Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 186 of 226
Found at i:56243979 original size:29 final size:29
Alignment explanation
Indices: 56243916--56243983 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
56243906 TAATCAACCG
* *
56243916 CGCACACTTAGTGTCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
56243945 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
56243974 CGCACACTTA
1 CGCACACTTA
56243984 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:56244095 original size:174 final size:174
Alignment explanation
Indices: 56243805--56244132 Score: 613
Period size: 174 Copynumber: 1.9 Consensus size: 174
56243795 AACTCAAGGT
* *
56243805 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
56243870 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGTCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
56243935 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
56243979 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAA-TGCGCACCCTTAATGTAAATAATTTAT
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGT-CGCACCCTTAATGTAAATAATTTAT
56244043 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
56244108 TACTTTAAACTCACACACTTAGTGC
130 TACTTTAAACTCACACACTTAGTGC
56244133 TGTACAATTT
Statistics
Matches: 150, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
173 1 0.01
174 149 0.99
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:56244126 original size:29 final size:30
Alignment explanation
Indices: 56244092--56244163 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
56244082 ATCAACCGCG
*
56244092 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
56244121 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
56244150 CACACTTAGTGCCA
1 CACACTTAGTGCCA
56244164 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:56252124 original size:29 final size:29
Alignment explanation
Indices: 56252061--56252128 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
56252051 TAATCAACCG
*
56252061 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
56252090 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
56252119 CGCACACTTA
1 CGCACACTTA
56252129 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:56252240 original size:174 final size:174
Alignment explanation
Indices: 56251950--56252277 Score: 638
Period size: 174 Copynumber: 1.9 Consensus size: 174
56251940 AACTCAAGGT
* *
56251950 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
56252015 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
56252080 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
56252124 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
56252189 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
56252254 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
56252278 TGTACAATTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:56252271 original size:29 final size:30
Alignment explanation
Indices: 56252237--56252308 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
56252227 ATCAACCGCG
*
56252237 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
56252266 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
56252295 CACACTTAGTGCCA
1 CACACTTAGTGCCA
56252309 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:56254300 original size:30 final size:31
Alignment explanation
Indices: 56254249--56254316 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
56254239 TTTAAATTAG
*
56254249 TAATAAAAATTATACTTTAACCCCTCAAAAA
1 TAATAAAAATTATAATTTAACCCCTCAAAAA
* *
56254280 TAATAAAAATT-TAATTTAACCCTTTAAAAA
1 TAATAAAAATTATAATTTAACCCCTCAAAAA
*
56254310 TGATAAA
1 TAATAAA
56254317 GACAAACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 22 0.67
31 11 0.33
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (31 bp):
TAATAAAAATTATAATTTAACCCCTCAAAAA
Found at i:56264910 original size:27 final size:27
Alignment explanation
Indices: 56264880--56264983 Score: 82
Period size: 32 Copynumber: 3.5 Consensus size: 27
56264870 GTCTTGAATT
*
56264880 TGTTAGATATTGATTATGTTTTAAGCC
1 TGTTAGATATTGATTATATTTTAAGCC
*
56264907 TGTTAGATATTGAATTTATTATATTTTAAGCT
1 TGTTAGATATTG-----ATTATATTTTAAGCC
*
56264939 TGTTAGATATTGAATTTATTATATTTTAAGCT
1 TGTTAGATATTG-----ATTATATTTTAAGCC
*
56264971 TGTTGGATATTGA
1 TGTTAGATATTGA
56264984 AATGATTGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
27 13 0.19
32 56 0.81
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (27 bp):
TGTTAGATATTGATTATATTTTAAGCC
Found at i:56264934 original size:32 final size:32
Alignment explanation
Indices: 56264892--56264984 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
56264882 TTAGATATTG
* *
56264892 ATTATGTTTTAAGCCTGTTAGATATTGAATTT
1 ATTATATTTTAAGCTTGTTAGATATTGAATTT
56264924 ATTATATTTTAAGCTTGTTAGATATTGAATTT
1 ATTATATTTTAAGCTTGTTAGATATTGAATTT
*
56264956 ATTATATTTTAAGCTTGTTGGATATTGAA
1 ATTATATTTTAAGCTTGTTAGATATTGAA
56264985 ATGATTGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (32 bp):
ATTATATTTTAAGCTTGTTAGATATTGAATTT
Found at i:56272434 original size:18 final size:18
Alignment explanation
Indices: 56272413--56272455 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
56272403 ATAATTTAAA
56272413 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
56272431 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
56272449 ATGTAAA
1 ATATAAA
56272456 AACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:56272576 original size:20 final size:19
Alignment explanation
Indices: 56272531--56272568 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
56272521 CATCCAAACA
*
56272531 CCAGACAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
56272550 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
56272569 TCTAGAAATC
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:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:56274139 original size:17 final size:16
Alignment explanation
Indices: 56274113--56274151 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
56274103 AATCAATTAA
56274113 ATTAACTAAATTAATTT
1 ATTAACTAAA-TAATTT
*
56274130 ATTAATTAAATAATTT
1 ATTAACTAAATAATTT
56274146 -TTAACT
1 ATTAACT
56274152 CAATTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 5 0.25
16 6 0.30
17 9 0.45
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAACTAAATAATTT
Found at i:56274819 original size:30 final size:30
Alignment explanation
Indices: 56274783--56274845 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
56274773 ACTTAACAAG
*
56274783 CAAATGTCTCTAAAATAGTAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
56274813 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
56274843 CAA
1 CAA
56274846 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:56274893 original size:14 final size:14
Alignment explanation
Indices: 56274876--56274906 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56274866 ATCCAAACAA
56274876 TAACAACAAAATAG
1 TAACAACAAAATAG
*
56274890 TAACAACATAATAG
1 TAACAACAAAATAG
56274904 TAA
1 TAA
56274907 AATAGTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:56275491 original size:23 final size:23
Alignment explanation
Indices: 56275442--56275491 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
56275432 CCAACATTTT
*
56275442 TTTTAGGTTTATTATATTATTAT
1 TTTTAGGTTTATTATATTATTAA
*
56275465 TTTTAGTTTTATTATAGTT-TTAA
1 TTTTAGGTTTATTATA-TTATTAA
56275488 TTTT
1 TTTT
56275492 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (23 bp):
TTTTAGGTTTATTATATTATTAA
Found at i:56277182 original size:25 final size:26
Alignment explanation
Indices: 56277143--56277192 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
56277133 GATAGATTTA
*
56277143 AATTATATATTTTTACATATTTTAAT
1 AATTATATATTTTTACAAATTTTAAT
*
56277169 AATT-TATATTTTTATAAATTTTAA
1 AATTATATATTTTTACAAATTTTAA
56277193 AAGTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
AATTATATATTTTTACAAATTTTAAT
Found at i:56278070 original size:14 final size:14
Alignment explanation
Indices: 56278051--56278080 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
56278041 ATTTGAGAGT
56278051 GTATCATCAAATAG
1 GTATCATCAAATAG
56278065 GTATCATCAAATAG
1 GTATCATCAAATAG
56278079 GT
1 GT
56278081 GTGATGTAGT
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:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (14 bp):
GTATCATCAAATAG
Found at i:56278517 original size:90 final size:90
Alignment explanation
Indices: 56278362--56278660 Score: 354
Period size: 90 Copynumber: 3.3 Consensus size: 90
56278352 ACTACTATTC
* * * **
56278362 AAAATGTTCGTATTATTTTTGTATCCGTAAATCAATTTTAGTCTGTATAATTTATTGGTAAAATT
1 AAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTATTGGTCGAATT
*
56278427 TTATATTTTCTTATATCAATTTTGT
66 TTATATTTTCATATATCAATTTTGT
* * *
56278452 AAAATGTTTGTATTATTTTTAG-ATCTGTAAA-AATATTTTAGTTTGTATTATTTGTTGGTCGAA
1 AAAATGTTCGTATTATTTTT-GTATCTGTAAATAA-ATTTTAGTCTGTATTATTTATTGGTCGAA
* * *
56278515 TTTTATATTTTCGTATATCAAGTTTCT
64 TTTTATATTTTCATATATCAATTTTGT
* * *
56278542 AAAATGTTCGTATTATTTTTGTATATGTAAATAAAATTTAGTCAGTATTATTTATTGGTCGAATT
1 AAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTATTGGTCGAATT
* * *
56278607 ATATATTTTCATATATTAGTTTTGT
66 TTATATTTTCATATATCAATTTTGT
* * *
56278632 AGAATGCTT-GTATT-TTCTTGTATATGTAA
1 AAAATG-TTCGTATTATTTTTGTATCTGTAA
56278661 TCTTTTTTGT
Statistics
Matches: 179, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
89 16 0.09
90 158 0.88
91 5 0.03
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (90 bp):
AAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTATTGGTCGAATT
TTATATTTTCATATATCAATTTTGT
Found at i:56281412 original size:5 final size:5
Alignment explanation
Indices: 56281402--56281442 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
56281392 GAGGTAGTAC
56281402 AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
56281443 GCAGAACAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:56282724 original size:42 final size:41
Alignment explanation
Indices: 56282677--56282780 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 41
56282667 ACAATGAGTT
*
56282677 ACACGGCCTGGACACACGCCAATGTCCTTGCTTGTGTAGCTC
1 ACACGGCCTGGGCACACGCC-ATGTCCTTGCTTGTGTAGCTC
** *
56282719 ACACGGGATGGGCACACGCTCATGTCCTTGCTTGTGTGGCTC
1 ACACGGCCTGGGCACACGC-CATGTCCTTGCTTGTGTAGCTC
*
56282761 ACAAGGCCTGGGCACACGCC
1 ACACGGCCTGGGCACACGCC
56282781 CATATCTCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 52 0.96
43 1 0.02
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (41 bp):
ACACGGCCTGGGCACACGCCATGTCCTTGCTTGTGTAGCTC
Found at i:56282731 original size:104 final size:104
Alignment explanation
Indices: 56282506--56282745 Score: 250
Period size: 104 Copynumber: 2.3 Consensus size: 104
56282496 TGTCCATATG
* * * * * *
56282506 GCTCACACGGCCTGGGTACATGCCCATGTCGTCTGCATGTGTGTTTCTAAATCATAAATAGTGAG
1 GCTCACACGGCCTGGGCACATGCCCATGTC-CCTGCATATGTGTTTCTAAAGCATAAACAATGAG
** *
56282571 TTACACGGCCTAGACACACGCTTATATCCTTACTCATGTG
65 TTACACGGCCTAGACACACGCCAATATCCTTACTCATGTA
** *
56282611 GCTCACATAGCCTGGGCACATGCCCATGTCCCTGGCAATATG-G-TTCTAAAGCGTAAACAATGA
1 GCTCACACGGCCTGGGCACATGCCCATGTCCCT-GC-ATATGTGTTTCTAAAGCATAAACAATGA
* * * **
56282674 GTTACACGGCCTGGACACACGCCAATGTCCTTGCTTGTGTA
64 GTTACACGGCCTAGACACACGCCAATATCCTTACTCATGTA
** * *
56282715 GCTCACACGGGATGGGCACACGCTCATGTCC
1 GCTCACACGGCCTGGGCACATGCCCATGTCC
56282746 TTGCTTGTGT
Statistics
Matches: 110, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
104 76 0.69
105 30 0.27
106 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (104 bp):
GCTCACACGGCCTGGGCACATGCCCATGTCCCTGCATATGTGTTTCTAAAGCATAAACAATGAGT
TACACGGCCTAGACACACGCCAATATCCTTACTCATGTA
Found at i:56288529 original size:52 final size:51
Alignment explanation
Indices: 56288468--56288628 Score: 186
Period size: 51 Copynumber: 3.2 Consensus size: 51
56288458 CTAAAAAGGT
* * *
56288468 ATTTTTTTAATCGTACCTGTTTGATAGGCACGAATTAATTTTTTATATTAAA
1 ATTTTTTTAATCG-ACCTATCTGATAGGCGCGAATTAATTTTTTATATTAAA
*
56288520 ATTTTTTTAATC-ACGTCTATCTGACAGGCGCGAATT-ATTTTTTATATTAAA
1 ATTTTTTTAATCGAC--CTATCTGATAGGCGCGAATTAATTTTTTATATTAAA
* * * *
56288571 ATTTTTTTAACCGCGCCTATCT-ATAGGTGTGAATTAATTTTTTATATT-AA
1 ATTTTTTTAATCG-ACCTATCTGATAGGCGCGAATTAATTTTTTATATTAAA
56288621 ATTTTTTT
1 ATTTTTTT
56288629 CGTTTAATAA
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
50 22 0.23
51 44 0.46
52 28 0.29
53 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (51 bp):
ATTTTTTTAATCGACCTATCTGATAGGCGCGAATTAATTTTTTATATTAAA
Found at i:56288605 original size:50 final size:52
Alignment explanation
Indices: 56288493--56288628 Score: 188
Period size: 51 Copynumber: 2.7 Consensus size: 52
56288483 CCTGTTTGAT
* * *
56288493 AGGCACGAATTAATTTTTTATATTAAAATTTTTTTAATCACGTCTATCTGAC
1 AGGCGCGAATTAATTTTTTATATTAAAATTTTTTTAACCACGCCTATCTGAC
* *
56288545 AGGCGCGAATT-ATTTTTTATATTAAAATTTTTTTAACCGCGCCTATCT-AT
1 AGGCGCGAATTAATTTTTTATATTAAAATTTTTTTAACCACGCCTATCTGAC
* *
56288595 AGGTGTGAATTAATTTTTTATATT-AAATTTTTTT
1 AGGCGCGAATTAATTTTTTATATTAAAATTTTTTT
56288629 CGTTTAATAA
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
50 20 0.26
51 46 0.61
52 10 0.13
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (52 bp):
AGGCGCGAATTAATTTTTTATATTAAAATTTTTTTAACCACGCCTATCTGAC
Found at i:56288772 original size:17 final size:19
Alignment explanation
Indices: 56288736--56288772 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
56288726 GGTCTTTTAC
56288736 AAAAATAATACAAAAAAAT
1 AAAAATAATACAAAAAAAT
*
56288755 AAAAA-AAT-CAAAATAAT
1 AAAAATAATACAAAAAAAT
56288772 A
1 A
56288773 TATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAAATAATACAAAAAAAT
Found at i:56288896 original size:3 final size:3
Alignment explanation
Indices: 56288890--56288919 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
56288880 GAGAAGAAGA
56288890 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
56288920 TGGTGCCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:56289307 original size:37 final size:38
Alignment explanation
Indices: 56289259--56289345 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 38
56289249 TTTTACATTA
* **
56289259 TATTATTGTTAG-T-TATTATTTTTAGTAAAACCCTAAT
1 TATTATTGTTAGTTATATTATTTTGAGTAAAAAACT-AT
56289296 TATTATTGTTAGTTAGTATTATTTTGAGTAAAAAACTAT
1 TATTATTGTTAGTTA-TATTATTTTGAGTAAAAAACTAT
56289335 TATTATTGTTA
1 TATTATTGTTA
56289346 TTGTGTTAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 12 0.27
38 1 0.02
39 13 0.30
40 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (38 bp):
TATTATTGTTAGTTATATTATTTTGAGTAAAAAACTAT
Found at i:56289339 original size:76 final size:75
Alignment explanation
Indices: 56289141--56289345 Score: 225
Period size: 76 Copynumber: 2.6 Consensus size: 75
56289131 TAGTTATTAA
*
56289141 TATTATTTTTACTTAGTATTATTGTTAGTAAAAAACTACTATTATTATGATTAGTTATTAGGATT
1 TATTA-TTTTAGTTAGTATTATTGTTAGTAAAAAACTA-TATTA-T-TG-TTAGTTATTAGGATT
56289206 AGTAAAAACCCTAAT
61 AGTAAAAACCCTAAT
* *** * * ***
56289221 TATTATTTTAGTTAGTATGATTGTTAGTTTTTACATTATATTATTGTTAGTTATTATTTTTAGT-
1 TATTATTTTAGTTAGTATTATTGTTAG-TAAAAAACTATATTATTGTTAGTTATTAGGATTAGTA
56289285 AAAACCCTAAT
65 AAAACCCTAAT
56289296 TATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTTA
1 TATTATT-TTAGTTAGTATTATTGTT-AGTAAAAAACTA-TATTATTGTTA
56289346 TTGTGTTAGT
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
75 25 0.24
76 42 0.40
77 2 0.02
78 1 0.01
79 25 0.24
80 10 0.10
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (75 bp):
TATTATTTTAGTTAGTATTATTGTTAGTAAAAAACTATATTATTGTTAGTTATTAGGATTAGTAA
AAACCCTAAT
Found at i:56292543 original size:18 final size:17
Alignment explanation
Indices: 56292511--56292547 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
56292501 AATAAAAATA
56292511 TATTATTTTTATTATTT
1 TATTATTTTTATTATTT
56292528 TATTATTTTATATTATTT
1 TATTATTTT-TATTATTT
56292546 TA
1 TA
56292548 GTACATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTATTTTTATTATTT
Found at i:56292725 original size:153 final size:152
Alignment explanation
Indices: 56292279--56293155 Score: 1067
Period size: 152 Copynumber: 5.7 Consensus size: 152
56292269 ACTTCAAAAA
* *
56292279 AAATTTAGTAAAAAACCCTTATTTCGACGATTTGTTCGTATTTTTTCCCTGAATTTTATTACTTT
1 AAATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTATTTTTTCCC-GAATTTTATTACTTT
* *
56292344 AAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTGAGTACATTATGTTTGAAATTT
65 AAAAAAATATACTATTAT-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT
56292409 ATTAATTTAGTGTGTTTTTTTAAAT
129 ATTAATTTAGTGTG-TTTTTTAAAT
* * *
56292434 AAATTTAGAAAAATAACCCTTATTTCGGCCC-TTTGCTCGTATTTTTTTCCCGGATTTTATTACT
1 AAATTTAGTAAAA-AACCCTTATTTC-GCCCATTTGTTCGTA-TTTTTTCCCGAATTTTATTACT
* * * *
56292498 TTCAATAAAAATATATTATTTTTATTATTTTATTATTTTATATTATTTTAGTACATTATGTTTAA
63 TT-AA-AAAAATATACTATTATTA--ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
** * * *
56292563 AATAGATTAATTAATTCTGTTTTTTAAA-
124 AATTTATTAATTTAGTGTGTTTTTTAAAT
* *
56292591 AATATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTATTTTCTCCTCGGATTTTATTACTT
1 AA-ATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTATTTTTTCC-CGAATTTTATTACTT
*
56292656 TAAAAAAATATACTATTACTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT
64 TAAAAAAATATACTATTATTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT
56292721 ATTAATTTAGTGTG-TTTTTAAAT
129 ATTAATTTAGTGTGTTTTTTAAAT
* * ** * *
56292744 AAATTTAATAAAAAATCCTTATTTCGGTCATTTGCTCGTATTTTTTCCCGAATTTTATTACTGTC
1 AAATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTATTTTTTCCCGAATTTTATTACT-TT
* * * * *
56292809 AATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATG
65 AA-AAAAATATACTATTATT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
* * *
56292874 TATTAATTAATTCTGTTTTTT---T
128 TATTAATTTAGTGTGTTTTTTAAAT
** *
56292896 AAATTTAGTAAAAAACTTTTACTTCGGCCC-TTTGTTCGTATTTTTTCTCCGAATTTTATTACTT
1 AAATTTAGTAAAAAACCCTTATTTC-GCCCATTTGTTCGTATTTTTTC-CCGAATTTTATTACTT
* *
56292960 T-AAAAAATATACTATTTTCTAATTTTATTATTTTACATTA-TTTAGTACATTATGTCTGAAATT
64 TAAAAAAATATACTATTAT-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
*
56293023 TATTAATTTAGTGTGTTTTTGAAAT
128 TATTAATTTAGTGTGTTTTTTAAAT
* * *
56293048 AAATTTTA-AAAAATAACCCTTATTTCGCCCATTTATTCGTATTTTTTCCTGAATTTTATTACTT
1 AAA-TTTAGTAAAA-AACCCTTATTTCGCCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTT
* * *
56293112 TAAATAAAAGTATA-TA-TATTTATTTTGTTATTTTACATTTTTTT
64 TAAA-AAAA-TATACTATTATTAATTTTATTATTTTACATTATTTT
56293156 TGGATTTTAT
Statistics
Matches: 622, Mismatches: 72, Indels: 58
0.83 0.10 0.08
Matches are distributed among these distances:
149 37 0.06
150 34 0.05
151 15 0.02
152 135 0.22
153 120 0.19
154 59 0.09
155 36 0.06
156 48 0.08
157 54 0.09
158 34 0.05
159 50 0.08
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (152 bp):
AAATTTAGTAAAAAACCCTTATTTCGCCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTTA
AAAAAATATACTATTATTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAT
TAATTTAGTGTGTTTTTTAAAT
Found at i:56293504 original size:5 final size:5
Alignment explanation
Indices: 56293494--56293553 Score: 52
Period size: 5 Copynumber: 12.4 Consensus size: 5
56293484 CTTCTTGTTC
* * * * *
56293494 TCCTT TCCTT TTCTT T-CTT TCTTT TTCTT T-CTC TCCTT TCCTT TTCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
*
56293542 TCCTT TTCTT TC
1 TCCTT TCCTT TC
56293554 TTAATTTCTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 7 0.16
5 36 0.84
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (5 bp):
TCCTT
Found at i:56293507 original size:19 final size:18
Alignment explanation
Indices: 56293475--56293542 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 18
56293465 TATTTTTCCT
* *
56293475 TCCTTCCCTCTTCTTGTTC
1 TCCTTTCCTTTTCTT-TTC
56293494 TCCTTTCCTTTTC--TT-
1 TCCTTTCCTTTTCTTTTC
*
56293509 T-CTTTCTTTTTCTTTCTC
1 TCCTTTCCTTTTCTTT-TC
56293527 TCCTTTCCTTTTCTTT
1 TCCTTTCCTTTTCTTT
56293543 CCTTTTCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 3 0.08
17 1 0.03
18 1 0.03
19 24 0.60
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (18 bp):
TCCTTTCCTTTTCTTTTC
Found at i:56293519 original size:14 final size:14
Alignment explanation
Indices: 56293496--56293555 Score: 84
Period size: 14 Copynumber: 4.2 Consensus size: 14
56293486 TCTTGTTCTC
56293496 CTTTCCTTTTCTTT
1 CTTTCCTTTTCTTT
*
56293510 CTTTCTTTTTCTTT
1 CTTTCCTTTTCTTT
* *
56293524 CTCTCCTTTCCTTTT
1 CTTTCCTTTTC-TTT
56293539 CTTTCCTTTTCTTT
1 CTTTCCTTTTCTTT
56293553 CTT
1 CTT
56293556 AATTTCTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
CTTTCCTTTTCTTT
Found at i:56293520 original size:10 final size:10
Alignment explanation
Indices: 56293507--56293567 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
56293497 TTTCCTTTTC
56293507 TTTCTTTCTT
1 TTTCTTTCTT
56293517 TTTCTTTC-T
1 TTTCTTTCTT
* * *
56293526 CTCCTTTCCT
1 TTTCTTTCTT
*
56293536 TTTCTTTCCT
1 TTTCTTTCTT
56293546 TTTCTTTCTT
1 TTTCTTTCTT
56293556 AATTTCTTTCTT
1 --TTTCTTTCTT
56293568 CTCCTTTCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
9 7 0.16
10 26 0.60
12 10 0.23
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:56293554 original size:33 final size:33
Alignment explanation
Indices: 56293492--56293555 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
56293482 CTCTTCTTGT
*
56293492 TCTCCTTTCCTTTTCTTTCTTTCTTTTTCTTTC
1 TCTCCTTTCCTTTTCTTTCTTTCTCTTTCTTTC
56293525 TCTCCTTTCCTTTTCTTTCCTTT-TCTTTCTT
1 TCTCCTTTCCTTTTCTTT-CTTTCTCTTTCTT
56293556 AATTTCTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (33 bp):
TCTCCTTTCCTTTTCTTTCTTTCTCTTTCTTTC
Found at i:56293569 original size:29 final size:30
Alignment explanation
Indices: 56293503--56293569 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
56293493 CTCCTTTCCT
* **
56293503 TTTCTTTCTTTCTTTTTCTTTCTCTCCTTTC
1 TTTC-TTCTTTCCTTTTCTTTCTCTAATTTC
*
56293534 CTT-TTCTTTCCTTTTCTTTCT-TAATTTC
1 TTTCTTCTTTCCTTTTCTTTCTCTAATTTC
56293562 TTTCTTCT
1 TTTCTTCT
56293570 CCTTTCCTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 7 0.23
29 21 0.70
31 2 0.07
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTCTTCTTTCCTTTTCTTTCTCTAATTTC
Found at i:56293750 original size:17 final size:18
Alignment explanation
Indices: 56293728--56293763 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
56293718 AAAAAATATA
56293728 TTATTTTGGTATT-TTTT
1 TTATTTTGGTATTATTTT
*
56293745 TTATTTTTGTATTATTTT
1 TTATTTTGGTATTATTTT
56293763 T
1 T
56293764 GTAAAAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (18 bp):
TTATTTTGGTATTATTTT
Found at i:56294189 original size:50 final size:50
Alignment explanation
Indices: 56294133--56294240 Score: 180
Period size: 50 Copynumber: 2.1 Consensus size: 50
56294123 TTTATTAAAC
*
56294133 AAAAAAATTTAATATAAAAAATTGATTCGCGCCTGTTAGATAGGCGCGATT
1 AAAAAAA-TTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
* *
56294184 AAAAAAATTAATATAAAAAATTGATTTGCGCTTGTTAGATAGACGCGATT
1 AAAAAAATTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
56294234 AAAAAAA
1 AAAAAAA
56294241 AACATACCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (50 bp):
AAAAAAATTAATATAAAAAATTGATTCGCGCCTGTTAGATAGACGCGATT
Found at i:56295254 original size:17 final size:15
Alignment explanation
Indices: 56295197--56295271 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
56295187 TGGTAGTGGC
*
56295197 TTAGGGTTT-TGGGT
1 TTAGGGTTTAGGGGT
**
56295211 TTAAGGGTTTATAGG-
1 TT-AGGGTTTAGGGGT
56295226 TTAGGGGTTTAGGGGCT
1 TTA-GGGTTTAGGGG-T
* *
56295243 TATAGTGTTTAGTGGT
1 T-TAGGGTTTAGGGGT
56295259 TTAGGGTTTAGGG
1 TTAGGGTTTAGGG
56295272 TATAAGGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
14 3 0.06
15 28 0.58
16 5 0.10
17 10 0.21
18 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.40, T:0.43
Consensus pattern (15 bp):
TTAGGGTTTAGGGGT
Found at i:56295266 original size:7 final size:7
Alignment explanation
Indices: 56295197--56295282 Score: 57
Period size: 7 Copynumber: 11.4 Consensus size: 7
56295187 TGGTAGTGGC
56295197 TTAGGGT
1 TTAGGGT
*
56295204 TTTGGGT
1 TTAGGGT
56295211 TTAAGGGT
1 TT-AGGGT
*
56295219 TTATAGG-
1 TTA-GGGT
56295226 TTAGGGGT
1 TTA-GGGT
56295234 TTAGGGGCT
1 TTA-GGG-T
*
56295243 TATAGTGT
1 T-TAGGGT
56295251 TTAGTGGT
1 TTAG-GGT
56295259 TTAGGGT
1 TTAGGGT
56295266 TTAGGGT
1 TTAGGGT
* *
56295273 ATAAGGT
1 TTAGGGT
56295280 TTA
1 TTA
56295283 AGATTTATGA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
7 34 0.54
8 23 0.37
9 4 0.06
10 2 0.03
ACGTcount: A:0.19, C:0.01, G:0.37, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:56295580 original size:23 final size:21
Alignment explanation
Indices: 56295554--56295595 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
56295544 ATTTAAGGGT
56295554 TATGCTAAAAACATAGAAAAATA
1 TATG-TAAAAA-ATAGAAAAATA
*
56295577 TATGTTAAAAATAGAAAAA
1 TATGTAAAAAATAGAAAAA
56295596 AATAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
TATGTAAAAAATAGAAAAATA
Found at i:56295881 original size:115 final size:112
Alignment explanation
Indices: 56295720--56296176 Score: 429
Period size: 115 Copynumber: 4.0 Consensus size: 112
56295710 TTGTCTAATT
* * * * * * * *
56295720 TTTTAGTGGCATTTTTACTAAAATGCCGCAAAAAGAGTTATATTAGTGGCGTTTCTACGAAAAAC
1 TTTTAGTGGCGTTTTTACAAAAACGCCGC-AAAATA--TGTGTTAGTGGCGTTTTTACTAAAAAC
* ** * *
56295785 GCCGCAATTATGTTTTTTTGTCTTTGTTAAACGCTGTCGTTTTTATCTACG
63 GCCGCAATTATG-TTATAAGTCTTTGCTAAACGTTGTCGTTTTTATCTACG
* * **
56295836 TTTTCAGTGGCGTTTTTGCCAAAACGCCGCAAAATGATGTGTTAGTGGCG-TTTT-C-AGGTAAC
1 TTTT-AGTGGCGTTTTTACAAAAACGCCGCAAAAT-ATGTGTTAGTGGCGTTTTTACTA-AAAAC
* * *
56295898 GCCGCAATTATGTTATTAGCCTTTTG-TAAACGTTGTCGTTTTTATCTACA
63 GCCGCAATTATGTTATAAGTC-TTTGCTAAACGTTGTCGTTTTTATCTACG
* *
56295948 TTATTAGTGGCATTTTTACAAAAACGCCGCAAAAGGTTATGTGGTAGTGGCGTTTTTA-TAAAAA
1 TT-TTAGTGGCGTTTTTACAAAAACGCCGCAAAA---TATGTGTTAGTGGCGTTTTTACTAAAAA
* *
56296012 TGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACG
62 CGCCGCAATTATGTTATAAGTCTTTGCTAAACGTTGTCGTTTTTATCTACG
* * * * * *
56296063 TTTTTAGTGGCGTTTGTACTAAAACGCCGGTAAAGGATATGTTTTAGTGGCGTTTTTATTATAAA
1 -TTTTAGTGGCGTTTTTACAAAAACGCC-GCAAA--ATATGTGTTAGTGGCGTTTTTACTAAAAA
* * *
56296128 CACCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGTTTTCTATCT
62 CGCCGCAATTATGTTATAAGTCTTTGCTAAACGTTGTCGTTTT-TATCT
56296177 GGGATTTTTT
Statistics
Matches: 287, Mismatches: 36, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
112 57 0.20
113 22 0.08
114 20 0.07
115 100 0.35
116 60 0.21
117 27 0.09
118 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (112 bp):
TTTTAGTGGCGTTTTTACAAAAACGCCGCAAAATATGTGTTAGTGGCGTTTTTACTAAAAACGCC
GCAATTATGTTATAAGTCTTTGCTAAACGTTGTCGTTTTTATCTACG
Found at i:56296366 original size:40 final size:40
Alignment explanation
Indices: 56296317--56296397 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
56296307 TTCCCTATTT
*
56296317 CCCATTTCCTATCCCCCCAACTTCCCCGATTTCATTTCCC
1 CCCAATTCCTATCCCCCCAACTTCCCCGATTTCATTTCCC
* * *
56296357 CCCAATTCCTTTTCCCCCAATTTCCCCGATTTCATTTCCC
1 CCCAATTCCTATCCCCCCAACTTCCCCGATTTCATTTCCC
56296397 C
1 C
56296398 AAATCCCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.15, C:0.48, G:0.02, T:0.35
Consensus pattern (40 bp):
CCCAATTCCTATCCCCCCAACTTCCCCGATTTCATTTCCC
Found at i:56296381 original size:16 final size:16
Alignment explanation
Indices: 56296340--56296381 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
56296330 CCCCCAACTT
* *
56296340 CCCCGATTTCATTTCC
1 CCCCAATTTCCTTTCC
*
56296356 CCCCAA-TTCCTTTTC
1 CCCCAATTTCCTTTCC
56296371 CCCCAATTTCC
1 CCCCAATTTCC
56296382 CCGATTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.14, C:0.48, G:0.02, T:0.36
Consensus pattern (16 bp):
CCCCAATTTCCTTTCC
Found at i:56297918 original size:21 final size:21
Alignment explanation
Indices: 56297884--56297925 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56297874 TGGTTTGCTA
*
56297884 CATTCTTGCAAAAAACGCAAT
1 CATTCGTGCAAAAAACGCAAT
* *
56297905 CATTCGTGCCAAAAATGCAAT
1 CATTCGTGCAAAAAACGCAAT
56297926 AAATTTTGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (21 bp):
CATTCGTGCAAAAAACGCAAT
Found at i:56298254 original size:15 final size:15
Alignment explanation
Indices: 56298234--56298327 Score: 77
Period size: 15 Copynumber: 6.2 Consensus size: 15
56298224 AAGTTTTCTA
56298234 TATTAGTATTAAATT
1 TATTAGTATTAAATT
56298249 TATTAGTATTAAATT
1 TATTAGTATTAAATT
* *
56298264 TATAAGTTTTCTAAA-T
1 TATTAG-TAT-TAAATT
* *
56298280 AAGT-GT-TCTAAATT
1 TATTAGTAT-TAAATT
*
56298294 TATTAGTAATAAAATT
1 TATTAGT-ATTAAATT
*
56298310 TATTAGTATTAATTT
1 TATTAGTATTAAATT
56298325 TAT
1 TAT
56298328 AAGTTTTCTA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
13 6 0.10
14 4 0.06
15 32 0.51
16 16 0.25
17 5 0.08
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (15 bp):
TATTAGTATTAAATT
Found at i:56298263 original size:43 final size:46
Alignment explanation
Indices: 56298215--56298312 Score: 139
Period size: 43 Copynumber: 2.2 Consensus size: 46
56298205 ATAAGTTTTC
* *
56298215 TAAATTTATAAGTTTTCTATATTAGT-AT-TAAATTTATTAGT-AT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAAT
*
56298258 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAAT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAAT
*
56298304 AAAATTTAT
1 TAAATTTAT
56298313 TAGTATTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 24 0.50
44 1 0.02
45 13 0.27
46 10 0.21
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (46 bp):
TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAAT
Found at i:56298276 original size:60 final size:60
Alignment explanation
Indices: 56298157--56298340 Score: 177
Period size: 61 Copynumber: 3.1 Consensus size: 60
56298147 TATTACTATA
* * * *
56298157 AAATTTATAAGTTTTCTAAATAATTA-TAAA--TATT-GTTTTAATATCTATATAAGTTTTCT
1 AAATTTATAAGTTTTCTATATTAGTATTAAATTTATTAGTATTAA-AT-T-TATAAGTTTTCT
56298216 AAATTTATAAGTTTTCTATATTAGTATTAAATTTATTAGTATTAAATTTATAAGTTTTCT
1 AAATTTATAAGTTTTCTATATTAGTATTAAATTTATTAGTATTAAATTTATAAGTTTTCT
* * *
56298276 -AA---ATAAGTGTTCTAAATTTATTAGTAATAAAATTTATTAGTATTAATTTTATAAGTTTTCT
1 AAATTTATAAGTTTTCT--A--TATTAGT-ATTAAATTTATTAGTATTAAATTTATAAGTTTTCT
56298337 AAAT
1 AAAT
56298341 AATTATATAT
Statistics
Matches: 107, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
56 10 0.09
58 1 0.01
59 25 0.23
60 23 0.21
61 34 0.32
62 8 0.07
63 6 0.06
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (60 bp):
AAATTTATAAGTTTTCTATATTAGTATTAAATTTATTAGTATTAAATTTATAAGTTTTCT
Found at i:56298360 original size:12 final size:12
Alignment explanation
Indices: 56298343--56298368 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56298333 TTCTAAATAA
56298343 TTATATATAAGC
1 TTATATATAAGC
56298355 TTATATATAAGC
1 TTATATATAAGC
56298367 TT
1 TT
56298369 GCATAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTATATATAAGC
Found at i:56298395 original size:9 final size:9
Alignment explanation
Indices: 56298383--56299292 Score: 682
Period size: 9 Copynumber: 105.7 Consensus size: 9
56298373 AACTTACATA
56298383 ATAACTTAC
1 ATAACTTAC
56298392 ATAACTTAC
1 ATAACTTAC
56298401 ATAACTTAC
1 ATAACTTAC
56298410 ATAA--TAC
1 ATAACTTAC
**
56298417 ACCACTTAC
1 ATAACTTAC
56298426 ATAACTTAC
1 ATAACTTAC
*
56298435 ATAACTTAT
1 ATAACTTAC
56298444 AT-A--TA-
1 ATAACTTAC
*
56298449 ATAACATA-
1 ATAACTTAC
56298457 ATAACTTAC
1 ATAACTTAC
* *
56298466 CTAACTTAT
1 ATAACTTAC
56298475 AT-A--TA-
1 ATAACTTAC
*
56298480 ATAACATA-
1 ATAACTTAC
*
56298488 ATAAATTAC
1 ATAACTTAC
56298497 ATAA--TAC
1 ATAACTTAC
*
56298504 ATAA-TAAC
1 ATAACTTAC
56298512 ATAA--TAC
1 ATAACTTAC
*
56298519 ATAACTTATGT
1 ATAACTTA--C
*
56298530 ATAAGCTTGC
1 ATAA-CTTAC
56298540 ATAACTTAC
1 ATAACTTAC
56298549 ATAATAACTTAC
1 ---ATAACTTAC
56298561 ATAACTTAC
1 ATAACTTAC
*
56298570 ACAACTTAC
1 ATAACTTAC
56298579 ATAA--TAC
1 ATAACTTAC
**
56298586 ACCACTTAC
1 ATAACTTAC
56298595 ATAACTTAC
1 ATAACTTAC
*
56298604 ATAGCTTAC
1 ATAACTTAC
*
56298613 AT-TC-TAC
1 ATAACTTAC
*
56298620 ACAACTTAC
1 ATAACTTAC
*
56298629 ATAACATAC
1 ATAACTTAC
56298638 ATAA--TAC
1 ATAACTTAC
56298645 ATAACTTAC
1 ATAACTTAC
**
56298654 ATAAAATAC
1 ATAACTTAC
56298663 --AACTTAC
1 ATAACTTAC
*
56298670 ATATCTTAC
1 ATAACTTAC
56298679 ATAA--TAC
1 ATAACTTAC
56298686 ATAACTTAC
1 ATAACTTAC
56298695 ATAA--TAC
1 ATAACTTAC
*
56298702 A-ACATTTACAC
1 ATA-ACTT--AC
*
56298713 AAATAACTTAT
1 --ATAACTTAC
*
56298724 ATAACTTGC
1 ATAACTTAC
*
56298733 ATAACTTAT
1 ATAACTTAC
*
56298742 ATAA-TAAC
1 ATAACTTAC
*
56298750 ATAA-TAAC
1 ATAACTTAC
56298758 -TAACATAATAC
1 ATAAC-T--TAC
*
56298769 ATAACCTAC
1 ATAACTTAC
56298778 ATAACTTAC
1 ATAACTTAC
56298787 ATAACTTAC
1 ATAACTTAC
* *
56298796 ATAAATTAA
1 ATAACTTAC
56298805 ATAACTTAC
1 ATAACTTAC
56298814 ATAACTTAC
1 ATAACTTAC
56298823 ATAACTTAC
1 ATAACTTAC
* *
56298832 ATAAATTAA
1 ATAACTTAC
56298841 ATAACTTAC
1 ATAACTTAC
56298850 ATAACTTAC
1 ATAACTTAC
56298859 ATAACTTAC
1 ATAACTTAC
*
56298868 ATAGCTTAC
1 ATAACTTAC
*
56298877 ATAACTTAA
1 ATAACTTAC
56298886 ATAACTTAC
1 ATAACTTAC
56298895 ATAA--TAC
1 ATAACTTAC
56298902 ATAACCTT-C
1 ATAA-CTTAC
*
56298911 CTAACTTAC
1 ATAACTTAC
* *
56298920 ATTATTTAC
1 ATAACTTAC
56298929 ATAA--TAC
1 ATAACTTAC
** *
56298936 ATTGCCTAC
1 ATAACTTAC
56298945 ATAACTTAC
1 ATAACTTAC
56298954 ATAACTTAC
1 ATAACTTAC
56298963 ATAACTTAC
1 ATAACTTAC
56298972 ATAACTTAC
1 ATAACTTAC
* *
56298981 ATAAATTAA
1 ATAACTTAC
56298990 ATAACTTAC
1 ATAACTTAC
56298999 ATAACTTAC
1 ATAACTTAC
56299008 ATAACTTAC
1 ATAACTTAC
56299017 ATAACTTAC
1 ATAACTTAC
56299026 ATAACTTAC
1 ATAACTTAC
* *
56299035 ATAAATTAA
1 ATAACTTAC
56299044 ATAACTTAC
1 ATAACTTAC
56299053 ATAACTTAC
1 ATAACTTAC
56299062 ATAACTTAC
1 ATAACTTAC
* *
56299071 ATAAATTAA
1 ATAACTTAC
56299080 ATAACTTAC
1 ATAACTTAC
56299089 ATAACTTAC
1 ATAACTTAC
56299098 ATAA--TAC
1 ATAACTTAC
56299105 ATAACCTT-C
1 ATAA-CTTAC
*
56299114 TTAACTTAC
1 ATAACTTAC
*
56299123 ATTA--TAC
1 ATAACTTAC
*
56299130 ACAACTTAC
1 ATAACTTAC
56299139 ATAA-TTA-
1 ATAACTTAC
*
56299146 AT-ATTATAC
1 ATAACT-TAC
*
56299155 ACAACTTAC
1 ATAACTTAC
*
56299164 ATAA--TGC
1 ATAACTTAC
*
56299171 ATTACTTAC
1 ATAACTTAC
56299180 ATAACTTAC
1 ATAACTTAC
*
56299189 ATTACTTAC
1 ATAACTTAC
56299198 AGT-ACTT--
1 A-TAACTTAC
56299205 -T-ACTTAC
1 ATAACTTAC
56299212 AGT-ACTTAC
1 A-TAACTTAC
56299221 ATAA--TAC
1 ATAACTTAC
56299228 ATAA--TAC
1 ATAACTTAC
56299235 ATAACTTAC
1 ATAACTTAC
*
56299244 ATAACTTGC
1 ATAACTTAC
56299253 ATAA--TAC
1 ATAACTTAC
** *
56299260 ATAA-AAAT
1 ATAACTTAC
*
56299268 ATAACATATC
1 ATAACTTA-C
56299278 ATAACTTAC
1 ATAACTTAC
56299287 ATAACT
1 ATAACT
56299293 CATCTATGGT
Statistics
Matches: 729, Mismatches: 101, Indels: 142
0.75 0.10 0.15
Matches are distributed among these distances:
5 9 0.01
6 8 0.01
7 106 0.15
8 54 0.07
9 506 0.69
10 16 0.02
11 9 0.01
12 16 0.02
13 4 0.01
14 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:56298459 original size:8 final size:8
Alignment explanation
Indices: 56298446--56298522 Score: 53
Period size: 8 Copynumber: 10.5 Consensus size: 8
56298436 TAACTTATAT
56298446 ATAATAAC
1 ATAATAAC
56298454 ATAATAAC
1 ATAATAAC
* *
56298462 TTACCTAAC
1 ATA-ATAAC
* *
56298471 -TTAT-AT
1 ATAATAAC
56298477 ATAATAAC
1 ATAATAAC
56298485 ATAATAA-
1 ATAATAAC
56298492 AT--T-AC
1 ATAATAAC
56298497 ATAAT-AC
1 ATAATAAC
56298504 ATAATAAC
1 ATAATAAC
56298512 ATAAT-AC
1 ATAATAAC
56298519 ATAA
1 ATAA
56298523 CTTATGTATA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
4 1 0.02
5 3 0.05
6 1 0.02
7 20 0.36
8 26 0.47
9 4 0.07
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAATAAC
Found at i:56298464 original size:31 final size:32
Alignment explanation
Indices: 56298380--56299101 Score: 204
Period size: 34 Copynumber: 21.8 Consensus size: 32
56298370 CATAACTTAC
* *
56298380 ATAATAACTTACATAACTTACATAACTTACAT
1 ATAATAACATACATAACTTACATAACTTATAT
** *
56298412 AATACACCACTTACATAACTTACATAACTTATAT
1 -ATA-ATAACATACATAACTTACATAACTTATAT
*
56298446 ATAATAACATA-ATAACTTACCTAACTTATAT
1 ATAATAACATACATAACTTACATAACTTATAT
* *
56298477 ATAATAACATA-ATAAATTACATAA--TACAT
1 ATAATAACATACATAACTTACATAACTTATAT
* *
56298506 AATAACATA-ATACATAACTTATGTATAAGCTTGCATAACTT
1 -ATAATA-ACATACATAACTTA--CATAA-CTT--AT-A--T
* * *
56298547 ACATAATAACTTACATAACTTACACAACTTACAT
1 --ATAATAACATACATAACTTACATAACTTATAT
** * * *
56298581 AATACACCACTTACATAACTTACATAGCTTACATT
1 -ATA-ATAACATACATAACTTACATAACTTATA-T
* * * * *
56298616 CTACACAACTTACATAACATACATAA--TACAT
1 ATA-ATAACATACATAACTTACATAACTTATAT
* * *
56298647 AACTTACATAAAATAC--AACTTACATATCTTACAT
1 -A--TA-ATAACATACATAACTTACATAACTTATAT
* * * *
56298681 AATACATAACTTACATAA--TACA-ACATTTACAC
1 -ATA-ATAACATACATAACTTACATA-ACTTATAT
* * *
56298713 A-AATAACTTATATAACTTGCATAAC-T-TAT
1 ATAATAACATACATAACTTACATAACTTATAT
* *
56298742 ATAATAACATA-ATAACTAACATAA--TACAT
1 ATAATAACATACATAACTTACATAACTTATAT
*
56298771 AACCTACATAACTTACATAACTTACATAA---AT-T
1 -A--TA-ATAACATACATAACTTACATAACTTATAT
* *
56298803 A-AATAACTTACATAACTTACATAACTTACATAA
1 ATAATAACATACATAACTTACATAACTT--ATAT
*
56298836 ATTAAATAACTTACATAACTTACATAAC---T-T
1 A-T-AATAACATACATAACTTACATAACTTATAT
* * * * *
56298866 A-CATAGCTTACATAACTTAAATAACTTACAT
1 ATAATAACATACATAACTTACATAACTTATAT
* * * * * *
56298897 AATACATAACCTTCCTAACTTACATTATTTACAT
1 -ATA-ATAACATACATAACTTACATAACTTATAT
** * *
56298931 AATACATTGCCTACATAACTTACATAACTTACAT
1 -ATA-ATAACATACATAACTTACATAACTTATAT
* * * *
56298965 AACTTACATAACTTACATAAATTAAATAACTTACAT
1 -A--TA-ATAACATACATAACTTACATAACTTATAT
* *
56299001 AACTTACATAACTTACATAACTTACATAACTTACATAA
1 -A--TA-ATAACATACATAACTTACATAACTT--ATAT
* *
56299039 ATTAAATAACTTACATAACTTACATAACTTACATAA
1 A-T-AATAACATACATAACTTACATAACTT--ATAT
*
56299075 ATTAAATAACTTACATAACTTACATAA
1 A-T-AATAACATACATAACTTACATAA
56299102 TACATAACCT
Statistics
Matches: 551, Mismatches: 81, Indels: 111
0.74 0.11 0.15
Matches are distributed among these distances:
27 43 0.08
28 2 0.00
29 31 0.06
30 20 0.04
31 59 0.11
32 44 0.08
33 22 0.04
34 155 0.28
35 1 0.00
36 143 0.26
37 3 0.01
38 3 0.01
39 4 0.01
40 3 0.01
41 2 0.00
42 16 0.03
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (32 bp):
ATAATAACATACATAACTTACATAACTTATAT
Found at i:56298557 original size:12 final size:12
Alignment explanation
Indices: 56298540--56298564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56298530 ATAAGCTTGC
56298540 ATAACTTACATA
1 ATAACTTACATA
56298552 ATAACTTACATA
1 ATAACTTACATA
56298564 A
1 A
56298565 CTTACACAAC
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:56299180 original size:25 final size:25
Alignment explanation
Indices: 56299125--56299190 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
56299115 TAACTTACAT
* *
56299125 TATACACAACTTACATAATTAATAT
1 TATACACAACTTACATAATCAATAC
*
56299150 TATACACAACTTACATAATGCATTAC
1 TATACACAACTTACATAAT-CAATAC
*
56299176 T-TACATAACTTACAT
1 TATACACAACTTACAT
56299191 TACTTACAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 32 0.89
26 4 0.11
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.35
Consensus pattern (25 bp):
TATACACAACTTACATAATCAATAC
Found at i:56299207 original size:14 final size:14
Alignment explanation
Indices: 56299190--56299218 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56299180 ATAACTTACA
56299190 TTACTTACAGTACT
1 TTACTTACAGTACT
56299204 TTACTTACAGTACT
1 TTACTTACAGTACT
56299218 T
1 T
56299219 ACATAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (14 bp):
TTACTTACAGTACT
Found at i:56302221 original size:229 final size:219
Alignment explanation
Indices: 56301884--56302741 Score: 760
Period size: 230 Copynumber: 3.8 Consensus size: 219
56301874 CGTGAATGAT
* * * * * * * *
56301884 AAACGCCGC-AGAGATATTAAAGCAAAACGCAGGGTTCGGTGTTGATAAATTGTTGCTTTAGCGG
1 AAACGCCGCAAAAGATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATTTAGCGG
* * * ** * *
56301948 CGCTAATC-TAGAAACGCCGCCAAAGATCGGTATTAACGGCGCTTATA-TACTAAACGCCACAGA
66 CGC-AAACATAAAAACGCCGCTAAAGATCAATATTAACGGCGCTTA-ACGA-TAAACGCCGCAGA
* * * *
56302011 AAGTTAACCAAAATGCATCGTTTAGCCTCGAGGTATAGTGGCATTTAGGGGCGCTTTAGTTACAA
128 AAGTTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTTA--TACAA
56302076 CGCCACTAAAGATCTTCATTAGAGGTGATTTC
191 CGCCACTAAAGATCTTCATTA-AGG-G-TTTC
* *
56302108 ACCATAGCGCCGCAAAAGATGTTAAAACTAAACGCAGCGTTCGGTGTTCATCAATTGTGGCTTTA
1 A--A-A-CGCCGCAAAAGATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATTTA
* * *
56302173 GCGGCGCAAACATAAAAACGCCGCTAAAAATCAATATTAATGGCGCTTACCGGATAAACGCCGCA
62 GCGGCGCAAACATAAAAACGCCGCTAAAGATCAATATTAACGGCGCTTAAC-GATAAACGCCGCA
* * *
56302238 GAAAGCTAACCAAAACGCATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGCTTT-TAACC
126 GAAAGTTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTTAT-A-C
*
56302302 TAAACGCCACTAATGATCTTCATTAACGGCGTTTTC
189 --AACGCCACTAAAGATCTTCATTAA-GG-G-TTTC
* * ** * * * * * *
56302338 GTTAAAATGTCGC-CGAGTCTGTTAAAACTAAATGCAGCGTTTGGTTTTAATCAATTG-CGATTC
1 ----AAACGCCGCAAAAG-ATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATT-
* * * * *
56302401 CAGCGGCGCTAATA-AAAAATCGCCGCGAAAGATCAGA-ATTAACGGCGCTTAACGAATAAACAC
60 TAGCGGCGCAAACATAAAAA-CGCCGCTAAAGATCA-ATATTAACGGCGCTTAACG-ATAAACGC
** * *
56302464 CGCAGAAAGTTAACCAAAACGCATCGTTTGGCCTTGATTTATGGTGGCATTTAGCGGCGCTTTAA
122 CGCAGAAAGTTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTTAT
56302529 ACCGAACGCCACTAAAGATCTTCATT-A--G----
187 A-C-AACGCCACTAAAGATCTTCATTAAGGGTTTC
* * * * *
56302557 AAACGCCGTAAAATATGTTAAAACTAAACGCAGCGTTCGGTTTTGATCAATTCTGGATTTCGCGG
1 AAACGCCGCAAAAGATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATTTAGCGG
* * ** * *
56302622 CGCTAA-TTAAAAAACGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGTAAACGCCGCA-AC
66 CGCAAACAT-AAAAACGCCGCTAAAGATCAATATTAACGGCGCTTAACGA-TAAACGCCGCAGA-
*
56302685 AAGTTAACCAAAACGCATCGTTTGGCCGTGAGGTATAGTGGCATTTAGCGGCGCTTT
128 AAGTTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTT
56302742 GCCTAAAAAC
Statistics
Matches: 527, Mismatches: 77, Indels: 69
0.78 0.11 0.10
Matches are distributed among these distances:
214 2 0.00
215 141 0.27
216 10 0.02
224 2 0.00
226 2 0.00
227 2 0.00
228 11 0.02
229 176 0.33
230 177 0.34
231 2 0.00
232 1 0.00
234 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (219 bp):
AAACGCCGCAAAAGATGTTAAAACTAAACGCAGCGTTCGGTGTTGATCAATTGTGGATTTAGCGG
CGCAAACATAAAAACGCCGCTAAAGATCAATATTAACGGCGCTTAACGATAAACGCCGCAGAAAG
TTAACCAAAACGCATCGTTTGGCCTTGAGGTATAGTGGCATTTAGCGGCGCTTTATACAACGCCA
CTAAAGATCTTCATTAAGGGTTTC
Found at i:56302941 original size:188 final size:191
Alignment explanation
Indices: 56302571--56302951 Score: 481
Period size: 188 Copynumber: 2.0 Consensus size: 191
56302561 GCCGTAAAAT
* *
56302571 ATGTTAAAACTAAACGCAGCGTTCGGTTTTGATCAATTCTGGATTTCGCGGCGCTAATTAAAAAA
1 ATGTTAAAACTAAACGCAACGTTCGGTTTTGATCAATTCTGGATTTCGCGGCGCTAAATAAAAAA
*
56302636 CGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGTAAACGCCGCAACAAGTTAACCAAAACGC
66 CGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGAAAACGCCGCAACAAGTTAACCAAAACGC
* * *
56302701 ATCGTTTGGCCGTGAGGTATAGTGGCATTTAGCGGCGCTTTGCCTAAAAACGCCACTAGAG
131 ATCGTTTGGCCGAGAGGTATAGTGGCATTTAGCGGCGCTTTGACTAAAAACGCCACTAAAG
*
56302762 ATGTTAAAACTAAACGCAACGTTC-GTTGTTGATC-ATTGTGGCA-TTCGCGGCGCTAACAT-AA
1 ATGTTAAAACTAAACGCAACGTTCGGTT-TTGATCAATTCTGG-ATTTCGCGGCGCTAA-ATAAA
* * * * * ** * *
56302823 AATCGCCGCTAAATATCGGTATTAACGGCGCTTGAC-A-AAAACGGCGCAAGTATTTAACCAAAG
63 AAACGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGAAAACGCCGCAACAAGTTAACCAAAA
* * * *
56302886 CGCATCGTTTTGGCGGAGAGGTATA-TGGTCA-TTAGTGGCGCTTTTATTAAAAACGCCACTAAA
128 CGCATCG-TTTGGCCGAGAGGTATAGTGG-CATTTAGCGGCGCTTTGACTAAAAACGCCACTAAA
56302949 G
191 G
56302950 AT
1 AT
56302952 CATCATTAGC
Statistics
Matches: 165, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
188 60 0.36
189 18 0.11
190 56 0.34
191 31 0.19
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (191 bp):
ATGTTAAAACTAAACGCAACGTTCGGTTTTGATCAATTCTGGATTTCGCGGCGCTAAATAAAAAA
CGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGAAAACGCCGCAACAAGTTAACCAAAACGC
ATCGTTTGGCCGAGAGGTATAGTGGCATTTAGCGGCGCTTTGACTAAAAACGCCACTAAAG
Found at i:56303432 original size:15 final size:16
Alignment explanation
Indices: 56303398--56303434 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
56303388 AAAGATTTAG
56303398 GGTATATTTGGGGATT
1 GGTATATTTGGGGATT
*
56303414 -GTAT-TTTGGGGTTT
1 GGTATATTTGGGGATT
56303428 GGTATAT
1 GGTATAT
56303435 ATTGTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 9 0.50
15 8 0.44
16 1 0.06
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (16 bp):
GGTATATTTGGGGATT
Found at i:56303551 original size:15 final size:15
Alignment explanation
Indices: 56303527--56303560 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56303517 GGACTTGGAT
56303527 TTTAGGGTTTGGTGG
1 TTTAGGGTTTGGTGG
* *
56303542 TTTAGTGTTTTGTGG
1 TTTAGGGTTTGGTGG
56303557 TTTA
1 TTTA
56303561 TGAGTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.35, T:0.56
Consensus pattern (15 bp):
TTTAGGGTTTGGTGG
Found at i:56306397 original size:78 final size:77
Alignment explanation
Indices: 56306280--56306433 Score: 238
Period size: 78 Copynumber: 2.0 Consensus size: 77
56306270 TACATACATT
* * *
56306280 ACATAACTTATTAATATATTTATGGATAAATGATACATAACTTACATATCATTTTTAATACATAA
1 ACATAACTTATTAATATATATATGGATAAATGATACATAACTTACATAAC-TTATTAATACATAA
56306345 CTTATATAATACG
65 CTTATATAATACG
**
56306358 ACATAACTTATTAATATATATAT-TTTAAAATGATACATAACTTACATAACTTATTAATACATAA
1 ACATAACTTATTAATATATATATGGAT-AAATGATACATAACTTACATAACTTATTAATACATAA
56306422 CTTATATAATAC
65 CTTATATAATAC
56306434 ACAACTTACA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
77 26 0.37
78 44 0.63
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (77 bp):
ACATAACTTATTAATATATATATGGATAAATGATACATAACTTACATAACTTATTAATACATAAC
TTATATAATACG
Found at i:56306405 original size:9 final size:9
Alignment explanation
Indices: 56306391--56306446 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
56306381 TTTAAAATGA
56306391 TACATAACT
1 TACATAACT
56306400 TACATAACT
1 TACATAACT
*
56306409 TA-TTAA--
1 TACATAACT
56306415 TACATAACT
1 TACATAACT
*
56306424 TATATAA--
1 TACATAACT
*
56306431 TACACAACT
1 TACATAACT
56306440 TACATAA
1 TACATAA
56306447 TACGACATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
6 2 0.06
7 8 0.22
8 3 0.08
9 23 0.64
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:56306441 original size:93 final size:93
Alignment explanation
Indices: 56306322--56306549 Score: 352
Period size: 93 Copynumber: 2.5 Consensus size: 93
56306312 ATACATAACT
* * * **
56306322 TACATATCATTTTTAATACATAACTTATATAATACGACATAACTTATTAATATATATAT-TTTAA
1 TACATAACATTTATAATACATAACTTACATAATACGACATAACTTATTAATATATATATGGAT-A
56306386 AATGATACATAACTTACATAACTTATTAA
65 AATGATACATAACTTACATAACTTATTAA
* *
56306415 TACATAAC-TTATATAATACACAACTTACATAATACGACATAACTTATTAATATATTTATGGATA
1 TACATAACATT-TATAATACATAACTTACATAATACGACATAACTTATTAATATATATATGGATA
56306479 AATGATACATAACTTACATAACTTATTAA
65 AATGATACATAACTTACATAACTTATTAA
*
56306508 TACATAACATTTTTAATACATAACTTACATAATACGACATAA
1 TACATAACATTTATAATACATAACTTACATAATACGACATAA
56306550 TAACATAAAT
Statistics
Matches: 123, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
92 2 0.02
93 118 0.96
94 3 0.02
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (93 bp):
TACATAACATTTATAATACATAACTTACATAATACGACATAACTTATTAATATATATATGGATAA
ATGATACATAACTTACATAACTTATTAA
Found at i:56306455 original size:50 final size:48
Alignment explanation
Indices: 56306335--56306549 Score: 145
Period size: 43 Copynumber: 4.6 Consensus size: 48
56306325 ATATCATTTT
* *
56306335 TAATACATAACTTATATAATACGACATAACTTATTAATATATATA-TTT-
1 TAATACA-AACTTACATAATACGACATAACTTATTAATACATA-ACTTTA
* *
56306383 TAA-A-ATGA--TACAT-A-ACTTACATAACTTATTAATACATAACTTATA
1 TAATACA-AACTTACATAATAC-GACATAACTTATTAATACATAACTT-TA
56306428 TAATACACAACTTACATAATACGACATAACTTATTAAT--AT-A-TTTA
1 TAATACA-AACTTACATAATACGACATAACTTATTAATACATAACTTTA
* *** * *
56306473 TGGATA-AATGATACAT-A-ACTTACATAACTTATTAATACATAACATTTT
1 T-AATACAAACTTACATAATAC-GACATAACTTATTAATACATAAC-TTTA
56306521 TAATACATAACTTACATAATACGACATAA
1 TAATACA-AACTTACATAATACGACATAA
56306550 TAACATAAAT
Statistics
Matches: 128, Mismatches: 18, Indels: 40
0.69 0.10 0.22
Matches are distributed among these distances:
42 5 0.04
43 38 0.30
44 11 0.09
45 9 0.07
46 10 0.08
47 7 0.05
48 10 0.08
49 11 0.09
50 23 0.18
51 4 0.03
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.36
Consensus pattern (48 bp):
TAATACAAACTTACATAATACGACATAACTTATTAATACATAACTTTA
Found at i:56306542 original size:16 final size:15
Alignment explanation
Indices: 56306400--56306534 Score: 75
Period size: 16 Copynumber: 8.7 Consensus size: 15
56306390 ATACATAACT
56306400 TACATAACTTATTAA
1 TACATAACTTATTAA
56306415 TACATAACTTATATAA
1 TACATAACTTAT-TAA
* *
56306431 TACACAACTTACATAA
1 TACATAACTTA-TTAA
56306447 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
* **
56306465 T--AT-ATTTATGGA
1 TACATAACTTATTAA
*
56306477 TAAATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
56306491 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
*
56306508 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
56306524 TACATAACTTA
1 TACATAACTTA
56306535 CATAATACGA
Statistics
Matches: 91, Mismatches: 13, Indels: 32
0.67 0.10 0.24
Matches are distributed among these distances:
12 7 0.08
13 2 0.02
14 5 0.05
15 24 0.26
16 36 0.40
17 4 0.04
18 4 0.04
19 9 0.10
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (15 bp):
TACATAACTTATTAA
Found at i:56306763 original size:9 final size:9
Alignment explanation
Indices: 56306751--56306815 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
56306741 AATAAATTAA
56306751 ATAACTTAC
1 ATAACTTAC
56306760 ATAACTTAC
1 ATAACTTAC
* *
56306769 ATAAATTAA
1 ATAACTTAC
56306778 ATAACTTAC
1 ATAACTTAC
* *
56306787 ATAAATTAA
1 ATAACTTAC
*
56306796 ATAAATTAC
1 ATAACTTAC
56306805 ATAACTTAC
1 ATAACTTAC
56306814 AT
1 AT
56306816 TACATAATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:56306772 original size:18 final size:18
Alignment explanation
Indices: 56306741--56306808 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
56306731 TTTGCATTTC
* * *
56306741 AATAAATTAAATAACTTA
1 AATAACTTACATAAATTA
*
56306759 CATAACTTACATAAATTA
1 AATAACTTACATAAATTA
56306777 AATAACTTACATAAATTA
1 AATAACTTACATAAATTA
*
56306795 AATAAATTACATAA
1 AATAACTTACATAA
56306809 CTTACATTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAACTTACATAAATTA
Found at i:56306780 original size:27 final size:27
Alignment explanation
Indices: 56306741--56306815 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
56306731 TTTGCATTTC
*
56306741 AATAAATTAAATAACTTACATAACTTA
1 AATAAATTAAATAACTTACATAAATTA
*
56306768 CATAAATTAAATAACTTACATAAATTA
1 AATAAATTAAATAACTTACATAAATTA
*
56306795 AATAAATTACATAACTTACAT
1 AATAAATTAAATAACTTACAT
56306816 TACATAATAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (27 bp):
AATAAATTAAATAACTTACATAAATTA
Found at i:56312364 original size:21 final size:21
Alignment explanation
Indices: 56312334--56312380 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
56312324 TTACAACTTA
* *
56312334 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAGCGAGAG
*
56312355 AAGCAAAGGCTGCAGCGAGAG
1 AAGCAAAGGCGGCAGCGAGAG
56312376 AAGCA
1 AAGCA
56312381 GAAGTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.19, G:0.43, T:0.02
Consensus pattern (21 bp):
AAGCAAAGGCGGCAGCGAGAG
Found at i:56312817 original size:43 final size:41
Alignment explanation
Indices: 56312769--56312868 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 41
56312759 GTTTTTTATA
56312769 AAAGCGCCGCTAAAAGTCATGTTC-TAT-AGCGGCGTTTGTGAAG
1 AAAGCGCCGCTAAAA--CAT-TTCTTATCA-CGGCGTTTGTGAAG
* *
56312812 TAAGCGCCGCTATAGAACATTTCTTTTCACGGCGTTTGTGAAG
1 AAAGCGCCGCTA-A-AACATTTCTTATCACGGCGTTTGTGAAG
56312855 AAAGCGCCGCTAAA
1 AAAGCGCCGCTAAA
56312869 GAACATGATC
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
41 1 0.02
42 4 0.08
43 41 0.82
44 2 0.04
45 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (41 bp):
AAAGCGCCGCTAAAACATTTCTTATCACGGCGTTTGTGAAG
Found at i:56312910 original size:42 final size:41
Alignment explanation
Indices: 56312856--56313022 Score: 226
Period size: 42 Copynumber: 4.0 Consensus size: 41
56312846 TTTGTGAAGA
* * *
56312856 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATCTTTTTTT
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCGT-TTTTTTT
* * *
56312898 AAGCGCCTCTAAAGAACATGATCTTTAGCTGCGTCTTTTTTT
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCGT-TTTTTTT
* * *
56312940 AAGCGCCACTAAAGAATATGACCTTTGGCGGCGTTTTTTTCG
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTT-T
56312982 AAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTTT
1 AAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTTT
56313023 CTGTAAACGT
Statistics
Matches: 112, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
41 6 0.05
42 106 0.95
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (41 bp):
AAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTTT
Found at i:56318217 original size:63 final size:64
Alignment explanation
Indices: 56318144--56318274 Score: 246
Period size: 64 Copynumber: 2.1 Consensus size: 64
56318134 TGACGTGACA
*
56318144 CGTTAAATCATCATTTCAAAC-AAAATTTTAGGTTAAATTATATAGTTGGTCCCCATATTTTTT
1 CGTTAAATCATCATTTCAAACAAAAATTTTAGGTTAAATTATACAGTTGGTCCCCATATTTTTT
56318207 CGTTAAATCATCATTTCAAACAAAAATTTTAGGTTAAATTATACAGTTGGTCCCCATATTTTTT
1 CGTTAAATCATCATTTCAAACAAAAATTTTAGGTTAAATTATACAGTTGGTCCCCATATTTTTT
56318271 CGTT
1 CGTT
56318275 TTAAACAATT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 21 0.32
64 45 0.68
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (64 bp):
CGTTAAATCATCATTTCAAACAAAAATTTTAGGTTAAATTATACAGTTGGTCCCCATATTTTTT
Found at i:56318342 original size:26 final size:25
Alignment explanation
Indices: 56318294--56318342 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
56318284 TTATTTTTTC
* *
56318294 CTTTTTTTCTTTTATGTTCATTTAA
1 CTTTTTTTATTTTATCTTCATTTAA
*
56318319 CTTTCTTTTATTTTATCTTTATTT
1 CTTT-TTTTATTTTATCTTCATTT
56318343 TCTATTCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (25 bp):
CTTTTTTTATTTTATCTTCATTTAA
Found at i:56318344 original size:21 final size:21
Alignment explanation
Indices: 56318283--56318345 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
56318273 TTTTAAACAA
*
56318283 TTTATTTTTTCCTTT-TTTTCT
1 TTTATTTTAT-CTTTATTTTCT
* * *
56318304 TTTATGTTCAT-TTAACTTTCT
1 TTTAT-TTTATCTTTATTTTCT
56318325 TTTATTTTATCTTTATTTTCT
1 TTTATTTTATCTTTATTTTCT
56318346 ATTCTCTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
20 6 0.19
21 23 0.72
22 3 0.09
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTATTTTATCTTTATTTTCT
Found at i:56324762 original size:5 final size:6
Alignment explanation
Indices: 56324745--56324769 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
56324735 CAATATTCCC
56324745 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
56324770 GAAATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:56328646 original size:41 final size:41
Alignment explanation
Indices: 56328589--56328669 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
56328579 AGAGAAGTAG
56328589 ACAAAAAAGCAGAGTTCTTTCACTGTAAATTCTCTGGTATA
1 ACAAAAAAGCAGAGTTCTTTCACTGTAAATTCTCTGGTATA
56328630 ACAAAAAAGCAGAGTTCTTTCACTGTAAATTCTCTGGTAT
1 ACAAAAAAGCAGAGTTCTTTCACTGTAAATTCTCTGGTAT
56328670 CATTATCAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (41 bp):
ACAAAAAAGCAGAGTTCTTTCACTGTAAATTCTCTGGTATA
Found at i:56330998 original size:7 final size:7
Alignment explanation
Indices: 56330986--56331011 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56330976 TAGTCGATTC
56330986 GTATTTA
1 GTATTTA
56330993 GTATTTA
1 GTATTTA
56331000 GTATTTA
1 GTATTTA
56331007 GTATT
1 GTATT
56331012 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:56331811 original size:7 final size:7
Alignment explanation
Indices: 56331775--56331807 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
56331765 TTTTCTTTAA
56331775 AAACCTT
1 AAACCTT
56331782 AAACCTT
1 AAACCTT
56331789 AAACCTT
1 AAACCTT
*
56331796 AAACCCT
1 AAACCTT
56331803 AAACC
1 AAACC
56331808 CTAATCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCTT
Found at i:56331861 original size:110 final size:108
Alignment explanation
Indices: 56331680--56331902 Score: 315
Period size: 110 Copynumber: 2.0 Consensus size: 108
56331670 TTTTCCTTAA
* *
56331680 AAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACTCAAGTAACCC
1 AAACCATAAACACTAAACCCTAATCTAATTTTTAAAAATTTATAATTAATTTACTCAAATAACCC
* *
56331745 TAAACCCTAACTTATTTGATTTTTCTTTAAAAACCTTAAAC-CTT
66 TAAACCCTAACTTATTTGATTTTTCCTT-AAAACCATAAACAC-T
* *
56331789 AAACCTTAAACCCTAAACCCTAATCT-ATTTTTAAAAAAATTTATAATTAATTTACTCAAATAAC
1 AAACCATAAACACTAAACCCTAATCTAATTTTT--AAAAATTTATAATTAATTTACTCAAATAAC
** *
56331853 TTTAAACCCTAATTTATTTGATTTTTCCTTAAAACCATAAACACT
64 CCTAAACCCTAACTTATTTGATTTTTCCTTAAAACCATAAACACT
56331898 AAACC
1 AAACC
56331903 CTAATCTAAT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
108 6 0.06
109 41 0.40
110 55 0.54
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (108 bp):
AAACCATAAACACTAAACCCTAATCTAATTTTTAAAAATTTATAATTAATTTACTCAAATAACCC
TAAACCCTAACTTATTTGATTTTTCCTTAAAACCATAAACACT
Found at i:56331952 original size:93 final size:93
Alignment explanation
Indices: 56331785--56331986 Score: 266
Period size: 93 Copynumber: 2.2 Consensus size: 93
56331775 AAACCTTAAA
* * *
56331785 CCTT-AAACCTTAAACCCTAAACCCTAATCTATTTTTAAAAAAATTTATAATTAATTTACTCAAA
1 CCTTAAAACCATAAACACTAAACCCTAATCTATTTTT--AAAAATTTATAATTAATTTAATCAAA
* *
56331849 TAACTTTAAACCCTAATTTATTTGATTTTT
64 TAACCTTAAACCCTAATTTATTTAATTTTT
*
56331879 CCTTAAAACCATAAACACTAAACCCTAATCTAATTTTT-AAAATTTATAATTAATTTAATTAAGA
1 CCTTAAAACCATAAACACTAAACCCTAATCT-ATTTTTAAAAATTTATAATTAATTTAATCAA-A
*
56331943 -AACCTTAAACCCTTATTTATTTAATTTTT
64 TAACCTTAAACCCTAATTTATTTAATTTTT
* *
56331972 CTTTAAAACCCTAAA
1 CCTTAAAACCATAAA
56331987 ATTTAAAAAC
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
93 61 0.64
94 5 0.05
95 24 0.25
96 6 0.06
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.40
Consensus pattern (93 bp):
CCTTAAAACCATAAACACTAAACCCTAATCTATTTTTAAAAATTTATAATTAATTTAATCAAATA
ACCTTAAACCCTAATTTATTTAATTTTT
Found at i:56331977 original size:203 final size:208
Alignment explanation
Indices: 56331581--56331979 Score: 601
Period size: 203 Copynumber: 1.9 Consensus size: 208
56331571 TTTTCTTTAA
* * ** *
56331581 AAACCCTAAACACTAAATCTTAATCTAATTTTTTTTAAAAATTTATAATTAATTTACTCAAGTAA
1 AAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAAAATTTATAATTAATTTACTCAAATAA
* *
56331646 CCCTAAGCTCTAATTTATTTGACTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTT
66 CCCTAAACCCTAATTTATTTGACTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTT
* * *
56331711 TTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAACTTATTTGATTTTTCTTTAAA
131 TTTAAAATTTATAATTAATTTAATCAAGAAACCCTAAACCCTAACTTATTTAATTTTTCTTTAAA
56331776 AACCTTAAACCTT
196 AACCTTAAACCTT
* *
56331789 AAACCTTAAACCCTAAACCCTAATCT-A-TTTTTAAAAAAATTTATAATTAATTTACTCAAATAA
1 AAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAAAATTTATAATTAATTTACTCAAATAA
**
56331852 CTTTAAACCCTAATTTATTTGA-TTTTTCCTT-AAAACCATAAACACTAAACCCTAATCTAA-TT
66 CCCTAAACCCTAATTTATTTGACTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTT
* * * *
56331914 TTTAAAATTTATAATTAATTTAATTAAGAAACCTTAAACCCTTATTTATTTAATTTTTCTTTAAA
131 TTTAAAATTTATAATTAATTTAATCAAGAAACCCTAAACCCTAACTTATTTAATTTTTCTTTAAA
56331979 A
196 A
56331980 CCCTAAAATT
Statistics
Matches: 173, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
203 61 0.35
204 29 0.17
205 9 0.05
206 51 0.29
207 1 0.01
208 22 0.13
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (208 bp):
AAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAAAATTTATAATTAATTTACTCAAATAA
CCCTAAACCCTAATTTATTTGACTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTT
TTTAAAATTTATAATTAATTTAATCAAGAAACCCTAAACCCTAACTTATTTAATTTTTCTTTAAA
AACCTTAAACCTT
Found at i:56332003 original size:16 final size:15
Alignment explanation
Indices: 56331973--56332002 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56331963 TTAATTTTTC
*
56331973 TTTAAAACCCTAAAA
1 TTTAAAAACCTAAAA
56331988 TTTAAAAACCTAAAA
1 TTTAAAAACCTAAAA
56332003 ACCTAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TTTAAAAACCTAAAA
Found at i:56332258 original size:8 final size:8
Alignment explanation
Indices: 56332238--56332290 Score: 52
Period size: 8 Copynumber: 6.1 Consensus size: 8
56332228 TTCCACGCTA
56332238 AATTTTTT
1 AATTTTTT
56332246 GAATTTTTT
1 -AATTTTTT
56332255 AATTTTTT
1 AATTTTTT
56332263 AATGTGTTTAT
1 AAT-T-TTT-T
*
56332274 AATTTTTA
1 AATTTTTT
*
56332282 AATTATTT
1 AATTTTTT
56332290 A
1 A
56332291 GTTGCGTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 18 0.47
9 12 0.32
10 4 0.11
11 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (8 bp):
AATTTTTT
Found at i:56332260 original size:17 final size:19
Alignment explanation
Indices: 56332238--56332280 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
56332228 TTCCACGCTA
56332238 AATTTTTTGAAT-T-TTT-T
1 AATTTTTT-AATGTGTTTAT
56332255 AATTTTTTAATGTGTTTAT
1 AATTTTTTAATGTGTTTAT
56332274 AATTTTT
1 AATTTTT
56332281 AAATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 9 0.39
18 3 0.13
19 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
AATTTTTTAATGTGTTTAT
Found at i:56335651 original size:293 final size:293
Alignment explanation
Indices: 56335080--56335641 Score: 714
Period size: 293 Copynumber: 1.9 Consensus size: 293
56335070 TATATACTAA
* * * * * **
56335080 TATTTAAGCTCTTGATTGAGTTGGTATCTCCTTCAACCGAGTCACCAACTCGCTTAAAAAATTAT
1 TATTTAAGCTCCTGAATGAGTTGGTATCACCCTCAACCAAGTCACCAACTCAATTAAAAAATTAT
* *
56335145 AAAAATGCCCTTTCGTAATTAAAATAAATTATATTATTCGAGGTTACTTTAATCTTTTTATATTA
66 AAAAATACCCTTTCGTAATTAAAATAAATTATATTATTCAAGGTTACTTTAATCTTTTTATATTA
* *
56335210 AAAAATAACAAAAATACACATGTGATAAGATTTGAACTCACACCAATTAGATTAGTAAAACCCTT
131 AAAAATAACAAAAATACACATGTGATAAGATTTGAACTCAAACCAATTACATTAGTAAAACCCTT
*
56335275 AATTTACCACTTAACTAAAGTTTGATTTTAATATTTTTATACATTTTAATTTTATTATGTACACT
196 AATTTACCACTTAACTAAAGTTTGATTTTAATATTTTTATACATTTTAATTTTATTATGCACACT
56335340 TTATTACCTCTATCAATTGCATATCTATATTAT
261 TTATTACCTCTATCAATTGCATATCTATATTAT
* * *
56335373 TATTTAAGCTCCT-AATGAGTTGGTGTCACCCTCAACTAAGTCACCAACTCAATTAGGAAAATTA
1 TATTTAAGCTCCTGAATGAGTTGGTATCACCCTCAACCAAGTCACCAACTCAATTA-AAAAATTA
* * *
56335437 TAAAAATATCC-TTCTGTAATTAAAATAAGA-TATATTATTCAAGAG-TACTTTAGTTTTTTTAT
65 TAAAAATACCCTTTC-GTAATTAAAATAA-ATTATATTATTCAAG-GTTACTTTAATCTTTTTAT
** *
56335499 -TTAAAAAA-AGTAATAAA-A-A-ATGTGTATGGTAGAATTTGAAC-CGAAACCAATTACATTAG
127 ATTAAAAAATAACAA-AAATACACATGTG-AT--AAG-ATTTGAACTC-AAACCAATTACATTAG
* ** * *
56335558 TAACACTTTTAATTTTCCACTTAGA-TAAAGTTTTATTTTAATATTTTTATACATTTTAATTTTA
186 TAAAACCCTTAATTTACCACTTA-ACTAAAGTTTGATTTTAATATTTTTATACATTTTAATTTTA
56335622 TTATGCACACTTTATTACCT
250 TTATGCACACTTTATTACCT
56335642 TCGTCAATTG
Statistics
Matches: 232, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
289 5 0.02
290 3 0.01
291 4 0.02
292 51 0.22
293 166 0.72
294 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (293 bp):
TATTTAAGCTCCTGAATGAGTTGGTATCACCCTCAACCAAGTCACCAACTCAATTAAAAAATTAT
AAAAATACCCTTTCGTAATTAAAATAAATTATATTATTCAAGGTTACTTTAATCTTTTTATATTA
AAAAATAACAAAAATACACATGTGATAAGATTTGAACTCAAACCAATTACATTAGTAAAACCCTT
AATTTACCACTTAACTAAAGTTTGATTTTAATATTTTTATACATTTTAATTTTATTATGCACACT
TTATTACCTCTATCAATTGCATATCTATATTAT
Found at i:56354354 original size:17 final size:18
Alignment explanation
Indices: 56354329--56354362 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56354319 TTTAATTTCT
56354329 ATTTCTTATTTATTTATA
1 ATTTCTTATTTATTTATA
*
56354347 ATTT-TTATTTTTTTAT
1 ATTTCTTATTTATTTAT
56354363 TCTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTCTTATTTATTTATA
Found at i:56356653 original size:34 final size:34
Alignment explanation
Indices: 56356565--56356660 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 34
56356555 AATGTGTGCA
* * * **
56356565 AGCCTTATGTTGTGTGCGAGCCCATAAGACATGCG
1 AGCCCTATGTTGTGTG-AACCCCATGTGACATGCG
* * * * *
56356600 AACCCTATGCTATGCGAACCCCATGTGACATGTG
1 AGCCCTATGTTGTGTGAACCCCATGTGACATGCG
*
56356634 AGCCCTATGTTGTGTGAACCCTATGTG
1 AGCCCTATGTTGTGTGAACCCCATGTG
56356661 TATTGTGAGC
Statistics
Matches: 46, Mismatches: 15, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
34 35 0.76
35 11 0.24
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (34 bp):
AGCCCTATGTTGTGTGAACCCCATGTGACATGCG
Found at i:56358521 original size:63 final size:63
Alignment explanation
Indices: 56358451--56358627 Score: 336
Period size: 63 Copynumber: 2.8 Consensus size: 63
56358441 ATAAAGCAGG
56358451 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAAAAAACGCTTCCTTGGTCCCCAGA
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAAAAAACGCTTCCTTGGTCCCCAGA
* *
56358514 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAAAAAACGCTTTCTTGGTCCCCAGG
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAAAAAACGCTTCCTTGGTCCCCAGA
56358577 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAAAAAACGCTTCC
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAAAAAACGCTTCC
56358628 CCAAGGAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 111 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (63 bp):
AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAAAAAACGCTTCCTTGGTCCCCAGA
Found at i:56358622 original size:40 final size:40
Alignment explanation
Indices: 56358577--56358684 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
56358567 GGTCCCCAGG
56358577 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
** *
56358617 AAAACGCTTCCCCAAGGAAGCGCTTTGTCCACGTGGACAG
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
56358657 AAAACGCTTCCTTGAA-GAAGCGCTTTGT
1 AAAACGCTTCCTT-AAGGAAGCGCTTTGT
56358685 GTCCACGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 60 0.97
41 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (40 bp):
AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
Found at i:56358698 original size:19 final size:19
Alignment explanation
Indices: 56358674--56358711 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
56358664 TTCCTTGAAG
* *
56358674 AAGCGCTTTGTGTCCACGT
1 AAGCGCCTTCTGTCCACGT
56358693 AAGCGCCTTCTGTCCACGT
1 AAGCGCCTTCTGTCCACGT
56358712 GGAAAAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.29
Consensus pattern (19 bp):
AAGCGCCTTCTGTCCACGT
Found at i:56359026 original size:97 final size:97
Alignment explanation
Indices: 56358836--56359123 Score: 456
Period size: 96 Copynumber: 3.0 Consensus size: 97
56358826 AAATAATAGT
* * * * *
56358836 TTAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTT-AAAAAATTAGATTAGAGTTTAGA
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
* *
56358900 GTTTATGGTTTTTAAGGAAAAAATTAAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
*
56358932 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATCAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
56358997 GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
* *
56359029 TTAGGGTTTA-AGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTGGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
*
56359093 ATTTAGGGTTTTTAAGG-AAAAATCAAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
56359124 ACTAGTTGTT
Statistics
Matches: 179, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
95 14 0.08
96 105 0.59
97 60 0.34
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (97 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
Found at i:56359691 original size:27 final size:27
Alignment explanation
Indices: 56359631--56359692 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
56359621 TTATTTAATG
*
56359631 GAATTTAACATAAATTTTAATATTTTA
1 GAATTTAACATAAATTTTAATATTGTA
* * *
56359658 GTATTTAATATATATTTTAA-ATTGTA
1 GAATTTAACATAAATTTTAATATTGTA
56359684 GAAGTTTAA
1 GAA-TTTAA
56359693 ATTCAAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (27 bp):
GAATTTAACATAAATTTTAATATTGTA
Found at i:56359779 original size:11 final size:11
Alignment explanation
Indices: 56359763--56359813 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
56359753 GTTAGACTTA
56359763 ATAAATAATTT
1 ATAAATAATTT
56359774 ATAAATAATTT
1 ATAAATAATTT
56359785 ATAAAT--TTT
1 ATAAATAATTT
56359794 -T-AA-AATTT
1 ATAAATAATTT
*
56359802 ATAATTAATTT
1 ATAAATAATTT
56359813 A
1 A
56359814 ATTAAGAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
7 2 0.06
8 4 0.12
9 4 0.12
10 1 0.03
11 23 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
ATAAATAATTT
Found at i:56361826 original size:34 final size:34
Alignment explanation
Indices: 56361783--56361895 Score: 151
Period size: 34 Copynumber: 3.4 Consensus size: 34
56361773 CGAATCTCAT
* *
56361783 ATCAGAATGTCACATTACCAGAAACATATATCAA
1 ATCAGAATGTCATATTTCCAGAAACATATATCAA
*
56361817 ATCAGAATGTCATATTTCCAG--A-ATATACCAA
1 ATCAGAATGTCATATTTCCAGAAACATATATCAA
* * *
56361848 ATCAGAATGTCATATTTTCATAAACATATATCAT
1 ATCAGAATGTCATATTTCCAGAAACATATATCAA
56361882 ATCAGAATGTCATA
1 ATCAGAATGTCATA
56361896 CCATATCAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
31 27 0.39
32 1 0.01
33 1 0.01
34 40 0.58
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (34 bp):
ATCAGAATGTCATATTTCCAGAAACATATATCAA
Found at i:56363755 original size:22 final size:22
Alignment explanation
Indices: 56363714--56363755 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
56363704 AGAAACACGA
* *
56363714 TGATATTCGGGCTTTATGCCGG
1 TGATATTCAGGCTTCATGCCGG
*
56363736 TGATATTCAGGCTTCGTGCC
1 TGATATTCAGGCTTCATGCC
56363756 TAGCAAGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.36
Consensus pattern (22 bp):
TGATATTCAGGCTTCATGCCGG
Found at i:56363775 original size:38 final size:41
Alignment explanation
Indices: 56363724--56363807 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
56363714 TGATATTCGG
* *
56363724 GCTTTATGCCGGTG-A-TAT-TCAGGCTTCGTGCCTAGCAA
1 GCTTTATGCCGGTGTATTATATCAAGCTCCGTGCCTAGCAA
* *
56363762 GCTTTATGTCGGTGTATTATATCAAGCTCCGTGCCTAGCAG
1 GCTTTATGCCGGTGTATTATATCAAGCTCCGTGCCTAGCAA
56363803 GCTTT
1 GCTTT
56363808 GTTCCGATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 13 0.33
39 1 0.03
40 3 0.08
41 22 0.56
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (41 bp):
GCTTTATGCCGGTGTATTATATCAAGCTCCGTGCCTAGCAA
Found at i:56365592 original size:22 final size:22
Alignment explanation
Indices: 56365558--56365602 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56365548 AAAAAATGGG
56365558 CTCACATGGCCTAC-CTGACCTA
1 CTCACATGGCCTACAC-GACCTA
* *
56365580 CTCATATGTCCTACACGACCTA
1 CTCACATGGCCTACACGACCTA
56365602 C
1 C
56365603 CAAAATTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.40, G:0.11, T:0.24
Consensus pattern (22 bp):
CTCACATGGCCTACACGACCTA
Found at i:56367346 original size:19 final size:19
Alignment explanation
Indices: 56367317--56367371 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
56367307 CCAGGTTAAC
*
56367317 AAATAATTTAAAAATTATAA
1 AAAT-ATTTAAAAATTACAA
56367337 AAATATTTAAAAA-TACAA
1 AAATATTTAAAAATTACAA
56367355 AAAGT-TTGTAAAAATTA
1 AAA-TATT-TAAAAATTA
56367372 ACTTGAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 9 0.29
19 16 0.52
20 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
AAATATTTAAAAATTACAA
Found at i:56368352 original size:4 final size:4
Alignment explanation
Indices: 56368336--56368393 Score: 98
Period size: 4 Copynumber: 14.5 Consensus size: 4
56368326 ACATATATTA
* *
56368336 ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATTT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
56368384 ATGT ATGT AT
1 ATGT ATGT AT
56368394 AGGGGAATGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (4 bp):
ATGT
Found at i:56374129 original size:14 final size:14
Alignment explanation
Indices: 56374105--56374150 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
56374095 ACTTTACTGT
56374105 TATAT-TGTATTTG
1 TATATATGTATTTG
56374118 TATATATGTATTTG
1 TATATATGTATTTG
* * *
56374132 TAAATATTTATTCG
1 TATATATGTATTTG
56374146 TATAT
1 TATAT
56374151 GTTGTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (14 bp):
TATATATGTATTTG
Found at i:56377898 original size:15 final size:17
Alignment explanation
Indices: 56377870--56377905 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
56377860 TTGAGTCATT
56377870 AAAAAATGATGAAA-TG
1 AAAAAATGATGAAAGTG
56377886 AAAAAATGA-GAAAGTG
1 AAAAAATGATGAAAGTG
56377902 AAAA
1 AAAA
56377906 GGAAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (17 bp):
AAAAAATGATGAAAGTG
Found at i:56379710 original size:255 final size:258
Alignment explanation
Indices: 56379206--56380615 Score: 1844
Period size: 255 Copynumber: 5.5 Consensus size: 258
56379196 GTGGAGCAGG
* * * *
56379206 TTGAAGATTTTAGATCTTGTCTCCCCAAGCAGTAGTGGAACAGATCAAATATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
56379271 TCCCTGT-GTTACAGTGGAGTACATTGAAG-CAGTAATTCTACTTCCCTGGCAGC---GGAATAG
66 TCCCTGTGGTTACA--GGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGCAGCAGTGGAATAG
* * * *
56379331 ATTGAAGATTTC--AT-TTGCCTCCTAAGCAGTAGTGGAGCAGGTCAAAGA-GG-CAATTTTTAC
129 ATTGAAGATTTCAGATCTTGTCTCCCAA-CAGTAGTGGAGCAGATCAAAGATGGTGAA-TTTTAC
* * * *
56379391 CTCCCTGTGCTTACAGTGAAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAAT
192 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAC-TCCCTGGGCAGCAGTGGAAT
56379456 AGA
256 AGA
* *
56379459 TTGAAGATTTCAGATCTTGTCTCTCTAAGCAGTAGTGGAGCAGATC-AAGATGG-CAGATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGA-ATTTTAC
* *
56379522 CTCCCTGTGGTTACAGGAGTACATTGAAGCCAAGTAATTCTACTTCACTGGACA-CAGCGG-ATA
65 CTCCCTGTGGTTACAGGAGTACATTGAAGCC-AGTAATTCTACTTCCCTGG-CAGCAGTGGAATA
*
56379585 GATTGAAGATTTCAGATCTTGTC-CCC-A-AGTAGTGGAGCAGATCAAAGATGG-CAGATTTTAC
128 GATTGAAGATTTCAGATCTTGTCTCCCAACAGTAGTGGAGCAGATCAAAGATGGTGA-ATTTTAC
* * *
56379646 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGCGGTGGAAT
192 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTCCCTGGGCAGCAGTGGAAT
56379711 AGA
256 AGA
* ** *
56379714 TTGAGGAAAAT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
1 TTGAAG-ATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
* *
56379778 CTCCC--TGG-T-CAGTGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGGTAGCAGTGGAATA
65 CTCCCTGTGGTTACAG-GAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGCAGCAGTGGAATA
* * * *
56379839 GATTGAAGATTTCAGATCTTGTCTCCTTCATCAGTGGCGGAGTAGATCAAAGATGGTGAATTTTA
128 GATTGAAGATTTCAGATCTTGTCTCC--CAACAGTAGTGGAGCAGATCAAAGATGGTGAATTTTA
* * **
56379904 CCTCCTTGTGGTTACAACGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAA
191 CCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAC-TCCCTGGGCAGCAGTGGAA
56379969 TAGA
255 TAGA
56379973 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT--AGCAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
*
56380036 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTGATTCTACTTCCCTAGGCAGCAGTGGAATA
66 TCCCTGTGGTTACA--GGAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGCAGCAGTGGAATA
56380101 GATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTA
128 GATTGAAGATTTCAGATCTTGTCTCCC-AA-CAGTAGTGGAGCAGATCAAAGATGGTGAATTTTA
*
56380166 CCT-CC-----TTACAGTGGAGTACATTGAAGCCAG-AATTCTACTTCCT-GGCAGCAGTGGAAT
191 CCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTCCCTGGGCAGCAGTGGAAT
56380223 AGA
256 AGA
*
56380226 TTGAAGATTTCAGATCTTGTCT-CCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
56380290 T-CCTGTGGTTACAGGAGTACATTGAAGCCAGT--TTCTACTTCCCTGGCAGCAGTGGAATAGAT
66 TCCCTGTGGTTACAGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGCAGCAGTGGAATAGAT
56380352 TGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCT
131 TGAAGATTTCAGATCTTGTCTCCC-AA-CAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCT
* * * *
56380417 -CCTTATGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCT-TGCAGCAATGGAATA
194 CCCTGA-GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTCCCTGGGCAGCAGTGGAATA
56380480 GA
257 GA
*
56380482 TTGAAGATTTCAGATCTT-TCTCTCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
** * * *
56380546 T-CCT-TGGTTAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCCGGTCGGCAGTGGAATCG
66 TCCCTGTGGTTACAGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGG-CAGCAGTGGAATAG
*
56380608 ATCGAAGA
129 ATTGAAGA
56380616 AAGAAGATCT
Statistics
Matches: 1037, Mismatches: 68, Indels: 99
0.86 0.06 0.08
Matches are distributed among these distances:
248 85 0.08
249 12 0.01
251 34 0.03
252 54 0.05
253 141 0.14
254 106 0.10
255 168 0.16
256 132 0.13
257 48 0.05
258 26 0.03
259 119 0.11
260 3 0.00
261 4 0.00
262 104 0.10
263 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (258 bp):
TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
TCCCTGTGGTTACAGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGCAGCAGTGGAATAGAT
TGAAGATTTCAGATCTTGTCTCCCAACAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
CTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTCCCTGGGCAGCAGTGGAATAGA
Found at i:56380076 original size:130 final size:131
Alignment explanation
Indices: 56379206--56380615 Score: 1832
Period size: 130 Copynumber: 11.1 Consensus size: 131
56379196 GTGGAGCAGG
* * * *
56379206 TTGAAGATTTTAGATCTTGTCTCCCCAAGCAGTAGTGGAACAGATCAAATATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GAGCAGATCAAAGATGGTGAATTTTACC
56379271 TCCCTGT-GTTACAGTGGAGTACATTGAAG-CAGTAATTCTACTTCCCT-GGCAGC---GGAATA
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
56379330 GA
130 GA
* * *
56379332 TTGAAGATTTC--AT-TTGCCT-CCTAAGCAGTAGTGGAGCAGGTCAAAGA-GG-CAATTTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GAGCAGATCAAAGATGGTGAA-TTTTAC
* * *
56379391 CTCCCTGTGCTTACAGTGAAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAAT
64 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
56379456 AGA
129 AGA
* *
56379459 TTGAAGATTTCAGATCTTGTCTCTCTAAGCAGTAGTGGAGCAGATC-AAGATGG-CAGATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GAGCAGATCAAAGATGGTGA-ATTTTAC
* * *
56379522 CTCCCTGTGGTTACA--GGAGTACATTGAAGCCAAGTAATTCTACTTCACTGGACA-CAGCGG-A
64 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCC-AGTAATTCTACTTCCCTGGGCAGCAGTGGAA
56379583 TAGA
128 TAGA
* *
56379587 TTGAAGATTTCAGATCTTGTC-CCC-AAGTAGT-G-GAGCAGATCAAAGATGG-CAGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGAGCAGATCAAAGATGGTGA-ATTTTACC
* * * *
56379647 TCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGTAGCGGTGGAAT
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAAT
56379711 AGA
129 AGA
* ** *
56379714 TTGAGGAAAAT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
1 TTGAAG-ATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GAGCAGATCAAAGATGGTGAATTTTAC
* *
56379778 CTCCC--TGG-T-CAGT-GAGTACATTGAAGCCAGAAATTCTACTTCCCTGGGTAGCAGTGGAAT
64 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
56379838 AGA
129 AGA
* * * * * *
56379841 TTGAAGATTTCAGATCTTGTCTCCTTCATCAGTGGCGGAGTAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG-TGAGCAGATCAAAGATGGTGAATTTTACC
* **
56379906 TCCTTGTGGTTACAACGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
56379971 GA
130 GA
56379973 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-AGCAGATCAAAGATGGTGAATTTTACCT
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGAGCAGATCAAAGATGGTGAATTTTACCT
* *
56380037 CCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTGATTCTACTTCCCTAGGCAGCAGTGGAATAG
66 CCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAG
56380102 A
131 A
56380103 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GAGCAGATCAAAGATGGTGAATTTTACC
56380168 T-CC-----TTACAGTGGAGTACATTGAAGCCAG-AATTCTACTT-CCT-GGCAGCAGTGGAATA
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
56380224 GA
130 GA
*
56380226 TTGAAGATTTCAGATCTTGTCT-CCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GAGCAGATCAAAGATGGTGAATTTTACC
56380290 T-CCTGTGGTTACA--GGAGTACATTGAAGCCAGT--TTCTACTTCCCT-GGCAGCAGTGGAATA
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
56380349 GA
130 GA
56380351 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GAGCAGATCAAAGATGGTGAATTTTACC
* * * * *
56380416 TCCTTATGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTA-TCTCCCT-TGCAGCAATGGAAT
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAAT
56380479 AGA
129 AGA
*
56380482 TTGAAGATTTCAGATCTT-TCTCTCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT-GAGCAGATCAAAGATGGTGAATTTTACC
* * *
56380546 T-CCT-TGGTT--AGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCCGGTCGGCAGTGGAAT
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAAT
*
56380606 CGA
129 AGA
*
56380609 TCGAAGA
1 TTGAAGA
56380616 AAGAAGATCT
Statistics
Matches: 1151, Mismatches: 81, Indels: 103
0.86 0.06 0.08
Matches are distributed among these distances:
120 2 0.00
121 16 0.01
122 88 0.08
123 70 0.06
124 50 0.04
125 87 0.08
126 139 0.12
127 173 0.15
128 41 0.04
129 52 0.05
130 203 0.18
131 92 0.08
132 137 0.12
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (131 bp):
TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGAGCAGATCAAAGATGGTGAATTTTACCT
CCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAG
A
Found at i:56382894 original size:14 final size:14
Alignment explanation
Indices: 56382870--56382915 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
56382860 ACTTTACTGT
56382870 TATAT-TGTATTTG
1 TATATATGTATTTG
56382883 TATATATGTATTTG
1 TATATATGTATTTG
* * *
56382897 TAAATATTTATTCG
1 TATATATGTATTTG
56382911 TATAT
1 TATAT
56382916 GTTGTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (14 bp):
TATATATGTATTTG
Found at i:56388105 original size:3 final size:3
Alignment explanation
Indices: 56388097--56388128 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
56388087 ATTTTATTTA
56388097 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56388129 CTTCATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:56388191 original size:18 final size:19
Alignment explanation
Indices: 56388155--56388192 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
56388145 TACATGTATA
* *
56388155 TACATATACATTTATATTT
1 TACATATACATATACATTT
56388174 TACA-ATACATATACATTT
1 TACATATACATATACATTT
56388192 T
1 T
56388193 CCTTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (19 bp):
TACATATACATATACATTT
Found at i:56389860 original size:16 final size:16
Alignment explanation
Indices: 56389839--56389886 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
56389829 AGAAGAGAAT
56389839 GAAAAATAAAAGAAAA
1 GAAAAATAAAAGAAAA
**
56389855 GAAAAATAAATTTAAAA
1 GAAAAATAAA-AGAAAA
*
56389872 G-AACATAAAAGAAAA
1 GAAAAATAAAAGAAAA
56389887 AAATTAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 4 0.15
16 17 0.65
17 5 0.19
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (16 bp):
GAAAAATAAAAGAAAA
Found at i:56399297 original size:7 final size:7
Alignment explanation
Indices: 56399285--56399309 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56399275 GATCGGCAAA
56399285 AAACAAC
1 AAACAAC
56399292 AAACAAC
1 AAACAAC
56399299 AAACAAC
1 AAACAAC
56399306 AAAC
1 AAAC
56399310 CACCAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACAAC
Found at i:56401579 original size:6 final size:6
Alignment explanation
Indices: 56401551--56401623 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
56401541 GATAGCAGTG
* * * * *
56401551 ATAATA TTAATA ATAA-A AGTAATA CTAATA ATAATA TTAGTA ATAACA
1 ATAATA ATAATA ATAATA A-TAATA ATAATA ATAATA ATAATA ATAATA
* *
56401599 AAAATA ATAGTA ATAA-A AGTAATA A
1 ATAATA ATAATA ATAATA A-TAATA A
56401624 AGATAATATT
Statistics
Matches: 49, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
5 4 0.08
6 42 0.86
7 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (6 bp):
ATAATA
Found at i:56401581 original size:15 final size:15
Alignment explanation
Indices: 56401558--56401623 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
56401548 GTGATAATAT
56401558 TAATAATAAAAGTAA
1 TAATAATAAAAGTAA
*
56401573 TACTAATAATAA-TATTA
1 TAATAATAA-AAGTA--A
* *
56401590 GTAATAACAAAAATAA
1 -TAATAATAAAAGTAA
*
56401606 TAGTAATAAAAGTAA
1 TAATAATAAAAGTAA
56401621 TAA
1 TAA
56401624 AGATAATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
15 24 0.62
16 3 0.08
17 3 0.08
18 9 0.23
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
TAATAATAAAAGTAA
Found at i:56401672 original size:15 final size:15
Alignment explanation
Indices: 56401654--56401709 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
56401644 TGATGACGTT
*
56401654 AATAATAATATTAAA
1 AATAATAATAATAAA
* *
56401669 AATAAAAATAACAAA
1 AATAATAATAATAAA
* *
56401684 ACTACTAATAATAAA
1 AATAATAATAATAAA
*
56401699 AATAATGATAA
1 AATAATAATAA
56401710 AATAGCAAAG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (15 bp):
AATAATAATAATAAA
Found at i:56403459 original size:5 final size:5
Alignment explanation
Indices: 56403445--56403475 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
56403435 AATGAATATG
*
56403445 AAATT AAATT GAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT AAATT A
56403476 GGAGTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:56406313 original size:20 final size:20
Alignment explanation
Indices: 56406282--56406333 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
56406272 GTTACTCGAA
56406282 TTCTAGTTTTAAATTTAGTCT
1 TTCTAGTTTT-AATTTAGTCT
*
56406303 TTCTA-TTTTAATTTAGTTAT
1 TTCTAGTTTTAATTTAG-TCT
*
56406323 TTTTAGTTTTA
1 TTCTAGTTTTA
56406334 TGTACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.26
20 10 0.37
21 10 0.37
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.63
Consensus pattern (20 bp):
TTCTAGTTTTAATTTAGTCT
Found at i:56409151 original size:20 final size:21
Alignment explanation
Indices: 56409123--56409167 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
56409113 CTACATGTTT
56409123 AAATCAAAT-TATATAAAATTA
1 AAATCAAATATAT-TAAAATTA
*
56409144 AAAT-AAATATATTAAATTTA
1 AAATCAAATATATTAAAATTA
56409164 AAAT
1 AAAT
56409168 TTCAGCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCAAATATATTAAAATTA
Found at i:56414167 original size:26 final size:26
Alignment explanation
Indices: 56414115--56414167 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
56414105 CACTAATATC
* *
56414115 GCAGCATACCTGCCAGTAGTAATAAT
1 GCAGCAGACCTGCCAGTAGTAAGAAT
* *
56414141 GCAGCAGAGCTGCCAGTAGTCAGAAT
1 GCAGCAGACCTGCCAGTAGTAAGAAT
56414167 G
1 G
56414168 GCTAAGAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (26 bp):
GCAGCAGACCTGCCAGTAGTAAGAAT
Found at i:56414290 original size:32 final size:32
Alignment explanation
Indices: 56414237--56414451 Score: 188
Period size: 32 Copynumber: 6.7 Consensus size: 32
56414227 TACAGTAAAG
* * * *
56414237 TGATTGGCATAAAGCCATCAGTAGCAATGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* ** *
56414269 TGATCGGCACACAGCCATCAGTAATGGTAATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* *
56414301 TGACCGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * *
56414333 TGATTGGTACACAA-CCATCAGTAACAGTGAAA
1 TGATCGGCACA-AAGCCATCAGTAACAGTGATA
** *
56414365 TGAT-GGACACACAA-CCATC-GATAATGGTAATA
1 TGATCGG-CACA-AAGCCATCAG-TAACAGTGATA
*
56414397 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACAGTGA-TA
*
56414429 TGTTCGGCACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
56414452 GCATCGCAGC
Statistics
Matches: 150, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
31 6 0.04
32 139 0.93
33 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGATA
Found at i:56414325 original size:64 final size:63
Alignment explanation
Indices: 56414242--56414454 Score: 211
Period size: 64 Copynumber: 3.3 Consensus size: 63
56414232 TAAAGTGATT
* *
56414242 GGCATAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAATGGTAATATGACC
1 GGCACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGTAATATGA-C
* * * * * *
56414306 GGCACAAAGCCATCAGTAGCAGTGATATGATTGGTACACAACCATCAGTAACAGTGAA-ATGAT
1 GGCACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGT-AATATGAC
* * *
56414369 GGACACACAA-CCATC-G-A-TAATGGTAATATGATCGGCACAAAGCCATCAGTAACGGTACTAT
1 GG-CACA-AAGCCATCAGTAGCAAT-G--ATATGATCGGCACACAGCCATCAGTAACGGTAATAT
*
56414430 GTTC
61 G-AC
56414434 GGCACAAAGCCATCAGTAGCA
1 GGCACAAAGCCATCAGTAGCA
56414455 TCGCAGCAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
61 2 0.02
62 2 0.02
63 6 0.05
64 99 0.84
65 7 0.06
66 1 0.01
67 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (63 bp):
GGCACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGTAATATGAC
Found at i:56414447 original size:96 final size:96
Alignment explanation
Indices: 56414237--56414451 Score: 269
Period size: 96 Copynumber: 2.2 Consensus size: 96
56414227 TACAGTAAAG
* * * *
56414237 TGATTGGCATAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAATGGTAATAT
1 TGATTGGCACAAAGCCATCAGTAACAATGAAATGATCGGCACACAACCATCAGTAATGGTAATAT
*
56414302 GACCGGCACAAAGCCATCAGTAGCAGTGATA
66 GACCGGCACAAAGCCATCAGTAACAGTGATA
* *
56414333 TGATTGGTACACAA-CCATCAGTAACAGTGAAATGAT-GGACACACAACCATC-GATAATGGTAA
1 TGATTGGCACA-AAGCCATCAGTAACAATGAAATGATCGG-CACACAACCATCAG-TAATGGTAA
* *
56414395 TATGATCGGCACAAAGCCATCAGTAACGGT-ACTA
63 TATGACCGGCACAAAGCCATCAGTAACAGTGA-TA
56414429 TG-TTCGGCACAAAGCCATCAGTA
1 TGATT-GGCACAAAGCCATCAGTA
56414452 GCATCGCAGC
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
95 8 0.08
96 93 0.90
97 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (96 bp):
TGATTGGCACAAAGCCATCAGTAACAATGAAATGATCGGCACACAACCATCAGTAATGGTAATAT
GACCGGCACAAAGCCATCAGTAACAGTGATA
Found at i:56414539 original size:27 final size:27
Alignment explanation
Indices: 56414495--56414554 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
56414485 AACAAAGCTG
*
56414495 CCAGTAATAGTATATGTGGCCA-AACCA
1 CCAGTAACAGTATATGTGG-CAGAACCA
*
56414522 CCAGTAACAGTGAT-TGTGGCAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAGAACCA
56414549 CCAGTA
1 CCAGTA
56414555 CAATACTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAGAACCA
Found at i:56414655 original size:24 final size:23
Alignment explanation
Indices: 56414623--56414704 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
56414613 CCATGCTCAG
56414623 AATCAGTCATTCAAATCACAAACA
1 AATCAGTCATTCAAA-CACAAACA
*
56414647 AATCAGTCATACCAAACACAAACA
1 AATCAGTCAT-TCAAACACAAACA
* * *
56414671 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAAACA
* *
56414694 AAACAATCATT
1 AATCAGTCATT
56414705 TGACCTCGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 18 0.36
24 28 0.56
25 4 0.08
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.20
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAAACA
Found at i:56414759 original size:26 final size:26
Alignment explanation
Indices: 56414741--56414895 Score: 130
Period size: 27 Copynumber: 5.8 Consensus size: 26
56414731 TTACCCACCA
*
56414741 GGGCATTACGGTCATTTTACCCTATAG
1 GGGCATTAC-GTCATTTTACCCTACAG
*
56414768 GGGTATTACGTCATTTTACCCTACAG
1 GGGCATTACGTCATTTTACCCTACAG
* *
56414794 GGGCATTACTGTCATTTTATCCTATAG
1 GGGCATTAC-GTCATTTTACCCTACAG
* * * * *
56414821 GGGTATTTCGGCATTCTACCCTACGG
1 GGGCATTACGTCATTTTACCCTACAG
* * * * *
56414847 GGGTATTTCGAACATTTTACCGTACGG
1 GGGCATTACG-TCATTTTACCCTACAG
* *
56414874 GGGTATTTCAGTCATTTTACCC
1 GGGCATTAC-GTCATTTTACCC
56414896 ATCGTGGGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 46 0.43
27 61 0.56
28 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
GGGCATTACGTCATTTTACCCTACAG
Found at i:56414809 original size:53 final size:52
Alignment explanation
Indices: 56414741--56414937 Score: 175
Period size: 53 Copynumber: 3.7 Consensus size: 52
56414731 TTACCCACCA
*
56414741 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGTCATTTTACCCTACAG
1 GGGCATTAC-GTCATTTTACCCTATAGGGGTATTTCGTCATTTTACCCTACAG
* * * *
56414794 GGGCATTACTGTCATTTTATCCTATAGGGGTATTTCGGCATTCTACCCTACGG
1 GGGCATTAC-GTCATTTTACCCTATAGGGGTATTTCGTCATTTTACCCTACAG
* * * * **
56414847 GGGTATTTCGAACATTTTACCGTACGGGGGTATTTCAGTCATTTTACCC-ATC-G
1 GGGCATTACG-TCATTTTACCCTATAGGGGTATTTC-GTCATTTTACCCTA-CAG
* * *
56414900 TGGGTATTTCGATCATTTTACCC-ATCGAGGGTATTTCG
1 -GGGCATTACG-TCATTTTACCCTATAG-GGGTATTTCG
56414938 GTCTAGATAT
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
52 1 0.01
53 79 0.66
54 40 0.33
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (52 bp):
GGGCATTACGTCATTTTACCCTATAGGGGTATTTCGTCATTTTACCCTACAG
Done.