Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 191 of 318
Found at i:59904959 original size:40 final size:40
Alignment explanation
Indices: 59904865--59904999 Score: 173
Period size: 40 Copynumber: 3.4 Consensus size: 40
59904855 TACTCGAATG
*
59904865 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
59904906 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
59904946 ATATCCGGGCTAAGTCCCGAAGGTATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
59904986 ATATCCGGGATAAG
1 ATATCCGGGCTAAG
59905000 ACCTAAAGGC
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 52 0.63
41 28 0.34
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:59912197 original size:27 final size:27
Alignment explanation
Indices: 59912167--59912343 Score: 178
Period size: 27 Copynumber: 6.5 Consensus size: 27
59912157 TATTGAGCCT
* *
59912167 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAATCAACTC
* *
59912194 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAATCAACTC
*
59912221 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAATC-AACTC
** ** *
59912249 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAATCAACTC
* * *
59912276 ACACACTTAGTGC-ATCATATTCAATTC
1 GCACACTTAGTGCTA-CATAATCAACTC
* *
59912303 GCACACTTAGTGCAACATAGTCGAA-TC
1 GCACACTTAGTGCTACATAATC-AACTC
59912330 GCACACTTAGTGCT
1 GCACACTTAGTGCT
59912344 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 102 0.80
28 26 0.20
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAATCAACTC
Found at i:59912916 original size:13 final size:13
Alignment explanation
Indices: 59912898--59912922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59912888 TACTAAATTT
59912898 TCATGGATTCAAG
1 TCATGGATTCAAG
59912911 TCATGGATTCAA
1 TCATGGATTCAA
59912923 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:59916086 original size:40 final size:40
Alignment explanation
Indices: 59915992--59916136 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
59915982 TACTCGAGTG
*
59915992 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
59916033 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
59916073 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
59916113 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
59916137 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:59921440 original size:21 final size:20
Alignment explanation
Indices: 59921414--59921467 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
59921404 AAAAACGATG
*
59921414 ATGGTGAGATTAATTACTGTA
1 ATGGTGAGATTAA-TACTATA
59921435 ATGGTGAGATTGAATACTATA
1 ATGGTGAGATT-AATACTATA
* *
59921456 GTAGTGAGATTA
1 ATGGTGAGATTA
59921468 GAAACAGCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (20 bp):
ATGGTGAGATTAATACTATA
Found at i:59921780 original size:16 final size:15
Alignment explanation
Indices: 59921752--59921789 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
59921742 TAAATAATTA
59921752 AATTTTA-TTGAAACT
1 AATTTTATTTGAAA-T
59921767 AATTTTATTTGAAAT
1 AATTTTATTTGAAAT
*
59921782 AATATTAT
1 AATTTTAT
59921790 GTGTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (15 bp):
AATTTTATTTGAAAT
Found at i:59921887 original size:16 final size:18
Alignment explanation
Indices: 59921868--59921906 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
59921858 TAATTATTTA
59921868 TTAAAATAA-TAAAAA-T
1 TTAAAATAAGTAAAAATT
59921884 TT-AAATAAGTAAAAATT
1 TTAAAATAAGTAAAAATT
59921901 TTAAAA
1 TTAAAA
59921907 AAATTAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
17 3 0.15
18 3 0.15
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TTAAAATAAGTAAAAATT
Found at i:59926793 original size:150 final size:148
Alignment explanation
Indices: 59926524--59926805 Score: 359
Period size: 150 Copynumber: 1.9 Consensus size: 148
59926514 AGGTCCCGAC
* *
59926524 GCCATGTCCCAGACATGGTTTTACACTGGCTCACACATCAAAGTCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCAAAGTCGATGCCATGTCCCAAACATG
* * * ** * *
59926589 GTCTTACACTGATTCTCGTATATCGAGGTTGATGCCATGTCCCAGATATGGTCTTACACTAACTC
66 GTCTTACACTGACTCTCATATATCAAGGCCGATACCATGTCCCAGACATGGTCTTACACTAACTC
59926654 TCGCATATCGAGGCCAAT
131 TCGCATATCGAGGCCAAT
* * *** *
59926672 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTATCGGTGTCGATTCCATGTCCCAAACA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACA-C-ATCAAAGTCGATGCCATGTCCCAAACA
* * * *
59926737 TGGTCTTACACT-AGCTCTCATATCTCAAGGCCGATACCATGTCCTAGGCATGGTCTTACACTAG
64 TGGTCTTACACTGA-CTCTCATATATCAAGGCCGATACCATGTCCCAGACATGGTCTTACACTAA
59926801 CTCTC
128 CTCTC
59926806 ATATCTCCCT
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
148 32 0.29
149 2 0.02
150 78 0.70
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (148 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCAAAGTCGATGCCATGTCCCAAACATG
GTCTTACACTGACTCTCATATATCAAGGCCGATACCATGTCCCAGACATGGTCTTACACTAACTC
TCGCATATCGAGGCCAAT
Found at i:59926812 original size:50 final size:50
Alignment explanation
Indices: 59926524--59926809 Score: 283
Period size: 50 Copynumber: 5.8 Consensus size: 50
59926514 AGGTCCCGAC
* * * * *
59926524 GCCATGTCCCAGACATGGTTTTACACT-G-GCTCACACATCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAGGTCGAT
* * * *
59926572 GCCATGTCCCAGACATGGTCTTACACT-GATTCTCGTATATCGAGGTTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCAAGGTCGAT
* * ** * * *
59926622 GCCATGTCCCAGATATGGTCTTACACTAACTCTCGCATATCGAGGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAGGTCGAT
* * * *
59926672 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTATC-GGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAG-GTCGAT
* * * *
59926722 TCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCTCAAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAGGTCGAT
* * *
59926772 ACCATGTCCTAGGCATGGTCTTACACTAGCTCTCATAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
59926810 CTCCCTAGCA
Statistics
Matches: 196, Mismatches: 37, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
48 27 0.14
49 1 0.01
50 167 0.85
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAGGTCGAT
Found at i:59931791 original size:15 final size:15
Alignment explanation
Indices: 59931773--59931803 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59931763 TGAACTTTTA
59931773 TTTCTTTTATGTTAT
1 TTTCTTTTATGTTAT
*
59931788 TTTCTTTTATTTTAT
1 TTTCTTTTATGTTAT
59931803 T
1 T
59931804 CTTATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCTTTTATGTTAT
Found at i:59935281 original size:46 final size:46
Alignment explanation
Indices: 59935229--59935366 Score: 231
Period size: 46 Copynumber: 3.0 Consensus size: 46
59935219 AGTGTACTTT
*
59935229 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
59935275 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
* * **
59935321 CTGACATGAAAAGAATAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
59935367 ATGACAGAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
Found at i:59935372 original size:46 final size:46
Alignment explanation
Indices: 59935244--59935382 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
59935234 ATGAAATGTG
* * * **
59935244 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATATCATGGCAACCTGACATGAAAAGAA
59935290 TAAGACCATGGTTGAAAGATATCATGGCAACCTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATATCATGGCAACCTGACATGAAAAGAA
*
59935336 TAAGACCATGGTTGAAAGATATCATGGCAACATGACA-GAAAATGAA
1 TAAGACCATGGTTGAAAGATATCATGGCAACCTGACATGAAAA-GAA
59935382 T
1 T
59935383 GAGTAAGACT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
45 5 0.06
46 81 0.94
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATATCATGGCAACCTGACATGAAAAGAA
Found at i:59939974 original size:79 final size:80
Alignment explanation
Indices: 59939790--59940012 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 80
59939780 GCTACTCGTT
* * * * * * *
59939790 CAAATGCCTTCGGGACATAGCCC-GATTATAGTGACTCGCACAAATACCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGAACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCG
*
59939854 GTTATAGTAACTCGCA
65 GATATAGTAACTCGCA
*
59939870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
59939934 A-ATTAGTAACTCGCA
66 ATA-TAGTAACTCGCA
** * * * * *
59939949 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGAA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCC
59940012 G
64 G
59940013 AACATCATTC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 57 0.46
81 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCGCA
Found at i:59939998 original size:119 final size:120
Alignment explanation
Indices: 59939792--59940012 Score: 279
Period size: 119 Copynumber: 1.9 Consensus size: 120
59939782 TACTCGTTCA
* * * *
59939792 AATGCCTTCGGGACATAGCCCGATTATAGTGACTCGCACAAATACCTTCGGGACTTAACCCGGTT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATACCTTCGGAACTTAACCCGGAT
*
59939857 ATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
59939912 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GAATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATACCTTCGGAA-CTTAACCCGG
* * *
59939974 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCG
59940013 AACATCATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 2 0.02
119 61 0.71
120 23 0.27
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATACCTTCGGAACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:59940008 original size:40 final size:40
Alignment explanation
Indices: 59939790--59940012 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
59939780 GCTACTCGTT
* *
59939790 CAAATGCCTTCGGGACATAGCCC-GATTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCA
* * *
59939830 CAAATACCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59939870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
59939910 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
59939949 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
59939990 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
59940013 AACATCATTC
Statistics
Matches: 157, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.20
40 112 0.71
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59947982 original size:39 final size:41
Alignment explanation
Indices: 59947828--59947996 Score: 240
Period size: 40 Copynumber: 4.2 Consensus size: 41
59947818 GCTACTCGTT
* * *
59947828 CAAATGCCTTCGGGACATAGCCC-GATTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCA
*
59947868 CAAATACCTTCGGGACTTAACCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCA
59947908 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCA
* * *
59947948 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCA
59947987 CAAATGCCTT
1 CAAATGCCTT
59947997 TGAATCTTAG
Statistics
Matches: 118, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 32 0.27
40 83 0.70
41 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCA
Found at i:59948012 original size:79 final size:80
Alignment explanation
Indices: 59947828--59948050 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 80
59947818 GCTACTCGTT
* * * * * * *
59947828 CAAATGCCTTCGGGACATAGCCC-GATTATAGTGACTCGCACAAATACCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGAACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCG
*
59947892 GTTATAGTAACTCGCA
65 GATATAGTAACTCGCA
*
59947908 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
59947972 A-ATTAGTAACTCGCA
66 ATA-TAGTAACTCGCA
* ** * * * * *
59947987 CAAATGCCTT-TGAATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGAA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCC
59948050 G
64 G
59948051 AACATCATTC
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.02
79 58 0.48
80 57 0.47
81 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCGCA
Found at i:59963416 original size:21 final size:21
Alignment explanation
Indices: 59963375--59963418 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
59963365 AAGTGACCAC
*
59963375 TTTAACACATACCAATTATGCT
1 TTTAAAACATACCAA-TATGCT
59963397 TTTAAAACATACCCAA-ATGCT
1 TTTAAAACATA-CCAATATGCT
59963418 T
1 T
59963419 ACACTCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (21 bp):
TTTAAAACATACCAATATGCT
Found at i:59971229 original size:16 final size:16
Alignment explanation
Indices: 59971205--59971235 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59971195 GTACAAGAGA
59971205 GCTACGAGATAAACTG
1 GCTACGAGATAAACTG
*
59971221 GCTATGAGATAAACT
1 GCTACGAGATAAACT
59971236 ACCAAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (16 bp):
GCTACGAGATAAACTG
Found at i:59980437 original size:44 final size:43
Alignment explanation
Indices: 59980374--59980530 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
59980364 TGTGTTATCA
* *
59980374 TGTAAGACCACGTCTGGGACGTTGGCATCGAATTATGATTTACG
1 TGTAAGACCACATCTGGGACATTGGCATCGAATT-TGATTTACG
** *
59980418 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-CG
1 TGTAAGACCACATCTGGGACATTGGCATCGAATTTGATTTACG
* * * *
59980460 TGTAAGACC-CTATATGGGATAGAT-GCATCGATATTTGA-TTACA
1 TGTAAGACCAC-ATCTGGGACA-TTGGCATCGA-ATTTGATTTACG
59980503 TGTAAGACCACATCTGGGACATTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
59980531 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
42 27 0.29
43 35 0.37
44 32 0.34
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACATTGGCATCGAATTTGATTTACG
Found at i:59991667 original size:35 final size:35
Alignment explanation
Indices: 59991621--59991694 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
59991611 TGTTGTGACC
59991621 CAAATTCTAAGAAATTGCTTGCAAGTCAAGTTAAA
1 CAAATTCTAAGAAATTGCTTGCAAGTCAAGTTAAA
* *
59991656 CAAATTCTAAGAGATTGCTTGCAAGTTAAGTTAAA
1 CAAATTCTAAGAAATTGCTTGCAAGTCAAGTTAAA
59991691 CAAA
1 CAAA
59991695 ATATATTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (35 bp):
CAAATTCTAAGAAATTGCTTGCAAGTCAAGTTAAA
Found at i:59991770 original size:24 final size:24
Alignment explanation
Indices: 59991721--59991770 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
59991711 GAAGATTTAG
*
59991721 TAGTATAATATATTTAGCATTTAT
1 TAGTATAATATATTTAGCATTGAT
59991745 TAGTATAATATATTTTA-CATTGAT
1 TAGTATAATATA-TTTAGCATTGAT
59991769 TA
1 TA
59991771 AAATTAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
TAGTATAATATATTTAGCATTGAT
Found at i:59993533 original size:17 final size:17
Alignment explanation
Indices: 59993511--59993546 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
59993501 AAATTCTGAG
59993511 ATATCTCATTTCATGCC
1 ATATCTCATTTCATGCC
59993528 ATATCTCATTTCATGCC
1 ATATCTCATTTCATGCC
59993545 AT
1 AT
59993547 GCTACCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (17 bp):
ATATCTCATTTCATGCC
Found at i:59998749 original size:11 final size:11
Alignment explanation
Indices: 59998733--59998767 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
59998723 TCCAATACCA
59998733 AATCATGGTCG
1 AATCATGGTCG
**
59998744 AATCATTTTCG
1 AATCATGGTCG
59998755 AATCATGGTCG
1 AATCATGGTCG
59998766 AA
1 AA
59998768 CAAGTTCATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (11 bp):
AATCATGGTCG
Found at i:59999261 original size:31 final size:31
Alignment explanation
Indices: 59999224--59999309 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 31
59999214 AAAAAATCAC
*
59999224 TTAATAAAACAT-GTAAAACTATCATAAAGCT
1 TTAATAAAACATCAT-AAACTATCATAAAGCT
** *
59999255 TTAATAATCCATCATAAACTATCATCAAGCT
1 TTAATAAAACATCATAAACTATCATAAAGCT
**
59999286 TTAATAATCCATCATCAAAC-ATCA
1 TTAATAAAACATCAT-AAACTATCA
59999310 AAGAACTCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
31 44 0.90
32 5 0.10
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (31 bp):
TTAATAAAACATCATAAACTATCATAAAGCT
Found at i:60011813 original size:24 final size:24
Alignment explanation
Indices: 60011776--60011832 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
60011766 TTTCTAGAAG
* *
60011776 ATTTAGTAGTATAATATATTTAGC
1 ATTTATTAGCATAATATATTTAGC
*
60011800 ATTTATTAGCATAATATATTTTGC
1 ATTTATTAGCATAATATATTTAGC
*
60011824 ATTGATTAG
1 ATTTATTAG
60011833 AATTAGGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAGC
Found at i:60014107 original size:43 final size:44
Alignment explanation
Indices: 60013996--60014121 Score: 109
Period size: 43 Copynumber: 2.9 Consensus size: 44
60013986 AATGCCAACG
** * *
60013996 TCCCAGATGAGGTCTTACATGT-AATCAAATATCGATGCCACTG
1 TCCCAGACAAGGTCTTACACGTAAATCAAATATCGATGCCACTA
* * *
60014039 TCCCAGACAAGGTCTTATAC-AAAATCAAATA-CGATGCTGA-TA
1 TCCCAGACAAGGTCTTACACGTAAATCAAATATCGATGC-CACTA
* * *
60014081 TCCTAGACATGGTCTTACACGTAAATCACAA-ATTGATGCCA
1 TCCCAGACAAGGTCTTACACGTAAATCA-AATATCGATGCCA
60014122 ATGTCCTAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
42 24 0.37
43 34 0.52
44 7 0.11
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (44 bp):
TCCCAGACAAGGTCTTACACGTAAATCAAATATCGATGCCACTA
Found at i:60019086 original size:25 final size:25
Alignment explanation
Indices: 60019055--60019105 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
60019045 TAACGCACCG
60019055 TTTCATATTTGGGTATATCCATGTT
1 TTTCATATTTGGGTATATCCATGTT
*
60019080 TTTCATATTTTGGTATATCCATGTT
1 TTTCATATTTGGGTATATCCATGTT
60019105 T
1 T
60019106 GGATTCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.14, T:0.55
Consensus pattern (25 bp):
TTTCATATTTGGGTATATCCATGTT
Found at i:60022780 original size:14 final size:14
Alignment explanation
Indices: 60022761--60022788 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60022751 TCTACTCGTA
60022761 TTACTTTTTCTTTT
1 TTACTTTTTCTTTT
60022775 TTACTTTTTCTTTT
1 TTACTTTTTCTTTT
60022789 GTTTTGCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
TTACTTTTTCTTTT
Found at i:60024234 original size:44 final size:46
Alignment explanation
Indices: 60024165--60024290 Score: 159
Period size: 44 Copynumber: 2.8 Consensus size: 46
60024155 ATATATGCGT
*
60024165 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACAACTCT-T-A-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTGTCAG
* * * *
60024209 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTC-AG
*
60024256 GCCGATGCATGTCCTAGACATGTCTTACACTAGCC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCC
60024291 CTTGCCTGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
43 5 0.07
44 32 0.46
46 1 0.01
47 31 0.45
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTCAG
Found at i:60041934 original size:28 final size:29
Alignment explanation
Indices: 60041903--60041957 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
60041893 TTCTGAAATA
* *
60041903 CTGATAT-CATGGCTCAAAGCCAAATTAG
1 CTGATATGCATAGCCCAAAGCCAAATTAG
*
60041931 CTGATATGCATAGCCCGAAGCCAAATT
1 CTGATATGCATAGCCCAAAGCCAAATT
60041958 GGTTTACCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (29 bp):
CTGATATGCATAGCCCAAAGCCAAATTAG
Found at i:60045479 original size:17 final size:17
Alignment explanation
Indices: 60045457--60045492 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
60045447 AGGATAAGTG
60045457 TTCGAGAAAAATCCCGT
1 TTCGAGAAAAATCCCGT
60045474 TTCGAGAAAAATCCCGT
1 TTCGAGAAAAATCCCGT
60045491 TT
1 TT
60045493 GAACCTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (17 bp):
TTCGAGAAAAATCCCGT
Found at i:60045597 original size:46 final size:46
Alignment explanation
Indices: 60045547--60045722 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
60045537 TGGTTGAGCA
60045547 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
60045593 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
60045638 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
60045686 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60045723 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
45 5 0.04
46 61 0.54
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:60045703 original size:93 final size:93
Alignment explanation
Indices: 60045544--60045715 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
60045534 GGATGGTTGA
* *
60045544 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
60045609 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60045637 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
60045701 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
60045716 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60051000 original size:100 final size:99
Alignment explanation
Indices: 60050820--60051016 Score: 299
Period size: 100 Copynumber: 2.0 Consensus size: 99
60050810 CAATTCTTTT
* *
60050820 TTAATCGAAATTAACCACAAGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCCAAAAT
1 TTAATCGAAATTAACCACAAGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAAAT
60050885 TTGCTTCCATGGTTTAATCCTTCTAG-AACCTTCC
66 TTGCTTCCATGGTTTAATCCTTCT-GCAACCTTCC
* * * *
60050919 TTAATCGTAAATTAACCATAGGAAACACATGACAATTAAGCCTTATCAAACAAATAGCCCCGGAA
1 TTAATCG-AAATTAACCACAAGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCC-AAA
60050984 A-TTGCTTCCATGGTTTAATCCTTCTGCAACCTT
64 ATTTGCTTCCATGGTTTAATCCTTCTGCAACCTT
60051017 GCGAACTAGA
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
99 8 0.09
100 78 0.88
101 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (99 bp):
TTAATCGAAATTAACCACAAGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAAAT
TTGCTTCCATGGTTTAATCCTTCTGCAACCTTCC
Found at i:60052914 original size:34 final size:34
Alignment explanation
Indices: 60052871--60052939 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
60052861 TAAACTGAAC
60052871 TTAATTCCCAATTTGAACCCATCTCTCTAGGACT
1 TTAATTCCCAATTTGAACCCATCTCTCTAGGACT
60052905 TTAATTCCCAATTTGAACCCATCTCTCTAGGACT
1 TTAATTCCCAATTTGAACCCATCTCTCTAGGACT
60052939 T
1 T
60052940 ACATTTGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.36
Consensus pattern (34 bp):
TTAATTCCCAATTTGAACCCATCTCTCTAGGACT
Found at i:60073926 original size:39 final size:40
Alignment explanation
Indices: 60073881--60074048 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
60073871 CGGGGTTTAG
* * *
60073881 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
60073920 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
60073960 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
60074000 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
60074041 CCGGATAT
1 CCGGATAT
60074049 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:60074031 original size:41 final size:40
Alignment explanation
Indices: 60073904--60074048 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
60073894 CTCGCACAAG
* * * * *
60073904 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
60073944 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
60073984 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
60074025 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
60074049 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:60077674 original size:22 final size:22
Alignment explanation
Indices: 60077649--60077702 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
60077639 CCAAAGTCGA
60077649 TGTCGCAACACACCAGGACCTG
1 TGTCGCAACACACCAGGACCTG
60077671 TGTCGCAACACACCAGGACCTG
1 TGTCGCAACACACCAGGACCTG
*
60077693 TGTCGTAACA
1 TGTCGCAACA
60077703 TAGAAGTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (22 bp):
TGTCGCAACACACCAGGACCTG
Found at i:60079598 original size:41 final size:41
Alignment explanation
Indices: 60079553--60079666 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
60079543 TATTCGGGCT
*
60079553 TTATTGCCTAGCAGGCTTTGGGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
** * *
60079594 TTATTGCCTAGCAGGCTTTGTGCCAATGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
60079635 TTATTGCCTAGCAGGCTCTATGCCGGTGTATT
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
60079667 GTACTAGGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:60079675 original size:41 final size:40
Alignment explanation
Indices: 60079553--60079688 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 40
60079543 TATTCGGGCT
* *
60079553 TTATTGCCTAGCAGGCTTTGGGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTTAAT-AGGC
** *
60079594 TTATTGCCTAGCAGGCTTTGTGCCAATGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT-TAATAGGC
* * *
60079635 TTATTGCCTAGCAGGCTCTATGCCGGTGTATTGTACTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT-TAATAGGC
60079676 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
60079689 AATTTTATGT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 79 0.96
42 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (40 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTTAATAGGC
Found at i:60095955 original size:32 final size:32
Alignment explanation
Indices: 60095919--60095984 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
60095909 CATACCTAAA
60095919 TCTGAGTGGATAGCGGACTATGTATTTGTGAC
1 TCTGAGTGGATAGCGGACTATGTATTTGTGAC
60095951 TCTGAGTGGATAGCGGACTATGTATTTGTGAC
1 TCTGAGTGGATAGCGGACTATGTATTTGTGAC
60095983 TC
1 TC
60095985 ATACACTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (32 bp):
TCTGAGTGGATAGCGGACTATGTATTTGTGAC
Found at i:60113902 original size:45 final size:44
Alignment explanation
Indices: 60113838--60113999 Score: 160
Period size: 45 Copynumber: 3.8 Consensus size: 44
60113828 GTATTATTCA
* *
60113838 GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTTG
1 GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG
60113883 GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCG
1 GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCG
* * * *
60113927 GG-CTTCGAGCCTAGGAGGCGA-AATGCCGGTG-AACGA-ACTCG
1 GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGATA-TCG
* *
60113968 GG--TTTAAAACCTAGCAGGCTA-AATGCCGGTGA
1 GGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
60114000 TTTGATAAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
40 3 0.03
41 30 0.29
42 10 0.10
43 16 0.16
44 4 0.04
45 38 0.37
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (44 bp):
GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCG
Found at i:60114518 original size:16 final size:18
Alignment explanation
Indices: 60114487--60114519 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
60114477 AACTCGTCAC
60114487 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
60114505 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
60114520 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:60119950 original size:20 final size:19
Alignment explanation
Indices: 60119922--60119974 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
60119912 CTTAAATTAC
60119922 GAAATAAAAAATTAATTAAAA
1 GAAA-AAAAAATTAA-TAAAA
* * *
60119943 TAAAAAAAGATGAATAAAA
1 GAAAAAAAAATTAATAAAA
*
60119962 GAAAAACAAATTA
1 GAAAAAAAAATTA
60119975 TTTTTGGTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
19 14 0.56
20 8 0.32
21 3 0.12
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.19
Consensus pattern (19 bp):
GAAAAAAAAATTAATAAAA
Found at i:60122128 original size:19 final size:19
Alignment explanation
Indices: 60122104--60122144 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
60122094 GATGTGAAAG
60122104 TATGTGAAAGCATTTGACT
1 TATGTGAAAGCATTTGACT
60122123 TATGTGAAAGCATTTGACT
1 TATGTGAAAGCATTTGACT
60122142 TAT
1 TAT
60122145 TTATGATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (19 bp):
TATGTGAAAGCATTTGACT
Found at i:60122437 original size:16 final size:18
Alignment explanation
Indices: 60122406--60122438 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
60122396 AACTCGTCAC
60122406 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
60122424 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
60122439 ACCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:60128628 original size:45 final size:45
Alignment explanation
Indices: 60128559--60128733 Score: 323
Period size: 45 Copynumber: 3.9 Consensus size: 45
60128549 CGCGCAGTAT
60128559 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
60128604 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
60128649 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
60128694 TATTCGGGCCTTTGAGCCTAGCAGGATATAATGCCTGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
60128734 AATGATATCA
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 126 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:60129336 original size:16 final size:18
Alignment explanation
Indices: 60129305--60129337 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
60129295 AACTCGTCAC
60129305 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
60129323 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
60129338 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:60131694 original size:77 final size:79
Alignment explanation
Indices: 60131604--60131864 Score: 368
Period size: 78 Copynumber: 3.3 Consensus size: 79
60131594 AATTAAAGGT
60131604 AAATAAAATCTGTTTCGGGATTGATTCTCACCATTCAACAATTTTATTCCAAA-TTT-TTTTATT
1 AAATAAAATCTGTTTCGGGATTGATTCTCACCATTCAACAATTTTATTCCAAATTTTGTTTTATT
60131667 TCAAAAAACGAGTA
66 TCAAAAAACGAGTA
** * **
60131681 AAATAAAATCTGTTTCGGGATTGATTCTCGTCGTTCAATGATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCTGTTTCGGGATTGATTCTCACCATTCAACAATTTTATTCCAAATTTTGTTTTATT
*
60131746 TCAAAAAA-AAGTA
66 TCAAAAAACGAGTA
** * *
60131759 AAATAAAATCCATTTCGGGATTGATTCCCACTATTCAACGAA-TTTATTCCAAATTTTGTTTTAT
1 AAATAAAATCTGTTTCGGGATTGATTCTCACCATTCAAC-AATTTTATTCCAAATTTTGTTTTAT
**
60131823 TTCCGAAAACGAGTA
65 TTCAAAAAACGAGTA
*
60131838 AAATAAAATCTGTTTCAGGATTGATTC
1 AAATAAAATCTGTTTCGGGATTGATTC
60131865 CGACCGTTCA
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
77 48 0.30
78 67 0.42
79 44 0.28
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (79 bp):
AAATAAAATCTGTTTCGGGATTGATTCTCACCATTCAACAATTTTATTCCAAATTTTGTTTTATT
TCAAAAAACGAGTA
Found at i:60131944 original size:85 final size:87
Alignment explanation
Indices: 60131878--60132037 Score: 232
Period size: 87 Copynumber: 1.8 Consensus size: 87
60131868 CCGTTCAACG
*
60131878 GATTTATTACATTTTGATTTTGTTGCC-AAAATGAGAAATTAAATTAAATAAAATATGTTTCGGG
1 GATTTATTACA-TTTGATTTTGTTGCCAAAAACGAGAAATTAAATTAAATAAAATATGTTTCGGG
60131942 ATTTATTCCCACCACTTAATAAA
65 ATTTATTCCCACCACTTAATAAA
** * * * * *
60131965 GATTTATTTGATTTGCTTTTGTTTCCAAAAACGAGAATTTAAATTAAATAAAATTTGTTTCGGAA
1 GATTTATTACATTTGATTTTGTTGCCAAAAACGAGAAATTAAATTAAATAAAATATGTTTCGGGA
60132030 TTTATTCC
66 TTTATTCC
60132038 TGTAAGTGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 13 0.20
87 51 0.80
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.42
Consensus pattern (87 bp):
GATTTATTACATTTGATTTTGTTGCCAAAAACGAGAAATTAAATTAAATAAAATATGTTTCGGGA
TTTATTCCCACCACTTAATAAA
Found at i:60133457 original size:25 final size:25
Alignment explanation
Indices: 60133429--60133509 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
60133419 AGATCGTGAG
*
60133429 AGCTTACCGAATCTCAGCTCGTATA
1 AGCTTACCGAATCTCAGCTCATATA
* * * * *
60133454 AGCTTAGCG-ATTTCAGGTCTTAAA
1 AGCTTACCGAATCTCAGCTCATATA
*
60133478 AGCTTACCGATTCTCAGCTCATATA
1 AGCTTACCGAATCTCAGCTCATATA
60133503 AGCTTAC
1 AGCTTAC
60133510 GATTTATAGC
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 19 0.43
25 25 0.57
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (25 bp):
AGCTTACCGAATCTCAGCTCATATA
Found at i:60133521 original size:24 final size:24
Alignment explanation
Indices: 60133429--60133514 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 24
60133419 AGATCGTGAG
* *
60133429 AGCTTACCGAATCTCAGCTCGTATA
1 AGCTTACCG-ATTTCAGCTCATATA
* * * *
60133454 AGCTTAGCGATTTCAGGTCTTAAA
1 AGCTTACCGATTTCAGCTCATATA
60133478 AGCTTACCGATTCTCAGCTCATATA
1 AGCTTACCGATT-TCAGCTCATATA
60133503 AGCTTA-CGATTT
1 AGCTTACCGATTT
60133515 ATAGCTCGTG
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 1 0.02
24 27 0.53
25 23 0.45
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (24 bp):
AGCTTACCGATTTCAGCTCATATA
Found at i:60133535 original size:49 final size:49
Alignment explanation
Indices: 60133413--60133550 Score: 163
Period size: 49 Copynumber: 2.8 Consensus size: 49
60133403 AGGGATAACT
* *
60133413 GATTTTAGATCGTGAGAGCTTACCGAATCTCAGCTCGTATAAGCTTAGC
1 GATTTTAGATCGTGAGAGCTTACCGATTCTCAGCTCATATAAGCTTAGC
* * * * *
60133462 GATTTCAGGTCTTAAAAGCTTACCGATTCTCAGCTCATATAAGCTTA-C
1 GATTTTAGATCGTGAGAGCTTACCGATTCTCAGCTCATATAAGCTTAGC
* *
60133510 GATTTATAGCTCGTGAGAGCATACCGATTCAT-AGCTCATAT
1 GATTT-TAGATCGTGAGAGCTTACCGATTC-TCAGCTCATAT
60133551 GAGCATACAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
48 6 0.08
49 67 0.91
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (49 bp):
GATTTTAGATCGTGAGAGCTTACCGATTCTCAGCTCATATAAGCTTAGC
Found at i:60133554 original size:25 final size:25
Alignment explanation
Indices: 60133482--60133558 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
60133472 CTTAAAAGCT
* *
60133482 TACCGATTC-TCAGCTCATATAAGCT
1 TACCGATTCAT-AGCTCATATGAGCA
* *
60133507 TA-CGATTTATAGCTCGTGA-GAGCA
1 TACCGATTCATAGCTCAT-ATGAGCA
60133531 TACCGATTCATAGCTCATATGAGCA
1 TACCGATTCATAGCTCATATGAGCA
60133556 TAC
1 TAC
60133559 ATGTACAGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 17 0.40
25 25 0.60
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (25 bp):
TACCGATTCATAGCTCATATGAGCA
Found at i:60134718 original size:72 final size:72
Alignment explanation
Indices: 60134601--60134744 Score: 238
Period size: 72 Copynumber: 2.0 Consensus size: 72
60134591 TGTGATTAAT
*
60134601 AAATGAGTTAAAATTTCTATTATAGCTCAAGAGAAACGAGGTTTAGACCTAGATCAGGG-GAAAA
1 AAATGAGTTAAAATTTCTATTATAGCTCAAGAGAAACAAGGTTTAGACCTAGATC-GGGAGAAAA
60134665 ACAAAGTA
65 ACAAAGTA
*
60134673 AAATGAGTT-ATATTTGCTATTATAGCTCAAGAGAAACAAGGTTTAGACCTAGATCGGGAGAAAA
1 AAATGAGTTAAAATTT-CTATTATAGCTCAAGAGAAACAAGGTTTAGACCTAGATCGGGAGAAAA
60134737 ACAAAGTA
65 ACAAAGTA
60134745 TTTGATGATT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
71 8 0.12
72 60 0.88
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (72 bp):
AAATGAGTTAAAATTTCTATTATAGCTCAAGAGAAACAAGGTTTAGACCTAGATCGGGAGAAAAA
CAAAGTA
Found at i:60137161 original size:18 final size:18
Alignment explanation
Indices: 60137138--60137172 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60137128 ATTAACCTTC
60137138 TAGTATTGTTATATGATA
1 TAGTATTGTTATATGATA
60137156 TAGTATTGTTATATGAT
1 TAGTATTGTTATATGAT
60137173 TATACTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (18 bp):
TAGTATTGTTATATGATA
Found at i:60137492 original size:15 final size:16
Alignment explanation
Indices: 60137472--60137501 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60137462 TGGTGCCTTA
60137472 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
60137487 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
60137502 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:60150270 original size:40 final size:40
Alignment explanation
Indices: 60150215--60150432 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
60150205 TGGATGATAA
* * *
60150215 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
60150255 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
60150295 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60150335 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
60150375 TCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
60150415 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60150433 TACTTGGCTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 147 0.90
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60158474 original size:40 final size:40
Alignment explanation
Indices: 60158418--60158635 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
60158408 TGGATGATAA
* * *
60158418 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
60158458 TCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
60158498 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
60158538 CCGGGCTGAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
60158578 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
60158618 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60158636 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.90
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60161413 original size:37 final size:37
Alignment explanation
Indices: 60161363--60161441 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60161353 TTATTACGAA
* * *
60161363 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
60161400 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
60161437 GTCTT
1 GTCTT
60161442 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:60161638 original size:47 final size:47
Alignment explanation
Indices: 60161560--60161851 Score: 431
Period size: 47 Copynumber: 6.1 Consensus size: 47
60161550 CCCTTCGGGA
* * * * * *
60161560 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60161607 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60161654 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60161701 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60161750 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60161797 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60161848 CTTA
1 CTTA
60161852 CTATCATTTC
Statistics
Matches: 223, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
47 136 0.61
49 46 0.21
51 41 0.18
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60161757 original size:96 final size:96
Alignment explanation
Indices: 60161560--60161851 Score: 462
Period size: 96 Copynumber: 3.0 Consensus size: 96
60161550 CCCTTCGGGA
* * * * * * *
60161560 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
60161623 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
60161654 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
60161719 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60161750 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAT
60161815 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
60161848 CTTA
1 CTTA
60161852 CTATCATTTC
Statistics
Matches: 184, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 48 0.26
96 91 0.49
98 45 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60171215 original size:42 final size:43
Alignment explanation
Indices: 60171157--60171265 Score: 132
Period size: 43 Copynumber: 2.5 Consensus size: 43
60171147 ATCTATTCGA
60171157 GATTTACGTGTAAGACCATGTCTGAGAC-ATCCGCATC-ATATTT
1 GATTT-CGTGTAAGACCATGTCTGAGACAAT-CGCATCGATATTT
* * *
60171200 GATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGAGACAATCGCATCGATATTT
* * *
60171243 GATTACATGTAAGACCACGTCTG
1 GATTTCGTGTAAGACCATGTCTG
60171266 GAATGTAAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGAGACAATCGCATCGATATTT
Found at i:60172180 original size:19 final size:19
Alignment explanation
Indices: 60172156--60172193 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
60172146 GCGCGCCTAG
*
60172156 AGATAGGGTGACAAGATTT
1 AGATAGCGTGACAAGATTT
60172175 AGATAGCGTGACAAGATTT
1 AGATAGCGTGACAAGATTT
60172194 TTCCGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.26
Consensus pattern (19 bp):
AGATAGCGTGACAAGATTT
Found at i:60175891 original size:18 final size:18
Alignment explanation
Indices: 60175865--60175899 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60175855 TCGTAACGCT
*
60175865 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
60175883 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
60175900 TGTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:60176588 original size:26 final size:25
Alignment explanation
Indices: 60176505--60176638 Score: 202
Period size: 25 Copynumber: 5.4 Consensus size: 25
60176495 CTGGAGGCCG
*
60176505 AGCCTCTTTTAAT-AATTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
*
60176529 AGCCCTTTTGATAAACTGGGGCA-A
1 AGCCCTTTTAATAAACTGGGGCATA
60176553 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
60176579 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
60176605 AGCCCTTTTAATAAACTGGGGCATA
1 AGCCCTTTTAATAAACTGGGGCATA
60176630 AGCCCTTTT
1 AGCCCTTTT
60176639 GCACTTCCTC
Statistics
Matches: 104, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
23 7 0.07
24 23 0.22
25 38 0.37
26 36 0.35
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:60176599 original size:51 final size:50
Alignment explanation
Indices: 60176505--60176638 Score: 202
Period size: 51 Copynumber: 2.7 Consensus size: 50
60176495 CTGGAGGCCG
* *
60176505 AGCCTCTTTTAAT-AATTGGGGCA-AAGCCCTTTTGATAAACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATAAGCCCTTTTAATAAACTGGGGCATA
60176553 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATAAGCCCTTTT-AATAAACTGGGGCATA
60176605 AGCCCTTTTAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAAACTGGGGCATAAGCCCTTTT
60176639 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
47 5 0.06
48 7 0.09
49 9 0.11
50 10 0.13
51 38 0.48
52 10 0.13
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (50 bp):
AGCCCTTTTAATAAACTGGGGCATAAGCCCTTTTAATAAACTGGGGCATA
Found at i:60176754 original size:20 final size:20
Alignment explanation
Indices: 60176688--60176744 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
60176678 TTATGAATAC
*
60176688 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
60176708 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
60176728 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
60176745 TCAACCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:60184572 original size:25 final size:24
Alignment explanation
Indices: 60184501--60184583 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
60184491 CTGGAGGCCG
60184501 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
60184525 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
* *
60184549 AGCCATTTTCAATAAACTGAGGCATA
1 AGCCCTTTT-AATAAACTGGGGCA-A
60184575 AGCCCTTTT
1 AGCCCTTTT
60184584 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.14
24 23 0.45
25 12 0.24
26 9 0.18
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:60184699 original size:20 final size:20
Alignment explanation
Indices: 60184633--60184689 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
60184623 TTATGAATAC
*
60184633 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
60184653 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
60184673 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
60184690 TCAACCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:60195431 original size:53 final size:55
Alignment explanation
Indices: 60195367--60195506 Score: 187
Period size: 53 Copynumber: 2.6 Consensus size: 55
60195357 TTTTGAACTT
* * *
60195367 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTTCCTTAT-G-AAATC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGA-CCTTTTCCTTATAGTAAATC
* * *
60195420 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGACCTTTTCCTTATAGTAAATC
*
60195475 ATCAATGCCATGTCTTGACATGGTCTTACATG
1 ACCAATGCCATGTCTTGACATGGTCTTACATG
60195507 ATTTCCTTGC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.03
53 39 0.52
54 1 0.01
55 33 0.44
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (55 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGGACCTTTTCCTTATAGTAAATC
Found at i:60195520 original size:55 final size:53
Alignment explanation
Indices: 60195372--60195567 Score: 191
Period size: 55 Copynumber: 3.6 Consensus size: 53
60195362 AACTTACCAT
* * * *
60195372 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTTCCTTAT-GAAATCACCAA
1 TGCCATGCCTTGACATGGTCTTACAT-GTATCCTTTCCTTATAGAACTCATCAA
* *
60195425 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACAT-GTATCC-TTTCCTTATAG-AACTCATCAA
* * * * *
60195480 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAAAGAAC-CTATAAA
1 TGCCATGCCTTGACATGGTCTTACATG-TATCCTTTCCTTATAGAACTC-ATCAA
* *
60195534 TGCCATGCCTTGGCATGGTTTTACATGTTATCCT
1 TGCCATGCCTTGACATGGTCTTACATG-TATCCT
60195568 CATCTTACCA
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 36 0.30
54 38 0.32
55 41 0.34
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGTATCCTTTCCTTATAGAACTCATCAA
Found at i:60195605 original size:47 final size:47
Alignment explanation
Indices: 60195547--60195762 Score: 369
Period size: 47 Copynumber: 4.6 Consensus size: 47
60195537 CATGCCTTGG
* * **
60195547 CATGGTTTTACATGTTATCCTCATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
60195594 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
60195641 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
60195688 CATGGTTTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
60195735 TATGGTCTTACATGATATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
60195763 GTGCCAATGC
Statistics
Matches: 161, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 161 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:60216628 original size:29 final size:31
Alignment explanation
Indices: 60216563--60216629 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
60216553 GTTTTGAGAT
* *
60216563 ACATGAACTTTGATTTAATGTGCAATTGTAT
1 ACATGAACTTTGATTTAATGTGCAATTATAC
* *
60216594 ATATGAACTTT-ATTTTA-GTGCAATTATAC
1 ACATGAACTTTGATTTAATGTGCAATTATAC
60216623 ACATGAA
1 ACATGAA
60216630 ACTCTAACTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.52
30 5 0.16
31 10 0.32
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (31 bp):
ACATGAACTTTGATTTAATGTGCAATTATAC
Found at i:60216857 original size:29 final size:30
Alignment explanation
Indices: 60216814--60216870 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
60216804 GAATTAGATC
*
60216814 AAATCAAATTTTCATGTATAAAATTACACA
1 AAATCAAATATTCATGTATAAAATTACACA
*
60216844 AAATCAAA-ATTCATGTATATAATTACA
1 AAATCAAATATTCATGTATAAAATTACA
60216871 TATTAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (30 bp):
AAATCAAATATTCATGTATAAAATTACACA
Found at i:60216860 original size:310 final size:309
Alignment explanation
Indices: 60216259--60216862 Score: 834
Period size: 310 Copynumber: 2.0 Consensus size: 309
60216249 ATTATATATA
* * *
60216259 AACTTTGATTCATTTTGCAATTTAATACATGAACTTTAATTAGTGCAATCATACACATGAAACTT
1 AACTTTGATTCAATGTGCAATTTAATACATGAACTTTAATTAGTGCAATCATACACATGAAACTC
* * * * * * * * *
60216324 TGATTGTGGTTCAAACGTATACATGAAACTTTAATTTTTATTTAATCATACATATTGAAGGATAT
66 TAACTGTGATCCAAACATATACATGAAACTTTAATTTTTATTTAATCATACACATTGAAAGAAAG
* * * **
60216389 AAATACATCAGTTTATTTTTATATTGGATAAATATAATTATTTTTGTATGTGATATATAAACATA
131 AAATAAATCAATTTATTTTTATATTGGATAAATATAATTATTTGTGTATGAAATATATAAACATA
* * * ***
60216454 AAATGATGTTATATCAATAATTGTGTTAATAATTTGTGAGAATTAGATCAAATCAAAACTTTCAT
196 AAATGATATTATATCAATAATTCTGTTAATAACTTACAAGAATTAGATCAAATCAAAACTTTCAT
* *
60216519 GTATAAAATTGCACAAAATCAAAGTTCATGTATAGTTTTGAGATACATG
261 GTATAAAATTACACAAAATCAAAATTCATGTATAGTTTTGAGATACATG
* * * *
60216568 AACTTTGATTTAATGTGCAATTGT-ATATATGAACTTTATTTTAGTGCAATTATACACATGAAAC
1 AACTTTGATTCAATGTGCAATT-TAATACATGAACTTTA-ATTAGTGCAATCATACACATGAAAC
* ** *
60216632 TCTAACTGTGATCCAAATATATATTTGAAATTTTAATTTTTATTTAATCATACACATTGAAAGAA
64 TCTAACTGTGATCCAAACATATACATGAAACTTTAATTTTTATTTAATCATACACATTGAAAGAA
* *
60216697 AGAAATAAATTAATTTATTCTTTATATTGGATAAATATAATTATTTGTGTATGAAATATATAAAT
129 AGAAATAAATCAATTTATT-TTTATATTGGATAAATATAATTATTTGTGTATGAAATATATAAAC
* *
60216762 ATAAAATGATATTATATCAGTAATTCTGTTAATAACTTACAAGAATTAGATCAAATC-AAATTTT
193 ATAAAATGATATTATATCAATAATTCTGTTAATAACTTACAAGAATTAGATCAAATCAAAACTTT
60216826 CATGTATAAAATTACACAAAATCAAAATTCATGTATA
258 CATGTATAAAATTACACAAAATCAAAATTCATGTATA
60216863 TAATTACATA
Statistics
Matches: 255, Mismatches: 37, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
309 32 0.13
310 132 0.52
311 91 0.36
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (309 bp):
AACTTTGATTCAATGTGCAATTTAATACATGAACTTTAATTAGTGCAATCATACACATGAAACTC
TAACTGTGATCCAAACATATACATGAAACTTTAATTTTTATTTAATCATACACATTGAAAGAAAG
AAATAAATCAATTTATTTTTATATTGGATAAATATAATTATTTGTGTATGAAATATATAAACATA
AAATGATATTATATCAATAATTCTGTTAATAACTTACAAGAATTAGATCAAATCAAAACTTTCAT
GTATAAAATTACACAAAATCAAAATTCATGTATAGTTTTGAGATACATG
Found at i:60229152 original size:10 final size:10
Alignment explanation
Indices: 60229137--60229161 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
60229127 CATCAACCTG
60229137 ACGATAAACA
1 ACGATAAACA
60229147 ACGATAAACA
1 ACGATAAACA
60229157 ACGAT
1 ACGAT
60229162 CAACCAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (10 bp):
ACGATAAACA
Found at i:60229765 original size:17 final size:17
Alignment explanation
Indices: 60229732--60229765 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60229722 CAATGTATAC
* *
60229732 TAAAATTAAAAACAAAA
1 TAAAACTAAAAAAAAAA
60229749 TAAAACTAAAAAAAAAA
1 TAAAACTAAAAAAAAAA
60229766 AGATGTTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
TAAAACTAAAAAAAAAA
Found at i:60231877 original size:16 final size:17
Alignment explanation
Indices: 60231850--60231884 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
60231840 AATAGGATAT
*
60231850 ATCATATATAGATATAG
1 ATCATATATAGATACAG
60231867 ATCATAT-TAGATACAG
1 ATCATATATAGATACAG
60231883 AT
1 AT
60231885 GCTGATTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (17 bp):
ATCATATATAGATACAG
Found at i:60232026 original size:2 final size:2
Alignment explanation
Indices: 60232021--60232054 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
60232011 ATCATATATA
60232021 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
60232055 GCTTAGCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:60242865 original size:22 final size:22
Alignment explanation
Indices: 60242837--60242903 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
60242827 ATAGAAACAA
*
60242837 GATATATTAGATACAGTTATAG
1 GATATATCAGATACAGTTATAG
* * * *
60242859 GATATATCATATACAGATAAAT
1 GATATATCAGATACAGTTATAG
*
60242881 AATATATCAGATATCAGTTATAG
1 GATATATCAGATA-CAGTTATAG
60242904 ATACAGACCA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (22 bp):
GATATATCAGATACAGTTATAG
Found at i:60247490 original size:6 final size:6
Alignment explanation
Indices: 60247481--60247506 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
60247471 ATTAAGATTA
60247481 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
60247507 AGATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:60248350 original size:100 final size:100
Alignment explanation
Indices: 60248172--60248366 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
60248162 TACAAAGTTG
**
60248172 CAGAAGGATAAAACCATGGAAGCGACTTTTGGGGCTATTTGTTTGATAAGGCTTAATTGTCAGGT
1 CAGAAGGATAAAACCATGGAAGCGACTTTCAGGGCTATTTGTTTGATAAGGCTTAATTGTCAGGT
* * * *
60248237 GGTTCTTGTGGTTATTTTATGATTAAGGAAATATC
66 GGTTCCTGCGGTTAATTTACGATTAAGGAAATATC
* *
60248272 CAGAAGGATTAAACCATGGAAGCGACTTTCAGGGCTATTTGTTTGATAAGGCTTAATTGTTAGGT
1 CAGAAGGATAAAACCATGGAAGCGACTTTCAGGGCTATTTGTTTGATAAGGCTTAATTGTCAGGT
60248337 GGTTCCTGCGGTTAATTTACGATTAAGGAA
66 GGTTCCTGCGGTTAATTTACGATTAAGGAA
60248367 GAATTGATGG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (100 bp):
CAGAAGGATAAAACCATGGAAGCGACTTTCAGGGCTATTTGTTTGATAAGGCTTAATTGTCAGGT
GGTTCCTGCGGTTAATTTACGATTAAGGAAATATC
Found at i:60250309 original size:13 final size:13
Alignment explanation
Indices: 60250291--60250316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60250281 CAACTCCTTA
60250291 TATAAATCGTTAT
1 TATAAATCGTTAT
60250304 TATAAATCGTTAT
1 TATAAATCGTTAT
60250317 ACTTGGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TATAAATCGTTAT
Found at i:60251155 original size:30 final size:30
Alignment explanation
Indices: 60251119--60251180 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
60251109 TATGAAAGAT
60251119 AGTCTTTTTGAGCTCTTAAACTTGAATATA
1 AGTCTTTTTGAGCTCTTAAACTTGAATATA
60251149 AGTCTTTTTGAGCTCTTAAACTTGAATATA
1 AGTCTTTTTGAGCTCTTAAACTTGAATATA
60251179 AG
1 AG
60251181 ATTAGTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (30 bp):
AGTCTTTTTGAGCTCTTAAACTTGAATATA
Found at i:60252507 original size:40 final size:40
Alignment explanation
Indices: 60252451--60252530 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
60252441 CTTGGAACCT
*
60252451 TAATAAATTCTCAGATGACACACGACCATGTCGCCAAGCC
1 TAATAAATTCTCAGATGACACACAACCATGTCGCCAAGCC
* * *
60252491 TAATAAATTCTTAGATGACAGACAACCATGTCGCTAAGCC
1 TAATAAATTCTCAGATGACACACAACCATGTCGCCAAGCC
60252531 GTGTACTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (40 bp):
TAATAAATTCTCAGATGACACACAACCATGTCGCCAAGCC
Found at i:60259251 original size:16 final size:16
Alignment explanation
Indices: 60259206--60259252 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
60259196 AAAAAACTAT
*
60259206 TTTTTAATTTATTTTA
1 TTTTTATTTTATTTTA
* **
60259222 TTTTTCTTCGATTTTA
1 TTTTTATTTTATTTTA
60259238 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
60259253 TTAGGTTTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:60278899 original size:40 final size:40
Alignment explanation
Indices: 60278719--60278939 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
60278709 CTCGTTCAAG
* * * * *
60278719 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
60278758 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
60278798 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* * *
60278838 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* ** * * * *
60278878 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAA
* *
60278918 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
60278940 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
Found at i:60278948 original size:41 final size:41
Alignment explanation
Indices: 60278871--60278948 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60278861 TTAGTATCTC
* * *
60278871 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60278912 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60278949 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60286774 original size:40 final size:40
Alignment explanation
Indices: 60286592--60286814 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
60286582 CTCCTCGTTC
* * * * *
60286592 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
60286631 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60286671 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
60286711 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
60286751 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
60286791 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60286815 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:60286823 original size:41 final size:41
Alignment explanation
Indices: 60286746--60286823 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60286736 TTAGTATCTC
* * *
60286746 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60286787 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60286824 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60292991 original size:5 final size:5
Alignment explanation
Indices: 60292983--60293042 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
60292973 TACCCTTTTC
* * *
60292983 TTTAT TTTA- TTTAT TTAAT GTTCT TATT-T TTTAT TTTAT TTTA- TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT
60293031 TTTCAT TTTAT T
1 TTT-AT TTTAT T
60293043 ACTTTGATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
4 10 0.22
5 28 0.62
6 7 0.16
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:60292995 original size:9 final size:9
Alignment explanation
Indices: 60292978--60293068 Score: 51
Period size: 9 Copynumber: 9.6 Consensus size: 9
60292968 CCTTTTACCC
*
60292978 TTTTCTTTA
1 TTTTATTTA
60292987 TTTTATTTA
1 TTTTATTTA
* *
60292996 TTTAATGTTC
1 TTTTAT-TTA
*
60293006 TTATTTTTTA
1 TT-TTATTTA
60293016 TTTTATTT-
1 TTTTATTTA
60293024 TATTTATTTTCA
1 T-TTTA-TTT-A
60293036 TTTTA-TTA
1 TTTTATTTA
*
60293044 CTTTGATTTA
1 -TTTTATTTA
*
60293054 TTATTATTAA
1 TT-TTATTTA
60293064 TTTTA
1 TTTTA
60293069 ATTCTTTGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
8 2 0.03
9 33 0.52
10 21 0.33
11 6 0.10
12 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATTTA
Found at i:60293066 original size:28 final size:29
Alignment explanation
Indices: 60293022--60293090 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
60293012 TTTATTTTAT
* *
60293022 TTTATTTATT-TTCATTTT-ATTACTTTGA
1 TTTAGTTATTATTAATTTTAATT-CTTTGA
*
60293050 TTTA-TTATTATTAATTTTAATTCTTTGT
1 TTTAGTTATTATTAATTTTAATTCTTTGA
60293078 TTTAGTT-TTATTA
1 TTTAGTTATTATTA
60293091 GTCTTAACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 5 0.14
28 26 0.72
29 5 0.14
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTAGTTATTATTAATTTTAATTCTTTGA
Found at i:60293097 original size:28 final size:28
Alignment explanation
Indices: 60293044--60293097 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
60293034 CATTTTATTA
*
60293044 CTTTGATTTATTATTATTAATTTTAATT
1 CTTTGATTTATTATTATTAATCTTAATT
* *
60293072 CTTTGTTTTAGTT-TTATTAGTCTTAA
1 CTTTGATTTA-TTATTATTAATCTTAA
60293098 CTTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.91
29 2 0.09
ACGTcount: A:0.24, C:0.06, G:0.07, T:0.63
Consensus pattern (28 bp):
CTTTGATTTATTATTATTAATCTTAATT
Found at i:60295814 original size:17 final size:17
Alignment explanation
Indices: 60295792--60295825 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60295782 CTTTAAAAAA
*
60295792 ATATCAAAAAAATATAT
1 ATATCAAAAAAAAATAT
60295809 ATATCAAAAAAAAATAT
1 ATATCAAAAAAAAATAT
60295826 TGATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATCAAAAAAAAATAT
Found at i:60299749 original size:47 final size:47
Alignment explanation
Indices: 60299680--60300253 Score: 878
Period size: 47 Copynumber: 12.1 Consensus size: 47
60299670 GAAATGATAG
*
60299680 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60299727 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * **
60299774 TAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60299821 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
60299868 TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
60299915 TAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60299962 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
60300011 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
60300060 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60300107 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
60300154 TAAGGCCTAATGACCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
60300203 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60300250 TAAG
1 TAAG
60300254 TCCCGAAGGG
Statistics
Matches: 494, Mismatches: 29, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 362 0.73
49 132 0.27
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:60300428 original size:37 final size:37
Alignment explanation
Indices: 60300372--60300450 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
60300362 CCGAGCTCTA
* ** *
60300372 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
*
60300409 AAGACCCGATAACTTCGTGTGAAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
60300446 AAGAC
1 AAGAC
60300451 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
Found at i:60312047 original size:25 final size:24
Alignment explanation
Indices: 60312017--60312094 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
60312007 TTTCAATTAA
*
60312017 ATTATTATTA-GAAAATTTTACTGT
1 ATTATTATTAGGAAAATTTTAAT-T
*
60312041 ATCTATT-TTATGG-AAATTATAATT
1 AT-TATTATTA-GGAAAATTTTAATT
*
60312065 ATTATTATTAGGAAAAATTT-ATAT
1 ATTATTATTAGGAAAATTTTAAT-T
60312089 ATTATT
1 ATTATT
60312095 GTATTTGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
23 8 0.18
24 23 0.52
25 12 0.27
26 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTATTATTAGGAAAATTTTAATT
Found at i:60312128 original size:3 final size:3
Alignment explanation
Indices: 60312120--60312146 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
60312110 ATTGCTATGG
60312120 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
60312147 ATGTGGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60314695 original size:60 final size:60
Alignment explanation
Indices: 60314583--60314722 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 60
60314573 CCCAACTGTG
* * *
60314583 CTGATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGTTACGACCCAGATTGATA
1 CTGATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATA
* * *
60314643 CTGATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGACCCAGATTAATA
*
60314703 TTGATATGGGCTAAGGCCCA
1 CTGATATGGGCT-AGGCCCA
60314723 GTTAACACTG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
59 4 0.06
60 53 0.77
61 12 0.17
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (60 bp):
CTGATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATA
Found at i:60316086 original size:43 final size:43
Alignment explanation
Indices: 60316019--60316189 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
60316009 TCTAAACTCA
* **
60316019 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * * *
60316061 TTCACTGGCATTATAGCCTGCTAGGCCCGAGGCTCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
60316104 CTCACCGGCATTATAGCTTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
60316147 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
60316190 CATTTCGATA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 11 0.10
43 95 0.85
44 6 0.05
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:60319266 original size:47 final size:47
Alignment explanation
Indices: 60319212--60319393 Score: 283
Period size: 47 Copynumber: 3.9 Consensus size: 47
60319202 GATTTTATGC
** * *
60319212 GATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
60319259 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
60319306 AATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
60319353 GATGAATATGAACATGCATATATGTGATAAAGCCGAATGGC
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
60319394 TAGTGTGAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 123 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:60319401 original size:47 final size:47
Alignment explanation
Indices: 60319229--60319550 Score: 275
Period size: 48 Copynumber: 6.8 Consensus size: 47
60319219 GTGAATGTGT
* * * * *
60319229 ATATATGAGATAAGGCCGAATGGCCAATGTGATGA-ATGTGA-ACATG
1 ATATATGTGATAAAGCCGAATGGCTAGTGTGAT-ATATATGAGACATG
* * * * *
60319275 CATATATGTGATAAGGCCGAATGGCCAATGTAATGA-ATGTGAG-CATG
1 -ATATATGTGATAAAGCCGAATGGCTAGTGTGAT-ATATATGAGACATG
* * * *
60319322 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGA-ATATGA-ACATG
1 -ATATATGTGATAAAGCCGAATGGCTAGTGTGAT-ATATATGAGACATG
*
60319369 CATATATGTGATAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
1 -ATATATGTGATAAAGCCGAATGGCTAGTGTG--ATATATATGAGACATG
* *
60319419 -TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
1 ATATATGTGATAAAGCCGAATGGCTAGTGTG--ATATATATGAGACATG
* * *
60319467 -TATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATATATGAGATATG
1 ATATATGTGATAAAGCCGAATGGCTAGTGTG--ATATATATGAGACATG
* *
60319515 -TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATATGTGATAAAGCCGAATGGCTAGTGTGATATAT
60319551 GTAGGCGATG
Statistics
Matches: 255, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
46 5 0.02
47 114 0.45
48 124 0.49
49 8 0.03
50 4 0.02
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (47 bp):
ATATATGTGATAAAGCCGAATGGCTAGTGTGATATATATGAGACATG
Found at i:60319434 original size:48 final size:48
Alignment explanation
Indices: 60319371--60319550 Score: 342
Period size: 48 Copynumber: 3.8 Consensus size: 48
60319361 TGAACATGCA
*
60319371 TATATGTGATAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
60319419 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
*
60319467 TATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
60319515 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
60319551 GTAGGCGATG
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
Found at i:60319808 original size:37 final size:37
Alignment explanation
Indices: 60319700--60319808 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
60319690 GGAAATATAT
*
60319700 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
60319737 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * **
60319774 TCCGGGTGAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
60319809 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:60326884 original size:46 final size:47
Alignment explanation
Indices: 60326816--60326917 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
60326806 CTGTCAGATC
* * *
60326816 AGATATATGTGGTCAAGTCACTAT-ATTGTAG-CTAAGCTGCCATAAT
1 AGATATGTGTGGTCAAGCCACTATAATTGTAGTC-AAGCTGCCAGAAT
* *
60326862 AGATATGTGTGGTCGAGCCACTATAATTGTAGTCAAGTTGCCAGAAT
1 AGATATGTGTGGTCAAGCCACTATAATTGTAGTCAAGCTGCCAGAAT
*
60326909 AGAAATGTG
1 AGATATGTG
60326918 GTTAAACCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 21 0.44
47 26 0.54
48 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (47 bp):
AGATATGTGTGGTCAAGCCACTATAATTGTAGTCAAGCTGCCAGAAT
Found at i:60328807 original size:12 final size:12
Alignment explanation
Indices: 60328790--60328820 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60328780 ACGCTAGATG
60328790 GCTGTGTGGTAA
1 GCTGTGTGGTAA
*
60328802 GCTGTGTGGTAG
1 GCTGTGTGGTAA
60328814 GCTGTGT
1 GCTGTGT
60328821 AACTCACTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.45, T:0.35
Consensus pattern (12 bp):
GCTGTGTGGTAA
Found at i:60331141 original size:42 final size:41
Alignment explanation
Indices: 60331082--60331228 Score: 168
Period size: 42 Copynumber: 3.5 Consensus size: 41
60331072 TGCTTTAGAA
* * * *
60331082 CCACATGGCCAGGGACATAGGAGTGTGCCCAAGCCATGTGAG
1 CCACATGGGCAAGGACATAGGA-TGTGCCCAGGCCGTGTGAG
*
60331124 CCACATGGGCAAGGACATAGGCTTGTGCCCAGGCCGTGTGAG
1 CCACATGGGCAAGGACATAGG-ATGTGCCCAGGCCGTGTGAG
* * *
60331166 CCACATGGGAAAGGACATGGGCATGTGTCCAGGCCGTGTGAG
1 CCACATGGGCAAGGACATAGG-ATGTGCCCAGGCCGTGTGAG
* * *
60331208 CTACACGGGCAAGAACATAGG
1 CCACATGGGCAAGGACATAGG
60331229 CTCCAGGCAG
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (41 bp):
CCACATGGGCAAGGACATAGGATGTGCCCAGGCCGTGTGAG
Found at i:60336191 original size:50 final size:49
Alignment explanation
Indices: 60336152--60336246 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 49
60336142 ATGTCGAAAT
*
60336152 TATTTAAGCAACTAAAGAAAATTCAAAACAACTTAATT-AATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAATT-AAAACAACTAAATTAAATTAAAC-AAG
60336202 TATTTAAGCAACTAAAGAAAATTAAAACAACTAAATT-AATTAAAC
1 TATTTAAGCAACTAAAGAAAATTAAAACAACTAAATTAAATTAAAC
60336247 TAAACATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 21 0.48
50 23 0.52
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (49 bp):
TATTTAAGCAACTAAAGAAAATTAAAACAACTAAATTAAATTAAACAAG
Found at i:60336248 original size:49 final size:50
Alignment explanation
Indices: 60336152--60336249 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 50
60336142 ATGTCGAAAT
*
60336152 TATTTAAGCAACTAAAGAAAATTCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTAAATTAATTAAACTAAG
60336202 TATTTAAGCAACTAAAGAAAATT-AAAACAACTAAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTAAATTAATTAAACTAA
60336250 ACATATTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 24 0.51
50 23 0.49
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (50 bp):
TATTTAAGCAACTAAAGAAAATTCAAAACAACTAAATTAATTAAACTAAG
Found at i:60336690 original size:26 final size:26
Alignment explanation
Indices: 60336636--60336690 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
60336626 AAATGCTTAA
*
60336636 TTATTATTATTTGATATTTAATAGTT
1 TTATTATTATTTGATATTTAATAATT
60336662 TTATTATTATTTGAT-TTTAATAATAT
1 TTATTATTATTTGATATTTAATAAT-T
60336688 TTA
1 TTA
60336691 CATAATTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TTATTATTATTTGATATTTAATAATT
Found at i:60336982 original size:24 final size:24
Alignment explanation
Indices: 60336954--60337006 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
60336944 TTTAATTAGT
*
60336954 AAATATA-TATTTTAA-AAATTATAA
1 AAATATATTA-TTTAATAAA-TAAAA
60336978 AAATATATTATTTAATAAATAAAA
1 AAATATATTATTTAATAAATAAAA
60337002 AAATA
1 AAATA
60337007 AATACATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATATATTATTTAATAAATAAAA
Found at i:60340760 original size:57 final size:59
Alignment explanation
Indices: 60340675--60340784 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 59
60340665 TGATATAATC
* * *
60340675 CTTCTCGAGCATATGTTACAATTAGGATTTAGACTGGACTGGTAATCT-TAATTGAGCT
1 CTTCTCGAGCATACGTTACAATAAGGATTTAGACTGGACTGGCAATCTGTAATTGAGCT
*
60340733 CTTCT-GAGCATACGTTAC-ATAAAGGATTTAGCCTGGACTGGCAATCTGTAAT
1 CTTCTCGAGCATACGTTACAAT-AAGGATTTAGACTGGACTGGCAATCTGTAAT
60340785 ACGATATGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
56 2 0.04
57 35 0.76
58 9 0.20
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (59 bp):
CTTCTCGAGCATACGTTACAATAAGGATTTAGACTGGACTGGCAATCTGTAATTGAGCT
Found at i:60345600 original size:27 final size:26
Alignment explanation
Indices: 60345559--60345699 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 26
60345549 AGGAAGCTTC
*
60345559 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
60345586 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
60345613 CTGGTGGCTATGCCACGATTATCTGAA
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
60345640 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
60345667 TTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
60345694 CTGGTG
1 CTGGTG
60345700 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 10 0.10
27 84 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:60345647 original size:54 final size:53
Alignment explanation
Indices: 60345559--60345699 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
60345549 AGGAAGCTTC
*
60345559 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
60345613 CTGGTGGCTATGCCACGATTATCTGAACTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
60345667 TTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
60345700 ACTTCGTCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 7 0.09
54 72 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:60350606 original size:26 final size:26
Alignment explanation
Indices: 60350577--60350682 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
60350567 TGGTACAAAT
60350577 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
60350603 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60350629 TGAT-A-GGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
60350653 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
60350679 TGAT
1 TGAT
60350683 GGGCATTTCA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
24 21 0.29
25 2 0.03
26 49 0.68
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60350643 original size:50 final size:50
Alignment explanation
Indices: 60350584--60350682 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
60350574 AATTGATAAT
60350584 GGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATA
1 GGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATA
* * *
60350634 GGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCTATGAT
1 GGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
60350683 GGGCATTTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (50 bp):
GGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATA
Found at i:60352320 original size:27 final size:26
Alignment explanation
Indices: 60352280--60352420 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 26
60352270 AGGGAGCGTC
*
60352280 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
60352307 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
60352334 CTGGTAGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
60352361 CTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
60352388 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
60352415 CTGGTG
1 CTGGTG
60352421 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 86 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Done.