Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 209 of 292
Found at i:61908378 original size:25 final size:25
Alignment explanation
Indices: 61908350--61908408 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
61908340 ATATTACGTA
* * *
61908350 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATGATG
* * *
61908375 TATATATCTTTAATATTATATGATT
1 TATATATATTTAATACTATATGATG
61908400 TATATATAT
1 TATATATAT
61908409 ATATATATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (25 bp):
TATATATATTTAATACTATATGATG
Found at i:61908468 original size:22 final size:24
Alignment explanation
Indices: 61908440--61908498 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
61908430 ACATGTTATC
61908440 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
61908462 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
61908487 TTATGTACATAT
1 TTATGTATATAT
61908499 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:61908488 original size:25 final size:25
Alignment explanation
Indices: 61908456--61908504 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
61908446 ATATATCTTA
**
61908456 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
61908481 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
61908505 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:61908683 original size:16 final size:15
Alignment explanation
Indices: 61908659--61908706 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
61908649 TAATTATTAT
*
61908659 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
61908675 TATTTTAATATTTTA
1 TATTTTAATATTTTA
61908690 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
61908706 T
1 T
61908707 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:61908694 original size:7 final size:8
Alignment explanation
Indices: 61908659--61908710 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
61908649 TAATTATTAT
*
61908659 TATTCTAA
1 TATTTTAA
*
61908667 TATTTTGA
1 TATTTTAA
61908675 TATTTTAA
1 TATTTTAA
61908683 TATTTT-A
1 TATTTTAA
61908690 TATTTTATA
1 TATTTTA-A
*
61908699 TATTTTAT
1 TATTTTAA
61908707 TATT
1 TATT
61908711 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:61915592 original size:72 final size:71
Alignment explanation
Indices: 61915516--61915659 Score: 225
Period size: 72 Copynumber: 2.0 Consensus size: 71
61915506 TTTTTCAGAA
* * *
61915516 TCAACTCATATTGCTAGAGGTAAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
1 TCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT-T
*
61915581 TTTAATT
65 TTCAATT
* *
61915588 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTT
61915653 TCAATT
66 TCAATT
61915659 T
1 T
61915660 ACGTTGTTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
71 8 0.12
72 58 0.88
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (71 bp):
TCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTT
TCAATT
Found at i:61915764 original size:140 final size:140
Alignment explanation
Indices: 61915592--61916079 Score: 870
Period size: 140 Copynumber: 3.5 Consensus size: 140
61915582 TTAATTTCAA
61915592 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
61915657 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
61915722 TCAAAATCAG
131 TCAAAATCAG
* *
61915732 CTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
61915797 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
61915862 TCAAAATCAG
131 TCAAAATCAG
61915872 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
61915937 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
*
61916002 TCAAAATTAG
131 TCAAAATCAG
* *
61916012 CTAATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAGTTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
61916076 TCAA
62 TCAA
61916080 AAAAAAAAAT
Statistics
Matches: 335, Mismatches: 9, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
139 2 0.01
140 305 0.91
142 22 0.07
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:61915935 original size:13 final size:13
Alignment explanation
Indices: 61915917--61915950 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
61915907 CGCTGAGGTA
*
61915917 TTTTCAATTTCTG
1 TTTTCAATTTATG
61915930 TTTTCAATTTATG
1 TTTTCAATTTATG
61915943 TTGTTCAA
1 TT-TTCAA
61915951 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:61916202 original size:72 final size:72
Alignment explanation
Indices: 61916085--61916225 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
61916075 TTCAAAAAAA
*
61916085 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
61916150 TGTTTTC
66 TGTTTTC
61916157 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
61916222 TGTT
66 TGTT
61916226 CAAAATGAGT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:61916236 original size:49 final size:50
Alignment explanation
Indices: 61916179--61916275 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
61916169 ATATTGCGAG
**
61916179 AAATGAGTTGAACCTCAAG-ACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAACCTCAAGCACACGCCGAGGTAATTTCAATTTCTGTTCA
* * *
61916228 AAATGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGT
1 AAATGAGTTGAACCTCAAG-CACACGCCGAGGTAATTTCAATTTCTGT
61916276 CTTTCAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 17 0.41
51 24 0.59
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (50 bp):
AAATGAGTTGAACCTCAAGCACACGCCGAGGTAATTTCAATTTCTGTTCA
Found at i:61916460 original size:74 final size:74
Alignment explanation
Indices: 61916231--61916632 Score: 466
Period size: 77 Copynumber: 5.2 Consensus size: 74
61916221 CTGTTCAAAA
* *
61916231 TGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAAACATC
1 TGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTTCTGT-TGTC-----AAAAAA-ATC
61916296 AACTCATATTGCGAGAGG
57 AACTCATATTGCGAGAGG
* * * * * *
61916314 TGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACT
1 TGAGTTGAGCCTCAG--GACACGCTGAGGTA--TTTTCAATTTCT-GTTGTCAAAAAAATCAACT
* *
61916379 CACATTGCGAGATG
61 CATATTGCGAGAGG
*
61916393 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATAT
61916458 TGCGAGAGG
66 TGCGAGAGG
* * * *
61916467 TGAGTTGAGCCTCGGGACACACTGAGGTATTGTCAATTTTTCGTATGTTTC-AAAAAATCAACTC
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-GT-TG--TCAAAAAAATCAACTC
61916531 ATATTGCGAGAGG
62 ATATTGCGAGAGG
* *
61916544 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCTGTTGT-AAAAAAATCAACTCGTAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATAT
61916608 TGCGAGAGG
66 TGCGAGAGG
*
61916617 CGAGTTGAGCCTCAGG
1 TGAGTTGAGCCTCAGG
61916633 TCACACGTCA
Statistics
Matches: 280, Mismatches: 29, Indels: 30
0.83 0.09 0.09
Matches are distributed among these distances:
73 41 0.15
74 65 0.23
75 15 0.05
76 4 0.01
77 73 0.26
78 2 0.01
79 33 0.12
80 6 0.02
83 25 0.09
85 15 0.05
86 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (74 bp):
TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATAT
TGCGAGAGG
Found at i:61916563 original size:151 final size:150
Alignment explanation
Indices: 61916231--61916638 Score: 525
Period size: 151 Copynumber: 2.6 Consensus size: 150
61916221 CTGTTCAAAA
* *
61916231 TGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAAACATC
1 TGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTTCTGT-TGTC-----AAAAAA-ATC
* * ** *
61916296 AACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATAT
57 AACTCGTATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACACTGAGGTA-TTTGTCAATTTATAT
* *
61916361 TTTTCAAAAAAATCAACTCACATTGCGAGATG
119 GTTTCAAAAAAATCAACTCACATTGCGAGAGG
61916393 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTAT
*
61916458 TGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTA-TTGTCAATTTTTCGTATGTTTC-AAA
66 TGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTGTCAA--TTT-ATATGTTTCAAAA
*
61916521 AAATCAACTCATATTGCGAGAGG
128 AAATCAACTCACATTGCGAGAGG
*
61916544 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCTGTTGT-AAAAAAATCAACTCGTAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTAT
* * *
61916608 TGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
66 TGCGAGAGGTGAGTTGAGCCTCGGGACACAC
61916639 GTCAAGTGAG
Statistics
Matches: 228, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
149 6 0.03
150 46 0.20
151 85 0.37
152 8 0.04
153 32 0.14
154 6 0.03
159 3 0.01
160 26 0.11
162 16 0.07
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (150 bp):
TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTAT
TGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTGTCAATTTATATGTTTCAAAAAAA
TCAACTCACATTGCGAGAGG
Found at i:61917325 original size:19 final size:19
Alignment explanation
Indices: 61917296--61917359 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
61917286 AAAAAAAAAG
61917296 AAAAAAGAAAAACCTAACCC
1 AAAAAA-AAAAACCTAACCC
* **
61917316 AAAAAAAAAAA--GAA-GA
1 AAAAAAAAAAACCTAACCC
61917332 AGAAAAAAAAAACCTAACCC
1 A-AAAAAAAAAACCTAACCC
61917352 AAAAAAAA
1 AAAAAAAA
61917360 TAATAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
16 1 0.03
17 12 0.35
19 14 0.41
20 7 0.21
ACGTcount: A:0.75, C:0.16, G:0.06, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAACCTAACCC
Found at i:61917343 original size:36 final size:34
Alignment explanation
Indices: 61917286--61917359 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 34
61917276 AAGCCCCCCC
*
61917286 AAAAAAAAAGAAAAAAGAAAAACCTAACCCAAAA
1 AAAAAAAAAGAAAAAAAAAAAACCTAACCCAAAA
61917320 AAAAAAAGAAGAAGAAAAAAAAAACCTAACCCAAAA
1 AAAAAAA-AAGAA-AAAAAAAAAACCTAACCCAAAA
61917356 AAAA
1 AAAA
61917360 TAATAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 7 0.19
35 5 0.14
36 25 0.68
ACGTcount: A:0.77, C:0.14, G:0.07, T:0.03
Consensus pattern (34 bp):
AAAAAAAAAGAAAAAAAAAAAACCTAACCCAAAA
Found at i:61918021 original size:2 final size:2
Alignment explanation
Indices: 61918014--61918091 Score: 58
Period size: 2 Copynumber: 40.5 Consensus size: 2
61918004 CTATATTACG
* * * * *
61918014 TA TA TA TA TA TA TA T- TT TA TA CTA T- TT TA TG TA TA TA TC TT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
61918055 TA -A TA T- TA TA TGA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
61918092 TTTTTTTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
1 5 0.08
2 53 0.85
3 4 0.06
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (2 bp):
TA
Found at i:61918049 original size:25 final size:24
Alignment explanation
Indices: 61918020--61918077 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
61918010 TACGTATATA
* * *
61918020 TATATATATTTTATACTATTTTAT
1 TATATATATTTAATACTATATGAT
* *
61918044 GTATATATCTTTAATATTATATGAT
1 -TATATATATTTAATACTATATGAT
61918069 TATATATAT
1 TATATATAT
61918078 ATATATATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (24 bp):
TATATATATTTAATACTATATGAT
Found at i:61918142 original size:22 final size:24
Alignment explanation
Indices: 61918114--61918172 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
61918104 ACATGTTATC
61918114 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
61918136 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
61918161 TTATGTACATAT
1 TTATGTATATAT
61918173 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:61918162 original size:25 final size:25
Alignment explanation
Indices: 61918130--61918178 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
61918120 ATATATCTTA
**
61918130 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
61918155 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
61918179 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:61918357 original size:16 final size:15
Alignment explanation
Indices: 61918333--61918380 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
61918323 TAATTATTAT
*
61918333 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
61918349 TATTTTAATATTTTA
1 TATTTTAATATTTTA
61918364 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
61918380 T
1 T
61918381 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:61918368 original size:7 final size:8
Alignment explanation
Indices: 61918333--61918384 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
61918323 TAATTATTAT
*
61918333 TATTCTAA
1 TATTTTAA
*
61918341 TATTTTGA
1 TATTTTAA
61918349 TATTTTAA
1 TATTTTAA
61918357 TATTTT-A
1 TATTTTAA
61918364 TATTTTATA
1 TATTTTA-A
*
61918373 TATTTTAT
1 TATTTTAA
61918381 TATT
1 TATT
61918385 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:61919114 original size:10 final size:9
Alignment explanation
Indices: 61919073--61919123 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
61919063 TGGAATCAGG
61919073 TTTTATAATT
1 TTTTATAA-T
61919083 TTTAATATAAT
1 TTT--TATAAT
61919094 TTTTA-AAT
1 TTTTATAAT
61919102 TTTTATGAAT
1 TTTTAT-AAT
61919112 TTTTAATAAT
1 TTTT-ATAAT
61919122 TT
1 TT
61919124 ATTTAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 8 0.22
9 2 0.06
10 15 0.42
11 6 0.17
12 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:61919122 original size:20 final size:21
Alignment explanation
Indices: 61919073--61919123 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
61919063 TGGAATCAGG
*
61919073 TTTTATAATTTTTAATATAAT
1 TTTTATAATTTTTAATAGAAT
61919094 TTTTA-AATTTTT-AT-GAAT
1 TTTTATAATTTTTAATAGAAT
61919112 TTTTAATAATTT
1 TTTT-ATAATTT
61919124 ATTTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.26
19 3 0.11
20 12 0.44
21 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATAATTTTTAATAGAAT
Found at i:61927423 original size:18 final size:19
Alignment explanation
Indices: 61927402--61927438 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
61927392 TTTCTTTGCT
61927402 TTTTTTCCTTTTG-AATAA
1 TTTTTTCCTTTTGTAATAA
*
61927420 TTTTTTTCTTTTGTAATAA
1 TTTTTTCCTTTTGTAATAA
61927439 CCATATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTTCCTTTTGTAATAA
Found at i:61927423 original size:19 final size:19
Alignment explanation
Indices: 61927401--61927438 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
61927391 TTTTCTTTGC
61927401 TTTTTTTCCTTTTG-AATAA
1 TTTTTTT-CTTTTGTAATAA
61927420 TTTTTTTCTTTTGTAATAA
1 TTTTTTTCTTTTGTAATAA
61927439 CCATATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTTCTTTTGTAATAA
Found at i:61928256 original size:29 final size:29
Alignment explanation
Indices: 61928224--61928291 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 29
61928214 AAAGTTTAAT
61928224 GTATATAATT-ACATCAAATCAAAATTCA
1 GTATATAATTCACATCAAATCAAAATTCA
61928252 CGTATCA-AATTGCACATCAAATCAAAATTCA
1 -GTAT-ATAATT-CACATCAAATCAAAATTCA
61928283 -TATATAATT
1 GTATATAATT
61928292 TCGGTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
28 1 0.03
29 15 0.43
30 1 0.03
31 18 0.51
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.32
Consensus pattern (29 bp):
GTATATAATTCACATCAAATCAAAATTCA
Found at i:61937415 original size:31 final size:30
Alignment explanation
Indices: 61937372--61937430 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
61937362 TAACAGTATT
61937372 TTTGGATTAATATACAATTAGGTACCTATA
1 TTTGGATTAATATACAATTAGGTACCTATA
* * * *
61937402 TTTGGCTTCAATATTCAGTTTGGTACCTA
1 TTTGGATT-AATATACAATTAGGTACCTA
61937431 AGTTTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (30 bp):
TTTGGATTAATATACAATTAGGTACCTATA
Found at i:61942248 original size:51 final size:51
Alignment explanation
Indices: 61942172--61942274 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
61942162 GATGCCCAAC
*
61942172 ATAAGTCCTTAAACGATAAAGTTGACGAAGGATACAAGTTGTTTGATACCA
1 ATAAGTCCTTAAACGATAAAGTTGACGAAGGATACAAGTTGCTTGATACCA
* *
61942223 ATAAGTCCTTAATCGATAAAGTTGACGATGGATACAAGTTGCTTGATACCA
1 ATAAGTCCTTAAACGATAAAGTTGACGAAGGATACAAGTTGCTTGATACCA
61942274 A
1 A
61942275 GCATGATACC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (51 bp):
ATAAGTCCTTAAACGATAAAGTTGACGAAGGATACAAGTTGCTTGATACCA
Found at i:61943655 original size:35 final size:34
Alignment explanation
Indices: 61943603--61943669 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
61943593 AAGGATCTCC
* *
61943603 TTTTTTTTTTAATAAAATGATACCCTAAACTTTT
1 TTTTTTTTTTAAGAAAATGACACCCTAAACTTTT
61943637 TTTTTTTTTTACAGAAAATGACACCCTAAACTT
1 TTTTTTTTTTA-AGAAAATGACACCCTAAACTT
61943670 GATTATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (34 bp):
TTTTTTTTTTAAGAAAATGACACCCTAAACTTTT
Found at i:61944746 original size:27 final size:26
Alignment explanation
Indices: 61944709--61944823 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
61944699 AGCATGGCTG
* *
61944709 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
61944735 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
61944763 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
61944790 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
61944817 CCAGAAC
1 CCAGAAC
61944824 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:61944768 original size:54 final size:54
Alignment explanation
Indices: 61944709--61944823 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
61944699 AGCATGGCTG
*
61944709 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
61944763 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
61944817 CCAGAAC
1 CCAGAAC
61944824 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:61946476 original size:26 final size:26
Alignment explanation
Indices: 61946440--61946549 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
61946430 CATGAAATTC
61946440 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
61946466 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
61946492 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
61946518 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
61946544 TTATCA
1 TTATCA
61946550 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:61948845 original size:31 final size:31
Alignment explanation
Indices: 61948790--61948867 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
61948780 TTTTCCTTAA
* *
61948790 TGGCTTGGATAAGCCTT--GATGCAATCGAGT
1 TGGCTT-GAGAAGCCTTGAGATGCAATCGAAT
* **
61948820 TGGCTTGAGTAGCCTTGAGATGCAATTTAAT
1 TGGCTTGAGAAGCCTTGAGATGCAATCGAAT
61948851 TGGCTTGAGAAGCCTTG
1 TGGCTTGAGAAGCCTTG
61948868 TGGCAAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.20
30 6 0.15
31 26 0.65
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.32
Consensus pattern (31 bp):
TGGCTTGAGAAGCCTTGAGATGCAATCGAAT
Found at i:61951148 original size:164 final size:166
Alignment explanation
Indices: 61950862--61951186 Score: 451
Period size: 164 Copynumber: 2.0 Consensus size: 166
61950852 TTGCTGGCTA
* ** **
61950862 TGTTAACTTTCTCATAATTGCATTAGTGTACAAGTTTGTTGCTTGTGGGGAGTTTTTAACATAAT
1 TGTTAAC-TTCTCATAATTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAAT
* * *
61950927 TATTTAGTTGTTGAAATTGTGACTAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTT
65 TATGTAGTTGTTGAAAATGTGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTT
*
61950992 ACCAATGTATCTGGCTGAGAAATTCTCAACCGGAATC
130 ACCAATGTATCTGACTGAGAAATTCTCAACCGGAATC
* *
61951029 TGTTAAC-TCTCTTAATTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAG-TCATAACATGCA-
1 TGTTAACTTCTCATAATTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACAT-AAT
* *
61951091 TATGTAGTTGTTGAAAATGCTGAAT-ATTAGGCTTTTGAAGAATATTGACTTATGTTTCTTGATT
65 TATGTAGTTGTTGAAAATG-TGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATT
* * *
61951155 TACTAATGTGTCTGACTGAGAAATTCTTAACC
129 TACCAATGTATCTGACTGAGAAATTCTCAACC
61951187 AAAATGTGCT
Statistics
Matches: 140, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
164 89 0.64
165 44 0.31
167 7 0.05
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (166 bp):
TGTTAACTTCTCATAATTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAATT
ATGTAGTTGTTGAAAATGTGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTA
CCAATGTATCTGACTGAGAAATTCTCAACCGGAATC
Found at i:61956598 original size:39 final size:40
Alignment explanation
Indices: 61956537--61956612 Score: 145
Period size: 39 Copynumber: 1.9 Consensus size: 40
61956527 AAAGTGAAAC
61956537 TATAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
1 TATAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
61956577 TATAGTAAAAAACAG-AAAAGAATGTGCTTAGATAAG
1 TATAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAG
61956613 ACTTCTTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
39 21 0.58
40 15 0.42
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.22
Consensus pattern (40 bp):
TATAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
Found at i:61960363 original size:32 final size:32
Alignment explanation
Indices: 61960322--61960385 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
61960312 AAAGGTAAAA
61960322 ACTCTCTTTTACCAACCGTCTCAGTCAATCGC
1 ACTCTCTTTTACCAACCGTCTCAGTCAATCGC
*
61960354 ACTCTCTTTTACCAACCTTCTCAGTCAATCGC
1 ACTCTCTTTTACCAACCGTCTCAGTCAATCGC
61960386 CGAGGAGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.38, G:0.08, T:0.33
Consensus pattern (32 bp):
ACTCTCTTTTACCAACCGTCTCAGTCAATCGC
Found at i:61963242 original size:55 final size:55
Alignment explanation
Indices: 61963177--61963288 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
61963167 AATAGAATCT
*
61963177 TCATCGCTGAAATTAAAAATCGATCATTCTACTGTTGGGAATATACGTGATTTTG
1 TCATCGCTGAAATTAAAAATCGATCATTCTACTGTGGGGAATATACGTGATTTTG
61963232 TCATCGCTGAAATTAAAAATCGATCATTCTACTGTGGGGAATATACGTGATTTTG
1 TCATCGCTGAAATTAAAAATCGATCATTCTACTGTGGGGAATATACGTGATTTTG
61963287 TC
1 TC
61963289 GTTAGGGGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (55 bp):
TCATCGCTGAAATTAAAAATCGATCATTCTACTGTGGGGAATATACGTGATTTTG
Found at i:61964523 original size:15 final size:15
Alignment explanation
Indices: 61964503--61964561 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
61964493 TGAAATCTAA
61964503 ATTTAAAATTGAATT
1 ATTTAAAATTGAATT
61964518 ATTT--AATTAGAATT
1 ATTTAAAATT-GAATT
*
61964532 AATTTAAAATTGAAAT
1 -ATTTAAAATTGAATT
61964548 ATTCTAAAATTGAA
1 ATT-TAAAATTGAA
61964562 AATCATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
13 4 0.11
14 5 0.13
15 11 0.29
16 14 0.37
17 4 0.11
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (15 bp):
ATTTAAAATTGAATT
Found at i:61967276 original size:18 final size:18
Alignment explanation
Indices: 61967255--61967289 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
61967245 CCATATTACA
61967255 ATCAGTTTAAACATTAGT
1 ATCAGTTTAAACATTAGT
61967273 ATCAGTTTAAACATTAG
1 ATCAGTTTAAACATTAG
61967290 ACAACCAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
ATCAGTTTAAACATTAGT
Found at i:61967681 original size:36 final size:36
Alignment explanation
Indices: 61967634--61967740 Score: 205
Period size: 36 Copynumber: 3.0 Consensus size: 36
61967624 TAGGTAGAGA
61967634 AAGAGTCGGTATATCAGATACCTCGACATCTTTAAG
1 AAGAGTCGGTATATCAGATACCTCGACATCTTTAAG
61967670 AAGAGTCGGTATATCAGATACCTCGACATCTTTAAG
1 AAGAGTCGGTATATCAGATACCTCGACATCTTTAAG
*
61967706 AAGAGTTGGTATATCAGATACCTCGACATCTTTAA
1 AAGAGTCGGTATATCAGATACCTCGACATCTTTAA
61967741 CATTACAAGA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (36 bp):
AAGAGTCGGTATATCAGATACCTCGACATCTTTAAG
Found at i:61967898 original size:14 final size:14
Alignment explanation
Indices: 61967879--61967906 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61967869 ATTAAAATTA
61967879 TAAAATATAGATAT
1 TAAAATATAGATAT
61967893 TAAAATATAGATAT
1 TAAAATATAGATAT
61967907 AGATTTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
TAAAATATAGATAT
Found at i:61967906 original size:20 final size:20
Alignment explanation
Indices: 61967853--61967910 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
61967843 CAATTTAATA
*
61967853 TAAAGTATAGATAT--ATAT
1 TAAAATATAGATATAGATAT
*
61967871 TAAAATTATAAAATATAGATAT
1 TAAAA-TAT-AGATATAGATAT
61967893 TAAAATATAGATATAGAT
1 TAAAATATAGATATAGAT
61967911 TTGGTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 14 0.42
21 3 0.09
22 9 0.27
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
TAAAATATAGATATAGATAT
Found at i:61968458 original size:19 final size:19
Alignment explanation
Indices: 61968436--61968479 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
61968426 ATTGGCACGT
61968436 AAAGTGCATACTAGCACAC
1 AAAGTGCATACTAGCACAC
* * *
61968455 AAAGCGCATATTGGCACAC
1 AAAGTGCATACTAGCACAC
61968474 AAAGTG
1 AAAGTG
61968480 TATCCTGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (19 bp):
AAAGTGCATACTAGCACAC
Found at i:61974895 original size:14 final size:14
Alignment explanation
Indices: 61974876--61974905 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
61974866 TTACGAGGGA
61974876 CATTGTCAAATAGT
1 CATTGTCAAATAGT
61974890 CATTGTCAAATAGT
1 CATTGTCAAATAGT
61974904 CA
1 CA
61974906 GTGCAACATT
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:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (14 bp):
CATTGTCAAATAGT
Found at i:61976031 original size:28 final size:28
Alignment explanation
Indices: 61976012--61976072 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
61976002 AAGTGTTTTT
61976012 GAAAAACCACGATTGAAAAAAGTGTCTG
1 GAAAAACCACGATTGAAAAAAGTGTCTG
*
61976040 GAAAAACCACGATTGAAAAAAGTATCT-
1 GAAAAACCACGATTGAAAAAAGTGTCTG
61976067 GAAAAA
1 GAAAAA
61976073 GTGTAGTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.16
Consensus pattern (28 bp):
GAAAAACCACGATTGAAAAAAGTGTCTG
Found at i:61976471 original size:24 final size:23
Alignment explanation
Indices: 61976443--61976495 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
61976433 TATAATTACG
* * *
61976443 TTTTAAATATGATTTTTTTGCTAT
1 TTTTAAATATAATTTATTTG-TAA
*
61976467 TTTTAATTATAATTTATTTGTAA
1 TTTTAAATATAATTTATTTGTAA
61976490 TTTTAA
1 TTTTAA
61976496 TGATGGTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTTAAATATAATTTATTTGTAA
Found at i:61979422 original size:20 final size:20
Alignment explanation
Indices: 61979397--61979435 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
61979387 TTTATTACAT
61979397 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
61979417 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
61979436 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:61982846 original size:16 final size:16
Alignment explanation
Indices: 61982773--61982851 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
61982763 CACATATTTT
61982773 CACAGCTCACACATTA
1 CACAGCTCACACATTA
* **
61982789 CATAGCTTGCACATTA
1 CACAGCTCACACATTA
* * *
61982805 CACAACTCGCACATCA
1 CACAGCTCACACATTA
***
61982821 TTGTAGCTCACACATTA
1 -CACAGCTCACACATTA
61982838 CACAGCTCACACAT
1 CACAGCTCACACAT
61982852 CACTATGACT
Statistics
Matches: 46, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
16 36 0.78
17 10 0.22
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (16 bp):
CACAGCTCACACATTA
Found at i:61995309 original size:10 final size:9
Alignment explanation
Indices: 61995286--61995313 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
61995276 AGTATGCATT
61995286 GTTTTTTAA
1 GTTTTTTAA
61995295 GTTTTTTAA
1 GTTTTTTAA
61995304 GTTTTTTAA
1 GTTTTTTAA
61995313 G
1 G
61995314 GTGCACACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (9 bp):
GTTTTTTAA
Found at i:61997538 original size:24 final size:24
Alignment explanation
Indices: 61997497--61997563 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
61997487 GAAAGCTCAT
*
61997497 AAGAGCCATAATCGGGAAGTTCACA
1 AAGAACCAT-ATCGGGAAGTTCACA
*
61997522 AAGAACCTTATCGGGAAGTTCACA
1 AAGAACCATATCGGGAAGTTCACA
61997546 AAGAACCATATCGGGAAG
1 AAGAACCATATCGGGAAG
61997564 CTCCGGATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 32 0.82
25 7 0.18
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.16
Consensus pattern (24 bp):
AAGAACCATATCGGGAAGTTCACA
Found at i:62002408 original size:39 final size:39
Alignment explanation
Indices: 62002296--62002489 Score: 262
Period size: 39 Copynumber: 4.9 Consensus size: 39
62002286 TCGTTCAAAC
* * ** * *
62002296 GCCTTCGGGACATAGCCCGGTTATGGCAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
62002336 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
* * *
62002376 GCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACCATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
62002415 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
* *
62002454 GCCTTCGGGCTTAGCCCGGATATCATAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
62002490 TTCATACACA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 96 0.70
40 42 0.30
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:62004232 original size:45 final size:45
Alignment explanation
Indices: 62004144--62004251 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
62004134 AACAGTAATA
* **
62004144 GTAACAGTAACAGTAACAATATTCAACATACAAAATGTTGAATCG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAATGCCGAATCG
* * * **
62004189 GTAACGGTAACAGTAATAATATTCGACACACAAGGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAATGCCGAATCG
* *
62004234 ATAACAGTAACGGTAACA
1 GTAACAGTAACAGTAACA
62004252 GTAACAGTAA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCAACACACAAAATGCCGAATCG
Found at i:62004249 original size:6 final size:6
Alignment explanation
Indices: 62004235--62004266 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
62004225 GCCGAATCGA
*
62004235 TAACAG TAACGG TAACAG TAACAG TAACAG TA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TA
62004267 TGGCACACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
TAACAG
Found at i:62009554 original size:23 final size:23
Alignment explanation
Indices: 62009500--62009553 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
62009490 AAGAGTAAGA
62009500 TTCAAAAATCTTTTCCAACCATT
1 TTCAAAAATCTTTTCCAACCATT
62009523 TTCAAAAATCTTTTCCAACCATT
1 TTCAAAAATCTTTTCCAACCATT
62009546 TATCAAAA
1 T-TCAAAA
62009554 TACCAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (23 bp):
TTCAAAAATCTTTTCCAACCATT
Found at i:62012699 original size:22 final size:21
Alignment explanation
Indices: 62012647--62012699 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
62012637 ATAATATAAT
* *
62012647 TAATTAATATATATATCTTTTA
1 TAATTAA-ATAAATATCTTTAA
*
62012669 TAAAT-AATAAATATCTATTAA
1 TAATTAAATAAATATCT-TTAA
62012690 TAATTAAATA
1 TAATTAAATA
62012700 CATGTATTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.36
21 8 0.32
22 8 0.32
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTAAATAAATATCTTTAA
Found at i:62013191 original size:20 final size:20
Alignment explanation
Indices: 62013145--62013192 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
62013135 AGTCTTTTTT
*
62013145 CCTAATTACTCTTAATTAAG
1 CCTAATTACACTTAATTAAG
62013165 -CTAAATT-CACTTAATTAAAG
1 CCT-AATTACACTTAATT-AAG
62013185 CCTAATTA
1 CCTAATTA
62013193 ACCACTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.38
Consensus pattern (20 bp):
CCTAATTACACTTAATTAAG
Found at i:62015533 original size:14 final size:14
Alignment explanation
Indices: 62015516--62015555 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
62015506 ATTTAAAATA
*
62015516 AATAATGTTATTTT
1 AATAATATTATTTT
*
62015530 AATATTATTATTTT
1 AATAATATTATTTT
62015544 AATAATATTATT
1 AATAATATTATT
62015556 ATTTAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
AATAATATTATTTT
Found at i:62015811 original size:49 final size:49
Alignment explanation
Indices: 62015758--62015857 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
62015748 AATTCAACTG
62015758 AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
1 AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
62015807 AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
1 AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
62015856 AG
1 AG
62015858 GTAGTTTACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (49 bp):
AGTAATTGAGGGAAGTTAAAGTAGTATATATATGTTCACGAAAGGCTAT
Found at i:62018371 original size:17 final size:17
Alignment explanation
Indices: 62018351--62018385 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
62018341 ATTTTAAAAA
62018351 TAATTTTAATTTAATTT
1 TAATTTTAATTTAATTT
*
62018368 TAATTTTCATTTAATTT
1 TAATTTTAATTTAATTT
62018385 T
1 T
62018386 TAAAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TAATTTTAATTTAATTT
Found at i:62020994 original size:222 final size:221
Alignment explanation
Indices: 62020222--62021010 Score: 705
Period size: 222 Copynumber: 3.5 Consensus size: 221
62020212 ACATGATCAG
* *
62020222 TTTTTCTTTGCCTATATCTGGATATATAACTCTATTTGAGCCATGCTTATTACTATCGAATACTG
1 TTTTTCTTTGCATATATCTGG--ATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTG
* * ** * ** * * *
62020287 TTGTTCAGGATAGCTTAATGGGTGATA-TTTCTGTTTTCGGTATGATTTTTCCA-GACAATGGTT
64 TTGTTCCGGGTAGCTTAAT-AATGATATTTTGTGTTTTCCATACGGTTTTGCCATG-CAATGGTT
* * * *
62020350 TTGGTATTAGCCCTGTGGCTATTATTGTATCGAAGTTTCCGATATGCTCTTTCTTTTGGGAATTC
127 TTGGTATTAACCC--T-G---TTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGG-A--C
62020415 TTTTTTATGGTTG-TATGATATAATGATCTTTGGTTTCA
183 TTTTTTATGGTTGATATGATATAATGATCTTTGGTTTCA
** * *
62020453 TTTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTACCACGATCAAATACAGT
1 -TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGT
* ***
62020518 TGTTCGGGGTAGCTTAATAGATGATATTTCTG-GTTTTTGGTACGGTTTTGCCATGCAA------
65 TGTTCCGGGTAGCTTAATA-ATGATATTT-TGTGTTTTCCATACGGTTTTGCCATGCAATGGTTT
* * * *
62020576 TGGTATTAACTCTGTTATTGCATCT-AAGCTGCTGATATGCTCTTTCTTTCGGGACTTTTTTTTT
128 TGGTATTAACCCTGTTATTGCAT-TGAAGCTTCCGATATGCTCTTTCTTTTGGGAC---TTTTTT
* * * *
62020640 TTGGTT-ATATTATATAATGATCTTTGGATTCG
189 ATGGTTGATATGATATAATGATCTTTGGTTTCA
* * * * *
62020672 TTTTTCTTTGCAGAT-TGCTGGATATAACTCTATTAGAGCCTTGCTTATTACTATAAAATATTGT
1 TTTTTCTTTGCATATAT-CTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGT
** * * *
62020736 TGTTTGGGGAAGCTTAATTGATGATCTTTT-TGTTTTCCATACGGTTTTGCCATGCAATGGTTTT
65 TGTTCCGGGTAGCTTAA-TAATGATATTTTGTGTTTTCCATACGGTTTTGCCATGCAATGGTTTT
* *
62020800 GGTATTAACCCTGTTATTGCATTGAAGCTTCCAATATGCTCTTTCTTTTAGGACTTTTTTATGGT
129 GGTATTAACCCTGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGGACTTTTTTATGGT
*
62020865 TGACTATGATATAATGATCTATGGGCTTTC-
194 TGA-TATGATATAATGATCT-TTGG-TTTCA
* * * * * * **
62020895 TTTTT-TATGCCTATATCTAGATATTACTCTATTTGAGCTATTCTTATTA-TGATCAAATTTTGT
1 TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACT-ATCAAATACTGT
* * *
62020958 TGTTCCTGGTAGCTTAATCAATGAT-TTTTGTGTTTTCCATATGGTTTTTCCAT
65 TGTTCCGGGTAGCTTAAT-AATGATATTTTGTGTTTTCCATACGGTTTTGCCAT
62021011 TATACTTGCT
Statistics
Matches: 459, Mismatches: 71, Indels: 64
0.77 0.12 0.11
Matches are distributed among these distances:
216 1 0.00
217 25 0.05
218 77 0.17
219 66 0.14
220 11 0.02
221 7 0.02
222 99 0.22
223 57 0.12
224 3 0.01
225 10 0.02
230 59 0.13
231 22 0.05
232 22 0.05
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.46
Consensus pattern (221 bp):
TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGTT
GTTCCGGGTAGCTTAATAATGATATTTTGTGTTTTCCATACGGTTTTGCCATGCAATGGTTTTGG
TATTAACCCTGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGGACTTTTTTATGGTTG
ATATGATATAATGATCTTTGGTTTCA
Found at i:62023790 original size:21 final size:22
Alignment explanation
Indices: 62023747--62023793 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
62023737 TGGACACCTT
*
62023747 AAATAACTTCAATTTTCCATTAAA
1 AAATAACTACAATTTT-C-TTAAA
62023771 AAATAACTACAATTTT-TTAAA
1 AAATAACTACAATTTTCTTAAA
62023792 AA
1 AA
62023794 GAATTCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
24 15 0.68
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATAACTACAATTTTCTTAAA
Found at i:62037207 original size:26 final size:28
Alignment explanation
Indices: 62037151--62037207 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
62037141 ATTTAAAAAA
* *
62037151 TATATATGTTATAAAATAATGTGTATTT
1 TATATATGTTATAAAATAAAGTGTATAT
62037179 TATA-ATGTTATAACAA-AAAGT-TATAT
1 TATATATGTTATAA-AATAAAGTGTATAT
62037205 TAT
1 TAT
62037208 TTAAATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 7 0.27
27 13 0.50
28 6 0.23
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (28 bp):
TATATATGTTATAAAATAAAGTGTATAT
Found at i:62047757 original size:15 final size:15
Alignment explanation
Indices: 62047737--62047766 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62047727 ATTGATGGCT
*
62047737 AATATTTTTCTGAAA
1 AATATTTGTCTGAAA
62047752 AATATTTGTCTGAAA
1 AATATTTGTCTGAAA
62047767 TTCTGCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (15 bp):
AATATTTGTCTGAAA
Found at i:62050577 original size:33 final size:33
Alignment explanation
Indices: 62050540--62050603 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
62050530 GGAACGGAGC
62050540 TATCTTCTCTGTTTTATTGCTCATGGATATTAA
1 TATCTTCTCTGTTTTATTGCTCATGGATATTAA
*
62050573 TATCTTCTCTGTTTTATTGTTCATGGATATT
1 TATCTTCTCTGTTTTATTGCTCATGGATATT
62050604 TAAGATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.55
Consensus pattern (33 bp):
TATCTTCTCTGTTTTATTGCTCATGGATATTAA
Found at i:62051097 original size:22 final size:22
Alignment explanation
Indices: 62051069--62051117 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
62051059 GGATTTAAAC
62051069 AAAATTTCATATTTATATAAT-T
1 AAAATTTCATATTT-TATAATAT
*
62051091 AAAATTTCATATTTTGTAATAT
1 AAAATTTCATATTTTATAATAT
62051113 AAAAT
1 AAAAT
62051118 ATTAATTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
AAAATTTCATATTTTATAATAT
Found at i:62055276 original size:3 final size:3
Alignment explanation
Indices: 62055261--62055322 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
62055251 TTATTTCTTA
* * * *
62055261 TAT TAT TAG TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT GTAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
62055307 TAT ATAT TTT TAT TAT
1 TAT -TAT TAT TAT TAT
62055323 GTACGTGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:62055319 original size:23 final size:22
Alignment explanation
Indices: 62055264--62055325 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
62055254 TTTCTTATAT
*
62055264 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
62055285 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
62055307 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
62055326 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:62055332 original size:23 final size:23
Alignment explanation
Indices: 62055259--62055333 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
62055249 TGTTATTTCT
* *
62055259 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
62055282 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
62055307 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
62055330 TATA
1 TATA
62055334 CATATATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:62055332 original size:29 final size:26
Alignment explanation
Indices: 62055263--62055322 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
62055253 ATTTCTTATA
* *
62055263 TTATTAGTAT-TATTAGTATTACTATTA
1 TTATTATTATGTATTAGTA-TA-TATTT
62055290 TTATTATTATGTATTAGTATATATTT
1 TTATTATTATGTATTAGTATATATTT
62055316 TTATTAT
1 TTATTAT
62055323 GTACGTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 11 0.37
27 11 0.37
28 8 0.27
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.60
Consensus pattern (26 bp):
TTATTATTATGTATTAGTATATATTT
Found at i:62055676 original size:18 final size:19
Alignment explanation
Indices: 62055653--62055707 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
62055643 ATGTTGTATT
62055653 ATTATATTTTAATAT-TAC
1 ATTATATTTTAATATATAC
62055671 ATTATATATTT-ATATATAC
1 ATTATAT-TTTAATATATAC
62055690 ATATATATTTT-ATATATA
1 AT-TATATTTTAATATATA
62055708 TTATCATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.32
19 18 0.53
20 5 0.15
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTATATTTTAATATATAC
Found at i:62055703 original size:25 final size:24
Alignment explanation
Indices: 62055675--62055751 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
62055665 TATTACATTA
62055675 TATATTTATATATACA-TATATATTT
1 TATATTTAT-TAT-CAGTATATATTT
*
62055700 TATATATATTATCATGTATATATTT
1 TATATTTATTATCA-GTATATATTT
62055725 TA-A--TATTATCAGTTATATATCTT
1 TATATTTATTATCAG-TATATAT-TT
62055748 TATA
1 TATA
62055752 CTATATGATC
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 6 0.13
24 5 0.11
25 19 0.41
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (24 bp):
TATATTTATTATCAGTATATATTT
Found at i:62055783 original size:63 final size:63
Alignment explanation
Indices: 62055651--62055785 Score: 147
Period size: 63 Copynumber: 2.2 Consensus size: 63
62055641 TTATGTTGTA
* *
62055651 TTAT-TATATTTTAATATTACATTATATATTTATATATACATATATATTTTATATATATTATC
1 TTATATATATTTTAATATTACATTATATATCTATATATACATATATATTCTATATATATTATC
* *
62055713 ATGTATATATTTTAATATTATCAGTTATATATCT-T-TATAC-TATATGATCTCTA-ATACTATT
1 TTATATATATTTTAATATTA-CA-TTATATATCTATATATACATATAT-AT-TCTATATA-TATT
62055774 AT-
61 ATC
62055776 TTATATATAT
1 TTATATATAT
62055786 ATATATATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
62 7 0.11
63 33 0.54
64 12 0.20
65 9 0.15
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (63 bp):
TTATATATATTTTAATATTACATTATATATCTATATATACATATATATTCTATATATATTATC
Found at i:62059317 original size:2 final size:2
Alignment explanation
Indices: 62059310--62059349 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
62059300 AGTTTTTCTT
62059310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62059350 ATTAGTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62061304 original size:5 final size:5
Alignment explanation
Indices: 62061294--62061325 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
62061284 TAATAATAAG
62061294 AAAAT AAAAT AAAAT AAAAT AAAAT ATAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT A
62061326 TTAAAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:62062279 original size:30 final size:29
Alignment explanation
Indices: 62062245--62062330 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
62062235 GTGGTTTGTG
62062245 AAAATTAAATTAAATCAAAATTTTATATAT
1 AAAATTAAATTAAATCAAAATTTT-TATAT
* ** * *
62062275 AAAATTACACAAAATCAAACTTTTTGTAT
1 AAAATTAAATTAAATCAAAATTTTTATAT
* *
62062304 AACATTACACATTAAATAAAAATTTTT
1 AAAATTA-A-ATTAAATCAAAATTTTT
62062331 GCGCTGTTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
29 10 0.23
30 20 0.47
31 13 0.30
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.37
Consensus pattern (29 bp):
AAAATTAAATTAAATCAAAATTTTTATAT
Found at i:62062311 original size:29 final size:30
Alignment explanation
Indices: 62062256--62062329 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
62062246 AAATTAAATT
62062256 AAATCAAAATTTTATATATAAAATTACACA
1 AAATCAAAATTTTATATATAAAATTACACA
* * *
62062286 AAATCAAACTTTT-TGTATAACATTACACA
1 AAATCAAAATTTTATATATAAAATTACACA
*
62062315 TTAAATAAAAATTTT
1 --AAATCAAAATTTT
62062330 TGCGCTGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 14 0.38
30 12 0.32
31 11 0.30
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.36
Consensus pattern (30 bp):
AAATCAAAATTTTATATATAAAATTACACA
Found at i:62067532 original size:65 final size:65
Alignment explanation
Indices: 62067423--62067549 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 65
62067413 TCCAGCTAAC
* * * *
62067423 TTATGAAAAGACTTGATTGACATAATACTTTAGTTTTACGATTCACTTACAACGTCTTGATAAAT
1 TTATAAAAAGACTTGATTGAAATAATACTTTAGTTTGAAGATTCACTTACAACGTCTTGATAAAT
* * *
62067488 TTATAAAAAGACTTGATTGAAATAATACTTTCA-TTTGAAGATTCATTTATAACGTTTTGATA
1 TTATAAAAAGACTTGATTGAAATAATACTTT-AGTTTGAAGATTCACTTACAACGTCTTGATA
62067550 GAGATTGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 53 0.98
66 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (65 bp):
TTATAAAAAGACTTGATTGAAATAATACTTTAGTTTGAAGATTCACTTACAACGTCTTGATAAAT
Found at i:62067912 original size:21 final size:21
Alignment explanation
Indices: 62067883--62067933 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
62067873 ATTTTTACAT
*
62067883 TTTTTACCTTATGCAATTATA
1 TTTTGACCTTATGCAATTATA
* *
62067904 TTTTGACCTAATGGAATTATA
1 TTTTGACCTTATGCAATTATA
*
62067925 CTTTG-CCTT
1 TTTTGACCTT
62067934 GTCTTACTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTTGACCTTATGCAATTATA
Found at i:62070887 original size:11 final size:11
Alignment explanation
Indices: 62070873--62070912 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
62070863 TTTTTCTCAT
62070873 TATTTTGCTAC
1 TATTTTGCTAC
* *
62070884 TATTTTACTAT
1 TATTTTGCTAC
*
62070895 TATGTTGCTAC
1 TATTTTGCTAC
62070906 TATTTTG
1 TATTTTG
62070913 TTGTTATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:62070998 original size:30 final size:31
Alignment explanation
Indices: 62070949--62071012 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
62070939 ATTTATTTTA
62070949 TTGTTAATTATTATTATTATTTTA-AACACAT
1 TTGTTAATTATTATTATTATTTTAGAA-ACAT
*
62070980 TTGTTAATT-TTGTTATTATTTTAGAAACAT
1 TTGTTAATTATTATTATTATTTTAGAAACAT
62071010 TTG
1 TTG
62071013 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (31 bp):
TTGTTAATTATTATTATTATTTTAGAAACAT
Found at i:62076079 original size:31 final size:31
Alignment explanation
Indices: 62076019--62076079 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
62076009 TTGATGCAAT
*
62076019 TATATACGTGAAACTCTAATTGCAGTTTAAA
1 TATATACGTGAAACTCTAATTGCAATTTAAA
* * **
62076050 TATATACTTGAAACTTTAATTTTAATTTAA
1 TATATACGTGAAACTCTAATTGCAATTTAA
62076080 CCATATACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (31 bp):
TATATACGTGAAACTCTAATTGCAATTTAAA
Found at i:62080562 original size:38 final size:35
Alignment explanation
Indices: 62080505--62080576 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 35
62080495 ATACATTCTA
*
62080505 AAATTATAAAAATTATAAAAAAATCAAAATTTATG
1 AAATTATAAAAATTATAAAAAAATAAAAATTTATG
* *
62080540 AAATTATTATAAATTAATTAAAAACATAAAAATTTAT
1 AAATTA-TAAAAATT-A-TAAAAAAATAAAAATTTAT
62080577 AAAAAGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 6 0.19
36 7 0.23
37 1 0.03
38 17 0.55
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (35 bp):
AAATTATAAAAATTATAAAAAAATAAAAATTTATG
Found at i:62083360 original size:44 final size:44
Alignment explanation
Indices: 62083310--62083453 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 44
62083300 CTGGAGAGGC
*
62083310 TCAAAGCCACCATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGA
1 TCAAAGCTACCATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGA
* * * ** *** *
62083354 TCAAAGCTACCAATCTC-T-TCTCCCTAAAATGACATTAGAG-AGGC
1 TCAAAGCTACC-AT-TCGTATCTCCTTGAAGTTCCAGCGGAGTA-GA
* *
62083398 TCGAAGCTACCATTCGTATCTCTTTGAAGTTCCAGCGGAGTAGA
1 TCAAAGCTACCATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGA
*
62083442 TCGAAGCTACCA
1 TCAAAGCTACCA
62083454 ATCTCTTCTC
Statistics
Matches: 73, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
42 2 0.03
43 4 0.05
44 61 0.84
45 4 0.05
46 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
TCAAAGCTACCATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGA
Found at i:62083369 original size:88 final size:88
Alignment explanation
Indices: 62083239--62083568 Score: 491
Period size: 88 Copynumber: 3.8 Consensus size: 88
62083229 GCCACAGCAG
* ** * *
62083239 ATCTTCTTGAAGTTCCAGTAGAGTAAATCGAAGCTACAAATCTCTTCTCCCTAAAATGGCACTGG
1 ATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
*
62083304 AGAGGCTCAAAGCCACCATTCGT
66 AGAGGCTCGAAGCCACCATTCGT
* * * *
62083327 ATCTCCTTGAAGTTCCAGCGGAGTAGATCAAAGCTACCAATCTCTTCTCCCTAAAATGACATTAG
1 ATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
*
62083392 AGAGGCTCGAAGCTACCATTCGT
66 AGAGGCTCGAAGCCACCATTCGT
* *
62083415 ATCTCTTTGAAGTTCCAGCGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTACAATGGCACTGG
1 ATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
* *
62083480 AAAGGCTTGAAGCCACCATTCGT
66 AGAGGCTCGAAGCCACCATTCGT
* * *
62083503 ATCTCCTTGAAGTT-TAGCGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCATTGG
1 ATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
62083567 AG
66 AG
62083569 CGATCAAAAT
Statistics
Matches: 216, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
87 47 0.22
88 169 0.78
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (88 bp):
ATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGG
AGAGGCTCGAAGCCACCATTCGT
Found at i:62085027 original size:23 final size:23
Alignment explanation
Indices: 62084997--62085043 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
62084987 TCCTTAAGCC
**
62084997 TATTTTAATTATTTTATTATTTA
1 TATTTTAACCATTTTATTATTTA
*
62085020 TATTTTAACCCTTTTATTATTTA
1 TATTTTAACCATTTTATTATTTA
62085043 T
1 T
62085044 TTATTTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTTTAACCATTTTATTATTTA
Found at i:62085476 original size:18 final size:16
Alignment explanation
Indices: 62085453--62085495 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
62085443 TGTCATTATT
*
62085453 CTTATTTTTTTCTCGTTG
1 CTTATTTTTTTCT--TTA
*
62085471 CTTATTTATTTCTTTA
1 CTTATTTTTTTCTTTA
62085487 CTTATTTTT
1 CTTATTTTT
62085496 ATACCTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 10 0.45
18 12 0.55
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (16 bp):
CTTATTTTTTTCTTTA
Found at i:62085652 original size:3 final size:3
Alignment explanation
Indices: 62085639--62085772 Score: 91
Period size: 3 Copynumber: 44.7 Consensus size: 3
62085629 GCACTATTCT
*
62085639 TTA TT- TTA TTA TTA TTA TTTA TTA TT- TTA TCA TTA CTT- TCTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA T-TA TTA
* * * * *
62085684 TTG TTA TTA TTA ATA -TA CTA TTA TTA TTC TTA TTAA CCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA
* * *
62085730 TTA TTA TTA TTA TTT TCTA CT- TTA TTA TTA -TA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
62085773 GCTATCATCA
Statistics
Matches: 103, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
2 10 0.10
3 83 0.81
4 9 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:62085736 original size:20 final size:20
Alignment explanation
Indices: 62085644--62085739 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
62085634 ATTCTTTATT
*
62085644 TTATTATTATTATT-TATTA
1 TTATTATTATTATTATACTA
* * *
62085663 TT-TTATCATTACTTTCTATTA
1 TTATTATTATTA--TTATACTA
* *
62085684 TTGTTATTATTAATATACTA
1 TTATTATTATTATTATACTA
*
62085704 TTATTATTCTTATTA-ACCTA
1 TTATTATTATTATTATA-CTA
62085724 TTATTATTATTATTAT
1 TTATTATTATTATTAT
62085740 TATTTTCTAC
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
18 8 0.13
19 3 0.05
20 36 0.58
21 7 0.11
22 8 0.13
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (20 bp):
TTATTATTATTATTATACTA
Found at i:62090055 original size:60 final size:61
Alignment explanation
Indices: 62089962--62090085 Score: 232
Period size: 60 Copynumber: 2.0 Consensus size: 61
62089952 ATGCTAAACT
*
62089962 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA-A
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTATA
62090022 AAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTATA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTATA
62090083 AAA
1 AAA
62090086 AATTACATTC
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 58 0.94
61 4 0.06
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (61 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTATA
Found at i:62090064 original size:30 final size:30
Alignment explanation
Indices: 62089971--62090064 Score: 88
Period size: 30 Copynumber: 3.1 Consensus size: 30
62089961 TAAACACAAC
62089971 AATTTATAACATAATCCTAAATTACTAATA
1 AATTTATAACATAATCCTAAATTACTAATA
* * * *
62090001 AATTAATTTTAAAATAAT--TAAA-AAC-ACAAA
1 AA-T--TTATAACATAATCCTAAATTACTA-ATA
62090031 AATTTATAACATAATCCTAAATTACTAATA
1 AATTTATAACATAATCCTAAATTACTAATA
62090061 AATT
1 AATT
62090065 AATTTTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
27 10 0.21
29 6 0.12
30 16 0.33
31 6 0.12
33 10 0.21
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (30 bp):
AATTTATAACATAATCCTAAATTACTAATA
Found at i:62090626 original size:15 final size:17
Alignment explanation
Indices: 62090606--62090642 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
62090596 AAAGTAAAAT
*
62090606 AAAAAT-ATTTTAT-TA
1 AAAAATAATTTAATATA
62090621 AAAAATAATTTAATATA
1 AAAAATAATTTAATATA
62090638 AAAAA
1 AAAAA
62090643 ATGGTTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATAATTTAATATA
Found at i:62092169 original size:18 final size:18
Alignment explanation
Indices: 62092129--62092182 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
62092119 TTTATGAACC
*
62092129 TTTTTTAAATTTGTTGATT-
1 TTTTTTAAATAT-TT-ATTA
62092148 TTTTTTAAATATTTATTA
1 TTTTTTAAATATTTATTA
62092166 TTTTTTAAA-ATTT-TTA
1 TTTTTTAAATATTTATTA
62092182 T
1 T
62092183 GAATTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 4 0.12
17 7 0.21
18 11 0.33
19 11 0.33
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (18 bp):
TTTTTTAAATATTTATTA
Found at i:62093938 original size:25 final size:27
Alignment explanation
Indices: 62093901--62093953 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
62093891 TCAAACATGC
62093901 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
62093927 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
62093953 A
1 A
62093954 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:62095472 original size:26 final size:26
Alignment explanation
Indices: 62095436--62095569 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
62095426 ACATGAATTC
62095436 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
62095462 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
62095488 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
62095514 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
62095538 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
62095564 TTATCA
1 TTATCA
62095570 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
24 10 0.10
25 26 0.25
26 66 0.65
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:62095560 original size:50 final size:52
Alignment explanation
Indices: 62095436--62095569 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
62095426 ACATGAATTC
* *
62095436 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
62095488 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
62095538 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
62095570 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 35 0.44
51 13 0.16
52 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:62099748 original size:25 final size:27
Alignment explanation
Indices: 62099711--62099763 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
62099701 TCAAACATGC
62099711 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
62099737 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
62099763 A
1 A
62099764 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:62101281 original size:26 final size:26
Alignment explanation
Indices: 62101245--62101379 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
62101235 ACATGAATTC
62101245 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
62101271 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
62101297 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
62101323 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
62101348 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
62101374 TTATCA
1 TTATCA
62101380 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 23 0.23
26 77 0.77
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:62103037 original size:3 final size:3
Alignment explanation
Indices: 62103029--62103092 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
62103019 TTTCTGTTAT
62103029 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
62103077 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
62103093 GTTAGTATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:62103399 original size:38 final size:35
Alignment explanation
Indices: 62103333--62103420 Score: 95
Period size: 38 Copynumber: 2.4 Consensus size: 35
62103323 ATTATATGAC
* ** *
62103333 ATATATATATATATTCTATGTACGTATTTTTAATATT
1 ATAT-TATATATATGCTATGTAAATA-TTTTAACATT
*
62103370 ATTATGTATGTATATGCTATGTAAATATTTTAACATT
1 A-TAT-TATATATATGCTATGTAAATATTTTAACATT
62103407 ATATTATATATATG
1 ATATTATATATATG
62103421 TCCTTTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
35 9 0.21
36 3 0.07
37 11 0.26
38 20 0.47
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (35 bp):
ATATTATATATATGCTATGTAAATATTTTAACATT
Found at i:62104250 original size:9 final size:9
Alignment explanation
Indices: 62104236--62104265 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
62104226 ATGTACTTTG
62104236 TATATATTA
1 TATATATTA
62104245 TATATATTA
1 TATATATTA
62104254 TATATATGTA
1 TATATAT-TA
62104264 TA
1 TA
62104266 CATTATGCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
TATATATTA
Found at i:62116294 original size:32 final size:32
Alignment explanation
Indices: 62116252--62116322 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
62116242 ACAGATCATC
*
62116252 AAAAATCATGACGGAAAGGGACATATGACAAA
1 AAAAACCATGACGGAAAGGGACATATGACAAA
62116284 AAAAACCATGACGGAAAGGGACATATGACAAA
1 AAAAACCATGACGGAAAGGGACATATGACAAA
62116316 AAAAACC
1 AAAAACC
62116323 CCAAGGCGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.55, C:0.15, G:0.20, T:0.10
Consensus pattern (32 bp):
AAAAACCATGACGGAAAGGGACATATGACAAA
Found at i:62116600 original size:14 final size:14
Alignment explanation
Indices: 62116578--62116612 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
62116568 CGCTGAGGTA
62116578 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
* *
62116592 TTTTTAATTTCTGT
1 TTTTCAATTTCCGT
62116606 TTTTCAA
1 TTTTCAA
62116613 AAAATCAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:62116668 original size:88 final size:88
Alignment explanation
Indices: 62116519--62116734 Score: 337
Period size: 88 Copynumber: 2.5 Consensus size: 88
62116509 TTTATTTTTG
* **
62116519 TTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCA
* ** * *
62116584 ATTTCCGTTTTTTAATTTCTGTT
66 ATTTCCGCTTTACAAATTCTGCT
62116607 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCA
*
62116672 ATTTCTGCTTTACAAATTCTGCT
66 ATTTCCGCTTTACAAATTCTGCT
62116695 TTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62116735 TTTAATTTCT
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
86 36 0.30
88 83 0.70
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (88 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCA
ATTTCCGCTTTACAAATTCTGCT
Found at i:62116766 original size:54 final size:54
Alignment explanation
Indices: 62116688--62116899 Score: 354
Period size: 54 Copynumber: 3.9 Consensus size: 54
62116678 GCTTTACAAA
*
62116688 TTCTGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
1 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
62116741 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
1 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
* *
62116795 TTCTGTTTTTTAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
1 TTCTG-TTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
*
62116851 TTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62116900 CAGGGCACGT
Statistics
Matches: 149, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
53 10 0.07
54 47 0.32
55 46 0.31
56 46 0.31
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (54 bp):
TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
Found at i:62118244 original size:10 final size:10
Alignment explanation
Indices: 62118215--62118246 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
62118205 TAATTTATGG
*
62118215 TACAAATTGG
1 TACAAATTGA
62118225 TACAAATTGA
1 TACAAATTGA
62118235 TACAAATTGA
1 TACAAATTGA
62118245 TA
1 TA
62118247 ATAGGTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (10 bp):
TACAAATTGA
Found at i:62118279 original size:26 final size:26
Alignment explanation
Indices: 62118242--62118351 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
62118232 TGATACAAAT
*
62118242 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
62118268 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
62118294 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
62118320 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
62118346 TGATAA
1 TGATAA
62118352 GAATATCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:62122007 original size:14 final size:15
Alignment explanation
Indices: 62121988--62122054 Score: 66
Period size: 15 Copynumber: 4.3 Consensus size: 15
62121978 TTAATTTACT
62121988 TGTTATTTATT-TTA
1 TGTTATTTATTATTA
62122002 TGTTATTTATTATTA
1 TGTTATTTATTATTA
*
62122017 TTATTA-TTATTATTA
1 -TGTTATTTATTATTA
*
62122032 TTATTATTATTATTATTA
1 -TGTTA-T-TTATTATTA
62122050 TGTTA
1 TGTTA
62122055 GTATATACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
14 11 0.24
15 18 0.39
16 4 0.09
17 4 0.09
18 9 0.20
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TGTTATTTATTATTA
Found at i:62122016 original size:3 final size:3
Alignment explanation
Indices: 62122008--62122050 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
62121998 TTTATGTTAT
62122008 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
62122051 GTTAGTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:62122351 original size:38 final size:35
Alignment explanation
Indices: 62122290--62122372 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 35
62122280 TTATATGACA
* ** *
62122290 TATATATATTCTATGTACGTATTTTTAATATTATTAT
1 TATATATATGCTATGTAAATA-TTTTAACATTA-TAT
*
62122327 GTATGTATATGCTATGTAAATATTTTAACATTATAT
1 -TATATATATGCTATGTAAATATTTTAACATTATAT
62122363 TATATATATG
1 TATATATATG
62122373 TCCTTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
35 9 0.23
36 3 0.08
37 10 0.26
38 17 0.44
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (35 bp):
TATATATATGCTATGTAAATATTTTAACATTATAT
Found at i:62148454 original size:28 final size:28
Alignment explanation
Indices: 62148353--62148455 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
62148343 ACTTGTAATA
*
62148353 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTAAGGCCCAGACTGATACTGATAT
*
62148381 GGGCT-AGGCCCAGTATGCTCTGATATTG-TAAT
1 GGGCTAAGGCCCAG-A----CTGATACTGAT-AT
* *
62148413 AGGGCTATGGCCCAGACTAATACTGATAT
1 -GGGCTAAGGCCCAGACTGATACTGATAT
62148442 GGGCTAAGGCCCAG
1 GGGCTAAGGCCCAG
62148456 TTAACACTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
27 7 0.12
28 19 0.32
29 9 0.15
30 1 0.02
31 1 0.02
32 10 0.17
33 6 0.10
34 7 0.12
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (28 bp):
GGGCTAAGGCCCAGACTGATACTGATAT
Found at i:62148487 original size:62 final size:61
Alignment explanation
Indices: 62148345--62148489 Score: 188
Period size: 61 Copynumber: 2.4 Consensus size: 61
62148335 ATATCTCGAC
* * *
62148345 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
*
62148406 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
62148467 TTCTGAATAGGGCTTA-GGCCCAG
1 TTGT-AATAGGGC-TACGGCCCAG
62148490 TAAAGCTTGA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
61 43 0.57
62 30 0.40
63 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (61 bp):
TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:62152685 original size:40 final size:40
Alignment explanation
Indices: 62152606--62152773 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
62152596 TGGGTGATAA
* * * *
62152606 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * *
62152646 CCGGGCTATGTCCCGAAGGCCTTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
62152686 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
62152726 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
62152766 CC-GGCTAA
1 CCGGGCTAA
62152774 ATCTCGAAGA
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 8 0.07
40 100 0.91
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:62155547 original size:12 final size:12
Alignment explanation
Indices: 62155530--62155555 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62155520 CAAAACAGAC
62155530 TTTTAGCGGCGT
1 TTTTAGCGGCGT
62155542 TTTTAGCGGCGT
1 TTTTAGCGGCGT
62155554 TT
1 TT
62155556 GAAACGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:62155887 original size:114 final size:115
Alignment explanation
Indices: 62155673--62155911 Score: 293
Period size: 114 Copynumber: 2.1 Consensus size: 115
62155663 TAGGTCGAGC
* *
62155673 AAAACGCCGCTAAAAGGTTAAGCAAAACGACGCCGTTTTATATGAGCTTCATTGGAAGTAGCGGC
1 AAAACGCCGCAAAAAGGTTAAGCAAAACGACGCCGTTTTATATGAGCTTCAATGGAAGTAGCGGC
* * * *
62155738 ATTTTCCCAAAAACGCCGCAATAGATCAAAATTTAGCGGC-TTTTTTTCA
66 ACTGTCCCAAAAACGCCGCAATAGATCAAAATTTAGCGGCATTTTTGTAA
* * * *
62155787 AAAACGCCGCAAAAATGTTAAGCAAAACGACGTCGTTTTTTATGAGCTTCAAT-GACATTAGCGG
1 AAAACGCCGCAAAAAGGTTAAGCAAAACGACGCCGTTTTATATGAGCTTCAATGGA-AGTAGCGG
* * * ** ** *
62155851 CGCTGTCCTAAAAACGCCGTAATATCTCGCACTTTAGCGGCATTTTTGTAA
65 CACTGTCCCAAAAACGCCGCAATAGATCAAAATTTAGCGGCATTTTTGTAA
62155902 AAAACGCCGC
1 AAAACGCCGC
62155912 TATAGGTCTC
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
113 2 0.02
114 86 0.82
115 17 0.16
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (115 bp):
AAAACGCCGCAAAAAGGTTAAGCAAAACGACGCCGTTTTATATGAGCTTCAATGGAAGTAGCGGC
ACTGTCCCAAAAACGCCGCAATAGATCAAAATTTAGCGGCATTTTTGTAA
Found at i:62156041 original size:155 final size:154
Alignment explanation
Indices: 62155787--62156067 Score: 384
Period size: 155 Copynumber: 1.8 Consensus size: 154
62155777 CTTTTTTTCA
* **
62155787 AAAACGCCGCAAAAATGTTAAGCAAAACGACGTCGTTTTTTATGAGCTTCAATGACATTAGCGGC
1 AAAACGCCGCAAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAGCTTCAATGACATTAGCGGC
* * ** * *
62155852 GCTGTCCTAAAAACGCCGTAATATCTCGCACTTTAGCGGCATTTTTGTAAAAAACGCCGCTATAG
66 GCTGTACTAAAAACGCCGCAATAAATCGAACTTTAACGGCATTTTT-TAAAAAACGCCGCTATAG
62155917 GTCTCCCCATTAGCGGCGTTTTTGG
130 GTCTCCCCATTAGCGGCGTTTTTGG
* * * *
62155942 AAAACGCCGCTAATAGGTTAAGCAAAACGACGTCGTTTTAAATTAGCTTCAATGGCATTAGCGGC
1 AAAACGCCGCAAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAGCTTCAATGACATTAGCGGC
* * * *
62156007 GCTTTACTAAAAACGCCGCAATAAATC-AATCTTTAATGGCGTTTTTTTAAAAACGCCGCTA
66 GCTGTACTAAAAACGCCGCAATAAATCGAA-CTTTAACGGCATTTTTTAAAAAACGCCGCTA
62156068 AAACATTAAG
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
154 15 0.14
155 93 0.86
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (154 bp):
AAAACGCCGCAAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAGCTTCAATGACATTAGCGGC
GCTGTACTAAAAACGCCGCAATAAATCGAACTTTAACGGCATTTTTTAAAAAACGCCGCTATAGG
TCTCCCCATTAGCGGCGTTTTTGG
Found at i:62156631 original size:14 final size:14
Alignment explanation
Indices: 62156587--62156636 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
62156577 ATGAAGTTGA
62156587 AAACGGATTAGACC
1 AAACGGATTAGACC
* *
62156601 AAAAGGGTT-GA--
1 AAACGGATTAGACC
62156612 AAACGGATTAGACC
1 AAACGGATTAGACC
62156626 AAACGGATTAG
1 AAACGGATTAG
62156637 GGTTTAGCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 7 0.24
12 2 0.07
13 2 0.07
14 18 0.62
ACGTcount: A:0.44, C:0.14, G:0.26, T:0.16
Consensus pattern (14 bp):
AAACGGATTAGACC
Found at i:62156843 original size:7 final size:7
Alignment explanation
Indices: 62156785--62156859 Score: 55
Period size: 7 Copynumber: 10.7 Consensus size: 7
62156775 TTTTTAGCGT
62156785 TTTAGGG
1 TTTAGGG
62156792 TGTTAGGG
1 T-TTAGGG
**
62156800 TTTTTGG
1 TTTAGGG
*
62156807 TTTAAGG
1 TTTAGGG
*
62156814 TTTAGAG
1 TTTAGGG
62156821 TTTAGGG
1 TTTAGGG
**
62156828 -TTA-TT
1 TTTAGGG
*
62156833 TTTAGTG
1 TTTAGGG
62156840 TTTAAGGG
1 TTT-AGGG
62156848 TTTAGGG
1 TTTAGGG
62156855 TTTAG
1 TTTAG
62156860 AAGTATACAT
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
6 6 0.11
7 34 0.64
8 13 0.25
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:62157015 original size:21 final size:22
Alignment explanation
Indices: 62156979--62157020 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
62156969 TTTAGTGTAT
* *
62156979 GAGATTTGAGGTTTGGGGTTTA
1 GAGATTGGAGGTTTGGAGTTTA
62157001 GAGATTGGA-GTTTGGAGTTT
1 GAGATTGGAGGTTTGGAGTTT
62157021 GGGGTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
GAGATTGGAGGTTTGGAGTTTA
Found at i:62157032 original size:14 final size:14
Alignment explanation
Indices: 62156989--62157034 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
62156979 GAGATTTGAG
62156989 GTTTGGGGTTTAGA
1 GTTTGGGGTTTAGA
* * *
62157003 GATTGGAGTTTGGA
1 GTTTGGGGTTTAGA
62157017 GTTTGGGGTTTAGA
1 GTTTGGGGTTTAGA
62157031 GTTT
1 GTTT
62157035 AGGTATAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.43
Consensus pattern (14 bp):
GTTTGGGGTTTAGA
Found at i:62159740 original size:21 final size:21
Alignment explanation
Indices: 62159711--62159750 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
62159701 AATATAGGCC
*
62159711 AGCCGGCCTCTTAATCTCCTT
1 AGCCAGCCTCTTAATCTCCTT
62159732 AGCCAGCCTCTTAATCTCC
1 AGCCAGCCTCTTAATCTCC
62159751 CTATGTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.40, G:0.12, T:0.30
Consensus pattern (21 bp):
AGCCAGCCTCTTAATCTCCTT
Found at i:62160610 original size:2 final size:2
Alignment explanation
Indices: 62160603--62160665 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
62160593 GTCAAATTGT
62160603 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
62160645 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
62160666 GTTATTGTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.