Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 355 of 356
Found at i:113682433 original size:40 final size:37
Alignment explanation
Indices: 113682375--113682509 Score: 179
Period size: 35 Copynumber: 3.7 Consensus size: 37
113682365 TTTTCCTCAT
**
113682375 TGAAATACCATACCTACATTTCTTAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
* *
113682412 TTTGATAATACCATACCTACATTTCACAGCTTAGTATGGA
1 --TGA-AATACCATACCTACATTTCACAACTCAGTATGGA
113682452 T--AATACCATACCTACATTTCACAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
113682487 TG--ATACCATACCTACATTTCACA
1 TGAAATACCATACCTACATTTCACA
113682510 CTTTCCCATG
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
35 54 0.61
38 1 0.01
39 3 0.03
40 30 0.34
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCACAACTCAGTATGGA
Found at i:113686396 original size:22 final size:23
Alignment explanation
Indices: 113686351--113686399 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
113686341 TAAATATATA
* *
113686351 TATTTTTAATCATATTTACATTT
1 TATTTTTAATCATAATCACATTT
*
113686374 TATTTTTAAT-ATAATCACTTTT
1 TATTTTTAATCATAATCACATTT
113686396 TATT
1 TATT
113686400 ATATTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTTTAATCATAATCACATTT
Found at i:113687570 original size:52 final size:52
Alignment explanation
Indices: 113687510--113687608 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
113687500 CTCTATTCTC
* *
113687510 GTGAATGATTTTTTGTTGTTCTTGATCTAAGTGGGTTCTTTTTCTTAATGTT
1 GTGAATGATTTTTTGTTGTTCTTAATCTAAGTGAGTTCTTTTTCTTAATGTT
* *
113687562 GTGAATGATTTTTTGTTGTTCTTAATCTAGGTGAGTTTTTTTTCTTA
1 GTGAATGATTTTTTGTTGTTCTTAATCTAAGTGAGTTCTTTTTCTTA
113687609 TTTACTACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.16, C:0.07, G:0.20, T:0.57
Consensus pattern (52 bp):
GTGAATGATTTTTTGTTGTTCTTAATCTAAGTGAGTTCTTTTTCTTAATGTT
Found at i:113691077 original size:28 final size:29
Alignment explanation
Indices: 113691024--113691078 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
113691014 AGCTACATCA
* *
113691024 TTTTGTTAATTTGTAACTTGATTTAGTTT
1 TTTTGTTAATTTGTAACTTAAGTTAGTTT
113691053 TTTTG-TAATTTGT-ACTTTAAGTTAGT
1 TTTTGTTAATTTGTAAC-TTAAGTTAGT
113691079 AAGATTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 16 0.70
29 5 0.22
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.60
Consensus pattern (29 bp):
TTTTGTTAATTTGTAACTTAAGTTAGTTT
Found at i:113695457 original size:25 final size:25
Alignment explanation
Indices: 113695429--113695499 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
113695419 CAGCTTACAA
113695429 GGAGAAGCAGCAGAGGGCTGCCGAC
1 GGAGAAGCAGCAGAGGGCTGCCGAC
* * *
113695454 GGAGATGCAGCAGTGGGCTGCCAAC
1 GGAGAAGCAGCAGAGGGCTGCCGAC
*
113695479 GGAG-A--TGCAGAGGGCTGCCGA
1 GGAGAAGCAGCAGAGGGCTGCCGA
113695500 TTTGGGGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
22 13 0.33
25 26 0.67
ACGTcount: A:0.25, C:0.23, G:0.44, T:0.08
Consensus pattern (25 bp):
GGAGAAGCAGCAGAGGGCTGCCGAC
Found at i:113695777 original size:112 final size:112
Alignment explanation
Indices: 113695497--113695835 Score: 588
Period size: 113 Copynumber: 3.0 Consensus size: 112
113695487 AGAGGGCTGC
*
113695497 CGATTTGGGGAGATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
1 CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
*
113695562 AAAGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAAGACTGAAAA
66 AAAGGGGGACCGATTTTGGGAAAAAGAAGGGGG-AAAAAGACTTAAAA
* * * *
113695610 CGATTTGGGGAAACTGGGGAAAAAAAAAAGGGAATCGGGGTAGGGAGAAACGGTTTGGGAAAAAG
1 CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
*
113695675 AATGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAGACTTAAAA
66 AAAGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAGACTTAAAA
113695722 CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
1 CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
113695787 AAAGGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAGACTTGAAAA
66 AAA-GGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAGACTT-AAAA
113695836 TTCACATTTC
Statistics
Matches: 212, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
112 76 0.36
113 132 0.62
114 4 0.02
ACGTcount: A:0.41, C:0.05, G:0.39, T:0.15
Consensus pattern (112 bp):
CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
AAAGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAGACTTAAAA
Found at i:113698454 original size:96 final size:96
Alignment explanation
Indices: 113698288--113698477 Score: 308
Period size: 96 Copynumber: 2.0 Consensus size: 96
113698278 GTGTCCGAGG
* * * * *
113698288 AAGTCTGTTATCCATGGGAACGATGGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
113698353 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
*
113698384 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAATGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
113698449 TAAAGCCGAAGCCAAGAGGGCTAAGAGGA
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGA
113698478 ACAAAAAGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.35, C:0.18, G:0.34, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:113702003 original size:19 final size:18
Alignment explanation
Indices: 113701981--113702068 Score: 61
Period size: 19 Copynumber: 4.6 Consensus size: 18
113701971 TATTTTTAAC
113701981 AAAAATTATTATAATTTTT
1 AAAAATT-TTATAATTTTT
* *
113702000 AAAAATTTTTAAAATTCTT
1 AAAAA-TTTTATAATTTTT
*
113702019 ATAAAATTTCAATAATTTTT
1 A-AAAATTT-TATAATTTTT
* *
113702039 -ACAATTTCTAATCATTATTT
1 AAAAATTT-T-ATAATT-TTT
113702059 AAAAATTTTA
1 AAAAATTTTA
113702069 ATGATATTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
18 7 0.13
19 24 0.44
20 17 0.31
21 6 0.11
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAAATTTTATAATTTTT
Found at i:113702023 original size:11 final size:9
Alignment explanation
Indices: 113701982--113702097 Score: 54
Period size: 9 Copynumber: 12.1 Consensus size: 9
113701972 ATTTTTAACA
*
113701982 AAAATTATT
1 AAAATTTTT
*
113701991 ATAATTTTT
1 AAAATTTTT
113702000 AAAAATTTTT
1 -AAAATTTTT
113702010 AAAATTCTTAT
1 AAAATT-TT-T
*
113702021 AAAA-TTTC
1 AAAATTTTT
113702029 AATAATTTTT
1 AA-AATTTTT
* *
113702039 ACAATTTCT
1 AAAATTTTT
*
113702048 AATCATTATTT
1 AA-AATT-TTT
*
113702059 AAAAATTTT
1 AAAATTTTT
* * *
113702068 AATGATATTC
1 AA-AATTTTT
*
113702078 ACAATTTTT
1 AAAATTTTT
113702087 AACAATTTTT
1 AA-AATTTTT
113702097 A
1 A
113702098 CGACTTTTTA
Statistics
Matches: 77, Mismatches: 21, Indels: 17
0.67 0.18 0.15
Matches are distributed among these distances:
8 2 0.03
9 34 0.44
10 32 0.42
11 9 0.12
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (9 bp):
AAAATTTTT
Found at i:113705569 original size:9 final size:9
Alignment explanation
Indices: 113705555--113705598 Score: 72
Period size: 9 Copynumber: 4.9 Consensus size: 9
113705545 ACATTGTAAC
113705555 AATTTTTAT
1 AATTTTTAT
113705564 AATTTTTA-
1 AATTTTTAT
113705572 ATATTTTTAT
1 A-ATTTTTAT
113705582 AATTTTTAT
1 AATTTTTAT
113705591 AATTTTTA
1 AATTTTTA
113705599 AATAATCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 1 0.03
9 31 0.94
10 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
AATTTTTAT
Found at i:113705911 original size:14 final size:14
Alignment explanation
Indices: 113705892--113705923 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
113705882 AATTTTCAAA
113705892 AAATATTCATATTT
1 AAATATTCATATTT
113705906 AAATATTCATATTT
1 AAATATTCATATTT
113705920 AAAT
1 AAAT
113705924 GGTTCATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATATTCATATTT
Found at i:113706727 original size:23 final size:22
Alignment explanation
Indices: 113706658--113706734 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
113706648 ATTTTTAGAT
* *
113706658 TTTAATTATATAAATATATATAA
1 TTTAATTATAT-AATATTTATTA
*
113706681 TTTAATTAT-TAATTACTTTTTTA
1 TTTAATTATATAA-TA-TTTATTA
*
113706704 TTTAAGTATATAGATATTTATTA
1 TTTAATTATATA-ATATTTATTA
113706727 TTT-ATTAT
1 TTTAATTAT
113706735 TATTCTATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.05
22 7 0.16
23 30 0.68
24 4 0.09
25 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (22 bp):
TTTAATTATATAATATTTATTA
Found at i:113706763 original size:20 final size:20
Alignment explanation
Indices: 113706730--113706786 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
113706720 TTTATTATTT
*
113706730 ATTATTATTCTATTGAATTATA
1 ATTATTA-T-TATTAAATTATA
*
113706752 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
113706772 ATTATTATTATTAAA
1 ATTATTATTATTAAA
113706787 AATAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 23 0.74
21 3 0.10
22 5 0.16
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:113715522 original size:11 final size:11
Alignment explanation
Indices: 113715506--113715532 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
113715496 CAAGACGTAT
113715506 TAAGAGATGAC
1 TAAGAGATGAC
113715517 TAAGAGATGAC
1 TAAGAGATGAC
113715528 TAAGA
1 TAAGA
113715533 AGAACTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.26, T:0.19
Consensus pattern (11 bp):
TAAGAGATGAC
Found at i:113721713 original size:23 final size:23
Alignment explanation
Indices: 113721670--113721713 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
113721660 AAAATTAAAT
* *
113721670 TGTAATTTTTACAATAGTAAAAA
1 TGTAATTTTTAAAAGAGTAAAAA
*
113721693 TGTAATTTTTAAAAGATTAAA
1 TGTAATTTTTAAAAGAGTAAA
113721714 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (23 bp):
TGTAATTTTTAAAAGAGTAAAAA
Found at i:113724440 original size:18 final size:18
Alignment explanation
Indices: 113724419--113724476 Score: 91
Period size: 18 Copynumber: 3.2 Consensus size: 18
113724409 AGGATATGAA
113724419 AACATAATCATATATACT
1 AACATAATCATATATACT
*
113724437 AACATAATCATATATGA-A
1 AACATAATCATATAT-ACT
113724455 AACATAATCATATATACT
1 AACATAATCATATATACT
113724473 AACA
1 AACA
113724477 CTCGAACTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (18 bp):
AACATAATCATATATACT
Found at i:113730372 original size:74 final size:72
Alignment explanation
Indices: 113730286--113730436 Score: 257
Period size: 74 Copynumber: 2.1 Consensus size: 72
113730276 TCTTTAAATT
113730286 AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCACGGTACATAATAAAAG
1 AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCACGGTACATAAT--AAG
113730351 CATAAAACA
64 CATAAAACA
* *
113730360 AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCATGGTATATAATAAGCA
1 AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCACGGTACATAATAAGCA
*
113730425 TAAAATA
66 TAAAACA
113730432 AAAAA
1 AAAAA
113730437 CAACATGACC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
72 16 0.22
74 58 0.78
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.25
Consensus pattern (72 bp):
AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCACGGTACATAATAAGCA
TAAAACA
Found at i:113733877 original size:18 final size:18
Alignment explanation
Indices: 113733856--113733899 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
113733846 ATTCTGGTGA
113733856 TTCTAATAAAAGCAACAG
1 TTCTAATAAAAGCAACAG
**
113733874 TTCTGAAT-TGAGCAACAG
1 TTCT-AATAAAAGCAACAG
113733892 TTCTAATA
1 TTCTAATA
113733900 GAATCCCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (18 bp):
TTCTAATAAAAGCAACAG
Found at i:113736103 original size:292 final size:292
Alignment explanation
Indices: 113735579--113736123 Score: 1090
Period size: 292 Copynumber: 1.9 Consensus size: 292
113735569 CAGTCTGCTG
113735579 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
1 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
113735644 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
66 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
113735709 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
131 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
113735774 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTATAGTAGA
196 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTATAGTAGA
113735839 CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
261 CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
113735871 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
1 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
113735936 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
66 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
113736001 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
131 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
113736066 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTA
196 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTA
113736124 CAGTTCGAAC
Statistics
Matches: 253, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
292 253 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (292 bp):
CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTATAGTAGA
CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
Found at i:113740099 original size:33 final size:31
Alignment explanation
Indices: 113740068--113740129 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
113740058 TCGGATTTAA
113740068 AATTTTGTAATAATT-TAATAATT-TTTTATTT
1 AATTTT-TAAT-ATTATAATAATTATTTTATTT
*
113740099 AATTTTTTATATTATAATAATTATTTTATTT
1 AATTTTTAATATTATAATAATTATTTTATTT
113740130 TAATCAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 11 0.39
31 14 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (31 bp):
AATTTTTAATATTATAATAATTATTTTATTT
Found at i:113740629 original size:21 final size:22
Alignment explanation
Indices: 113740585--113740629 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
113740575 ATGCTTTAAT
***
113740585 TAATATTTGAAAATTTTTATTA
1 TAATATTTGAAAATTAAAATTA
113740607 TAATATTTGAAAA-TAAAATTA
1 TAATATTTGAAAATTAAAATTA
113740628 TA
1 TA
113740630 CACAATGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAATATTTGAAAATTAAAATTA
Found at i:113748894 original size:17 final size:18
Alignment explanation
Indices: 113748862--113748895 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
113748852 ACATTTATGA
*
113748862 TGTATTTGAGATATTATT
1 TGTATTTGACATATTATT
113748880 TGTATTTG-CATATTAT
1 TGTATTTGACATATTAT
113748896 GTAATGACTT
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:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (18 bp):
TGTATTTGACATATTATT
Found at i:113750092 original size:31 final size:31
Alignment explanation
Indices: 113750052--113750117 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
113750042 ATAACTTAAC
* *
113750052 AGTTTAGTGAC-TTAAGTAAAAGCTTTTGAAT
1 AGTTCAGTGACTTTAA-TAAAAACTTTTGAAT
*
113750083 AGTTCAGTGACTTTAATAAAAATTTTTGAAT
1 AGTTCAGTGACTTTAATAAAAACTTTTGAAT
113750114 AGTT
1 AGTT
113750118 TAATAACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.41
Consensus pattern (31 bp):
AGTTCAGTGACTTTAATAAAAACTTTTGAAT
Found at i:113751219 original size:24 final size:24
Alignment explanation
Indices: 113751180--113751235 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
113751170 CATTATTTAA
113751180 AAAATACTCATATTTATA-TA-ATT
1 AAAATA-TCATATTTATACTAGATT
*
113751203 AAAATATCATATTTTTATACTAGGTT
1 AAAATATCATA--TTTATACTAGATT
113751229 AAAATAT
1 AAAATAT
113751236 GTCATAAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.18
23 6 0.21
24 6 0.21
25 2 0.07
26 9 0.32
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAATATCATATTTATACTAGATT
Found at i:113751639 original size:14 final size:14
Alignment explanation
Indices: 113751622--113751687 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
113751612 TAATAAATAT
113751622 TTATTATTAAAAAA
1 TTATTATTAAAAAA
* *
113751636 TTATTATTGAATAA
1 TTATTATTAAAAAA
* *
113751650 TT-TTCAATAAAGAA
1 TTATT-ATTAAAAAA
*
113751664 -TATTATT-TAAAA
1 TTATTATTAAAAAA
113751676 TTATTATTAAAA
1 TTATTATTAAAA
113751688 TAAAATTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
12 3 0.08
13 12 0.31
14 24 0.62
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (14 bp):
TTATTATTAAAAAA
Found at i:113751734 original size:30 final size:29
Alignment explanation
Indices: 113751629--113751734 Score: 85
Period size: 31 Copynumber: 3.6 Consensus size: 29
113751619 TATTTATTAT
* *
113751629 TAAAAAATTATTATTGAATAATT-TT-CAA
1 TAAAAAATTA-TATTAAATAATTATTAAAA
*
113751657 TAAAGAATATTAT-TTAAAATTATTATTAAAA
1 TAAA-AA-ATTATATT-AAATAATTATTAAAA
*
113751688 TAAAATTAA-AATATTAAATAGATTATTAAAA
1 TAAAA--AATTATATTAAATA-ATTATTAAAA
113751719 TAAAAAATTATATTAA
1 TAAAAAATTATATTAA
113751735 TTCTTTATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
28 6 0.10
29 11 0.18
30 20 0.32
31 24 0.39
32 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.40
Consensus pattern (29 bp):
TAAAAAATTATATTAAATAATTATTAAAA
Found at i:113753013 original size:25 final size:25
Alignment explanation
Indices: 113752982--113753029 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
113752972 AACAAGAGTT
*
113752982 ATATAATATCAAAACAATAACAATA
1 ATATAATAACAAAACAATAACAATA
**
113753007 ATATAATAACAAAATGATAACAA
1 ATATAATAACAAAACAATAACAA
113753030 AACAACTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.23
Consensus pattern (25 bp):
ATATAATAACAAAACAATAACAATA
Found at i:113756960 original size:14 final size:14
Alignment explanation
Indices: 113756941--113756972 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
113756931 CTAGTTACAT
113756941 CTCACGAACTCGGA
1 CTCACGAACTCGGA
113756955 CTCACGAACTCGGA
1 CTCACGAACTCGGA
113756969 CTCA
1 CTCA
113756973 ACTCAATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.19, T:0.16
Consensus pattern (14 bp):
CTCACGAACTCGGA
Found at i:113757458 original size:30 final size:30
Alignment explanation
Indices: 113757413--113757472 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
113757403 ATTTAATACG
*
113757413 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
113757443 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
113757473 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:113758499 original size:21 final size:21
Alignment explanation
Indices: 113758452--113758499 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
113758442 AAATTGAACT
* *
113758452 AAAAATGTTACTAAATTTATG
1 AAAAAAGTTACTAAATTTATA
*
113758473 ATAAAAGTTA-TAAATTCTATA
1 AAAAAAGTTACTAAATT-TATA
113758494 AAAAAA
1 AAAAAA
113758500 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (21 bp):
AAAAAAGTTACTAAATTTATA
Found at i:113761285 original size:73 final size:73
Alignment explanation
Indices: 113761200--113761349 Score: 282
Period size: 73 Copynumber: 2.1 Consensus size: 73
113761190 CATTCATTTT
*
113761200 TATTGGTAAAAATCGTTTCATTTAGGTCAATACACATGTCATTGTTAGGTTATTCTATTCAGTCA
1 TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTAGGTTATTCTATTCAGTCA
113761265 TATTATTC
66 TATTATTC
*
113761273 TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTGGGTTATTCTATTCAGTCA
1 TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTAGGTTATTCTATTCAGTCA
113761338 TATTATTC
66 TATTATTC
113761346 TATT
1 TATT
113761350 CACTCATAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (73 bp):
TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTAGGTTATTCTATTCAGTCA
TATTATTC
Found at i:113761345 original size:18 final size:18
Alignment explanation
Indices: 113761322--113761357 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
113761312 CATTGTTGGG
*
113761322 TTATTCTATTCAGTCATA
1 TTATTCTATTCACTCATA
113761340 TTATTCTATTCACTCATA
1 TTATTCTATTCACTCATA
113761358 ACAGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.03, T:0.50
Consensus pattern (18 bp):
TTATTCTATTCACTCATA
Found at i:113767500 original size:200 final size:198
Alignment explanation
Indices: 113767152--113767677 Score: 703
Period size: 200 Copynumber: 2.6 Consensus size: 198
113767142 GAGTCTTCAC
* * * * *
113767152 TTTTAATGAAATACATTTGTCCGAAACATATTTGAACACGGGTATCTAACGCTTAGACCCAAGTC
1 TTTTAATGAAATACATTTGTCCTATACATA-TTAAACAC-GGTATCTAACACTTAGACCCAAATC
* *
113767217 CGAGCAACATAGATATCAAGCACTAGATTCATAGCAACTAGGCAAAGCAATCAACCTAGAAGGGA
64 CGAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGA
* * * * *
113767282 TTTCACTCCTTTTCCTTAGTAATCACTACTCAACCTATTGTTAATATCAAAGATTGCTCCGACTC
129 TTTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTCCAACTC
*
113767347 TTTGA
194 TTCGA
* * *
113767352 TTTTCATGAAATACATTTGTCCTATACAAATTCAAACACAGGTATCTAAAACTTAGACCCAAATC
1 TTTTAATGAAATACATTTGTCCTATACATATT-AAACAC-GGTATCTAACACTTAGACCCAAATC
* * *
113767417 CGAGCAATATAGATATCAAGCACAAGATTCATGGCAACTAGGCCAAGCAATCAACCTAGAATGGA
64 CGAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGA
* * * *
113767482 TTTCATTCCTTTTCCTTAGTAATCACAACTCACCCTATAGTTAACATCATAGATAGCTCCAATTC
129 TTTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTCCAACTC
*
113767547 TTCGG
194 TTCGA
* * * *
113767552 TTTTTATGAAATACACTTGTCCTTTACATATTAGAACACGAGTATCTAACACTTAGACCCAAATA
1 TTTTAATGAAATACATTTGTCCTATACATATTA-AACACG-GTATCTAACACTTAGACCCAAATC
* * *
113767617 CAAGCAATATAGATATCAAACACTAGATTCGA-AACAACTAGGCCAAGCAATCAACCTAGAA
64 CGAGCAATATAGATATCAAGCACTAGATTC-ATAGCAACTAGGCCAAGCAATCAACCTAGAA
113767678 ATCCTATAAT
Statistics
Matches: 286, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
199 4 0.01
200 281 0.98
201 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (198 bp):
TTTTAATGAAATACATTTGTCCTATACATATTAAACACGGTATCTAACACTTAGACCCAAATCCG
AGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGATT
TCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTCCAACTCTT
CGA
Found at i:113771986 original size:16 final size:16
Alignment explanation
Indices: 113771965--113771996 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
113771955 AGTTGAGGTA
*
113771965 TTTTGGGTTTATACTT
1 TTTTGGGTTTAGACTT
113771981 TTTTGGGTTTAGACTT
1 TTTTGGGTTTAGACTT
113771997 GAAAGTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.22, T:0.59
Consensus pattern (16 bp):
TTTTGGGTTTAGACTT
Found at i:113787227 original size:20 final size:19
Alignment explanation
Indices: 113787186--113787265 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 19
113787176 GTACTTCATT
*
113787186 TTTTTTTTAATTTTTATGAAA
1 TTTTTTATAATTTTTA--AAA
113787207 TTTTTTATATATTTTTAAAA
1 TTTTTTATA-ATTTTTAAAA
*
113787227 TTAAACTTTAT--TTTTTAAAA
1 TT---TTTTATAATTTTTAAAA
113787247 TATTTTTATAATTTTTAAA
1 T-TTTTTATAATTTTTAAA
113787266 TTATTATTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
18 5 0.10
20 23 0.47
21 9 0.18
22 7 0.14
23 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTTTATAATTTTTAAAA
Found at i:113806287 original size:14 final size:14
Alignment explanation
Indices: 113806268--113806297 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
113806258 ATCATTAGTT
113806268 TTACTAAGTGGTAC
1 TTACTAAGTGGTAC
113806282 TTACTAAGTGGTAC
1 TTACTAAGTGGTAC
113806296 TT
1 TT
113806298 TTTTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (14 bp):
TTACTAAGTGGTAC
Found at i:113809053 original size:16 final size:16
Alignment explanation
Indices: 113809032--113809074 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
113809022 AATATCACAT
113809032 CAATAATTTAATGGAA
1 CAATAATTTAATGGAA
113809048 CAATAATTTAATGGAA
1 CAATAATTTAATGGAA
113809064 C-A-AATTTAATG
1 CAATAATTTAATG
113809075 ATGCAACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 17 0.63
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.33
Consensus pattern (16 bp):
CAATAATTTAATGGAA
Found at i:113814089 original size:23 final size:23
Alignment explanation
Indices: 113814045--113814089 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113814035 ACCAATTCAA
*
113814045 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
113814068 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
113814090 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:113823259 original size:28 final size:29
Alignment explanation
Indices: 113823228--113823293 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
113823218 AATGCCCTGT
113823228 AATTAATTACC-ATAT-T-AAAAAAATTAAA
1 AATTAATTACCAATATATCAAAAAAA-T-AA
113823256 AATT-ATTACCAATATATCAAAAAAATAA
1 AATTAATTACCAATATATCAAAAAAATAA
*
113823284 AATTATTTAC
1 AATTAATTAC
113823294 TTTTTAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 6 0.18
28 14 0.42
29 6 0.18
30 7 0.21
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (29 bp):
AATTAATTACCAATATATCAAAAAAATAA
Found at i:113827618 original size:12 final size:12
Alignment explanation
Indices: 113827603--113827632 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
113827593 TTAAGTATAC
113827603 ATTTATTTTTTA
1 ATTTATTTTTTA
113827615 ATTTA-TTTTTA
1 ATTTATTTTTTA
113827626 ATTTATT
1 ATTTATT
113827633 GAGAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTATTTTTTA
Found at i:113830280 original size:167 final size:166
Alignment explanation
Indices: 113829952--113830384 Score: 598
Period size: 167 Copynumber: 2.6 Consensus size: 166
113829942 AATGGACCAA
*
113829952 AGTTAATTAGAACGAGGAATAAGACCATGAAACAAAGCAAACACAATATACAAACATGACACAAG
1 AGTTAATTAGAACGAGG-ATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
* * * * *
113830017 TTTATTTTGAT-AAATCAAATGCAACAGCCAATGTTTTTAAGAAGTCTTCAATGATTCTAACAGC
65 TTTGTTTTGCTAAAACCAAATGCAACAGCCAATGTTTTCAAGAAGTCTTCAAGGATTCTAACAGC
113830081 AGCTATTGTGAACTTACAAAATTTCACCATAAACACT
130 AGCTATTGTGAACTTACAAAATTTCACCATAAACACT
* *
113830118 AGTTAATTAGAACGAGGACTAAGACCATGAAACAAAGCAAACACAACATGCAAACATGATACAAG
1 AGTTAATTAGAACGAGGA-TAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
* * * * * *
113830183 TTTGTTTTGCTAAAACCGAGTGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTTTAACAGC
65 TTTGTTTTGCTAAAACCAAATGCAACAGCCAATGTTTTCAAGAAGTCTTCAAGGATTCTAACAGC
*
113830248 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
130 AGCTATTGTGAACTTACAAAATTTCACCATAAACACT
* * *
113830285 AGATAATTAGAATGAGGAAAAGGACCATGAAACAAAGGTTGCAAACACAACATACAAACATGACA
1 AGTTAATTAGAACGAGGATAA-GACCATGAAACAAA----GCAAACACAACATACAAACATGACA
* * * *
113830350 CAAGTTTGTTTCGCTAAAATCATATGTAACAGCCA
61 CAAGTTTGTTTTGCTAAAACCAAATGCAACAGCCA
113830385 TCGTTTCCGA
Statistics
Matches: 234, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
165 1 0.00
166 71 0.30
167 110 0.47
171 52 0.22
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (166 bp):
AGTTAATTAGAACGAGGATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAGT
TTGTTTTGCTAAAACCAAATGCAACAGCCAATGTTTTCAAGAAGTCTTCAAGGATTCTAACAGCA
GCTATTGTGAACTTACAAAATTTCACCATAAACACT
Found at i:113831120 original size:48 final size:48
Alignment explanation
Indices: 113831049--113831141 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
113831039 TCTAGCTACC
113831049 ATTTTGGCATTGAATTATTACTTTAATAACATAAATTAAAAAAAACAA
1 ATTTTGGCATTGAATTATTACTTTAATAACATAAATTAAAAAAAACAA
113831097 ATTTTGGCATTGAATTATTACTTTAATAACATAAATTAAAAAAAA
1 ATTTTGGCATTGAATTATTACTTTAATAACATAAATTAAAAAAAA
113831142 AACAAAGCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (48 bp):
ATTTTGGCATTGAATTATTACTTTAATAACATAAATTAAAAAAAACAA
Found at i:113831777 original size:5 final size:6
Alignment explanation
Indices: 113831752--113831776 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
113831742 TCTTTTCAGT
113831752 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
113831777 TTTGCCACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:113834274 original size:24 final size:24
Alignment explanation
Indices: 113834229--113834275 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
113834219 ATATTAAAAG
*
113834229 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
113834253 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
113834276 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:113834821 original size:39 final size:39
Alignment explanation
Indices: 113834778--113834856 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
113834768 AAAAAAGCTG
*
113834778 ATCCCACTCCCCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
*
113834817 ATCCCACTCCTCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
113834856 A
1 A
113834857 AACCATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.28, G:0.05, T:0.43
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:113837727 original size:53 final size:52
Alignment explanation
Indices: 113837578--113837737 Score: 187
Period size: 52 Copynumber: 3.1 Consensus size: 52
113837568 TGACAGAAAA
* * * *
113837578 GATGTGATACATGATTCCATATAAGACCATAGCCGGGCTATGGCATCGGTAC
1 GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
* * * * *
113837630 CATGTGATTCGT-ATCCCTGTATAAGACCATAGCTGGGCTATGGCATTGGTGT
1 GATGTGATTCGTGATTCC-GTATAAGACCATAGCCGGGCTATGGCATCGGTAT
* * *
113837682 GATGTGATTATGTGATTCCGTATAAGACCATATCCGGGATATGGCATCGGTAT
1 GATGTGATT-CGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
113837735 GAT
1 GAT
113837738 ATGTGGTCCG
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
51 4 0.05
52 46 0.52
53 34 0.39
54 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (52 bp):
GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
Found at i:113843511 original size:52 final size:53
Alignment explanation
Indices: 113843355--113843514 Score: 182
Period size: 52 Copynumber: 3.1 Consensus size: 53
113843345 CGGACCACAT
* * *
113843355 ATCATACCGATGCCATATCCCGGATATGGTCTTATACT-GAATCACATAATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACTGGAATCACGT-ATCAC
* * * ** *
113843408 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACAGGGCT-ACGAATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACTGGAATCACGTATCAC
** *
113843460 ATGGTACCGATGCCATAGCCCGGCTATGGTCTTATA-TGGAATCATGTATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACTGGAATCACGTATCAC
113843512 ATC
1 ATC
113843515 TTTTCCGTCA
Statistics
Matches: 86, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
51 3 0.03
52 46 0.53
53 35 0.41
54 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (53 bp):
ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACTGGAATCACGTATCAC
Found at i:113846287 original size:38 final size:39
Alignment explanation
Indices: 113846237--113846314 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
113846227 AAATATGGTT
*
113846237 TTAATTAATAATAAAACAAAGTGGCAT-GAGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGAGGAGTGGGA
113846275 TTAATTAATAATAAAACAAAGTAGCATGGAGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGAGGAGTGGGA
113846314 T
1 T
113846315 CAGCTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 26 0.68
39 12 0.32
ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATGGAGGAGTGGGA
Found at i:113846844 original size:24 final size:24
Alignment explanation
Indices: 113846798--113846863 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
113846788 TTTATTTTTT
* **
113846798 ACATTATTATGTATATACCATGTAA
1 ACATT-TTATATATATATTATGTAA
* *
113846823 ATATTTTA-ATATTATATTATGTAT
1 ACATTTTATATA-TATATTATGTAA
113846847 ACATTTTATATATATAT
1 ACATTTTATATATATAT
113846864 CTTTTAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
23 2 0.06
24 24 0.73
25 7 0.21
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (24 bp):
ACATTTTATATATATATTATGTAA
Found at i:113851725 original size:44 final size:44
Alignment explanation
Indices: 113851625--113852134 Score: 739
Period size: 44 Copynumber: 11.8 Consensus size: 44
113851615 GAAAAAACAA
* *
113851625 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATATTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
**
113851665 GATCTGCTCTTTGCCGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
113851709 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * * * *
113851753 GATATGCTTTTCGCCGTTACAGAGATGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
113851797 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
113851837 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * * *
113851881 GATCTGCTCTCCGCTGCTATAGAGATGCTAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
113851925 GATCTGCTCTCCGCTGCTACAGAGACGCTAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * *
113851969 GATATGCTCTCCGCTGCTACAGAGACGCTAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
113852013 GATATCCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
113852057 GATCTGCTCTTCGCCGCTACAGAGACGCTAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
113852101 GATCTGCTCTCTGCCGCTACAGAGACGCCAAATC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
113852135 ATCTTGGATT
Statistics
Matches: 431, Mismatches: 31, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
40 71 0.16
44 360 0.84
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (44 bp):
GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
Found at i:113851916 original size:172 final size:172
Alignment explanation
Indices: 113851625--113852134 Score: 761
Period size: 172 Copynumber: 2.9 Consensus size: 172
113851615 GAAAAAACAA
* **
113851625 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATATTCGATCTGCTCTTTGCCGCTACAGAGA
1 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGA
*
113851690 CGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGA
66 CGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCTAAATCTGTTATCTTCGA
* * *
113851755 TATGCTTTTCGCCGTTACAGAGATGCCAAATCTGTTATCTTC
131 TCTGCTTTTCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
113851797 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGA
1 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGA
* * * *
113851862 TGCCAAATCTGTTATCTTCGATCTGCTCTCCGCTGCTATAGAGATGCTAAATCTGTTATCTTCGA
66 CGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCTAAATCTGTTATCTTCGA
* * * *
113851927 TCTGCTCTCCGCTGCTACAGAGACGCTAAATCTGTTATCTTC
131 TCTGCTTTTCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * * * * *
113851969 GATATGCTCTCCGCTGCTACAGAGACGCTAAATCTGTTATCTTCGATATCCTCTCCGCCGCTACA
1 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACA
*
113852034 GAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCTAAATCTGTTATCT
62 GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCTAAATCTGTTATCT
*
113852099 TCGATCTGC-TCTCTGCCGCTACAGAGACGCCAAATC
127 TCGATCTGCTTTTC-GCCGCTACAGAGACGCCAAATC
113852135 ATCTTGGATT
Statistics
Matches: 302, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
172 187 0.62
175 1 0.00
176 114 0.38
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (172 bp):
GATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGA
CGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCTAAATCTGTTATCTTCGA
TCTGCTTTTCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
Found at i:113852210 original size:132 final size:129
Alignment explanation
Indices: 113851639--113852222 Score: 519
Period size: 132 Copynumber: 4.5 Consensus size: 129
113851629 TGCTCTCCGC
* ** * *
113851639 CGCTACAGAGATGCCAAATCA--TA--TTCGATCTGCTCTTTGCCGCTACAGAGACGCCAAATCT
1 CGCTACAGAGAAGCCAAATCAGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCTAAATCT
* * * *
113851700 GTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATATGCTTTTC
66 GTTATCTTCGATATGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATATCCTCTCC
**
113851765 GC
128 AA
* * * * * *
113851767 CGTTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC-
1 CGCTACAGAGAAGCCAAATCAGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCTAAATCT
* * * *
113851831 ---ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCC
66 GTTATCTTCGATATGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATATCCTCTCC
*
113851893 -G
128 AA
* * * *
113851894 CTGCTATAGAGATGCTAAATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCTAAATC
1 C-GCTACAGAGAAGCCAAATCAGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCTAAATC
* *
113851959 TGTTATCTTCGATATGCTCTCCGCTGCTACAGAGACGCTAAATCTGTTATCTTCGATATCCTCTC
65 TGTTATCTTCGATATGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATATCCTCTC
**
113852024 CGC
127 CAA
* * * *
113852027 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCTAAATCT
1 CGCTACAGAGAAGCCAAATCAGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCTAAATCT
* * * * *
113852092 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATC-ATCTTGGATTTGCT-T-CAA
66 GTTATCTTCGATATGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATATCCTCTCCAA
* * * * *
113852153 CG-TAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCCGTCTGATACAGAGATGC
1 CGCT--ACA-GAG-AAGCCAAATCAG-T-TATCTTCGATCTGCTCTCCG-CTGCTACAGAGACGC
*
113852217 CAAATC
59 TAAATC
113852223 ATCTTAGATC
Statistics
Matches: 392, Mismatches: 47, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
125 1 0.00
126 3 0.01
127 5 0.01
128 147 0.38
129 10 0.03
130 3 0.01
131 17 0.04
132 205 0.52
133 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (129 bp):
CGCTACAGAGAAGCCAAATCAGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCTAAATCT
GTTATCTTCGATATGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATATCCTCTCCAA
Found at i:113856994 original size:18 final size:20
Alignment explanation
Indices: 113856957--113856995 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
113856947 AGTTAAATAC
*
113856957 ATAATACATACATGTTAAAA
1 ATAATACATACATATTAAAA
113856977 ATAAT-CATA-ATATTAAAA
1 ATAATACATACATATTAAAA
113856995 A
1 A
113856996 CAACTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAATACATACATATTAAAA
Found at i:113857175 original size:25 final size:24
Alignment explanation
Indices: 113857154--113857201 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
113857144 TATTAAAAGA
*
113857154 TATATATATATATATATATAAAATG
1 TATACATA-ATATATATATAAAATG
113857179 TATACATAATATA-ATATTAAAAT
1 TATACATAATATATATA-TAAAAT
113857202 ATTTACATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 11 0.52
25 7 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
TATACATAATATATATATAAAATG
Found at i:113870218 original size:17 final size:17
Alignment explanation
Indices: 113870193--113870231 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
113870183 GACTAAAAAT
**
113870193 AATAATTTATATTTAAA
1 AATAATTTATAACTAAA
*
113870210 AATATTTTATAACTAAA
1 AATAATTTATAACTAAA
113870227 AATAA
1 AATAA
113870232 ATAAATATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATTTATAACTAAA
Found at i:113871585 original size:67 final size:66
Alignment explanation
Indices: 113871490--113871628 Score: 217
Period size: 67 Copynumber: 2.0 Consensus size: 66
113871480 ATGAAAACAA
113871490 ATTACAATGTACGTATGTGTGTACGTATTTATGAACACGC-GTATGTATGCATCCAAAATATCTT
1 ATTACAATGTACGTATGTGTGTACGTATTTATGAACACGCTGTATGTATGCATCCAAAATATCTT
113871554 T
66 T
*
113871555 ATTACAATGTACGTATATGTGTGTACGTATTTATGAACACGCGTATGTATGTATGCATCCAAAGT
1 ATTACAATGTACG--TATGTGTGTACGTATTTATGAACACGC---TGTATGTATGCATCCAAAAT
113871620 ATCTTT
61 ATCTTT
113871626 ATT
1 ATT
113871629 CCTCGTCGAG
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
65 13 0.19
67 27 0.40
71 27 0.40
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (66 bp):
ATTACAATGTACGTATGTGTGTACGTATTTATGAACACGCTGTATGTATGCATCCAAAATATCTT
T
Found at i:113879339 original size:191 final size:190
Alignment explanation
Indices: 113878703--113879392 Score: 764
Period size: 191 Copynumber: 3.6 Consensus size: 190
113878693 TATACCAACA
* * * **
113878703 TAACACTCTCTAGAAAAGAATGTTTAGAACCTAGACACTGATGTCTTTACGAGTAGC-AGTGTGA
1 TAACACCCTCTAGAAAAGAATGTTTAGAACCTGGAAACCAATGTCTTTACGAGTAGCTA-TGTGA
* ** * * * * *
113878767 ATTCATGACTTGTATGCTTTTATAATG-CATGTTTCCAATGTCTAGAGCATCCTTTTGATCGAAA
65 ATTCGTGACTCATATGCTTTTATAATGAAATGTTTTCAATGTCTAGAGCACCCTTTTGATTGAAG
* * *
113878831 CCATATTCATGTTCAGCTGCATATTATGAACTTGAATGAATGAAGCATGTTGCTATACAGACG
130 CCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTG-TATAC-GACG
* * **
113878894 TAACACCCTCTAGAAAAGAATGTTTAGAACC-GAGAAATCAATGTCTTTACGAGCAGAGA-GTGA
1 TAACACCCTCTAGAAAAGAATGTTTAGAACCTG-GAAACCAATGTCTTTACGAGTAGCTATGTGA
* * * * *
113878957 A-TCTGCGACTTACATGCATTTATAATGAAATGTTTTCGATGTCTAGAGCACCCCTTTTGATTGA
65 ATTC-GTGACTCATATGCTTTTATAATGAAATGTTTTCAATGTCTAGAGCA-CCCTTTTGATTGA
* * *
113879021 AGCCATATTCATGTTCTGCTGCATATTATGAATTTGAATGAATGAAACACATTGTATAACGGCG
128 AGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTGTAT-ACGACG
* * *** *
113879085 TAACACCCTATATAAAAGAATGTTTAGAACCTGGAAAATGATGTCTTTACGAGTAGGTATGTGAA
1 TAACACCCTCTAGAAAAGAATGTTTAGAACCTGGAAACCAATGTCTTTACGAGTAGCTATGTGAA
* * * ** * *
113879150 TACGTGACGCATATGCTTTTATAATGAAATGTTTTCAGTGTCTAGTTCACCCTTTTGATTGCAGT
66 TTCGTGACTCATATGCTTTTATAATGAAATGTTTTCAATGTCTAGAGCACCCTTTTGATTGAAGC
* * * *
113879215 CATATTCAAGTTTTGCTGCATATTATGAACTTGAATGAATGAAAAACGTTGTATGCTGACG
131 CATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTGTATAC-GACG
* * * **
113879276 TAACACCGTCTAGAAAAGAATGTTTAGAACCTGGAACCCAATTTCTTTTTGAGTAGCTATGTGAA
1 TAACACCCTCTAGAAAAGAATGTTTAGAACCTGGAAACCAATGTCTTTACGAGTAGCTATGTGAA
* * * *
113879341 TTTGTGACTC--ATGCTTTTTTACTGAAATGTTTTTCAATGTCTAAAGCACCCT
66 TTCGTGACTCATATGCTTTTATAATGAAATG-TTTTCAATGTCTAGAGCACCCT
113879393 GCTTTATATT
Statistics
Matches: 416, Mismatches: 72, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
189 19 0.05
190 42 0.10
191 249 0.60
192 105 0.25
193 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (190 bp):
TAACACCCTCTAGAAAAGAATGTTTAGAACCTGGAAACCAATGTCTTTACGAGTAGCTATGTGAA
TTCGTGACTCATATGCTTTTATAATGAAATGTTTTCAATGTCTAGAGCACCCTTTTGATTGAAGC
CATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTGTATACGACG
Found at i:113879506 original size:165 final size:165
Alignment explanation
Indices: 113879234--113879541 Score: 379
Period size: 165 Copynumber: 1.9 Consensus size: 165
113879224 GTTTTGCTGC
* ** *
113879234 ATATTATGAACTTGAATGAATGAAAAACGTTGTATGCTGACGTAACACCGTCTAGAAAAGAATGT
1 ATATTATGAACTTGAATGAATGAAAAACGTTGTATACCAACGTAACACCCTCTAGAAAAGAATGT
* * *** ** * *
113879299 TTAGAACCTGGAACCCAATTTCTTTTTGAGTAGCTATGTGAATTTGTGAC-TCATGCTTTTTTAC
66 TTAGAACCTGGAAACCAATATCTTTACAAGTAGCTATGTGAATTCATGACTTCATGCTTTTATAA
113879363 TGAAATGTTTTTCAATGTCTAAAGCACCCTGCTTT
131 TGAAATGTTTTTCAATGTCTAAAGCACCCTGCTTT
* * *
113879398 ATATTATGAACTTGAATGAATGAAGCACATCGTT-TA-ACCAACGTAACACCCTGTAGAAAGGAA
1 ATATTATGAACTTGAATGAATGAA--A-AACGTTGTATACCAACGTAACACCCTCTAGAAAAGAA
** * *
113879461 TGTTTAGAATTTGGAAACCAATATCTTTACAAGTAGCTGTGTGAATTCATGACTTTTATGCTTTT
63 TGTTTAGAACCTGGAAACCAATATCTTTACAAGTAGCTATGTGAATTCATGAC-TTCATGCTTTT
113879526 ATAATGAAATGTTTTT
127 ATAATGAAATGTTTTT
113879542 TATGTATGGT
Statistics
Matches: 119, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
164 24 0.20
165 64 0.54
166 3 0.03
167 28 0.24
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (165 bp):
ATATTATGAACTTGAATGAATGAAAAACGTTGTATACCAACGTAACACCCTCTAGAAAAGAATGT
TTAGAACCTGGAAACCAATATCTTTACAAGTAGCTATGTGAATTCATGACTTCATGCTTTTATAA
TGAAATGTTTTTCAATGTCTAAAGCACCCTGCTTT
Found at i:113894859 original size:30 final size:30
Alignment explanation
Indices: 113894757--113894859 Score: 111
Period size: 29 Copynumber: 3.4 Consensus size: 30
113894747 AATTTGTGAA
* *
113894757 TTTTAAAAATTTTAAGAGAGTTTAATTAAAA-
1 TTTTAAAAAATTT-AGAG-GTATAATTAAAAT
* * * *
113894788 TTTTAAAAAATTAAAAGATATAATGAAAAT
1 TTTTAAAAAATTTAGAGGTATAATTAAAAT
*
113894818 TTTT-AAAAATTTAGAGGTCTAATTAAAAT
1 TTTTAAAAAATTTAGAGGTATAATTAAAAT
113894847 TTTTAAAAAATTT
1 TTTTAAAAAATTT
113894860 CAAGGAAGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
29 33 0.56
30 15 0.25
31 11 0.19
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (30 bp):
TTTTAAAAAATTTAGAGGTATAATTAAAAT
Found at i:113898063 original size:22 final size:22
Alignment explanation
Indices: 113898015--113898056 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
113898005 GCTTAACGAC
*
113898015 TTAAATAAATTTTTTTAAATAA
1 TTAAATAAATTTTTTAAAATAA
113898037 TTAAAT-AATTATTTTAAAAT
1 TTAAATAAATT-TTTTAAAAT
113898057 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAATAAATTTTTTAAAATAA
Found at i:113918712 original size:101 final size:98
Alignment explanation
Indices: 113918594--113918791 Score: 342
Period size: 101 Copynumber: 2.0 Consensus size: 98
113918584 CTGTTTCCAC
113918594 CACTTTAGCCCTCCCTTAGCTTTCAGAGATTAAACAAGAGATTGAGCAACTTCCATTTTCCCTTC
1 CACTTTAGCCCTCCCTTAGCTTTCAGAGATTAAACAAGAGATTGAGCAACTTCCATTTT-CC--C
* *
113918659 TTCTTCTCCTCTTCTTCTTTTCCATTCATTTTTTTT
63 TTCTTCTCCTCTTCTTATTTCCCATTCATTTTTTTT
*
113918695 CACTTTAGCCCTCCCTTAGCTTTCAGAGATTGAACAAGAGATTGAGCAACTTCCATTTTCCCTTC
1 CACTTTAGCCCTCCCTTAGCTTTCAGAGATTAAACAAGAGATTGAGCAACTTCCATTTTCCCTTC
113918760 TTCTCCTCTTCTTATTTCCCATTCATTTTTTT
66 TTCTCCTCTTCTTATTTCCCATTCATTTTTTT
113918792 CTTCTTTTTA
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
98 34 0.36
100 2 0.02
101 58 0.62
ACGTcount: A:0.19, C:0.29, G:0.09, T:0.43
Consensus pattern (98 bp):
CACTTTAGCCCTCCCTTAGCTTTCAGAGATTAAACAAGAGATTGAGCAACTTCCATTTTCCCTTC
TTCTCCTCTTCTTATTTCCCATTCATTTTTTTT
Found at i:113918877 original size:21 final size:21
Alignment explanation
Indices: 113918851--113918891 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
113918841 CAATGTTGCA
113918851 AGTTAA-TTGGCCACATCAGCT
1 AGTTAACTT-GCCACATCAGCT
113918872 AGTTAACTTGCCACATCAGC
1 AGTTAACTTGCCACATCAGC
113918892 GCTCCCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (21 bp):
AGTTAACTTGCCACATCAGCT
Found at i:113918982 original size:29 final size:32
Alignment explanation
Indices: 113918926--113918995 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 32
113918916 AATGTTAATA
113918926 AGTGACTGATTTGTCACTTTTTAATAAAGTT-
1 AGTGACTGATTTGTCACTTTTTAATAAAGTTG
* * *
113918957 AGTTACTGTTTTGTCA-TTTTT-CTAAAGTTG
1 AGTGACTGATTTGTCACTTTTTAATAAAGTTG
113918987 AGTGACTGA
1 AGTGACTGA
113918996 AATGAAACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 12 0.36
31 14 0.42
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.46
Consensus pattern (32 bp):
AGTGACTGATTTGTCACTTTTTAATAAAGTTG
Found at i:113919506 original size:21 final size:21
Alignment explanation
Indices: 113919467--113919505 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
113919457 TCATAATTCA
113919467 AAAAATAATAATATAAAAATT
1 AAAAATAATAATATAAAAATT
*
113919488 AAAAATTATAAT-TAAAAA
1 AAAAATAATAATATAAAAA
113919506 AAGGGTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATAATAATATAAAAATT
Found at i:113920248 original size:17 final size:18
Alignment explanation
Indices: 113920228--113920261 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
113920218 AAGTGAATTG
*
113920228 AAATTGC-GAATTTAAAT
1 AAATTGCAGAAATTAAAT
113920245 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
113920262 ATGAGGAAAA
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:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:113920990 original size:10 final size:10
Alignment explanation
Indices: 113920971--113921030 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
113920961 TGAAATTTTA
113920971 AAAGATAAAT
1 AAAGATAAAT
113920981 ACAA-ATAAAT
1 A-AAGATAAAT
*
113920991 AAAGATAATT
1 AAAGATAAAT
113921001 AAAGATAAAT
1 AAAGATAAAT
113921011 AAAGATAAAT
1 AAAGATAAAT
113921021 GAAA-ATAAAT
1 -AAAGATAAAT
113921031 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:113923145 original size:20 final size:20
Alignment explanation
Indices: 113923116--113923153 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
113923106 ATTTATATGC
113923116 TTTTTCTTTTCTTTCTTTTTA
1 TTTTTCTTTTC-TTCTTTTTA
113923137 TTTTT-TTTTCTTCTTTT
1 TTTTTCTTTTCTTCTTTT
113923154 CGAATCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 5 0.29
21 5 0.29
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTTCTTCTTTTTA
Found at i:113923962 original size:3 final size:3
Alignment explanation
Indices: 113923944--113924026 Score: 62
Period size: 3 Copynumber: 27.7 Consensus size: 3
113923934 ACATTATTTA
* * * *
113923944 TAT TAT T-T TAT GAT TAT TAT GTATT TAT TTT TAC TAC TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT -TA-T TAT TAT TAT TAT TAT TAT TAT
* * * *
113923989 TAT TAT TAT TAG TAT TAG TAT TAT AAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
113924027 CACTCATATG
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
2 4 0.06
3 53 0.85
4 4 0.06
5 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:113924010 original size:23 final size:22
Alignment explanation
Indices: 113923936--113924024 Score: 74
Period size: 23 Copynumber: 3.9 Consensus size: 22
113923926 TCATGTACAC
113923936 ATTATTTATATTATT-TTATGATT
1 ATTA-TTATATTATTATTAT-ATT
* *
113923959 ATTATGTAT-TTATTTTTACTACT
1 ATTAT-TATATTATTATTA-TATT
113923982 ATTATTATATTATTATTAGTATT
1 ATTATTATATTATTATTA-TATT
* *
113924005 AGTATTATAATTACTATTAT
1 ATTATTAT-ATTATTATTAT
113924025 TACACTCATA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
22 9 0.16
23 36 0.65
24 10 0.18
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (22 bp):
ATTATTATATTATTATTATATT
Found at i:113924201 original size:2 final size:2
Alignment explanation
Indices: 113924194--113924258 Score: 59
Period size: 2 Copynumber: 34.5 Consensus size: 2
113924184 GTGTATGTAT
* * *
113924194 TA TA TA TA TT TT TA -A TA CTA TA T- TA TG TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
113924234 TA TA T- TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
113924259 TTTTTATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
1 5 0.09
2 46 0.87
3 2 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:113924228 original size:11 final size:11
Alignment explanation
Indices: 113924191--113924284 Score: 84
Period size: 11 Copynumber: 8.4 Consensus size: 11
113924181 AATGTGTATG
113924191 TATTATATATA
1 TATTATATATA
*
113924202 T-TTTTAATACTA
1 TATTAT-ATA-TA
*
113924214 TATTATGTATA
1 TATTATATATA
113924225 TATTATATATA
1 TATTATATATA
113924236 TATTATATATA
1 TATTATATATA
113924247 T-TATATATATA
1 TAT-TATATATA
* *
113924258 TTTTTTATTATA
1 TATTATA-TATA
* *
113924270 TTTTATGTATA
1 TATTATATATA
113924281 TATT
1 TATT
113924285 TTAATATCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
10 4 0.06
11 47 0.68
12 15 0.22
13 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTATATATA
Found at i:113924233 original size:9 final size:9
Alignment explanation
Indices: 113924191--113924256 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
113924181 AATGTGTATG
113924191 TATTATATA
1 TATTATATA
*
113924200 TATT-TTTAA
1 TATTATAT-A
*
113924209 TACTATAT-
1 TATTATATA
113924217 TATGTATATA
1 TAT-TATATA
113924227 T-TATATATA
1 TAT-TATATA
113924236 TATTATATA
1 TATTATATA
113924245 TATTATATA
1 TATTATATA
113924254 TAT
1 TAT
113924257 ATTTTTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 4 0.09
9 39 0.83
10 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
TATTATATA
Found at i:113924284 original size:13 final size:13
Alignment explanation
Indices: 113924193--113924291 Score: 82
Period size: 13 Copynumber: 7.6 Consensus size: 13
113924183 TGTGTATGTA
113924193 TTATATATAT-TT
1 TTATATATATATT
113924205 TTA-ATACTATATT
1 TTATATA-TATATT
113924218 ATGTATATAT-TATAT
1 -T-TATATATATAT-T
* *
113924233 ATATATTATATATA
1 TTATA-TATATATT
113924247 TTATATATATATT
1 TTATATATATATT
*
113924260 TTTTAT-TATATT
1 TTATATATATATT
*
113924272 TTATGTATATATT
1 TTATATATATATT
113924285 TTA-ATAT
1 TTATATAT
113924292 CACATTATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
11 3 0.04
12 19 0.27
13 27 0.39
14 11 0.16
15 7 0.10
16 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATATATATATT
Found at i:113924685 original size:46 final size:45
Alignment explanation
Indices: 113924596--113924685 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
113924586 TTCTAGTATG
* *
113924596 TCTATATTATGTATATATTTTAATACTACATATATATTTTTTATT
1 TCTATATTACGTATATATTTTAATACTACATATATATTATTTATT
* *
113924641 TCTATTATTACGTATATATTTTAATAC-ATATATGTATATATTTAT
1 TCTA-TATTACGTATATATTTTAATACTACATATATAT-TATTTAT
113924686 GTATCGTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
45 12 0.31
46 27 0.69
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (45 bp):
TCTATATTACGTATATATTTTAATACTACATATATATTATTTATT
Found at i:113926979 original size:7 final size:7
Alignment explanation
Indices: 113926967--113927024 Score: 80
Period size: 7 Copynumber: 8.3 Consensus size: 7
113926957 ACCTTCCAAG
113926967 CCCTTTC
1 CCCTTTC
113926974 CCCTTTC
1 CCCTTTC
113926981 CCCTTTC
1 CCCTTTC
113926988 CCCTTTC
1 CCCTTTC
*
113926995 CACTTTC
1 CCCTTTC
*
113927002 CACTTTC
1 CCCTTTC
*
113927009 CACTTTC
1 CCCTTTC
*
113927016 CACTTTC
1 CCCTTTC
113927023 CC
1 CC
113927025 ATTAAAACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.07, C:0.52, G:0.00, T:0.41
Consensus pattern (7 bp):
CCCTTTC
Found at i:113926991 original size:21 final size:21
Alignment explanation
Indices: 113926967--113927024 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
113926957 ACCTTCCAAG
*
113926967 CCCTTTCCCCTTTCCCCTTTC
1 CCCTTTCCACTTTCCCCTTTC
*
113926988 CCCTTTCCACTTTCCACTTTC
1 CCCTTTCCACTTTCCCCTTTC
*
113927009 CACTTTCCACTTTCCC
1 CCCTTTCCACTTTCCC
113927025 ATTAAAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.07, C:0.52, G:0.00, T:0.41
Consensus pattern (21 bp):
CCCTTTCCACTTTCCCCTTTC
Found at i:113927623 original size:17 final size:18
Alignment explanation
Indices: 113927597--113927644 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
113927587 AGGCTAAGCT
*
113927597 TTAATATATTTTATTTAC
1 TTAATTTATTTTATTTAC
*
113927615 -TAATTTATTTTATTTGC
1 TTAATTTATTTTATTTAC
113927632 TTAATTTAATTTT
1 TTAATTT-ATTTT
113927645 GCAATCTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 15 0.58
18 6 0.23
19 5 0.19
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
TTAATTTATTTTATTTAC
Found at i:113929421 original size:4 final size:4
Alignment explanation
Indices: 113929412--113929507 Score: 95
Period size: 4 Copynumber: 23.8 Consensus size: 4
113929402 AGTAAGTTAA
* *** *
113929412 AAAG AAAG AAAG AAAG AAAG AAAG -AAG AAAG ATAG AAAG AGTT ACAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
* **
113929459 AGAG CAAACG TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG -AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
113929508 TAGAAAAGGG
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
3 3 0.04
4 68 0.91
5 3 0.04
6 1 0.01
ACGTcount: A:0.67, C:0.03, G:0.26, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:113930331 original size:47 final size:47
Alignment explanation
Indices: 113930267--113930377 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
113930257 GACATTGAGT
* *
113930267 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCAGATTTGTTC
* * *
113930314 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCAGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTGTTC
113930361 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
113930378 CTTATCCCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTGTTC
Found at i:113931862 original size:20 final size:21
Alignment explanation
Indices: 113931830--113931886 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
113931820 AATATAATGC
113931830 AAAA-AAA-TAATTTACAT-A
1 AAAATAAAGTAATTTACATAA
113931848 AAAATAAAGTAATTTACATAA
1 AAAATAAAGTAATTTACATAA
113931869 AAAATAAAGTAATTTACA
1 AAAATAAAGTAATTTACA
113931887 ATACAAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 10 0.28
21 19 0.53
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATAAAGTAATTTACATAA
Found at i:113934205 original size:60 final size:60
Alignment explanation
Indices: 113934132--113934250 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
113934122 TATTAAACTA
*
113934132 AACAAAATAATTTA-AAATATAA-TCTTAAATTACTAATAAATTAATTTTAAAATAATTATT
1 AACAAAATAATTTATAAA-ATAATTC-TAAATTACAAATAAATTAATTTTAAAATAATTATT
* *
113934192 AACACAAA-AATTTATCAAATAATTCTAAATTACAAATAATTTAATTTTAAAATAATTAT
1 AACA-AAATAATTTATAAAATAATTCTAAATTACAAATAAATTAATTTTAAAATAATTAT
113934251 AAAAATTACT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
60 46 0.87
61 7 0.13
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (60 bp):
AACAAAATAATTTATAAAATAATTCTAAATTACAAATAAATTAATTTTAAAATAATTATT
Found at i:113934229 original size:17 final size:16
Alignment explanation
Indices: 113934207--113934253 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
113934197 AAAAATTTAT
113934207 CAAATAATTCTAAATTA
1 CAAATAATT-TAAATTA
*
113934224 CAAATAATTTAATTTTA
1 CAAATAATTTAA-ATTA
113934241 -AAATAATTATAAA
1 CAAATAATT-TAAA
113934254 AATTACTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
CAAATAATTTAAATTA
Found at i:113939634 original size:29 final size:29
Alignment explanation
Indices: 113939574--113939633 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
113939564 TTCGTGCATA
*
113939574 TTTAATCCCTTTATTATAATTTAATTATT
1 TTTAATCCCTTTATTATAATTTAATCATT
* **
113939603 TTTAGTCCCTTTATT-TAATTTGGTCATT
1 TTTAATCCCTTTATTATAATTTAATCATT
113939631 TTT
1 TTT
113939634 TCGCTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTAATCCCTTTATTATAATTTAATCATT
Found at i:113950882 original size:15 final size:16
Alignment explanation
Indices: 113950864--113950923 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
113950854 AATTTAGGCC
113950864 TTAAATAT-TTAAAAA
1 TTAAATATATTAAAAA
*
113950879 TTAAATAATATTTAAAA
1 TTAAAT-ATATTAAAAA
* * * *
113950896 TAAAAAAT-TTTAAAT
1 TTAAATATATTAAAAA
113950911 TTAAATATATTAA
1 TTAAATATATTAA
113950924 TCTATGTTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 18 0.51
16 7 0.20
17 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAATATATTAAAAA
Found at i:113951969 original size:4 final size:4
Alignment explanation
Indices: 113951960--113951984 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
113951950 CTAAGCAATA
113951960 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
113951985 CACTTTTTAG
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:113956305 original size:20 final size:21
Alignment explanation
Indices: 113956274--113956315 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
113956264 AATTTTACAC
**
113956274 ATTATACATTCTGTCAAATTA
1 ATTATACATTCTAACAAATTA
113956295 ATTAT-CATTCTAACAAATTA
1 ATTATACATTCTAACAAATTA
113956315 A
1 A
113956316 AAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTATACATTCTAACAAATTA
Found at i:113959395 original size:18 final size:20
Alignment explanation
Indices: 113959372--113959413 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
113959362 TAGTTTTGAT
113959372 ATTTATCCCTT-T-TCTTAA
1 ATTTATCCCTTATATCTTAA
*
113959390 ATTTATCCTTTATATCTTAA
1 ATTTATCCCTTATATCTTAA
113959410 ATTT
1 ATTT
113959414 GGTTTCTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATCCCTTATATCTTAA
Found at i:113965317 original size:83 final size:81
Alignment explanation
Indices: 113965170--113965328 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
113965160 TAATTGATAA
**
113965170 AAAAACCTAAGTATCAAATTGGAAAAAAAACTCAATTACCAAATTGAATTTGAAGCCAAACTCAA
1 AAAAACCTAAGTATCAAATTAAAAAAAAAACTCAATTACCAAATTGAATTTGAAGCCAAACTCAA
*
113965235 ATACTTAATTGTGCAC
66 ATACTGAATTGTGCAC
* *
113965251 AAAAA-CTCAAGTATCAAATTAAAAAAAAAACCTCAGTTACCAATTTGAATATTGAAGCCAAACT
1 AAAAACCT-AAGTATCAAATTAAAAAAAAAA-CTCAATTACCAAATTGAAT-TTGAAGCCAAACT
*
113965315 CAAGTACTGAATTG
63 CAAATACTGAATTG
113965329 GGACAACAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 25 0.36
82 17 0.25
83 25 0.36
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (81 bp):
AAAAACCTAAGTATCAAATTAAAAAAAAAACTCAATTACCAAATTGAATTTGAAGCCAAACTCAA
ATACTGAATTGTGCAC
Found at i:113965953 original size:4 final size:4
Alignment explanation
Indices: 113965944--113965992 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
113965934 TCAATTACTT
113965944 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
113965992 T
1 T
113965993 TTCTTAGCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:113968189 original size:232 final size:232
Alignment explanation
Indices: 113967767--113968284 Score: 838
Period size: 232 Copynumber: 2.2 Consensus size: 232
113967757 AGATATTATG
*
113967767 CCAGTTTTTATTTTCGGGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTAG
1 CCAGTGTTTA-TTTCGGGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTAG
* * *
113967832 CATGTTTGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAAT
65 CATGGTTGAGTAAGCGCTCAGACTATGGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAAT
* * * *
113967897 CCATATTGTGAGTTCGAGTGTGTCCTGGTAATCTTTCCTGCATTTATCGAATGATTTTGTAATAG
130 CCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAG
* *
113967962 ATGTATACTACTACTTGTATGAGATGTATACCATTACT
195 ATGTATACAACTACTTGTATGAGATGTATACCACTACT
* * * *
113968000 CCAGTGTTTATTTCAGGTTTCTCGAAGCATTTAGTAACTTTGTTATAGTAGTTCTAGCAGGTATC
1 CCAGTGTTTATTTCGGGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTAGC
* *
113968065 TTGGTTGAGTAAGCGCTCAGACTATGGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATC
66 ATGGTTGAGTAAGCGCTCAGACTATGGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAATC
*
113968130 CATACTCTGAGTTTGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
131 CATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
*
113968195 TGTATACAACTACTTGTATGAGATGTATACTACTACT
196 TGTATACAACTACTTGTATGAGATGTATACCACTACT
* * *
113968232 TCAGTGTTTATTTTGGGTTTCTTGAAGCATTTAGTACCTTTGTTGTAGTAGTT
1 CCAGTGTTTATTTCGGGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTT
113968285 GTAATACCCC
Statistics
Matches: 261, Mismatches: 24, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
232 252 0.97
233 9 0.03
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (232 bp):
CCAGTGTTTATTTCGGGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTAGC
ATGGTTGAGTAAGCGCTCAGACTATGGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAATC
CATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
TGTATACAACTACTTGTATGAGATGTATACCACTACT
Found at i:113970066 original size:51 final size:51
Alignment explanation
Indices: 113969987--113970084 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
113969977 GTTATCCAGA
*
113969987 TGAAATATGAAGCTCTTGTTGAAGCTAGAGCAATAAAGTAATAATTCTGGG
1 TGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCTGGG
*
113970038 TGAAATATGAAGCTTTTGTTGATA-CTAGAGCAACAAAGTAATAATTC
1 TGAAATATGAAGCTCTTGTTGA-AGCTAGAGCAACAAAGTAATAATTC
113970085 CGAATGAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (51 bp):
TGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCTGGG
Found at i:113970098 original size:51 final size:51
Alignment explanation
Indices: 113969986--113970100 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
113969976 AGTTATCCAG
* * *
113969986 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAATAAAGTAATAATTCTGG
1 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCGA
* *
113970037 GTGAAATATGAAGCTTTTGTTGATA-CTAGAGCAACAAAGTAATAATTCCGA
1 ATGAAATATGAAGCTCTTGTTGA-AGCTAGAGCAACAAAGTAATAATTCCGA
*
113970088 ATGAAGTATGAAG
1 ATGAAATATGAAG
113970101 TAAGTTTGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (51 bp):
ATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCGA
Found at i:113970926 original size:46 final size:46
Alignment explanation
Indices: 113970874--113971148 Score: 345
Period size: 46 Copynumber: 6.0 Consensus size: 46
113970864 GCTTTCTGAA
* * *
113970874 ATGAAATGTGTAAGACAATGATTGAAAGATACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
113970920 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
113970966 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
113971012 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-T
** ** * *
113971059 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATTAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * * *
113971105 A-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
113971149 TCGAAGATAA
Statistics
Matches: 206, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 164 0.80
47 41 0.20
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:113971123 original size:139 final size:138
Alignment explanation
Indices: 113970874--113971148 Score: 356
Period size: 139 Copynumber: 2.0 Consensus size: 138
113970864 GCTTTCTGAA
** * * **
113970874 ATGAAATGTGTAAGACAATGATTGAAAGATACCATGACAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACAATGATTGAAAGATACCATGACAACATGAGAGGAAATGAATAAGACCAT
* * * * *
113970939 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAAACCATAGTTGAAAGACACCATGGC
113971004 AACATGAC
131 AACATGAC
* * *
113971012 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGA-AACATGACGGGGAAATGAATAAGACC
1 ATGAAATGAATAAGACAATGATTGAAAGATACCAT-GACAACATGA-GAGGAAATGAATAAGACC
* *
113971076 ATGGTTGAAAGATACCATGGCAACATTACA-GAAAATGAGTAAAACCATAGTTGAAAGACACTAT
64 ATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAAACCATAGTTGAAAGACACCAT
*
113971140 GGCATCATG
128 GGCAACATG
113971149 TCGAAGATAA
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 39 0.33
139 78 0.67
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (138 bp):
ATGAAATGAATAAGACAATGATTGAAAGATACCATGACAACATGAGAGGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAAACCATAGTTGAAAGACACCATGGC
AACATGAC
Found at i:113979499 original size:13 final size:13
Alignment explanation
Indices: 113979483--113979512 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
113979473 AATTCATTTA
113979483 TCAATTTTCATAC
1 TCAATTTTCATAC
113979496 TCAATTTTCATAC
1 TCAATTTTCATAC
113979509 TCAA
1 TCAA
113979513 GTGTGAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (13 bp):
TCAATTTTCATAC
Found at i:113981895 original size:23 final size:23
Alignment explanation
Indices: 113981869--113981916 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
113981859 TTAATTAGTA
*
113981869 AAAAAAAC-CTAAGTATCAAATTG
1 AAAAAAACTC-AAGTACCAAATTG
*
113981892 AAAAAAACTCAATTACCAAATTG
1 AAAAAAACTCAAGTACCAAATTG
113981915 AA
1 AA
113981917 TTTGAAGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (23 bp):
AAAAAAACTCAAGTACCAAATTG
Found at i:113982571 original size:4 final size:4
Alignment explanation
Indices: 113982562--113982634 Score: 101
Period size: 4 Copynumber: 18.2 Consensus size: 4
113982552 TCAATTACTT
* * * * *
113982562 TACA TACA TACA TACG CACA TGCA TGCA TGCA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
113982610 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
113982635 TTATTAGCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:113984852 original size:232 final size:232
Alignment explanation
Indices: 113984439--113985108 Score: 1025
Period size: 232 Copynumber: 2.8 Consensus size: 232
113984429 TTTATTTTTG
*
113984439 GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCATGTTCGAGTAAGCG
1 GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAAGCG
*
113984504 CTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
66 CTCGGACTATTGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
* * *
113984569 AGTGTGTCCTGGTAATCTTTCCTGCATTTATCGAATGATTTTGTAATAGATGTATAGTACTACTT
131 AGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGATGTATACTACTACTT
113984634 GTATGAGATGTATACCACTACTTCAGTGTTTATTTCA
196 GTATGAGATGTATACCACTACTTCAGTGTTTATTTCA
113984671 GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAAGCG
1 GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAAGCG
113984736 CTCGGACTATTGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
66 CTCGGACTATTGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
*
113984801 AGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTGATAGATGTATACTACTACTT
131 AGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGATGTATACTACTACTT
* * **
113984866 GTATGAGATGTATACTACTGCTTCAGTGTTTATTTTG
196 GTATGAGATGTATACCACTACTTCAGTGTTTATTTCA
* *
113984903 GGTTTCTTGAAGCATTTAGTACCTTTGTTGTAGTAGTAGTTCTAGTAGGTATCTTGTTCGAGTAA
1 GGTTTCTCGAAGCATTTAGTACCTTTG-T-T-GTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAA
* * * *
113984968 GCACTCGGAGTATTGCTTTTTGGTCCGATTTGAGGCACAATAAGTGACATACTAGGGTAAGAATC
63 GCGCTCGGACTATTGCTTCTTGGTCCGATTT---------T-AG-G-CATAATAGGGTAAGAATC
* * * *
113985033 CATACTCCGAGTTCGAGTGTGGCCGGGTAATCTTGCCTGCATGTATCAAACGATTTTGTAATAGA
116 CATACTCCGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
113985098 TGTATACTACT
181 TGTATACTACT
113985109 GAGATGTAAC
Statistics
Matches: 402, Mismatches: 21, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
232 248 0.62
233 1 0.00
234 1 0.00
235 60 0.15
244 1 0.00
245 2 0.00
246 1 0.00
247 88 0.22
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (232 bp):
GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAAGCG
CTCGGACTATTGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
AGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGATGTATACTACTACTT
GTATGAGATGTATACCACTACTTCAGTGTTTATTTCA
Found at i:113988153 original size:6 final size:6
Alignment explanation
Indices: 113988142--113988175 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
113988132 TTTTGCAGGT
*
113988142 AAAAAG AAAAAG AAAAA- AAAAAG ATAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
113988176 CCCCTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:113988164 original size:17 final size:17
Alignment explanation
Indices: 113988142--113988175 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113988132 TTTTGCAGGT
113988142 AAAAAGAAAAAGAAAAA
1 AAAAAGAAAAAGAAAAA
*
113988159 AAAAAGATAAAGAAAAA
1 AAAAAGAAAAAGAAAAA
113988176 CCCCTAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAA
Found at i:113991363 original size:7 final size:7
Alignment explanation
Indices: 113991351--113991388 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
113991341 CAGAAGAACG
113991351 GTGATCA
1 GTGATCA
113991358 GTGATCA
1 GTGATCA
113991365 GTGATCA
1 GTGATCA
113991372 GTGATCA
1 GTGATCA
* *
113991379 CTAATCA
1 GTGATCA
113991386 GTG
1 GTG
113991389 CCTTGCATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (7 bp):
GTGATCA
Found at i:113991868 original size:31 final size:31
Alignment explanation
Indices: 113991791--113991870 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
113991781 AATAACTAAG
113991791 TACTAATTTGGACCAAAAAGCCAAATTCAGC
1 TACTAATTTGGACCAAAAAGCCAAATTCAGC
* * * * * *
113991822 TACGAATTTGAACCAAGAAGCCAAGTTTAGG
1 TACTAATTTGGACCAAAAAGCCAAATTCAGC
113991853 TATCTAA-TTGGACCAAAA
1 TA-CTAATTTGGACCAAAA
113991871 TAAACTTTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (31 bp):
TACTAATTTGGACCAAAAAGCCAAATTCAGC
Found at i:114002681 original size:27 final size:27
Alignment explanation
Indices: 114002643--114002697 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
114002633 ACTTTTAGAA
*
114002643 AATTTATCCATGTTAGCAATGAAATAT
1 AATTTATCCATGTTAGCAATAAAATAT
114002670 AATTTATCCATGTTAGCAATAAAATAT
1 AATTTATCCATGTTAGCAATAAAATAT
114002697 A
1 A
114002698 CGTGAAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (27 bp):
AATTTATCCATGTTAGCAATAAAATAT
Found at i:114003160 original size:19 final size:18
Alignment explanation
Indices: 114003097--114003163 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 18
114003087 TAATTTTATT
*
114003097 ATATTTTTTAAAATTTAAA
1 ATATTTTTAAAAATTT-AA
*
114003116 ATATTTTTTAAAAATATT-T
1 ATA-TTTTTAAAAAT-TTAA
*
114003135 TTA-TTTTAAAAATTTAA
1 ATATTTTTAAAAATTTAA
114003152 ATACTTTTTAAA
1 ATA-TTTTTAAA
114003164 TTTTTGCAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 2 0.05
17 12 0.32
19 12 0.32
20 10 0.26
21 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTTTTAAAAATTTAA
Found at i:114003954 original size:13 final size:13
Alignment explanation
Indices: 114003914--114003975 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
114003904 ACACTTAAAA
* *
114003914 TTTTCCAAAGCAC
1 TTTTCAAAAGTAC
* *
114003927 TTCTCAAAAGCAC
1 TTTTCAAAAGTAC
* *
114003940 TTTTCTACAGTAC
1 TTTTCAAAAGTAC
114003953 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
*
114003966 TTTTTAAAAG
1 TTTTCAAAAG
114003976 CATTGCCAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:114010400 original size:243 final size:231
Alignment explanation
Indices: 114009811--114010440 Score: 676
Period size: 233 Copynumber: 2.7 Consensus size: 231
114009801 TTCTATAATA
* * * * * * *
114009811 ATTATCCATTTTGTGTCCTCTATTGGA-TTGATGAAACATAATTAAACACTACTGCTTGCTTCGA
1 ATTACCCATTTCGTGTCATCTACTGGATTTGACGAAACAT-ATTAAACACTACAGCTTGCTTTGA
* * *
114009875 TAACCTTTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAAGTAGTCAGCATCA
65 TAACC-TTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTAGTTAGTATCA
* * *
114009940 AACCGGTAGATAGTATCGTTTTTGTTCTAGTATTGTTACGATATTTGTGTGTTTTGGTGTATCAT
129 AACCAGTAGATAGTATCGTTTTTGTTCTAGTATTGTTACGACATTTGTGTGTTTCGGTGTATCAT
* *
114010005 TTCCGATTTATTAATATTTTAAAAATATTTTCATATAT
194 TTCCGATATATCAATATTTTAAAAATATTTTCATATAT
* * * * * *
114010043 GTTACCCATTTCATGTCATCTACTGGATTTAATCTAAACATCATTAGAA-ACTATAGCATGC-TT
1 ATTACCCATTTCGTGTCATCTACTGGATTTGA-CGAAACAT-ATTA-AACACTACAGCTTGCTTT
* * ** * *
114010106 GATAACCTCTTTAATCATGTTCTGTTCTGTTGGTTCTATCCTATCGAGTTTAAGGTAGTTTGTAT
63 GATAACCT-TTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTAGTTAGTAT
* * * * * *
114010171 CGAACAAGTGGATAATATTGTTTTTGTTCTGGTATTGTTACGTACCAGTATT-TGTGTTTCGGTG
127 CAAACCAGTAGATAGTATCGTTTTTGTTCTAGTATTGTTACG-A-CA-T-TTGTGTGTTTCGGTG
** * *
114010235 TATTGTTT-TGAGTATATCAATATCTTTCTAAAAGTATTTTCATATAT
188 TATCATTTCCGA-TATATCAATA--TTT-TAAAAATATTTTCATATAT
*
114010282 ATATCACCCATTTCGTGTCGTCTACTGGATTTGACGAAAACATAGTTAAACACTACAGCTTTGCT
1 AT-T-ACCCATTTCGTGTCATCTACTGGATTTGACG-AAACATA-TTAAACACTACAGC-TTGCT
* * *
114010347 TTGATAACCATTTTAATCATGTTCTGTTTTGTTGCTTATATTGTATGGAGTTTAAGGTGGTTGGT
61 TTGATAACC-TTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTAGTTAGT
114010412 ATCAAACCAGTAGATAGTATCGTTTTTGT
125 ATCAAACCAGTAGATAGTATCGTTTTTGT
114010441 GATGATATTA
Statistics
Matches: 320, Mismatches: 58, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
232 22 0.07
233 93 0.29
234 20 0.06
235 5 0.02
236 26 0.08
237 2 0.01
238 3 0.01
239 19 0.06
240 5 0.02
241 42 0.13
242 3 0.01
243 79 0.25
244 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.44
Consensus pattern (231 bp):
ATTACCCATTTCGTGTCATCTACTGGATTTGACGAAACATATTAAACACTACAGCTTGCTTTGAT
AACCTTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTAGTTAGTATCAAA
CCAGTAGATAGTATCGTTTTTGTTCTAGTATTGTTACGACATTTGTGTGTTTCGGTGTATCATTT
CCGATATATCAATATTTTAAAAATATTTTCATATAT
Found at i:114034417 original size:22 final size:20
Alignment explanation
Indices: 114034392--114034437 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
114034382 TTAGTGATTT
*
114034392 ATTATAAATTTAAATATATATA
1 ATTAT-AATTT-AACATATATA
*
114034414 ATTATTATTTAACATATATA
1 ATTATAATTTAACATATATA
114034434 ATTA
1 ATTA
114034438 ATATAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 4 0.18
22 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATAATTTAACATATATA
Found at i:114035531 original size:19 final size:20
Alignment explanation
Indices: 114035494--114035531 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
114035484 GTATCAAATG
* *
114035494 ATATATTAAATCTAGTAAAA
1 ATATATAAAATCTACTAAAA
114035514 ATATATAAAAT-TACTAAA
1 ATATATAAAATCTACTAAA
114035532 TTTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATATAAAATCTACTAAAA
Found at i:114044834 original size:31 final size:31
Alignment explanation
Indices: 114044788--114044856 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
114044778 TTTAAATTTT
* *
114044788 AAAAATAGAAGGATTATATTTCAAACATATG
1 AAAAGTAGAAAGATTATATTTCAAACATATG
*
114044819 AAAAGTAGAAAGATTATATTTCAAATATATG
1 AAAAGTAGAAAGATTATATTTCAAACATATG
114044850 AAAAGTA
1 AAAAGTA
114044857 TAAGGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (31 bp):
AAAAGTAGAAAGATTATATTTCAAACATATG
Found at i:114047395 original size:183 final size:182
Alignment explanation
Indices: 114047100--114047582 Score: 700
Period size: 183 Copynumber: 2.6 Consensus size: 182
114047090 TACATTTGAG
* ** *
114047100 TTAAGCTCCAATGGGCAGATGATCATGCCATGTAACTTGGTCTGTCAACTTTATGAGTTGAGCTT
1 TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGC--
* ** *
114047165 AATTAAATGA-TGTAGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTTGAATAGTTGC
64 AAATAAAACATTGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTTGAATAGTTGC
* * *
114047229 ATGTAATCAGTGAATAGAATATGAATCAAGTCAGGTCAAATGTAACTACTCGAA
129 ATATAATCAGTGAATAGAATATGAATCAAGTCAGATCAAATGTAACAACTCGAA
* **
114047283 TTAAGCTACAATGACCAGATCATCATGCCATAAAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
1 TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
* * * *
114047348 ACAAAACATTGTGGCATTTAGTTTAAAATATAATGTAACGCGTCATATTTACTTGAATTGTTGCA
66 ATAAAACATTGTGGCA-TTAGTTTAAAATATAATGTAACGTGTCATATTCACTTGAATAGTTGCA
* * * *
114047413 TATAATCAGTGAATGGAGTATGAATCAGGTCAGATCAAATGTAACAACTCGAG
130 TATAATCAGTGAATAGAATATGAATCAAGTCAGATCAAATGTAACAACTCGAA
114047466 TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
1 TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
* *
114047531 ATAAAACAATT-CGGCATTCGTTTAAAATATAATGTAACGTGTCATATTCACT
66 ATAAAAC-ATTGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACT
114047583 CGACCCACTA
Statistics
Matches: 267, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
181 6 0.02
182 39 0.15
183 219 0.82
184 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (182 bp):
TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
ATAAAACATTGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTTGAATAGTTGCAT
ATAATCAGTGAATAGAATATGAATCAAGTCAGATCAAATGTAACAACTCGAA
Found at i:114047810 original size:207 final size:204
Alignment explanation
Indices: 114047398--114047928 Score: 678
Period size: 207 Copynumber: 2.6 Consensus size: 204
114047388 CGTCATATTT
* * * * * *
114047398 ACTTGAATTGTTGCATATAATCAGTGAATGGAGTATGAATCAGGTCAGATCAAATGTAACAACTC
1 ACTTGAATAGTTGCATATAACCGGTGAATGGAGTATGAATCTGGTCAGATTAAATGTAACAATTC
** *
114047463 GAGT-TAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGA
66 GAGTATAAGCTACAATGGTCAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGTTGA
* *
114047527 GCAAATAAAACAATTCGGCATTCGTTTAAAATATAATGTAACGTGTCATATTCACTCGACCCACT
131 GCAAATAAAACAATTCGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTCGACACACT
114047592 AGAGTTTTA
196 AGAGTTTTA
*
114047601 ACTTGAATAGTTGCATGTAACCGGTGAATGGAGTATGAGATCTGGTCAGATTAAATGTAACAATT
1 ACTTGAATAGTTGCATATAACCGGTGAATGGAGTATGA-ATCTGGTCAGATTAAATGTAACAATT
*
114047666 CGAGTTAATAAGCTACAATGGTCAGATGATCATACCATGTAACTTGGTTTGTTAACTTTATGAGT
65 CGAG-T-ATAAGCTACAATGGTCAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGT
* ** ** *
114047731 TGAGCTTAATTTAATGATGT-GGCATTATTTTAAAATATAATGTAACGTGTCATATTCA-TCAGA
128 TGAGC-AAATAAAACAAT-TCGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTC-GA
*
114047794 CACACTGGAG-TTTA
190 CACACTAGAGTTTTA
* * * * *
114047808 ACTTGAATAGTTGCATATAACCGATGAGTGGGGTATGATAT-TGGGTCGGATTAAATGTAACGAT
1 ACTTGAATAGTTGCATATAACCGGTGAATGGAGTATGA-ATCT-GGTCAGATTAAATGTAACAAT
* * * *
114047872 TC-AGGATAAGCTAGAATGGTGAGATGATCATGTCATGTAAACTTGGTTTGTTAACTT
64 TCGAGTATAAGCTACAATGGTCAGATGATCATGCCATGT-AACTTGGTTTGTTAACTT
114047929 GTTTCCCCTT
Statistics
Matches: 287, Mismatches: 32, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
203 34 0.12
204 56 0.20
205 19 0.07
206 3 0.01
207 121 0.42
208 53 0.18
209 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (204 bp):
ACTTGAATAGTTGCATATAACCGGTGAATGGAGTATGAATCTGGTCAGATTAAATGTAACAATTC
GAGTATAAGCTACAATGGTCAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGTTGA
GCAAATAAAACAATTCGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTCGACACACT
AGAGTTTTA
Found at i:114049346 original size:23 final size:20
Alignment explanation
Indices: 114049298--114049340 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
114049288 CACACGACAT
114049298 AAATTAAATAATATATAAAA
1 AAATTAAATAATATATAAAA
114049318 AAATTAAATAATATATAAAA
1 AAATTAAATAATATATAAAA
114049338 AAA
1 AAA
114049341 ACATTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATTAAATAATATATAAAA
Found at i:114051853 original size:86 final size:86
Alignment explanation
Indices: 114051731--114052068 Score: 400
Period size: 86 Copynumber: 4.0 Consensus size: 86
114051721 TCTTGCTTTA
* * * * * *
114051731 AAAAAGTTGAAAATTTGGTCCGGTTTTTGTTGAATACATGCACTTGAACCGTTGATTTGTGCTAA
1 AAAAA-TTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTGAACCGTTGATTTTTGCTAA
114051796 TTTGTTGCACATAAATTGTTAT
65 TTTGTTGCACATAAATTGTTAT
*
114051818 AAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATAC----A--TGAACCGTTGATTTTTGCTAAT
1 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTGAACCGTTGATTTTTGCTAAT
*
114051877 TTGTTGCATATAAATTGTTAT
66 TTGTTGCACATAAATTGTTAT
* * * * *
114051898 AAAAATTGAAAATTTTGTCTGATTTTTGGTAAATACATGAACTTGAACCATTGATTTTTGCTAAT
1 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTGAACCGTTGATTTTTGCTAAT
* **
114051963 TTGTTGCATATAAATCATTAT
66 TTGTTGCACATAAATTGTTAT
* * * * **
114051984 AGAAATTGAAAATTTAGCCCGGTTGTCGGTAAATATATGAACTTTGAATTGTTGATTTTTGCTAA
1 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAAC-TTGAACCGTTGATTTTTGCTAA
* *
114052049 TTTGTTTCACATAAACTGTT
65 TTTGTTGCACATAAATTGTT
114052069 GTAAGATTGA
Statistics
Matches: 215, Mismatches: 29, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
80 74 0.34
82 1 0.00
84 1 0.00
86 100 0.47
87 39 0.18
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (86 bp):
AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTGAACCGTTGATTTTTGCTAAT
TTGTTGCACATAAATTGTTAT
Found at i:114051874 original size:80 final size:80
Alignment explanation
Indices: 114051775--114052025 Score: 331
Period size: 80 Copynumber: 3.1 Consensus size: 80
114051765 TACATGCACT
* *
114051775 TGAACCGTTGATTTGTGCTAATTTGTTGCACATAAATTGTTATAAAAATTGAAAATTTAGTCTGG
1 TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTAGTCTGG
114051840 TTGTTGGTAAATACA
66 TTGTTGGTAAATACA
* *
114051855 TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTTGTCTGA
1 TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTAGTCTGG
*
114051920 TTTTTGGTAAATACATGAA
66 TTGTTGGTAAATAC----A
* ** * * *
114051939 CTTGAACCATTGATTTTTGCTAATTTGTTGCATATAAATCATTATAGAAATTGAAAATTTAGCCC
1 --TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTAGTCT
* *
114052004 GGTTGTCGGTAAATATA
64 GGTTGTTGGTAAATACA
114052021 TGAAC
1 TGAAC
114052026 TTTGAATTGT
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
80 79 0.53
82 1 0.01
84 1 0.01
86 68 0.46
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.41
Consensus pattern (80 bp):
TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTAGTCTGG
TTGTTGGTAAATACA
Found at i:114052119 original size:40 final size:40
Alignment explanation
Indices: 114052027--114052145 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 40
114052017 TATATGAACT
* * * * * * *
114052027 TTGAATTGTTGATTTTTGCTAATTTGTTTCACATAAACTG
1 TTGAAATGTTGATTTTTGTTAATTTCTTACATATAAATTA
* *
114052067 TTGTAA-GATTGATTTTTGTTAATTTCTTGCATATAAATTA
1 TTGAAATG-TTGATTTTTGTTAATTTCTTACATATAAATTA
*
114052107 TTGAAATGTTGATTTTT-TATAATTCCTTACATATTAAAT
1 TTGAAATGTTGATTTTTGT-TAATTTCTTACATA-TAAAT
114052146 ACTGTAGTGT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.03
40 56 0.88
41 6 0.09
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (40 bp):
TTGAAATGTTGATTTTTGTTAATTTCTTACATATAAATTA
Found at i:114055954 original size:30 final size:29
Alignment explanation
Indices: 114055892--114055954 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
114055882 CGTCGGGAGT
* *
114055892 AAATTACAAGTATAATATTCATATAATAA
1 AAATTACAAATACAATATTCATATAATAA
*
114055921 AAATTACAAATAACAATATCTCAT-TAATTA
1 AAATTACAAAT-ACAATAT-TCATATAATAA
114055951 AAAT
1 AAAT
114055955 CAGAATCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.34
30 15 0.52
31 4 0.14
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (29 bp):
AAATTACAAATACAATATTCATATAATAA
Found at i:114055999 original size:17 final size:17
Alignment explanation
Indices: 114055969--114056019 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
114055959 ATCAATTCAG
* *
114055969 TAAAAAATATAATAAAT
1 TAAAAATTAAAATAAAT
*
114055986 TAAAAATTAAAATATAT
1 TAAAAATTAAAATAAAT
* *
114056003 T-TAAATTTAAATAAAT
1 TAAAAATTAAAATAAAT
114056019 T
1 T
114056020 TAGGTGAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATTAAAATAAAT
Found at i:114056008 original size:16 final size:16
Alignment explanation
Indices: 114055979--114056021 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
114055969 TAAAAAATAT
*
114055979 AATAAATTAAAAATTAA
1 AATAAATT-TAAATTAA
* *
114055996 AATATATTTAAATTTA
1 AATAAATTTAAATTAA
114056012 AATAAATTTA
1 AATAAATTTA
114056022 GGTGAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAAATTTAAATTAA
Found at i:114063123 original size:22 final size:23
Alignment explanation
Indices: 114063096--114063141 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
114063086 TCATGAGTTT
114063096 TTAAATT-TGAAAAGTAA-AATAA
1 TTAAATTCTGAAAA-TAATAATAA
114063118 TTAAATTCCTGAAAATAATAATAA
1 TTAAATT-CTGAAAATAATAATAA
114063142 AAAACTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 11 0.52
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
TTAAATTCTGAAAATAATAATAA
Found at i:114065857 original size:31 final size:31
Alignment explanation
Indices: 114065815--114065880 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
114065805 AGTTAAGTTC
* *
114065815 TGAACTTGGCAATTGTTCTCACAATGAGA-CT
1 TGAACTAGGCAACTGTTCTCA-AATGAGAGCT
*
114065846 TGAACTAGGCAACTGTTCTCAAATTAGAGCT
1 TGAACTAGGCAACTGTTCTCAAATGAGAGCT
114065877 TGAA
1 TGAA
114065881 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (31 bp):
TGAACTAGGCAACTGTTCTCAAATGAGAGCT
Done.