Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 419 of 444
Found at i:121504646 original size:27 final size:26
Alignment explanation
Indices: 121504530--121504656 Score: 100
Period size: 27 Copynumber: 4.7 Consensus size: 26
121504520 CCTCAATTTG
*
121504530 TAAAATTACCAAAATACCCCTAGTTT
1 TAAAATTACCAAAATACCCCTAGATT
* * *
121504556 GTAAAATTACCAAAATACCACTGGTTT
1 -TAAAATTACCAAAATACCCCTAGATT
* *
121504583 GTGAAATTACCGAAATA-CCCTCA-ATTT
1 -TAAAATTACCAAAATACCCCT-AGA-TT
121504610 GTAAAATTACCAAAATACCCCT-GATT
1 -TAAAATTACCAAAATACCCCTAGATT
121504636 TACAAAGTTA-CAGAAATACCC
1 TA-AAA-TTACCA-AAATACCC
121504657 TTGACTTTCT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
25 2 0.02
26 10 0.12
27 68 0.81
28 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCCTAGATT
Found at i:121504652 original size:54 final size:54
Alignment explanation
Indices: 121504532--121504657 Score: 150
Period size: 54 Copynumber: 2.3 Consensus size: 54
121504522 TCAATTTGTA
* * **
121504532 AAATTACCA-AAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
1 AAATTA-CAGAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTGATTTGAC
* *
121504586 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-AC
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGAC
121504639 AAAGTTACAGAAATACCCT
1 AAA-TTACAGAAATACCCT
121504658 TGACTTTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
53 4 0.06
54 57 0.92
55 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (54 bp):
AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGAC
Found at i:121504707 original size:27 final size:27
Alignment explanation
Indices: 121504668--121504719 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
121504658 TGACTTTCTA
121504668 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
121504695 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
121504720 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:121504803 original size:27 final size:27
Alignment explanation
Indices: 121504772--121504864 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
121504762 TACCCCTATT
*
121504772 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
121504799 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
121504826 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
121504853 TGGTAAAATGAC
1 AGGTAAAATGAC
121504865 GAATATGCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:121506118 original size:9 final size:9
Alignment explanation
Indices: 121506106--121506162 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
121506096 TTTGATAAAC
121506106 ATGATATGT
1 ATGATATGT
*
121506115 ATGATATGCAC
1 ATGATATG--T
*
121506126 ATGACATGT
1 ATGATATGT
*
121506135 ATGATATGCAC
1 ATGATATG--T
121506146 ATGATATGT
1 ATGATATGT
121506155 ATGATATG
1 ATGATATG
121506163 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:121506129 original size:20 final size:20
Alignment explanation
Indices: 121506104--121506166 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
121506094 CTTTTGATAA
121506104 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
121506124 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
121506144 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
121506164 ACA
1 ACA
121506167 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:121506246 original size:24 final size:23
Alignment explanation
Indices: 121506219--121506506 Score: 400
Period size: 24 Copynumber: 12.0 Consensus size: 23
121506209 GGAGGAAGTG
*
121506219 AAAAAGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
121506242 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
121506266 AAGAAGGGCTTATGCCCCAGTTAT
1 AA-AAGGGCTTATGCCCCAGTTAT
121506290 CAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
121506315 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
121506338 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
121506361 GATAAAGGGCTTATGCCCCAGTTAT
1 -A-AAAGGGCTTATGCCCCAGTTAT
121506386 GATAAAGGGCTTATGCCCCAGTTAT
1 -A-AAAGGGCTTATGCCCCAGTTAT
*
121506411 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
121506434 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
121506458 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
121506482 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
121506506 A
1 A
121506507 TGATAAAGCA
Statistics
Matches: 248, Mismatches: 6, Indels: 20
0.91 0.02 0.07
Matches are distributed among these distances:
23 75 0.30
24 107 0.43
25 66 0.27
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:121506733 original size:31 final size:31
Alignment explanation
Indices: 121506698--121506761 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
121506688 CGTTTACAGT
*
121506698 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
121506729 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
121506760 AA
1 AA
121506762 TATGAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:121506760 original size:7 final size:7
Alignment explanation
Indices: 121506748--121506775 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
121506738 GGCCCAGTGT
121506748 TATGAAA
1 TATGAAA
121506755 TATGAAA
1 TATGAAA
121506762 TATGAAA
1 TATGAAA
121506769 TATGAAA
1 TATGAAA
121506776 AGGGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:121517506 original size:19 final size:17
Alignment explanation
Indices: 121517471--121517506 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
121517461 TTGTGTTGTC
121517471 CCTCTCTTCTCCTTTCT
1 CCTCTCTTCTCCTTTCT
121517488 CCTCTCATTCTCACTTTCT
1 CCTCTC-TTCTC-CTTTCT
121517507 TTCTTTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.06, C:0.44, G:0.00, T:0.50
Consensus pattern (17 bp):
CCTCTCTTCTCCTTTCT
Found at i:121519300 original size:6 final size:6
Alignment explanation
Indices: 121519276--121519319 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
121519266 CCAGTACCTA
*
121519276 AACAGT AATCAGT AACAGT AGCAGT AACAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
121519320 TTCAACACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:121519351 original size:45 final size:45
Alignment explanation
Indices: 121519299--121519405 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
121519289 AACAGTAGCA
* *
121519299 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT-
1 GTAACAGTAACGGTAACAGTATTCAACACAAAAAGTGTC-GAAT-TG
*
121519344 GTAACAGTAACGGTAACAGTATTCGACACAAAAAGTGTCGAATTG
1 GTAACAGTAACGGTAACAGTATTCAACACAAAAAGTGTCGAATTG
121519389 GTAACAGTAACGGTAAC
1 GTAACAGTAACGGTAAC
121519406 GGTAACAGTA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
44 1 0.02
45 55 0.96
46 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACAAAAAGTGTCGAATTG
Found at i:121519360 original size:51 final size:49
Alignment explanation
Indices: 121519297--121519415 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 49
121519287 GTAACAGTAG
*
121519297 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT-GTAA
1 CAGTAAC-GTAAC-GTAACAGTATTCAACACAAAAAGTGTC-GAAT-TGGTAA
*
121519348 CAGTAACG----GTAACAGTATTCGACACAAAAAGTGTCGAATTGGTAA
1 CAGTAACGTAACGTAACAGTATTCAACACAAAAAGTGTCGAATTGGTAA
121519393 CAGTAACGGTAACGGTAACAGTA
1 CAGTAAC-GTAAC-GTAACAGTA
121519416 ACAGTAGTCG
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
44 1 0.02
45 38 0.66
46 2 0.03
50 1 0.02
51 16 0.28
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (49 bp):
CAGTAACGTAACGTAACAGTATTCAACACAAAAAGTGTCGAATTGGTAA
Found at i:121519405 original size:12 final size:12
Alignment explanation
Indices: 121519388--121519421 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
121519378 GTGTCGAATT
121519388 GGTAACAGTAAC
1 GGTAACAGTAAC
*
121519400 GGTAACGGTAAC
1 GGTAACAGTAAC
*
121519412 AGTAACAGTA
1 GGTAACAGTA
121519422 GTCGGCACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (12 bp):
GGTAACAGTAAC
Found at i:121519700 original size:41 final size:40
Alignment explanation
Indices: 121519628--121519706 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
121519618 TTTCATCAAA
**
121519628 AATTTTACAGTTCAATGCAGTATACGTAACAATATTCAGT
1 AATTTTACAGTTCAATGCAGTATACAAAACAATATTCAGT
* * *
121519668 AATTTTCACAGTTCAATTCGGTATTCAAAACAATATTCA
1 AATTTT-ACAGTTCAATGCAGTATACAAAACAATATTCA
121519707 ATATCCCATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (40 bp):
AATTTTACAGTTCAATGCAGTATACAAAACAATATTCAGT
Found at i:121520078 original size:5 final size:5
Alignment explanation
Indices: 121520060--121520106 Score: 60
Period size: 5 Copynumber: 9.0 Consensus size: 5
121520050 CTTCTTTTAT
121520060 ATATA ATAATA ATATA ATATA ATA-A TATAATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA -AT-ATA ATATA ATATA ATATA
121520107 CTTAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 28 0.74
6 8 0.21
7 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:121520078 original size:8 final size:8
Alignment explanation
Indices: 121520060--121520099 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
121520050 CTTCTTTTAT
121520060 ATATAATA
1 ATATAATA
121520068 ATA-ATATA
1 ATATA-ATA
121520076 ATATAATA
1 ATATAATA
121520084 ATATAATA
1 ATATAATA
121520092 ATATAATA
1 ATATAATA
121520100 TAATATACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.03
8 28 0.93
9 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:121520081 original size:13 final size:13
Alignment explanation
Indices: 121520065--121520106 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
121520055 TTTATATATA
121520065 ATAATAATATAAT
1 ATAATAATATAAT
121520078 ATAATAATATAAT
1 ATAATAATATAAT
121520091 A-ATATAATATAAT
1 ATA-ATAATATAAT
121520104 ATA
1 ATA
121520107 CTTAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:121520815 original size:30 final size:30
Alignment explanation
Indices: 121520759--121520815 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
121520749 ACGACCATGA
* *
121520759 CACACGGGTATGTGGCTTGCCTGTGTGCCT
1 CACACGGGTATGTGGCTTACCCGTGTGCCT
* *
121520789 CACACGGGTGTGTGGTTTACCCGTGTG
1 CACACGGGTATGTGGCTTACCCGTGTG
121520816 GAAGTGCCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.11, C:0.25, G:0.35, T:0.30
Consensus pattern (30 bp):
CACACGGGTATGTGGCTTACCCGTGTGCCT
Found at i:121526221 original size:21 final size:21
Alignment explanation
Indices: 121526197--121526393 Score: 131
Period size: 21 Copynumber: 9.6 Consensus size: 21
121526187 AAAGCCAGAA
*
121526197 AGCTTAACAGAAGCTCGTGAG
1 AGCTTAACAGAAGCTCGTAAG
* * * *
121526218 AGCTAAACAGAAACCCATAATG
1 AGCTTAACAGAAGCTCGTAA-G
121526240 -G-TTGAACAGAAGCTCG-AA-
1 AGCTT-AACAGAAGCTCGTAAG
* *
121526258 AGCTAAAAAGAAGCTCG-AA-
1 AGCTTAACAGAAGCTCGTAAG
* * *
121526277 ATCTGAACAGAAGCTCGTGAG
1 AGCTTAACAGAAGCTCGTAAG
* * *
121526298 AACTTAACAGAAACTCTTAAG
1 AGCTTAACAGAAGCTCGTAAG
*
121526319 AG-TTGAATAGAAGCTCGTAAG
1 AGCTT-AACAGAAGCTCGTAAG
* * * *
121526340 AGCTGAACAAAAACTCATAAG
1 AGCTTAACAGAAGCTCGTAAG
121526361 AG-TTAAACAGAAGCTCGTAAG
1 AGCTT-AACAGAAGCTCGTAAG
*
121526382 AGCTAAACAGAA
1 AGCTTAACAGAA
121526394 AGTAAAACAC
Statistics
Matches: 132, Mismatches: 34, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
19 28 0.21
20 8 0.06
21 93 0.70
22 3 0.02
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (21 bp):
AGCTTAACAGAAGCTCGTAAG
Found at i:121526271 original size:19 final size:19
Alignment explanation
Indices: 121526247--121526293 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
121526237 ATGGTTGAAC
121526247 AGAAGCTCGAAAGCTAAAA
1 AGAAGCTCGAAAGCTAAAA
* * *
121526266 AGAAGCTCGAAATCTGAAC
1 AGAAGCTCGAAAGCTAAAA
121526285 AGAAGCTCG
1 AGAAGCTCG
121526294 TGAGAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
AGAAGCTCGAAAGCTAAAA
Found at i:121526354 original size:42 final size:42
Alignment explanation
Indices: 121526202--121526390 Score: 185
Period size: 42 Copynumber: 4.6 Consensus size: 42
121526192 CAGAAAGCTT
* * *
121526202 AACAGAAGCTCGTGAGAGCTAAACAGAAACCCATAATG-GTTG
1 AACAGAAGCTCGTAAGAGCTAAACAAAAACTCATAA-GAGTTG
* *
121526244 AACAGAAGCTCG-AA-AGCTAAA-AAGAAGCTC-GAA-A-TCTG
1 AACAGAAGCTCGTAAGAGCTAAACAA-AAACTCATAAGAGT-TG
* * * * *
121526282 AACAGAAGCTCGTGAGAACTTAACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGTTG
* * *
121526324 AATAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGTTG
121526366 AACAGAAGCTCGTAAGAGCTAAACA
1 AACAGAAGCTCGTAAGAGCTAAACA
121526391 GAAAGTAAAA
Statistics
Matches: 118, Mismatches: 20, Indels: 18
0.76 0.13 0.12
Matches are distributed among these distances:
37 1 0.01
38 14 0.12
39 4 0.03
40 21 0.18
41 4 0.03
42 73 0.62
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGTTG
Found at i:121528771 original size:19 final size:19
Alignment explanation
Indices: 121528747--121528783 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
121528737 AAATCTCAAA
121528747 AAAATCTTTGAACAAATTG
1 AAAATCTTTGAACAAATTG
*
121528766 AAAATCTTTGAAGAAATT
1 AAAATCTTTGAACAAATT
121528784 TTGATGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAATCTTTGAACAAATTG
Found at i:121530724 original size:49 final size:49
Alignment explanation
Indices: 121530671--121530772 Score: 143
Period size: 49 Copynumber: 2.1 Consensus size: 49
121530661 GCTGCCAGAA
*
121530671 CAGATA-ATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCCAC
1 CAGATATATGTGACAGAGCCACTAGAT-CAGATAATCGTGGCAGAGCCAC
* * * *
121530720 CAGATATATGTGGCAGAGCCACTAGATCAGATATTTGTGGCATAGCCAC
1 CAGATATATGTGACAGAGCCACTAGATCAGATAATCGTGGCAGAGCCAC
121530769 CAGA
1 CAGA
121530773 ACGCTTCCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 29 0.62
50 18 0.38
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (49 bp):
CAGATATATGTGACAGAGCCACTAGATCAGATAATCGTGGCAGAGCCAC
Found at i:121530732 original size:22 final size:22
Alignment explanation
Indices: 121530698--121530746 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
121530688 TCACTAGATA
121530698 CAGATAATCGTGGCAGAGCCAC
1 CAGATAATCGTGGCAGAGCCAC
121530720 CAGATATAT-GTGGCAGAGCCAC
1 CAGATA-ATCGTGGCAGAGCCAC
*
121530742 TAGAT
1 CAGAT
121530747 CAGATATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (22 bp):
CAGATAATCGTGGCAGAGCCAC
Found at i:121530751 original size:27 final size:26
Alignment explanation
Indices: 121530671--121530768 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
121530661 GCTGCCAGAA
* *
121530671 CAGATAATGTGACAGAGTCACTAGAT
1 CAGATAATGTGGCAGAGCCACTAGAT
*
121530697 ACAGATAATCGTGGCAGAGCCACCAGAT
1 -CAGATAAT-GTGGCAGAGCCACTAGAT
121530725 ---AT-ATGTGGCAGAGCCACTAGAT
1 CAGATAATGTGGCAGAGCCACTAGAT
* *
121530747 CAGATATTTGTGGCATAGCCAC
1 CAGATA-ATGTGGCAGAGCCAC
121530769 CAGAACGCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
22 17 0.29
23 2 0.03
24 2 0.03
25 2 0.03
27 21 0.36
28 15 0.25
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATAATGTGGCAGAGCCACTAGAT
Found at i:121530772 original size:22 final size:22
Alignment explanation
Indices: 121530698--121530772 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
121530688 TCACTAGATA
* *
121530698 CAGATAATCGTGGCAGAGCCAC
1 CAGATATTTGTGGCAGAGCCAC
*
121530720 CAGATATATGTGGCAGAGCCAC
1 CAGATATTTGTGGCAGAGCCAC
*
121530742 TAGATCAGATATTTGTGGCATAGCCAC
1 -----CAGATATTTGTGGCAGAGCCAC
121530769 CAGA
1 CAGA
121530773 ACGCTTCCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
22 23 0.53
27 20 0.47
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
CAGATATTTGTGGCAGAGCCAC
Found at i:121532420 original size:26 final size:26
Alignment explanation
Indices: 121532384--121532493 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
121532374 CATGAAATTC
121532384 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
121532410 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
121532436 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
121532462 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
121532488 TTATCA
1 TTATCA
121532494 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:121536452 original size:27 final size:26
Alignment explanation
Indices: 121536415--121536529 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
121536405 AGCATGGCTG
* *
121536415 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
121536441 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
121536469 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
121536496 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
121536523 CCAGAAC
1 CCAGAAC
121536530 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:121536474 original size:54 final size:54
Alignment explanation
Indices: 121536415--121536529 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
121536405 AGCATGGCTG
*
121536415 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
121536469 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
121536523 CCAGAAC
1 CCAGAAC
121536530 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:121538176 original size:26 final size:26
Alignment explanation
Indices: 121538140--121538248 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
121538130 CATGAAATTC
121538140 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
121538166 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
121538192 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
121538217 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
121538243 TTATCA
1 TTATCA
121538249 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
25 24 0.30
26 57 0.70
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:121538220 original size:51 final size:52
Alignment explanation
Indices: 121538140--121538248 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
121538130 CATGAAATTC
121538140 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* * *
121538192 TTATCATG-AACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
121538243 TTATCA
1 TTATCA
121538249 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 46 0.85
52 8 0.15
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:121540184 original size:11 final size:11
Alignment explanation
Indices: 121540160--121540311 Score: 51
Period size: 11 Copynumber: 12.9 Consensus size: 11
121540150 TTCTAATACG
*
121540160 TATATATATTA
1 TATATATTTTA
*
121540171 TATGTATTTTA
1 TATATATTTTA
121540182 TATATATTATGTA
1 TATATATT-T-TA
121540195 TATAT-TTTTA
1 TATATATTTTA
**
121540205 -ATGCCATTAGTTA
1 TAT-ATATT--TTA
121540218 TATAT-TTCTTA
1 TATATATT-TTA
* *
121540229 TAT-TATTCCATG
1 TATATATT--TTA
*
121540241 TATGTATTTTA
1 TATATATTTTA
* *
121540252 TATCATCTTTTG
1 TAT-ATATTTTA
121540264 TATATATTCTTA
1 TATATATT-TTA
*
121540276 AATACTATTATATA
1 TATA-TATT-T-TA
*
121540290 TATATATATATA
1 TATATAT-TTTA
121540302 TATATATTTT
1 TATATATTTT
121540312 TTTTTTAAAT
Statistics
Matches: 104, Mismatches: 22, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
9 2 0.02
10 3 0.03
11 37 0.36
12 32 0.31
13 22 0.21
14 8 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (11 bp):
TATATATTTTA
Found at i:121540289 original size:2 final size:2
Alignment explanation
Indices: 121540284--121540308 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
121540274 TAAATACTAT
121540284 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
121540309 TTTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121540345 original size:3 final size:3
Alignment explanation
Indices: 121540337--121540388 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
121540327 GTTGTATATA
* ** * *
121540337 TAT TAT TAT TACT AAT TAT TAT TAT TGC TAG TAT TAT TAT AAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
121540383 TAT TAT
1 TAT TAT
121540389 GTTAGTGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:121540358 original size:16 final size:15
Alignment explanation
Indices: 121540337--121540376 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
121540327 GTTGTATATA
*
121540337 TATTATTATTACTAAT
1 TATTATTATTACT-AG
*
121540353 TATTATTATTGCTAG
1 TATTATTATTACTAG
121540368 TATTATTAT
1 TATTATTAT
121540377 AATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:121540407 original size:17 final size:18
Alignment explanation
Indices: 121540380--121540417 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
121540370 TTATTATAAT
121540380 TATTATTATGTTA-GTGTA
1 TATTATTATG-TACGTGTA
121540398 TATT-TTATGTACGTGTA
1 TATTATTATGTACGTGTA
121540415 TAT
1 TAT
121540418 ATATATGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 13 0.68
18 4 0.21
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (18 bp):
TATTATTATGTACGTGTA
Found at i:121540500 original size:17 final size:17
Alignment explanation
Indices: 121540480--121540558 Score: 56
Period size: 17 Copynumber: 4.6 Consensus size: 17
121540470 GTGGCTTTTG
*
121540480 TATTTTAAT-ATTGTTAT
1 TATTTT-ATCATTATTAT
*
121540497 TATTATATCATTATTAT
1 TATTTTATCATTATTAT
*
121540514 TATTTT-TTATATATTAT
1 TATTTTATCAT-TATTAT
**
121540531 TCATACTATCATTATTA-
1 T-ATTTTATCATTATTAT
121540548 TATTATTATCA
1 TATT-TTATCA
121540559 CTGTTACATT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
16 7 0.15
17 30 0.62
18 8 0.17
19 3 0.06
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (17 bp):
TATTTTATCATTATTAT
Found at i:121540504 original size:14 final size:14
Alignment explanation
Indices: 121540493--121540556 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
121540483 TTTAATATTG
121540493 TTATTATTA-TATCA
1 TTATTATTATTAT-A
*
121540507 TTATTATTATT-TT
1 TTATTATTATTATA
121540520 TTATATATTATTCATA
1 TTAT-TATTATT-ATA
* *
121540536 CTATCATTATTATA
1 TTATTATTATTATA
121540550 TTATTAT
1 TTATTAT
121540557 CACTGTTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 4 0.10
14 25 0.62
15 7 0.17
16 4 0.10
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:121540511 original size:11 final size:10
Alignment explanation
Indices: 121540494--121540556 Score: 56
Period size: 11 Copynumber: 5.9 Consensus size: 10
121540484 TTAATATTGT
121540494 TATTATTATA
1 TATTATTATA
121540504 TCATTATTAT-
1 T-ATTATTATA
*
121540514 TATTTTTTATA
1 TA-TTATTATA
121540525 TATTATTCATA
1 TATTATT-ATA
*
121540536 CTATCATTATTA
1 -TATTATTA-TA
121540548 TATTATTAT
1 TATTATTAT
121540557 CACTGTTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
9 1 0.02
10 13 0.30
11 21 0.49
12 8 0.19
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTATTATA
Found at i:121542631 original size:15 final size:16
Alignment explanation
Indices: 121542611--121542643 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
121542601 TTTTTTTATT
121542611 TTTTAAAAATA-ATAA
1 TTTTAAAAATATATAA
*
121542626 TTTTAAATATATATAA
1 TTTTAAAAATATATAA
121542642 TT
1 TT
121542644 ATTATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAAAATATATAA
Found at i:121545777 original size:18 final size:18
Alignment explanation
Indices: 121545754--121545797 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
121545744 GAATATGTTT
121545754 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
121545772 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
121545790 TTAATTAA
1 TTAATTAA
121545798 CCTTGATTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:121548511 original size:20 final size:19
Alignment explanation
Indices: 121548451--121548511 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
121548441 AACTTTTAAC
121548451 TTTTAATAAATT-AATT-T
1 TTTTAATAAATTAAATTAT
* * *
121548468 TTTGT-ATAAGTAAAATTAC
1 TTT-TAATAAATTAAATTAT
121548487 TTTTAATAAATTAAATTAT
1 TTTTAATAAATTAAATTAT
121548506 TGTTTA
1 T-TTTA
121548512 TCATTTTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 8 0.24
18 6 0.18
19 15 0.45
20 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (19 bp):
TTTTAATAAATTAAATTAT
Found at i:121551398 original size:2 final size:2
Alignment explanation
Indices: 121551391--121551416 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
121551381 TTTACCACAA
121551391 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
121551417 TTAAAAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121558491 original size:24 final size:24
Alignment explanation
Indices: 121558461--121558512 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
121558451 TTAATATCAC
* *
121558461 AAATAAATCACATTATTTAAT-TAA
1 AAATAAATAACATT-TTAAATCTAA
121558485 AAATAAATAACATTTTAAATCTAA
1 AAATAAATAACATTTTAAATCTAA
121558509 AAAT
1 AAAT
121558513 TTATGTAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATAAATAACATTTTAAATCTAA
Found at i:121558599 original size:15 final size:15
Alignment explanation
Indices: 121558579--121558617 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
121558569 TTGAAAATAA
121558579 TAAGTATTGCAAAAT
1 TAAGTATTGCAAAAT
121558594 TAAGTATTGCAAAAT
1 TAAGTATTGCAAAAT
*
121558609 TAAGCATTG
1 TAAGTATTG
121558618 AATTTAAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (15 bp):
TAAGTATTGCAAAAT
Found at i:121558834 original size:15 final size:15
Alignment explanation
Indices: 121558814--121558853 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
121558804 TGTTAAAAGT
121558814 ATTAATTTTTAGTTG
1 ATTAATTTTTAGTTG
121558829 ATTAATTTTTAGTTG
1 ATTAATTTTTAGTTG
121558844 ATTAATTTTT
1 ATTAATTTTT
121558854 TTCAACACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (15 bp):
ATTAATTTTTAGTTG
Found at i:121561392 original size:22 final size:20
Alignment explanation
Indices: 121561360--121561400 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
121561350 TTTTAATGAT
*
121561360 TTTTAATTTTTGAAAATAATTA
1 TTTTAAATTTT-AAAA-AATTA
121561382 TTTTAAATTTTAAAAAATT
1 TTTTAAATTTTAAAAAATT
121561401 TAAAATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTAAATTTTAAAAAATTA
Found at i:121561398 original size:23 final size:23
Alignment explanation
Indices: 121561353--121561399 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
121561343 TAAATAATTT
* **
121561353 TAATGATTTTTAATTTTTGAAAA
1 TAATGATTTTAAATTTTAAAAAA
*
121561376 TAATTATTTTAAATTTTAAAAAA
1 TAATGATTTTAAATTTTAAAAAA
121561399 T
1 T
121561400 TTAAAATGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TAATGATTTTAAATTTTAAAAAA
Found at i:121562466 original size:21 final size:21
Alignment explanation
Indices: 121562442--121562483 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
121562432 ATATTAGAAT
121562442 AAAATTAAT-ATTTATTGTTTA
1 AAAATT-ATCATTTATTGTTTA
121562463 AAAATTATCATTTATTGTTTA
1 AAAATTATCATTTATTGTTTA
121562484 TTAAACTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
AAAATTATCATTTATTGTTTA
Found at i:121564122 original size:31 final size:31
Alignment explanation
Indices: 121564087--121564148 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
121564077 CGATTGTGGC
121564087 AATTTGTGTGTTTTATTGAAGTG-TTGTAGTA
1 AATTTGTGTGTTTTATTGAAG-GCTTGTAGTA
* *
121564118 AATTTTTGTGTTTTGTTGAAGGCTTGTAGTA
1 AATTTGTGTGTTTTATTGAAGGCTTGTAGTA
121564149 GTTTTGTAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.52
Consensus pattern (31 bp):
AATTTGTGTGTTTTATTGAAGGCTTGTAGTA
Found at i:121568283 original size:14 final size:14
Alignment explanation
Indices: 121568264--121568290 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
121568254 CAAAATCGAT
121568264 AAAATTTTCTTATC
1 AAAATTTTCTTATC
121568278 AAAATTTTCTTAT
1 AAAATTTTCTTAT
121568291 GTCATTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:121570385 original size:40 final size:35
Alignment explanation
Indices: 121570268--121570434 Score: 165
Period size: 35 Copynumber: 4.6 Consensus size: 35
121570258 CATGGCAAAG
* *
121570268 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGATATTATCCATACTGAGT
* *
121570303 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGATATTATCCATACTGAGT
121570338 TGTGAAATGTAGGTATGATATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGATA-T-T---ATCCATACTGAGT
** ** *
121570378 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGATATTAT-CCATACTGAGT
** *
121570413 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGATATT
121570435 TCAATGAGGA
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 81 0.71
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 28 0.25
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGATATTATCCATACTGAGT
Found at i:121570388 original size:75 final size:74
Alignment explanation
Indices: 121570268--121570438 Score: 201
Period size: 75 Copynumber: 2.4 Consensus size: 74
121570258 CATGGCAAAG
* ** *
121570268 TGTGAAATGTAGGTATG--GTATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-C
1 TGTGAAATGTAGGTATGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCC
*
121570328 CATACTGAGC
65 CATACCGAGC
121570338 TGTGAAATGTAGGTATGATATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATG-TATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
121570403 CATACCGAGT
65 CATACCGAGC
**
121570413 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTAT-GTATTATCAA
121570439 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 5 0.06
75 59 0.69
76 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (74 bp):
TGTGAAATGTAGGTATGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCC
ATACCGAGC
Found at i:121571811 original size:19 final size:19
Alignment explanation
Indices: 121571787--121571826 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
121571777 TGATGCTTTA
*
121571787 ATGTGGTGTAGTACTAATT
1 ATGTGGTGTAATACTAATT
*
121571806 ATGTGGTGTAATACTAGTT
1 ATGTGGTGTAATACTAATT
121571825 AT
1 AT
121571827 ACACTTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.25, T:0.42
Consensus pattern (19 bp):
ATGTGGTGTAATACTAATT
Found at i:121574650 original size:50 final size:51
Alignment explanation
Indices: 121574573--121574701 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
121574563 GACCATGGCA
* *
121574573 ACAAGTGATAAGTGATAGCTCCGGCTACACTTATCTGATCAAGAACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
* *
121574624 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
* * *
121574674 ACAAGTGAAAAGTGGTAGCTTTGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
121574702 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
Found at i:121574715 original size:31 final size:31
Alignment explanation
Indices: 121574677--121574794 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
121574667 ACAAATGACA
*
121574677 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
121574708 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
121574739 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
121574770 AGTGAATAGTGGTAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
121574795 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:121579472 original size:39 final size:39
Alignment explanation
Indices: 121579418--121579610 Score: 269
Period size: 39 Copynumber: 4.9 Consensus size: 39
121579408 TGTGTATGAA
*
121579418 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
121579457 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
121579496 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
121579535 TGTGCAAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
121579575 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
121579611 TGTTTTGAAC
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 98 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:121582730 original size:17 final size:17
Alignment explanation
Indices: 121582710--121582742 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
121582700 ATTAAGAATG
121582710 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
121582727 TTATTAAATTATATTT
1 TTATTAAATTATATTT
121582743 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:121582746 original size:55 final size:56
Alignment explanation
Indices: 121582687--121582820 Score: 168
Period size: 58 Copynumber: 2.4 Consensus size: 56
121582677 TTAATTCATA
* *
121582687 TAATAATAATTATATTAAGAATGTTATTAAATTA-TA-T-TTTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGATTAAATTATTATTATTTTTATTAAATTAT-TT
*
121582742 TAATAATAATTATGTTAAAATATGATTAAATTATTTATTATTTTTATTAAATTATTT
1 TAATAATAATTATATTAAAATATGATTAAATTA-TTATTATTTTTATTAAATTATTT
121582799 TCAATAATAATCT-TATTAAAAT
1 T-AATAATAAT-TATATTAAAAT
121582821 TTAATAACAA
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
54 13 0.19
55 17 0.25
56 2 0.03
57 4 0.06
58 32 0.46
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (56 bp):
TAATAATAATTATATTAAAATATGATTAAATTATTATTATTTTTATTAAATTATTT
Found at i:121583042 original size:16 final size:16
Alignment explanation
Indices: 121582988--121583042 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
121582978 TGAATTACTG
* * *
121582988 ATTATAACTTTATTCC
1 ATTACAACTCTATTCA
*
121583004 ATTACAGCTCTATTCA
1 ATTACAACTCTATTCA
121583020 ATTACAACTCTATTCA
1 ATTACAACTCTATTCA
121583036 ATTACAA
1 ATTACAA
121583043 GCCTGTTCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:121583055 original size:16 final size:17
Alignment explanation
Indices: 121582998--121583057 Score: 72
Period size: 16 Copynumber: 3.7 Consensus size: 17
121582988 ATTATAACTT
*
121582998 TATTCCATTAC-AGCTC
1 TATTCAATTACAAGCTC
121583014 TATTCAATTACAA-CTC
1 TATTCAATTACAAGCTC
121583030 TATTCAATTACAAGC-C
1 TATTCAATTACAAGCTC
* *
121583046 TGTTCCATTACA
1 TATTCAATTACA
121583058 GTGAACCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
16 37 0.95
17 2 0.05
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (17 bp):
TATTCAATTACAAGCTC
Found at i:121585275 original size:105 final size:104
Alignment explanation
Indices: 121585086--121585387 Score: 424
Period size: 105 Copynumber: 2.9 Consensus size: 104
121585076 AATAAAAAAG
*
121585086 AATTAATAATTTTATTCTGTTAATTAACAGTAATACTATCACCTTCAAATAAAAGAAAGCTTACA
1 AATT-ATAATTTTATTTTGTTAATTAACAGTAATACTATCA-CTTCAAATAAAAGAAAGCTTACA
* * ** *
121585151 ACATCTCATTTCCAGAGAAACAAAAACTAATTAATGATTTA
64 ACATCTCATTTTCAAAGAAACAAAAAAGAATTAATAATTTA
* *
121585192 AATTATAATTTTATTTTATTAATTAACAGTAATACTATCATCTTCAAATAAAAGAAAGTTTACAA
1 AATTATAATTTTATTTTGTTAATTAACAGTAATACTATCA-CTTCAAATAAAAGAAAGCTTACAA
* * *
121585257 TATCTTATTTTCACAGAAACAAAAAAGAATTAATAATTTA
65 CATCTCATTTTCAAAGAAACAAAAAAGAATTAATAATTTA
* * * *
121585297 AATTATATTTTTATTTTGTTAATTAATAGTGATACTATCACGTTCAAATAAAAGAAAGCTTACAG
1 AATTATAATTTTATTTTGTTAATTAACAGTAATACTATCAC-TTCAAATAAAAGAAAGCTTACAA
*
121585362 CATCTCCTTTTCAAAGAAACAAAAAA
65 CATCTCATTTTCAAAGAAACAAAAAA
121585388 AAATAGTAAT
Statistics
Matches: 174, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
104 1 0.01
105 169 0.97
106 4 0.02
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (104 bp):
AATTATAATTTTATTTTGTTAATTAACAGTAATACTATCACTTCAAATAAAAGAAAGCTTACAAC
ATCTCATTTTCAAAGAAACAAAAAAGAATTAATAATTTA
Found at i:121588576 original size:13 final size:13
Alignment explanation
Indices: 121588560--121588586 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
121588550 TAGATGATCC
121588560 ATTGTGATGGACT
1 ATTGTGATGGACT
121588573 ATTGTGATGGACT
1 ATTGTGATGGACT
121588586 A
1 A
121588587 GGATAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (13 bp):
ATTGTGATGGACT
Found at i:121603376 original size:4 final size:4
Alignment explanation
Indices: 121603367--121603391 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
121603357 TATTGTACGA
121603367 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
121603392 TTGCATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:121607597 original size:22 final size:23
Alignment explanation
Indices: 121607569--121607623 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
121607559 TATGATTTGT
*
121607569 ATATTTAAATTAAGTCT-TACAA
1 ATATTTAAATTAAGTATGTACAA
* *
121607591 ATATTTATATTAATTATGTACAA
1 ATATTTAAATTAAGTATGTACAA
121607614 AGTATTTAAA
1 A-TATTTAAA
121607624 ATTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 14 0.52
23 6 0.22
24 7 0.26
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
ATATTTAAATTAAGTATGTACAA
Found at i:121608127 original size:8 final size:8
Alignment explanation
Indices: 121608114--121608147 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
121608104 TTTACATTAC
121608114 TATTTATA
1 TATTTATA
121608122 TATTTATA
1 TATTTATA
121608130 TATTTATA
1 TATTTATA
*
121608138 TATTTTTA
1 TATTTATA
121608146 TA
1 TA
121608148 ATTTTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATTTATA
Found at i:121611212 original size:32 final size:32
Alignment explanation
Indices: 121611171--121611232 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
121611161 GATAATTTAA
121611171 TGTCGATTGACTCAATATTAATTCTACAACCC
1 TGTCGATTGACTCAATATTAATTCTACAACCC
121611203 TGTCGATTGACTCAATATTAATTCTACAAC
1 TGTCGATTGACTCAATATTAATTCTACAAC
121611233 TCTTCGACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (32 bp):
TGTCGATTGACTCAATATTAATTCTACAACCC
Found at i:121611630 original size:21 final size:21
Alignment explanation
Indices: 121611612--121611675 Score: 128
Period size: 21 Copynumber: 3.0 Consensus size: 21
121611602 CTTGTGTGGA
121611612 CAAGGGACACGCCCATGTGAC
1 CAAGGGACACGCCCATGTGAC
121611633 CAAGGGACACGCCCATGTGAC
1 CAAGGGACACGCCCATGTGAC
121611654 CAAGGGACACGCCCATGTGAC
1 CAAGGGACACGCCCATGTGAC
121611675 C
1 C
121611676 CTAAGACATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.28, C:0.34, G:0.28, T:0.09
Consensus pattern (21 bp):
CAAGGGACACGCCCATGTGAC
Found at i:121611689 original size:42 final size:41
Alignment explanation
Indices: 121611612--121611692 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 41
121611602 CTTGTGTGGA
121611612 CAAGGGACACGCCCATGTGACCAAGGGACACGCCCATGTGAC
1 CAAGGGACACGCCCATGTGACCAA-GGACACGCCCATGTGAC
*
121611654 CAAGGGACACGCCCATGTGACCCTAA-GACATGCCCATGT
1 CAAGGGACACGCCCATGTGA-CC-AAGGACACGCCCATGT
121611693 TTCAGGCCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 32 0.89
43 2 0.06
44 2 0.06
ACGTcount: A:0.28, C:0.33, G:0.26, T:0.12
Consensus pattern (41 bp):
CAAGGGACACGCCCATGTGACCAAGGACACGCCCATGTGAC
Found at i:121612673 original size:34 final size:34
Alignment explanation
Indices: 121612628--121612702 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
121612618 CAGTATCAAA
121612628 TATGCAGTAGGGCCTTAGCCCATCACAGTATTAG
1 TATGCAGTAGGGCCTTAGCCCATCACAGTATTAG
*
121612662 TATGCATTAGGGCCTTAGCCCATCACAGTATTAG
1 TATGCAGTAGGGCCTTAGCCCATCACAGTATTAG
121612696 TA-GCAGT
1 TATGCAGT
121612703 CATGCAGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (34 bp):
TATGCAGTAGGGCCTTAGCCCATCACAGTATTAG
Found at i:121613180 original size:17 final size:17
Alignment explanation
Indices: 121613160--121613195 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
121613150 AACCTAACCC
*
121613160 AAAAAAAA-ACAAAGAA
1 AAAAAAAAGAAAAAGAA
121613176 AAAAAAAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
121613193 AAA
1 AAA
121613196 CCTACCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:121613194 original size:11 final size:11
Alignment explanation
Indices: 121613162--121613195 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
121613152 CCTAACCCAA
121613162 AAAAAAACAAAG
1 AAAAAAA-AAAG
121613174 AAAAAAAAAAG
1 AAAAAAAAAAG
121613185 AAAAAGAAAAA
1 AAAAA-AAAAA
121613196 CCTACCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:121613210 original size:16 final size:15
Alignment explanation
Indices: 121613191--121613225 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
121613181 AAAGAAAAAG
121613191 AAAAACCT-ACCCTAA
1 AAAAACCTAACCC-AA
121613206 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
121613221 AAAAA
1 AAAAA
121613226 AAAAAGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:121613226 original size:16 final size:15
Alignment explanation
Indices: 121613191--121613226 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
121613181 AAAGAAAAAG
*
121613191 AAAAACCTACCCTAA
1 AAAAACCTACCCAAA
121613206 AAAAACCTAACCCAAA
1 AAAAACCT-ACCCAAA
121613222 AAAAA
1 AAAAA
121613227 AAAAGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08
Consensus pattern (15 bp):
AAAAACCTACCCAAA
Found at i:121613266 original size:59 final size:59
Alignment explanation
Indices: 121613145--121613273 Score: 147
Period size: 59 Copynumber: 2.2 Consensus size: 59
121613135 AGCCCCCCAA
** * *
121613145 AAAAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAAGAAAAAGAAAAACCTACCCT
1 AAAAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAAGAAAAAGAAAAACAAAACAT
* * *
121613204 AAAAAAACCTAACCCAAAAAAAAA-AAAG-AAGAAAAAAGAAAAACCTAACAAA-AAAAGAT
1 AAAAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAAGAAAAA--GAA-AAACAAAACAT
121613263 AAAAAAACCTA
1 AAAAAAACCTA
121613274 GCCACCTAAC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
57 14 0.23
58 4 0.07
59 39 0.65
60 3 0.05
ACGTcount: A:0.73, C:0.16, G:0.05, T:0.05
Consensus pattern (59 bp):
AAAAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAAGAAAAAGAAAAACAAAACAT
Found at i:121613536 original size:19 final size:20
Alignment explanation
Indices: 121613514--121613560 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
121613504 TCTTTTTTCC
121613514 TCTTCTTTCGAATT-TTTTT
1 TCTTCTTTCGAATTGTTTTT
* * *
121613533 TCTTTTTTTGTATTGTTTTT
1 TCTTCTTTCGAATTGTTTTT
121613553 T-TTCTTTC
1 TCTTCTTTC
121613561 TTTATATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.74
Consensus pattern (20 bp):
TCTTCTTTCGAATTGTTTTT
Found at i:121615813 original size:12 final size:12
Alignment explanation
Indices: 121615796--121615831 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
121615786 TCATGACTGA
121615796 CATTCATGCATT
1 CATTCATGCATT
121615808 CATTCATGCATT
1 CATTCATGCATT
*
121615820 CATTCATACATT
1 CATTCATGCATT
121615832 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:121621209 original size:71 final size:69
Alignment explanation
Indices: 121621015--121621278 Score: 332
Period size: 71 Copynumber: 3.7 Consensus size: 69
121621005 GAGTTAAGCC
* *
121621015 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
121621080 GAGGTAT
63 GAGGTAT
* * ** * *
121621087 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTG
121621151 AGGTAT
64 AGGTAT
121621157 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
121621222 AGGTAT
64 AGGTAT
* * ** * *
121621228 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
121621279 TTTAATTTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
69 35 0.21
70 56 0.34
71 60 0.36
72 16 0.10
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAG
GTAT
Found at i:121621323 original size:122 final size:123
Alignment explanation
Indices: 121621157--121621402 Score: 397
Period size: 122 Copynumber: 2.0 Consensus size: 123
121621147 GTTGAGGTAT
121621157 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* * *
121621222 AGGTATTTTTAGTTTATGT-TTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATTTATGTGTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
121621278 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * *
121621343 GAGGTATTTTCAATTTTTGTGTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATTTATGTGTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
121621402 T
1 T
121621403 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
121 12 0.11
122 67 0.59
123 7 0.06
124 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATTTATGTGTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:121621326 original size:193 final size:204
Alignment explanation
Indices: 121621105--121621637 Score: 601
Period size: 193 Copynumber: 2.6 Consensus size: 204
121621095 TTTGTGTTTT
* * * *
121621105 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* *
121621170 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TT-TTT-
66 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTATTTC
**
121621232 AG-TTT-A-T-GTT-TT-A-AATTGACTCATATTGCGAGAGGT-GAGTT-AAGCCTTTTAATTT-
131 AGTTTTAATTAGTTGTTAAGAATCAACTCATATTGCGAGAGGTAG-GTTGAA-CCTTTTAATTTC
**
121621287 TTGTTTTTCAA
194 TACTTTTTCAA
* * *
121621298 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
** *
121621363 GTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
66 -TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA-TTT--A
*
121621427 TTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTT
127 TTTCAGTTTT-AA-TTA-GTTGTT-AAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTT
121621492 AATTTCTACTTTTTCAA
188 AATTTCTACTTTTTCAA
* *
121621509 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* * * * * *
121621574 TGTCAAAAAAATCAACT-GTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
66 TTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--GCACGCTGAGGTATTT
121621638 TCAATTTCCG
Statistics
Matches: 283, Mismatches: 30, Indels: 33
0.82 0.09 0.10
Matches are distributed among these distances:
193 106 0.37
194 3 0.01
195 2 0.01
198 3 0.01
199 1 0.00
200 3 0.01
202 1 0.00
204 1 0.00
206 3 0.01
207 2 0.01
209 1 0.00
210 37 0.13
211 72 0.25
213 26 0.09
214 11 0.04
215 11 0.04
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (204 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTATTTC
AGTTTTAATTAGTTGTTAAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTTAATTTCTA
CTTTTTCAA
Found at i:121621399 original size:71 final size:71
Alignment explanation
Indices: 121621278--121621442 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
121621268 GAGTTAAGCC
** * *
121621278 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
121621342 TGAGGTA
65 TGAGGTA
*
121621349 TTTTCAATTTTTGTGTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
121621413 TGAGGTA
65 TGAGGTA
*
121621420 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTCAATTT
121621443 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
70 3 0.04
71 71 0.84
72 11 0.13
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:121621609 original size:73 final size:75
Alignment explanation
Indices: 121621507--121621810 Score: 215
Period size: 76 Copynumber: 3.9 Consensus size: 75
121621497 CTACTTTTTC
* *
121621507 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAATTTC
121621571 TGTTGTCAAA
66 TGTTGTCAAA
* * *
121621581 AAAATCAACT-GTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAATTT
* *
121621645 CCGTTTTTCAATTTTTGCCTTTCA
65 CTG-TTGTCAA------------A
*** * * *
121621669 AAAA--AA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCA
1 AAAATCAACTC-A-T-ATTGCGAGAG--GCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCA
121621730 ATTTCTGTTGTCAAA
61 ATTTCTGTTGTCAAA
* * * * * *
121621745 AAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCACACGCCGAGGTAATTTCAATTT
121621810 C
65 C
121621811 ATTTTTCAAT
Statistics
Matches: 176, Mismatches: 28, Indels: 50
0.69 0.11 0.20
Matches are distributed among these distances:
73 26 0.15
74 26 0.15
75 23 0.13
76 37 0.21
77 1 0.01
78 2 0.01
79 2 0.01
85 1 0.01
86 2 0.01
88 12 0.07
89 28 0.16
91 16 0.09
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAATTTC
TGTTGTCAAA
Found at i:121621772 original size:74 final size:76
Alignment explanation
Indices: 121621666--121621810 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
121621656 TTTTTGCCTT
*
121621666 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
121621728 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
121621740 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
121621805 AATTTC
66 AATTTC
121621811 ATTTTTCAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:121621818 original size:164 final size:164
Alignment explanation
Indices: 121621507--121622141 Score: 695
Period size: 164 Copynumber: 3.9 Consensus size: 164
121621497 CTACTTTTTC
121621507 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * *
121621572 GTTGTCAAAAAAATCAACT-GTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
* * *
121621636 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAA
131 TTTCAATTTACATTTTTCAA-TTTTGCATTTCAAA
121621671 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
121621736 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
121621801 TTTCAATTT-CATTTTTCAATTTCTGCATTTCAAAAAAAAAA
131 TTTCAATTTACATTTTTCAATTT-TGCATTTC-------AAA
*
121621842 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * ** * *
121621907 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
*
121621968 TTTC-----A-A--TTTC-----TG-TTTTC-AA
131 TTTCAATTTACATTTTTCAATTTTGCATTTCAAA
* * * * * *
121621987 AAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA--CGCTGAGGTAATTTCAATT
* * * *
121622051 TCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC-ACTGA
63 TCTGT-TGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GA
*
121622115 GGTATTTTTTCAATTTATATTTTTCAA
126 GGTA--TTTTCAATTTACATTTTTCAA
121622142 AAAAATCAAC
Statistics
Matches: 408, Mismatches: 32, Indels: 62
0.81 0.06 0.12
Matches are distributed among these distances:
144 2 0.00
145 38 0.09
147 21 0.05
148 4 0.01
150 34 0.08
151 1 0.00
152 10 0.02
153 4 0.01
154 7 0.02
159 1 0.00
160 5 0.01
162 5 0.01
163 3 0.01
164 99 0.24
165 50 0.12
167 17 0.04
168 1 0.00
169 34 0.08
171 72 0.18
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (164 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
TTTCAATTTACATTTTTCAATTTTGCATTTCAAA
Found at i:121621929 original size:72 final size:73
Alignment explanation
Indices: 121621840--121622346 Score: 406
Period size: 72 Copynumber: 6.5 Consensus size: 73
121621830 TCAAAAAAAA
*
121621840 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
121621905 CTGTTTTC
66 CTGTTTTC
* * ** ** *
121621913 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
121621977 CTGTTTTC
66 CTGTTTTC
* * * ** *
121621985 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
121622050 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
121622061 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
121622126 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
121622140 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
121622204 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
121622217 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
121622282 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
121622309 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
121622347 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 53, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.09
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 54 0.16
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:121622163 original size:79 final size:76
Alignment explanation
Indices: 121621839--121622556 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
121621829 TTCAAAAAAA
** *
121621839 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
121621902 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
121621913 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
121621974 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
121621985 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
121622049 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
121622061 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
121622126 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
121622140 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
121622204 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
121622217 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
121622282 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
121622309 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
121622373 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
121622396 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
121622457 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
121622471 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
121622536 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
121622557 TAATGTCTGT
Statistics
Matches: 503, Mismatches: 84, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 120 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:121622217 original size:14 final size:13
Alignment explanation
Indices: 121622198--121622233 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
121622188 TGTCGAGGTA
121622198 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
121622211 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
121622225 TTTTCAAAA
1 TTTTCAAAA
121622234 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:121622364 original size:30 final size:30
Alignment explanation
Indices: 121622328--121622389 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
121622318 CAACTCATAT
121622328 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
121622358 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
121622388 TG
1 TG
121622390 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:121622490 original size:254 final size:248
Alignment explanation
Indices: 121621979--121622557 Score: 762
Period size: 254 Copynumber: 2.3 Consensus size: 248
121621969 TTCAATTTCT
* * *
121621979 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
121622044 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
121622105 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
121622170 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
121622224 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
121622288 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
121622353 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
121622415 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
121622478 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
121622542 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
121622558 AATGTCTGTT
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 146 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:121623205 original size:16 final size:16
Alignment explanation
Indices: 121623184--121623269 Score: 58
Period size: 16 Copynumber: 5.7 Consensus size: 16
121623174 CATTAAGCCC
121623184 CCCAAAAAAAACCTAA
1 CCCAAAAAAAACCTAA
*
121623200 CCCAAAAAAAAAC-AA
1 CCCAAAAAAAACCTAA
**
121623215 -AGAAAAAAAA---AA
1 CCCAAAAAAAACCTAA
***
121623227 GAAAAAGAAAAACCT-A
1 CCCAAA-AAAAACCTAA
*
121623243 CCCTAAAAAAACCTAA
1 CCCAAAAAAAACCTAA
121623259 CCCAAAAAAAA
1 CCCAAAAAAAA
121623270 AAAAGAAGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
12 2 0.04
13 4 0.07
14 13 0.24
15 10 0.18
16 26 0.47
ACGTcount: A:0.70, C:0.22, G:0.03, T:0.05
Consensus pattern (16 bp):
CCCAAAAAAAACCTAA
Found at i:121623223 original size:17 final size:17
Alignment explanation
Indices: 121623203--121623238 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
121623193 AACCTAACCC
*
121623203 AAAAAAAA-ACAAAGAA
1 AAAAAAAAGAAAAAGAA
121623219 AAAAAAAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
121623236 AAA
1 AAA
121623239 CCTACCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:121623237 original size:11 final size:11
Alignment explanation
Indices: 121623205--121623238 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
121623195 CCTAACCCAA
121623205 AAAAAAACAAAG
1 AAAAAAA-AAAG
121623217 AAAAAAAAAAG
1 AAAAAAAAAAG
121623228 AAAAAGAAAAA
1 AAAAA-AAAAA
121623239 CCTACCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:121623252 original size:15 final size:15
Alignment explanation
Indices: 121623234--121623268 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
121623224 AAAGAAAAAG
121623234 AAAAACCT-ACCCTAA
1 AAAAACCTAACCC-AA
121623249 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
121623264 AAAAA
1 AAAAA
121623269 AAAAAGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:121623309 original size:59 final size:59
Alignment explanation
Indices: 121623188--121623316 Score: 147
Period size: 59 Copynumber: 2.2 Consensus size: 59
121623178 AAGCCCCCCA
** * *
121623188 AAAAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAAGAAAAAGAAAAACCTACCCT
1 AAAAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAAGAAAAAGAAAAACAAAACAT
* * *
121623247 AAAAAAACCTAACCCAAAAAAAAA-AAAG-AAGAAAAAAGAAAAACCTAACAAA-AAAAGAT
1 AAAAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAAGAAAAA--GAA-AAACAAAACAT
121623306 AAAAAAACCTA
1 AAAAAAACCTA
121623317 GCCACCTAAC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
57 14 0.23
58 4 0.07
59 39 0.65
60 3 0.05
ACGTcount: A:0.73, C:0.16, G:0.05, T:0.05
Consensus pattern (59 bp):
AAAAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAAGAAAAAGAAAAACAAAACAT
Found at i:121626593 original size:16 final size:17
Alignment explanation
Indices: 121626561--121626595 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
121626551 ATTAAACAAG
*
121626561 AATTTTACAATATTTAT
1 AATTTTACAACATTTAT
121626578 AATTTTA-AACATTTAT
1 AATTTTACAACATTTAT
121626594 AA
1 AA
121626596 CAAAAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTACAACATTTAT
Found at i:121627189 original size:15 final size:15
Alignment explanation
Indices: 121627169--121627202 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
121627159 CATATACTAA
121627169 TAATTCAATTCAATT
1 TAATTCAATTCAATT
121627184 TAATTCAATTCAATT
1 TAATTCAATTCAATT
121627199 TAAT
1 TAAT
121627203 ACCAATACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTCAATTCAATT
Found at i:121627505 original size:20 final size:20
Alignment explanation
Indices: 121627465--121627505 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
121627455 AGTCCTTAAA
** *
121627465 TCCAAACTAATTCTTTTTCT
1 TCCAAACTAATTCCATATCT
121627485 TCCAAACTAATTCCATATCT
1 TCCAAACTAATTCCATATCT
121627505 T
1 T
121627506 ATCCAATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (20 bp):
TCCAAACTAATTCCATATCT
Found at i:121627952 original size:30 final size:32
Alignment explanation
Indices: 121627913--121627990 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 32
121627903 TATTAAACTA
121627913 TTATAATATAATATAATATAATAA-TAT-TATT
1 TTAT-ATATAATATAATATAATAAGTATGTATT
* *
121627944 TTATATATACT-TAA-ATATTAAGTATGTATT
1 TTATATATAATATAATATAATAAGTATGTATT
*
121627974 TAATATA-AATA-AATATA
1 TTATATATAATATAATATA
121627991 TGTATATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
28 6 0.15
29 10 0.26
30 19 0.49
31 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (32 bp):
TTATATATAATATAATATAATAAGTATGTATT
Found at i:121627988 original size:28 final size:26
Alignment explanation
Indices: 121627903--121627989 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 26
121627893 TTTACTTTAT
*
121627903 TATTAA-ACTATTATAATATAATATAATA
1 TATTAATATTATT-TAATATAA-ATAA-A
* **
121627931 TAATAATATTATTTTATATATACTTAAA
1 TATTAATATTA-TTTA-ATATAAATAAA
121627959 TATTAAGTATGTATTTAATATAAATAAA
1 TATTAA-TAT-TATTTAATATAAATAAA
121627987 TAT
1 TAT
121627990 ATGTATATCA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
28 23 0.49
29 15 0.32
30 9 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TATTAATATTATTTAATATAAATAAA
Found at i:121634105 original size:16 final size:17
Alignment explanation
Indices: 121634073--121634107 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
121634063 ATTAAACAAG
*
121634073 AATTTTACAATATTTAT
1 AATTTTACAACATTTAT
121634090 AATTTTA-AACATTTAT
1 AATTTTACAACATTTAT
121634106 AA
1 AA
121634108 CAAAAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTACAACATTTAT
Found at i:121634709 original size:15 final size:15
Alignment explanation
Indices: 121634685--121634724 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
121634675 CATATACTTA
*
121634685 TAATTTAATTCAATT
1 TAATTCAATTCAATT
121634700 TAATTCAATTCAATT
1 TAATTCAATTCAATT
121634715 TAATATCAAT
1 TAAT-TCAAT
121634725 ACTCACCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTCAATTCAATT
Found at i:121635415 original size:21 final size:20
Alignment explanation
Indices: 121635385--121635423 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
121635375 TCTACTTATG
121635385 TTTTTTTATTGTT-TTATTTC
1 TTTTTTTATT-TTATTATTTC
121635405 TTTTATTTATTTTATTATT
1 TTTT-TTTATTTTATTATT
121635424 AAGCTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTTTATTTTATTATTTC
Found at i:121635439 original size:5 final size:5
Alignment explanation
Indices: 121635431--121635469 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
121635421 ATTAAGCTAT
121635431 TATAA TATAA TATAATA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TAT-A-A TATAA TATAA TATAA TATAA TA
121635470 ATATTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 26 0.81
6 2 0.06
7 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:121635452 original size:12 final size:12
Alignment explanation
Indices: 121635435--121635469 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
121635425 AGCTATTATA
121635435 ATATAATATAAT
1 ATATAATATAAT
121635447 ATATAATAT-A-
1 ATATAATATAAT
121635457 ATATAATATAAT
1 ATATAATATAAT
121635469 A
1 A
121635470 ATATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.43
11 2 0.10
12 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATAATATAAT
Found at i:121635453 original size:17 final size:17
Alignment explanation
Indices: 121635431--121635473 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
121635421 ATTAAGCTAT
121635431 TATAATATAATATAATA
1 TATAATATAATATAATA
121635448 TATAATATAATATAATA
1 TATAATATAATATAATA
121635465 TAATAATAT
1 T-ATAATAT
121635474 TATTTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATAATATAATATAATA
Found at i:121642614 original size:2 final size:2
Alignment explanation
Indices: 121642607--121642654 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
121642597 ATTATAGTTG
121642607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121642649 AT AT AT
1 AT AT AT
121642655 CATCGTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121645051 original size:27 final size:27
Alignment explanation
Indices: 121645021--121645074 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
121645011 GTATGATATG
*
121645021 TTAACTTTAAATAGATCTGTGATGAAC
1 TTAACTTTAAATAGATCTATGATGAAC
121645048 TTAACTTTAAATAGATCTATGATGAAC
1 TTAACTTTAAATAGATCTATGATGAAC
121645075 CCATCATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (27 bp):
TTAACTTTAAATAGATCTATGATGAAC
Found at i:121651399 original size:43 final size:43
Alignment explanation
Indices: 121651346--121651445 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
121651336 CCGCAAATGA
* *
121651346 TCATGACTTTTAGCGGCGTTTATGGGAAAA--TTGCTGCTAAAAG
1 TCATGGCTTTTAGCGACGTTTATGGGAAAAGCTT-C-GCTAAAAG
* *
121651389 TCATGGCTTTTAGCGACGTTTGTGGGAGAAGCTTCGCTAAAAG
1 TCATGGCTTTTAGCGACGTTTATGGGAAAAGCTTCGCTAAAAG
121651432 TCATGGCTTTTAGC
1 TCATGGCTTTTAGC
121651446 AGCGCTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 48 0.94
44 1 0.02
45 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TCATGGCTTTTAGCGACGTTTATGGGAAAAGCTTCGCTAAAAG
Found at i:121651646 original size:33 final size:31
Alignment explanation
Indices: 121651563--121651648 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
121651553 AACCCTTCCT
* * *
121651563 GCATTAAATGCAACCAAAAACAGCAAATATG
1 GCATAAAATACAACCAAAAACAGCAAATATA
* * *
121651594 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATAAAATACAACCAAAAACAGCAAATATA
121651625 GCATAAAAAATACAACCAAAAACA
1 GCAT--AAAATACAACCAAAAACA
121651649 TTAAATCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 31 0.66
33 16 0.34
ACGTcount: A:0.56, C:0.21, G:0.10, T:0.13
Consensus pattern (31 bp):
GCATAAAATACAACCAAAAACAGCAAATATA
Found at i:121654123 original size:21 final size:21
Alignment explanation
Indices: 121654099--121654141 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
121654089 GCATAACTTG
121654099 TAATTGAAGAATTAACAACTA
1 TAATTGAAGAATTAACAACTA
121654120 TAATTGAAGAATTAACAACTA
1 TAATTGAAGAATTAACAACTA
121654141 T
1 T
121654142 TCCACAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.30
Consensus pattern (21 bp):
TAATTGAAGAATTAACAACTA
Found at i:121655649 original size:12 final size:12
Alignment explanation
Indices: 121655634--121655659 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
121655624 ATCATCCTCT
121655634 TCATCAGATTCA
1 TCATCAGATTCA
121655646 TCATCAGATTCA
1 TCATCAGATTCA
121655658 TC
1 TC
121655660 CCTCGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:121657382 original size:9 final size:9
Alignment explanation
Indices: 121657368--121657482 Score: 59
Period size: 9 Copynumber: 13.7 Consensus size: 9
121657358 TAAGTATAAT
121657368 TAAGTTATG
1 TAAGTTATG
121657377 TAAGTTATG
1 TAAGTTATG
* * *
121657386 ATATGATATA
1 -TAAGTTATG
*
121657396 T-ATTTATG
1 TAAGTTATG
*
121657404 TAAATTATG
1 TAAGTTATG
121657413 TAAGTTATG
1 TAAGTTATG
*
121657422 -AAATT-TG
1 TAAGTTATG
121657429 -AA--TAT-
1 TAAGTTATG
* *
121657434 TAAATTATA
1 TAAGTTATG
121657443 TAAGTTATG
1 TAAGTTATG
121657452 T-A-TTATG
1 TAAGTTATG
*
121657459 TAAATTATG
1 TAAGTTATG
*
121657468 TAAATTATG
1 TAAGTTATG
*
121657477 TGAGTT
1 TAAGTT
121657483 GCTGGTGAAC
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 10 0.12
8 13 0.16
9 50 0.60
10 6 0.07
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:121657475 original size:25 final size:25
Alignment explanation
Indices: 121657407--121657477 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
121657397 ATTTATGTAA
*
121657407 ATTATGTAAGTTATG-AAATT-TG-
1 ATTATGTAAATTATGTAAATTATGT
* * *
121657429 AATAT-TAAATTATATAAGTTATGT
1 ATTATGTAAATTATGTAAATTATGT
121657453 ATTATGTAAATTATGTAAATTATGT
1 ATTATGTAAATTATGTAAATTATGT
121657478 GAGTTGCTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 7 0.18
22 8 0.21
23 2 0.05
24 4 0.11
25 17 0.45
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (25 bp):
ATTATGTAAATTATGTAAATTATGT
Found at i:121662877 original size:14 final size:14
Alignment explanation
Indices: 121662858--121662902 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
121662848 CCAAAATTAT
121662858 ACCCTAAACCTTAA
1 ACCCTAAACCTTAA
* *
121662872 ACCCTAAATCTTGA
1 ACCCTAAACCTTAA
**
121662886 ATTCTAAACCTTAA
1 ACCCTAAACCTTAA
121662900 ACC
1 ACC
121662903 ACAAACACCA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.40, C:0.31, G:0.02, T:0.27
Consensus pattern (14 bp):
ACCCTAAACCTTAA
Found at i:121663431 original size:27 final size:29
Alignment explanation
Indices: 121663382--121663435 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
121663372 ACCCTAATCC
121663382 CTAAAACAATAAACCCCAAAACCCAAACT
1 CTAAAACAATAAACCCCAAAACCCAAACT
*
121663411 CTAAAAC-ATAAA-CCCATAACCCAAA
1 CTAAAACAATAAACCCCAAAACCCAAA
121663436 ATAATAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
28 5 0.21
29 7 0.29
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.11
Consensus pattern (29 bp):
CTAAAACAATAAACCCCAAAACCCAAACT
Found at i:121663443 original size:28 final size:29
Alignment explanation
Indices: 121663383--121663443 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
121663373 CCCTAATCCC
* *
121663383 TAAAACAATAAACCCCAAAACCCAAACTC
1 TAAAACAATAAACCCCAAAACCCAAAATA
*
121663412 TAAAAC-ATAAA-CCCATAACCCAAAATAA
1 TAAAACAATAAACCCCAAAACCCAAAAT-A
121663440 TAAA
1 TAAA
121663444 CATTATATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.46
28 9 0.32
29 6 0.21
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (29 bp):
TAAAACAATAAACCCCAAAACCCAAAATA
Found at i:121670799 original size:5 final size:5
Alignment explanation
Indices: 121670789--121670822 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
121670779 TGATTTCCAA
121670789 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAA
121670823 ATCTACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTAAT
Found at i:121671988 original size:24 final size:25
Alignment explanation
Indices: 121671939--121671987 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
121671929 GTAAATTATG
121671939 TTTTTCTTTAATATCCAAAGTAAAA
1 TTTTTCTTTAATATCCAAAGTAAAA
*
121671964 TTTTT-TTTCAATATCTAAAGTAAA
1 TTTTTCTTT-AATATCCAAAGTAAA
121671988 TGATGTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (25 bp):
TTTTTCTTTAATATCCAAAGTAAAA
Found at i:121673781 original size:21 final size:22
Alignment explanation
Indices: 121673737--121673783 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
121673727 ACCATCCAAG
*
121673737 CATACATAAAACCATAGCATTT
1 CATAAATAAAACCATAGCATTT
* *
121673759 CATAAATATAACCATTG-ATTT
1 CATAAATAAAACCATAGCATTT
121673780 CATA
1 CATA
121673784 TTCAATCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (22 bp):
CATAAATAAAACCATAGCATTT
Done.