAAAAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
69003221 ATCATGCTGG
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:69006655 original size:27 final size:27
Alignment explanation
Indices: 69006625--69006685 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
69006615 CTAATGGCCG
69006625 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
69006652 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
69006679 ATGTGAT
1 ATGTGAT
69006686 AAGGCCTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:69006706 original size:76 final size:76
Alignment explanation
Indices: 69006580--69006734 Score: 274
Period size: 76 Copynumber: 2.0 Consensus size: 76
69006570 GATTCTACGC
*
69006580 GATGAATGTGAAAGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
*
69006645 TATATATATGT
66 TATACATATGT
* *
69006656 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 GATGAATGTGAAAGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
69006721 TATACATATGT
66 TATACATATGT
69006732 GAT
1 GAT
69006735 AAGGCCTAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (76 bp):
GATGAATGTGAAAGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
TATACATATGT
Found at i:69006707 original size:49 final size:49
Alignment explanation
Indices: 69006652--69006880 Score: 340
Period size: 49 Copynumber: 4.8 Consensus size: 49
69006642 GTGTATATAT
*
69006652 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCG
*
69006701 ATGTGATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCG
*
69006750 ATGTGATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCG
* *** *
69006799 ATGTGATGAATGTGAAAGTGTAT--ATATGTGATAGGGCCGGGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCG
* *
69006846 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATACATATGTGATAAG
69006881 TCCCGAAGGG
Statistics
Matches: 168, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 49 0.29
48 1 0.01
49 118 0.70
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCG
Found at i:69010694 original size:28 final size:29
Alignment explanation
Indices: 69010627--69010727 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
69010617 ATAGTGAATC
*
69010627 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
69010656 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
69010684 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
69010714 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69010728 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:69018589 original size:28 final size:29
Alignment explanation
Indices: 69018522--69018622 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
69018512 ATAGTGAATC
*
69018522 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
69018551 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
69018579 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
69018609 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69018623 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:69030068 original size:40 final size:40
Alignment explanation
Indices: 69030001--69030251 Score: 296
Period size: 40 Copynumber: 6.3 Consensus size: 40
69029991 ACCCAAGTAT
*
69030001 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
69030040 CTTTGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
69030080 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
69030120 CTTCGGGACATAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
69030159 CTTCGGGTCTTAGCCCGAATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
69030199 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
69030239 GTTCGGATCTTAG
1 CTTCGGGTCTTAG
69030252 TCGGTTATCA
Statistics
Matches: 177, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
38 3 0.02
39 43 0.24
40 127 0.72
41 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:69030143 original size:79 final size:80
Alignment explanation
Indices: 69030001--69030251 Score: 375
Period size: 79 Copynumber: 3.2 Consensus size: 80
69029991 ACCCAAGTAT
* * * * *
69030001 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCTTTGGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
69030063 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
69030080 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAG-CCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
69030144 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
69030159 CTTCGGGTCTTAGCCCGAATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
*
69030224 AACTCGCACGAATGC
66 AACTCGCACAAATGC
* *
69030239 GTTCGGATCTTAG
1 CTTCGGGTCTTAG
69030252 TCGGTTATCA
Statistics
Matches: 159, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
78 1 0.01
79 89 0.56
80 68 0.43
81 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:69030213 original size:119 final size:119
Alignment explanation
Indices: 69030001--69030221 Score: 336
Period size: 119 Copynumber: 1.9 Consensus size: 119
69029991 ACCCAAGTAT
** * *
69030001 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGCCTTTGGGTCTTAGCCCGGATATAGCA
1 CTTCGGGACATAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGAATATAGCA
* * *
69030066 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
66 ACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAATCACTAGCATAAATGC
* *
69030120 CTTCGGGACATAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGAATATAATC
1 CTTCGGGACATAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGAATAT-AGC
*
69030185 -ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
65 AACTAGCACAAATGCCTTCGGGACATAGCCCGGATATA
69030222 GCAACTCGCA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
119 89 0.98
120 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (119 bp):
CTTCGGGACATAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGAATATAGCA
ACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAATCACTAGCATAAATGC
Found at i:69035393 original size:42 final size:42
Alignment explanation
Indices: 69035347--69035429 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
69035337 TGGTGTCTCA
* *
69035347 TATCGATGCCATGTACCAGACATGGTCTTACACGAAATCACG
1 TATCGATGCCATATACCAGACATGGTCCTACACGAAATCACG
* *
69035389 TATCGATGCCATATCCCAGATATGGTCCTACACGAAATCAC
1 TATCGATGCCATATACCAGACATGGTCCTACACGAAATCAC
69035430 ACATAACCCT
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:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
TATCGATGCCATATACCAGACATGGTCCTACACGAAATCACG
Found at i:69037616 original size:40 final size:41
Alignment explanation
Indices: 69037517--69037616 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
69037507 GGTAGCAAAG
*
69037517 TTCCCATAAACGCCGCATAAGGTAAGGCAGTAACGACGTTT
1 TTCCCATAAACGCCGCAAAAGGTAAGGCAGTAACGACGTTT
* *
69037558 TTCCCATAAACACCGCAAAAGGTAAGGCTA-TAACGGCGTTT
1 TTCCCATAAACGCCGCAAAAGGTAAGGC-AGTAACGACGTTT
*
69037599 TT-CCATAAATGCCGCAAA
1 TTCCCATAAACGCCGCAAA
69037617 TTTATTTACT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 14 0.26
41 38 0.72
42 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (41 bp):
TTCCCATAAACGCCGCAAAAGGTAAGGCAGTAACGACGTTT
Found at i:69042032 original size:46 final size:48
Alignment explanation
Indices: 69041931--69042058 Score: 161
Period size: 46 Copynumber: 2.7 Consensus size: 48
69041921 CATAGGGTAT
* * *
69041931 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTC
* * * * * *
69041979 GAGGCCGATG-TATGTCCGAGACAT-GTCTTACACTAGCTCCCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTC
69042025 AATGCCGATGCCATGTCCCAGACATGGTCTTACA
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACA
69042059 TTGGCTCTCA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
46 26 0.40
47 23 0.35
48 16 0.25
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTC
Found at i:69045734 original size:2 final size:2
Alignment explanation
Indices: 69045727--69045758 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
69045717 GTATGTGGTC
69045727 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
69045759 GCATAACTAA
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:69046763 original size:50 final size:51
Alignment explanation
Indices: 69046567--69046809 Score: 217
Period size: 50 Copynumber: 4.8 Consensus size: 51
69046557 GTAACCGAAG
* *
69046567 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC--AA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
* * * * * * * * *
69046616 CAATCCGGTACACGTAGTAACCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
* * * *
69046666 GT-TGTCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AA
1 CTATCT-GATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
** * *
69046716 CTATCTGATACACGCAGTAGCCTGCACTTAGTACTACACAAGTGACCTAAAA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAA
* * * * *
69046768 CCATCTTAAACACATAGTAACCTGCACATAGTACTACACATG
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATG
69046810 TGTTCTCACA
Statistics
Matches: 153, Mismatches: 34, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
49 39 0.25
50 75 0.49
51 3 0.02
52 36 0.24
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
Found at i:69051124 original size:22 final size:22
Alignment explanation
Indices: 69051099--69051150 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
69051089 ATGTAGATTC
69051099 CAAAATGGCACAATTTTGCAAG
1 CAAAATGGCACAATTTTGCAAG
*
69051121 CAAAATGGCACCATTTTGCAAG
1 CAAAATGGCACAATTTTGCAAG
69051143 CAAAATGG
1 CAAAATGG
69051151 AACTTGAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (22 bp):
CAAAATGGCACAATTTTGCAAG
Found at i:69052344 original size:20 final size:22
Alignment explanation
Indices: 69052326--69052368 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
69052316 TCACCAATAT
*
69052326 CGCAGCATAGCTGCTAATAGTAA
1 CGCAGCAAAGCTGCTAATAGT-A
69052349 CGCAGCAAAGCTGCTAATAG
1 CGCAGCAAAGCTGCTAATAG
69052369 CGATAAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (22 bp):
CGCAGCAAAGCTGCTAATAGTA
Found at i:69065235 original size:12 final size:12
Alignment explanation
Indices: 69065220--69065257 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
69065210 AAAAAAAATA
*
69065220 AAAAAGAGAGAG
1 AAAAAGAGAAAG
*
69065232 AAAAAGAAAAAG
1 AAAAAGAGAAAG
69065244 AAAAA-AGAAAG
1 AAAAAGAGAAAG
69065255 AAA
1 AAA
69065258 CGATTCTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:69065279 original size:6 final size:6
Alignment explanation
Indices: 69065260--69065303 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
69065250 GAAAGAAACG
*
69065260 ATTCTA ATTTTA ATTCTA ATTCTA ATTCTA ATTCTA ATTTCTA A
1 ATTCTA ATTCTA ATTCTA ATTCTA ATTCTA ATTCTA A-TTCTA A
69065304 ACGTAAAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTCTA
Found at i:69065732 original size:31 final size:31
Alignment explanation
Indices: 69065672--69065732 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
69065662 ATATAACATG
*
69065672 TGAAATTCTAATTATGATTCAAATGTATATT
1 TGAAATTCTAATTATGATTCAAATATATATT
* * * *
69065703 TGAAATTTTAATTTTGATTTAATTATATAT
1 TGAAATTCTAATTATGATTCAAATATATAT
69065733 ATTTAAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (31 bp):
TGAAATTCTAATTATGATTCAAATATATATT
Found at i:69065901 original size:29 final size:30
Alignment explanation
Indices: 69065859--69065936 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
69065849 TAATTGGATC
* *
69065859 AAATCCAAATTTCATGTATAA-AATTGCACA
1 AAATCCAAAGTTCATATA-AACAATTGCACA
69065889 AAAT-CAAAGTTCATATAAACAATTGCACA
1 AAATCCAAAGTTCATATAAACAATTGCACA
*
69065918 TTAAA-CCATAGTTCATATA
1 --AAATCCAAAGTTCATATA
69065937 TGATTTTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 2 0.05
29 20 0.49
30 4 0.10
31 15 0.37
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.29
Consensus pattern (30 bp):
AAATCCAAAGTTCATATAAACAATTGCACA
Found at i:69066392 original size:12 final size:12
Alignment explanation
Indices: 69066359--69066395 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
69066349 AAATGTATTT
69066359 TTTTTTCTAATAA
1 TTTTTT-TAATAA
69066372 TTTTATTTAATAA
1 TTTT-TTTAATAA
69066385 TTTTTTTAATA
1 TTTTTTTAATA
69066396 TCTAATGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 14 0.61
14 2 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTTTTAATAA
Found at i:69067097 original size:18 final size:18
Alignment explanation
Indices: 69067054--69067097 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
69067044 CAACCAATTT
* *
69067054 GATTAATTTGATTGGTTC
1 GATTAATTTGACTGGTAC
* *
69067072 AATCAATTTGACTGGTAC
1 GATTAATTTGACTGGTAC
69067090 GATTAATT
1 GATTAATT
69067098 CTACCAATCC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (18 bp):
GATTAATTTGACTGGTAC
Found at i:69080740 original size:20 final size:20
Alignment explanation
Indices: 69080698--69080740 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
69080688 TTATCTATGA
*
69080698 ATAAATTTTAATTTTCTACC
1 ATAAATTTTAATTTTCTAAC
69080718 ATAAATTTCTAATTTT-TAAC
1 ATAAATTT-TAATTTTCTAAC
69080738 ATA
1 ATA
69080741 TTAATTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAAATTTTAATTTTCTAAC
Found at i:69105852 original size:19 final size:19
Alignment explanation
Indices: 69105828--69105867 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
69105818 TTTTTCCAGA
69105828 TTCCACTCAAGTACTGCTT
1 TTCCACTCAAGTACTGCTT
69105847 TTCCACTCAAGTACTGCTT
1 TTCCACTCAAGTACTGCTT
69105866 TT
1 TT
69105868 ACCTGGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (19 bp):
TTCCACTCAAGTACTGCTT
Found at i:69107044 original size:12 final size:12
Alignment explanation
Indices: 69107029--69107053 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69107019 TAATTCAATG
69107029 TAGCATAAAACA
1 TAGCATAAAACA
69107041 TAGCATAAAACA
1 TAGCATAAAACA
69107053 T
1 T
69107054 TAACATTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TAGCATAAAACA
Found at i:69109596 original size:43 final size:41
Alignment explanation
Indices: 69109549--69109694 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 41
69109539 AGATGAGGTC
* * *
69109549 TTACATGTAATCAAATATCGATGCCACTGTCTTAGACAGGGTT
1 TTACACGTAATCAAATAT-GATGCCAATGTCCTAGACAGGG-T
** * *
69109592 TTACACAAAATCATATATGATGCCAATGTCCTAGACATGGT
1 TTACACGTAATCAAATATGATGCCAATGTCCTAGACAGGGT
**
69109633 TTACACGTAAATCTCAAAT-TGATGCCAACATCCTAGAC-GTGGT
1 TTACACGT-AA--TCAAATATGATGCCAATGTCCTAGACAG-GGT
* *
69109676 CTTACACGAAATCACATAT
1 -TTACACGTAATCAAATAT
69109695 CTGAATCCTA
Statistics
Matches: 82, Mismatches: 15, Indels: 13
0.75 0.14 0.12
Matches are distributed among these distances:
41 12 0.15
42 22 0.27
43 36 0.44
44 12 0.15
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (41 bp):
TTACACGTAATCAAATATGATGCCAATGTCCTAGACAGGGT
Found at i:69113015 original size:29 final size:28
Alignment explanation
Indices: 69112927--69113028 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
69112917 TACTCAATCA
* *
69112927 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * *
69112956 CGCACACATAGTGCCATATAGTCCCAA-CT
1 CGCACACTTAGTGCCGTACA-T-TCAAGCT
69112985 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
69113014 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
69113029 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 47 0.81
30 3 0.05
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:69115596 original size:20 final size:20
Alignment explanation
Indices: 69115579--69115646 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
69115569 GGGGCACCGT
69115579 AGTGCAAACAAG-GACACCAA
1 AGTGCAAACAAGAG-CACCAA
*
69115599 AGTGCATACAAGAGCACCAA
1 AGTGCAAACAAGAGCACCAA
*
69115619 AGTGCAAAC-AGAGGCACTAA
1 AGTGCAAACAAGA-GCACCAA
69115639 AGTGCAAA
1 AGTGCAAA
69115647 TCTCGTACAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.07
20 39 0.91
21 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (20 bp):
AGTGCAAACAAGAGCACCAA
Found at i:69115604 original size:40 final size:40
Alignment explanation
Indices: 69115546--69115644 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
69115536 TGAAGTGTAG
* * **
69115546 ACAGAGGCA-CAAATGTGCACACAGGGGCACCGTAGTGCAA
1 ACAGAGGCACCAAA-GTGCACACAAGAGCACCAAAGTGCAA
*
69115586 ACA-AGGACACCAAAGTGCATACAAGAGCACCAAAGTGCAA
1 ACAGAGG-CACCAAAGTGCACACAAGAGCACCAAAGTGCAA
*
69115626 ACAGAGGCACTAAAGTGCA
1 ACAGAGGCACCAAAGTGCA
69115645 AATCTCGTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
39 3 0.06
40 40 0.80
41 7 0.14
ACGTcount: A:0.41, C:0.24, G:0.25, T:0.09
Consensus pattern (40 bp):
ACAGAGGCACCAAAGTGCACACAAGAGCACCAAAGTGCAA
Found at i:69121075 original size:37 final size:38
Alignment explanation
Indices: 69120931--69121135 Score: 148
Period size: 38 Copynumber: 5.4 Consensus size: 38
69120921 AAAGTTGAAT
** **
69120931 ACTGATTATACCAAATGTTGCTCAAAGGAGCAATATCA
1 ACTGATTATACTGAATGTTGCTCAAACAAGCAATATCA
* *
69120969 ACTGATTATACGGAATGTTGCTCAAACAAGTAATATCA
1 ACTGATTATACTGAATGTTGCTCAAACAAGCAATATCA
* * * * * *
69121007 ACTAATTATATTGAAT-ATGCTCCAAA-GAGCAATGTCT
1 ACTGATTATACTGAATGTTGCT-CAAACAAGCAATATCA
*
69121044 ACTGATTAAACTGAATG-TGCTCAAACAAGCAATAATC-
1 ACTGATTATACTGAATGTTGCTCAAACAAGCAAT-ATCA
** * * ** * *
69121081 ACAAATTATTCTAAATGTTTGCTCAAATGAGCATTATCC
1 ACTGATTATACTGAATG-TTGCTCAAACAAGCAATATCA
* *
69121120 ACTGATCATATTGAAT
1 ACTGATTATACTGAAT
69121136 AAGATCTTCT
Statistics
Matches: 128, Mismatches: 32, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
36 4 0.03
37 46 0.36
38 55 0.43
39 23 0.18
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (38 bp):
ACTGATTATACTGAATGTTGCTCAAACAAGCAATATCA
Found at i:69122620 original size:39 final size:39
Alignment explanation
Indices: 69122577--69122813 Score: 244
Period size: 39 Copynumber: 6.1 Consensus size: 39
69122567 TCGCAGTTAT
* **
69122577 GTGCCCCTATTGTGCTTCGGTACTGCTGACTGCACTTAC
1 GTGCCCCTATTGTACTTCGGTACCCCTGACTGCACTTAC
* * ** *
69122616 GTGCCGCTGTTGTACTTTAGTACTCCTGACTGCACTTAC
1 GTGCCCCTATTGTACTTCGGTACCCCTGACTGCACTTAC
* *
69122655 GTGCCCCTATTGTACTTTGGTACCCCTGACAGCACTTAC
1 GTGCCCCTATTGTACTTCGGTACCCCTGACTGCACTTAC
* ** * *
69122694 GTGCCCCTGTAATACTTTGATACCCCTGA-TCGCACTTAC
1 GTGCCCCTATTGTACTTCGGTACCCCTGACT-GCACTTAC
* * * *
69122733 GTGCCCCTGTTGTACTTCAGTACCCCTGACCGCACTTGC
1 GTGCCCCTATTGTACTTCGGTACCCCTGACTGCACTTAC
* * *
69122772 GTGCCCCTATTGTACTTCGATACTCCTGA-TAGCACTTTC
1 GTGCCCCTATTGTACTTCGGTACCCCTGACT-GCACTTAC
69122811 GTG
1 GTG
69122814 TCGTGGTTAC
Statistics
Matches: 166, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
39 166 1.00
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.32
Consensus pattern (39 bp):
GTGCCCCTATTGTACTTCGGTACCCCTGACTGCACTTAC
Found at i:69122684 original size:78 final size:78
Alignment explanation
Indices: 69122563--69122813 Score: 290
Period size: 78 Copynumber: 3.2 Consensus size: 78
69122553 TTCGATAGCA
* * * * ** * *
69122563 CTGATCGCAGTTATGTGCCCCTATTGTGCTTCGGTACTGCTGACTGCACTTACGTGCCGCTGTTG
1 CTGATAGCACTTACGTGCCCCTATTGTACTTCGGTACCCCTGACAGCACTTACGTGCCCCTGTTG
69122628 TACTTT-AGTACTC
66 TACTTTGA-TACTC
* *
69122641 CTGACT-GCACTTACGTGCCCCTATTGTACTTTGGTACCCCTGACAGCACTTACGTGCCCCTGTA
1 CTGA-TAGCACTTACGTGCCCCTATTGTACTTCGGTACCCCTGACAGCACTTACGTGCCCCTGTT
* *
69122705 ATACTTTGATACCC
65 GTACTTTGATACTC
* * * * * *
69122719 CTGATCGCACTTACGTGCCCCTGTTGTACTTCAGTACCCCTGACCGCACTTGCGTGCCCCTATTG
1 CTGATAGCACTTACGTGCCCCTATTGTACTTCGGTACCCCTGACAGCACTTACGTGCCCCTGTTG
*
69122784 TACTTCGATACTC
66 TACTTTGATACTC
*
69122797 CTGATAGCACTTTCGTG
1 CTGATAGCACTTACGTG
69122814 TCGTGGTTAC
Statistics
Matches: 147, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.01
78 144 0.98
79 2 0.01
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (78 bp):
CTGATAGCACTTACGTGCCCCTATTGTACTTCGGTACCCCTGACAGCACTTACGTGCCCCTGTTG
TACTTTGATACTC
Found at i:69122700 original size:20 final size:20
Alignment explanation
Indices: 69122602--69122779 Score: 77
Period size: 20 Copynumber: 9.1 Consensus size: 20
69122592 TTCGGTACTG
*
69122602 CTGACTGCACTTACGTGCCG
1 CTGACTGCACTTACGTGCCC
* * * *
69122622 CTG-TTGTACTTTA-GTACTC
1 CTGACTGCAC-TTACGTGCCC
69122641 CTGACTGCACTTACGTGCCC
1 CTGACTGCACTTACGTGCCC
* * ** *
69122661 CT-ATTGTACTTTGGTACCC
1 CTGACTGCACTTACGTGCCC
*
69122680 CTGACAGCACTTACGTGCCC
1 CTGACTGCACTTACGTGCCC
* * *
69122700 CTGTAAT--ACTT-TGATACCC
1 CTG-ACTGCACTTACG-TGCCC
69122719 CTGA-TCGCACTTACGTGCCC
1 CTGACT-GCACTTACGTGCCC
* * *
69122739 CTG-TTGTACTT-CAGTACCC
1 CTGACTGCACTTAC-GTGCCC
* *
69122758 CTGACCGCACTTGCGTGCCC
1 CTGACTGCACTTACGTGCCC
69122778 CT
1 CT
69122780 ATTGTACTTC
Statistics
Matches: 112, Mismatches: 32, Indels: 28
0.65 0.19 0.16
Matches are distributed among these distances:
17 1 0.01
18 3 0.03
19 51 0.46
20 54 0.48
21 3 0.03
ACGTcount: A:0.16, C:0.34, G:0.19, T:0.31
Consensus pattern (20 bp):
CTGACTGCACTTACGTGCCC
Found at i:69130309 original size:42 final size:42
Alignment explanation
Indices: 69130192--69130311 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 42
69130182 ATCTGAGACA
* *
69130192 TCGTGTAAGACCATGTCTGAGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
* *
69130234 TACGTATAAGACCATGTCTGGGACATC-GACATCGTATCT-A-ATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TGAGATT
* *
69130277 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
69130312 ATTGAATTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.03
42 28 0.43
43 30 0.46
44 4 0.06
45 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
Found at i:69131641 original size:30 final size:30
Alignment explanation
Indices: 69131626--69131812 Score: 253
Period size: 30 Copynumber: 6.4 Consensus size: 30
69131616 AACCAAAATG
*
69131626 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
69131656 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
69131686 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
69131711 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
69131741 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
69131771 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
69131802 AGAACCAGAAT
1 AGAATCAGAAT
69131813 GTGAATGATC
Statistics
Matches: 140, Mismatches: 7, Indels: 19
0.84 0.04 0.11
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 91 0.65
31 23 0.16
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:69131726 original size:85 final size:85
Alignment explanation
Indices: 69131626--69131812 Score: 347
Period size: 85 Copynumber: 2.2 Consensus size: 85
69131616 AACCAAAATG
69131626 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
69131691 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
*
69131711 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
69131776 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
*
69131796 AGAATCAGAACCAGAAT
1 AGAATCAGAATCAGAAT
69131813 GTGAATGATC
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 99 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:69131805 original size:6 final size:6
Alignment explanation
Indices: 69131626--69131787 Score: 174
Period size: 6 Copynumber: 26.8 Consensus size: 6
69131616 AACCAAAATG
*
69131626 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
69131674 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
69131723 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
69131771 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
69131788 TACGTGACAG
Statistics
Matches: 133, Mismatches: 10, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
5 10 0.08
6 113 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:69131984 original size:27 final size:26
Alignment explanation
Indices: 69131945--69132043 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
69131935 CAGTTATCAT
* *
69131945 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
69131972 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
* *
69131998 ATATTTGTGGCATAGCCACCAGAAACAT
1 ATA-TTGTGGCAGAGCCACCAG-AACAG
* *
69132026 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
69132044 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.78
28 7 0.11
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:69132235 original size:22 final size:22
Alignment explanation
Indices: 69132201--69132265 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
69132191 GCAAATACTT
*
69132201 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
69132223 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
69132245 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
69132266 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:69132748 original size:27 final size:27
Alignment explanation
Indices: 69132690--69133000 Score: 354
Period size: 27 Copynumber: 11.3 Consensus size: 27
69132680 AAGGGCAAAA
* * * *
69132690 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
69132716 TGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
69132743 TAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
69132770 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
69132797 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
69132824 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
69132851 CTGTATTTTGTATTTCTACCCTACAGGGGTATTT
1 -TG------GTAATTCTACCCTACAGGGGTATTT
* *
69132885 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
69132912 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
69132939 CGATAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
69132966 TGGTAATTCTACCCTGCAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
69132993 TGGTAATT
1 TGGTAATT
69133001 TTATTGATCG
Statistics
Matches: 248, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
26 15 0.06
27 208 0.84
28 1 0.00
33 1 0.00
34 23 0.09
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:69132904 original size:115 final size:116
Alignment explanation
Indices: 69132737--69132965 Score: 370
Period size: 115 Copynumber: 2.0 Consensus size: 116
69132727 CCCTACAGGG
* * * * *
69132737 GTATTTTAGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTA
1 GTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATA
*
69132802 ATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCT
66 ATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTTCT
* *
69132853 GTATTTT-GTATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATA
1 GTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATA
*
69132917 ATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTT
66 ATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTT
69132966 TGGTAATTCT
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
115 97 0.93
116 7 0.07
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (116 bp):
GTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATA
ATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTTCT
Found at i:69132925 original size:88 final size:87
Alignment explanation
Indices: 69132764--69132991 Score: 360
Period size: 88 Copynumber: 2.7 Consensus size: 87
69132754 CCTTATAGGG
69132764 GTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATA
1 GTATTTT-GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATA
69132829 ATTCTACCCTACAGGGGTATTTC
65 ATTCTACCCTACAGGGGTATTTC
*
69132852 TGTATTTTGTATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATA
1 -GTATTTTGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATA
69132917 ATTCTACCCTACAGGGGTATTTC
65 ATTCTACCCTACAGGGGTATTTC
* * *
69132940 G-A-----TAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTGCAGGGGTATT
1 GTATTTTGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
69132992 TTGGTAATTT
Statistics
Matches: 134, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
81 46 0.34
86 1 0.01
87 1 0.01
88 79 0.59
89 7 0.05
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (87 bp):
GTATTTTGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAA
TTCTACCCTACAGGGGTATTTC
Found at i:69132986 original size:142 final size:142
Alignment explanation
Indices: 69132726--69132992 Score: 410
Period size: 142 Copynumber: 1.9 Consensus size: 142
69132716 TGGTAATTCC
* * * **
69132726 ACCCTACAGGGGTATTTTAGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCGAGTAATTCTACCCTACAGGG
* *
69132791 GTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
66 GTATTTCGATAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
69132856 TTTTGTATTTCT
131 TTTTGTATTTCT
*
69132868 ACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGA-TAATTCTACCCTACAGG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT-CGAGTAATTCTACCCTACAGG
** * *
69132932 GGTATTTCGATAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTGCAGGGGTATTT
65 GGTATTTCGATAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTT
69132993 TGGTAATTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
142 111 0.99
143 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (142 bp):
ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCGAGTAATTCTACCCTACAGGG
GTATTTCGATAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
TTTTGTATTTCT
Found at i:69133015 original size:27 final size:27
Alignment explanation
Indices: 69132985--69133334 Score: 175
Period size: 27 Copynumber: 13.1 Consensus size: 27
69132975 TACCCTGCAG
* **
69132985 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* * **
69133012 GGGTACTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTATAAATC-GA
*
69133039 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
69133066 GGATATTTGGGTAATTTTATAAACCG-
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
69133092 GGGTACTTT-GGTAATTTTACAACTGGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
** *
69133119 -GGTATTTTAGTAATTTCAT-AATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
69133144 GGGTAAAAT-GGTAATTTTGTAAA-CTGA
1 GGGT-ATTTCGGTAATTTTATAAATC-GA
** *
69133171 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
*** * *
69133198 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
69133225 GGGTAAAAT-GGTAATTCTATAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** *
69133252 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** * *
69133279 GGGTGA-AACGGTAATTCTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
* *
69133306 GGGTACTTT-GGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
69133333 GG
1 GG
69133335 ACATTTTAGT
Statistics
Matches: 262, Mismatches: 46, Indels: 30
0.78 0.14 0.09
Matches are distributed among these distances:
25 7 0.03
26 47 0.18
27 203 0.77
28 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTATAAATCGA
Found at i:69133122 original size:26 final size:25
Alignment explanation
Indices: 69133022--69133134 Score: 86
Period size: 26 Copynumber: 4.3 Consensus size: 25
69133012 GGGTACTTCA
*
69133022 GTAATTTTGCAAACT-GAGGGTATTTCG
1 GTAATTTTAC-AACTGGA-GGTATTT-G
* *
69133049 GTAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAACTGGAGG-TATTT-G
* *
69133076 GTAATTTTATAAACCGG-GGTACTTTG
1 GTAATTTTA-CAACTGGAGGTA-TTTG
*
69133102 GTAATTTTACAACTGGAGGTATTTTA
1 GTAATTTTACAACTGGAGGTA-TTTG
69133128 GTAATTT
1 GTAATTT
69133135 CATAATCGAG
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
25 5 0.07
26 31 0.44
27 31 0.44
28 3 0.04
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (25 bp):
GTAATTTTACAACTGGAGGTATTTG
Found at i:69133321 original size:81 final size:81
Alignment explanation
Indices: 69133138--69133310 Score: 285
Period size: 81 Copynumber: 2.1 Consensus size: 81
69133128 GTAATTTCAT
* *
69133138 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
69133203 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
69133219 AATCGAGGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAACT-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
* * *
69133283 GAAACGGTAATTCTGTA
65 AAAACAGTAATTCTATA
69133300 AATCGAGGGTA
1 AATCGAGGGTA
69133311 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
80 1 0.01
81 85 0.99
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:69133323 original size:54 final size:54
Alignment explanation
Indices: 69133138--69133310 Score: 258
Period size: 54 Copynumber: 3.2 Consensus size: 54
69133128 GTAATTTCAT
*
69133138 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTGTA
** * * *
69133192 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
* *
69133246 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
69133300 AATCGAGGGTA
1 AATCGAGGGTA
69133311 CTTTGGTAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
54 104 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
Found at i:69133347 original size:81 final size:81
Alignment explanation
Indices: 69133138--69133355 Score: 222
Period size: 81 Copynumber: 2.7 Consensus size: 81
69133128 GTAATTTCAT
* ** ** *
69133138 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTACAAATC-GAGGACAAAATAGTAATTTTGTAAATCGAGGGT
69133202 AAAACAGTAATTCTATA
65 AAAACAGTAATTCTATA
* ** * *
69133219 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTA
* *
69133284 AAACGGTAATTCTGTA
66 AAACAGTAATTCTATA
*** * * *** *
69133300 AATCGAGGGTACTTTGGTAATTTTACAAATTGAGGACATTTTAGTAATTTGGTAAA
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAA
69133356 CTAAAGTATT
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 117 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:69135335 original size:30 final size:29
Alignment explanation
Indices: 69135299--69135482 Score: 215
Period size: 30 Copynumber: 6.1 Consensus size: 29
69135289 AAGAAACATT
* * *
69135299 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
69135329 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
69135359 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
*
69135390 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
69135420 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* *
69135450 ATCAGAATTACGTGACAGAATCAGAACCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
69135481 AT
1 AT
69135483 GTGAATGCAA
Statistics
Matches: 134, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
30 84 0.63
31 50 0.37
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:69135397 original size:91 final size:91
Alignment explanation
Indices: 69135299--69135482 Score: 280
Period size: 91 Copynumber: 2.0 Consensus size: 91
69135289 AAGAAACATT
* *
69135299 ATCAGAAT-TGGAACCAAAATGAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCA
1 ATCAGAATCAGGAA-CAAAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCA
* *
69135363 GAATTAGGTGACAGAATCAGAATCAGA
65 GAATTACGTGACAGAATCAGAACCAGA
* * * *
69135390 ATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAG
1 ATCAGAATCAGGAACAAAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAG
69135455 AATTACGTGACAGAATCAGAACCAGA
66 AATTACGTGACAGAATCAGAACCAGA
69135481 AT
1 AT
69135483 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 81 0.96
92 3 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (91 bp):
ATCAGAATCAGGAACAAAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAG
AATTACGTGACAGAATCAGAACCAGA
Found at i:69135475 original size:6 final size:6
Alignment explanation
Indices: 69135320--69135457 Score: 167
Period size: 6 Copynumber: 22.8 Consensus size: 6
69135310 AACCAAAATG
*
69135320 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
69135368 AG-GTGAC AGAATC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAAT--C AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
69135417 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
69135458 TACGTGACAG
Statistics
Matches: 115, Mismatches: 8, Indels: 18
0.82 0.06 0.13
Matches are distributed among these distances:
5 7 0.06
6 100 0.87
7 7 0.06
8 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:69135656 original size:27 final size:26
Alignment explanation
Indices: 69135617--69135715 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
69135607 CAGTTATCAT
* *
69135617 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
69135644 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
* *
69135670 ATATTTGTGGCATAGCCACCAGAAACAT
1 ATA-TTGTGGCAGAGCCACCAG-AACAG
* *
69135698 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
69135716 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.78
28 7 0.11
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:69135901 original size:22 final size:22
Alignment explanation
Indices: 69135873--69135937 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
69135863 GCAAATACTT
*
69135873 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
69135895 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
69135917 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
69135938 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:69136420 original size:27 final size:27
Alignment explanation
Indices: 69136362--69136673 Score: 320
Period size: 27 Copynumber: 11.3 Consensus size: 27
69136352 AAGGGCAAAA
* * * *
69136362 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
69136388 TGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
69136415 TAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
69136442 TAGTAATTCTACCCTACTGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
69136469 CGGTAATTCTACCCTATAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
69136496 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
69136523 CTGTATTTCTGTATTTCTACCCTACAGGGGTATTT
1 -TG-------GTAATTCTACCCTACAGGGGTATTT
* * *
69136558 CGGTAATTCTACCCTACAAGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
69136585 CGATAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
69136612 CGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
69136639 TGGTAATTCTACCCTGCAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
69136666 TGGTAATT
1 TGGTAATT
69136674 TTATTGATCG
Statistics
Matches: 244, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
26 15 0.06
27 204 0.84
28 1 0.00
34 1 0.00
35 23 0.09
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:69136659 original size:143 final size:143
Alignment explanation
Indices: 69136398--69136665 Score: 385
Period size: 143 Copynumber: 1.9 Consensus size: 143
69136388 TGGTAATTCC
* * * * ** **
69136398 ACCCTACAGGGGTATTTTAGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACTGGG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTCGAGTAATTCTACCCTACAAGG
* *
69136463 GTATTTCGGTAATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
66 GTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
69136528 TTTCTGTATTTCT
131 TTTCTGTATTTCT
*
69136541 ACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGA-TAATTCTACCCTACAAG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATT-CGAGTAATTCTACCCTACAAG
** * *
69136605 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTGCAGGGGTATTT
65 GGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTT
69136666 TGGTAATTTT
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
143 108 0.99
144 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (143 bp):
ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTCGAGTAATTCTACCCTACAAGG
GTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
TTTCTGTATTTCT
Found at i:69136688 original size:27 final size:27
Alignment explanation
Indices: 69136658--69137007 Score: 166
Period size: 27 Copynumber: 13.1 Consensus size: 27
69136648 TACCCTGCAG
* **
69136658 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* **
69136685 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTATAAATC-GA
*
69136712 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
69136739 GGATATTTGGGTAATTTTATAAACCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
69136766 -GGTACTTT-GGTAATTTTACAACTGGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
** *
69136792 -GGTATTTTAGTAATTTCAT-AATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** * *
69136817 GGGTAAAAT-GGTAATTTTGT-AAGCTGA
1 GGGT-ATTTCGGTAATTTTATAAATC-GA
** *
69136844 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
*** * * *
69136871 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
69136898 GGGTACAAT-GGTAATTCTATAAATCGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
** *
69136925 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** * *
69136952 GGGTGA-AACGGTAATTCTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
* *
69136979 GGGTACTTT-GGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
69137006 GG
1 GG
69137008 ACATTTTAGT
Statistics
Matches: 263, Mismatches: 46, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
25 7 0.03
26 49 0.19
27 200 0.76
28 7 0.03
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTATAAATCGA
Found at i:69136874 original size:54 final size:54
Alignment explanation
Indices: 69136811--69136983 Score: 249
Period size: 54 Copynumber: 3.2 Consensus size: 54
69136801 GTAATTTCAT
* *
69136811 AATCGAGGGTAAAATGGTAATTTTGT-AAGCTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTGTA
** * * *
69136865 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTACAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
* *
69136919 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
69136973 AATCGAGGGTA
1 AATCGAGGGTA
69136984 CTTTGGTAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
54 101 0.97
55 3 0.03
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
Found at i:69136984 original size:81 final size:81
Alignment explanation
Indices: 69136811--69136994 Score: 280
Period size: 81 Copynumber: 2.3 Consensus size: 81
69136801 GTAATTTCAT
* * *
69136811 AATCGAGGGTAAAATGGTAATTTTGTAAGCTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTACAATGGTAATTCTATAAGCTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
69136876 AAACAGTAATTCTGTA
66 AAACAGTAATTCTGTA
*
69136892 AATCGAGGGTACAATGGTAATTCTATAA-ATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTACAATGGTAATTCTATAAGCT-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
* *
69136956 GAAACGGTAATTCTGTA
65 AAAACAGTAATTCTGTA
**
69136973 AATCGAGGGTACTTTGGTAATT
1 AATCGAGGGTACAATGGTAATT
69136995 TTACAAATTG
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 93 0.99
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTACAATGGTAATTCTATAAGCTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:69137020 original size:81 final size:81
Alignment explanation
Indices: 69136848--69137028 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
69136838 AGCTGAGGGT
*
69136848 AAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTACAATGGTAAT
1 AAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTACAATGGTAAT
* **
69136913 TCTATAAATCGAGGGT
66 TCTACAAATCGAGGAC
* * * **
69136929 AAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTACTTTGGTAAT
1 AAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTACAATGGTAAT
* *
69136994 TTTACAAATTGAGGAC
66 TCTACAAATCGAGGAC
*** *
69137010 ATTTTAGTAATTTGGTAAA
1 AAAATAGTAATTTTGTAAA
69137029 CTAAAGTATT
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (81 bp):
AAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTACAATGGTAAT
TCTACAAATCGAGGAC
Found at i:69149265 original size:40 final size:40
Alignment explanation
Indices: 69149198--69149374 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
69149188 ACCCAAGTAT
*
69149198 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
69149237 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
69149277 CTTCGGGTTTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
69149317 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
69149357 CTTCAGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
69149375 TTATCATCCG
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 101 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:69149331 original size:80 final size:79
Alignment explanation
Indices: 69149198--69149360 Score: 247
Period size: 80 Copynumber: 2.1 Consensus size: 79
69149188 ACCCAAGTAT
* * *
69149198 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCA
1 CTTCGGGATTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
69149263 ACTCGCACAAATGC
66 ACTCGCACAAATGC
* *
69149277 CTTCGGGTTTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGATTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAG
*
69149341 CAACTCGCACGAATGC
64 CAACTCGCACAAATGC
69149357 CTTC
1 CTTC
69149361 AGATCTTAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 12 0.16
80 63 0.83
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGGATTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:69153645 original size:2 final size:2
Alignment explanation
Indices: 69153638--69153669 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
69153628 ATATGTACAA
*
69153638 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69153670 GTAGATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:69154379 original size:34 final size:33
Alignment explanation
Indices: 69154331--69154420 Score: 155
Period size: 34 Copynumber: 2.7 Consensus size: 33
69154321 AGGTTTTTTA
69154331 TTTTTTTTTT-GGTTAGGTTTTTCTTTTTTCTT
1 TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
69154363 CTTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
1 -TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
69154397 TTTTTTTTTTAGGGTTAGGTTTTT
1 TTTTTTTTTT-GGGTTAGGTTTTT
69154421 TTGGGGGCTT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
33 20 0.36
34 35 0.64
ACGTcount: A:0.04, C:0.06, G:0.16, T:0.74
Consensus pattern (33 bp):
TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTT
Found at i:69155093 original size:12 final size:13
Alignment explanation
Indices: 69155063--69155093 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
69155053 ATTGACTCTC
*
69155063 TAAAAACAGACAT
1 TAAAAACAGAAAT
69155076 TAAAAACAGAAAT
1 TAAAAACAGAAAT
69155089 TAAAA
1 TAAAA
69155094 TAGCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.10, G:0.06, T:0.16
Consensus pattern (13 bp):
TAAAAACAGAAAT
Found at i:69155280 original size:30 final size:30
Alignment explanation
Indices: 69155244--69155305 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
69155234 TTTTGAAAAA
69155244 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
69155274 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
69155304 CA
1 CA
69155306 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:69155462 original size:88 final size:86
Alignment explanation
Indices: 69155028--69155496 Score: 276
Period size: 88 Copynumber: 5.5 Consensus size: 86
69155018 GTGATCCTGA
** * * * * *
69155028 GCTCAACTCATTTTTCGCAATATGAATTGACTCTCTAAAAACAGACATTAAAAACAGAAATTAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAACAGA-ATTAAAAACAGAAATTAAA
* *
69155093 ATAGCTC-AGCACGTGAGCC-AAG
65 ATACCTCGA-CATGTGA-CCAAAG
* ** * * **
69155115 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAACTTAACTTGAAAAGCATATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAACAGAA-TT-AAAAACAGAAATT-A
* *
69155179 AAATACCTCGATATGTGACTAAAG
63 AAATACCTCGACATGTGACCAAAG
* ** * *
69155203 GTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGAC-TCAACTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTG-AAAACAG-AATTAAAA-ACAGAAATTA
* * * *
69155266 AACT-CTCGCAGAAAT-T-A--AAAA
63 AAATAC-CTC-GACATGTGACCAAAG
* ***
69155287 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT-TTGA-A-AA--AAAAA-AGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAACAGAATTAAAAACAGAAATT-AAA
* *
69155346 ATAGCTC-AGCACGTGAGCC-AAG
65 ATACCTCGA-CATGTGA-CCAAAG
* **
69155368 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAATCTGAAAAACAGATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAACAGAAT-T-AAAAACAGAAATT-A
**
69155432 AAATACCTCGACATGTGACCCGAG
63 AAATACCTCGACATGTGACCAAAG
* *
69155456 GCTCAACTCACATCTCGCAATGTGAGTTGA-TATTTTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGACT-TTTTGAAAA
69155497 ATATAAATTG
Statistics
Matches: 294, Mismatches: 56, Indels: 62
0.71 0.14 0.15
Matches are distributed among these distances:
76 1 0.00
77 5 0.02
78 10 0.03
79 1 0.00
80 7 0.02
81 32 0.11
82 2 0.01
83 3 0.01
84 32 0.11
85 6 0.02
86 9 0.03
87 58 0.20
88 108 0.37
89 18 0.06
90 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (86 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTGAAAACAGAATTAAAAACAGAAATTAAAA
TACCTCGACATGTGACCAAAG
Found at i:69155646 original size:77 final size:77
Alignment explanation
Indices: 69155428--69155958 Score: 323
Period size: 77 Copynumber: 6.7 Consensus size: 77
69155418 AAAACAGATT
* * * *
69155428 TTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAGTTGA-TATTT
1 TTGAAAATACCTCAG-CATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
69155491 TGAAAAATATAAA
65 TGAAAGACAGAAA
** **
69155504 TTGAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TTG-AAAATACCTCAGCATGTGA-CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
69155568 TTGAAAGACAGAAA
64 TTGAAAGACAGAAA
* * *
69155582 TTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTT
*
69155647 TTTTGAAAGGCAGAAA
62 TTTTGAAAGACAGAAA
*** * ** * * * * * * * * *
69155663 TTGAAAA-ACGGAAATTGAAAAT-ACCTC-GGGCTTGACCTGAGGCTCAACTCGC-CTCTCACAA
1 TTGAAAATAC-CTCA--GCATGTGACC-CAAGGC-TCAACTCA--C-C-TCTCGCAATAT--GAG
*
69155724 TATGAGTTGATTTTTTTGACA-ACAGAAA
55 T-TGA--T--TTTT-TTGAAAGACAGAAA
* * **
69155752 TTGAAATTACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
69155815 GAAAAACAGAAA
66 GAAAGACAGAAA
*** ** *
69155827 TTGAAAATACCTCAG-ATGT--CTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTTT
1 TTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG-A---TTT
69155889 TTTTGAAAGACAGAAA
62 TTTTGAAAGACAGAAA
* *
69155905 TTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
69155959 CTGGTTTTGA
Statistics
Matches: 348, Mismatches: 69, Indels: 71
0.71 0.14 0.15
Matches are distributed among these distances:
74 36 0.10
75 26 0.07
76 7 0.02
77 89 0.26
78 53 0.15
79 7 0.02
80 3 0.01
81 57 0.16
82 8 0.02
83 10 0.03
85 7 0.02
86 8 0.02
87 8 0.02
88 2 0.01
89 20 0.06
90 7 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (77 bp):
TTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAGACAGAAA
Found at i:69155806 original size:168 final size:172
Alignment explanation
Indices: 69155501--69155958 Score: 477
Period size: 171 Copynumber: 2.8 Consensus size: 172
69155491 TGAAAAATAT
* * *
69155501 AAATTGAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAAATACCTCAGGGTGTGACCTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTT
*
69155566 TTTTGAAAGACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAT
66 TTTTGAAAGACAGAAATTGAAAATACCTCAG-ACGTGAGCCAAGGCTCAACTCACCTCTCGCAAT
69155631 ATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGG
130 ATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGG
* *
69155674 AAATTG-AAAATACCTC-GGGCT-TGACCTGAGGCTCAACTCGCCTCTCACAATATGAGTTGATT
1 AAATTGAAAAATACCTCAGGG-TGTGACCTGAAGCTCAACTCACCTCTCACAATATGAGTTGATT
* * * *
69155736 TTTTTGACA-ACAGAAATTGAAATTACCTCAG-CGTG-TCCTGAGGCTCAACTCACCTCTCGCAA
65 TTTTTGAAAGACAGAAATTGAAAATACCTCAGACGTGAGCC-AAGGCTCAACTCACCTCTCGCAA
*
69155798 TATGAGTTGA------TTTTT------------TTGAAAAACAG
129 TATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGG
* * * **
69155824 AAATTG-AAAATACCTCA-GATGT--CTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATT
1 AAATTGAAAAATACCTCAGGGTGTGACCTGAAGCTCAACTCACCTCTCACAATATGAGTTG-A--
* * *
69155885 TTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCG
63 -TTTTTTTGAAAGACAGAAATTGAAAATACCTCAG-ACGTGAGCCAAGGCTCAACTCACCTCTCG
69155950 CAATATGAG
126 CAATATGAG
69155959 CTGGTTTTGA
Statistics
Matches: 253, Mismatches: 20, Indels: 42
0.80 0.06 0.13
Matches are distributed among these distances:
148 31 0.12
149 2 0.01
150 28 0.11
152 10 0.04
153 21 0.08
155 32 0.13
156 2 0.01
162 5 0.02
167 2 0.01
168 36 0.14
170 20 0.08
171 47 0.19
172 11 0.04
173 6 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (172 bp):
AAATTGAAAAATACCTCAGGGTGTGACCTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTT
TTTTGAAAGACAGAAATTGAAAATACCTCAGACGTGAGCCAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGG
Found at i:69155823 original size:75 final size:75
Alignment explanation
Indices: 69155663--69155958 Score: 364
Period size: 74 Copynumber: 3.9 Consensus size: 75
69155653 AAGGCAGAAA
* * * *
69155663 TTGAAAAACGGAAATTGAAAATACCTCGGGCTTGACCTGAGGCTCAACTCGCCTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAATACCTC-AGCGTGACCTGAGGCTCAACTCACCTCTCACAATATG
69155728 AGTTGATTTTT
65 AGTTGATTTTT
* * * *
69155739 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGA
69155803 GTTGATTTTT
66 GTTGATTTTT
* * * **
69155813 TTGAAAAACAGAAATTGAAAATACCTCAG-ATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGA
69155877 GTTGAATTTTTTTT
66 GTTG-A---TTTTT
* *
69155891 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCACAATA
69155955 TGAG
63 TGAG
69155959 CTGGTTTTGA
Statistics
Matches: 189, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
74 80 0.42
75 44 0.23
76 3 0.02
78 33 0.17
81 28 0.15
82 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTTT
Found at i:69155856 original size:242 final size:246
Alignment explanation
Indices: 69155077--69155911 Score: 845
Period size: 242 Copynumber: 3.4 Consensus size: 246
69155067 AACAGACATT
*
69155077 AAAAACAGAAATT-AAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCAC-TGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
** * * * ** * **
69155141 TTGA----TTTTTTG-AA-ACTTAACTTGAAAAGCATATTTTGAAAATACCTCGATATGTGACTA
65 TTGATTTTTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCC
* * * * *
69155200 AAGGTTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGAAAAACAGAAATT-AAAAGACTCAA
130 GAGGCTCAACTCACATCTCACAATATGAGTTGATATTTTGAAAAACAGAAATTGAAAA-A-T-AC
* * * ** *
69155263 CTCAACTCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
192 CTC-A---GCG-TGTACCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
*
69155326 AAAAAAAAAAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATAT
1 ---AAAAACAGAAATTGAAAATAGCTCAGCAC-TGAGCCAAGGCTCAACTCACTTCTCGCAATAT
**
69155391 GAGTTGA-----TTTTTGAAA-ACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTG
62 GAGTTGATTTTTTTTTTGAAAGACAGAAAT-TGAAAAACAGAAATTGAAAATACCTCGACATGTG
* * * *
69155449 ACCCGAGGCTCAACTCACATCTCGCAATGTGAGTTGATATTTTGAAAAATATAAATTGAAAAATA
126 ACCCGAGGCTCAACTCACATCTCACAATATGAGTTGATATTTTGAAAAACAGAAATTGAAAAATA
* *
69155514 CCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
191 CCTCAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
69155571 AAAGACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCAC-TGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
* * *
69155636 TTGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGGC-T-TGAC
65 TTGA-TTTTTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAATACCTC-GACATGTGAC
* * * * * *
69155699 CTGAGGCTCAACTCGCCTCTCACAATATGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTAC
128 CCGAGGCTCAACTCACATCTCACAATATGAGTTGA-TATTTTGAAAAACAGAAATTGAAAAATAC
*
69155762 CTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
192 CTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** * *
69155816 AAAAACAGAAATTGAAAATACCTCAG-A-TG-TCTTGAGGCTCAACTCATTTCTCACAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACTGAGC-CAAGGCTCAACTCACTTCTCGCAATATGAG
69155878 TTGAATTTTTTTTTTGAAAGACAGAAATTGAAAA
65 TTG-ATTTTTTTTTTGAAAGACAGAAATTGAAAA
69155912 TACCTCAGCA
Statistics
Matches: 511, Mismatches: 54, Indels: 46
0.84 0.09 0.08
Matches are distributed among these distances:
241 1 0.00
242 124 0.24
243 1 0.00
244 1 0.00
245 75 0.15
246 31 0.06
247 16 0.03
248 56 0.11
249 33 0.06
250 5 0.01
251 1 0.00
252 24 0.05
253 122 0.24
254 17 0.03
255 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (246 bp):
AAAAACAGAAATTGAAAATAGCTCAGCACTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGT
TGATTTTTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCG
AGGCTCAACTCACATCTCACAATATGAGTTGATATTTTGAAAAACAGAAATTGAAAAATACCTCA
GCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:69155979 original size:153 final size:148
Alignment explanation
Indices: 69155663--69155985 Score: 386
Period size: 155 Copynumber: 2.1 Consensus size: 148
69155653 AAGGCAGAAA
* * * *
69155663 TTGAAAAACGGAAATTGAAAATACCTCGGGCTTGACCTGAGGCTCAACTCGCCTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCGAGCATGACCTGAGGCTCAACTCACCTCTCACAATATG
* * *
69155728 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 AGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCT
* *
69155793 CGCAATATGAGTTGATTTTT
131 CGCAATATGAGCTG--TGTT
* * **
69155813 TTGAAAAACAGAAATTGAAAATACCTC-AG-ATGTCTTGAGGCTCAACTCATTTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCGAGCATGACCTGAGGCTCAACTCACCTCTCACAATATG
69155876 AGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAAC
66 AGTTG-A---TTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAAC
69155940 TCACCTCTCGCAATATGAGCTG-GTT
123 TCACCTCTCGCAATATGAGCTGTGTT
*
69155965 TTGAAAAAGTAGAAATT-AAAA
1 TTGAAAAA-CAGAAATTGAAAA
69155986 GGTTCAACCC
Statistics
Matches: 150, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
148 33 0.22
149 2 0.01
150 26 0.17
152 24 0.16
153 29 0.19
155 34 0.23
156 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (148 bp):
TTGAAAAACAGAAATTGAAAATACCTCGAGCATGACCTGAGGCTCAACTCACCTCTCACAATATG
AGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCT
CGCAATATGAGCTGTGTT
Found at i:69156035 original size:54 final size:54
Alignment explanation
Indices: 69155935--69156040 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
69155925 GAACCGAGGC
* *
69155935 TCAACTCACCTCTCGCAATATGAGCTGGTTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
69155989 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
69156041 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:69156165 original size:210 final size:211
Alignment explanation
Indices: 69155817--69156221 Score: 541
Period size: 210 Copynumber: 1.9 Consensus size: 211
69155807 ATTTTTTTGA
* * **
69155817 AAAACAGAAATTGAAAATACCTCAGATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGA
1 AAAACAGAAATTGAAAATACCTCAGATGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
* *
69155882 ATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTC
66 A------TATTGAAAGACAAAAATTGAAAATACCTCAGCA-GTGAACCGAGGCTCAACTCACCTC
* * *
69155947 TCGCAATATGAGCTGGTTTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATG
124 TAGCAATATGAGCTGATTTTGAAAAA--AAAAATTAAAAGGCTT-AACCCACCTCTCGCAATATG
69156011 AGTTGATTCTTGAACAACGTAAATTG
186 AGTTGATTCTTGAACAACGTAAATTG
* *
69156037 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAG-ATGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
**
69156102 AA-ATT-AAA-ACAAAAATTGAAAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTAGCAA
65 AATATTGAAAGACAAAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTAGCAA
* *
69156163 TATGAGTTGATTTTGAAAAAAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGT
130 TATGAGCTGATTTTGAAAAAAAAAATTAAAAGGCTTAACCCACCTCTCGCAATATGAGT
69156222 CAATTTAAAA
Statistics
Matches: 168, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
208 34 0.20
209 2 0.01
210 45 0.27
212 22 0.13
213 3 0.02
214 2 0.01
220 25 0.15
221 35 0.21
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (211 bp):
AAAACAGAAATTGAAAATACCTCAGATGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
ATATTGAAAGACAAAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTAGCAAT
ATGAGCTGATTTTGAAAAAAAAAATTAAAAGGCTTAACCCACCTCTCGCAATATGAGTTGATTCT
TGAACAACGTAAATTG
Found at i:69156186 original size:70 final size:71
Alignment explanation
Indices: 69156031--69156193 Score: 249
Period size: 70 Copynumber: 2.3 Consensus size: 71
69156021 TGAACAACGT
* * *
69156031 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTGAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
69156096 GAGTTG
66 GAGTTG
*
69156102 AAATT-AAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATAT
1 AAATTGAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
69156166 GAGTTG
66 GAGTTG
** *
69156172 ATTTTGAAAAAAAAAATT-AAAA
1 AAATTGAAAACAAAAATTGAAAA
69156194 GGCTTAACTC
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
70 68 0.81
71 16 0.19
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (71 bp):
AAATTGAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:69156304 original size:115 final size:118
Alignment explanation
Indices: 69156071--69156296 Score: 314
Period size: 115 Copynumber: 1.9 Consensus size: 118
69156061 GCGTGACCTG
* *
69156071 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAAATTAAAACAAAAA-TG---ATACCTCAACGTG
69156136 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
62 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
* * * * *
69156193 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACTAAAA-G-TACCTTAACTTGCCCC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAAATTAAAACAAAAATGATACCTCAACGTGCCCC
* *
69156255 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA
66 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA
69156297 CAGAAATTGA
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
115 53 0.56
119 1 0.01
121 14 0.15
122 27 0.28
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (118 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAAATTAAAACAAAAATGATACCTCAACGTGCCCC
GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
Found at i:69156520 original size:147 final size:145
Alignment explanation
Indices: 69156255--69156594 Score: 481
Period size: 147 Copynumber: 2.4 Consensus size: 145
69156245 AACTTGCCCC
* * *
69156255 GAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTGAAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAACTACCTCAG
** * *
69156318 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAGACAAAAATTGAAAAT
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAAATTAAAACACAAAAATTGAAAAT
*
69156383 ACCTCGGCGTGTGACCT
131 ACCTCAGC--GTGACCT
* * * *
69156400 GAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTGATAACAAAAATTGAAACTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAACTACCTCAG
* *
69156465 CGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGAAATTAAAACACAAAAATTGAAAAT
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAAATTAAAACACAAAAATTGAAAAT
69156530 ACCTCAGCGTGACCT
131 ACCTCAGCGTGACCT
* *
69156545 GAGGCTCGACTCACCTCTAGCAATATGAGTTGA--TTTTGAAAAACAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAAAAAT
69156595 AAAAGGCTTA
Statistics
Matches: 172, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
143 5 0.03
144 10 0.06
145 64 0.37
147 93 0.54
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (145 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAACTACCTCAG
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAAATTAAAACACAAAAATTGAAAAT
ACCTCAGCGTGACCT
Found at i:69156537 original size:72 final size:71
Alignment explanation
Indices: 69156255--69156594 Score: 464
Period size: 72 Copynumber: 4.7 Consensus size: 71
69156245 AACTTGCCCC
* * *
69156255 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTGAAAATACCTCAGCG
69156320 TGTCCT
66 TGTCCT
* *
69156326 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAGACAAAAATTGAAAATACCTCGGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTGAAAATACCTCAGC
69156391 GTGTGACCT
65 GTGT--CCT
* * * * *
69156400 GAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTGATAACAAAAATTGAAACTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAACAAAAATTGAAAATACCTCAG
69156465 CGTGTCCT
64 CGTGTCCT
* ** *
69156473 GAGGCTCAACTCACCTCTCGTAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTGAAAATACCTCAGC
*
69156538 GTGACCT
65 GTGTCCT
* *
69156545 GAGGCTCGACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAAT
69156595 AAAAGGCTTA
Statistics
Matches: 234, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
71 43 0.18
72 92 0.39
73 35 0.15
74 32 0.14
75 25 0.11
76 7 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (71 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTGAAAATACCTCAGCG
TGTCCT
Found at i:69156730 original size:115 final size:113
Alignment explanation
Indices: 69156525--69156741 Score: 294
Period size: 115 Copynumber: 1.9 Consensus size: 113
69156515 ACAAAAATTG
* *
69156525 AAAATACCTCAGCGTGACCTGAGGCTCGACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
1 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
*
69156590 AAAATAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
66 AAAATAAAA-G-ATAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
* * *
69156640 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACA
1 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
* *
69156704 ACAATTAAAA-ATACCTCAACGTCTCTCGCAATATGAGT
66 A-AAATAAAAGATAACTC-AC--CTCTCGCAATATGAGT
69156742 TGATTTTCCT
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
112 5 0.06
113 2 0.02
114 7 0.08
115 76 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (113 bp):
AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
AAAATAAAAGATAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
Found at i:69163651 original size:2 final size:2
Alignment explanation
Indices: 69163644--69163673 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
69163634 ATATGTACAA
*
69163644 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69163674 GTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:69164382 original size:27 final size:29
Alignment explanation
Indices: 69164352--69164415 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
69164342 AGGTTTTTCT
69164352 TTTTTC-TTCTTTTTTTTTT-GGGTTAGG
1 TTTTTCTTTCTTTTTTTTTTAGGGTTAGG
69164379 TTTTTCTTTTTTCTTTTTTTTTTAGGGTTAGG
1 TTTTTC---TTTCTTTTTTTTTTAGGGTTAGG
69164411 TTTTT
1 TTTTT
69164416 TTTTGGGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.19
31 13 0.41
32 13 0.41
ACGTcount: A:0.05, C:0.06, G:0.16, T:0.73
Consensus pattern (29 bp):
TTTTTCTTTCTTTTTTTTTTAGGGTTAGG
Found at i:69164397 original size:32 final size:34
Alignment explanation
Indices: 69164329--69164419 Score: 145
Period size: 32 Copynumber: 2.8 Consensus size: 34
69164319 AGGTTTTTTA
69164329 TTTTTTTTT-GGTTAGGTTTTTCTTTTTTCTTCT
1 TTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTCT
69164362 TTTTTTTTTGGGTTAGGTTTTTCTTTTTTC-T-T
1 TTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTCT
*
69164394 TTTTTTTTAGGGTTAGGTTTTT-TTTT
1 TTTTTTTTTGGGTTAGGTTTTTCTTTT
69164420 GGGGGGGCTT
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
31 4 0.07
32 22 0.39
33 10 0.18
34 20 0.36
ACGTcount: A:0.04, C:0.05, G:0.15, T:0.75
Consensus pattern (34 bp):
TTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTCT
Found at i:69165586 original size:30 final size:30
Alignment explanation
Indices: 69165528--69165587 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
69165518 TTCCCGAGCC
* *
69165528 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
* *
69165558 TAGGGGCAAAAATGTAATTTTACCAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
69165588 CGTATTAAAT
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:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATACAAAAGTT
Found at i:69168656 original size:44 final size:42
Alignment explanation
Indices: 69168602--69168704 Score: 154
Period size: 44 Copynumber: 2.4 Consensus size: 42
69168592 TTACGATATG
*
69168602 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-ATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
*
69168643 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
69168688 TGATTTCGTGTAAGACC
1 TGATTTCGTGTAAGACC
69168705 CTATTTGGGA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
41 1 0.02
42 11 0.20
43 10 0.18
44 31 0.55
45 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
Found at i:69171013 original size:14 final size:14
Alignment explanation
Indices: 69170994--69171023 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
69170984 AACACTTACT
69170994 CCATATCAATCTTA
1 CCATATCAATCTTA
69171008 CCATATCAATCTTA
1 CCATATCAATCTTA
69171022 CC
1 CC
69171024 CAAGCTCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (14 bp):
CCATATCAATCTTA
Found at i:69171277 original size:50 final size:50
Alignment explanation
Indices: 69171213--69171854 Score: 658
Period size: 50 Copynumber: 12.7 Consensus size: 50
69171203 CTGGTATGCA
* *
69171213 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * *
69171263 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * ** *
69171313 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
* * *
69171364 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAACTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * ** *
69171414 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGCTATCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CAATCTGGTACACG
* * *
69171465 TAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * * * *** *
69171515 TTGTAGCTTGCACTTAGTGCAACACATGTAACCTAA-AACCGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA---TCTGGTACACG
* * * * * *
69171567 TAGTAGCCTGTACATGGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * * * *
69171617 AAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
* * * *
69171668 TAATAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGCTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * * *
69171718 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATCGGGTACGCG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
* * *
69171769 TAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
69171819 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
69171855 AACCGTCTTA
Statistics
Matches: 472, Mismatches: 110, Indels: 20
0.78 0.18 0.03
Matches are distributed among these distances:
49 3 0.01
50 277 0.59
51 157 0.33
52 34 0.07
53 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:69171389 original size:101 final size:101
Alignment explanation
Indices: 69171213--69171849 Score: 799
Period size: 101 Copynumber: 6.3 Consensus size: 101
69171203 CTGGTATGCA
* * * * * * *
69171213 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCACT
*** * *
69171277 TAGTACTACACACATGACCTAACCATCTGATACACG
66 TAGTACTACACATGCGACCTAACAATCTGGTACACG
**
69171313 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTATGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCACT
*
69171378 TAGTACTACACATGCGACCTAACAAACTGGTACACG
66 TAGTACTACACATGCGACCTAACAATCTGGTACACG
* ** *
69171414 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGCTATCAGGTATGCATAGTAGCTTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCACT
69171479 TAGTACTACACATGCGACCTAACAATCTGGTACACG
66 TAGTACTACACATGCGACCTAACAATCTGGTACACG
* * * * * * * * * ** **** *
69171515 TTGTAGCTTGCACTTAGTGCAACACATGTAACCTAAAACCGTCTTAAACACATAGTAGCCTGTAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATC-GAAGCTATCAGGTACACATAGTAGCCTGCAC
* * *** * *
69171580 ATGGTACTACACACATGACCTAACCATCTGATACACG
65 TTAGTACTACACATGCGACCTAACAATCTGGTACACG
* * *
69171617 AAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCACT
*
69171682 TAGTACTACACATGCGACCTAACAATCTGCTACACG
66 TAGTACTACACATGCGACCTAACAATCTGGTACACG
* * * * *
69171718 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATCGGGTACGCGTAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCACT
69171783 TAGTACTACACATGCGACCTAACAATCTGGTACACG
66 TAGTACTACACATGCGACCTAACAATCTGGTACACG
69171819 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
69171850 CCTAAAACCG
Statistics
Matches: 456, Mismatches: 79, Indels: 3
0.85 0.15 0.01
Matches are distributed among these distances:
100 32 0.07
101 349 0.77
102 75 0.16
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCACT
TAGTACTACACATGCGACCTAACAATCTGGTACACG
Found at i:69171644 original size:203 final size:203
Alignment explanation
Indices: 69171214--69171849 Score: 625
Period size: 203 Copynumber: 3.1 Consensus size: 203
69171204 TGGTATGCAT
* * * * * * * *
69171214 AGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTACACGTAGTAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTT
*** * * * * * *
69171278 AGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
66 AGTACTACACATGCGACCTAACAATCTGCTACACGTAGTAGCCTGCACTTAGTGCAACACATGTA
* * * ** **** ** * **
69171343 ATC-GAAGCTATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAACTG
131 ACCTAAAACCGTCTTAAACACATAGTAGCCTGCACATAGTACTACACACACGACCTAACAAACTG
* *
69171407 GTACACGT
196 ATACACGA
* ** * *
69171415 AGTAGCCTGCACTTAGTACTACACACGTGATTGAAGCTATCAGGTATGCATAGTAGCTTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTT
* * *
69171480 AGTACTACACATGCGACCTAACAATCTGGTACACGTTGTAGCTTGCACTTAGTGCAACACATGTA
66 AGTACTACACATGCGACCTAACAATCTGCTACACGTAGTAGCCTGCACTTAGTGCAACACATGTA
* * * * *
69171545 ACCTAAAACCGTCTTAAACACATAGTAGCCTGTACATGGTACTACACACATGACCTAACCATCTG
131 ACCTAAAACCGTCTTAAACACATAGTAGCCTGCACATAGTACTACACACACGACCTAACAAACTG
69171610 ATACACGA
196 ATACACGA
*
69171618 AGTAGCTTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTT
*
69171683 AGTACTACACATGCGACCTAACAATCTGCTACACGTAGTAGCCTGCACTTAGTACTACACACATG
66 AGTACTACACATGCGACCTAACAATCTGCTACACGTAGTAGCCTGCACTTAGTGC-A-ACACATG
* * * ** **** * * * * ** *
69171748 --ATC-GAAGCTATCGGGTACGCGTAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATC
129 TAACCTAAAACCGTCTTAAACACATAGTAGCCTGCACATAGTACTACACACACGACCTAACAAAC
* *
69171810 TGGTACACGT
194 TGATACACGA
69171820 AGTAGCCTGCACTTAGTACTACACACGTGA
1 AGTAGCCTGCACTTAGTACTACACACGTGA
69171850 CCTAAAACCG
Statistics
Matches: 356, Mismatches: 75, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
201 30 0.08
202 157 0.44
203 161 0.45
204 1 0.00
205 7 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (203 bp):
AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTT
AGTACTACACATGCGACCTAACAATCTGCTACACGTAGTAGCCTGCACTTAGTGCAACACATGTA
ACCTAAAACCGTCTTAAACACATAGTAGCCTGCACATAGTACTACACACACGACCTAACAAACTG
ATACACGA
Found at i:69171812 original size:304 final size:304
Alignment explanation
Indices: 69171258--69171875 Score: 1020
Period size: 304 Copynumber: 2.0 Consensus size: 304
69171248 ACAATCTGGT
* * *
69171258 ACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTG
1 ACACATAGTAGCCTGCACATAGTACTACACACATGACCTAACCATCTGATACACGAAGTAGCCTG
** *
69171323 CACTTAGTACTACACACGTGATCGAAGCTATCAGGTATGCATAGTAGCCTGCACTTAGTACTACA
66 CACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTTAGTACTACA
* * *
69171388 CATGCGACCTAACAAACTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGCT
131 CATGCGACCTAACAAACTGCTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCT
* * * *
69171453 ATCAGGTATGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTTG
196 ATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAG
* * *
69171518 TAGCTTGCACTTAGTGCAACACATGTAACCTAAAACCGTCTTAA
261 TAGCCTGCACTTAGTACAACACACGTAACCTAAAACCGTCTTAA
* * *
69171562 ACACATAGTAGCCTGTACATGGTACTACACACATGACCTAACCATCTGATACACGAAGTAGCTTG
1 ACACATAGTAGCCTGCACATAGTACTACACACATGACCTAACCATCTGATACACGAAGTAGCCTG
69171627 CACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTTAGTACTACA
66 CACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTTAGTACTACA
*
69171692 CATGCGACCTAACAATCTGCTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCT
131 CATGCGACCTAACAAACTGCTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCT
* *
69171757 ATCGGGTACGCGTAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAG
196 ATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAG
* *
69171822 TAGCCTGCACTTAGTACTACACACGTGACCTAAAACCGTCTTAA
261 TAGCCTGCACTTAGTACAACACACGTAACCTAAAACCGTCTTAA
69171866 ACACATAGTA
1 ACACATAGTA
69171876 CTACACATTA
Statistics
Matches: 290, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
304 290 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (304 bp):
ACACATAGTAGCCTGCACATAGTACTACACACATGACCTAACCATCTGATACACGAAGTAGCCTG
CACTTAGTACTACACACGTGATCGAAGCTATCAGGTACACATAATAGCCTGCACTTAGTACTACA
CATGCGACCTAACAAACTGCTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCT
ATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAG
TAGCCTGCACTTAGTACAACACACGTAACCTAAAACCGTCTTAA
Found at i:69175363 original size:40 final size:40
Alignment explanation
Indices: 69175318--69175484 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
69175308 CGGAATATAA
69175318 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
69175358 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
69175398 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
69175438 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
69175477 CCGGATAT
1 CCGGATAT
69175485 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69187239 original size:28 final size:28
Alignment explanation
Indices: 69187204--69187262 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
69187194 CTAGGGTATA
69187204 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
69187232 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
69187260 TCG
1 TCG
69187263 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:69188870 original size:20 final size:20
Alignment explanation
Indices: 69188847--69188884 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69188837 CACATCCAAA
*
69188847 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
69188867 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
69188885 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:69195205 original size:28 final size:28
Alignment explanation
Indices: 69195159--69195227 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
69195149 TTTAAAACCC
*
69195159 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
69195186 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
69195214 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
69195228 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:69196874 original size:20 final size:20
Alignment explanation
Indices: 69196851--69196888 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69196841 CACATCCAAA
*
69196851 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
69196871 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
69196889 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:69198652 original size:46 final size:45
Alignment explanation
Indices: 69198576--69198749 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
69198566 TGTAACCCGC
** *
69198576 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTT-GCAT
* *
69198622 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTGCAT
* * **
69198672 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G-GGTGTTGCAT
69198715 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
69198750 AATGCTCAAC
Statistics
Matches: 106, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 58 0.55
47 26 0.25
48 4 0.04
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTGCAT
Found at i:69198744 original size:93 final size:93
Alignment explanation
Indices: 69198585--69198754 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
69198575 CCCATAAGCA
* *** *
69198585 AACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
69198650 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGAATGCCTAGTTACATCTCACG
* *
69198678 AACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
69198743 GAGTTCGAATGC
66 GAGTTCGAATGC
69198755 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGAATGCCTAGTTACATCTCACG
Found at i:69198770 original size:46 final size:46
Alignment explanation
Indices: 69198627--69198763 Score: 124
Period size: 47 Copynumber: 3.0 Consensus size: 46
69198617 CGCATCCATG
*
69198627 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTC-A---ACCATCTC
* * * *
69198675 A-CGAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCATCCA--TA
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGCT-CAACCATCTC
69198720 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATC
69198764 CTAGTGACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
44 7 0.10
45 5 0.07
46 26 0.36
47 28 0.39
48 2 0.03
49 3 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCTC
Found at i:69211321 original size:13 final size:13
Alignment explanation
Indices: 69211305--69211329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69211295 TATCACACAC
69211305 CCGTGTGGTCAGA
1 CCGTGTGGTCAGA
69211318 CCGTGTGGTCAG
1 CCGTGTGGTCAG
69211330 TTAAAATGAA
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:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (13 bp):
CCGTGTGGTCAGA
Found at i:69214004 original size:40 final size:41
Alignment explanation
Indices: 69213887--69214006 Score: 97
Period size: 40 Copynumber: 2.9 Consensus size: 41
69213877 CTAGAATGAT
* * *
69213887 TTTCGCACACTTAGTGCCATCTCAACTAACCGAAGCTATCTCGA
1 TTTCGCACACTTAGTGCTAT-T-TA-TAGCCGAAGCTATCTCGA
* *
69213931 TATT-GCACACTTAGTGCCTCA--TACAGCCAAAGCTATGC-C-A
1 T-TTCGCACACTTAGTG-CT-ATTTATAGCCGAAGCTAT-CTCGA
69213971 TTTCGCACACTTAGTGCTATTTATAGCCGAAGCTAT
1 TTTCGCACACTTAGTGCTATTTATAGCCGAAGCTAT
69214007 TTTGAATCGT
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 27 0.44
41 11 0.18
42 2 0.03
44 13 0.21
45 3 0.05
46 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (41 bp):
TTTCGCACACTTAGTGCTATTTATAGCCGAAGCTATCTCGA
Found at i:69218943 original size:50 final size:51
Alignment explanation
Indices: 69218837--69219010 Score: 187
Period size: 50 Copynumber: 3.5 Consensus size: 51
69218827 CTGGTACGCA
* * ** * *
69218837 TAGTAGCCTACACTTAGTACTACACA--TG--CGCAGTAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGCCATCAGATACACG
* *
69218884 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGCCATCAGATACACG
* ** * * *
69218934 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGCCATCAGATACACG
69218985 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
69219011 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
47 25 0.23
49 2 0.02
50 44 0.41
51 36 0.34
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGCCATCAGATACACG
Found at i:69219018 original size:101 final size:97
Alignment explanation
Indices: 69218837--69219018 Score: 256
Period size: 101 Copynumber: 1.8 Consensus size: 97
69218827 CTGGTACGCA
* * *
69218837 TAGTAGCCTACACTTAGTACTACACATGCGCAGTAATCCGGTACACGTAGTAGCCTGCACTTAGT
1 TAGTAGCCTACACTTAGTACTACACATGCGAAGTAATCAGGTACACATAGTAGCCTGCACTTAGT
*
69218902 ACTACACACGTGACCTAACCATCTGATACACG
66 ACTACACACGCGACCTAACCATCTGATACACG
* * *
69218934 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACA--TG--CGAAGTAATCAGGTACACATAGTAGCCTGCACT
*
69218999 TAGTACTACACATGCGACCT
62 TAGTACTACACACGCGACCT
69219019 CACAATGGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
97 25 0.34
99 2 0.03
101 46 0.63
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (97 bp):
TAGTAGCCTACACTTAGTACTACACATGCGAAGTAATCAGGTACACATAGTAGCCTGCACTTAGT
ACTACACACGCGACCTAACCATCTGATACACG
Found at i:69224201 original size:51 final size:51
Alignment explanation
Indices: 69224146--69224292 Score: 215
Period size: 50 Copynumber: 2.9 Consensus size: 51
69224136 ACACTTGTAG
69224146 CCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
1 CCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
* * * *
69224197 CCAAA-CCATCTGATACACATAGTAGCCGGCACTTAGTACTACACACGTGA
1 CCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
* * * *
69224247 TCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 CCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACA
69224293 TGCGACCTCA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 44 0.53
51 39 0.47
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (51 bp):
CCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
Found at i:69243705 original size:40 final size:39
Alignment explanation
Indices: 69243661--69243812 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 39
69243651 ATAACCACAA
* * ** * *
69243661 GCACAATTGCCTTCGGGTCTTAACTCGGATTTGGTATCTT
1 GCACAA-TGCCTTCGGGTCTTAACCCGGATATGACAACTC
*
69243701 GCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTC
1 GCAC-AATGCCTTCGGGTCTTAACCCGGATATGACAACTC
* * *
69243741 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAACCCGGATATGA-CAACTC
* * *
69243781 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCA-CAATGCCTTCGGGTCTTAACCCGGATAT
69243813 ATTCACTAGC
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
40 94 0.97
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAACCCGGATATGACAACTC
Found at i:69243813 original size:40 final size:40
Alignment explanation
Indices: 69243705--69243848 Score: 209
Period size: 40 Copynumber: 3.6 Consensus size: 40
69243695 TATCTTGCAC
* * * *
69243705 AAATGCCTTCGGGTCTTAGCCCGGATATGA-CAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAATC-ACTAGCAT
* *
69243745 GAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAT
*
69243785 AAATGCCTTCGGGACTTAGCCCGGATATATTCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAT
69243825 AAATGCCTTCGGGACTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGG
69243849 GTATCATTCA
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 95 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAT
Found at i:69246085 original size:30 final size:29
Alignment explanation
Indices: 69245991--69246092 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
69245981 TATAGTGAAT
* * *
69245991 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
69246020 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
69246048 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
69246078 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
69246093 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:69253961 original size:30 final size:29
Alignment explanation
Indices: 69253867--69253968 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
69253857 TATAGTGAAT
* * *
69253867 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
69253896 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
69253924 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
69253954 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
69253969 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:69263267 original size:19 final size:20
Alignment explanation
Indices: 69263239--69263281 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
69263229 ATGCAATGTA
69263239 CATTCAAATCAACACA-TTT
1 CATTCAAATCAACACATTTT
*
69263258 CATTCTAATCAACACATTTT
1 CATTCAAATCAACACATTTT
69263278 CATT
1 CATT
69263282 TTTATTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
CATTCAAATCAACACATTTT
Found at i:69278852 original size:90 final size:90
Alignment explanation
Indices: 69278696--69278866 Score: 306
Period size: 90 Copynumber: 1.9 Consensus size: 90
69278686 GAATGAATGT
* *
69278696 ATAGGTTTAGCTAAGGCAAAGGCCGAACCAACAATATGAAAGATTGTTGACCCAAGTCTTACAAG
1 ATAGGTTTAGATAAGGCAAAGGCCAAACCAACAATATGAAAGATTGTTGACCCAAGTCTTACAAG
69278761 CACTTAGATGGATAACAATCGATGG
66 CACTTAGATGGATAACAATCGATGG
* *
69278786 ATAGGTTTAGATAAGGCAAAGGCCAAACCAACAATATGAAAGATTGTTGACTCAAGTCTTATAAG
1 ATAGGTTTAGATAAGGCAAAGGCCAAACCAACAATATGAAAGATTGTTGACCCAAGTCTTACAAG
69278851 CACTTAGATGGATAAC
66 CACTTAGATGGATAAC
69278867 GATAAATGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (90 bp):
ATAGGTTTAGATAAGGCAAAGGCCAAACCAACAATATGAAAGATTGTTGACCCAAGTCTTACAAG
CACTTAGATGGATAACAATCGATGG
Found at i:69290427 original size:39 final size:40
Alignment explanation
Indices: 69290311--69290495 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
69290301 GCTACTCATT
*
69290311 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
69290351 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
69290391 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
69290430 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
69290471 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69290496 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 75 0.61
41 15 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:69290455 original size:79 final size:81
Alignment explanation
Indices: 69290313--69290495 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
69290303 TACTCATTCA
* *
69290313 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
69290377 TTTAGTGACTCGTA-C-C
66 TATAGTCACT--TAGCAC
**
69290393 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
69290455 ATATAGTCACTTAGCAC
65 ATATAGTCACTTAGCAC
* *
69290472 AAAGCCTTTGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69290496 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
77 2 0.02
78 4 0.04
79 58 0.64
80 26 0.29
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTCACTTAGCAC
Found at i:69294886 original size:40 final size:40
Alignment explanation
Indices: 69294778--69295027 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
69294768 CGGGATTTAA
* * * * *
69294778 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
69294818 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
69294858 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
69294898 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
69294938 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
69294978 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
69295018 CCGGATATAT
1 CCGGATATAT
69295028 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:69301841 original size:79 final size:80
Alignment explanation
Indices: 69301725--69301881 Score: 205
Period size: 79 Copynumber: 2.0 Consensus size: 80
69301715 AGCCTGGTTA
* * *
69301725 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGTA-C-CAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACT--TAGCACAAAGCCTTC
69301788 GGG-CTTACCCCGGAAT
64 GGGACTTACCCCGGAAT
**
69301804 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCG
*
69301868 GGACTTAGCCCGGA
65 GGACTTACCCCGGA
69301882 CATCATTCGA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
77 2 0.03
78 4 0.06
79 52 0.76
80 10 0.15
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGG
GACTTACCCCGGAAT
Found at i:69301881 original size:40 final size:40
Alignment explanation
Indices: 69301697--69301881 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
69301687 GCTACTCCTT
* * * *
69301697 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * * *
69301737 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
69301777 CCAATGCCTTCGGG-CTTACCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* *
69301816 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
69301857 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69301882 CATCATTCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:69310111 original size:28 final size:28
Alignment explanation
Indices: 69310050--69310147 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
69310040 TCACAAATTG
** * *
69310050 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
69310079 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
69310107 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
69310135 GCACTAAGTGTGC
1 GCACTAAGTGTGC
69310148 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:69317781 original size:28 final size:28
Alignment explanation
Indices: 69317720--69317817 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
69317710 TCACAAATTG
** * *
69317720 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
69317749 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
69317777 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
69317805 GCACTAAGTGTGC
1 GCACTAAGTGTGC
69317818 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:69321622 original size:12 final size:13
Alignment explanation
Indices: 69321587--69321627 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
69321577 TCCATGACCT
69321587 TATACAAAAGGAG
1 TATACAAAAGGAG
69321600 TATACAAAAGGAG
1 TATACAAAAGGAG
69321613 TATA-AAAAGGAG
1 TATACAAAAGGAG
69321625 TAT
1 TAT
69321628 CATATTCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.20
Consensus pattern (13 bp):
TATACAAAAGGAG
Found at i:69324876 original size:90 final size:90
Alignment explanation
Indices: 69324723--69324901 Score: 322
Period size: 90 Copynumber: 2.0 Consensus size: 90
69324713 TAGGGAAGGA
* *
69324723 ATGGATAGGTTTAGCTAAGGCAAAGGCCGAACCAACAATATGAAAGATTGTTGACCCTAGTCTTA
1 ATGGATAGGTTTAGCTAAGGCAAAGGCCGAACCAACAATAAGAAAGATTGTTGACCCAAGTCTTA
69324788 CAAGCACTTAGATGGATAACAATCG
66 CAAGCACTTAGATGGATAACAATCG
* *
69324813 ATGGATAGGTTTAGCTAAGGCAAAGGCCGAACCAACAATAAGAAATATTTTTGACCCAAGTCTTA
1 ATGGATAGGTTTAGCTAAGGCAAAGGCCGAACCAACAATAAGAAAGATTGTTGACCCAAGTCTTA
69324878 CAAGCACTTAGATGGATAACAATC
66 CAAGCACTTAGATGGATAACAATC
69324902 AATGAAAACA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (90 bp):
ATGGATAGGTTTAGCTAAGGCAAAGGCCGAACCAACAATAAGAAAGATTGTTGACCCAAGTCTTA
CAAGCACTTAGATGGATAACAATCG
Found at i:69327670 original size:26 final size:26
Alignment explanation
Indices: 69327563--69327673 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
69327553 GAGGAGCGTC
* *
69327563 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
69327590 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
69327617 CCGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
** *
69327644 CTGGTAACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
69327670 CTGG
1 CTGG
69327674 CAGTCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 16 0.21
27 57 0.76
28 2 0.03
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:69333958 original size:24 final size:24
Alignment explanation
Indices: 69333931--69334031 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
69333921 AAGGCTGTCC
*
69333931 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
69333955 GGAGAGGATTTAGGAGCTAATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
69333979 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
69334003 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
69334027 GGAGA
1 GGAGA
69334032 ACGGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.35, C:0.03, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:69335278 original size:27 final size:26
Alignment explanation
Indices: 69335239--69335348 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 26
69335229 GGAAGCGTCT
* * *
69335239 TGGTGGCTATGCCACAATTATCTGATG
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
69335266 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
*
69335293 TGGTGGCTCTGCCACGATTATCTGTTT
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
* *
69335320 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
69335346 TGG
1 TGG
69335349 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:69335324 original size:54 final size:53
Alignment explanation
Indices: 69335239--69335348 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
69335229 GGAAGCGTCT
*
69335239 TGGTGGCTATGCCACAATTATCTGATGTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATGTGGTGACTCTGCCACAT-TATCTGTTC
* * * * *
69335293 TGGTGGCTCTGCCACGATTATCTGTTTTGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATGTGGTGACTCTGCCACATTATCTGTTC
69335346 TGG
1 TGG
69335349 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATGTGGTGACTCTGCCACATTATCTGTTC
Done.