Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 212 of 313
Found at i:65189700 original size:18 final size:18
Alignment explanation
Indices: 65189677--65189760 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
65189667 TTAATGGTTA
65189677 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
* *** *
65189695 GTAAAATTATTAAGCCAA
1 GTAAAATTATCAAATTAT
** *
65189713 AAAAAATTTAATTAAATTA-
1 GTAAAA-TT-ATCAAATTAT
65189732 GATAAAATTATCAAATTAT
1 G-TAAAATTATCAAATTAT
65189751 GTAAAATTAT
1 GTAAAATTAT
65189761 TAAGTCCAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
18 34 0.69
19 5 0.10
20 10 0.20
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (18 bp):
GTAAAATTATCAAATTAT
Found at i:65189761 original size:111 final size:110
Alignment explanation
Indices: 65189633--65189869 Score: 361
Period size: 111 Copynumber: 2.1 Consensus size: 110
65189623 ACATTATGTA
* *
65189633 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
65189698 AAATTATTAAG-CCAAAAAAAAT-TTAATTAAATTAGATAAAATTATC
66 AAATTATTAAGTCCAAAAAAAATGTTAA-T-AATTAG-TAAAATTATC
65189744 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
* *** **
65189809 AAATTATTAAGTCCAACAATTGTGTTAATGGTTAGTAAAATTATC
66 AAATTATTAAGTCCAAAAAAAATGTTAATAATTAGTAAAATTATC
65189854 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
65189870 GGTTAGGGTT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
110 26 0.22
111 78 0.67
112 8 0.07
113 4 0.03
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (110 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATTAAGTCCAAAAAAAATGTTAATAATTAGTAAAATTATC
Found at i:65189900 original size:18 final size:18
Alignment explanation
Indices: 65189877--65189965 Score: 84
Period size: 18 Copynumber: 5.3 Consensus size: 18
65189867 TTAGGTTAGG
65189877 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
65189895 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
65189913 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
65189924 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
65189942 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
65189960 ATTAGG
1 GTTAGG
65189966 TTAGGGTTAG
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
11 3 0.05
12 1 0.02
13 1 0.02
14 2 0.04
15 2 0.04
16 1 0.02
17 2 0.04
18 43 0.78
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:65189935 original size:47 final size:47
Alignment explanation
Indices: 65189864--65190193 Score: 480
Period size: 47 Copynumber: 6.8 Consensus size: 47
65189854 AAATTATGTA
*
65189864 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATT
*
65189911 AAATTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATT
65189958 AAATTAGGTTAGGGTTAGGGTTTTAAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA-GGTTTT---TT-AATTA----A--GTTAGGGTTTTTAATT
* *
65190016 AAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATT
65190063 AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATT
*
65190110 AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAACT
1 AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATT
* ** *
65190157 AAGTTAGGTTAGGGTTAGGGATTTTAATTAAATTAGG
1 AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGG
65190194 TTAGGGTTAG
Statistics
Matches: 261, Mismatches: 11, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
47 203 0.78
48 5 0.02
49 1 0.00
51 2 0.01
52 5 0.02
53 5 0.02
54 2 0.01
56 1 0.00
57 5 0.02
58 32 0.12
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.45
Consensus pattern (47 bp):
AAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATT
Found at i:65189947 original size:76 final size:76
Alignment explanation
Indices: 65189867--65190099 Score: 314
Period size: 76 Copynumber: 3.1 Consensus size: 76
65189857 TTATGTAAAA
65189867 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGAT
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGAT
65189932 TTTTAATTAAG
66 TTTTAATTAAG
* * * * * *
65189943 TTAGGGTT---TTTA--ATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAAATTAGGTTAGGGTT
1 TTA-GGTTAGGGTTAGGGTT--TTTA-ATTA-AGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
*
65190003 AGGGTTTTTAATTAAG
61 AGGATTTTTAATTAAG
*
65190019 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTT
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGAT
65190084 TTTTAATTAAG
66 TTTTAATTAAG
65190095 TTAGG
1 TTAGG
65190100 GTTTTTAATT
Statistics
Matches: 133, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
72 2 0.02
74 6 0.05
75 7 0.05
76 103 0.77
77 7 0.05
78 6 0.05
80 2 0.02
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (76 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGAT
TTTTAATTAAG
Found at i:65189974 original size:29 final size:29
Alignment explanation
Indices: 65189942--65190052 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
65189932 TTTTAATTAA
65189942 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
65189971 GTTAGGGTTTTAAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
65190000 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
65190029 GTTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
65190053 GTTTTTAATT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:65190052 original size:18 final size:18
Alignment explanation
Indices: 65190029--65190164 Score: 93
Period size: 18 Copynumber: 8.3 Consensus size: 18
65190019 TTAGGTTAGG
65190029 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
65190047 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
65190065 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
65190076 GTTAGGTTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
65190094 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
65190112 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
65190123 GTTAGGTTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
65190141 GTTAGGGTTTTTAACTAA
1 GTTAGGGTTTTTAATTAA
65190159 GTTAGG
1 GTTAGG
65190165 TTAGGGTTAG
Statistics
Matches: 87, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
11 6 0.07
12 2 0.02
13 2 0.02
14 4 0.05
15 4 0.05
16 2 0.02
17 4 0.05
18 63 0.72
ACGTcount: A:0.27, C:0.01, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:65190127 original size:76 final size:76
Alignment explanation
Indices: 65189895--65190222 Score: 339
Period size: 76 Copynumber: 4.3 Consensus size: 76
65189885 TTTTAATTAA
*
65189895 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATTAA
65189960 ATTAGGTTAGG
66 ATTAGGTTAGG
* * *
65189971 GTTAGGGTTTTAAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTT---TTTA--
* * * *
65190035 GTT--TTTA-ATTA-A
61 ATTAAATTAGGTTAGG
65190047 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATTAA
65190112 ATTAGGTTAGG
66 ATTAGGTTAGG
* * * ** *** * * *
65190123 GTTAGGTTTTTTAATTAAGTTAGGGTT---TTTAACTAAGTTAGGTTAGGGTTAGGGATTTTAAT
1 GTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTAGGTTTTTTA-ATTA-AGTTAGGGTTTTTAAT
65190185 TAAATTAGGTTAGG
63 TAAATTAGGTTAGG
* *
65190199 GTTAGGGTTTTAAAATAAATTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
65190223 GTTTTTATTA
Statistics
Matches: 210, Mismatches: 29, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
72 2 0.01
74 13 0.06
75 12 0.06
76 164 0.78
77 11 0.05
78 6 0.03
80 2 0.01
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (76 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTTTTAATTAAGTTAGGGTTTTTAATTAA
ATTAGGTTAGG
Found at i:65190173 original size:29 final size:29
Alignment explanation
Indices: 65190141--65190222 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
65190131 TTTTAATTAA
*
65190141 GTTAGGGTTTTTAACTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAACTAAATTAGGTTAGG
* *
65190170 GTTAGGGATTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAACTAAATTAGGTTAGG
* *
65190199 GTTAGGGTTTTAAAATAAATTAGG
1 GTTAGGGTTTTTAACTAAATTAGG
65190223 GTTTTTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.30, C:0.01, G:0.28, T:0.40
Consensus pattern (29 bp):
GTTAGGGTTTTTAACTAAATTAGGTTAGG
Found at i:65190280 original size:25 final size:26
Alignment explanation
Indices: 65190225--65190288 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
65190215 AAATTAGGGT
*
65190225 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATAGAAATTCTA
* *
65190251 TTTTATTATATTAAATA-AAATTCTA
1 TTTTATTACATCAAATAGAAATTCTA
65190276 TTTTATTACATCA
1 TTTTATTACATCA
65190289 GATAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAAATTCTA
Found at i:65190724 original size:18 final size:18
Alignment explanation
Indices: 65190697--65190731 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65190687 CGGAAAAGGA
* *
65190697 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
65190715 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
65190732 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:65192596 original size:51 final size:52
Alignment explanation
Indices: 65192525--65192639 Score: 198
Period size: 51 Copynumber: 2.2 Consensus size: 52
65192515 TTTAAAAAAT
65192525 GAAATTGAG-GGAAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
* *
65192576 GAAATTGAGAGGAAAA-TGAAATTAAATATGGGTTTTAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
65192627 GAAATTGAGAGGA
1 GAAATTGAGAGGA
65192640 TTAGAGAGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 55 0.90
52 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.28
Consensus pattern (52 bp):
GAAATTGAGAGGAAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:65193577 original size:17 final size:18
Alignment explanation
Indices: 65193541--65193579 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
65193531 TTCTTTCTTA
*
65193541 ATTTCTTACTTAAATTTT
1 ATTTCTCACTTAAATTTT
*
65193559 ATTTCTCAC-TAATTTTT
1 ATTTCTCACTTAAATTTT
65193576 ATTT
1 ATTT
65193580 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTCTCACTTAAATTTT
Found at i:65198117 original size:493 final size:493
Alignment explanation
Indices: 65197191--65198174 Score: 1689
Period size: 493 Copynumber: 2.0 Consensus size: 493
65197181 CAACCGATAG
* * *
65197191 GTATATCTCTCGTACACAAAGGACTTGTTGATTTGTACCAGTGGCTTGCAACTAGAATGCTTATC
1 GTATATCTCTCGTACAAAAAGGACTAGTTGATTTGTACCAGTAGCTTGCAACTAGAATGCTTATC
* * *
65197256 GACATTGCTTGAAATTCTAGAACAAACGGAGGAACACTTGACATCCATAGAGCAACCGATCATTG
66 GACATTGCTTGAAAGTCTAGAACAAACGGAGGAAAACTTGACATCCATAGAGCAACCAATCATTG
* * * *
65197321 TAGTACACATGCCTCATTTCTAGATCGGTTACGCAACTTGAGACGTATGTGTCCAGCATCCGACA
131 TAGTAAACAGGCCCCATTTCTAGATCGGTTACGCAACTTGAGACGTATCTGTCCAGCATCCGACA
* * * *
65197386 CCACTGTCATACCTTGTTGTACGACGCGTCCCACTCACTATGCATCTTCTCCAATGCCTTATACT
196 CCACTGCCATACCTAGTTGTACGACGCATCCCACTCACTATACATCTTCTCCAATGCCTTATACT
* *
65197451 TTGCAATCCACACCTTGCGGTACAAAGGCATGTAATCGAACTAGCTATGAATATTTGCAATTACA
261 TTGCAATCCACACCTTGCGGTACAAAGGCATGTAATCAAACTAGCTACGAATATTTGCAATTACA
* * *
65197516 ACCGGCACAACAATATTGGGACTCGCTTTAACAATAGGTAGTATTATGTTCGCCATCATGTCCAA
326 ACCGACACAACAATATTGGGACTCACTTTAACAATAGGTAGTATTATGTTCGCCATCATCTCCAA
*
65197581 ACCCAATTTCAAATGATTCCGTGAAATACCTGCAACAGCACGAGTACATTAAAATTAGCAATTCG
391 ACCCAATTTCAAATGATCCCGTGAAATACCTGCAACAGCACGAGTACATTAAAATTAGCAATTCG
65197646 ACTATGTCATAATATATATTGGTGTTGAGGAAGTACAT
456 ACTATGTCATAATATATATTGGTGTTGAGGAAGTACAT
65197684 GTATATCTCTCGTACAAAAAGGACTAGTTGATTTGTACCAGTAGCTTGCAACTAGAATGCTTATC
1 GTATATCTCTCGTACAAAAAGGACTAGTTGATTTGTACCAGTAGCTTGCAACTAGAATGCTTATC
* * * *
65197749 GGCATTGCTTGAAAGTCTAGAACAAACGGAGGAAAACTTGACATCCATGGAGGAACCAATCGTTG
66 GACATTGCTTGAAAGTCTAGAACAAACGGAGGAAAACTTGACATCCATAGAGCAACCAATCATTG
*
65197814 TAGTAAACAGGCCCCATTTCTCGATCGGTTACGCAACTTGAGACGTATCTGTCCAGCATCCGACA
131 TAGTAAACAGGCCCCATTTCTAGATCGGTTACGCAACTTGAGACGTATCTGTCCAGCATCCGACA
*
65197879 CCACTGCCATACCTAGTTGTACGACGCATCCCACTCACTATACATCTTCTCCAATGCCTTATGCT
196 CCACTGCCATACCTAGTTGTACGACGCATCCCACTCACTATACATCTTCTCCAATGCCTTATACT
*
65197944 TTGCAATCCACACCTTGCGGTAGAAAGGCATGTAATCAAACTAGCTACGAATATTTGCAATTACA
261 TTGCAATCCACACCTTGCGGTACAAAGGCATGTAATCAAACTAGCTACGAATATTTGCAATTACA
* *
65198009 ATCGACACAGCAATATTGGGACTCACTTTAACAATAGGTAGTATTATGTTCGCCATCATCTCCAA
326 ACCGACACAACAATATTGGGACTCACTTTAACAATAGGTAGTATTATGTTCGCCATCATCTCCAA
* *
65198074 ACCCAATTTCAGATGATCCCGTGAAATACCTGCAACAGCACGAGTACATTAAAATTAGCAATTTG
391 ACCCAATTTCAAATGATCCCGTGAAATACCTGCAACAGCACGAGTACATTAAAATTAGCAATTCG
65198139 ACTATGTCATAATATATATTGGTGTTGAGGAAGTAC
456 ACTATGTCATAATATATATTGGTGTTGAGGAAGTAC
65198175 CCGTAAAAAT
Statistics
Matches: 460, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
493 460 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (493 bp):
GTATATCTCTCGTACAAAAAGGACTAGTTGATTTGTACCAGTAGCTTGCAACTAGAATGCTTATC
GACATTGCTTGAAAGTCTAGAACAAACGGAGGAAAACTTGACATCCATAGAGCAACCAATCATTG
TAGTAAACAGGCCCCATTTCTAGATCGGTTACGCAACTTGAGACGTATCTGTCCAGCATCCGACA
CCACTGCCATACCTAGTTGTACGACGCATCCCACTCACTATACATCTTCTCCAATGCCTTATACT
TTGCAATCCACACCTTGCGGTACAAAGGCATGTAATCAAACTAGCTACGAATATTTGCAATTACA
ACCGACACAACAATATTGGGACTCACTTTAACAATAGGTAGTATTATGTTCGCCATCATCTCCAA
ACCCAATTTCAAATGATCCCGTGAAATACCTGCAACAGCACGAGTACATTAAAATTAGCAATTCG
ACTATGTCATAATATATATTGGTGTTGAGGAAGTACAT
Found at i:65199617 original size:157 final size:157
Alignment explanation
Indices: 65199340--65200281 Score: 1875
Period size: 157 Copynumber: 6.0 Consensus size: 157
65199330 GTGACATGGA
65199340 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
1 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
65199405 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
66 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
65199470 GGTGAATGTAGCTATGTTTGACATTCC
131 GGTGAATGTAGCTATGTTTGACATTCC
65199497 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
1 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
65199562 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
66 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
65199627 GGTGAATGTAGCTATGTTTGACATTCC
131 GGTGAATGTAGCTATGTTTGACATTCC
65199654 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
1 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
65199719 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
66 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
65199784 GGTGAATGTAGCTATGTTTGACATTCC
131 GGTGAATGTAGCTATGTTTGACATTCC
65199811 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
1 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
65199876 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
66 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
65199941 GGTGAATGTAGCTATGTTTGACATTCC
131 GGTGAATGTAGCTATGTTTGACATTCC
65199968 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
1 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
65200033 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
66 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
65200098 GGTGAATGTAGCTATGTTTGACATTCC
131 GGTGAATGTAGCTATGTTTGACATTCC
65200125 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
1 ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
65200190 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
66 GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
*
65200255 GGTGAATGTAGCTATGTTCGACATTCC
131 GGTGAATGTAGCTATGTTTGACATTCC
65200282 CTAATCTCTC
Statistics
Matches: 784, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 784 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.27
Consensus pattern (157 bp):
ATATATATAATCAATAATACACTAGATAAACAAATCTCCAAACACTCCTCATGACTCATAAAGTC
GTACACTATCTCCATGTAAGTGTAGCACGATTGCTCACACTCTCCAAACACACCACGCTATCTAC
GGTGAATGTAGCTATGTTTGACATTCC
Found at i:65201775 original size:21 final size:21
Alignment explanation
Indices: 65201728--65201778 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
65201718 TAATTTCAAT
* *
65201728 CAAGTTAAAATCATTTTAACA
1 CAAGTCAAAATCATTTTAAAA
*
65201749 C-A-TCAAAATGATTTTAAAA
1 CAAGTCAAAATCATTTTAAAA
65201768 CAAGTCAAAAT
1 CAAGTCAAAAT
65201779 TGCTCCAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 15 0.60
20 2 0.08
21 8 0.32
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (21 bp):
CAAGTCAAAATCATTTTAAAA
Found at i:65208875 original size:27 final size:27
Alignment explanation
Indices: 65208845--65209018 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
65208835 ATATCGAGTC
* *
65208845 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
65208872 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65208899 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
65208927 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65208954 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
65208981 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
65209008 CGCACACTTAG
1 CGCACACTTAG
65209019 CGCTGTACAA
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65208958 original size:82 final size:81
Alignment explanation
Indices: 65208866--65209018 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 81
65208856 TGCTATATAA
*
65208866 TCAACTCGCACACTTAGTGC-TACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
65208930 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
65208948 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
65209013 ACTTAG
66 ACTTAG
65209019 CGCTGTACAA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 12 0.18
82 52 0.80
83 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65211283 original size:11 final size:11
Alignment explanation
Indices: 65211267--65211291 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65211257 ATTAAGGTAA
65211267 ATTGATTGATT
1 ATTGATTGATT
65211278 ATTGATTGATT
1 ATTGATTGATT
65211289 ATT
1 ATT
65211292 CTTTAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
ATTGATTGATT
Found at i:65211667 original size:20 final size:19
Alignment explanation
Indices: 65211634--65211711 Score: 86
Period size: 20 Copynumber: 4.0 Consensus size: 19
65211624 ATTTTAAAAT
* *
65211634 CAAGTGAAATTGATTTTAA
1 CAAGTCAAAATGATTTTAA
65211653 CCAAGTCAAAATGATTTTAA
1 -CAAGTCAAAATGATTTTAA
* *
65211673 TCAAGTTAAAATCATTTTAA
1 -CAAGTCAAAATGATTTTAA
65211693 CACA-TCAAAATGATTTTAA
1 CA-AGTCAAAATGATTTTAA
65211712 AAACAAGTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 15 0.30
20 35 0.70
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.35
Consensus pattern (19 bp):
CAAGTCAAAATGATTTTAA
Found at i:65211690 original size:40 final size:39
Alignment explanation
Indices: 65211631--65211711 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 39
65211621 ACAATTTTAA
* *
65211631 AATCAAGTGAAATTGATTTTAAC-CAAGTCAAAATGATTTT
1 AATCAAGTGAAAATCATTTTAACAC-A-TCAAAATGATTTT
*
65211671 AATCAAGTTAAAATCATTTTAACACATCAAAATGATTTT
1 AATCAAGTGAAAATCATTTTAACACATCAAAATGATTTT
65211710 AA
1 AA
65211712 AAACAAGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 15 0.41
40 21 0.57
41 1 0.03
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (39 bp):
AATCAAGTGAAAATCATTTTAACACATCAAAATGATTTT
Found at i:65213758 original size:128 final size:129
Alignment explanation
Indices: 65213518--65213773 Score: 370
Period size: 128 Copynumber: 2.0 Consensus size: 129
65213508 GAATCTTAGA
* * * *
65213518 ACTTCCTTCCAAGGTGAAACCTTAAGGAACACTCGATCCTTAACTTGAAACTTGATGTCATAACG
1 ACTTCCTTCCAAGGTGAAACCTTAAGGAACACTCGATCCTCAACCTGAAACTTGATGTCACAACA
* * * * ** *
65213583 TTTCAAATCTACGTAAGACTTCTGCCTATCAGAAATGGCTTTTAGTCTATCATTAATCAGTTTC
66 TTTCAAATCTACATAAAACTTCTGCCTATCAGAAACGACTTCCAGTCTATCACTAATCAGTTTC
*
65213647 ACTTTCTTCCAAGGTGAAACCTTAAGGAACACTCGATCC-CAACCTGAAACTTGATGTCACAACA
1 ACTTCCTTCCAAGGTGAAACCTTAAGGAACACTCGATCCTCAACCTGAAACTTGATGTCACAACA
* * *
65213711 TTTCAAATCTACATAAAACTTCTTCCTATTAGAAGCGACTTCCAGTCTATCACTAATCAGTTT
66 TTTCAAATCTACATAAAACTTCTGCCTATCAGAAACGACTTCCAGTCTATCACTAATCAGTTT
65213774 AACGTTCTCC
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
128 74 0.66
129 38 0.34
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (129 bp):
ACTTCCTTCCAAGGTGAAACCTTAAGGAACACTCGATCCTCAACCTGAAACTTGATGTCACAACA
TTTCAAATCTACATAAAACTTCTGCCTATCAGAAACGACTTCCAGTCTATCACTAATCAGTTTC
Found at i:65224545 original size:6 final size:6
Alignment explanation
Indices: 65224534--65224569 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
65224524 GACTCTTCCT
* *
65224534 CATACC CATACC CATACC CATACT CATACT CATACC
1 CATACC CATACC CATACC CATACC CATACC CATACC
65224570 TATCCATATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (6 bp):
CATACC
Found at i:65228282 original size:19 final size:21
Alignment explanation
Indices: 65228258--65228307 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
65228248 CATACGTGTT
65228258 TTTTTAT-A-TAATATACATA
1 TTTTTATAATTAATATACATA
* *
65228277 TTTTTATAATTTATCTACATA
1 TTTTTATAATTAATATACATA
65228298 TTTTTA-AATT
1 TTTTTATAATT
65228308 TGAAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 7 0.26
20 5 0.19
21 15 0.56
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTATAATTAATATACATA
Found at i:65228350 original size:80 final size:80
Alignment explanation
Indices: 65228218--65228378 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
65228208 ATTTGCTCAT
*
65228218 TTTTTTAATTTGAAACTTTTGCTGCATATACATACGTGTTTTTTTATATAATATACATATTTTTA
1 TTTTTAAATTTGAAACTTTTGCTGCATATACATACGTGTTTTTTTATATAATATACATATTTTTA
65228283 TAATTTATCTACATA
66 TAATTTATCTACATA
*
65228298 TTTTTAAATTTGAAATTTTTGCTGCATATACATACGTGTTTTTTTATATAATATACATATTTTTA
1 TTTTTAAATTTGAAACTTTTGCTGCATATACATACGTGTTTTTTTATATAATATACATATTTTTA
65228363 TAATTTATCTACATA
66 TAATTTATCTACATA
65228378 T
1 T
65228379 GTATATATAC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (80 bp):
TTTTTAAATTTGAAACTTTTGCTGCATATACATACGTGTTTTTTTATATAATATACATATTTTTA
TAATTTATCTACATA
Found at i:65228501 original size:15 final size:17
Alignment explanation
Indices: 65228481--65228523 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
65228471 ATATTCTTCA
65228481 TATTTT-TA-AAATATG
1 TATTTTATATAAATATG
*
65228496 TATTTTATATATATATG
1 TATTTTATATAAATATG
65228513 TATTTTCATAT
1 TATTTT-ATAT
65228524 TTTAGGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 2 0.08
17 12 0.50
18 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (17 bp):
TATTTTATATAAATATG
Found at i:65228875 original size:4 final size:4
Alignment explanation
Indices: 65228861--65228896 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
65228851 ATTTTTATGG
65228861 TTTA GTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
65228897 GTCATGGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:65228952 original size:16 final size:17
Alignment explanation
Indices: 65228918--65228963 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
65228908 TACATGATTG
*
65228918 ATTTGTTTTTATT-ATT
1 ATTTGTTTTTGTTCATT
65228934 ATTTGTTTTTGTTCA-T
1 ATTTGTTTTTGTTCATT
*
65228950 A-TTATTTTTGTTCA
1 ATTTGTTTTTGTTCA
65228964 CATTATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 12 0.44
16 14 0.52
17 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.09, T:0.70
Consensus pattern (17 bp):
ATTTGTTTTTGTTCATT
Found at i:65228957 original size:15 final size:15
Alignment explanation
Indices: 65228939--65228969 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65228929 TTATTATTTG
*
65228939 TTTTTGTTCATATTA
1 TTTTTGTTCACATTA
65228954 TTTTTGTTCACATTA
1 TTTTTGTTCACATTA
65228969 T
1 T
65228970 CATATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATTA
Found at i:65229522 original size:108 final size:109
Alignment explanation
Indices: 65229024--65229563 Score: 852
Period size: 109 Copynumber: 5.0 Consensus size: 109
65229014 AAGGAAAATT
* * * * *
65229024 TTTCAAAGTAAGGCAATATTTTGCATTTAGAAAATCGAGAAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
* *
65229089 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCGATCAAATAGCTAAATATCCTTTTAAAAA
65229133 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
65229198 CGATTTTTCTCGTTCGATCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCGATCAAATAGCTAAATATCCTTTTAAAAA
65229242 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
65229307 CGATTTTTCTCGTTCGATCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCGATCAAATAGCTAAATATCCTTTTAAAAA
**
65229351 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCAGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
* *
65229416 CGATTTTTTTCGTTCGATCAAATAGCCAAATATCCTTTT-AAAA
66 CGATTTTTCTCGTTCGATCAAATAGCTAAATATCCTTTTAAAAA
** * * * * *
65229459 TTTTGAAATAAGACAATATTTTACGTTTGGAAATTCGAGGAAATGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
** * * *
65229524 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTTCTCGTTCGATCAAATAGCTAAATATCCTTTTAAA
65229564 TTTTAATCCA
Statistics
Matches: 405, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
106 29 0.07
107 2 0.00
108 63 0.16
109 311 0.77
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
CGATTTTTCTCGTTCGATCAAATAGCTAAATATCCTTTTAAAAA
Found at i:65231208 original size:44 final size:44
Alignment explanation
Indices: 65231159--65231246 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
65231149 TGCAAATACA
* *
65231159 AGAGCGGAAAGATAAGGTCCAGCAAGATAGAGTTTTGTGAAGGG
1 AGAGCGGAAAGATAAGGTCCAACAAGATAGAGTTCTGTGAAGGG
** *
65231203 AGAGCGGTTAGCTAAGGTCCAACAAGATAGAGTTCTGTGAAGGG
1 AGAGCGGAAAGATAAGGTCCAACAAGATAGAGTTCTGTGAAGGG
65231247 GTCAAAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.35, T:0.19
Consensus pattern (44 bp):
AGAGCGGAAAGATAAGGTCCAACAAGATAGAGTTCTGTGAAGGG
Found at i:65232507 original size:6 final size:6
Alignment explanation
Indices: 65232496--65232550 Score: 74
Period size: 6 Copynumber: 9.0 Consensus size: 6
65232486 AAAAAATACC
* * *
65232496 AAAAAG AAAAAG AAAAAG AAGAAG AGAAAG AAGAAG AGAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG
65232545 AAAAAG
1 AAAAAG
65232551 GAGAGGCCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:65233858 original size:46 final size:46
Alignment explanation
Indices: 65233789--65234642 Score: 1048
Period size: 46 Copynumber: 18.7 Consensus size: 46
65233779 CGCAGAGAAC
*
65233789 AGATCGAAGATATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGT
1 AGATCGAAG--ATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* *
65233837 AGATCGAAGATAGCAGATCTTGTCTTCTTGTATTTAGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* *
65233883 AGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCAGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* *
65233929 AGATCGAAGATAGCAGATCTTGTCTTTCTTTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* *
65233975 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAAT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* *** **
65234021 AGATCCAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAAAAGAAA
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* * * * ** *
65234067 AGATCGAAGAAACCAG-TCTTGCCTTCCTGTA-CTGATAGCTGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* * * * * *
65234111 AGA-CTAAAGATAGCAG-CCTTGCCTTCCTGTA-CTGACAGCGGAGC
1 AGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* * *
65234155 AGA-CTGAAGATAGGAGATTTTGTCTTCCTTTATTTGGCAGCGGAGT
1 AGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* * * *
65234201 AGATCCAAGATAGCAGATTTTGTCTTCTTGTATTTGGCAGTGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* *
65234247 AGATCAAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
65234293 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* *
65234339 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCTGTGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
65234385 AGATCGAAGATATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
1 AGATCGAAG--ATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
65234433 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* *
65234479 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAAT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* * * * * *
65234525 AGATCGAAGAAACCAG-TCTTGCCTTCCTGTA-CTGACAGCTGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* * * * * *
65234569 AGA-CTAAAGATAGCAG-CCTTGCCTTCCTGTA-CTGACAGCGGAGC
1 AGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* * *
65234613 AGA-CTGAAGATAGGAGATTTTGCCTTCCTG
1 AGATC-GAAGATAGCAGATCTTGTCTTCCTG
65234643 CATCGACAGC
Statistics
Matches: 714, Mismatches: 84, Indels: 19
0.87 0.10 0.02
Matches are distributed among these distances:
43 2 0.00
44 112 0.16
45 50 0.07
46 496 0.69
47 1 0.00
48 53 0.07
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (46 bp):
AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
Found at i:65234919 original size:132 final size:131
Alignment explanation
Indices: 65234741--65235282 Score: 756
Period size: 132 Copynumber: 4.1 Consensus size: 131
65234731 CATCGACAGC
* * * *
65234741 GGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
* * *
65234806 ATTCTATCTCCCTGATTGC-CAAT-AGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
66 ATTCTATCTCCCTG--GGCACAGTGA-AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG
65234869 TAGT
128 TAGT
* * *
65234873 GGAGCAGATGGAATATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATA
1 GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
* *
65234938 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTA
66 ATTCTATCTCCCTGGGCA-CAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
65235003 GT
130 GT
* * ** *
65235005 GGAACAGAACGAAGATGGCGGATTTTACCTCCCCATAGTTACAGTGGAGTACATTGAAGCCAATA
1 GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
*
65235070 ATTCTATTTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGC---A
66 ATTCTATCTCCCTGGGCA-CAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
65235132 GT
130 GT
* * *
65235134 -GAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAATGGGGTACATTGAAGCCAATA
1 GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
* * *
65235198 ATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTGCAGAT-TCTGTCCCCCTAAGCAGT
66 ATTCTATCTCCCTGGGCA-CAGTGAAATAGATTGAAGATTACAGATCT-TATCTCCCTAAGCAGT
65235262 AGT
129 AGT
65235265 GGAGCAGATCGAAGATGG
1 GGAGCAGATCGAAGATGG
65235283 TGAATCTTAT
Statistics
Matches: 366, Mismatches: 36, Indels: 16
0.88 0.09 0.04
Matches are distributed among these distances:
127 1 0.00
128 111 0.30
129 3 0.01
130 2 0.01
131 3 0.01
132 246 0.67
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (131 bp):
GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
ATTCTATCTCCCTGGGCACAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
T
Found at i:65234990 original size:44 final size:44
Alignment explanation
Indices: 65234942--65235132 Score: 120
Period size: 44 Copynumber: 4.3 Consensus size: 44
65234932 CCAATAATTC
* *
65234942 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACATATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* * * ** ** * *
65234986 TATCTCCCTAAGCAGTAGTGGAACAGAACGAAGATGGCGGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* ** * * * *
65235030 TACCTCCCCATAGTTA-CAGTGGAGTACATTGAAGCCAATA-A-TTC-
1 TATCT-CCC-TAGGCAGCAGTGGAATAGATTGAAG--ATTACAGATCT
* * *
65235074 TATTTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
*
65235118 TATCTCCCTAAGCAG
1 TATCTCCCTAGGCAG
65235133 TGAGCAGATC
Statistics
Matches: 99, Mismatches: 40, Indels: 16
0.64 0.26 0.10
Matches are distributed among these distances:
41 3 0.03
42 4 0.04
43 20 0.20
44 52 0.53
45 16 0.16
46 3 0.03
47 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
Found at i:65235257 original size:260 final size:261
Alignment explanation
Indices: 65234750--65235282 Score: 763
Period size: 260 Copynumber: 2.0 Consensus size: 261
65234740 CGGAGTAGAT
** *
65234750 CGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATCT
1 CGAAGATGGCAGATTTTACCTCCCCATGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCT
* *
65234815 CCCTGATTGCCAATAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
66 CCCTGA-GGCCAATAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA--AGTGGAGCAG
* * * * *
65234880 ATGGAATATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTAT
128 ATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAATAATTCTAT
* * *
65234945 CTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAAC
193 CTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGTGGAAC
65235010 AGAA
258 AGAA
* *
65235014 CGAAGATGGCGGATTTTACCTCCCCAT-AGTTACAGTGGAGTACATTGAAGCCAATAATTCTATT
1 CGAAGATGGCAGATTTTACCTCCCCATGA-TTACAGTGGAGTACATTGAAGCCAATAATTCTATC
*
65235078 TCCCTG-GGCAGCAGT-GAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGC-AGT-GAGCA
65 TCCCTGAGGC--CAATAG-AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAAGTGGAGCA
*
65235139 GATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAATGGGGTACATTGAAGCCAATAATTCTA
127 GATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAATAATTCTA
* *
65235204 TCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTGCAGAT-TCTGTCCCCCTAAGCAGTAGTGGA
192 TCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCT-TATCCCCCTAAGCAGTAGTGGA
* *
65235268 GCAGAT
256 ACAGAA
65235274 CGAAGATGG
1 CGAAGATGG
65235283 TGAATCTTAT
Statistics
Matches: 243, Mismatches: 21, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
259 1 0.00
260 134 0.55
261 3 0.01
262 2 0.01
263 2 0.01
264 101 0.42
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (261 bp):
CGAAGATGGCAGATTTTACCTCCCCATGATTACAGTGGAGTACATTGAAGCCAATAATTCTATCT
CCCTGAGGCCAATAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAAGTGGAGCAGATC
GAAGATGACGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAATAATTCTATCTC
CCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGTGGAACAGA
A
Found at i:65235391 original size:260 final size:258
Alignment explanation
Indices: 65234780--65235393 Score: 612
Period size: 260 Copynumber: 2.3 Consensus size: 258
65234770 TCCCTGTGAT
* * * * * * **
65234780 TACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGATTGC--CAAT-AGAATAGATTGAA
1 TACAGTAGAGAACATTGAAGCCAATAATCCTATCTCCCT-A-AGCAGCAGTGA-AATAGATCAAA
* * * * *
65234842 GATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATGGAATATGGCGGATTTTACCTCCCT
63 GATTACAGATCTTA-CTCACTAAGC---AGT-GAGCAGATCGAAGATGACGGATTTTACCTCCCT
* * *
65234907 GTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTG
123 GTGGTTACAATGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTG
* * * *
65234972 AAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAACAGAACGAAGATGGCGGATTTTACCTCC
188 AAGATTACAGATCTTATCCCCCTAAGCAGTAGTGGAACAGAACGAAGATGGCGAATCTTACCTCC
65235037 CCATAG
253 CCATAG
* * * * ** **
65235043 TTACAGTGGAGTACATTGAAGCCAATAATTCTATTTCCCTGGGCAGCAGTGAAATAGATTGAAGA
1 -TACAGTAGAGAACATTGAAGCCAATAATCCTATCTCCCTAAGCAGCAGTGAAATAGATCAAAGA
*
65235108 TTACAGATCTTATCTCCCTAAGCAGTGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTT
65 TTACAGATCTTA-CTCACTAAGCAGTGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTT
*
65235173 ACAATGGGGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATT
129 ACAATGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATT
* * * * * * *
65235238 GCAGAT-TCTGTCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCA-A
194 ACAGATCT-TATCCCCCTAAGCAGTAGTGGAACAGAACGAAGATGGCGAATCTTACCTCCCCATA
65235301 G
258 G
* * * * * * * *
65235302 -ATAGTAGAGAAACAGATTTAAGCCATTAGTCCTATCTCCCTAAGTAGTAGTGGAATAGGTCAAA
1 TACAGTAGAG-AAC--ATTGAAGCCAATAATCCTATCTCCCTAAGCAGCAGTGAAATAGATCAAA
**
65235366 GATTGTAGATTCTGTA-TCACTAAGCAGT
63 GATTACAGA-TCT-TACTCACTAAGCAGT
65235394 AGTGGAGCAG
Statistics
Matches: 298, Mismatches: 43, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
257 7 0.02
258 2 0.01
259 3 0.01
260 200 0.67
261 6 0.02
262 4 0.01
264 75 0.25
265 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (258 bp):
TACAGTAGAGAACATTGAAGCCAATAATCCTATCTCCCTAAGCAGCAGTGAAATAGATCAAAGAT
TACAGATCTTACTCACTAAGCAGTGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTAC
AATGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTAC
AGATCTTATCCCCCTAAGCAGTAGTGGAACAGAACGAAGATGGCGAATCTTACCTCCCCATAG
Found at i:65237442 original size:4 final size:4
Alignment explanation
Indices: 65237428--65237463 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
65237418 ATTTTTATGT
65237428 TTTA GTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
65237464 GTCATGGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:65237523 original size:15 final size:15
Alignment explanation
Indices: 65237505--65237535 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65237495 TTATTATTCG
*
65237505 TTTTTGTTCATATTA
1 TTTTTGTTCACATTA
65237520 TTTTTGTTCACATTA
1 TTTTTGTTCACATTA
65237535 T
1 T
65237536 CATATTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATTA
Found at i:65237786 original size:109 final size:108
Alignment explanation
Indices: 65237590--65237911 Score: 452
Period size: 109 Copynumber: 3.0 Consensus size: 108
65237580 AAGGAAAATT
* *
65237590 TTTCAAAGTAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
65237655 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTGTC-TTCAACCAAATAGCCAAATATCCTTTTAAAAA
*
65237699 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
65237764 TGATTTTTGTCATTCAATCAAATAGCCAAATATCCTTTT-AAAA
66 CGATTTTTGTC-TTCAACCAAATAGCCAAATATCCTTTTAAAAA
* * * ** * *
65237807 TTTCGAAATAAGACAATATTTTACGTTTCAAAATTCGAGGAAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
65237872 CGATTTCTCGT-TT-AACCAAATAGCCAAATATCCTCTTAAA
66 CGATTT-TTGTCTTCAACCAAATAGCCAAATATCCTTTTAAA
65237912 TTTTAATCCA
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
106 22 0.12
107 4 0.02
108 66 0.35
109 99 0.52
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (108 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTGTCTTCAACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:65243144 original size:82 final size:81
Alignment explanation
Indices: 65243028--65243183 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
65243018 AAATTGTACA
* * * *
65243028 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
65243092 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65243109 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
65243174 TGCGAGTTGA
65 TGCGAATTGA
65243184 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65243151 original size:55 final size:52
Alignment explanation
Indices: 65243027--65243180 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
65243017 TAAATTGTAC
* *
65243027 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
65243080 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
65243135 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
65243181 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:65243185 original size:27 final size:27
Alignment explanation
Indices: 65243028--65243183 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
65243018 AAATTGTACA
*
65243028 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
65243055 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
65243082 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
65243109 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
65243137 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
65243164 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
65243184 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:65243194 original size:27 final size:27
Alignment explanation
Indices: 65243020--65243204 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
65243010 GCGGGATTAA
*
65243020 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
65243047 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
65243074 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
65243101 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
65243129 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
65243156 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
65243183 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
65243205 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:65243195 original size:82 final size:81
Alignment explanation
Indices: 65243020--65243204 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
65243010 GCGGGATTAA
* * * *
65243020 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
65243085 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
65243101 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
65243165 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
65243183 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
65243205 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:65247943 original size:15 final size:16
Alignment explanation
Indices: 65247923--65247960 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
65247913 AGTGGAGGCA
65247923 AAAAAAAACAAA-AAC
1 AAAAAAAACAAAGAAC
* *
65247938 AAAAAAACCAAAGAAT
1 AAAAAAAACAAAGAAC
65247954 AAAAAAA
1 AAAAAAA
65247961 TAAAAACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAAAAACAAAGAAC
Found at i:65249533 original size:143 final size:143
Alignment explanation
Indices: 65249264--65249846 Score: 896
Period size: 143 Copynumber: 4.1 Consensus size: 143
65249254 CGAAACTGCA
* * * *
65249264 AATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATAGCGAATCTTATCTT
1 AATCTTATTTCTCTGGCATTACAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATATT
* ** * * *
65249329 CCTGAAGTTGTAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAACGGAGTAG
66 TCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
*
65249394 ACTGAAGACGGTG
131 ACTGAAGACAGTG
* * * * * * *
65249407 AATGTTATTTCTCTAGCGTTGCAGTGGAACAGATTTAAGCTACAAATTATGGCGGATCTTATCTT
1 AATCTTATTTCTCTGGCATTACAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATATT
** *
65249472 TCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAG
66 TCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
65249537 ACTGAAGACAGTG
131 ACTGAAGACAGTG
* *
65249550 AATCTTATTTCTCTGGCATTATAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTGTATT
1 AATCTTATTTCTCTGGCATTACAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATATT
*
65249615 TCTGAAGTTACAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
66 TCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
65249680 ACTGAAGACAGTG
131 ACTGAAGACAGTG
* *
65249693 AATCTTATTTCTCTGGCATTATAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTGTATT
1 AATCTTATTTCTCTGGCATTACAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATATT
* *
65249758 TCTGAAGTTACAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGTAG
66 TCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
**
65249823 ACTGAAGACAACG
131 ACTGAAGACAGTG
65249836 AATCTTATTTC
1 AATCTTATTTC
65249847 CCTGAAGTTG
Statistics
Matches: 411, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
143 411 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (143 bp):
AATCTTATTTCTCTGGCATTACAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATATT
TCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
ACTGAAGACAGTG
Found at i:65249822 original size:44 final size:45
Alignment explanation
Indices: 65249759--65249856 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
65249749 TCTTGTATTT
* * * * *
65249759 CTGAAGTTACAGTGGAGTAGATTGAAG-CCACCAGCCTTATCTCC
1 CTGAAGTTGCAGCGGAGTAGACTGAAGACAACCAACCTTATCTCC
* * *
65249803 CTGAAGTTGCAGCGGAGTAGACTGAAGACAACGAATCTTATTTCC
1 CTGAAGTTGCAGCGGAGTAGACTGAAGACAACCAACCTTATCTCC
65249848 CTGAAGTTG
1 CTGAAGTTG
65249857 TAACAGAACA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 24 0.53
45 21 0.47
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (45 bp):
CTGAAGTTGCAGCGGAGTAGACTGAAGACAACCAACCTTATCTCC
Found at i:65250014 original size:44 final size:45
Alignment explanation
Indices: 65249892--65250409 Score: 214
Period size: 44 Copynumber: 11.6 Consensus size: 45
65249882 TTGCAAACCT
* * * * * *
65249892 TATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACCAAT-TC
1 TATCTCCCTGAAATTACAGTGGAGCAGATCGAAGCTACAAATCTC
* * * ** * *
65249936 TTATCTCCTTGAAGTTTCAGCAGAGTAAATCGAAGCTACAAATCTC
1 -TATCTCCCTGAAATTACAGTGGAGCAGATCGAAGCTACAAATCTC
* *
65249982 T-TCTCCCTGAAATTACATTGGAGCAGATCGAAGCCA-AAATC-C
1 TATCTCCCTGAAATTACAGTGGAGCAGATCGAAGCTACAAATCTC
* * ** ** *
65250024 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAACCT-
1 -TATCTCCCTGAAATTACAGTGGAGCA-GAT-CGAAGCTACAAATCTC
* * * * * *
65250071 TATCCCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAAT-TCC
1 TATCTCCCTGAAATTACAGTGGAGCAGATCGAAGCTACAAATCT-C
* * * * * **
65250116 TATCT-CCTTAAAGTTCCAGCGAAGTAGATTAAAGCTACAAATCTC
1 TATCTCCCTGAAA-TTACAGTGGAGCAGATCGAAGCTACAAATCTC
* *
65250161 T-TCTCCCTGAAATTACATTGGAGCAGATTGAAGC--CATAATC-C
1 TATCTCCCTGAAATTACAGTGGAGCAGATCGAAGCTACA-AATCTC
** ** ** *
65250203 TTATCTCCCT-AAAGTTGTAGTGGAGCAGGATAAAAATATACAAACCT-
1 -TATCTCCCTGAAA-TTACAGTGGAGCA-GAT-CGAAGCTACAAATCTC
* * * * *
65250250 TCTCTCCCT-AAAGTTGCAGTGGAGCA-AGTTGAAGTTACCAAT-TC
1 TATCTCCCTGAAA-TTACAGTGGAGCAGA-TCGAAGCTACAAATCTC
* * * **
65250294 TTATCTCCTTGAAGTTCCAGCAGA-CTAGATCGAAGCTACAAATCTC
1 -TATCTCCCTGAAATTACAGTGGAGC-AGATCGAAGCTACAAATCTC
* * *
65250340 T-TTTCCCTGAAATTACATTAGAGCAGATCGAAGCTAC-AATCAT-
1 TATCTCCCTGAAATTACAGTGGAGCAGATCGAAGCTACAAATC-TC
*
65250383 TATCTCCCT-AAAGTTGCAGTGGAGCAG
1 TATCTCCCTGAAA-TTACAGTGGAGCAG
65250410 GATAAAAATG
Statistics
Matches: 350, Mismatches: 91, Indels: 65
0.69 0.18 0.13
Matches are distributed among these distances:
42 4 0.01
43 24 0.07
44 150 0.43
45 102 0.29
46 61 0.17
47 7 0.02
48 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAATTACAGTGGAGCAGATCGAAGCTACAAATCTC
Found at i:65250085 original size:179 final size:179
Alignment explanation
Indices: 65249885--65250540 Score: 990
Period size: 179 Copynumber: 3.7 Consensus size: 179
65249875 CTACAAGTTG
65249885 CAAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAG
1 CAAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAG
* * *
65249950 TTTCAGCAGAGTAAATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGAAG
66 TTCCAGCAGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGAAG
*
65250015 CCAAAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATATA
131 CCAAAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGATAAAAATATA
* * * *
65250064 CAAACCTTATCCCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCCTATCTCCTTAAAG
1 CAAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAG
* *
65250129 TTCCAGC-GAAGTAGATTAAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATTGAA
66 TTCCAGCAG-AGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGAA
* *
65250193 GCCATAATCCTTATCTCCCTAAAGTTGTAGTGGAGCAGGATAAAAATATA
130 GCCAAAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGATAAAAATATA
* * * * *
65250243 CAAACCTTCTCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGTTACCAATTCTTATCTCCTTGAAG
1 CAAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAG
* * * *
65250308 TTCCAGCAGACTAGATCGAAGCTACAAATCTCTTTTCCCTGAAATTACATTAGAGCAGATCGAAG
66 TTCCAGCAGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGAAG
* * * *
65250373 CTACAATCATTATCTCCCTAAAGTTGCAGTGGAGCAGGATAAAAATGTA
131 CCAAAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGATAAAAATATA
* * * *
65250422 CAAACCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGATG
1 CAAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAG
* * * * *
65250487 TTGCAGCGGAGTAGATCAAAGCTACAAGTCTCTTCTCTCTGAAATTATATTGGA
66 TTCCAGCAGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGA
65250541 ACGAATCGAA
Statistics
Matches: 429, Mismatches: 46, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
178 1 0.00
179 427 1.00
180 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (179 bp):
CAAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAG
TTCCAGCAGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGAAG
CCAAAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGATAAAAATATA
Found at i:65258444 original size:19 final size:20
Alignment explanation
Indices: 65258409--65258453 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
65258399 TTAATGTCCC
65258409 TATCATACCAAAAAGTTAAA
1 TATCATACCAAAAAGTTAAA
* *
65258429 TATCAT-CCACAAAGTTGAA
1 TATCATACCAAAAAGTTAAA
65258448 TATCAT
1 TATCAT
65258454 TCCATCTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.29
Consensus pattern (20 bp):
TATCATACCAAAAAGTTAAA
Found at i:65261429 original size:12 final size:12
Alignment explanation
Indices: 65261412--65261457 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
65261402 GGTAGGATAT
65261412 GATATGATATGA
1 GATATGATATGA
65261424 GATATGATAT-A
1 GATATGATATGA
* *
65261435 -ACATGACATGA
1 GATATGATATGA
*
65261446 GTTATGATATGA
1 GATATGATATGA
65261458 CAAGATATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
10 7 0.26
11 2 0.07
12 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (12 bp):
GATATGATATGA
Found at i:65261440 original size:17 final size:17
Alignment explanation
Indices: 65261407--65261440 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65261397 GTTGGGGTAG
* *
65261407 GATATGATATGATATGA
1 GATATGATATAACATGA
65261424 GATATGATATAACATGA
1 GATATGATATAACATGA
65261441 CATGAGTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (17 bp):
GATATGATATAACATGA
Found at i:65261440 original size:22 final size:22
Alignment explanation
Indices: 65261415--65261520 Score: 79
Period size: 22 Copynumber: 4.8 Consensus size: 22
65261405 AGGATATGAT
65261415 ATGATATGAGATATGATATAAC
1 ATGATATGAGATATGATATAAC
* * *
65261437 ATGACATGAGTTATGATATGAC
1 ATGATATGAGATATGATATAAC
* * * * * *
65261459 AAGATATGAAACATGCTACAGC
1 ATGATATGAGATATGATATAAC
* * *
65261481 ATGATATGA-AAATAGATATGAT
1 ATGATATGAGATAT-GATATAAC
*
65261503 ATGATATGATATATGATA
1 ATGATATGAGATATGATA
65261521 AGCTTCGATA
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
21 3 0.05
22 56 0.90
23 3 0.05
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (22 bp):
ATGATATGAGATATGATATAAC
Found at i:65261552 original size:22 final size:21
Alignment explanation
Indices: 65261481--65261552 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
65261471 ATGCTACAGC
* *
65261481 ATGATATGAAAATAGATATGAT
1 ATGATATG-AAATTGATATGCT
* *
65261503 ATGATATGATATATGATAAGCT
1 ATGATATGAAAT-TGATATGCT
65261525 -TCGATATGAAATCTGATATGCT
1 AT-GATATGAAAT-TGATATGCT
65261547 ATGATA
1 ATGATA
65261553 CATTCTGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
21 4 0.10
22 35 0.88
23 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.35
Consensus pattern (21 bp):
ATGATATGAAATTGATATGCT
Found at i:65273480 original size:33 final size:33
Alignment explanation
Indices: 65273438--65273502 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
65273428 AAAATATTTT
65273438 AAATATTTTAATATAA-TTACATATAAAAATAAA
1 AAATATTTTAATATAATTTA-ATATAAAAATAAA
*
65273471 AAATCTTTTAATATAATTTAATATAAAAATAA
1 AAATATTTTAATATAATTTAATATAAAAATAA
65273503 TTATATTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (33 bp):
AAATATTTTAATATAATTTAATATAAAAATAAA
Found at i:65281200 original size:23 final size:25
Alignment explanation
Indices: 65281174--65281224 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
65281164 AAAAATACAT
65281174 AAAAATTATTAT-AAAAA-TATTTA
1 AAAAATTATTATAAAAAAGTATTTA
*
65281197 AAAAATTATTTTAAAAAAGTATTTA
1 AAAAATTATTATAAAAAAGTATTTA
65281222 AAA
1 AAA
65281225 TTCAAAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 5 0.20
25 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAAATTATTATAAAAAAGTATTTA
Found at i:65281209 original size:13 final size:12
Alignment explanation
Indices: 65281174--65281224 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
65281164 AAAAATACAT
65281174 AAAAATTA-TTA
1 AAAAATTATTTA
65281185 TAAAAA-TATTTA
1 -AAAAATTATTTA
65281197 AAAAATTATTTTA
1 AAAAATTA-TTTA
*
65281210 AAAAAGTATTTA
1 AAAAATTATTTA
65281222 AAA
1 AAA
65281225 TTCAAAATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
11 7 0.20
12 17 0.49
13 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
AAAAATTATTTA
Found at i:65281221 original size:12 final size:11
Alignment explanation
Indices: 65281159--65281224 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
65281149 TAGTCCTTAC
65281159 TATTT-AAAAA
1 TATTTAAAAAA
** *
65281169 TACATAAAAAT
1 TATTTAAAAAA
65281180 TA-TTATAAAAA
1 TATTTA-AAAAA
65281191 TATTTAAAAAA
1 TATTTAAAAAA
65281202 TTATTTTAAAAAA
1 -TA-TTTAAAAAA
65281215 GTATTTAAAA
1 -TATTTAAAA
65281225 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 5 0.11
11 17 0.38
12 12 0.27
13 11 0.24
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTAAAAAA
Found at i:65281226 original size:23 final size:22
Alignment explanation
Indices: 65281159--65281224 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
65281149 TAGTCCTTAC
**
65281159 TATT-TAAAAATACATAAAAAT
1 TATTATAAAAATATTTAAAAAT
65281180 TATTATAAAAATATTTAAAAAAT
1 TATTATAAAAATATTT-AAAAAT
*
65281203 TATTTTAAAAAAGTATTTAAAA
1 TATTAT-AAAAA-TATTTAAAA
65281225 TTCAAAATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 4 0.11
22 9 0.24
23 11 0.29
24 9 0.24
25 5 0.13
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TATTATAAAAATATTTAAAAAT
Found at i:65293078 original size:13 final size:14
Alignment explanation
Indices: 65293058--65293098 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
65293048 TATTATATTT
*
65293058 TTTAATTAATATAA
1 TTTAATTAATAAAA
*
65293072 TTT-ATTATTAAAA
1 TTTAATTAATAAAA
65293085 TTTAATTAA-AAAA
1 TTTAATTAATAAAA
65293098 T
1 T
65293099 GAGATTCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTAATTAATAAAA
Found at i:65293763 original size:21 final size:21
Alignment explanation
Indices: 65293713--65293763 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
65293703 AAATTTTCAC
** *
65293713 TGTTGTTTATTACTATTTTGC
1 TGTTGTTTCCTACTATTTTGA
*
65293734 TATTGTTTCCTACTATTTTGA
1 TGTTGTTTCCTACTATTTTGA
65293755 TGTTGTTTC
1 TGTTGTTTC
65293764 GCTGCCATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.61
Consensus pattern (21 bp):
TGTTGTTTCCTACTATTTTGA
Found at i:65299189 original size:2 final size:2
Alignment explanation
Indices: 65299182--65299226 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
65299172 AAGCATAAGA
65299182 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
65299224 AC A
1 AC A
65299227 AAATCAAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:65308207 original size:13 final size:13
Alignment explanation
Indices: 65308191--65308216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65308181 CTAGATTTTA
65308191 AATCAAAATAGTT
1 AATCAAAATAGTT
65308204 AATCAAAATAGTT
1 AATCAAAATAGTT
65308217 CGTAAACTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AATCAAAATAGTT
Found at i:65317017 original size:41 final size:40
Alignment explanation
Indices: 65316969--65317073 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 40
65316959 GTATTTCCAA
* **
65316969 ATCAATGAAAAGGTTGAAAAGGATGTTACTTGAAA-AGGAT
1 ATCAATGAAAAGGTTGAAAAGGATGCTA-TCCAAATAGGAT
65317009 ATCAAATGAAAAGGTTGAAAAGGATGCTATCCAAATAGGAT
1 ATC-AATGAAAAGGTTGAAAAGGATGCTATCCAAATAGGAT
*
65317050 ATCAATGAAAAGGTCGAAAAGGAT
1 ATCAATGAAAAGGTTGAAAAGGAT
65317074 AGCAATGCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 27 0.46
41 32 0.54
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.22
Consensus pattern (40 bp):
ATCAATGAAAAGGTTGAAAAGGATGCTATCCAAATAGGAT
Found at i:65317079 original size:24 final size:24
Alignment explanation
Indices: 65317045--65317090 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
65317035 CTATCCAAAT
*
65317045 AGGATATCAATGAAAAGGTCGAAA
1 AGGATAGCAATGAAAAGGTCGAAA
*
65317069 AGGATAGCAATGCAAAGGTCGA
1 AGGATAGCAATGAAAAGGTCGA
65317091 TATCTCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.28, T:0.15
Consensus pattern (24 bp):
AGGATAGCAATGAAAAGGTCGAAA
Found at i:65330651 original size:34 final size:34
Alignment explanation
Indices: 65330607--65330674 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
65330597 TGGAAGTGGG
*
65330607 AAAGATTGGCCATGGATTTGGTTATTGGGTTTCC
1 AAAGAGTGGCCATGGATTTGGTTATTGGGTTTCC
65330641 AAAGAGTGGCCATGGATTTGGTTATTGGGTTTCC
1 AAAGAGTGGCCATGGATTTGGTTATTGGGTTTCC
65330675 CTTAACACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.37
Consensus pattern (34 bp):
AAAGAGTGGCCATGGATTTGGTTATTGGGTTTCC
Found at i:65335201 original size:46 final size:46
Alignment explanation
Indices: 65335153--65335397 Score: 176
Period size: 46 Copynumber: 5.3 Consensus size: 46
65335143 TTACTTATTT
*
65335153 GGGTTAAACCTACACGAATCGAATAATAGTTCCTGATTACCCGTTT
1 GGGTTAAACCTACACGAATCGAATAATAGTTCCTGATTACCCGTTA
* *
65335199 GGGTTAAACCTACACAAATC-AGATAATAGTGT-CTGGTCT-CCCGTTA
1 GGGTTAAACCTACACGAATCGA-ATAATAGT-TCCTGAT-TACCCGTTA
* * * * * *
65335245 AGGTTGAACCTACATGAATCAAATAATAGTGCCT-AGTCACCCGTTA
1 GGGTTAAACCTACACGAATCGAATAATAGTTCCTGA-TTACCCGTTA
* * * * * * * *
65335291 GGGTTGAACCCACACGAATCGGATAATAGTGCTTGGTCACTCGTTA
1 GGGTTAAACCTACACGAATCGAATAATAGTTCCTGATTACCCGTTA
** * * * * * *
65335337 TAGTTGAACCAACATGAATC-AGATAATAGTGCCTGGTTACCCGTCA
1 GGGTTAAACCTACACGAATCGA-ATAATAGTTCCTGATTACCCGTTA
*
65335383 GGGTTGAACCTACAC
1 GGGTTAAACCTACAC
65335398 AACATGTAGC
Statistics
Matches: 159, Mismatches: 31, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 155 0.97
47 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (46 bp):
GGGTTAAACCTACACGAATCGAATAATAGTTCCTGATTACCCGTTA
Found at i:65335287 original size:92 final size:92
Alignment explanation
Indices: 65335154--65335399 Score: 300
Period size: 92 Copynumber: 2.7 Consensus size: 92
65335144 TACTTATTTG
* * * * * *
65335154 GGTTAAACCTACACGAATCGAATAATAGTTCCTGATTACCCGTTTGGGTTAAACCTACACAAATC
1 GGTTGAACCTACATGAATCAAATAATAGTGCCTG-TTACCCGTTAGGGTTGAACCTACACAAATC
*
65335219 AGATAATAGTG-TCTGGTCTCCCGTTA-A
65 AGATAATAGTGCT-TGGTCACCCGTTATA
* * *
65335246 GGTTGAACCTACATGAATCAAATAATAGTGCCTAGTCACCCGTTAGGGTTGAACCCACACGAATC
1 GGTTGAACCTACATGAATCAAATAATAGTGCCT-GTTACCCGTTAGGGTTGAACCTACACAAATC
* *
65335311 GGATAATAGTGCTTGGTCACTCGTTATA
65 AGATAATAGTGCTTGGTCACCCGTTATA
* * *
65335339 -GTTGAACCAACATGAATCAGATAATAGTGCCTGGTTACCCGTCAGGGTTGAACCTACACAA
1 GGTTGAACCTACATGAATCAAATAATAGTGCCT-GTTACCCGTTAGGGTTGAACCTACACAA
65335400 CATGTAGCCT
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
92 129 0.98
93 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (92 bp):
GGTTGAACCTACATGAATCAAATAATAGTGCCTGTTACCCGTTAGGGTTGAACCTACACAAATCA
GATAATAGTGCTTGGTCACCCGTTATA
Found at i:65336855 original size:43 final size:43
Alignment explanation
Indices: 65336819--65337060 Score: 249
Period size: 43 Copynumber: 5.5 Consensus size: 43
65336809 TTTAACGGTA
* *
65336819 CTTTTATCACAAACGCCGCTAAATATCATGACCTTTAGCG--G
1 CTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGACG
* ** *
65336860 CTTTAAAGA-AAAGCGCCGCTAAAGAACATGACCTTTTGCGACG
1 CTTTTATCACAAA-CGCCGCTAAAGAACATGACCTTTAGCGACG
* * *
65336903 CTTTTGTCACAAACGCTGCTACAGAACATGACCTTTAGCGACG
1 CTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGACG
* *
65336946 CTTTTATCACAAAAGCCACTACCGCTAAAGAACATGACCTTTAGCGGCG
1 CTTTTATCAC--AA---AC-GCCGCTAAAGAACATGACCTTTAGCGACG
* * *
65336995 CCTTTT-TCACAAACGTCGCTAAAGAATATGACCTTTAGCGATG
1 -CTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGACG
*
65337038 CTTTTTTCACAAACGCCGCTAAA
1 CTTTTATCACAAACGCCGCTAAA
65337061 AGTACCGTTC
Statistics
Matches: 165, Mismatches: 24, Indels: 22
0.78 0.11 0.10
Matches are distributed among these distances:
40 3 0.02
41 30 0.18
42 5 0.03
43 82 0.50
44 5 0.03
45 2 0.01
47 2 0.01
48 2 0.01
49 29 0.18
50 5 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
CTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGACG
Found at i:65337032 original size:92 final size:92
Alignment explanation
Indices: 65336875--65337050 Score: 266
Period size: 92 Copynumber: 1.9 Consensus size: 92
65336865 AAGAAAAGCG
* *
65336875 CCGCTAAAGAACATGACCTTTTGCGACGCTTTTGTCACAAACGCTGCTACAGAACATGACCTTTA
1 CCGCTAAAGAACATGACCTTTAGCGACGCTTTTGTCACAAACGCTGCTAAAGAACATGACCTTTA
65336940 GCGACGCTTTTATCACAAAAGCCACTA
66 GCGACGCTTTTATCACAAAAGCCACTA
* *
65336967 CCGCTAAAGAACATGACCTTTAGCGGCGCCTTTT-TCACAAACG-TCGCTAAAGAATATGACCTT
1 CCGCTAAAGAACATGACCTTTAGCGACG-CTTTTGTCACAAACGCT-GCTAAAGAACATGACCTT
* *
65337030 TAGCGATGCTTTTTTCACAAA
64 TAGCGACGCTTTTATCACAAA
65337051 CGCCGCTAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
91 1 0.01
92 70 0.92
93 5 0.07
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (92 bp):
CCGCTAAAGAACATGACCTTTAGCGACGCTTTTGTCACAAACGCTGCTAAAGAACATGACCTTTA
GCGACGCTTTTATCACAAAAGCCACTA
Found at i:65342731 original size:48 final size:48
Alignment explanation
Indices: 65342589--65342735 Score: 213
Period size: 48 Copynumber: 3.1 Consensus size: 48
65342579 AATGAAAAGT
* *
65342589 CACTGGCTCACATATCAATGCCGATGCCATGTCCCAGACGTGGCCTTA
1 CACTGGCTCACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTA
* * *
65342637 TACTGGCTCACATATCCATGCCGATGCCATGTCCCAGACATAGTCTTA
1 CACTGGCTCACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTA
* * * *
65342685 CACTAGCTCACATATCAACGCCGATGCCACGTCCCAGATATGGTCTTA
1 CACTGGCTCACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTA
65342733 CAC
1 CAC
65342736 GAGACCTTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (48 bp):
CACTGGCTCACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTA
Found at i:65344193 original size:46 final size:46
Alignment explanation
Indices: 65344133--65344399 Score: 268
Period size: 46 Copynumber: 5.8 Consensus size: 46
65344123 CAAATGAAAG
** * * * *
65344133 TAATAGTGTTTGGTTACTCGTTTGGGTTAAACCTACACGAATCGAA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACGAATCGAA
* * * * *
65344179 TAATAGTGCCTGGTTACCCGTTTGGATTAAACTTACACGAATC-AGA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACGAATCGA-A
* * * * *
65344225 TAATAGTGTCTGGTCAACTGTTAAGGTTGAACCTACA-GAATCAAA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACGAATCGAA
* * * *
65344270 TAATAGTGCCTAGTCACCCGTTAGGATTGAACCCACATGAATCGAA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACGAATCGAA
* * * * *
65344316 TAATAGTGCTTGGTCACCCGTTAGAGTTGAACATATATGAATCGAA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACGAATCGAA
* *
65344362 TAATAATGCCTGGTCACCCGTCAGGGTTGAACCTACAC
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACAC
65344400 AACATGTAGC
Statistics
Matches: 182, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
45 37 0.20
46 145 0.80
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (46 bp):
TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACGAATCGAA
Found at i:65344279 original size:91 final size:91
Alignment explanation
Indices: 65344157--65344382 Score: 260
Period size: 91 Copynumber: 2.5 Consensus size: 91
65344147 TACTCGTTTG
* * * **
65344157 GGTTAAACCTACACGAATCGAATAATAGTGCCTGGTTACCCGTTTGGATTAAACTTACACGAATC
1 GGTTGAACCTACACGAATCGAATAATAGTGCCTGGTCACCCGTTAGGATTAAACCCACACGAATC
*
65344222 -AGATAATAGTG-TCTGGTCAACTGTTAA
66 GA-ATAATAGTGCT-TGGTCAACCGTT-A
* * * *
65344249 GGTTGAACCTACA-GAATCAAATAATAGTGCCTAGTCACCCGTTAGGATTGAACCCACATGAATC
1 GGTTGAACCTACACGAATCGAATAATAGTGCCTGGTCACCCGTTAGGATTAAACCCACACGAATC
*
65344313 GAATAATAGTGCTTGGTCACCCGTTA
66 GAATAATAGTGCTTGGTCAACCGTTA
* * * *
65344339 GAGTTGAACATATATGAATCGAATAATAATGCCTGGTCACCCGT
1 G-GTTGAACCTACACGAATCGAATAATAGTGCCTGGTCACCCGT
65344383 CAGGGTTGAA
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
90 2 0.02
91 72 0.63
92 40 0.35
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (91 bp):
GGTTGAACCTACACGAATCGAATAATAGTGCCTGGTCACCCGTTAGGATTAAACCCACACGAATC
GAATAATAGTGCTTGGTCAACCGTTA
Found at i:65346721 original size:6 final size:6
Alignment explanation
Indices: 65346710--65346734 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
65346700 TAAATAATAT
65346710 AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA A
65346735 TCGGGTTTGG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:65347121 original size:24 final size:24
Alignment explanation
Indices: 65347093--65347140 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
65347083 TAATAATAGA
*
65347093 ATTTAATCAATTA-TATTAAAATTC
1 ATTTAAT-AATAACTATTAAAATTC
65347117 ATTTAATAATAACTATTAAAATTC
1 ATTTAATAATAACTATTAAAATTC
65347141 TAATCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTAATAATAACTATTAAAATTC
Found at i:65347384 original size:2 final size:2
Alignment explanation
Indices: 65347377--65347405 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
65347367 AAACCCCCTC
65347377 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
65347406 CCCAAGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:65362312 original size:7 final size:7
Alignment explanation
Indices: 65362300--65362358 Score: 100
Period size: 7 Copynumber: 8.1 Consensus size: 7
65362290 CTTTCCTAAG
65362300 AACCCTA
1 AACCCTA
65362307 AACCCTA
1 AACCCTA
65362314 AACCCTAA
1 AACCCT-A
65362322 AACCCTA
1 AACCCTA
65362329 AACCCTAA
1 AACCCT-A
65362337 AACCCTA
1 AACCCTA
65362344 AACCCTA
1 AACCCTA
65362351 AACCCTA
1 AACCCTA
65362358 A
1 A
65362359 TACACTAAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
7 36 0.72
8 14 0.28
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCCTA
Found at i:65362326 original size:22 final size:22
Alignment explanation
Indices: 65362294--65362358 Score: 105
Period size: 22 Copynumber: 2.9 Consensus size: 22
65362284 TCATTACTTT
65362294 CCTAAGAACCCTAAACCCTAAAC
1 CCTAA-AACCCTAAACCCTAAAC
65362317 CCTAAAACCCTAAACCCTAAAAC
1 CCTAAAACCCTAAACCCT-AAAC
65362340 CCT-AAACCCTAAACCCTAA
1 CCTAAAACCCTAAACCCTAA
65362359 TACACTAAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.05
22 27 0.66
23 12 0.29
ACGTcount: A:0.45, C:0.40, G:0.02, T:0.14
Consensus pattern (22 bp):
CCTAAAACCCTAAACCCTAAAC
Found at i:65362366 original size:15 final size:14
Alignment explanation
Indices: 65362300--65362358 Score: 100
Period size: 15 Copynumber: 4.1 Consensus size: 14
65362290 CTTTCCTAAG
65362300 AACCCTAAACCCTA
1 AACCCTAAACCCTA
65362314 AACCCTAAAACCCTA
1 AACCCT-AAACCCTA
65362329 AACCCTAAAACCCTA
1 AACCCT-AAACCCTA
65362344 AACCCTAAACCCTA
1 AACCCTAAACCCTA
65362358 A
1 A
65362359 TACACTAAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
14 15 0.34
15 29 0.66
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCCTAAACCCTA
Found at i:65363281 original size:20 final size:20
Alignment explanation
Indices: 65363258--65363295 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65363248 TTTAAATACT
*
65363258 TTTTTTAAAATTATTATAGC
1 TTTTTCAAAATTATTATAGC
*
65363278 TTTTTCAAAATTTTTATA
1 TTTTTCAAAATTATTATA
65363296 TTATTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCAAAATTATTATAGC
Found at i:65367127 original size:19 final size:20
Alignment explanation
Indices: 65367085--65367128 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
65367075 GCTTTTTCCT
* *
65367085 CTAAAAGAAAGGGAAATCATA
1 CTAAAAGAAA-GGAAATAAGA
65367106 CTAAAAGAAA-GAAATAAGA
1 CTAAAAGAAAGGAAATAAGA
65367125 CTAA
1 CTAA
65367129 GTTCTTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
21 10 0.48
ACGTcount: A:0.61, C:0.09, G:0.16, T:0.14
Consensus pattern (20 bp):
CTAAAAGAAAGGAAATAAGA
Found at i:65372221 original size:202 final size:202
Alignment explanation
Indices: 65371875--65372265 Score: 575
Period size: 202 Copynumber: 1.9 Consensus size: 202
65371865 TGAACAAAAA
* ** * *
65371875 AATGAGAGTATTTGATGTTCAATGTCGCGACACAAAACTATAGGGTGTCGTGAAACTCGTCTAAC
1 AATGAGAGTATTTGATGTTCAATGTCGCGACACAAAACTATAGAGTGTCGCAAAACTCATCCAAC
* * * * **
65371940 AAGGCCCAATTATCAGCTGAGGGTGCTTTTCATCCACACAACCTTAGTTAACATGTTTAGCAGTG
66 AAGGCCCAATTATAAGCTAAGGATGCTTTTCATCCACACAACCTTAATTAACATGTTTAGCAGCC
*
65372005 TATAATTGAGCTAATTTTGTCATTTAAAAATACTACTATAAGTATTAGTTCTTAGGACTGAACTG
131 TATAATTGAGCTAATTTTGTCATTTAAAAATACTACTATAAATATTAGTTCTTAGGACTGAACTG
65372070 AACCAAT
196 AACCAAT
* *
65372077 AATGAGAGTATTTGATGTTCAATGTCGTGACACAAAACTATAGAGTGTCGCAAAACTCATCCGAC
1 AATGAGAGTATTTGATGTTCAATGTCGCGACACAAAACTATAGAGTGTCGCAAAACTCATCCAAC
* * * ** *
65372142 ATGGCCCAATTATAAGCTAAGGATGTTTTTCGTCCACACTGCCTTAATTAACATGTTTAGCTGCC
66 AAGGCCCAATTATAAGCTAAGGATGCTTTTCATCCACACAACCTTAATTAACATGTTTAGCAGCC
* * *
65372207 TATAATTGAGCTAATTTTTTCATTTAAAAATATTACTATAAATATTAGTTCTTATGACT
131 TATAATTGAGCTAATTTTGTCATTTAAAAATACTACTATAAATATTAGTTCTTAGGACT
65372266 CAATTAAAGA
Statistics
Matches: 166, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
202 166 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (202 bp):
AATGAGAGTATTTGATGTTCAATGTCGCGACACAAAACTATAGAGTGTCGCAAAACTCATCCAAC
AAGGCCCAATTATAAGCTAAGGATGCTTTTCATCCACACAACCTTAATTAACATGTTTAGCAGCC
TATAATTGAGCTAATTTTGTCATTTAAAAATACTACTATAAATATTAGTTCTTAGGACTGAACTG
AACCAAT
Found at i:65375071 original size:50 final size:50
Alignment explanation
Indices: 65375012--65375293 Score: 262
Period size: 50 Copynumber: 5.7 Consensus size: 50
65375002 CATTTGGGTA
* ***
65375012 AAGAGGTCCCATGTAAGACAATGTCTGGGACATGAAATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
65375062 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGACAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* **
65375112 AAGAGATTTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * * * *
65375162 GAGAGGTCCCCCGTAAGACCATGTCTTGGATATAGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * * *
65375212 GAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAG
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* ** *
65375261 AAAACATCCCATGTAAGACCATGTCTGAGACAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT
65375294 CCAGACATGG
Statistics
Matches: 190, Mismatches: 41, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
49 28 0.15
50 162 0.85
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:65375185 original size:100 final size:100
Alignment explanation
Indices: 65375021--65375254 Score: 292
Period size: 100 Copynumber: 2.3 Consensus size: 100
65375011 AAAGAGGTCC
* ** *
65375021 CATGTAAGACAATGTCTGGGACATGAAATTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTCCCACGTAAGACCATGT
* * * *
65375086 CTGGGACATGGCGTTGGCACCGACATAAGAG-A-TTT
66 CTGGGACATAGCATGGGCACC-A-ATAAGAGAACTCT
* * *
65375121 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTCCCACGTAAGACCATGT
* * *
65375186 CTTGGATATAGCATGGGCACCAATATGAGAACTCT
66 CTGGGACATAGCATGGGCACCAATAAGAGAACTCT
* *
65375221 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
65375255 GTATAGAAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 6 0.05
99 2 0.02
100 107 0.93
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (100 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTCCCACGTAAGACCATGT
CTGGGACATAGCATGGGCACCAATAAGAGAACTCT
Found at i:65382471 original size:155 final size:155
Alignment explanation
Indices: 65382189--65382499 Score: 559
Period size: 155 Copynumber: 2.0 Consensus size: 155
65382179 GTTCAGCATG
* * *
65382189 TTATAAAACATAATAAGAGATGAATTTTAATTTTTGAGCTTTGGGGTAAAGGTGTAAATATGCAA
1 TTATAAAACATAATAAGAGATAAAGTTTAATTTTTGAGCTTTCGGGTAAAGGTGTAAATATGCAA
* *
65382254 ATGTTTAGGGGCAAAACTGTAAATTTGCCAAAATTGAGTCAATGACTGTTTTTATGAATGTGAGT
66 AAGTTTAGGGGCAAAACTGTAAATTTGCCAAAATTGAGTCAAGGACTGTTTTTATGAATGTGAGT
65382319 ATTAAGTAAGCTAAATTTGCTATTA
131 ATTAAGTAAGCTAAATTTGCTATTA
65382344 TTATAAAACATAATAAGAGATAAAGTTTAATTTTTGAGCTTTCGGGTAAAGGTGTAAATATGCAA
1 TTATAAAACATAATAAGAGATAAAGTTTAATTTTTGAGCTTTCGGGTAAAGGTGTAAATATGCAA
* *
65382409 AAGTTTAGGGGCAAAACTGTAATTTTGCCAAAATTGGGTCAAGGACTGTTTTTATGAATGTGAGT
66 AAGTTTAGGGGCAAAACTGTAAATTTGCCAAAATTGAGTCAAGGACTGTTTTTATGAATGTGAGT
65382474 ATTAAGTAAGCTAAATTTGCTATTA
131 ATTAAGTAAGCTAAATTTGCTATTA
65382499 T
1 T
65382500 AGATCAAAAA
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 149 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.36
Consensus pattern (155 bp):
TTATAAAACATAATAAGAGATAAAGTTTAATTTTTGAGCTTTCGGGTAAAGGTGTAAATATGCAA
AAGTTTAGGGGCAAAACTGTAAATTTGCCAAAATTGAGTCAAGGACTGTTTTTATGAATGTGAGT
ATTAAGTAAGCTAAATTTGCTATTA
Found at i:65382860 original size:50 final size:50
Alignment explanation
Indices: 65382782--65382923 Score: 158
Period size: 50 Copynumber: 2.8 Consensus size: 50
65382772 ATTTGGGTAA
* * * *
65382782 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTATGGGACATGGCATGGGCACCGAGATG
* *
65382832 AGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTATGGGACATGGCATGGGCACCGAGATG
** * * * * * *
65382882 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCACGTAAGACCATGTATGGGACATGGCATGGGCA
65382924 GTACAGAAAA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTATGGGACATGGCATGGGCACCGAGATG
Found at i:65390423 original size:63 final size:63
Alignment explanation
Indices: 65390344--65390595 Score: 495
Period size: 63 Copynumber: 4.0 Consensus size: 63
65390334 CTACCTTTGG
*
65390344 GTGAGGTAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
1 GTGAGATAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
65390407 GTGAGATAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
1 GTGAGATAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
65390470 GTGAGATAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
1 GTGAGATAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
65390533 GTGAGATAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
1 GTGAGATAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
65390596 CTATCAATTC
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 188 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (63 bp):
GTGAGATAGACTACACCTATTACTTCACACAAAGTTCACTTAGATCTTCCTTACTTCAAGGTA
Found at i:65391221 original size:57 final size:57
Alignment explanation
Indices: 65391144--65391274 Score: 183
Period size: 57 Copynumber: 2.3 Consensus size: 57
65391134 TCTTTGAAAG
* * * * *
65391144 GTTCGCCATAAAGTCTTACCTTTCTAGAGTTTTGCTACAAATATTGTCCTTTAGC-A
1 GTTCACCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGATTGTCCTTTAGCAA
* *
65391200 GATTCACCACAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAGCAA
1 G-TTCACCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGATTGTCCTTTAGCAA
65391258 GTTCACCACAAAGGCTT
1 GTTCACCACAAAGGCTT
65391275 TTCTTTTCTA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
56 1 0.02
57 63 0.95
58 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (57 bp):
GTTCACCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGATTGTCCTTTAGCAA
Found at i:65391222 original size:28 final size:29
Alignment explanation
Indices: 65391191--65391274 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 29
65391181 CAAATATTGT
65391191 CCTTTAGCAGATTCACCACAAAGGCTT-A
1 CCTTTAGCAGATTCACCACAAAGGCTTGA
* ** *
65391219 CCTTTCTAG-AGTTTTTCCACAAAGG-TTGT
1 CC-TT-TAGCAGATTCACCACAAAGGCTTGA
65391248 CCTTTAGCA-AGTTCACCACAAAGGCTT
1 CCTTTAGCAGA-TTCACCACAAAGGCTT
65391275 TTCTTTTCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
27 3 0.07
28 18 0.42
29 19 0.44
30 3 0.07
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (29 bp):
CCTTTAGCAGATTCACCACAAAGGCTTGA
Found at i:65391251 original size:29 final size:29
Alignment explanation
Indices: 65391162--65391252 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
65391152 TAAAGTCTTA
* * **
65391162 CCTTTCTAGAGTTTTGCTACAAATATTGT
1 CCTTTCTAGAGTTTTACCACAAAGGTTGT
* * *
65391191 CC-TT-TAGCAGATTCACCACAAAGGCTT-A
1 CCTTTCTAG-AGTTTTACCACAAAGG-TTGT
*
65391219 CCTTTCTAGAGTTTTTCCACAAAGGTTGT
1 CCTTTCTAGAGTTTTACCACAAAGGTTGT
65391248 CCTTT
1 CCTTT
65391253 AGCAAGTTCA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
27 3 0.07
28 16 0.35
29 24 0.52
30 3 0.07
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
CCTTTCTAGAGTTTTACCACAAAGGTTGT
Found at i:65412786 original size:22 final size:22
Alignment explanation
Indices: 65412760--65412817 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
65412750 CTGCCTTTCG
*
65412760 TATTGACATTCTCTAGCTCTAA
1 TATTGACATTCTCTAGCCCTAA
* *
65412782 TATTGACATTCTCTATCCCTAG
1 TATTGACATTCTCTAGCCCTAA
*
65412804 TACTGACATTCTCT
1 TATTGACATTCTCT
65412818 GTGAACTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (22 bp):
TATTGACATTCTCTAGCCCTAA
Found at i:65416294 original size:69 final size:69
Alignment explanation
Indices: 65416180--65416718 Score: 600
Period size: 69 Copynumber: 7.8 Consensus size: 69
65416170 AAGTTTTTAA
* * * * *
65416180 CTCTCACTAACTATGTTGGAGGATGC-GATCTTTATCCTGCGAGCCTTAGTATGACAGCTAGGAG
1 CTCTCGCTAACTGTGTTGGAGGCTGCAG-TTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAG
65416244 CTTTG
65 CTTTG
* * * * *
65416249 CTCTCGCTAACTGTGTTGGAGGCTACACTTTTTATCCTGCAAGCCTTACTATGACAACTGGGAGC
1 CTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
65416314 TTTG
66 TTTG
* * *
65416318 CTCTCGCTAACTGTGTTAGAGGCT--ATGATTTTTATCCTGCGAGCCTTAGTATGACAACTAGGA
1 CTCTCGCTAACTGTGTTGGAGGCTGCA-G-TTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGA
65416381 GCTTTG
64 GCTTTG
* * * * * * * *
65416387 CTCTCACAAATTATGTTGGAGGCTGCGGTTTTTATCCTGCGAGCTTTAGTGTGACAGTTGGGAGC
1 CTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
65416452 TTTG
66 TTTG
* * * * *
65416456 CTCTCACTAATTGTGTTGGAGGCTGCGGTTTTTATCCTGCGAGCCTTAGTGTGATAGCTGGGAGC
1 CTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
65416521 TTTG
66 TTTG
* * *** * * *
65416525 CTCTTGCTAACTATGTTGGAGGCTATGGTTTTTATCCTGCGAGCCTTAGTATGATAGGTAGGAGC
1 CTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
65416590 TTTG
66 TTTG
* * * * * *
65416594 CTCTTGCTAACTGTGTTGCAGGCTGC-GATTTTTATCCTGTGAACCTTAATATGACAACTGGGAG
1 CTCTCGCTAACTGTGTTGGAGGCTGCAG-TTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAG
65416658 CTTTG
65 CTTTG
* * * * * *
65416663 CTATCACTAACTGTGTTGAAGGCTGCAATTTTTATCCTGTGAACCTTAGTATGACA
1 CTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAGCCTTAGTATGACA
65416719 TAAATGTTGT
Statistics
Matches: 406, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
67 1 0.00
68 1 0.00
69 403 0.99
70 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (69 bp):
CTCTCGCTAACTGTGTTGGAGGCTGCAGTTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
TTTG
Found at i:65416536 original size:207 final size:207
Alignment explanation
Indices: 65416180--65416718 Score: 727
Period size: 207 Copynumber: 2.6 Consensus size: 207
65416170 AAGTTTTTAA
* * *
65416180 CTCTCACTAACTATGTTGGAGGATGCGATCTTTATCCTGCGAGCCTTAGTATGACAGCTAGGAGC
1 CTCTCACTAACTATGTTGGAGGCTGCGATTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
* * * * *
65416245 TTTGCTCTCGCTAACTGTGTTGGAGGCTACACTTTTTATCCTGCAAGCCTTACTATGACAACTGG
66 TTTGCTCTCACTAACTGTGTTGGAGGCTGCAATTTTTATCCTGCGAGCCTTAGTATGACAACTGG
*
65416310 GAGCTTTGCTCTCGCTAACTGTGTTAGAGGCTATGATTTTTATCCTGCGAGCCTTAGTATGACAA
131 GAGCTTTGCTCTCGCTAACTATGTTAGAGGCTATGATTTTTATCCTGCGAGCCTTAGTATGACAA
65416375 CTAGGAGCTTTG
196 CTAGGAGCTTTG
* * * * * *
65416387 CTCTCACAAATTATGTTGGAGGCTGCGGTTTTTATCCTGCGAGCTTTAGTGTGACAGTTGGGAGC
1 CTCTCACTAACTATGTTGGAGGCTGCGATTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
* ** * * *
65416452 TTTGCTCTCACTAATTGTGTTGGAGGCTGCGGTTTTTATCCTGCGAGCCTTAGTGTGATAGCTGG
66 TTTGCTCTCACTAACTGTGTTGGAGGCTGCAATTTTTATCCTGCGAGCCTTAGTATGACAACTGG
* * * * *
65416517 GAGCTTTGCTCTTGCTAACTATGTTGGAGGCTATGGTTTTTATCCTGCGAGCCTTAGTATGATAG
131 GAGCTTTGCTCTCGCTAACTATGTTAGAGGCTATGATTTTTATCCTGCGAGCCTTAGTATGACAA
*
65416582 GTAGGAGCTTTG
196 CTAGGAGCTTTG
** * * * * * *
65416594 CTCTTGCTAACTGTGTTGCAGGCTGCGATTTTTATCCTGTGAACCTTAATATGACAACTGGGAGC
1 CTCTCACTAACTATGTTGGAGGCTGCGATTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
* * * *
65416659 TTTGCTATCACTAACTGTGTTGAAGGCTGCAATTTTTATCCTGTGAACCTTAGTATGACA
66 TTTGCTCTCACTAACTGTGTTGGAGGCTGCAATTTTTATCCTGCGAGCCTTAGTATGACA
65416719 TAAATGTTGT
Statistics
Matches: 283, Mismatches: 49, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
207 283 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (207 bp):
CTCTCACTAACTATGTTGGAGGCTGCGATTTTTATCCTGCGAGCCTTAGTATGACAGCTGGGAGC
TTTGCTCTCACTAACTGTGTTGGAGGCTGCAATTTTTATCCTGCGAGCCTTAGTATGACAACTGG
GAGCTTTGCTCTCGCTAACTATGTTAGAGGCTATGATTTTTATCCTGCGAGCCTTAGTATGACAA
CTAGGAGCTTTG
Found at i:65425796 original size:120 final size:120
Alignment explanation
Indices: 65425583--65425823 Score: 464
Period size: 120 Copynumber: 2.0 Consensus size: 120
65425573 AGTCTACATA
65425583 ATGCAAATGAATCCATAAAGACAAGTTTAATGTACAGTTAATGTGAAAACAAAATACTATTGAAC
1 ATGCAAATGAATCCATAAAGACAAGTTTAATGTACAGTTAATGTGAAAACAAAATACTATTGAAC
65425648 AAGAACTGCATACCGCTGCGAATGCTATAGCGGAAGATTCAATTACATCACCATC
66 AAGAACTGCATACCGCTGCGAATGCTATAGCGGAAGATTCAATTACATCACCATC
*
65425703 ATGCACATGAATCCATAAAGACAAGTTTAATGTACAGTTAATGTGAAAACAAAATACTATTGAAC
1 ATGCAAATGAATCCATAAAGACAAGTTTAATGTACAGTTAATGTGAAAACAAAATACTATTGAAC
*
65425768 AAGAACTGCATACCGCTGCGAATGCTATAGCGGAAGATTCAATTACATCATCATC
66 AAGAACTGCATACCGCTGCGAATGCTATAGCGGAAGATTCAATTACATCACCATC
65425823 A
1 A
65425824 ATAGCTTCAA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (120 bp):
ATGCAAATGAATCCATAAAGACAAGTTTAATGTACAGTTAATGTGAAAACAAAATACTATTGAAC
AAGAACTGCATACCGCTGCGAATGCTATAGCGGAAGATTCAATTACATCACCATC
Found at i:65425837 original size:15 final size:15
Alignment explanation
Indices: 65425819--65425857 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
65425809 ATTACATCAT
65425819 CATCAATAGCTTCAA
1 CATCAATAGCTTCAA
65425834 CATCAATAGCTTCAA
1 CATCAATAGCTTCAA
65425849 CATCAATAG
1 CATCAATAG
65425858 TTGCAGATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (15 bp):
CATCAATAGCTTCAA
Found at i:65427120 original size:18 final size:19
Alignment explanation
Indices: 65427097--65427133 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
65427087 CACGTGGCTA
65427097 TTTTAAAAATTAG-TTCAT
1 TTTTAAAAATTAGATTCAT
*
65427115 TTTTAAAAGTTAGATTCAT
1 TTTTAAAAATTAGATTCAT
65427134 GCTAGATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTTAAAAATTAGATTCAT
Found at i:65427292 original size:22 final size:22
Alignment explanation
Indices: 65427240--65427292 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
65427230 TATTTCTTAT
**
65427240 TTTAATTTTTAGGAATTTAATT
1 TTTAATTTTTAGGAATTTAAAA
*
65427262 TTTATATTTTT-TGAATTTAAAAA
1 TTTA-ATTTTTAGGAATTT-AAAA
65427285 TTTAATTT
1 TTTAATTT
65427293 AGTTATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (22 bp):
TTTAATTTTTAGGAATTTAAAA
Found at i:65435911 original size:16 final size:16
Alignment explanation
Indices: 65435877--65435933 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 16
65435867 ATTTTTTAAA
65435877 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA--ATAT
65435894 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
65435910 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
*
65435924 ATTTAAATTA
1 ATTTTAATTA
65435934 TATTTTATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 5 0.14
15 12 0.34
16 7 0.20
17 5 0.14
18 6 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:65436104 original size:120 final size:120
Alignment explanation
Indices: 65435872--65436294 Score: 699
Period size: 120 Copynumber: 3.5 Consensus size: 120
65435862 TAATAATTTT
*
65435872 TTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTAT
1 TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAAATAT
* *
65435935 ATTTTATACTATAATATACTATGATTTTAGTAAATTCATATAAGAATATTGATTA
66 ATTTTATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA
*
65435990 TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATTATTAT-TTCAAAATA
1 TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTT-AAAATA
65436054 TATTTTATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA
65 TATTTTATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA
* *
65436110 TTAAGAATTTTATTAAATAATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTAT
1 TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAAATAT
* * *
65436175 ATTTTATAGTATCATATATTAGGATTTGAGTAAATTCATATAAGAATATTGATTA
66 ATTTTATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA
* * * *
65436230 TTAAGAATTTTATTAAATTATATGTTTTAATTAAAATATATTTAATAATAGTTATGTTAAAATAT
1 TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAAATAT
65436295 GATTAAATTA
Statistics
Matches: 287, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
118 4 0.01
119 51 0.18
120 230 0.80
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAAATAT
ATTTTATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA
Found at i:65436169 original size:15 final size:16
Alignment explanation
Indices: 65436125--65436161 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
65436115 AATTTTATTA
65436125 AATAATATATTTTAATT
1 AATAATATA-TTTAATT
65436142 AA-AATATATTTAA-T
1 AATAATATATTTAATT
65436156 AATAAT
1 AATAAT
65436162 TATCTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.16
15 8 0.42
16 6 0.32
17 2 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATAATATATTTAATT
Found at i:65436264 original size:18 final size:17
Alignment explanation
Indices: 65436237--65436270 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
65436227 TTATTAAGAA
*
65436237 TTTTATTAAATTATATG
1 TTTTATTAAAATATATG
65436254 TTTTAATTAAAATATAT
1 TTTT-ATTAAAATATAT
65436271 TTAATAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTATTAAAATATATG
Found at i:65453125 original size:16 final size:16
Alignment explanation
Indices: 65453104--65453134 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65453094 CTATGCATGC
*
65453104 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
65453120 AAAATACAAAAGACA
1 AAAATACAAAAGACA
65453135 TAATAGAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:65456126 original size:81 final size:84
Alignment explanation
Indices: 65456006--65456173 Score: 261
Period size: 81 Copynumber: 2.0 Consensus size: 84
65455996 TCAATATCTT
65456006 ATGCAATCATCTAAAAAAAATAAGAAGAGACATAGAAGTGAAACTTAAAAAGACCATAAAATCAA
1 ATGCAATCATCTAAAAAAAAT-A-AAGAGACATAGAAGTGAAACTTAAAAAGACCATAAAATCAA
65456071 CATCTTCCTCAA-ACACAAAC
64 CATCTTCCTCAATACACAAAC
* * *
65456091 ATGCAATCATCT-AAAAGAAT-AAGAGACATAGAAGTGAAACTTAAAGAGACTATAAAATCAACA
1 ATGCAATCATCTAAAAAAAATAAAGAGACATAGAAGTGAAACTTAAAAAGACCATAAAATCAACA
*
65456154 TCTTCCTCAATACTCAAAC
66 TCTTCCTCAATACACAAAC
65456173 A
1 A
65456174 CAAACATGCC
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
81 51 0.65
82 8 0.10
84 7 0.09
85 12 0.15
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.20
Consensus pattern (84 bp):
ATGCAATCATCTAAAAAAAATAAAGAGACATAGAAGTGAAACTTAAAAAGACCATAAAATCAACA
TCTTCCTCAATACACAAAC
Found at i:65459456 original size:30 final size:30
Alignment explanation
Indices: 65459420--65459479 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
65459410 AAAAAGGAAA
65459420 GGAAAACTTTGAAGAATCACCTTCAAAAAC
1 GGAAAACTTTGAAGAATCACCTTCAAAAAC
65459450 GGAAAACTTTGAAGAATCACCTTCAAAAAC
1 GGAAAACTTTGAAGAATCACCTTCAAAAAC
65459480 TCAGTCCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (30 bp):
GGAAAACTTTGAAGAATCACCTTCAAAAAC
Found at i:65459903 original size:22 final size:22
Alignment explanation
Indices: 65459863--65459905 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65459853 TAGTTAGGTT
*
65459863 AATTGGGTTTAGCGTTTGGGCC
1 AATTGGGTTTAGAGTTTGGGCC
65459885 AATTGGGTTTAGTAG-TTGGGC
1 AATTGGGTTTAG-AGTTTGGGC
65459906 TTGGGGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.16, C:0.09, G:0.37, T:0.37
Consensus pattern (22 bp):
AATTGGGTTTAGAGTTTGGGCC
Found at i:65460320 original size:20 final size:22
Alignment explanation
Indices: 65460266--65460321 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
65460256 TTTACATGTA
65460266 TATAATATATATATATAATTTTT
1 TATAAT-TATATATATAATTTTT
*
65460289 TATGTATT-TATATAT-A-TTTT
1 TAT-AATTATATATATAATTTTT
65460309 TATAATTATATAT
1 TATAATTATATAT
65460322 TTTTAGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 3 0.10
20 12 0.41
21 1 0.03
22 7 0.24
23 4 0.14
24 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATAATTATATATATAATTTTT
Found at i:65464074 original size:124 final size:124
Alignment explanation
Indices: 65463876--65464100 Score: 362
Period size: 124 Copynumber: 1.8 Consensus size: 124
65463866 GTTGCTTGTA
* * *
65463876 GCTAATCAAATATCACCAAGAGGATGCTAAAGGTTTTTGCTAAGGTAACTCCACAATCACCAACA
1 GCTAATCAAATATCACCAAGAGGATGCTAAAGATTTTTGCCAAAGTAACTCCACAATCACCAACA
*
65463941 TGTCTAATTGTGCAAGGCAAGGAGAAAAGGCTAAGTAAAAACTTCGAAACCAACTTGAT
66 TGTCTAATTGTGCAAGGCAAGGAGAAAAAGCTAAGTAAAAACTTCGAAACCAACTTGAT
* * *
65464000 GCTAATCAAATATCACCAGGAGGATGCTAAAGATTTTTGCCAAAGTAACTCCATAATCACCGATC
1 GCTAATCAAATATCACCAAGAGGATGCTAAAGATTTTTGCCAAAGTAACTCCACAATCACC-AAC
*
65464065 -TGTCTAATTGTGCAAGGCAGGGAGAAAAAGCTAAGT
65 ATGTCTAATTGTGCAAGGCAAGGAGAAAAAGCTAAGT
65464101 CCAGACTTCA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
124 90 0.98
125 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (124 bp):
GCTAATCAAATATCACCAAGAGGATGCTAAAGATTTTTGCCAAAGTAACTCCACAATCACCAACA
TGTCTAATTGTGCAAGGCAAGGAGAAAAAGCTAAGTAAAAACTTCGAAACCAACTTGAT
Found at i:65464432 original size:12 final size:12
Alignment explanation
Indices: 65464415--65464447 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
65464405 GTACATGCTC
65464415 AGAAAGAGAGAG
1 AGAAAGAGAGAG
65464427 AGAAAGAGAGAG
1 AGAAAGAGAGAG
*
65464439 AGAGAGAGA
1 AGAAAGAGA
65464448 AAAACTTACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
AGAAAGAGAGAG
Found at i:65466969 original size:16 final size:16
Alignment explanation
Indices: 65466937--65466991 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
65466927 ACAATTTTAC
*
65466937 TATTACTAATTTAAAA
1 TATTACTAAATTAAAA
65466953 TATTA-TAAATTATAAA
1 TATTACTAAATTA-AAA
**
65466969 TA-GCCTAAATTAAAA
1 TATTACTAAATTAAAA
*
65466984 TTTTACTA
1 TATTACTA
65466992 TTTTAAGAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 10 0.33
16 20 0.67
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (16 bp):
TATTACTAAATTAAAA
Found at i:65467844 original size:39 final size:39
Alignment explanation
Indices: 65467798--65467875 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
65467788 AAATTCAGTC
*
65467798 ATGGTTCAAAATAGCAAAATAAAATAAATAAAAGGGAAA
1 ATGGTTCAAAATAGCAAAATAAAATAAATAAAAGCGAAA
65467837 ATGGTTCAAAATAGCAAAATAAAATAAATAAAAGCGAAA
1 ATGGTTCAAAATAGCAAAATAAAATAAATAAAAGCGAAA
65467876 GAGAAAGCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.62, C:0.06, G:0.14, T:0.18
Consensus pattern (39 bp):
ATGGTTCAAAATAGCAAAATAAAATAAATAAAAGCGAAA
Found at i:65468533 original size:38 final size:38
Alignment explanation
Indices: 65468443--65468543 Score: 123
Period size: 40 Copynumber: 2.6 Consensus size: 38
65468433 CGAATACAAT
* * *
65468443 AATTATAATTGCCATAATTATAATAATGTTTGACCAAAAA
1 AATTATAATTACAATAATTATAATAATATTTGACC--AAA
* *
65468483 AATTACAATTACAATAATTATAATAATATTTGATCC-TA
1 AATTATAATTACAATAATTATAATAATATTTGA-CCAAA
65468521 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
65468544 CAAGGATTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
38 23 0.43
40 29 0.54
41 2 0.04
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTTGACCAAA
Found at i:65473401 original size:104 final size:104
Alignment explanation
Indices: 65473221--65473444 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
65473211 TGTATATAAA
** * *
65473221 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
65473286 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TAAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
65473325 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
65473389 TTAAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTAAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65473429 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
65473445 GATATCCATT
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TAAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:65473492 original size:71 final size:72
Alignment explanation
Indices: 65473363--65473514 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
65473353 TCATTGGTGG
* *
65473363 TGCTAAGTGCGATATCCACCATATCTTTAAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTAAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65473428 GAGGGGT
66 GAGGGGT
*** *
65473435 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTAAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65473499 GAGGGGT
66 GAGGGGT
65473506 TGCTAAGTG
1 TGCTAAGTG
65473515 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 45 0.61
72 29 0.39
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTAAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:65477656 original size:27 final size:27
Alignment explanation
Indices: 65477571--65477659 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
65477561 ACTAACTCAT
*
65477571 TAGGCCTACTGGCATACACCAGCTAGC
1 TAGGCCTACTGGCATACACCAGCTTGC
65477598 TAGGCCTACTGGCATACACCAGCTTGC
1 TAGGCCTACTGGCATACACCAGCTTGC
* * * *
65477625 CAGGCCTATTGGCATATACCTA-CTTTC
1 TAGGCCTACTGGCATACACC-AGCTTGC
65477652 TAGGCCTA
1 TAGGCCTA
65477660 AACTTCTAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (27 bp):
TAGGCCTACTGGCATACACCAGCTTGC
Found at i:65486438 original size:51 final size:51
Alignment explanation
Indices: 65486373--65486477 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
65486363 GAATGATGTT
* *
65486373 ATTTGCAAATAAAAGCAGTCCTCAGAAATCTTCTCCCAAATTTTCTGTGCC
1 ATTTGCAAACAAAAGCAGTACTCAGAAATCTTCTCCCAAATTTTCTGTGCC
*
65486424 ATTTGCAAACAAAAGCAGTACTCAGAAATCTTCTCCCAAATTTTTTGTGCC
1 ATTTGCAAACAAAAGCAGTACTCAGAAATCTTCTCCCAAATTTTCTGTGCC
65486475 ATT
1 ATT
65486478 GATATAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (51 bp):
ATTTGCAAACAAAAGCAGTACTCAGAAATCTTCTCCCAAATTTTCTGTGCC
Found at i:65488830 original size:44 final size:45
Alignment explanation
Indices: 65488781--65488877 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
65488771 CTATCACACC
*
65488781 TCCATTCCATTCAACCAAAC-ATAAGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAAT-AGATATACTATTACGCCTCTAT
* * *
65488825 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
65488870 TCCATTAC
1 TCCATTAC
65488878 GCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
44 21 0.45
45 26 0.55
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:65488878 original size:16 final size:16
Alignment explanation
Indices: 65488857--65488889 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
65488847 TTGATTTGCT
65488857 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
65488873 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
65488889 A
1 A
65488890 ATACAGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:65490849 original size:18 final size:17
Alignment explanation
Indices: 65490817--65490850 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
65490807 GATTTTCATA
65490817 CATATTTTATATTAATT
1 CATATTTTATATTAATT
*
65490834 CATATTTATTTATTAAT
1 CATATTT-TATATTAAT
65490851 GTATGTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
CATATTTTATATTAATT
Found at i:65491798 original size:21 final size:20
Alignment explanation
Indices: 65491774--65491816 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
65491764 TCGATCAATC
65491774 ATGT-TTTCAATTAATATCATG
1 ATGTATTTC-ATTAATA-CATG
*
65491795 ATGTATTTCATTCATACATG
1 ATGTATTTCATTAATACATG
65491815 AT
1 AT
65491817 TGTGTGCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (20 bp):
ATGTATTTCATTAATACATG
Done.