Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 27 of 373
Found at i:7526328 original size:114 final size:116
Alignment explanation
Indices: 7526122--7526565 Score: 676
Period size: 115 Copynumber: 3.9 Consensus size: 116
7526112 ATACTAACAC
* * * *
7526122 AAAATAACTATAAAATTATTTTTTT--AAGTACATTACTAAAAAAAAATCACAATACACTAATAC
1 AAAATAGCTATAAAAATATTTTTTTAAAAATATATTACT-AAAAAAAATCACAATACACTAAT--
* *
7526185 ACACTAAACCAGTAAACACCAACAA--TATATAACCTAATCTTAAATTACTAAT
63 ACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
7526237 AAAATAGCTATAAAAATATATTTTT-AAAATATATTACT-AAAAAAATCACAATACACTAA-ACC
1 AAAATAGCTATAAAAATATTTTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATA-C
7526299 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
65 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
7526351 AAAATAGCTATAAAAATATTTTTTTAAAAATATATTACT-AAAAAAATTACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATACA
*
7526415 TTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 CTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
7526466 AAAATAGCTAT--AACT-TTTTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATACA
*
7526528 CTAAACTACTAAACACTAACAATTTATATAACCTAATC
66 CTAAACCACTAAACACTAACAATTTATATAACCTAATC
7526566 AACTATAAAA
Statistics
Matches: 308, Mismatches: 14, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
111 1 0.00
112 43 0.14
113 63 0.20
114 72 0.23
115 118 0.38
116 11 0.04
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (116 bp):
AAAATAGCTATAAAAATATTTTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATACA
CTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:7526409 original size:99 final size:100
Alignment explanation
Indices: 7526306--7526630 Score: 280
Period size: 115 Copynumber: 3.1 Consensus size: 100
7526296 ACCACTAAAC
7526306 CACTAA-ACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATAT
1 CACTAATACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATAT
*
7526370 TTTTTTAAAAATATATTACTAAAAAAATTACAATA
66 TTTTTTAAAAATATATTACTAAAAAAATCACAATA
7526405 CACTAATACATTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAA
1 CAC---TA-A-T--A-CACT--A-AC--A--ATTTATATAACCTAATCTTAAATTACTAATAAAA
*
7526470 TAGCTAT--AACT-TTTTTTTAAAAATATATTACTAAAAAAAATCACAATA
51 TAGCTATAAAAATATTTTTTTAAAAATATATTACT-AAAAAAATCACAATA
* * *
7526518 CACTAATACACT-A-AA-CTACTA-AACACTAA-C--AATTTA-T-ATAACCTAATCAACTATAA
1 CACTAATACACTAACAATTTA-TATAAC-CTAATCTTAAATTACTAATAA---AAT-AGCTATAA
* *
7526574 AATTATTTTTTTAAAATATATTATTACTAAAAAAATCATAATA
60 AAATATTTTTTTAAAA-ATA-TATTACTAAAAAAATCACAATA
7526617 CACTAATACACTAA
1 CACTAATACACTAA
7526631 ACACTAACAA
Statistics
Matches: 190, Mismatches: 7, Indels: 57
0.75 0.03 0.22
Matches are distributed among these distances:
91 4 0.02
92 1 0.01
93 5 0.03
94 3 0.02
95 11 0.06
96 7 0.04
97 3 0.02
98 12 0.06
99 32 0.17
100 8 0.04
101 1 0.01
102 2 0.01
103 1 0.01
105 4 0.02
106 1 0.01
107 1 0.01
108 5 0.03
109 1 0.01
110 3 0.02
111 2 0.01
112 21 0.11
113 21 0.11
115 41 0.22
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (100 bp):
CACTAATACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATAT
TTTTTTAAAAATATATTACTAAAAAAATCACAATA
Found at i:7526445 original size:229 final size:226
Alignment explanation
Indices: 7526122--7526565 Score: 664
Period size: 229 Copynumber: 1.9 Consensus size: 226
7526112 ATACTAACAC
* *
7526122 AAAATAACTATAAAATTATTTTTTTAAGTACATTACTAAAAAAAAATCACAATACACTAATACAC
1 AAAATAACTATAAAAATATTTTTTTAAATACATTACT-AAAAAAAATCACAATACACTAATA-AC
*
7526187 ACTAAACCAGTAAACACCAACAATATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAA
64 ACTAAACCACTAAACACCAACAATATATAACCTAATCTTAAATTACTAATAAAATAGCTAT--AA
7526252 ATATATTTTT-AAAATATATTACT-AAAAAAATCACAATACACTAA-ACCACTAAACCACTAAAC
127 AT-TATTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATA-CACTAAACCACTAAAC
7526314 ACTAACAATTTATATAACCTAATCTTAAATTACTAAT
190 ACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
7526351 AAAATAGCTATAAAAATATTTTTTTAAAAATATATTACT-AAAAAAATTACAATACACTAAT-AC
1 AAAATAACTATAAAAATATTTTTTT--AAATACATTACTAAAAAAAATCACAATACACTAATAAC
* *
7526414 ATTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
64 ACTAAACCACTAAACACCAACAA--TATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
* * *
7526479 CTTTTTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATACACTAAACTACTAAACAC
127 ATTATTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATACACTAAACCACTAAACAC
7526544 TAACAATTTATATAACCTAATC
192 TAACAATTTATATAACCTAATC
7526566 AACTATAAAA
Statistics
Matches: 197, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
226 6 0.03
227 38 0.19
228 60 0.30
229 83 0.42
231 10 0.05
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (226 bp):
AAAATAACTATAAAAATATTTTTTTAAATACATTACTAAAAAAAATCACAATACACTAATAACAC
TAAACCACTAAACACCAACAATATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAATTA
TTTTTAAAAATATATTACTAAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAAC
AATTTATATAACCTAATCTTAAATTACTAAT
Found at i:7527090 original size:27 final size:27
Alignment explanation
Indices: 7527045--7527096 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7527035 AGGTGGGAGT
*
7527045 GTCGTGCCTACCTGTCAGGCACGACTA
1 GTCGTGCCTACCTGACAGGCACGACTA
* *
7527072 GTCGTGCCTACTTGACAGGCTCGAC
1 GTCGTGCCTACCTGACAGGCACGAC
7527097 CCGTTTCGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.33, G:0.27, T:0.23
Consensus pattern (27 bp):
GTCGTGCCTACCTGACAGGCACGACTA
Found at i:7528176 original size:12 final size:12
Alignment explanation
Indices: 7528161--7528186 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7528151 AATTGAGAAA
7528161 AAATAAAAAAAT
1 AAATAAAAAAAT
7528173 AAATAAAAAAAT
1 AAATAAAAAAAT
7528185 AA
1 AA
7528187 GAAAATAAAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAAAAAT
Found at i:7528181 original size:20 final size:20
Alignment explanation
Indices: 7528158--7528196 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7528148 AAAAATTGAG
7528158 AAAAAATAAAAAAATAAATA
1 AAAAAATAAAAAAATAAATA
*
7528178 AAAAAATAAGAAAATAAAT
1 AAAAAATAAAAAAATAAAT
7528197 TAAAGTTTCA
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:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAAAATAAAAAAATAAATA
Found at i:7533458 original size:13 final size:14
Alignment explanation
Indices: 7533434--7533462 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7533424 GAATTTTATT
7533434 TATTTTTCAAAAAA
1 TATTTTTCAAAAAA
7533448 TATTTTT-AAAAAA
1 TATTTTTCAAAAAA
7533461 TA
1 TA
7533463 AATAAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TATTTTTCAAAAAA
Found at i:7533833 original size:29 final size:30
Alignment explanation
Indices: 7533779--7533846 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
7533769 GCTATAACAA
* *
7533779 ATACTTATTTTCGTAATTATTTTGTTTTCT
1 ATACTTATTTTCATAATTATATTGTTTTCT
* *
7533809 ATACTTTTTTTCATAATTA-ATTGTTTTTT
1 ATACTTATTTTCATAATTATATTGTTTTCT
7533838 ATA-TTATTT
1 ATACTTATTT
7533847 GGATAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 5 0.15
29 11 0.33
30 17 0.52
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (30 bp):
ATACTTATTTTCATAATTATATTGTTTTCT
Found at i:7537222 original size:24 final size:24
Alignment explanation
Indices: 7537195--7537243 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7537185 TGAACAATAT
7537195 CTCAAGCATGTCCCTTCTGCAGCC
1 CTCAAGCATGTCCCTTCTGCAGCC
7537219 CTCAAGCATGTCCCTTCTGCAGCC
1 CTCAAGCATGTCCCTTCTGCAGCC
7537243 C
1 C
7537244 CCCTTACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.43, G:0.16, T:0.24
Consensus pattern (24 bp):
CTCAAGCATGTCCCTTCTGCAGCC
Found at i:7546648 original size:42 final size:42
Alignment explanation
Indices: 7546589--7546680 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
7546579 TTCAAAATGT
* * *
7546589 CACACGGCCAAGGCACACGTCGGTGTGCTAGGCTGTGTTCCC
1 CACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTGTTCCC
7546631 CACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTGTTCCC
1 CACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTGTTCCC
7546673 CACACGGC
1 CACACGGC
7546681 TGAGACACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.17, C:0.38, G:0.29, T:0.15
Consensus pattern (42 bp):
CACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTGTTCCC
Found at i:7575232 original size:46 final size:46
Alignment explanation
Indices: 7575156--7575507 Score: 454
Period size: 46 Copynumber: 7.6 Consensus size: 46
7575146 TGATGTCATA
* * *
7575156 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATG
* * **
7575202 GTATCTTTCAACCATGATCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
* *
7575249 GTATCTTTCAACCATGGTCTTACTCAGTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
7575295 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* **
7575341 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
* * * *
7575388 GTATCTTTCAACCATGGTTTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * * *
7575434 GTATCTTTCAACCATGGTCTTACACAATTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
*
7575480 GTATCTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
7575508 CCATATCAGA
Statistics
Matches: 270, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
46 193 0.71
47 77 0.29
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
Found at i:7575284 original size:93 final size:92
Alignment explanation
Indices: 7575156--7575515 Score: 490
Period size: 93 Copynumber: 3.9 Consensus size: 92
7575146 TGATGTCATA
* * * *
7575156 GTATCTTTCAACTATGGTTTTACTC-GTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGA
1 GTATCTTTCAACCATGGTCTTACTCAG--TTCATGTCAGGTTGCCATGGTATCTTTCAACCATGG
** *** *
7575219 TCTTATTCATTTTCCCGTCATGTTGCCATG
64 TCTTACACA-TTTCATATCACGTTGCCATG
7575249 GTATCTTTCAACCATGGTCTTACTCAGTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCAGTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
7575314 TTACACATTTCATATCACGTTGCCATG
66 TTACACATTTCATATCACGTTGCCATG
* * ** *
7575341 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCA-GTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGT
*
7575406 TTTACACATTTCATATCACGTTGCCATG
65 CTTACACATTTCATATCACGTTGCCATG
* * *
7575434 GTATCTTTCAACCATGGTCTTACACAATTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCAGTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
*
7575499 TTACACATTCCATATCA
66 TTACACATTTCATATCA
7575516 GAGAGCACAC
Statistics
Matches: 239, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
92 93 0.39
93 145 0.61
94 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (92 bp):
GTATCTTTCAACCATGGTCTTACTCAGTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTCATATCACGTTGCCATG
Found at i:7575419 original size:139 final size:139
Alignment explanation
Indices: 7575156--7575501 Score: 550
Period size: 139 Copynumber: 2.5 Consensus size: 139
7575146 TGATGTCATA
* * * * * * *
7575156 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGAT
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
* *
7575220 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCAGTTCATGTCA
65 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACAGTTCATATCA
*
7575285 GGTTGCCATG
130 CGTTGCCATG
7575295 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
* *
7575360 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAC
66 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACAGTTCATATCAC
7575425 GTTGCCATG
131 GTTGCCATG
* *
7575434 GTATCTTTCAACCATGGTCTTACACAATTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
7575499 TTA
66 TTA
7575502 CACATTCCAT
Statistics
Matches: 192, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
138 4 0.02
139 188 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (139 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACAGTTCATATCAC
GTTGCCATG
Found at i:7580840 original size:25 final size:28
Alignment explanation
Indices: 7580790--7580841 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
7580780 TAATATTTTT
*
7580790 GTATGAAAATTGATATGATAGGAAAATC
1 GTATGAAAATTGATATGATAGAAAAATC
7580818 GTATGAAAA-T-AT-TGATAGAAAAAT
1 GTATGAAAATTGATATGATAGAAAAAT
7580842 TTTACCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
27 1 0.04
28 9 0.39
ACGTcount: A:0.50, C:0.02, G:0.19, T:0.29
Consensus pattern (28 bp):
GTATGAAAATTGATATGATAGAAAAATC
Found at i:7586307 original size:29 final size:29
Alignment explanation
Indices: 7586254--7586309 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
7586244 TTTAGTTATT
*
7586254 TTTAATAATAAAAGAATTAAATTGATATA
1 TTTAATAATAAAAGAACTAAATTGATATA
** *
7586283 TTTAATAATAAATTAACTAATTTGATA
1 TTTAATAATAAAAGAACTAAATTGATA
7586310 AAGTTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (29 bp):
TTTAATAATAAAAGAACTAAATTGATATA
Found at i:7589360 original size:14 final size:14
Alignment explanation
Indices: 7589315--7589390 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 14
7589305 TGCCCTAAAT
*
7589315 CCCAAACCT-AATC
1 CCCAAACCTCAAAC
*
7589328 CCCCAA-CTCAAAC
1 CCCAAACCTCAAAC
*
7589341 CCCAAACCTCCAAC
1 CCCAAACCTCAAAC
*
7589355 CTCAAA-CTCAAAC
1 CCCAAACCTCAAAC
** * *
7589368 CTTAAATCTCGAAC
1 CCCAAACCTCAAAC
7589382 CCCAAACCT
1 CCCAAACCT
7589391 TAAAGATTAG
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
12 2 0.04
13 24 0.49
14 23 0.47
ACGTcount: A:0.38, C:0.46, G:0.01, T:0.14
Consensus pattern (14 bp):
CCCAAACCTCAAAC
Found at i:7589366 original size:20 final size:20
Alignment explanation
Indices: 7589330--7589390 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
7589320 ACCTAATCCC
7589330 CCAACTCAAACCCCAAACCT
1 CCAACTCAAACCCCAAACCT
*
7589350 CCAACCTCAAA-CTCAAACCT
1 CCAA-CTCAAACCCCAAACCT
** *
7589370 TAAATCTCGAACCCCAAACCT
1 CCAA-CTCAAACCCCAAACCT
7589391 TAAAGATTAG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.39, C:0.44, G:0.02, T:0.15
Consensus pattern (20 bp):
CCAACTCAAACCCCAAACCT
Found at i:7589382 original size:27 final size:27
Alignment explanation
Indices: 7589315--7589388 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
7589305 TGCCCTAAAT
*
7589315 CCCAAACCT--AATCCCCCAACTCAAAC
1 CCCAAACCTCCAA-CCCCAAACTCAAAC
*
7589341 CCCAAACCTCCAACCTCAAACTCAAAC
1 CCCAAACCTCCAACCCCAAACTCAAAC
** * *
7589368 CTTAAATCTCGAACCCCAAAC
1 CCCAAACCTCCAACCCCAAAC
7589389 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.23
27 28 0.72
28 2 0.05
ACGTcount: A:0.39, C:0.46, G:0.01, T:0.14
Consensus pattern (27 bp):
CCCAAACCTCCAACCCCAAACTCAAAC
Found at i:7589510 original size:21 final size:21
Alignment explanation
Indices: 7589473--7589520 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7589463 TGAGATTCTA
** *
7589473 GATTTAAAGTTTTGGATTTGG
1 GATTTAAAGTTCAGGATTCGG
*
7589494 GGTTTAAAGTTCAGGATTCGG
1 GATTTAAAGTTCAGGATTCGG
7589515 GATTTA
1 GATTTA
7589521 GGGTAAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.04, G:0.29, T:0.42
Consensus pattern (21 bp):
GATTTAAAGTTCAGGATTCGG
Found at i:7594251 original size:13 final size:13
Alignment explanation
Indices: 7594211--7594268 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
7594201 TTCTTGCAAT
7594211 TTAATTTAATTTAA
1 TTAATTTAATTT-A
*
7594225 TTTA-TTATATTTA
1 TTAATTTA-ATTTA
7594238 TTAATTTAATTTA
1 TTAATTTAATTTA
*
7594251 TT-ATTATTATTTA
1 TTAATT-TAATTTA
7594264 TTAAT
1 TTAAT
7594269 ATACTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 3 0.08
13 22 0.59
14 12 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATTTAATTTA
Found at i:7608920 original size:46 final size:46
Alignment explanation
Indices: 7608870--7609042 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
7608860 TGGTTGAGCA
*
7608870 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
7608916 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
7608963 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
7609009 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
7609043 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:7609026 original size:93 final size:93
Alignment explanation
Indices: 7608867--7609037 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
7608857 GGATGGTTGA
* *
7608867 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
7608932 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
7608960 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
7609025 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
7609038 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:7609304 original size:19 final size:20
Alignment explanation
Indices: 7609267--7609304 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
7609257 ATAAGGTGGT
7609267 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
7609287 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
7609305 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:7616836 original size:47 final size:47
Alignment explanation
Indices: 7616785--7616911 Score: 236
Period size: 47 Copynumber: 2.7 Consensus size: 47
7616775 ATCCATAGGT
*
7616785 GAACTCGGACTCAACTCAACGAGTTCGTATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
7616832 GAACTCGGACTCAACTTAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
7616879 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
7616912 CAAATATCCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:7619307 original size:13 final size:13
Alignment explanation
Indices: 7619289--7619313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7619279 TGGAACAAAG
7619289 ATAACAAGAAAAA
1 ATAACAAGAAAAA
7619302 ATAACAAGAAAA
1 ATAACAAGAAAA
7619314 CCGAATAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
ATAACAAGAAAAA
Found at i:7619351 original size:30 final size:31
Alignment explanation
Indices: 7619316--7619395 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
7619306 CAAGAAAACC
* *
7619316 GAATAAAGAAATCCAAGATAGAGA-AACTCG
1 GAATAAAGAAATCCAAGATAAAGAGAACTAG
*
7619346 GAATAAAGAAATCC-AGAATAAAGAGATCTAG
1 GAATAAAGAAATCCAAG-ATAAAGAGAACTAG
*
7619377 G-ATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
7619396 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.05
30 34 0.79
31 7 0.16
ACGTcount: A:0.55, C:0.12, G:0.19, T:0.14
Consensus pattern (31 bp):
GAATAAAGAAATCCAAGATAAAGAGAACTAG
Found at i:7619395 original size:15 final size:15
Alignment explanation
Indices: 7619318--7619395 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
7619308 AGAAAACCGA
7619318 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
7619333 ATAGAGAAACTCGGA-
1 ATAAAGAAA-TCCAAG
7619348 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* * *
7619362 AATAAAGAGATCTAGG
1 -ATAAAGAAATCCAAG
*
7619378 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
7619393 ATA
1 ATA
7619396 CGATACTATG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 40 0.85
16 4 0.09
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:7622426 original size:47 final size:47
Alignment explanation
Indices: 7622365--7622491 Score: 236
Period size: 47 Copynumber: 2.7 Consensus size: 47
7622355 ATCCATAGGT
*
7622365 GAACTCGGACTCAACTCAACGAGTTCGTATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
7622412 GAACTCGGACTCAACTTAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
7622459 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
7622492 CAAATATCCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:7627934 original size:14 final size:14
Alignment explanation
Indices: 7627915--7627941 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7627905 TATCAAAATA
7627915 AGAATTAAGAACAC
1 AGAATTAAGAACAC
7627929 AGAATTAAGAACA
1 AGAATTAAGAACA
7627942 AGTTAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (14 bp):
AGAATTAAGAACAC
Found at i:7631984 original size:7 final size:7
Alignment explanation
Indices: 7631972--7631996 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7631962 AGTGCAGGGT
7631972 ATTTTGA
1 ATTTTGA
7631979 ATTTTGA
1 ATTTTGA
7631986 ATTTTGA
1 ATTTTGA
7631993 ATTT
1 ATTT
7631997 GGGCGCGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
ATTTTGA
Found at i:7644450 original size:53 final size:51
Alignment explanation
Indices: 7644379--7644508 Score: 152
Period size: 52 Copynumber: 2.5 Consensus size: 51
7644369 TACCGATACA
* *
7644379 ATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCACACCGACGCC
1 ATATCCCAGCTATGGTCTTATACGGAA-CAC-GTATCACATCACACCGACGCC
* ** ** *
7644432 ATATCCCAGCTCTGGTCTTATACGGGAACACGTATCATGTTGCACCGATGCC
1 ATATCCCAGCTATGGTCTTATAC-GGAACACGTATCACATCACACCGACGCC
*
7644484 ATAGCCCAGCTATGGTCTTATACGG
1 ATATCCCAGCTATGGTCTTATACGG
7644509 GCGCATATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
51 2 0.03
52 36 0.55
53 24 0.36
54 4 0.06
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (51 bp):
ATATCCCAGCTATGGTCTTATACGGAACACGTATCACATCACACCGACGCC
Found at i:7648413 original size:22 final size:23
Alignment explanation
Indices: 7648388--7648430 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7648378 ATTATATATT
*
7648388 TTATAAA-AAATTAAAAAATAAG
1 TTATAAACAAATAAAAAAATAAG
*
7648410 TTATAAACATATAAAAAAATA
1 TTATAAACAAATAAAAAAATA
7648431 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
TTATAAACAAATAAAAAAATAAG
Found at i:7650228 original size:6 final size:6
Alignment explanation
Indices: 7650219--7650257 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
7650209 CCCACCCCAA
7650219 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCC
7650258 GAGACAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:7651208 original size:6 final size:6
Alignment explanation
Indices: 7651197--7651224 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7651187 GAAAAGAGAT
7651197 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
7651225 AATTGTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:7652936 original size:6 final size:7
Alignment explanation
Indices: 7652919--7652945 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7652909 TGAAGGTGAG
7652919 TTTTTTA
1 TTTTTTA
7652926 TTTTTTA
1 TTTTTTA
7652933 TTTTTTA
1 TTTTTTA
7652940 TTTTTT
1 TTTTTT
7652946 TGCATGCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:7655294 original size:17 final size:17
Alignment explanation
Indices: 7655272--7655304 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7655262 CCCACTTTAA
7655272 CCAAACTAATAACTTAG
1 CCAAACTAATAACTTAG
7655289 CCAAACTAATAACTTA
1 CCAAACTAATAACTTA
7655305 ACCACTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.24
Consensus pattern (17 bp):
CCAAACTAATAACTTAG
Found at i:7657414 original size:2 final size:2
Alignment explanation
Indices: 7657407--7657439 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7657397 GGATTATAAT
*
7657407 TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7657440 TTGTGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:7661574 original size:22 final size:22
Alignment explanation
Indices: 7661532--7661575 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7661522 TTCTCATTTT
*
7661532 TTATAAATTTATAAATCTTTAA
1 TTATAAATTTATAAATATTTAA
*
7661554 TTATAAAATTT-TGAATATTTAA
1 TTAT-AAATTTATAAATATTTAA
7661576 AATATGACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATAAATTTATAAATATTTAA
Found at i:7662167 original size:24 final size:24
Alignment explanation
Indices: 7662150--7662201 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
7662140 TTATTATTCT
7662150 AAATATTCAAAAATTTATAATTATA
1 AAATATT-AAAAATTTATAATTATA
* * *
7662175 AAATATTAAAAATATAAAATTAGA
1 AAATATTAAAAATTTATAATTATA
7662199 AAA
1 AAA
7662202 ACAAAACAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATTAAAAATTTATAATTATA
Found at i:7662425 original size:29 final size:28
Alignment explanation
Indices: 7662359--7662435 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
7662349 AAATATTATG
*
7662359 AAACTAAAACAATTAT-TAA-ATAAAATA
1 AAACTAAAA-AATTATAAAATATAAAATA
*
7662386 AAATTATAAAAATTATAAAATATAAATATA
1 AAACTA-AAAAATTATAAAATATAAA-ATA
7662416 AAACTAAAAACA-TATAAAAT
1 AAACTAAAAA-ATTATAAAAT
7662436 TTGTTTAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
27 11 0.26
28 5 0.12
29 17 0.40
30 9 0.21
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (28 bp):
AAACTAAAAAATTATAAAATATAAAATA
Found at i:7667209 original size:11 final size:11
Alignment explanation
Indices: 7667193--7667224 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7667183 ACATAAGGTT
7667193 ATAAAATAAAA
1 ATAAAATAAAA
7667204 ATAAAATAAAA
1 ATAAAATAAAA
*
7667215 ACAAAATAAA
1 ATAAAATAAA
7667225 TAAAAGATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:7670155 original size:12 final size:12
Alignment explanation
Indices: 7670138--7670168 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7670128 GAAGCAGGGG
7670138 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
7670150 AGAAAAAGGGAA
1 AGAAAAAGAGAA
7670162 AGAAAAA
1 AGAAAAA
7670169 CAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:7672418 original size:5 final size:5
Alignment explanation
Indices: 7672408--7672479 Score: 144
Period size: 5 Copynumber: 14.4 Consensus size: 5
7672398 TAAATAAGAT
7672408 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
7672458 TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TA
7672480 AATAAACTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:7675946 original size:28 final size:27
Alignment explanation
Indices: 7675902--7675981 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
7675892 GATGGAGGAA
7675902 GCCCTGCCACAAATATCTGTTTCTGGTG
1 GCCCTGCCAC-AATATCTGTTTCTGGTG
*
7675930 GCCCTGCCACAATTATCTGTATCTGGTG
1 GCCCTGCCACAA-TATCTGTTTCTGGTG
* * *
7675958 ACTCTGTCACAATATCTG-TTCTGG
1 GCCCTGCCACAATATCTGTTTCTGG
7675982 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.11
27 8 0.17
28 33 0.72
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.34
Consensus pattern (27 bp):
GCCCTGCCACAATATCTGTTTCTGGTG
Found at i:7676490 original size:21 final size:21
Alignment explanation
Indices: 7676466--7676509 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
7676456 TGATATTATC
*
7676466 TTAATCGTTGAAACTGATTAG
1 TTAATCGCTGAAACTGATTAG
7676487 TTAATCGCTGAAACTGATTAG
1 TTAATCGCTGAAACTGATTAG
7676508 TT
1 TT
7676510 TTAGGACGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
TTAATCGCTGAAACTGATTAG
Found at i:7683819 original size:41 final size:40
Alignment explanation
Indices: 7683686--7683909 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
7683676 AACCCAAGTA
* * * *
7683686 CCTTCGGGATTTA-ACCGGATATAG-CAAATTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
7683725 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
7683765 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * *
7683806 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
7683846 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
*
7683887 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
7683910 CATCTGAATA
Statistics
Matches: 166, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 12 0.07
40 93 0.56
41 61 0.37
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:7683910 original size:81 final size:80
Alignment explanation
Indices: 7683686--7683910 Score: 319
Period size: 81 Copynumber: 2.8 Consensus size: 80
7683676 AACCCAAGTA
* * * * * * *
7683686 CCTTCGGGATTTA-ACCGGATATAG-CAAATTGCACAAATGCCTTCGGGACTTAACCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATC
*
7683749 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
7683765 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
* *
7683830 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
7683846 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
7683911 ATCTGAATAA
Statistics
Matches: 132, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 12 0.09
80 19 0.14
81 101 0.77
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TAACTAGCACAAATG
Found at i:7699841 original size:16 final size:16
Alignment explanation
Indices: 7699820--7699852 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7699810 TCATTAATCA
7699820 TTCAGGAAGTTTCACT
1 TTCAGGAAGTTTCACT
*
7699836 TTCAGGAAGTTTTACT
1 TTCAGGAAGTTTCACT
7699852 T
1 T
7699853 CTCTCCCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (16 bp):
TTCAGGAAGTTTCACT
Found at i:7710655 original size:36 final size:36
Alignment explanation
Indices: 7710612--7710684 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
7710602 GCCATCCTTT
7710612 TAATGTCATCAACCTGACCATAGGCACTGATGATAC
1 TAATGTCATCAACCTGACCATAGGCACTGATGATAC
7710648 TAATGTCATCAACCTGACCATAGGCACTGATGATAC
1 TAATGTCATCAACCTGACCATAGGCACTGATGATAC
7710684 T
1 T
7710685 GTTAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (36 bp):
TAATGTCATCAACCTGACCATAGGCACTGATGATAC
Found at i:7712915 original size:13 final size:13
Alignment explanation
Indices: 7712897--7712923 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7712887 CCCACATCTT
7712897 CTTATACTAACAA
1 CTTATACTAACAA
7712910 CTTATACTAACAA
1 CTTATACTAACAA
7712923 C
1 C
7712924 AAAACAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (13 bp):
CTTATACTAACAA
Found at i:7717759 original size:2 final size:2
Alignment explanation
Indices: 7717752--7717800 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
7717742 TTCTCCGTCA
7717752 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7717794 CT CT CT C
1 CT CT CT C
7717801 GTCACTAGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:7719327 original size:17 final size:16
Alignment explanation
Indices: 7719291--7719329 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
7719281 GAAATATAAA
7719291 ATAAGTAAGATATTTT
1 ATAAGTAAGATATTTT
7719307 ATAA-TAAGATATTACTT
1 ATAAGTAAGATATT--TT
7719324 ATAAGT
1 ATAAGT
7719330 GATAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 6 0.30
18 1 0.05
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (16 bp):
ATAAGTAAGATATTTT
Found at i:7723339 original size:53 final size:53
Alignment explanation
Indices: 7723255--7723355 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 53
7723245 TTAGAATTTT
* * * * *
7723255 TATAAAATTTTAAACTTTTTTTATATATTTGAGTTTTTTTATATTTTTTAAAA
1 TATAAAATTTGAAACTTTTTGTAAATATTTGAATTTTTTTATAATTTTTAAAA
7723308 TATAAAATTTGAAA-TTTTTGTAAATATTTTGAATTTTTTTATAATTTT
1 TATAAAATTTGAAACTTTTTGTAAATA-TTTGAATTTTTTTATAATTTT
7723356 GTTGAGAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 10 0.24
53 32 0.76
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (53 bp):
TATAAAATTTGAAACTTTTTGTAAATATTTGAATTTTTTTATAATTTTTAAAA
Found at i:7725105 original size:15 final size:15
Alignment explanation
Indices: 7725072--7725105 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7725062 TTTTAATAAG
*
7725072 TAAATTTTTTACATA
1 TAAATTTTTCACATA
7725087 -AAATTTTTCACATA
1 TAAATTTTTCACATA
7725101 TAAAT
1 TAAAT
7725106 GTGTCATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATTTTTCACATA
Found at i:7730407 original size:11 final size:11
Alignment explanation
Indices: 7730391--7730417 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7730381 TCCCTACTAC
7730391 TACTTGGAACA
1 TACTTGGAACA
7730402 TACTTGGAACA
1 TACTTGGAACA
7730413 TACTT
1 TACTT
7730418 AATCTATTCA
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:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (11 bp):
TACTTGGAACA
Found at i:7732387 original size:30 final size:29
Alignment explanation
Indices: 7732340--7732398 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
7732330 TTCCCGAGCC
7732340 TAGGGGAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAGTGTAATTATGCAAAAGTT
* *
7732369 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAGT-GTAATTATGCAAAAGTT
7732399 CGTATTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.29
Consensus pattern (29 bp):
TAGGGGAAAAGTGTAATTATGCAAAAGTT
Found at i:7732875 original size:47 final size:47
Alignment explanation
Indices: 7732820--7732996 Score: 193
Period size: 47 Copynumber: 3.8 Consensus size: 47
7732810 TGGTTGAACA
*
7732820 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * *
7732867 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
* *
7732914 TCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
7732960 CCCGAGCTCGTTGAGTTGAGTCAGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7732997 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 36 0.34
47 55 0.51
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:7740454 original size:47 final size:47
Alignment explanation
Indices: 7740403--7740576 Score: 214
Period size: 47 Copynumber: 3.7 Consensus size: 47
7740393 TTGAACATCT
*
7740403 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTCC
* * *
7740450 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CGTCC
* *
7740497 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTCC
*
7740543 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7740577 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 38 0.35
47 55 0.50
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGTCC
Found at i:7755783 original size:51 final size:51
Alignment explanation
Indices: 7755718--7755815 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
7755708 CTCTCTCAAC
* * *
7755718 AAAATTATAAAAAAATTCAAA-ATATTACAAAAA-TTTCAAATTTTATATTTT
1 AAAAATATAAAAAAACTCAAATATA-TA-AAAAAGTTTAAAATTTTATATTTT
7755769 AAAAATATAAAAAAACTCAAATATATAAAAAAGTTTAAAATTTTATA
1 AAAAATATAAAAAAACTCAAATATATAAAAAAGTTTAAAATTTTATA
7755816 AAAATTCTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 5 0.12
51 34 0.81
52 3 0.07
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (51 bp):
AAAAATATAAAAAAACTCAAATATATAAAAAAGTTTAAAATTTTATATTTT
Found at i:7759765 original size:17 final size:16
Alignment explanation
Indices: 7759741--7759779 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
7759731 TTTATTTATC
7759741 ACTTATAAGTAATATCTT
1 ACTTATAA--AATATCTT
7759759 A-TTATAAAATATCTT
1 ACTTATAAAATATCTT
7759774 ACTTAT
1 ACTTAT
7759780 TTTATATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 6 0.30
18 1 0.05
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (16 bp):
ACTTATAAAATATCTT
Found at i:7761282 original size:2 final size:2
Alignment explanation
Indices: 7761275--7761323 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
7761265 TGCTAGTGAC
7761275 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7761317 GA GA GA G
1 GA GA GA G
7761324 TGACGGAGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7766177 original size:13 final size:13
Alignment explanation
Indices: 7766159--7766185 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7766149 CTATTGTTTT
7766159 GTTGTTAGTATAA
1 GTTGTTAGTATAA
7766172 GTTGTTAGTATAA
1 GTTGTTAGTATAA
7766185 G
1 G
7766186 AAGATGTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (13 bp):
GTTGTTAGTATAA
Found at i:7768448 original size:36 final size:36
Alignment explanation
Indices: 7768401--7768473 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
7768391 TTTTTTTAAC
7768401 AGTATCATCAGTGCCTATGGTCAGGTTGATGACATT
1 AGTATCATCAGTGCCTATGGTCAGGTTGATGACATT
7768437 AGTATCATCAGTGCCTATGGTCAGGTTGATGACATT
1 AGTATCATCAGTGCCTATGGTCAGGTTGATGACATT
7768473 A
1 A
7768474 AAAGGATGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (36 bp):
AGTATCATCAGTGCCTATGGTCAGGTTGATGACATT
Found at i:7779235 original size:16 final size:16
Alignment explanation
Indices: 7779211--7779243 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7779201 AGTAGGAGAG
7779211 AAGTAAAACTTCCTGA
1 AAGTAAAACTTCCTGA
*
7779227 AAGTGAAACTTCCTGA
1 AAGTAAAACTTCCTGA
7779243 A
1 A
7779244 TGATAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (16 bp):
AAGTAAAACTTCCTGA
Found at i:7784634 original size:19 final size:19
Alignment explanation
Indices: 7784597--7784634 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7784587 ACCTGTTAGA
* *
7784597 AGAAAATAAATTAAGAATT
1 AGAAAATAAAATAAAAATT
7784616 AGAAAATAAAATAAAAATT
1 AGAAAATAAAATAAAAATT
7784635 TATATTGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
AGAAAATAAAATAAAAATT
Found at i:7795410 original size:16 final size:17
Alignment explanation
Indices: 7795372--7795410 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7795362 TTTTTCTTAA
7795372 GTTTTTAAGACTCATTC
1 GTTTTTAAGACTCATTC
* *
7795389 GTTTTTAAGATTCATTT
1 GTTTTTAAGACTCATTC
7795406 GTTTT
1 GTTTT
7795411 CCTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (17 bp):
GTTTTTAAGACTCATTC
Found at i:7805540 original size:49 final size:49
Alignment explanation
Indices: 7805346--7805605 Score: 184
Period size: 49 Copynumber: 5.5 Consensus size: 49
7805336 TGTGCTAGTA
* * * * *
7805346 TAAGACATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAGATCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCTGCCTCGATATATGAAAGCCAGTG
* * * * *
7805392 TATGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCTAGTG
1 TAAGACCTGTCTGGGACATGGCATCTGCCTCGATATATGA-AAGCCAGTG
* * * * * * * *
7805440 TAAGACCTGTCTGAGACATGGCGTCAG-CTTG--CTGTG--TGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCTGCCTCGATATATGAAAGCCAGTG
*
7805484 TAAGACCTGTCTGGGACATGGCATC-GACAC-CGATATATGAGAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCTG-C-CTCGATATATGAAAGCCAGTG
* * **
7805533 TAAGACCTGTCTGGGACACGACATCTGCCTCGATATATGAAAGTTAGTG
1 TAAGACCTGTCTGGGACATGGCATCTGCCTCGATATATGAAAGCCAGTG
* *
7805582 TAAGACCTATCTGGGACATAGCAT
1 TAAGACCTGTCTGGGACATGGCAT
7805606 TGACTTTGAT
Statistics
Matches: 167, Mismatches: 33, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.17
45 1 0.01
46 31 0.19
47 5 0.03
48 29 0.17
49 71 0.43
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCTGCCTCGATATATGAAAGCCAGTG
Found at i:7830808 original size:39 final size:39
Alignment explanation
Indices: 7830754--7830831 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
7830744 GCATAAAAGA
7830754 TAGTATAGCAATAGAAGCCATGTAGTAGCACATCTCCCC
1 TAGTATAGCAATAGAAGCCATGTAGTAGCACATCTCCCC
7830793 TAGTATAGCAATAGAAGCCATGTAGTAGCACATCTCCCC
1 TAGTATAGCAATAGAAGCCATGTAGTAGCACATCTCCCC
7830832 CTCAAACTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (39 bp):
TAGTATAGCAATAGAAGCCATGTAGTAGCACATCTCCCC
Found at i:7834037 original size:9 final size:9
Alignment explanation
Indices: 7834025--7834167 Score: 135
Period size: 9 Copynumber: 16.0 Consensus size: 9
7834015 TATTTGATAT
*
7834025 CATAATTTA
1 CATAACTTA
7834034 CATAACTTA
1 CATAACTTA
* *
7834043 CAGAACGTA
1 CATAACTTA
7834052 CATAACTTA
1 CATAACTTA
*
7834061 TATAACTTA
1 CATAACTTA
7834070 CATAACTTA
1 CATAACTTA
* *
7834079 TATAACATA
1 CATAACTTA
7834088 CATAACTTA
1 CATAACTTA
*
7834097 TATAACTTA
1 CATAACTTA
* *
7834106 TATAACATA
1 CATAACTTA
7834115 CATAACTTA
1 CATAACTTA
*
7834124 TATAACTTA
1 CATAACTTA
* *
7834133 TATAATTTA
1 CATAACTTA
* *
7834142 GATAA-ATA
1 CATAACTTA
*
7834150 TATAACTTA
1 CATAACTTA
*
7834159 CATGACTTA
1 CATAACTTA
7834168 TATGTTTCTA
Statistics
Matches: 110, Mismatches: 23, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
8 6 0.05
9 104 0.95
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:7841492 original size:26 final size:25
Alignment explanation
Indices: 7841460--7841539 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 25
7841450 AAGCCCTCCC
7841460 AAAAAAAAACCTAACCCCCCCAAAA
1 AAAAAAAAACCTAACCCCCCCAAAA
*
7841485 AAAGAAAAAACTTAACCCCCCCAAAA
1 AAA-AAAAAACCTAACCCCCCCAAAA
*
7841511 AAAAGAACAACCTAA--CCCCCAAAA
1 AAAA-AAAAACCTAACCCCCCCAAAA
7841535 AAAAA
1 AAAAA
7841540 CTAAGAAACT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.02
24 13 0.26
25 4 0.08
26 32 0.64
ACGTcount: A:0.61, C:0.31, G:0.03, T:0.05
Consensus pattern (25 bp):
AAAAAAAAACCTAACCCCCCCAAAA
Found at i:7841774 original size:14 final size:13
Alignment explanation
Indices: 7841755--7841801 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
7841745 CCTAAAGGTG
7841755 ATTTTATCTTCTTT
1 ATTTTATCTT-TTT
7841769 ATTTTACTCTTTTTT
1 ATTTTA-TC-TTTTT
7841784 ATTTTTAT-TTTTT
1 A-TTTTATCTTTTT
7841797 ATTTT
1 ATTTT
7841802 TTTCCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.13
13 6 0.20
14 6 0.20
15 7 0.23
16 7 0.23
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTATCTTTTT
Found at i:7841784 original size:15 final size:14
Alignment explanation
Indices: 7841755--7841801 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
7841745 CCTAAAGGTG
*
7841755 ATTTTATCTTCTTT
1 ATTTTATCTTTTTT
7841769 ATTTTACTCTTTTTT
1 ATTTTA-TCTTTTTT
*
7841784 ATTTT-TATTTTTT
1 ATTTTATCTTTTTT
7841797 ATTTT
1 ATTTT
7841802 TTTCCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 12 0.40
14 6 0.20
15 12 0.40
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTATCTTTTTT
Found at i:7841810 original size:28 final size:30
Alignment explanation
Indices: 7841756--7841811 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
7841746 CTAAAGGTGA
*
7841756 TTTTATCTTCTTTATTTTACTCTTTTTTAT
1 TTTTATCTTCTTTATTTTACTCCTTTTTAT
**
7841786 TTTTAT-TT-TTTATTTTTTTCCTTTTT
1 TTTTATCTTCTTTATTTTACTCCTTTTT
7841812 TTGAATCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
29 2 0.09
30 6 0.26
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (30 bp):
TTTTATCTTCTTTATTTTACTCCTTTTTAT
Found at i:7842396 original size:21 final size:23
Alignment explanation
Indices: 7842370--7842413 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7842360 ATACTTCTTG
*
7842370 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
7842391 TATATTGTCTCATGTACATACTT
1 TATATTGTCTCATGTACATACTT
7842414 CGAAATACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 11 0.55
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:7842749 original size:16 final size:15
Alignment explanation
Indices: 7842725--7842759 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
7842715 TAATTATTAT
7842725 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
7842741 TATTTTAATATTTTA
1 TATTCTAATATTTTA
7842756 TATT
1 TATT
7842760 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:7854699 original size:70 final size:71
Alignment explanation
Indices: 7854570--7855173 Score: 706
Period size: 74 Copynumber: 8.7 Consensus size: 71
7854560 TTGATGTTTT
* *
7854570 ATTTCTGTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGT
1 ATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGACACGCTGAGGT
7854635 AATTTCA
65 AATTTCA
*
7854642 ATTT-TGTTGTCAAAAAAATCAACTCATA-TGCGAGAGTGAGTTGAGCCTCGGAGACGCTGAGGT
1 ATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGACACGCTGAGGT
7854705 AATTTCA
65 AATTTCA
7854712 A-TT-TGTTT----AAAATC-ACTCATATT--GAGA-TGAG-T-A-CCTC-GACAC-CT-AGGT-
1 ATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGACACGCTGAGGTA
7854760 A-TTCA
66 ATTTCA
* * *
7854765 ATTTCTGTTTC---AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTCAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTC-GGACACGCTGAGG
*
7854827 T-ATTTTA
64 TAATTTCA
* *
7854834 ATTTTTGTCTTTCAAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 ATTTCTG--TTTC-AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTC-GGACACGCTG
7854899 AGGTAATTTCA
61 AGGTAATTTCA
* *
7854910 ATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTC-GGACACGCTGAG
7854975 GTAATTTCA
63 GTAATTTCA
* * * *
7854984 ATTTCTGTTTC--AAAATTCAACTCATATTGCGAGAATGAGTTGAGCCTCAAGACATGCTGAGGT
1 ATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTC-GGACACGCTGAGGT
*
7855047 ATTTTCA
65 AATTTCA
*
7855054 ATTTTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAG
1 A-TTTCTG-TTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGACACGCTGAG
7855119 GTAATTTCA
63 GTAATTTCA
7855128 ATTTCTGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGC
7855174 TTCAAATCAC
Statistics
Matches: 472, Mismatches: 27, Indels: 68
0.83 0.05 0.12
Matches are distributed among these distances:
53 5 0.01
54 3 0.01
55 9 0.02
56 8 0.02
57 13 0.03
58 4 0.01
59 4 0.01
60 2 0.00
61 8 0.02
62 5 0.01
63 8 0.02
64 11 0.02
66 5 0.01
67 1 0.00
68 6 0.01
69 15 0.03
70 104 0.22
71 41 0.09
72 31 0.07
73 6 0.01
74 111 0.24
75 61 0.13
76 11 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (71 bp):
ATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGACACGCTGAGGTA
ATTTCA
Found at i:7855112 original size:144 final size:145
Alignment explanation
Indices: 7854761--7855178 Score: 591
Period size: 145 Copynumber: 2.9 Consensus size: 145
7854751 CACCTAGGTA
* *
7854761 TTCAATTTCTG-TTTC---AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
* * *
7854822 TGAGGT-ATTTTAATTTTTGTCTTTCAAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCC
66 TGAGGTAATTTCAATTTCTG--TTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
7854886 TCAGGACACGCTGAGGTAAT
126 TCAAGACACGCTGAGGTAAT
7854906 TTCAATTTCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
1 TTCAATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
* *
7854970 CTGAGGTAATTTCAATTTCTGTTTCAAAATTCAACTCATATTGCGAGA-ATGAGTTGAGCCTCAA
65 CTGAGGTAATTTCAATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *
7855034 GACATGCTGAGGTATT
130 GACACGCTGAGGTAAT
* **
7855050 TTCAATTTTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACG
1 TTCAA-TTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
*
7855114 CTGAGGTAATTTCAATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAA
65 CTGAGGTAATTTCAATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
7855179 ATCACACATG
Statistics
Matches: 248, Mismatches: 16, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
144 89 0.36
145 91 0.37
146 1 0.00
147 2 0.01
148 4 0.02
149 50 0.20
150 11 0.04
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (145 bp):
TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACGCTGAGGTAAT
Found at i:7856057 original size:25 final size:25
Alignment explanation
Indices: 7856018--7856090 Score: 114
Period size: 24 Copynumber: 3.0 Consensus size: 25
7856008 AGCCCTCCAA
7856018 AAAAAACCTAA-CCCCAAAAAAAAG
1 AAAAAACCTAACCCCCAAAAAAAAG
7856042 AAAAAACCTAACCCCCCAAAAAAAAG
1 AAAAAACCTAA-CCCCCAAAAAAAAG
*
7856068 -AAAAACCTAACCCCAAAAAAAAA
1 AAAAAACCTAACCCCCAAAAAAAA
7856091 CCAAGAAACT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
24 23 0.50
25 10 0.22
26 13 0.28
ACGTcount: A:0.66, C:0.27, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAAACCTAACCCCCAAAAAAAAG
Found at i:7856090 original size:24 final size:24
Alignment explanation
Indices: 7856018--7856089 Score: 119
Period size: 26 Copynumber: 3.0 Consensus size: 24
7856008 AGCCCTCCAA
7856018 AAAAAACCTAACCCCAAAAAAAAG
1 AAAAAACCTAACCCCAAAAAAAAG
7856042 AAAAAACCTAACCCCCCAAAAAAAAG
1 AAAAAACCTAA--CCCCAAAAAAAAG
7856068 -AAAAACCTAACCCCAAAAAAAA
1 AAAAAACCTAACCCCAAAAAAAA
7856090 ACCAAGAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
23 12 0.26
24 11 0.24
25 10 0.22
26 13 0.28
ACGTcount: A:0.65, C:0.28, G:0.03, T:0.04
Consensus pattern (24 bp):
AAAAAACCTAACCCCAAAAAAAAG
Found at i:7856325 original size:14 final size:13
Alignment explanation
Indices: 7856299--7856340 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
7856289 CTAAAGGTGA
*
7856299 TTTATCTTCTTAT
1 TTTATCTTTTTAT
7856312 TTTACTCTTTTTAT
1 TTTA-TCTTTTTAT
7856326 TTTAT-TTTTTAT
1 TTTATCTTTTTAT
7856338 TTT
1 TTT
7856341 TTTCCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 10 0.37
13 5 0.19
14 12 0.44
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATCTTTTTAT
Found at i:7856915 original size:21 final size:23
Alignment explanation
Indices: 7856891--7856933 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7856881 TATACTCTTG
*
7856891 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
7856912 TATATTGTCTCATGTACATACT
1 TATATTGTCTCATGTACATACT
7856934 CCGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:7858676 original size:14 final size:14
Alignment explanation
Indices: 7858657--7858683 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7858647 AAGCCAAACT
7858657 TGAACCTTAAACCA
1 TGAACCTTAAACCA
7858671 TGAACCTTAAACC
1 TGAACCTTAAACC
7858684 CAAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (14 bp):
TGAACCTTAAACCA
Found at i:7858725 original size:20 final size:20
Alignment explanation
Indices: 7858700--7858749 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
7858690 TTAAATCTCA
*
7858700 AACCTTAAACATCAAACTCG
1 AACCTTAAACACCAAACTCG
* *
7858720 AACCTTGAACCCCAAACTCG
1 AACCTTAAACACCAAACTCG
7858740 AACCTTAAAC
1 AACCTTAAAC
7858750 TTTGAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.34, G:0.06, T:0.18
Consensus pattern (20 bp):
AACCTTAAACACCAAACTCG
Found at i:7860353 original size:19 final size:18
Alignment explanation
Indices: 7860325--7860365 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
7860315 CATTATTTTA
*
7860325 AATTAATAAAATAAAATT
1 AATTAATAAAATAAAAGT
*
7860343 AATTAATTAAACTAAAAGT
1 AATTAA-TAAAATAAAAGT
7860362 AATT
1 AATT
7860366 GAACATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTAATAAAATAAAAGT
Found at i:7860639 original size:31 final size:31
Alignment explanation
Indices: 7860567--7860640 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
7860557 AAAAAATATA
*** *
7860567 AAGTATCAAATTAAGAAATTGTGTTAAGTTC
1 AAGTATCAAATTAAGAAAACATGTCAAGTTC
* *
7860598 ATGTACCAAATTAAGAAAACATGTCAAG-TC
1 AAGTATCAAATTAAGAAAACATGTCAAGTTC
7860628 TAAGTATCAAATT
1 -AAGTATCAAATT
7860641 GAACAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (31 bp):
AAGTATCAAATTAAGAAAACATGTCAAGTTC
Found at i:7860683 original size:89 final size:88
Alignment explanation
Indices: 7860513--7860697 Score: 207
Period size: 89 Copynumber: 2.1 Consensus size: 88
7860503 AAAAAAATAA
* * *
7860513 TACCAAATTAGAAAAAGAGTCAAGTTCAGGTATCAAATAGAATAAAAAAATATAAAGTATCAAAT
1 TACCAAATTAGAAAAAGAGTCAAGTTCAAGTATCAAATAGAACAAAAAAATATAAAGTACCAAAT
*** * *
7860578 TAAGAAATTGTGTTAAGTTCATG
66 TAAGAAAAAATATTAAGTTCAAG
* *
7860601 TACCAAATTAAGAAAACA-TGTCAAG-TCTAAGTATCAAATTGAACAAAAAAAT-TCAAA-TACC
1 TACCAAATT-AGAAAA-AGAGTCAAGTTC-AAGTATCAAATAGAACAAAAAAATAT-AAAGTACC
7860662 AAATTAAGAAAAAAATATTAAGTTCAAG
62 AAATTAAG-AAAAAATATTAAGTTCAAG
7860690 TACCAAAT
1 TACCAAAT
7860698 ATTATTTAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
88 23 0.28
89 58 0.71
90 1 0.01
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (88 bp):
TACCAAATTAGAAAAAGAGTCAAGTTCAAGTATCAAATAGAACAAAAAAATATAAAGTACCAAAT
TAAGAAAAAATATTAAGTTCAAG
Found at i:7864231 original size:20 final size:20
Alignment explanation
Indices: 7864206--7864245 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7864196 CATTTATTTT
* *
7864206 AATTTTT-AATTATTTTTAA
1 AATTTTTAAAATATTATTAA
7864225 AATTTTTAAAATATTATTAA
1 AATTTTTAAAATATTATTAA
7864245 A
1 A
7864246 GTGACATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTTAAAATATTATTAA
Found at i:7870859 original size:21 final size:21
Alignment explanation
Indices: 7870835--7870880 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7870825 TTAGGCTTCG
7870835 CGGCGGCAGGCTTCTTAGCTA
1 CGGCGGCAGGCTTCTTAGCTA
* * *
7870856 CGGCGGCCGGTTTCTTAGCTG
1 CGGCGGCAGGCTTCTTAGCTA
7870877 CGGC
1 CGGC
7870881 AGAAGCCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.30, G:0.37, T:0.24
Consensus pattern (21 bp):
CGGCGGCAGGCTTCTTAGCTA
Found at i:7871153 original size:2 final size:2
Alignment explanation
Indices: 7871146--7871174 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7871136 AAAGGTTTTT
7871146 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7871175 TTTACCTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7889739 original size:44 final size:44
Alignment explanation
Indices: 7889691--7890030 Score: 174
Period size: 44 Copynumber: 7.7 Consensus size: 44
7889681 AGCCACCAGC
* *
7889691 CTTAT-TTCCCTGAGGTAGCAAAGGAGTAGGCTGAAGATTGTAGT
1 CTTATCTT-CCTGAGGTAGCAAAGGAGCAGGCTGAAGATTGAAGT
** *
7889735 CTTATCTTTTTGAGGTAGC-AAGGAGGCAGACTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAGCAAAGGA-GCAGGCTGAAGATTGAAG-T
* ** * * * *
7889780 CTTATC-TCTCTGAGATAGCAGTGGAGTA-GATCGAATA-TGACAAAT
1 CTTATCTTC-CTGAGGTAGCAAAGGAGCAGGCT-GAAGATTG--AAGT
* * ** ** ***** *
7889825 CTTATCTTCCCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAGC
1 CTTATCTTCCTGAGGTAGCAAAGGAGCAGGCTGAAGATTGAAGT
* * * *
7889869 CTTAT-TTCCCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGCAGT
1 CTTATCTT-CCTGAGGTAGCAAAGGAGCAGGCTGAAGATTGAAGT
* * *
7889913 CTTATCTTTCTGAGGTAGCAAAGGAACAGACTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAGCAAAGGAGCAGGCTGAAGATTGAAG-T
* * * * * * *
7889958 CTTGTATTCCTGAAGCAGCATA-GAGCAGGCTGAGGATTGTAGAT
1 CTTATCTTCCTGAGGTAGCAAAGGAGCAGGCTGAAGATTGAAG-T
*
7890002 CTTATCTTCATGAGGTAGCAATA-GAGCAG
1 CTTATCTTCCTGAGGTAGCAA-AGGAGCAG
7890031 ATCGAAGATG
Statistics
Matches: 215, Mismatches: 66, Indels: 29
0.69 0.21 0.09
Matches are distributed among these distances:
43 7 0.03
44 128 0.60
45 72 0.33
46 8 0.04
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAAGGAGCAGGCTGAAGATTGAAGT
Found at i:7889806 original size:89 final size:86
Alignment explanation
Indices: 7889699--7890039 Score: 210
Period size: 89 Copynumber: 3.8 Consensus size: 86
7889689 GCCTTATTTC
* ** **
7889699 CCTGAGGTAGCAAAGGAGTAGGCTGAAGATTGTAGTCTTATCTTTTTGAGGTAGCAAGGAGGCAG
1 CCTGAGATAGCAGTGGAGTAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGA-GCAG
7889764 ACTGAAGATTGAAGATCTTATCT
65 ACTGAAGATTGAAGATCTTAT-T
* * * * *
7889787 CTCTGAGATAGCAGTGGAGTA-GATCGAATA-TGACAAATCTTATCTTCCCGAGGTAGCAGAGGA
1 C-CTGAGATAGCAGTGGAGTAGGCT-GAAGATTG--TAGTCTTATCTTCCTGAGGTAGCA-AGGA
* ** ***** *
7889850 GCAGATTTTAGCCACCAG-CCTTATTT
61 GCAGACTGAAGATTGAAGATCTTA-TT
* * * * *
7889876 CCCTGAGGTAGCAAG-GGAGTAGGCTAAAGATTGCAGTCTTATCTTTCTGAGGTAGCAAAGGAAC
1 -CCTGAGATAGC-AGTGGAGTAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGC-AAGGAGC
7889940 AGACTGAAGATTGAAGATCTTGTATT
63 AGACTGAAGATTGAAGATC-T-TATT
* * * * * *
7889966 CCTGA-AGCAGCA-TAGAGCAGGCTGAGGATTGTAGATCTTATCTTCATGAGGTAGCAATAGAGC
1 CCTGAGA-TAGCAGTGGAGTAGGCTGAAGATTGTAG-TCTTATCTTCCTGAGGTAGCAA-GGAGC
7890029 AGA-TCGAAGAT
63 AGACT-GAAGAT
7890040 GGCGAATCTT
Statistics
Matches: 186, Mismatches: 48, Indels: 37
0.69 0.18 0.14
Matches are distributed among these distances:
88 57 0.31
89 83 0.45
90 40 0.22
91 6 0.03
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (86 bp):
CCTGAGATAGCAGTGGAGTAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAGCAGA
CTGAAGATTGAAGATCTTATT
Found at i:7890116 original size:44 final size:43
Alignment explanation
Indices: 7890068--7890523 Score: 164
Period size: 44 Copynumber: 10.3 Consensus size: 43
7890058 AAGGTAGCAA
*
7890068 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTGAAG-CACCAGCCTTATCTCCCTGAAGTTGCAG
* * ** * * *
7890112 TGGAGCAGGTCGAAATTACAAACCTTATCTCCCTG-AGTTGCAT
1 TGGAGCAGATTG-AAGCACCAGCCTTATCTCCCTGAAGTTGCAG
* * * * ** * *
7890155 TGGAGTAGACTGAAGATAGCAAATCTTATTTCCCTGAAGATGCAG
1 TGGAGCAGATTGAAG-CA-CCAGCCTTATCTCCCTGAAGTTGCAG
* * * *
7890200 TGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAA-TTGCAG
1 TGGAGCAGATTGAAGC--------ACCAG-CCTTATCTCCCTGAAGTTGCAG
* * * *
7890251 TAGAGCAGA-TCATAGCA--AACTTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTGA-AGCACCAGCCTTATCTCCCTGAAGTTGCAG
* * * * * * *
7890292 TGGAGCAGGTTGAAGTAACAGGTCTTATCTCCTTGAGGTAGCAG
1 TGGAGCAGATTGAAGCACCA-GCCTTATCTCCCTGAAGTTGCAG
* * *
7890336 -GGAAGAAGATTTAAGCCACCAGCCTTATCT-CCTGAA-TTACAG
1 TGG-AGCAGATTGAAG-CACCAGCCTTATCTCCCTGAAGTTGCAG
** * * *
7890378 TGGAGCA-AGTTGACATTACCAATCCTTATCTCCCTAAAGTTGTAG
1 TGGAGCAGA-TTGA-AGCACC-AGCCTTATCTCCCTGAAGTTGCAG
* * * * *
7890423 TGGAGCAAGAAAAT-AA-AACGAGTCTTATCT-CCTGAAGTTGTAG
1 TGGAGC-AG--ATTGAAGCACCAGCCTTATCTCCCTGAAGTTGCAG
* * *
7890466 TGGAGCA-AGTTGAAGTCACGAACCTTATCTCCCTGAAGTTGTAG
1 TGGAGCAGA-TTGAAG-CACCAGCCTTATCTCCCTGAAGTTGCAG
*
7890510 TGGAGCAGGTTGAA
1 TGGAGCAGATTGAA
7890524 ATTATCAATT
Statistics
Matches: 302, Mismatches: 73, Indels: 74
0.67 0.16 0.16
Matches are distributed among these distances:
39 1 0.00
40 13 0.04
41 20 0.07
42 18 0.06
43 66 0.22
44 112 0.37
45 35 0.12
46 2 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 2 0.01
51 16 0.05
52 14 0.05
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
TGGAGCAGATTGAAGCACCAGCCTTATCTCCCTGAAGTTGCAG
Found at i:7890493 original size:43 final size:43
Alignment explanation
Indices: 7890358--7890523 Score: 160
Period size: 43 Copynumber: 3.8 Consensus size: 43
7890348 AAGCCACCAG
** * *
7890358 CCTTATCT-CCTGAA-TTACAGTGGAGCAAGTTGACATTACCAA
1 CCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGA-ATAACGAA
* ** *
7890400 TCCTTATCTCCCTAAAGTTGTAGTGGAGCAAG-AAAATAAAACGAG
1 -CCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAT--AACGAA
* *
7890445 TCTTATCT-CCTGAAGTTGTAGTGGAGCAAGTTGAAGTCACGAA
1 CCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAA-TAACGAA
*
7890488 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAA
1 CCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAA
7890524 ATTATCAATT
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
43 42 0.42
44 41 0.41
45 17 0.17
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
CCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAATAACGAA
Found at i:7890989 original size:19 final size:19
Alignment explanation
Indices: 7890965--7891019 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
7890955 AGGAAGATAA
* * *
7890965 TTATTTGTTTTTGTTTTAT
1 TTATTTATTTTTATTTCAT
7890984 TTATTTATTTTTATTTCAT
1 TTATTTATTTTTATTTCAT
*
7891003 TTCATTTATTTTAATTT
1 TT-ATTTATTTTTATTT
7891020 ATTAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (19 bp):
TTATTTATTTTTATTTCAT
Found at i:7891580 original size:14 final size:13
Alignment explanation
Indices: 7891540--7891636 Score: 74
Period size: 14 Copynumber: 7.1 Consensus size: 13
7891530 TTATTATGTT
7891540 TCTATTTTATTCTAA
1 TCTATTTTATT-T-A
7891555 TACTATTATTATTTA
1 T-CTATT-TTATTTA
7891570 TCTAATTTTATTTA
1 TCT-ATTTTATTTA
*
7891584 TCTATTTATATTTC
1 TCTATTT-TATTTA
7891598 TACTA-TTTATATT-
1 T-CTATTTTAT-TTA
*
7891611 TCTATTTTATAT-
1 TCTATTTTATTTA
*
7891623 TCTATTGTATTTA
1 TCTATTTTATTTA
7891636 T
1 T
7891637 ATACTAATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
12 14 0.20
13 14 0.20
14 22 0.31
15 9 0.13
16 6 0.09
17 5 0.07
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (13 bp):
TCTATTTTATTTA
Found at i:7891605 original size:15 final size:15
Alignment explanation
Indices: 7891585--7891623 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
7891575 TTTTATTTAT
7891585 CTATTTATATTTCTA
1 CTATTTATATTTCTA
7891600 CTATTTATATTTCTA
1 CTATTTATATTTCTA
7891615 -T-TTTATATT
1 CTATTTATATT
7891624 CTATTGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.33
14 1 0.04
15 15 0.62
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (15 bp):
CTATTTATATTTCTA
Found at i:7891642 original size:40 final size:39
Alignment explanation
Indices: 7891539--7891658 Score: 104
Period size: 40 Copynumber: 2.9 Consensus size: 39
7891529 ATTATTATGT
*
7891539 TTCTATTTTATTCTA-ATACTATTATTATTTATCTAATTTTATT
1 TTCTA-TTTATT-TATATACTATTATTA-TT-TCT-ATTTTATA
*
7891582 TATCTATTTATATT-TCTACTATT-TATATTTCTATTTTATA
1 T-TCTATTTAT-TTATATACTATTAT-TATTTCTATTTTATA
*
7891622 TTCTATTGTATTTATATACTAATATTATTTC-ATTTTA
1 TTCTATT-TATTTATATACTATTATTATTTCTATTTTA
7891659 GTTTCTTATA
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
39 14 0.21
40 24 0.36
41 4 0.06
42 3 0.05
43 16 0.24
44 5 0.08
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.62
Consensus pattern (39 bp):
TTCTATTTATTTATATACTATTATTATTTCTATTTTATA
Found at i:7891773 original size:3 final size:3
Alignment explanation
Indices: 7891765--7891916 Score: 145
Period size: 3 Copynumber: 51.0 Consensus size: 3
7891755 ACTATTATAC
7891765 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
7891811 ATAT ATAT GTAT CAA TAT CAT TAT T-T TAT T-T TAT T-T TAT TAT ATAT
1 -TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * *
7891857 TAT TAT TAT CAT TAT TAT TA- TAC TAT TAG TAC TAT TAT TAT T-T T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7891902 TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT
7891917 ATTTATTTAT
Statistics
Matches: 126, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
2 12 0.10
3 98 0.78
4 16 0.13
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:7891898 original size:58 final size:59
Alignment explanation
Indices: 7891757--7891910 Score: 187
Period size: 58 Copynumber: 2.6 Consensus size: 59
7891747 GATTTAAAAC
*
7891757 TATTATACTATTAT-TATTATTATTATTATTATTATTATATATTATTATTATTATATATA
1 TATTATACTATTATATATTATTATT-TTATTATTATTATATATTATTATTATCATATATA
* *
7891816 TATGTATCAATATCAT-TATT-TTATTTTATT-TTATTATATATTATTATTATCAT-TAT-
1 TAT-TAT-ACTATTATATATTATTATTTTATTATTATTATATATTATTATTATCATATATA
7891872 TATTATACTATTAGTACTATTATTATTTT-TTATTATTAT
1 TATTATACTATTA-TA-TATTATTATTTTATTATTATTAT
7891911 TTTTATATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 15
0.81 0.05 0.15
Matches are distributed among these distances:
54 5 0.06
55 4 0.05
56 3 0.04
57 9 0.11
58 36 0.43
59 8 0.10
60 8 0.10
61 10 0.12
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (59 bp):
TATTATACTATTATATATTATTATTTTATTATTATTATATATTATTATTATCATATATA
Found at i:7893627 original size:28 final size:28
Alignment explanation
Indices: 7893592--7893675 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 28
7893582 CCCTCCCAAA
7893592 AAAAAACCTAACCCCCCCAAAAAAAAAG
1 AAAAAACCTAACCCCCCCAAAAAAAAAG
*
7893620 AAAAAACCTAACCCCCCCCCCCAAAAAAAAG
1 AAAAAACCTAA---CCCCCCCAAAAAAAAAG
*
7893651 -AAAAACCTAA-CCCCCAAAAAAAAAA
1 AAAAAACCTAACCCCCCCAAAAAAAAA
7893676 CCAAGAAACT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 13 0.26
28 11 0.22
30 10 0.20
31 16 0.32
ACGTcount: A:0.60, C:0.35, G:0.02, T:0.04
Consensus pattern (28 bp):
AAAAAACCTAACCCCCCCAAAAAAAAAG
Found at i:7893920 original size:15 final size:14
Alignment explanation
Indices: 7893891--7893936 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
7893881 CCTAAAGGTG
*
7893891 ATTTTATCTTCTTT
1 ATTTTATCTTTTTT
7893905 ATTTTACTCTTTTTT
1 ATTTTA-TCTTTTTT
7893920 ATTTTAT-TTTTTT
1 ATTTTATCTTTTTT
7893933 -TTTT
1 ATTTT
7893937 TTTTTCCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 4 0.13
13 6 0.20
14 7 0.23
15 13 0.43
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTTATCTTTTTT
Found at i:7894848 original size:15 final size:15
Alignment explanation
Indices: 7894825--7894858 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7894815 ATTATTATTT
7894825 TATTCTAATATTTGA
1 TATTCTAATATTTGA
* *
7894840 TATTTTAATATTTTA
1 TATTCTAATATTTGA
7894855 TATT
1 TATT
7894859 ATTCACATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTCTAATATTTGA
Found at i:7906870 original size:72 final size:72
Alignment explanation
Indices: 7906685--7907307 Score: 877
Period size: 72 Copynumber: 8.5 Consensus size: 72
7906675 CTGTTTCAAA
* * *
7906685 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
7906750 TGTTGTC
66 TGTTTTC
* *
7906757 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
7906822 TCTGTTTTC
64 TCTGTTTTC
*
7906831 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
7906896 TGTTTTC
66 TGTTTTC
* ** * * * * *
7906903 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
7906968 TGTCTTTC
66 TGT-TTTC
* *
7906976 AAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAAT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
7907041 TTCTGTTGTTAA
63 TTCTGTT-TT-C
** *
7907053 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
7907118 TGTTTTC
66 TGTTTTC
* ** * * *
7907125 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-TTT
*
7907190 TTGTTTTTC
65 CTG-TTTTC
*
7907199 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
7907264 TCTGTTTTC
64 TCTGTTTTC
7907273 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
7907308 TTCAAATCAC
Statistics
Matches: 495, Mismatches: 44, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
72 221 0.45
73 11 0.02
74 141 0.28
75 6 0.01
76 116 0.23
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:7907120 original size:222 final size:218
Alignment explanation
Indices: 7906685--7907307 Score: 1012
Period size: 222 Copynumber: 2.8 Consensus size: 218
7906675 CTGTTTCAAA
* * ** * * *
7906685 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
* *
7906750 TGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTAAT
66 TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
* *
7906815 TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
131 TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTG
7906880 AGGTAATTTCAATTTCTGTTTTC
196 AGGTAATTTCAATTTCTGTTTTC
* *
7906903 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
* * *
7906968 TGTCTTTCAAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTA
66 TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
* **
7907033 ATTTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACAC
129 ATTTCAATTTCTGTT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAC
7907098 GCTGAGGTAATTTCAATTTCTGTTTTC
192 GCTGAGGTAATTTCAATTTCTGTTTTC
*
7907125 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAA-TTT
7907190 TTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
65 TTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
7907255 ATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
129 ATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
7907308 TTCAAATCAC
Statistics
Matches: 371, Mismatches: 28, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
218 59 0.16
219 3 0.01
220 100 0.27
221 4 0.01
222 194 0.52
223 10 0.03
224 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (218 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTG
AGGTAATTTCAATTTCTGTTTTC
Found at i:7907279 original size:294 final size:292
Alignment explanation
Indices: 7906684--7907307 Score: 937
Period size: 294 Copynumber: 2.1 Consensus size: 292
7906674 TCTGTTTCAA
*
7906684 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* ** * * *
7906749 TTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTAA
66 CTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAA
** **
7906814 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
131 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
*
7906879 GAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
196 GAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
* * * *
7906944 ACACGTTGAGGTATTTTTAATTTTTGTCTTTC
261 ACACGCTGAGGTAATTTCAATTTCTGTCTTTC
*
7906976 AAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAAT
1 --AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
7907041 TTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGT
64 TTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGT
* *
7907106 AATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
129 AATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* * **
7907171 CTGAGGTATTTTCAATTTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
194 CTGAGGTAATTTCAA-TTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
**
7907236 CTCGGGACACGCTGAGGTAATTTCAATTTCTGT-TTTC
255 CTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTTTC
*
7907273 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGC
7907308 TTCAAATCAC
Statistics
Matches: 299, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
294 226 0.76
295 5 0.02
296 5 0.02
297 4 0.01
298 59 0.20
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (292 bp):
AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
CTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAA
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
GAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
ACACGCTGAGGTAATTTCAATTTCTGTCTTTC
Found at i:7908199 original size:27 final size:26
Alignment explanation
Indices: 7908164--7908234 Score: 115
Period size: 27 Copynumber: 2.7 Consensus size: 26
7908154 AAGCCCTCCC
7908164 AAAAAAAACCTAACCCCCCCCAAAAA
1 AAAAAAAACCTAACCCCCCCCAAAAA
*
7908190 AAGAAAAAACCTAACCCCTCCCAAAAA
1 AA-AAAAAACCTAACCCCCCCCAAAAA
7908217 AAAGAAAAACCTAACCCC
1 AAA-AAAAACCTAACCCC
7908235 AAAAAAAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.56, C:0.35, G:0.03, T:0.06
Consensus pattern (26 bp):
AAAAAAAACCTAACCCCCCCCAAAAA
Found at i:7908243 original size:28 final size:28
Alignment explanation
Indices: 7908185--7908243 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
7908175 AACCCCCCCC
****
7908185 AAAAAAAGAAAAAACCTAACCCCTCCCA
1 AAAAAAAGAAAAAACCTAACCCCAAAAA
7908213 AAAAAAAG-AAAAACCTAACCCCAAAAA
1 AAAAAAAGAAAAAACCTAACCCCAAAAA
7908240 AAAA
1 AAAA
7908244 CCAAGAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.66, C:0.25, G:0.03, T:0.05
Consensus pattern (28 bp):
AAAAAAAGAAAAAACCTAACCCCAAAAA
Found at i:7908496 original size:13 final size:13
Alignment explanation
Indices: 7908478--7908502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7908468 ATTTTACTCT
7908478 TTTTTTATTTTTA
1 TTTTTTATTTTTA
7908491 TTTTTTATTTTT
1 TTTTTTATTTTT
7908503 TTTCCTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:7909098 original size:21 final size:23
Alignment explanation
Indices: 7909072--7909114 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7909062 ATACTTCTTG
*
7909072 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
7909093 TATATTGTCTCATGTACATACT
1 TATATTGTCTCATGTACATACT
7909115 CTGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:7909452 original size:16 final size:15
Alignment explanation
Indices: 7909428--7909462 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
7909418 TAATTATTAT
7909428 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
7909444 TATTTTAATATTTTA
1 TATTCTAATATTTTA
7909459 TATT
1 TATT
7909463 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:7913068 original size:17 final size:17
Alignment explanation
Indices: 7913048--7913125 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 17
7913038 AAGGAACTAC
7913048 AAAAAATAAATAAAATA
1 AAAAAATAAATAAAATA
* *
7913065 AAAATAT-ATTCAAAATA
1 AAAAAATAAAT-AAAATA
* **
7913082 CAAAAATAAATTTAATAA
1 AAAAAATAAATAAAAT-A
*
7913100 AATAAAATAAAT-AGATA
1 AA-AAAATAAATAAAATA
7913117 AATAAAATA
1 AA-AAAATA
7913126 TTTTTTAAGC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
16 2 0.04
17 30 0.64
18 6 0.13
19 9 0.19
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (17 bp):
AAAAAATAAATAAAATA
Found at i:7914942 original size:4 final size:4
Alignment explanation
Indices: 7914933--7914966 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
7914923 TTAACCAAGC
* *
7914933 TATT TATT TATT TGTT TGTT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TATT TA
7914967 AACGAGTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:7915125 original size:13 final size:13
Alignment explanation
Indices: 7915107--7915132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7915097 TTATTTAAGT
7915107 AAACTAAATATAA
1 AAACTAAATATAA
7915120 AAACTAAATATAA
1 AAACTAAATATAA
7915133 GAATTAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACTAAATATAA
Found at i:7915217 original size:28 final size:28
Alignment explanation
Indices: 7915186--7915242 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
7915176 AGAAAAACAC
7915186 ATGCAAAAATAAAGTATGGCATGATCCA
1 ATGCAAAAATAAAGTATGGCATGATCCA
7915214 ATGCAAAAATAAAGTATGGCATGATCCA
1 ATGCAAAAATAAAGTATGGCATGATCCA
7915242 A
1 A
7915243 AATTCCCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (28 bp):
ATGCAAAAATAAAGTATGGCATGATCCA
Found at i:7916772 original size:30 final size:28
Alignment explanation
Indices: 7916736--7916805 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
7916726 AGAAACAAAT
7916736 TATATACATAAATAAATTTAAAAGAATATA
1 TATATACATAAATAAATTTAAAAGAA-A-A
* *
7916766 TATATACACAAATAGATTTAAAAGAAAA
1 TATATACATAAATAAATTTAAAAGAAAA
*
7916794 TATTTACATAAA
1 TATATACATAAA
7916806 ATAATATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 11 0.31
29 1 0.03
30 24 0.67
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (28 bp):
TATATACATAAATAAATTTAAAAGAAAA
Found at i:7917815 original size:15 final size:14
Alignment explanation
Indices: 7917781--7917814 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7917771 GCAACAAGAT
*
7917781 AAAAAATTAAAGGA
1 AAAAAATGAAAGGA
*
7917795 GAAAAATGAAAGGA
1 AAAAAATGAAAGGA
7917809 AAAAAA
1 AAAAAA
7917815 AGTAGTCATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAAAATGAAAGGA
Found at i:7918314 original size:17 final size:18
Alignment explanation
Indices: 7918289--7918323 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7918279 ATTTTTATTA
7918289 TTTTGGTTTTCT-TAATG
1 TTTTGGTTTTCTGTAATG
*
7918306 TTTTTGTTTTCTGTAATG
1 TTTTGGTTTTCTGTAATG
7918324 GGCCCGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.11, C:0.06, G:0.17, T:0.66
Consensus pattern (18 bp):
TTTTGGTTTTCTGTAATG
Found at i:7920279 original size:35 final size:35
Alignment explanation
Indices: 7920240--7920311 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
7920230 GTCTAGGATC
*
7920240 GCATATCTTTGAAGATCCCCTTCCATATTTGCCAA
1 GCATATCTTTGAAGATCACCTTCCATATTTGCCAA
* * * *
7920275 GCATATCTTTGAATATTACTTTCTATATTTGCCAA
1 GCATATCTTTGAAGATCACCTTCCATATTTGCCAA
7920310 GC
1 GC
7920312 TCCGGAGATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (35 bp):
GCATATCTTTGAAGATCACCTTCCATATTTGCCAA
Found at i:7921002 original size:19 final size:19
Alignment explanation
Indices: 7920978--7921023 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
7920968 TAAACAAGCC
7920978 CTAGCCAAGTCATTCTTTT
1 CTAGCCAAGTCATTCTTTT
7920997 CTAGCCAAGTCATTCTTTT
1 CTAGCCAAGTCATTCTTTT
*
7921016 CTTGCCAA
1 CTAGCCAA
7921024 TCCTTCGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (19 bp):
CTAGCCAAGTCATTCTTTT
Found at i:7925251 original size:46 final size:46
Alignment explanation
Indices: 7925060--7925237 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
7925050 AACCCGCCCC
* *
7925060 TAAGTGATCTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* * * * * *
7925106 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA
* * *
7925152 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
7925199 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTC
7925238 AACCATCCTA
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.65
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Done.