Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 40 of 131
Found at i:8581525 original size:21 final size:21
Alignment explanation
Indices: 8581483--8581526 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8581473 GTTACTAGTA
* *
8581483 TTTTTGTTATAGTATAGCATG
1 TTTTTATTATAGTATAACATG
*
8581504 TTTTTATTATAGTATAATATG
1 TTTTTATTATAGTATAACATG
8581525 TT
1 TT
8581527 ATAATATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (21 bp):
TTTTTATTATAGTATAACATG
Found at i:8581547 original size:13 final size:13
Alignment explanation
Indices: 8581508--8581554 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
8581498 AGCATGTTTT
8581508 TATTATAGTATAA
1 TATTATAGTATAA
*
8581521 TATGTTATAATATAA
1 TA--TTATAGTATAA
*
8581536 TATTATAGTATAG
1 TATTATAGTATAA
8581549 TATTAT
1 TATTAT
8581555 TATTATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (13 bp):
TATTATAGTATAA
Found at i:8581604 original size:27 final size:24
Alignment explanation
Indices: 8581536--8581588 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
8581526 TATAATATAA
*
8581536 TATTATAGTATAGTAT-TA-TT-AT
1 TATTATAGTA-ATTATATAGTTCAT
8581558 TATTATAGTAATTATATAGTTCAT
1 TATTATAGTAATTATATAGTTCAT
8581582 TATTATA
1 TATTATA
8581589 TTATTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 4 0.15
22 12 0.44
23 2 0.07
24 9 0.33
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (24 bp):
TATTATAGTAATTATATAGTTCAT
Found at i:8582497 original size:12 final size:11
Alignment explanation
Indices: 8582447--8582493 Score: 58
Period size: 12 Copynumber: 4.0 Consensus size: 11
8582437 ATTTTTCATT
8582447 TTTATTTTTTTA
1 TTTA-TTTTTTA
8582459 TTCTATTTTTTA
1 TT-TATTTTTTA
*
8582471 TTTATTTATTCA
1 TTTATTT-TTTA
8582483 TTTATTTTTTA
1 TTTATTTTTTA
8582494 ATTTCATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 8 0.26
12 21 0.68
13 2 0.06
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:8582497 original size:20 final size:18
Alignment explanation
Indices: 8582431--8582517 Score: 72
Period size: 20 Copynumber: 4.6 Consensus size: 18
8582421 GAATTACAGG
*
8582431 TTTTTCATTT-TTCATTT
1 TTTTTTATTTATTCATTT
8582448 TTATTTT-TTTATTCTATTT
1 TT-TTTTATTTATTC-ATTT
8582467 TTTATTTATTTATTCATTT
1 TTT-TTTATTTATTCATTT
8582486 ATTTTTTAATTTCATAT-ATTT
1 -TTTTTT-ATTT-AT-TCATTT
8582507 TTATTTTATTT
1 TT-TTTTATTT
8582518 TACTGGTTTA
Statistics
Matches: 59, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
17 5 0.08
18 7 0.12
19 16 0.27
20 20 0.34
21 10 0.17
22 1 0.02
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTATTTATTCATTT
Found at i:8582509 original size:23 final size:22
Alignment explanation
Indices: 8582445--8582513 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
8582435 TCATTTTTCA
8582445 TTTTTATTT-T-T-TTATTCTAT
1 TTTTTATTTATATATTATT-TAT
*
8582465 TTTTTATTTATTTATTCATTTAT
1 TTTTTATTTATATATT-ATTTAT
8582488 TTTTTAATTTCATATATT-TTTAT
1 TTTTT-ATTT-ATATATTATTTAT
8582511 TTT
1 TTT
8582514 ATTTTACTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 9 0.21
21 1 0.02
22 1 0.02
23 18 0.43
24 7 0.17
25 6 0.14
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTTATTTATATATTATTTAT
Found at i:8586651 original size:17 final size:16
Alignment explanation
Indices: 8586628--8586669 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
8586618 TTAATATAAA
8586628 ATATAAATATCTTAAT
1 ATATAAATATCTTAAT
*
8586644 AGTATAAATATTTTAAT
1 A-TATAAATATCTTAAT
8586661 A-ATAAATAT
1 ATATAAATAT
8586670 TACTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 15 0.62
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
ATATAAATATCTTAAT
Found at i:8586857 original size:16 final size:16
Alignment explanation
Indices: 8586833--8586892 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
8586823 ATTATTCATG
8586833 AATATAATAATTTTAAT
1 AATA-AATAATTTTAAT
*
8586850 AATAAATAA-TTT--C
1 AATAAATAATTTTAAT
*
8586863 AAT--AT-ACTTTAAT
1 AATAAATAATTTTAAT
8586876 AATAAATAATTTTAAT
1 AATAAATAATTTTAAT
8586892 A
1 A
8586893 TTTGAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 13
0.68 0.06 0.26
Matches are distributed among these distances:
10 1 0.03
11 5 0.15
13 6 0.18
15 5 0.15
16 13 0.38
17 4 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATAATTTTAAT
Found at i:8586874 original size:26 final size:26
Alignment explanation
Indices: 8586844--8586893 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
8586834 ATATAATAAT
8586844 TTTAATAATAAATAATTTCAATATAC
1 TTTAATAATAAATAATTTCAATATAC
*
8586870 TTTAATAATAAATAATTTTAATAT
1 TTTAATAATAAATAATTTCAATAT
8586894 TTGAATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTAATAATAAATAATTTCAATATAC
Found at i:8586953 original size:24 final size:21
Alignment explanation
Indices: 8586909--8586956 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
8586899 TAGTTATATT
*
8586909 AATTTTTTTAAAAAAAGAAAC
1 AATTTTTTTAAAAAAACAAAC
8586930 AATTTTTTTAGAAAATAACCAAAC
1 AATTTTTTTA-AAAA-AA-CAAAC
8586954 AAT
1 AAT
8586957 AAAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 4 0.17
23 2 0.09
24 7 0.30
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (21 bp):
AATTTTTTTAAAAAAACAAAC
Found at i:8587999 original size:56 final size:56
Alignment explanation
Indices: 8587909--8588021 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
8587899 TGTTTTAAAC
* * *
8587909 TTTTAATTTTCCTATGACTTATGGTGTTTTATCTTCTTTTTTAGGGATGAGAAGGT
1 TTTTAATTTTCCTATAACTTATGGTGTTTCATCTTCTTTGTTAGGGATGAGAAGGT
* *
8587965 TTTTAATTTTCTTATAACTTATGGT-TTTCCATCTTCTTTGTTAGGGATGAGAGGGT
1 TTTTAATTTTCCTATAACTTATGGTGTTT-CATCTTCTTTGTTAGGGATGAGAAGGT
8588021 T
1 T
8588022 ATATAAATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 3 0.06
56 48 0.94
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.51
Consensus pattern (56 bp):
TTTTAATTTTCCTATAACTTATGGTGTTTCATCTTCTTTGTTAGGGATGAGAAGGT
Found at i:8593109 original size:57 final size:57
Alignment explanation
Indices: 8593034--8593191 Score: 226
Period size: 58 Copynumber: 2.7 Consensus size: 57
8593024 TTTATATAAG
8593034 AAAAATTGATACTTTCAACTTTTCCTTAAAATTTTTTTTTTAATTTTTACTTTAAAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAATTTTTTTTTTAATTTTTACTTTAAAA
* * * * *
8593091 AAAAATTGATACTTTCAACTTTTTCTTTAAAATATTTTTTTTAATTTTTATTTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTCCTTAAAATTTTTTTTTTAATTTTTACTTTAAAA
* *
8593149 AAAAATTGATACTTTTAACTTTTCCTCAAAAATGTTTTTTTTT
1 AAAAATTGATACTTTCAACTTTTCCT-TAAAAT-TTTTTTTTT
8593192 GTTTAAATTT
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
57 25 0.28
58 56 0.63
59 8 0.09
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAATTTTTTTTTTAATTTTTACTTTAAAA
Found at i:8594309 original size:16 final size:16
Alignment explanation
Indices: 8594288--8594320 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8594278 TAAAACCCAG
8594288 AATAAAAGT-AAAATAA
1 AATAAAA-TAAAAATAA
8594304 AATAAAATAAAAATAA
1 AATAAAATAAAAATAA
8594320 A
1 A
8594321 CAGTTGGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AATAAAATAAAAATAA
Found at i:8594589 original size:43 final size:41
Alignment explanation
Indices: 8594533--8594743 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 41
8594523 TTTATTAAAC
* * * *
8594533 AAAGCTTCTCTAAATAGAGGCTCAACAACTTTCGAAAATAAA
1 AAAGCTCCTCTAAATAGAGGCACAACGACTTT-GAAAATATA
* * * *
8594575 CAAAGCTCTTCTAAACAGAGGCTCAATGACTTTGTGAAAA-ATA
1 -AAAGCTCCTCTAAATAGAGGCACAACGAC-TT-TGAAAATATA
*
8594618 AATGCTCCTCTAAATAGAGGCACAACGACTTTGAAAA-ATA
1 AAAGCTCCTCTAAATAGAGGCACAACGACTTTGAAAATATA
* *
8594658 AAAGCTCATCTAAACAGAGGCACAACGACTTTGAAAAT-TA
1 AAAGCTCCTCTAAATAGAGGCACAACGACTTTGAAAATATA
* * *
8594698 AAAGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAAAATA
1 AAAGCTCCTCTAAATAGAGGCACAACGACTTTG-AAAATATA
8594740 AAAG
1 AAAG
8594744 GCTCATTGAC
Statistics
Matches: 144, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
40 74 0.51
41 6 0.04
42 30 0.21
43 26 0.18
44 7 0.05
45 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (41 bp):
AAAGCTCCTCTAAATAGAGGCACAACGACTTTGAAAATATA
Found at i:8594729 original size:80 final size:82
Alignment explanation
Indices: 8594533--8594749 Score: 276
Period size: 80 Copynumber: 2.6 Consensus size: 82
8594523 TTTATTAAAC
* * * * *
8594533 AAAGCTTCTCTAAATAGAGGCTCAACAACTTTCGAAAATAAACAAAGCTCTTCTAAACAGAGGCT
1 AAAGCTCCTCTAAATAGAGGCACAACAACTTT-GAAAA-ATA-AAAGCTCATCTAAACAGAGGCA
*
8594598 CAATGACTTTGTGAAAAATA
63 CAACGACTTTGTGAAAAATA
* *
8594618 AATGCTCCTCTAAATAGAGGCACAACGACTTTGAAAAATAAAAGCTCATCTAAACAGAGGCACAA
1 AAAGCTCCTCTAAATAGAGGCACAACAACTTTGAAAAATAAAAGCTCATCTAAACAGAGGCACAA
*
8594683 CGAC-TT-TGAAAATTA
66 CGACTTTGTGAAAAATA
*
8594698 AAAGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAAAATAAAAGGCTCAT
1 AAAGCTCCTCTAAATAGAGGCACAACAACTTTG--AAAAATAAAA-GCTCAT
8594750 TGACAATCAT
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
80 38 0.32
81 2 0.02
82 36 0.31
83 8 0.07
84 5 0.04
85 28 0.24
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (82 bp):
AAAGCTCCTCTAAATAGAGGCACAACAACTTTGAAAAATAAAAGCTCATCTAAACAGAGGCACAA
CGACTTTGTGAAAAATA
Found at i:8595310 original size:46 final size:46
Alignment explanation
Indices: 8595243--8595564 Score: 346
Period size: 46 Copynumber: 6.9 Consensus size: 46
8595233 GATTTTACAT
* * *
8595243 CTCAAAGATTTTCATTTGAAAATGACTTAAAGGTTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
* * *
8595289 CTCAAAGATACTCATTTGAAAATGTCTTAAAGATTCTCATGTGAAAATA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT-T--TAAGA
* *
8595338 TCTTAAAAATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
1 -CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
** * * *
8595385 CTCAAAGATTCTCATTTGAAAACATATTAAAGATTTTCATTTAAAA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
* * *
8595431 CTTAAATATTCTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
* ** * *
8595477 CTCAAAGATTTTCATTTGAAAACATCTTAAAGATTTTCATTTGAAAATGT
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT---AA-GA
*
8595527 CTTAAAGATTCTCATTTG-AAA---CTTAAAGATTCTCATTT
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT
8595565 GAAAACATCT
Statistics
Matches: 231, Mismatches: 37, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
46 164 0.71
47 4 0.02
49 9 0.04
50 54 0.23
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (46 bp):
CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
Found at i:8595520 original size:163 final size:163
Alignment explanation
Indices: 8595317--8595616 Score: 494
Period size: 163 Copynumber: 1.8 Consensus size: 163
8595307 AAAATGTCTT
*
8595317 AAAGATTCTCATGTGAAAATATCTTAAAAATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT-
1 AAAGATTCTCATGTGAAAACATCTTAAAAATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTG
* *
8595381 AAGACTCAAAGATTCTCATTTGAAAACATATTAAAGATTTTCATTTAAAACTTAAATATTCTCAT
66 AA-ACTCAAAGATTCTCATTTGAAAACATATTAAAGATTTTCATTTAAAACTCAAAGATTCTCAT
8595446 TTGAAAATGTCTTAAAAATTCTCATTTAAGACTC
130 TTGAAAATGTCTTAAAAATTCTCATTTAAGACTC
* * * *
8595480 AAAGATTTTCATTTGAAAACATCTTAAAGATTTTCATTTGAAAATGTCTTAAAGATTCTCATTTG
1 AAAGATTCTCATGTGAAAACATCTTAAAAATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTG
* * *
8595545 AAACTTAAAGATTCTCATTTGAAAACATCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATT
66 AAACTCAAAGATTCTCATTTGAAAACATATTAAAGATTTTCATTTAAAACTCAAAGATTCTCATT
8595610 TGAAAAT
131 TGAAAAT
8595617 TTAGGACTTC
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
163 124 0.98
164 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (163 bp):
AAAGATTCTCATGTGAAAACATCTTAAAAATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTG
AAACTCAAAGATTCTCATTTGAAAACATATTAAAGATTTTCATTTAAAACTCAAAGATTCTCATT
TGAAAATGTCTTAAAAATTCTCATTTAAGACTC
Found at i:8595565 original size:46 final size:47
Alignment explanation
Indices: 8595246--8595615 Score: 295
Period size: 46 Copynumber: 7.9 Consensus size: 47
8595236 TTTACATCTC
* * * *
8595246 AAAGATTTTCATTTGAAAATGACTTAAAGGTTCTCATTT---AAGACTC
1 AAAGATTCTCATTTGAAAAT--CTTAAAGATTCTCATTTGAAAAGTCTT
* * *
8595292 AAAGATACTCATTTGAAAATGTCTTAAAGATTCTCATGTGAAAATATCTT
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTGAAAA-GTCTT
* * *
8595342 AAAAATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT---AAGACTC
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTGAAAAGTCTT
* *
8595388 AAAGATTCTCATTTGAAAACATATTAAAGATTTTCATTT-AAAA--CTT
1 AAAGATTCTCATTTG-AAA-ATCTTAAAGATTCTCATTTGAAAAGTCTT
* * * *
8595434 AAATATTCTCATTTGAAAATGTCTTAAAAATTCTCATTT---AAGACTC
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTGAAAAGTCTT
* *
8595480 AAAGATTTTCATTTGAAAACATCTTAAAGATTTTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTG-AAA-ATCTTAAAGATTCTCATTTGAAAA-GTCTT
*
8595530 AAAGATTCTCATTTG-AAA-CTTAAAGATTCTCATTTGAAAACATCTT
1 AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTGAAAA-GTCTT
* * *
8595576 AAAGATTTTCATTT-AAGA-CTCAAAGATTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTGAAAA
8595616 TTTAGGACTT
Statistics
Matches: 268, Mismatches: 35, Indels: 42
0.78 0.10 0.12
Matches are distributed among these distances:
44 3 0.01
45 3 0.01
46 187 0.70
47 9 0.03
48 7 0.03
49 4 0.01
50 55 0.21
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (47 bp):
AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTGAAAAGTCTT
Found at i:8595594 original size:117 final size:116
Alignment explanation
Indices: 8595243--8595615 Score: 402
Period size: 117 Copynumber: 3.2 Consensus size: 116
8595233 GATTTTACAT
* * * * * *
8595243 CTCAAAGATTTTCATTTGAAAATGA-CTTAAAGGTTCTCATTT---AAGACTCAAAGATACTCAT
1 CTCAAAGATTCTCATTTGAAAA-CATCTTAAAGATTCTCATTTGAAAAGTCTTAAAGATTCTCAT
* *
8595304 TTGAAAATGTCTTAAAGATTCTCATGTGAAAATATCTTAAAAATTCTCATTTGAAAATGT
65 TTG-AAA---CTTAAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTT---AA-GA
* * * * *
8595364 CTTAAAGATTCTCATTT-AAGAC-TC--AAAGATTCTCATTTGAAAACATATTAAAGATTTTCAT
1 CTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTGAAAA-GTCTTAAAGATTCTCAT
* * *
8595425 TTAAAACTTAAATATTCTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGA
65 TTGAAACTTAAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAGA
* *
8595477 CTCAAAGATTTTCATTTGAAAACATCTTAAAGATTTTCATTTGAAAATGTCTTAAAGATTCTCAT
1 CTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTGAAAA-GTCTTAAAGATTCTCAT
* * *
8595542 TTGAAACTTAAAGATTCTCATTTGAAAACATCTTAAAGATTTTCATTTAAGA
65 TTGAAACTTAAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAGA
8595594 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
8595616 TTTAGGACTT
Statistics
Matches: 212, Mismatches: 31, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
113 16 0.08
114 6 0.03
115 2 0.01
117 151 0.71
119 1 0.00
120 8 0.04
121 28 0.13
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.38
Consensus pattern (116 bp):
CTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTGAAAAGTCTTAAAGATTCTCATT
TGAAACTTAAAGATTCTCATTTGAAAATATCTTAAAAATTCTCATTTAAGA
Found at i:8596863 original size:9 final size:9
Alignment explanation
Indices: 8596844--8597015 Score: 136
Period size: 9 Copynumber: 18.4 Consensus size: 9
8596834 TTTTCTCTCA
8596844 TTTTCATATT
1 TTTTCAT-TT
8596854 TTTTCCATTT
1 TTTT-CATTT
*
8596864 TTTTTATTT
1 TTTTCATTT
*
8596873 TTTTTATTT
1 TTTTCATTT
*
8596882 TTTTTATTT
1 TTTTCATTT
8596891 TTTTCATTT
1 TTTTCATTT
8596900 TTTTCATTT
1 TTTTCATTT
8596909 TTTTCATTT
1 TTTTCATTT
8596918 TTTTCA--T
1 TTTTCATTT
8596925 TTTTCATTT
1 TTTTCATTT
8596934 TTTCTC-TTT
1 TTT-TCATTT
*** *
8596943 CCCTCTTTTT
1 TTTTC-ATTT
*
8596953 TTTTCTTTT
1 TTTTCATTT
8596962 TTTTC-TCTT
1 TTTTCAT-TT
* *
8596971 TCATTCTTTT
1 T-TTTCATTT
8596981 TTTCTCATCTT
1 TTT-TCAT-TT
8596992 TTTTCATTTT
1 TTTTCA-TTT
8597002 TTTTCATCTT
1 TTTTCAT-TT
8597012 TTTT
1 TTTT
8597016 ATCTCTTTTT
Statistics
Matches: 138, Mismatches: 11, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
7 7 0.05
8 3 0.02
9 75 0.54
10 43 0.31
11 10 0.07
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCATTT
Found at i:8596874 original size:27 final size:25
Alignment explanation
Indices: 8596844--8596936 Score: 74
Period size: 25 Copynumber: 3.8 Consensus size: 25
8596834 TTTTCTCTCA
8596844 TTTTCATATTTTTTCCATTTTTTTTAT
1 TTTTCAT-TTTTTT-CATTTTTTTTAT
* *
8596871 TTTT--TTTATTT--TTTTTATT-T
1 TTTTCATTTTTTTCATTTTTTTTAT
*
8596891 TTTTCATTTTTTTCATTTTTTTCAT
1 TTTTCATTTTTTTCATTTTTTTTAT
8596916 TTTT--TTCATTTTTCATTTTTT
1 TTTTCATT--TTTTTCATTTTTT
8596937 CTCTTTCCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
20 5 0.09
21 7 0.13
22 6 0.11
23 2 0.04
24 11 0.20
25 19 0.35
27 4 0.07
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTCATTTTTTTCATTTTTTTTAT
Found at i:8596952 original size:25 final size:25
Alignment explanation
Indices: 8596898--8596953 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
8596888 TTTTTTTCAT
***
8596898 TTTTTTCATTTTTTTCATTTTTTTC
1 TTTTTTCATTTTTTTCATTTCCCTC
*
8596923 ATTTTTCATTTTTTCTC-TTTCCCTC
1 TTTTTTCATTTTTT-TCATTTCCCTC
8596948 TTTTTT
1 TTTTTT
8596954 TTTCTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTTCATTTTTTTCATTTCCCTC
Found at i:8596961 original size:8 final size:8
Alignment explanation
Indices: 8596880--8596985 Score: 65
Period size: 8 Copynumber: 13.1 Consensus size: 8
8596870 TTTTTTTTAT
*
8596880 TTTTTTTA
1 TTTTTTTC
8596888 TTTTTTTC
1 TTTTTTTC
8596896 ATTTTTTTC
1 -TTTTTTTC
8596905 ATTTTTTTC
1 -TTTTTTTC
8596914 ATTTTTTTC
1 -TTTTTTTC
*
8596923 -ATTTTTC
1 TTTTTTTC
*
8596930 ATTTTTTC
1 TTTTTTTC
* **
8596938 TCTTTCCC
1 TTTTTTTC
8596946 TCTTTTTT-
1 T-TTTTTTC
*
8596954 TTTCTTT-
1 TTTTTTTC
*
8596961 TTTTTCTC
1 TTTTTTTC
**
8596969 TTTCATTC
1 TTTTTTTC
8596977 TTTTTTTC
1 TTTTTTTC
8596985 T
1 T
8596986 CATCTTTTTT
Statistics
Matches: 76, Mismatches: 18, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
7 16 0.21
8 31 0.41
9 29 0.38
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTTC
Found at i:8596983 original size:20 final size:20
Alignment explanation
Indices: 8596958--8597012 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
8596948 TTTTTTTTTC
8596958 TTTTTTTTC-TCTTTCATTC-
1 TTTTTTTTCATCTTT-ATTCA
*
8596977 TTTTTTTCTCATCTTTTTTCA
1 TTTTTTT-TCATCTTTATTCA
8596998 TTTTTTTTCATCTTT
1 TTTTTTTTCATCTTT
8597013 TTTATCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.22
20 13 0.41
21 12 0.38
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTTTCATCTTTATTCA
Found at i:8600951 original size:59 final size:58
Alignment explanation
Indices: 8600852--8601133 Score: 352
Period size: 59 Copynumber: 4.8 Consensus size: 58
8600842 GCTTTTATAT
* * *
8600852 AAGAAAATTGATATTTTCAACTTTTCCT-CAAAATACTTTTTTTGAAAATTTTTTTTTCA
1 AAGAAAATTGATACTTTCAACTTTTCCTAAAAAATA-TTTTTTT-AAAATTTTTATTTCA
* ** *
8600911 AAGAAAATTGATACTTTCAACTTTTCCTAAAAAATTTTTTTTTTTTAAGTTTTATTTCA
1 AAGAAAATTGATACTTTCAACTTTTCCTAAAAAA-TATTTTTTTAAAATTTTTATTTCA
*
8600970 AGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTAAAATTTTTATTTTCA
1 AAGAAAATTGATACTTTCAACTTTTCC-TAAAAA-ATATTTTTTTAAAATTTTTA-TTTCA
* ** * *
8601031 AGGAAAATAAATACTTTCAACTTTTCCTTAAAAATGGTTTTTTTAAAATTTTTATTT-A
1 AAGAAAATTGATACTTTCAACTTTTCCTAAAAAAT-ATTTTTTTAAAATTTTTATTTCA
* *
8601089 AAAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTAA
1 AAGAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTTAA
8601134 CAAAATTTTT
Statistics
Matches: 196, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
57 9 0.05
58 32 0.16
59 69 0.35
60 54 0.28
61 32 0.16
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (58 bp):
AAGAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTTAAAATTTTTATTTCA
Found at i:8601111 original size:119 final size:119
Alignment explanation
Indices: 8600855--8601149 Score: 389
Period size: 120 Copynumber: 2.5 Consensus size: 119
8600845 TTTATATAAG
* * *
8600855 AAAATTGATATTTTCAACTTTTCC-TCAAAATACTTTTTTTGAAAATTTTT-TTTTCAAAGAAAA
1 AAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTTTTTTCAAAATTTTTATTTTCAAAGAAAA
** ** ** **
8600918 TTGATACTTTCAACTTTTCCTAAAAAATTTTTTTTTTTTAAGTTTTATTTCAAGG
65 TAAATACTTTCAACTTTTCCTAAAAAATGGTTTTTTTAAAAGTTTTATTTCAAAA
* *
8600973 AAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTAAAATTTTTATTTTCAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCTTAAAAATAT-TTTTTTCAAAATTTTTATTTTCAAAGAAAA
* *
8601038 TAAATACTTTCAACTTTTCCTTAAAAATGGTTTTTTTAAAATTTTTATTT-AAAA
65 TAAATACTTTCAACTTTTCCTAAAAAATGGTTTTTTTAAAAGTTTTATTTCAAAA
8601092 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTAACAAAATTTTTAATTTT
1 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT--CAAAATTTTT-ATTTT
8601150 TATTCAAAGA
Statistics
Matches: 156, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
118 30 0.19
119 58 0.37
120 63 0.40
121 5 0.03
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.49
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTCAAAATTTTTATTTTCAAAGAAAAT
AAATACTTTCAACTTTTCCTAAAAAATGGTTTTTTTAAAAGTTTTATTTCAAAA
Found at i:8602257 original size:15 final size:16
Alignment explanation
Indices: 8602197--8602258 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
8602187 ACTTTAAAAT
*
8602197 AATAAAAG-AAATCAA
1 AATAAAAGCAAATAAA
*
8602212 AATAAAAACCAGAATAAA
1 AAT-AAAAGCA-AATAAA
**
8602230 AATAAAATAAAAT-AA
1 AATAAAAGCAAATAAA
8602245 AATAAAAGCAAATA
1 AATAAAAGCAAATA
8602259 GTTGGGCCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
15 16 0.43
16 7 0.19
17 6 0.16
18 8 0.22
ACGTcount: A:0.74, C:0.06, G:0.05, T:0.15
Consensus pattern (16 bp):
AATAAAAGCAAATAAA
Found at i:8604451 original size:25 final size:24
Alignment explanation
Indices: 8604422--8604470 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8604412 TGATTGTTAT
*
8604422 TTTAATTT-TTTAATTTCTTTTTAAA
1 TTTAATTTATTT--TTTATTTTTAAA
8604447 TTTAATTTATTTTTTATTTTTAAA
1 TTTAATTTATTTTTTATTTTTAAA
8604471 GAACTAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 8 0.36
26 3 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTAATTTATTTTTTATTTTTAAA
Found at i:8605168 original size:20 final size:21
Alignment explanation
Indices: 8605126--8605168 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
8605116 TTCTTTTTTT
* *
8605126 TTTTTTGCATTTTTAATATTG
1 TTTTTTGCATTTTTAACAATG
*
8605147 TTTTTTGTA-TTTTAACAATG
1 TTTTTTGCATTTTTAACAATG
8605167 TT
1 TT
8605169 GATGATGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.65
Consensus pattern (21 bp):
TTTTTTGCATTTTTAACAATG
Found at i:8605371 original size:11 final size:11
Alignment explanation
Indices: 8605355--8605379 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8605345 GTAACGGGTA
8605355 TTTTTTCTTTT
1 TTTTTTCTTTT
8605366 TTTTTTCTTTT
1 TTTTTTCTTTT
8605377 TTT
1 TTT
8605380 GATGTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:8610326 original size:10 final size:9
Alignment explanation
Indices: 8610304--8610364 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 9
8610294 CTCCAAAGTG
8610304 GAAGAAA-A
1 GAAGAAATA
8610312 GAAGAAACTA
1 GAAGAAA-TA
8610322 GAAGAAA-A
1 GAAGAAATA
* *
8610330 AAAGAAAGTG
1 GAAGAAA-TA
8610340 GAAGAAA-A
1 GAAGAAATA
8610348 GAAGAAACTA
1 GAAGAAA-TA
8610358 GAAGAAA
1 GAAGAAA
8610365 AAAAGAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 21 0.49
10 22 0.51
ACGTcount: A:0.67, C:0.03, G:0.25, T:0.05
Consensus pattern (9 bp):
GAAGAAATA
Found at i:8610379 original size:18 final size:18
Alignment explanation
Indices: 8610298--8610391 Score: 116
Period size: 18 Copynumber: 5.2 Consensus size: 18
8610288 TGAAAACTCC
*
8610298 AAAGTGGAAGAAAAGAAG
1 AAAGTGGAAGAAAAAAAG
* *
8610316 AAACTAGAAGAAAAAAAG
1 AAAGTGGAAGAAAAAAAG
*
8610334 AAAGTGGAAGAAAAGAAG
1 AAAGTGGAAGAAAAAAAG
* *
8610352 AAACTAGAAGAAAAAAAG
1 AAAGTGGAAGAAAAAAAG
* *
8610370 AAAGGGGAAGAAAAACAG
1 AAAGTGGAAGAAAAAAAG
8610388 AAAG
1 AAAG
8610392 CTGACGAACA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.66, C:0.03, G:0.27, T:0.04
Consensus pattern (18 bp):
AAAGTGGAAGAAAAAAAG
Found at i:8610390 original size:36 final size:36
Alignment explanation
Indices: 8610298--8610383 Score: 163
Period size: 36 Copynumber: 2.4 Consensus size: 36
8610288 TGAAAACTCC
8610298 AAAGTGGAAGAAAAGAAGAAACTAGAAGAAAAAAAG
1 AAAGTGGAAGAAAAGAAGAAACTAGAAGAAAAAAAG
8610334 AAAGTGGAAGAAAAGAAGAAACTAGAAGAAAAAAAG
1 AAAGTGGAAGAAAAGAAGAAACTAGAAGAAAAAAAG
*
8610370 AAAGGGGAAGAAAA
1 AAAGTGGAAGAAAA
8610384 ACAGAAAGCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.66, C:0.02, G:0.27, T:0.05
Consensus pattern (36 bp):
AAAGTGGAAGAAAAGAAGAAACTAGAAGAAAAAAAG
Found at i:8619480 original size:19 final size:19
Alignment explanation
Indices: 8619456--8619502 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
8619446 TCAAATTTAA
8619456 AAATTAATAAAGACTCATG
1 AAATTAATAAAGACTCATG
* *
8619475 AAATTAATCAATACTCATG
1 AAATTAATAAAGACTCATG
*
8619494 AAATCAATA
1 AAATTAATA
8619503 TGTAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATTAATAAAGACTCATG
Found at i:8620217 original size:51 final size:52
Alignment explanation
Indices: 8620156--8620257 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
8620146 ATTTTTCTAA
* *
8620156 AAAAAAGTAGAGA-TTTTTATTATTTGAATAAGTCAATAAAAAATAATTTTT
1 AAAAAAGTAGAGATTTTTTATTATTTGAATAAATCAATAAAAAAAAATTTTT
* *
8620207 AAAAAAGTAGAGATTTTTTATTGTTTGAATAAATTAATAAAAAAAAATTTT
1 AAAAAAGTAGAGATTTTTTATTATTTGAATAAATCAATAAAAAAAAATTTT
8620258 AGAAATTTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 13 0.28
52 33 0.72
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (52 bp):
AAAAAAGTAGAGATTTTTTATTATTTGAATAAATCAATAAAAAAAAATTTTT
Found at i:8620970 original size:25 final size:25
Alignment explanation
Indices: 8620941--8621023 Score: 96
Period size: 25 Copynumber: 3.2 Consensus size: 25
8620931 TAATATTTAA
8620941 TTATATTAATTTTATATTTTTT-TT
1 TTATATTAATTTTATATTTTTTCTT
8620965 CTTATATTAATTTTATATTTTTTCTT
1 -TTATATTAATTTTATATTTTTTCTT
* *
8620991 TTAATTATTAATTATTAAATTTTTAACTT
1 TT-A-TATTAATT-TTATATTTTT-TCTT
8621020 TTAT
1 TTAT
8621024 CAATTAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
25 24 0.47
26 3 0.06
27 9 0.18
28 10 0.20
29 5 0.10
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATATTAATTTTATATTTTTTCTT
Found at i:8621341 original size:158 final size:155
Alignment explanation
Indices: 8621122--8621441 Score: 402
Period size: 158 Copynumber: 2.0 Consensus size: 155
8621112 TAATATATCA
8621122 AATAATTTTAATATCATGAATTCAATACATAAAATTTTTTTAAATTAAAATTTCATTTTTTAATG
1 AATAATTTTAATATCATGAATTCAATACAT-AAATTTTTTTAAATTAAAATTTCATTTTTTAATG
* * *
8621187 TTTAATTTGTTTAATATATCCGATA-C-TA-C-CTTTATGTGAAAAAAGAAAAAGATGATGCCTT
65 TTTAATTTATTTAATATATCCAATACCATACCACTTTACGTG-AAAAAGAAAAAGATGATGCC-T
8621248 GAGT-TTGGGCAGGCAAAATCCAACAGGC
128 -AGTGTTGGGCAGGCAAAATCCAACAGGC
* *
8621276 AATAATTTTAATATCAT-AATTCGATACAT-AATTTTTGTTAAATTAAAATTAAAATTATGTTTT
1 AATAATTTTAATATCATGAATTCAATACATAAATTTTT-TTAAATTAAAATT----TCA--TTTT
8621339 TTAATGTTTAATTTATTTAATATATCCAATACCAGTATACCATCTTTACGTGAAAAAGAAAAAGA
59 TTAATGTTTAATTTATTTAATATATCCAATACC---ATACCA-CTTTACGTGAAAAAGAAAAAGA
*
8621404 TGATGCCTAGTGTTGGGTAGGCAAAATCCAACAGGC
120 TGATGCCTAGTGTTGGGCAGGCAAAATCCAACAGGC
8621440 AA
1 AA
8621442 GTGGGAAGCG
Statistics
Matches: 144, Mismatches: 6, Indels: 22
0.84 0.03 0.13
Matches are distributed among these distances:
151 7 0.05
152 13 0.09
153 11 0.08
154 17 0.12
156 2 0.01
158 33 0.23
159 1 0.01
163 5 0.03
164 27 0.19
165 20 0.14
166 8 0.06
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (155 bp):
AATAATTTTAATATCATGAATTCAATACATAAATTTTTTTAAATTAAAATTTCATTTTTTAATGT
TTAATTTATTTAATATATCCAATACCATACCACTTTACGTGAAAAAGAAAAAGATGATGCCTAGT
GTTGGGCAGGCAAAATCCAACAGGC
Found at i:8625976 original size:39 final size:39
Alignment explanation
Indices: 8625933--8626009 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
8625923 TAGATTCCAT
* *
8625933 AAAC-TATTT-AAAAATATTTTTTTTGTTTCTTTGTTTTTC
1 AAACTTATTTGAAAAAT-TTTTTTTT-ATTCTTTCTTTTTC
*
8625972 AAACTTATTTGAAAAGTTTTTTTTTATTCTTTCTTTTT
1 AAACTTATTTGAAAAATTTTTTTTTATTCTTTCTTTTT
8626010 TATTCGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 15 0.45
40 13 0.39
41 5 0.15
ACGTcount: A:0.25, C:0.08, G:0.05, T:0.62
Consensus pattern (39 bp):
AAACTTATTTGAAAAATTTTTTTTTATTCTTTCTTTTTC
Found at i:8626111 original size:17 final size:18
Alignment explanation
Indices: 8626080--8626140 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
8626070 GAAAACCAGT
*
8626080 AAAATTAAATAAAAAATG
1 AAAATAAAATAAAAAATG
8626098 AAAATAAAATAAAAAACTTAAG
1 AAAATAAAATAAAAAA--T--G
*
8626120 AAAATAAAAT-TAAAATG
1 AAAATAAAATAAAAAATG
8626137 AAAA
1 AAAA
8626141 GGAAAAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 5 0.14
18 15 0.41
19 1 0.03
20 1 0.03
21 4 0.11
22 11 0.30
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAATAAAATAAAAAATG
Found at i:8626500 original size:12 final size:12
Alignment explanation
Indices: 8626483--8626507 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8626473 CAACCGATTG
8626483 TCAAAAAATTCA
1 TCAAAAAATTCA
8626495 TCAAAAAATTCA
1 TCAAAAAATTCA
8626507 T
1 T
8626508 GTTCTTCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
TCAAAAAATTCA
Found at i:8627015 original size:3 final size:3
Alignment explanation
Indices: 8627009--8627057 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
8626999 AAGAAAAAAA
* * *
8627009 AAT AAT AAT -AT GAT -AT TAT AAT AAT AAT AAT AAC AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8627054 AAT A
1 AAT A
8627058 CTATAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:8627051 original size:14 final size:14
Alignment explanation
Indices: 8627032--8627065 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8627022 TATTATAATA
8627032 ATAATAATAACAAT
1 ATAATAATAACAAT
* *
8627046 ATAATAATAATACT
1 ATAATAATAACAAT
8627060 ATAATA
1 ATAATA
8627066 TATACTATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAATAACAAT
Found at i:8627101 original size:22 final size:22
Alignment explanation
Indices: 8627038--8627101 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
8627028 AATAATAATA
*
8627038 ATAACA-ATATAATAATAATACT
1 ATAACATATCTAATAAT-ATACT
* *
8627060 ATAATATATACT-ATACTATACT
1 ATAACATAT-CTAATAATATACT
*
8627082 TTAACATATCTAATAATATA
1 ATAACATATCTAATAATATA
8627102 ATAATATACT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 24 0.73
23 6 0.18
24 1 0.03
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAACATATCTAATAATATACT
Found at i:8627640 original size:121 final size:119
Alignment explanation
Indices: 8627443--8627707 Score: 273
Period size: 121 Copynumber: 2.2 Consensus size: 119
8627433 AACCAAGATA
* * * * **
8627443 AAATCATGAGTCAAAAAATGATCTGGATAGAGCTGAGATCGAATTACAAGGACGAAACTATGAGT
1 AAATCATGAGTCAAAAAATGATCTGGATAGAGCCGAGATCAAATGACAAGGACGAAACCACAAGT
* * * * * *
8627508 CTAAAAGATAAAACTATC-AAGATCGAGTCGAGATTGAAAATGATTGATCGGGATG
66 CTAAAAAAT-AAACTAACTAAGATCGAGTCAAGA-TAAAAATGACTGATCGGGACG
* * * * *
8627563 AAATTATGAGTCAAAATAATGATTTGGATTGAGCCGAGATCAAATGAC-CGAGATGAAACCACAA
1 AAATCATGAGTCAAAA-AATGATCTGGATAGAGCCGAGATCAAATGACAAG-GACGAAACCACAA
* *
8627627 GTCTAAAAAATAAAGTAACTAAGATCGAGTCAAGATAAAAATGACTGATTGGGACG
64 GTCTAAAAAATAAACTAACTAAGATCGAGTCAAGATAAAAATGACTGATCGGGACG
* * *
8627683 AAACCACGAGTCAGAAAAGTGATCT
1 AAATCATGAGTCA-AAAAATGATCT
8627708 AGCCTAAGCC
Statistics
Matches: 117, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
120 55 0.47
121 62 0.53
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.22
Consensus pattern (119 bp):
AAATCATGAGTCAAAAAATGATCTGGATAGAGCCGAGATCAAATGACAAGGACGAAACCACAAGT
CTAAAAAATAAACTAACTAAGATCGAGTCAAGATAAAAATGACTGATCGGGACG
Found at i:8628573 original size:10 final size:9
Alignment explanation
Indices: 8628539--8628631 Score: 55
Period size: 9 Copynumber: 10.1 Consensus size: 9
8628529 AATCTAAGTC
8628539 TCTTTTTTT
1 TCTTTTTTT
*
8628548 T-TTCTTATT
1 TCTT-TTTTT
*
8628557 ACTTTTTTT
1 TCTTTTTTT
8628566 TCCTTTTTTT
1 T-CTTTTTTT
**
8628576 TCAATTTTT
1 TCTTTTTTT
8628585 TCTTTTTTT
1 TCTTTTTTT
* *
8628594 T-TGTTTCTC
1 TCT-TTTTTT
*
8628603 TCTTTTTTG
1 TCTTTTTTT
*
8628612 GCTTTTTTT
1 TCTTTTTTT
*
8628621 TGTATTTTTT
1 TCT-TTTTTT
8628631 T
1 T
8628632 ACATAACTTT
Statistics
Matches: 62, Mismatches: 16, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
8 3 0.05
9 40 0.65
10 19 0.31
ACGTcount: A:0.05, C:0.12, G:0.04, T:0.78
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:8635664 original size:6 final size:5
Alignment explanation
Indices: 8635614--8635676 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
8635604 TAAAAAATTG
*
8635614 AAAAT AAAAT AAAA- AATTAAG AAAAT AGAAAT -AAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AA--AAT AAAAT A-AAAT AAAAT AAAAT AAAAT
*
8635660 -CAA- AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
8635677 ATGAAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
4 10 0.21
5 30 0.62
6 6 0.12
7 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:8635684 original size:18 final size:18
Alignment explanation
Indices: 8635594--8635676 Score: 73
Period size: 19 Copynumber: 4.6 Consensus size: 18
8635584 TTAAAACCAG
*
8635594 TAAAATTAAAT-AAAAAA
1 TAAAATAAAATCAAAAAA
8635611 TTGAAAATAAAAT-AAAAAA
1 -T-AAAATAAAATCAAAAAA
* * *
8635630 T-TAAGAAAATAGAAATAAA
1 TAAAATAAAAT-CAAA-AAA
8635649 TAAAATAAAATCAAAAAA
1 TAAAATAAAATCAAAAAA
8635667 TAAAATAAAA
1 TAAAATAAAA
8635677 ATGAAAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.13
18 18 0.33
19 22 0.41
20 7 0.13
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (18 bp):
TAAAATAAAATCAAAAAA
Found at i:8637868 original size:14 final size:13
Alignment explanation
Indices: 8637842--8637892 Score: 66
Period size: 14 Copynumber: 3.7 Consensus size: 13
8637832 ATAAAGAGGG
*
8637842 AAAAAAAATGAAA
1 AAAAAAAAAGAAA
8637855 AAATAAAAAAGAAA
1 AAA-AAAAAAGAAA
8637869 AAAAAAACAAGAAA
1 AAAAAAA-AAGAAA
8637883 AAAAACAAAA
1 AAAAA-AAAA
8637893 AAATAGACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
13 7 0.21
14 25 0.74
15 2 0.06
ACGTcount: A:0.86, C:0.04, G:0.06, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:8639167 original size:118 final size:120
Alignment explanation
Indices: 8638879--8639540 Score: 372
Period size: 121 Copynumber: 5.5 Consensus size: 120
8638869 TGATCTTGGT
* * * *
8638879 TCAG-TTCAAATCATTTCTTATGACTCATGGTTTTATCCCAGTCATTTATTTTCGACCTCGACTC
1 TCAGTTTCAGATCATTTCTTATGACTCGTGGTTTCATCCCAGTCATTTATTTTCGACCTTGACTC
* * * *
8638943 AGTCCTGATCGTTCCATTTTTTACTCATGATTTTATCTCGATCACCTGATCTTGGC
66 AGTCCTGATCATTCCA-TTTTGACTCATGATTTTATCTCGATCACCTGATCATAGC
* **
8638999 TCAGTTTCAGATCATTTCTTATGACTCGTGGTTCCATCTTAGTCATTTATTTTCGACCTTGACT-
1 TCAGTTTCAGATCATTTCTTATGACTCGTGGTTTCATCCCAGTCATTTATTTTCGACCTTGACTC
* * * * *
8639063 TGATCGTGATCATGT-CA-TTTGACTCATGATTTTGT-TCCGGTCACTTGATCATAGC
66 AG-TCCTGATCAT-TCCATTTTGACTCATGATTTTATCT-CGATCACCTGATCATAGC
* * * * * *
8639118 TCAGTTT-ATATTATTTCTTATGACTTGTGGTTTCATCCCGGTCATTTATTTTCTACCTTAACTC
1 TCAGTTTCAGATCATTTCTTATGACTCGTGGTTTCATCCCAGTCATTTATTTTCGACCTTGACTC
* * * * * ** * * * *
8639182 AATCCTGGTCGCTT-TATTTTTTACTTGTGATTTTGTC-CTAGTCACCTAATCTTAGC
66 AGTCCTGATC-ATTCCA-TTTTGACTCATGATTTTATCTCGA-TCACCTGATCATAGC
* * * * * * ** ** *
8639238 TTAG-TCCAAATAATTTTTTATGACTCGTGATTTTGTGTCGGTCATTTATTTTCGACCTTGACTC
1 TCAGTTTCAGATCATTTCTTATGACTCGTGGTTTCATCCCAGTCATTTATTTTCGACCTTGACTC
* * * * * * ** * *
8639302 GGTTCTGGTCA-CCTCATTTTTTACTCAAGGATTTCGTCTCGATCACCTGATCTTGGC
66 AGTCCTGATCATTC-CA-TTTTGACTC-ATGATTTTATCTCGATCACCTGATCATAGC
* * * ** ** * *
8639359 TCAG-TCCAGATCATTTTTTATGATTTATGG-TTC-TGTCATGGTTATTTATTTTCGACCTCGAC
1 TCAGTTTCAGATCATTTCTTATGACTCGTGGTTTCATCCCA--GTCATTTATTTTCGACCTTGAC
* * * * * * *
8639421 TC-GATCCTGATC-GTCTCA-TTTGACTCATGGTTTCATCCCTG-TCACATGATCTTGGC
64 TCAG-TCCTGATCATTC-CATTTTGACTCATGATTTTATCTC-GATCACCTGATCATAGC
* * * * * *
8639477 TCAG-TCCAAATCATTTCTTATGACTCGCGGTTT-GTTCCAGTCATTTATTTTCAACCTTGACTC
1 TCAGTTTCAGATCATTTCTTATGACTCGTGGTTTCATCCCAGTCATTTATTTTCGACCTTGACTC
8639540 A
66 A
8639541 ATCTTGATGG
Statistics
Matches: 423, Mismatches: 96, Indels: 48
0.75 0.17 0.08
Matches are distributed among these distances:
117 21 0.05
118 103 0.24
119 57 0.13
120 101 0.24
121 138 0.33
122 3 0.01
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (120 bp):
TCAGTTTCAGATCATTTCTTATGACTCGTGGTTTCATCCCAGTCATTTATTTTCGACCTTGACTC
AGTCCTGATCATTCCATTTTGACTCATGATTTTATCTCGATCACCTGATCATAGC
Found at i:8639406 original size:121 final size:118
Alignment explanation
Indices: 8639281--8639499 Score: 278
Period size: 118 Copynumber: 1.8 Consensus size: 118
8639271 TGTGTCGGTC
* * * * * * *
8639281 ATTTATTTTCGACCTTGACTCGGTTCTGGTCACCTCATTTTTTACTCAAGGATTTCGTCTC-GAT
1 ATTTATTTTCGACCTCGACTCGATCCTGATCACCTCA--TTTGACTCAAGG-TTTCATCCCTG-T
* * *
8639345 CACCTGATCTTGGCTCAGTCCAGATCATTTTTTATGATTTATGGTTCTGTCATGGTT
62 CACATGATCTTGGCTCAGTCCAAATCATTTCTTATGATTTATGGTTCTGTCATGGTT
** *
8639402 ATTTATTTTCGACCTCGACTCGATCCTGATCGTCTCATTTGACTCATGGTTTCATCCCTGTCACA
1 ATTTATTTTCGACCTCGACTCGATCCTGATCACCTCATTTGACTCAAGGTTTCATCCCTGTCACA
8639467 TGATCTTGGCTCAGTCCAAATCATTTCTTATGA
66 TGATCTTGGCTCAGTCCAAATCATTTCTTATGA
8639500 CTCGCGGTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
118 42 0.50
119 11 0.13
121 31 0.37
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.42
Consensus pattern (118 bp):
ATTTATTTTCGACCTCGACTCGATCCTGATCACCTCATTTGACTCAAGGTTTCATCCCTGTCACA
TGATCTTGGCTCAGTCCAAATCATTTCTTATGATTTATGGTTCTGTCATGGTT
Found at i:8639803 original size:3 final size:3
Alignment explanation
Indices: 8639779--8639869 Score: 89
Period size: 3 Copynumber: 30.3 Consensus size: 3
8639769 TATACTATAG
* * * *
8639779 TAT TAT TGT TA- TAT TAT ATAT TAT TAT TAC TAC TAT TAT TAT GA-
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8639823 TAT T-G TAT ATAGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8639869 T
1 T
8639870 CTTTCAATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
2 4 0.05
3 62 0.84
4 7 0.09
5 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:8640747 original size:24 final size:22
Alignment explanation
Indices: 8640695--8640779 Score: 82
Period size: 23 Copynumber: 3.8 Consensus size: 22
8640685 TCATTTTTCC
* *
8640695 ATTTTATTTTTATGTTTTGATT
1 ATTTTATTTTTATTTTTTAATT
*
8640717 TTATTTATTTTATATTTTTTAACTT
1 AT-TTTATTTT-TATTTTTTAA-TT
*
8640742 ATTTTATTTTTAATTTTTAATT
1 ATTTTATTTTTATTTTTTAATT
**
8640764 -TTTTGGTTTTATTTTT
1 ATTTTATTTTTATTTTT
8640780 GAGAAATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 13 0.25
22 3 0.06
23 17 0.33
24 16 0.31
25 3 0.06
ACGTcount: A:0.20, C:0.01, G:0.05, T:0.74
Consensus pattern (22 bp):
ATTTTATTTTTATTTTTTAATT
Found at i:8640858 original size:12 final size:12
Alignment explanation
Indices: 8640843--8640876 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8640833 AAAAAAAACC
8640843 AAACCAAAAATA
1 AAACCAAAAATA
*
8640855 AAACCAAAAACA
1 AAACCAAAAATA
8640867 AAA-CAAAAAT
1 AAACCAAAAAT
8640877 CTTTTTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.76, C:0.18, G:0.00, T:0.06
Consensus pattern (12 bp):
AAACCAAAAATA
Found at i:8641023 original size:32 final size:30
Alignment explanation
Indices: 8640986--8641055 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
8640976 ACAAAATAAA
* * *
8640986 TTTATGAAATTCTACCAAATTATTGGAGAATT
1 TTTATGAAA-TCCACCAAACTATT-GAAAATT
*
8641018 TTTATGGAATCCACCAAACTATTGAAAATT
1 TTTATGAAATCCACCAAACTATTGAAAATT
*
8641048 TTCATGAA
1 TTTATGAA
8641056 TCATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 12 0.38
31 12 0.38
32 8 0.25
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (30 bp):
TTTATGAAATCCACCAAACTATTGAAAATT
Found at i:8641732 original size:3 final size:3
Alignment explanation
Indices: 8641719--8641785 Score: 95
Period size: 3 Copynumber: 23.3 Consensus size: 3
8641709 TGGAAAGGAA
*
8641719 AAT AA- AAT AAT AAT AAT AAT AAT AAT -AT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
8641765 AAT AAC AAT -AT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
8641786 CTATACTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
2 6 0.10
3 52 0.90
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8641745 original size:23 final size:23
Alignment explanation
Indices: 8641719--8641785 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
8641709 TGGAAAGGAA
8641719 AATAAAATAATAATAATAATAAT
1 AATAAAATAATAATAATAATAAT
**
8641742 AATATGATAATAATAATAATAAT
1 AATAAAATAATAATAATAATAAT
8641765 AATAACAAT-ATAATAATAATA
1 AATAA-AATAATAATAATAATA
8641786 CTATACTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 37 0.95
24 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (23 bp):
AATAAAATAATAATAATAATAAT
Found at i:8644913 original size:2 final size:2
Alignment explanation
Indices: 8644906--8644930 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8644896 CTCCTCCATC
8644906 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8644931 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8647606 original size:19 final size:20
Alignment explanation
Indices: 8647578--8647617 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8647568 TTTCACGTAC
*
8647578 AAAAATAGAAAAAAA-AAAA
1 AAAAAAAGAAAAAAACAAAA
8647597 AAAAAAAGAAAAAAACAAAA
1 AAAAAAAGAAAAAAACAAAA
8647617 A
1 A
8647618 GAAGAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.90, C:0.03, G:0.05, T:0.03
Consensus pattern (20 bp):
AAAAAAAGAAAAAAACAAAA
Found at i:8647608 original size:17 final size:17
Alignment explanation
Indices: 8647588--8647623 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8647578 AAAAATAGAA
8647588 AAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAG
* *
8647605 AAAAAAACAAAAAGAAG
1 AAAAAAAAAAAAAAAAG
8647622 AA
1 AA
8647624 GAAGAAGCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:8647618 original size:14 final size:14
Alignment explanation
Indices: 8647586--8647620 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8647576 ACAAAAATAG
8647586 AAAAA-AAAAAAAA
1 AAAAAGAAAAAAAA
*
8647599 AAAAAGAAAAAAAC
1 AAAAAGAAAAAAAA
8647613 AAAAAGAA
1 AAAAAGAA
8647621 GAAGAAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:8649530 original size:224 final size:227
Alignment explanation
Indices: 8649126--8649587 Score: 759
Period size: 224 Copynumber: 2.0 Consensus size: 227
8649116 TTCTCGTCAA
8649126 CTCTTAAATTTGATTATTAAGAATAATGGTATCCACAACATCAAACCTCCTCCCACTCCAGATTC
1 CTCTTAAATTTGATTATTAAGAATAATGGTATCCACAACATCAAA-------CCACTCCAGATTC
*
8649191 ATTAAAAGCTTAAACGAGGTACCAATTGTCATGGGCCCCAACACATAAAAGCCGCGTTGTGCCTA
59 ATTAAAAGCTTAAACGAGGTACAAATTGTCATGGGCCCCAACACATAAAAGCCGCGTTGTGCCTA
* * *
8649256 AGATCTGGGCCATAGTTATCTAAGAGATTCCTTCCAGACTTCCGGTTGGACTCTGCACTTTCTTC
124 AGATCTGGGCCATAGTTAACTAAGAGATTACTTCCAGACTTCCAGTTGGACTCTGCACTTTCTTC
8649321 CCCATCTTATCAGGAAAAGAAATAGGGTAACGTACTGAG
189 CCCATCTTATCAGGAAAAGAAATAGGGTAACGTACTGAG
*
8649360 CTCTTAAATTTGATTATTGAGAATAATGGTATCCACAACATCAAA-C-C-CCAGATTCATTAAAA
1 CTCTTAAATTTGATTATTAAGAATAATGGTATCCACAACATCAAACCACTCCAGATTCATTAAAA
* * *
8649422 GCTTAAACGAGGTACAAATTGTCATGGGTCCCAACACATAAAAGCGGGGTTGTGCCTAAGATCTG
66 GCTTAAACGAGGTACAAATTGTCATGGGCCCCAACACATAAAAGCCGCGTTGTGCCTAAGATCTG
*
8649487 GGCCATAGTTAACTAAGAGATTACTTCCAGACTTCCAGTTGGACTCTGCACTTTCTTCCCCATTT
131 GGCCATAGTTAACTAAGAGATTACTTCCAGACTTCCAGTTGGACTCTGCACTTTCTTCCCCATCT
8649552 TATCAGGAAAAGAAATAGGGTAACGTACTGAG
196 TATCAGGAAAAGAAATAGGGTAACGTACTGAG
8649584 CTCT
1 CTCT
8649588 CTATAAATAC
Statistics
Matches: 219, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
224 173 0.79
225 1 0.00
226 1 0.00
234 44 0.20
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (227 bp):
CTCTTAAATTTGATTATTAAGAATAATGGTATCCACAACATCAAACCACTCCAGATTCATTAAAA
GCTTAAACGAGGTACAAATTGTCATGGGCCCCAACACATAAAAGCCGCGTTGTGCCTAAGATCTG
GGCCATAGTTAACTAAGAGATTACTTCCAGACTTCCAGTTGGACTCTGCACTTTCTTCCCCATCT
TATCAGGAAAAGAAATAGGGTAACGTACTGAG
Found at i:8654930 original size:2 final size:2
Alignment explanation
Indices: 8654923--8654955 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
8654913 GCCACAAAGG
8654923 TA TA TA TA -A CTA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T
8654956 GTATGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.93
3 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8657053 original size:14 final size:15
Alignment explanation
Indices: 8657036--8657065 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8657026 TCAATAAATA
8657036 TAATATTTA-AATTT
1 TAATATTTATAATTT
8657050 TAATATTTATAATTT
1 TAATATTTATAATTT
8657065 T
1 T
8657066 TTTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATATTTATAATTT
Found at i:8669390 original size:31 final size:32
Alignment explanation
Indices: 8669342--8669414 Score: 105
Period size: 31 Copynumber: 2.3 Consensus size: 32
8669332 CTGCCACCAT
*
8669342 ATCCTATCACTTTGTTGGGCTAAAAGCCT-CTA
1 ATCCAATCACTTTGTTGGGCTAAAAGCCTAC-A
*
8669374 ATCTAATCAC-TTGTTGGGCTAAAAGCCTACA
1 ATCCAATCACTTTGTTGGGCTAAAAGCCTACA
8669405 ATCCAATCAC
1 ATCCAATCAC
8669415 ATCAACGGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 28 0.76
32 9 0.24
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (32 bp):
ATCCAATCACTTTGTTGGGCTAAAAGCCTACA
Found at i:8669957 original size:52 final size:53
Alignment explanation
Indices: 8669876--8670032 Score: 214
Period size: 52 Copynumber: 3.0 Consensus size: 53
8669866 TATAACCATA
* * * *
8669876 CAAACTTGCCCATTAAGAATCCCTCTCCTTTTAGAATTCTTTTTC-TGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTTCTCTTGCAAGT
8669928 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTC-TTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTTCTCTTGCAAGT
* * *
8669980 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTC-TTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTTTTAGAATTCTTTCTCTTGCAAGT
8670032 C
1 C
8670033 TTCTTGTCCA
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
51 4 0.04
52 88 0.92
53 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTTCTCTTGCAAGT
Found at i:8670067 original size:21 final size:22
Alignment explanation
Indices: 8670049--8670095 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8670039 TCCATCAAGC
*
8670049 AATATCTGACAAATCTCAAACA
1 AATATCTAACAAATCTCAAACA
* *
8670071 AATCTCTAACAAATCCCAAACA
1 AATATCTAACAAATCTCAAACA
8670093 AAT
1 AAT
8670096 CTCTTATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (22 bp):
AATATCTAACAAATCTCAAACA
Found at i:8670073 original size:11 final size:11
Alignment explanation
Indices: 8670057--8670098 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
8670047 GCAATATCTG
8670057 ACAAATCTCAA
1 ACAAATCTCAA
*
8670068 ACAAATCTCTA
1 ACAAATCTCAA
*
8670079 ACAAATCCCAA
1 ACAAATCTCAA
8670090 ACAAATCTC
1 ACAAATCTC
8670099 TTATGGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:8670082 original size:22 final size:22
Alignment explanation
Indices: 8670057--8670099 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8670047 GCAATATCTG
*
8670057 ACAAATCTCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
8670079 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
8670100 TATGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:8670456 original size:31 final size:31
Alignment explanation
Indices: 8670421--8670505 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
8670411 TTCGAATCTT
* *
8670421 CAGCTCTGATATCACTTGTTGGGGAACACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
*
8670452 CAGCTCTGATACCATTTGTTGGGGATCACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
8670483 CAGCTCTGATACCATTTGTTGGG
1 CAGCTCTGATACCATTTGTTGGG
8670506 CTAAAAGCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGGAACACCA
Found at i:8670533 original size:31 final size:31
Alignment explanation
Indices: 8670498--8670559 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8670488 CTGATACCAT
8670498 TTGTTGGGCTAAAAGCCTCCAATCCAATCAC
1 TTGTTGGGCTAAAAGCCTCCAATCCAATCAC
8670529 TTGTTGGGCTAAAAGCCTCCAATCCAATCAC
1 TTGTTGGGCTAAAAGCCTCCAATCCAATCAC
8670560 ACCAACGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (31 bp):
TTGTTGGGCTAAAAGCCTCCAATCCAATCAC
Found at i:8671105 original size:52 final size:52
Alignment explanation
Indices: 8671021--8671165 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 52
8671011 TATAACCATA
* * * *
8671021 CAAACTTGCCCATTAAGAATCCCTCTCATTTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
*
8671073 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
* *
8671125 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTTTTAGAATTCTT
8671166 TTTTTGTAAG
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
52 81 0.95
53 4 0.05
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
Found at i:8671226 original size:11 final size:11
Alignment explanation
Indices: 8671202--8671243 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
8671192 GCAATATCTG
8671202 ACAAATCTCAA
1 ACAAATCTCAA
* *
8671213 ACAAAGCTCTA
1 ACAAATCTCAA
8671224 ACAAATCTCAA
1 ACAAATCTCAA
8671235 ACAAATCTC
1 ACAAATCTC
8671244 TTATGGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:8671227 original size:22 final size:22
Alignment explanation
Indices: 8671202--8671244 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8671192 GCAATATCTG
8671202 ACAAATCTCAAACAAAGCTCTA
1 ACAAATCTCAAACAAAGCTCTA
*
8671224 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAAGCTCT
8671245 TATGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.21
Consensus pattern (22 bp):
ACAAATCTCAAACAAAGCTCTA
Found at i:8674441 original size:3 final size:3
Alignment explanation
Indices: 8674435--8674480 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
8674425 AATTTTTTTA
8674435 ATT ATT ATAT ATT -TT ATAT ATT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
8674480 A
1 A
8674481 AACTAAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8674465 original size:27 final size:28
Alignment explanation
Indices: 8674417--8674481 Score: 57
Period size: 27 Copynumber: 2.3 Consensus size: 28
8674407 TTTTTTTAAT
*
8674417 TTTTAATTAATT-TTTTTAATTATTATATA
1 TTTT-ATTAATTATTATT-ATTATTATATA
8674446 TTTTA-TATATT-TTATTATTATTAT-TA
1 TTTTATTA-ATTATTATTATTATTATATA
8674472 TTATTATTAA
1 TT-TTATTAA
8674482 ACTAAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 4 0.12
27 14 0.44
28 10 0.31
29 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTTATTAATTATTATTATTATTATATA
Found at i:8675082 original size:137 final size:137
Alignment explanation
Indices: 8674906--8675170 Score: 345
Period size: 137 Copynumber: 1.9 Consensus size: 137
8674896 ATCGTGAATT
* *
8674906 AAAAAATGACGTTAACTTGGATTAAATCACAAGCAAGAAAATAAAGAGACTGAGATTAAACAACG
1 AAAAAATGACGTTAACTTGGATTAAATCACAAGCAAGAAAATAAAAAGACTGAGAATAAACAAC-
* * * *
8674971 A-GTCAGAGGATAACAACAATCAAGATTAAACTGCGACTTTGAATTAAAGGGATCGGGATTGAAC
65 ATGTCAGAGGATAACAACAATCAAGATTAAACTACGACTTTAAATTAAAGAGATCGAGATTGAAC
8675035 CGCGAGTC
130 CGCGAGTC
* * * * *
8675043 AAAAAATGACGTTAACTTGGATTGAATCATAAGTC-AGAAAATAAAAAGACTGGGAATAGACCAC
1 AAAAAATGACGTTAACTTGGATTAAATCACAAG-CAAGAAAATAAAAAGACTGAGAATAAACAAC
* * * * * *
8675107 ATGTCAGAGGCTAACAATAATCGAGATTAAGCTATGATTTTAAATTAAAGAGATCGAGATTGAA
65 ATGTCAGAGGATAACAACAATCAAGATTAAACTACGACTTTAAATTAAAGAGATCGAGATTGAA
8675171 TCGTAAATTA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
136 1 0.01
137 107 0.98
138 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (137 bp):
AAAAAATGACGTTAACTTGGATTAAATCACAAGCAAGAAAATAAAAAGACTGAGAATAAACAACA
TGTCAGAGGATAACAACAATCAAGATTAAACTACGACTTTAAATTAAAGAGATCGAGATTGAACC
GCGAGTC
Found at i:8675492 original size:153 final size:151
Alignment explanation
Indices: 8675280--8675793 Score: 518
Period size: 166 Copynumber: 3.3 Consensus size: 151
8675270 GGATTGAACG
* * *
8675280 CAAGTGAGAAAGATAGAAAA-GAATGGGATT-AACTCACAAGTCAGGGAAACTATAGAAATGATC
1 CAAGTGAGAAAAATA-AAAATGATTGGGATTAAAC-CACAAGTCAGGGAAACTATAAAAATGATC
** *
8675343 GGGATTAAATTGCAAGTGAGAAAAAAATAAAAATGACTAGGATTAAACCACGAGCTAGGAGAAAC
64 GGGATTAAATCACGAGTGAGAAAAAAATAAAAATGACT-GGATTAAACCACGAGCTAGG-GAAAC
8675408 TATAGAAATGATCGGGATTAAACCA
127 TATAGAAATGATCGGGATTAAACCA
* * *
8675433 CAAGTGAGAAAAATAAAAATGATTGGGATTAAACCACGAGTCAGAGAAACTATAAAAATGATCGA
1 CAAGTGAGAAAAATAAAAATGATTGGGATTAAACCACAAGTCAGGGAAACTATAAAAATGATCGG
* *
8675498 GATTAAATCACGAGTGAAAAAAAAATAAAAATGACTGAGATTAAACAACGAGTTAAGGGAAACTA
66 GATTAAATCACGAGTGAGAAAAAAATAAAAATGACTG-GATTAAACCAC--G---A--G---C--
* *
8675563 TAGAGGGAAACTATGGAAATGATCGAGATTAAACCA
118 T--AGGGAAACTATAGAAATGATCGGGATTAAACCA
* * ** *
8675599 CGAGTGAGAAAAATAAAAATGATTGAGATTAAACCATTAGTCAGGGAAACTATGAAAATGATCGG
1 CAAGTGAGAAAAATAAAAATGATTGGGATTAAACCACAAGTCAGGGAAACTATAAAAATGATCGG
* * * *
8675664 GATTAAACCACGAGTGAG--AAGAATAAAAATGATTGGGATTAAACCACAAG-TCAGGGAAACTA
66 GATTAAATCACGAGTGAGAAAAAAATAAAAATGACT-GGATTAAACCACGAGCT-AGGGAAACTA
8675726 TAGAAATGATCGGGATTAAACCA
129 TAGAAATGATCGGGATTAAACCA
* * * * * * * * *
8675749 CGAGTCA-AAGATTAAAGATGACTGGGACTAAATCGCAAGTCAGGG
1 CAAGTGAGAAAAATAAAAATGATTGGGATTAAACCACAAGTCAGGG
8675794 GATGGTGTAA
Statistics
Matches: 303, Mismatches: 40, Indels: 40
0.79 0.10 0.10
Matches are distributed among these distances:
149 28 0.09
150 37 0.12
151 1 0.00
152 5 0.02
153 92 0.30
154 3 0.01
155 1 0.00
157 1 0.00
158 1 0.00
159 1 0.00
160 1 0.00
163 1 0.00
164 24 0.08
165 2 0.01
166 102 0.34
167 3 0.01
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (151 bp):
CAAGTGAGAAAAATAAAAATGATTGGGATTAAACCACAAGTCAGGGAAACTATAAAAATGATCGG
GATTAAATCACGAGTGAGAAAAAAATAAAAATGACTGGATTAAACCACGAGCTAGGGAAACTATA
GAAATGATCGGGATTAAACCA
Found at i:8675514 original size:75 final size:75
Alignment explanation
Indices: 8675282--8675753 Score: 389
Period size: 75 Copynumber: 6.0 Consensus size: 75
8675272 ATTGAACGCA
* * * *
8675282 AGTGAGAAAGATAGAAAA-GAATGGGATT-AACTCACAAGTCAGGGAAACTATAGAAATGATCGG
1 AGTGAGAAAAATA-AAAATGATTGGGATTAAAC-CACGAGTCAGGGAAACTATAAAAATGATCGG
*** *
8675345 GATTAAATTGCA
64 GATTAAACCACG
* * *
8675357 AGTGAGAAAAAAATAAAAATGACTAGGATTAAACCACGAG-CTAGGAGAAACTATAGAAATGATC
1 AGTGAG--AAAAATAAAAATGATTGGGATTAAACCACGAGTC-AGG-GAAACTATAAAAATGATC
*
8675421 GGGATTAAACCACA
62 GGGATTAAACCACG
* *
8675435 AGTGAGAAAAATAAAAATGATTGGGATTAAACCACGAGTCAGAGAAACTATAAAAATGATCGAGA
1 AGTGAGAAAAATAAAAATGATTGGGATTAAACCACGAGTCAGGGAAACTATAAAAATGATCGGGA
*
8675500 TTAAATCACG
66 TTAAACCACG
* * * * *
8675510 AGTGAAAAAAAAATAAAAATGACTGAGATTAAACAACGAGTTAAGGGAAACTATAGAGGGAAACT
1 AGTG--AGAAAAATAAAAATGATTGGGATTAAACCACGAG-TCAGGGAAACTATA-A---AAA-T
* * *
8675575 -AT-GGAAATGATCGAGATTA-AACC
58 GATCGG----GAT-TA-A--ACCACG
* * * ** *
8675598 ACGAGTGAGAAAAATAAAAATGATTGAGATTAAACCATTAGTCAGGGAAACTATGAAAATGATCG
1 A-GTGAGA-AAAA-TAAAAATGATTGGGATTAAACCACGAGTCAGGGAAACTATAAAAATGATCG
8675663 GGATTAAACCACG
63 GGATTAAACCACG
* * *
8675676 AGTGAGAAGAATAAAAATGATTGGGATTAAACCACAAGTCAGGGAAACTATAGAAATGATCGGGA
1 AGTGAGAAAAATAAAAATGATTGGGATTAAACCACGAGTCAGGGAAACTATAAAAATGATCGGGA
8675741 TTAAACCACG
66 TTAAACCACG
8675751 AGT
1 AGT
8675754 CAAAGATTAA
Statistics
Matches: 324, Mismatches: 44, Indels: 58
0.76 0.10 0.14
Matches are distributed among these distances:
75 100 0.31
76 40 0.12
77 58 0.18
78 53 0.16
79 2 0.01
80 1 0.00
81 4 0.01
82 5 0.02
83 2 0.01
84 5 0.02
85 5 0.02
86 1 0.00
87 3 0.01
88 19 0.06
89 26 0.08
ACGTcount: A:0.48, C:0.11, G:0.22, T:0.19
Consensus pattern (75 bp):
AGTGAGAAAAATAAAAATGATTGGGATTAAACCACGAGTCAGGGAAACTATAAAAATGATCGGGA
TTAAACCACG
Found at i:8675668 original size:39 final size:38
Alignment explanation
Indices: 8675566--8675753 Score: 188
Period size: 36 Copynumber: 5.0 Consensus size: 38
8675556 GAAACTATAG
** *
8675566 AGGGAAACTATGGAAATGATCGAGATTAAACCACGAGT
1 AGGGAAACTATAAAAATGATCGGGATTAAACCACGAGT
* * * * **
8675604 -GAGAAA-AATAAAAATGATTGAGATTAAACCATTAGT
1 AGGGAAACTATAAAAATGATCGGGATTAAACCACGAGT
*
8675640 CAGGGAAACTATGAAAATGATCGGGATTAAACCACGAGT
1 -AGGGAAACTATAAAAATGATCGGGATTAAACCACGAGT
* * *
8675679 -GAGAAGA--ATAAAAATGATTGGGATTAAACCACAAGT
1 AGGGAA-ACTATAAAAATGATCGGGATTAAACCACGAGT
*
8675715 CAGGGAAACTATAGAAATGATCGGGATTAAACCACGAGT
1 -AGGGAAACTATAAAAATGATCGGGATTAAACCACGAGT
8675754 CAAAGATTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
36 50 0.42
37 10 0.08
38 10 0.08
39 50 0.42
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (38 bp):
AGGGAAACTATAAAAATGATCGGGATTAAACCACGAGT
Found at i:8675755 original size:39 final size:39
Alignment explanation
Indices: 8675566--8675755 Score: 189
Period size: 39 Copynumber: 5.0 Consensus size: 39
8675556 GAAACTATAG
* *
8675566 AGGGAAACTATGGAAATGATCGAGATTAAACCACGAGT-
1 AGGGAAACTATAGAAATGATCGGGATTAAACCACGAGTC
* * * * * **
8675604 -GAGAAA-AATAAAAATGATTGAGATTAAACCATTAGTC
1 AGGGAAACTATAGAAATGATCGGGATTAAACCACGAGTC
8675641 AGGGAAACTAT-GAAAATGATCGGGATTAAACCACGAGT-
1 AGGGAAACTATAG-AAATGATCGGGATTAAACCACGAGTC
* * * *
8675679 -GAGAAGA--ATAAAAATGATTGGGATTAAACCACAAGTC
1 AGGGAA-ACTATAGAAATGATCGGGATTAAACCACGAGTC
8675716 AGGGAAACTATAGAAATGATCGGGATTAAACCACGAGTC
1 AGGGAAACTATAGAAATGATCGGGATTAAACCACGAGTC
8675755 A
1 A
8675756 AAGATTAAAG
Statistics
Matches: 120, Mismatches: 22, Indels: 19
0.75 0.14 0.12
Matches are distributed among these distances:
36 49 0.41
37 10 0.08
38 10 0.08
39 51 0.43
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.19
Consensus pattern (39 bp):
AGGGAAACTATAGAAATGATCGGGATTAAACCACGAGTC
Found at i:8689691 original size:20 final size:19
Alignment explanation
Indices: 8689668--8689709 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
8689658 TTTTTAATTA
8689668 ATTTTTTAAAATTATTATAT
1 ATTTTTTAAAATTATTAT-T
* *
8689688 ATTTTTTTATATTATTATT
1 ATTTTTTAAAATTATTATT
8689707 ATT
1 ATT
8689710 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTAAAATTATTATT
Found at i:8689703 original size:3 final size:3
Alignment explanation
Indices: 8689678--8689719 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
8689668 ATTTTTTAAA
*
8689678 ATT ATT ATAT ATT -TT TTT A-T ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8689720 AACTAAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8690106 original size:18 final size:19
Alignment explanation
Indices: 8690085--8690136 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
8690075 AATTTTTTGA
*
8690085 ATTTTTTTATATATT-ATT
1 ATTTTTTTATATATTAAGT
8690103 ATTTTTGTTAT-T-TTAAGT
1 ATTTTT-TTATATATTAAGT
8690121 ATTTTTTTTATATATT
1 A-TTTTTTTATATATT
8690137 TATGCATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 2 0.07
18 14 0.50
19 10 0.36
20 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
ATTTTTTTATATATTAAGT
Found at i:8691075 original size:23 final size:21
Alignment explanation
Indices: 8691049--8691092 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
8691039 ACTACTTGAT
*
8691049 AATAAAATATTTTATAATAAAAA
1 AATAAAACATTTTA-AA-AAAAA
*
8691072 AATAATACATTTTAAAAAAAA
1 AATAAAACATTTTAAAAAAAA
8691093 TTTTGATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 12 0.63
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AATAAAACATTTTAAAAAAAA
Found at i:8701991 original size:19 final size:19
Alignment explanation
Indices: 8701967--8702004 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8701957 ATTTTACTTA
8701967 AAAAAATACAA-AAAAAAAG
1 AAAAAATA-AACAAAAAAAG
8701986 AAAAAATAAACAAAAAAAG
1 AAAAAATAAACAAAAAAAG
8702005 TGATTCAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.05
Consensus pattern (19 bp):
AAAAAATAAACAAAAAAAG
Found at i:8703505 original size:45 final size:45
Alignment explanation
Indices: 8703440--8703525 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
8703430 AAATTACAGT
* * *
8703440 TTAATCTCGATTGTTATTATTTTTTGACTCGTAGTTTAATCCCGG
1 TTAATCTCAATTGTTATTATTTTCTGACTAGTAGTTTAATCCCGG
* *
8703485 TTAATCTCAATTGTTGTTATTTTCTGACTAGTGGTTTAATC
1 TTAATCTCAATTGTTATTATTTTCTGACTAGTAGTTTAATC
8703526 TCGATCTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (45 bp):
TTAATCTCAATTGTTATTATTTTCTGACTAGTAGTTTAATCCCGG
Found at i:8703797 original size:135 final size:135
Alignment explanation
Indices: 8703484--8703800 Score: 467
Period size: 135 Copynumber: 2.3 Consensus size: 135
8703474 TTTAATCCCG
*
8703484 GTTAATCTCAATTGTTGTTATTTTCTGACT-AGTGGTTTAATCTCGATCTCTTTATTTTCTAACT
1 GTTAATCTCAATTGTTGTTATTTTCTGACTCA-TGGTTTAATCTTGATCTCTTTATTTTCTAACT
* * *
8703548 TGTGATTCAATCCAAATTAACGTTATTCTGACTTACAGTTCAATCCTGATTTTTTTAATCTAAAA
65 TGTGATTCAATCCAAATTAACATTATTCTGACTTACAGTTCAATCATGATTTTTTTAATCCAAAA
* *
8703613 TCGCAG
130 TCACAA
* * *
8703619 GTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATCTTGATCTCTTTATTTTCTAACTT
1 GTTAATCTCAATTGTTGTTATTTTCTGACTCATGGTTTAATCTTGATCTCTTTATTTTCTAACTT
* * * *
8703684 GTGATTCAATCCAAGTTGACATTATTCTGACTTGCGGTTCAAT-ATAGATTTTTTTAATCCAAAA
66 GTGATTCAATCCAAATTAACATTATTCTGACTTACAGTTCAATCAT-GATTTTTTTAATCCAAAA
8703748 TCACAA
130 TCACAA
* *
8703754 TTTAATTTCAATTGTTGTTATTTTCTGACTCATGGTTTAATCTTGAT
1 GTTAATCTCAATTGTTGTTATTTTCTGACTCATGGTTTAATCTTGAT
8703801 TAATCTCGAT
Statistics
Matches: 162, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
134 1 0.01
135 161 0.99
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (135 bp):
GTTAATCTCAATTGTTGTTATTTTCTGACTCATGGTTTAATCTTGATCTCTTTATTTTCTAACTT
GTGATTCAATCCAAATTAACATTATTCTGACTTACAGTTCAATCATGATTTTTTTAATCCAAAAT
CACAA
Found at i:8703806 original size:180 final size:179
Alignment explanation
Indices: 8703620--8703973 Score: 525
Period size: 180 Copynumber: 2.0 Consensus size: 179
8703610 AAATCGCAGG
* *
8703620 TTAATCTCGATTGTT-GTTATTTTTTGACTCGTGGTTTAATCTTGATCTCTTTATTTTCTAACTT
1 TTAATCTCGATT-TTGGTTATTTTTTGACTCATGGTTTAATCTCGATCTCTTTATTTTCTAACTT
8703684 GTGATTCAATCCAAGTTGACATTATTCTGACTTGCGGTTCAATAT-AGATTTTTTTAATCCAAAA
65 GTGATTCAATCCAAGTTGACATTATTCTGACTTGCGGTTCAATATCA-ATTTTTTTAATCCAAAA
* *
8703748 TCACAATTTAATTTCAATTGTTG-TTATTTTCTGACTCATGGTTTAATCTTGA
129 TCACAATTTAATCTCAATTATTGCTT-TTTT-TGACTCATGGTTTAATCTTGA
* * *
8703800 TTAATCTCGATTTTGGTTATTTTTTGACTCATGGTTTAATCTCGATCTCTTTATTTTTTGAGTTG
1 TTAATCTCGATTTTGGTTATTTTTTGACTCATGGTTTAATCTCGATCTCTTTATTTTCTAACTTG
* * * *
8703865 TGATTCAATCTAAGTTGACATTATTTTGACTTGCGGTTCACTCTCAATTTTTTTAATCCAAAATC
66 TGATTCAATCCAAGTTGACATTATTCTGACTTGCGGTTCAATATCAATTTTTTTAATCCAAAATC
* * *
8703930 ACAGTTTAATCTCGATTATTGCTTTTTTTGACTCGTGGTTTAAT
131 ACAATTTAATCTCAATTATTGCTTTTTTTGACTCATGGTTTAAT
8703974 TTCGGTCTCT
Statistics
Matches: 157, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
179 17 0.11
180 137 0.87
181 3 0.02
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (179 bp):
TTAATCTCGATTTTGGTTATTTTTTGACTCATGGTTTAATCTCGATCTCTTTATTTTCTAACTTG
TGATTCAATCCAAGTTGACATTATTCTGACTTGCGGTTCAATATCAATTTTTTTAATCCAAAATC
ACAATTTAATCTCAATTATTGCTTTTTTTGACTCATGGTTTAATCTTGA
Found at i:8704711 original size:14 final size:14
Alignment explanation
Indices: 8704692--8704719 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8704682 GGGAGTGACG
8704692 CTACAAAAAAAATA
1 CTACAAAAAAAATA
8704706 CTACAAAAAAAATA
1 CTACAAAAAAAATA
8704720 AAAAATAAAA
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:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
CTACAAAAAAAATA
Found at i:8705478 original size:21 final size:21
Alignment explanation
Indices: 8705440--8705479 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8705430 ATTTATGCAT
*
8705440 GATAAGTTTTACATTTGTTAG
1 GATAAGTTTTACAATTGTTAG
**
8705461 GATAAGTTTTTTAATTGTT
1 GATAAGTTTTACAATTGTT
8705480 TTAATAATAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (21 bp):
GATAAGTTTTACAATTGTTAG
Found at i:8705857 original size:16 final size:16
Alignment explanation
Indices: 8705838--8705948 Score: 140
Period size: 15 Copynumber: 7.1 Consensus size: 16
8705828 ATCCTAAGTT
8705838 TCTAAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
*
8705854 TCTAAAA-TCCTAAAA
1 TCTAAAACCCCTAAAA
8705869 TCTAAAACCCCT-AAA
1 TCTAAAACCCCTAAAA
*
8705884 TC-CAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
* *
8705899 TCCAAAA-TCCTAAAA
1 TCTAAAACCCCTAAAA
*
8705914 TCTGAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
8705930 TCTAAAACCCCCTAAAA
1 TCTAAAA-CCCCTAAAA
8705947 TC
1 TC
8705949 CGAAATCTCA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
14 8 0.10
15 36 0.44
16 26 0.32
17 11 0.14
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.20
Consensus pattern (16 bp):
TCTAAAACCCCTAAAA
Found at i:8705891 original size:45 final size:45
Alignment explanation
Indices: 8705842--8705997 Score: 188
Period size: 45 Copynumber: 3.4 Consensus size: 45
8705832 TAAGTTTCTA
*
8705842 AAACCCCTAAAATCTAAAATCCTAAAATCTAAAACCCCTAAATCC
1 AAACCCCTAAAATCCAAAATCCTAAAATCTAAAACCCCTAAATCC
* *
8705887 AAACCCCTAAAATCCAAAATCCTAAAATCTGAAACCCCTAAAATCTA
1 AAACCCCTAAAATCCAAAATCCTAAAATCTAAAACCCCT-AAATC-C
* * * * *
8705934 AAACCCCCTAAAATCCGAAAT-CTCAAATCTTTAAACTCTTAAATCC
1 AAA-CCCCTAAAATCCAAAATCCTAAAATC-TAAAACCCCTAAATCC
*
8705980 AAACTCCTAAAATCCAAA
1 AAACCCCTAAAATCCAAA
8705998 CCCTTAAATC
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
45 50 0.52
46 8 0.08
47 15 0.16
48 23 0.24
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.21
Consensus pattern (45 bp):
AAACCCCTAAAATCCAAAATCCTAAAATCTAAAACCCCTAAATCC
Found at i:8705892 original size:14 final size:15
Alignment explanation
Indices: 8705842--8706015 Score: 115
Period size: 15 Copynumber: 11.5 Consensus size: 15
8705832 TAAGTTTCTA
*
8705842 AAACCCCTAAAATCT
1 AAACCCCTAAAATCC
** *
8705857 AAAATCCTAAAATCTA
1 AAACCCCTAAAATC-C
8705873 AAACCCCT-AAATCC
1 AAACCCCTAAAATCC
8705887 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
** *
8705902 AAAATCCTAAAATCTG
1 AAACCCCTAAAATC-C
*
8705918 AAACCCCTAAAATCTA
1 AAACCCCTAAAATC-C
8705934 AAACCCCCTAAAATCC
1 AAA-CCCCTAAAATCC
* * *
8705950 GAAA--TCTCAAATCTTT
1 -AAACCCCTAAAATC--C
* *
8705966 AAA-CTCTTAAATCC
1 AAACCCCTAAAATCC
*
8705980 AAACTCCTAAAATCC
1 AAACCCCTAAAATCC
*
8705995 AAA-CCCTTAAATCC
1 AAACCCCTAAAATCC
8706009 AAACCCC
1 AAACCCC
8706016 AAACCTCAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 20
0.75 0.14 0.12
Matches are distributed among these distances:
14 30 0.24
15 52 0.41
16 30 0.24
17 14 0.11
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:8705994 original size:15 final size:15
Alignment explanation
Indices: 8705974--8706015 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
8705964 TTAAACTCTT
*
8705974 AAATCCAAACTCCTA
1 AAATCCAAACCCCTA
*
8705989 AAATCCAAA-CCCTT
1 AAATCCAAACCCCTA
8706003 AAATCCAAACCCC
1 AAATCCAAACCCC
8706016 AAACCTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATCCAAACCCCTA
Found at i:8706118 original size:29 final size:29
Alignment explanation
Indices: 8706000--8706126 Score: 91
Period size: 29 Copynumber: 4.4 Consensus size: 29
8705990 AATCCAAACC
* * *
8706000 CTTAAATCCAAACCC-CAAA-CCTCAAAT
1 CTTAAAACCAAACCCTAAAACCCTCAAAA
* * * *
8706027 TTTAAAACCGAAGCCCTAAAATCTTC-AAA
1 CTTAAAACC-AAACCCTAAAACCCTCAAAA
* * * *
8706056 CTCTAAAATCAAACCCT-AAACCTTCCATAC
1 CT-TAAAACCAAACCCTAAAACCCT-CAAAA
8706086 CTTAAAACCAAACCCTAAAACCCTCAAAA
1 CTTAAAACCAAACCCTAAAACCCTCAAAA
*
8706115 CTTAAATCCAAA
1 CTTAAAACCAAA
8706127 TCTTCAAAAT
Statistics
Matches: 76, Mismatches: 17, Indels: 12
0.72 0.16 0.11
Matches are distributed among these distances:
27 7 0.09
28 11 0.14
29 40 0.53
30 18 0.24
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (29 bp):
CTTAAAACCAAACCCTAAAACCCTCAAAA
Found at i:8706146 original size:23 final size:21
Alignment explanation
Indices: 8706109--8706159 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
8706099 CCTAAAACCC
8706109 TCAAAACTTAAATCCAAATCT
1 TCAAAACTTAAATCCAAATCT
*
8706130 TCAAAATCTTGAAATCCTAATCT
1 TCAAAA-CTT-AAATCCAAATCT
*
8706153 TTAAAAC
1 TCAAAAC
8706160 ATCTACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 4 0.15
23 16 0.62
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (21 bp):
TCAAAACTTAAATCCAAATCT
Found at i:8707468 original size:21 final size:21
Alignment explanation
Indices: 8707442--8707485 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8707432 ATAGGTCAGG
*
8707442 TCGTCATTGCGATTCACGGTC
1 TCGTCATTGAGATTCACGGTC
8707463 TCGTCATTGAGATTCACGGTC
1 TCGTCATTGAGATTCACGGTC
8707484 TC
1 TC
8707486 ACCATTAAAT
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:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGTCATTGAGATTCACGGTC
Found at i:8707491 original size:21 final size:21
Alignment explanation
Indices: 8707446--8707491 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8707436 GTCAGGTCGT
* **
8707446 CATTGCGATTCACGGTCTCGT
1 CATTGAGATTCACGGTCTCAC
8707467 CATTGAGATTCACGGTCTCAC
1 CATTGAGATTCACGGTCTCAC
8707488 CATT
1 CATT
8707492 AAATTGCTTG
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:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (21 bp):
CATTGAGATTCACGGTCTCAC
Found at i:8707877 original size:22 final size:22
Alignment explanation
Indices: 8707829--8707883 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
8707819 AAATTTTGAG
* **
8707829 AATTTAATTAATTTTAAATTTT
1 AATTTAATTAATATTAAATTAA
* *
8707851 TATTTAATTACTATTAAATTAA
1 AATTTAATTAATATTAAATTAA
*
8707873 AATTTATTTAA
1 AATTTAATTAA
8707884 GTTATATTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTAATTAATATTAAATTAA
Found at i:8709463 original size:22 final size:22
Alignment explanation
Indices: 8709437--8709489 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
8709427 AGAATAAATT
*
8709437 TTAATTAAAATATAATTTGATAA
1 TTAATTAAAA-ATAATTTGAAAA
* *
8709460 -TAATTGAAAATAATTTTAAAA
1 TTAATTAAAAATAATTTGAAAA
8709481 TTAATTAAA
1 TTAATTAAA
8709490 TTTTTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TTAATTAAAAATAATTTGAAAA
Found at i:8717890 original size:16 final size:15
Alignment explanation
Indices: 8717860--8717888 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8717850 ATAAACTTAA
8717860 AAAAAAAAATAAAAT
1 AAAAAAAAATAAAAT
8717875 AAAAAAAAATAAAA
1 AAAAAAAAATAAAA
8717889 ATGCATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAATAAAAT
Found at i:8718429 original size:193 final size:198
Alignment explanation
Indices: 8718055--8718472 Score: 528
Period size: 193 Copynumber: 2.1 Consensus size: 198
8718045 ATAAGTGTTC
* * *
8718055 AAATTTTCTATTTAATAAGAAGTTTTTGTTTTTTGTTTTTCAAATGTAATATATACTTTTAATAT
1 AAATTTTCTATTT-TTAAGAAGTTTTTGTTTTTAGTTTTT-AAAGGTAATATATACTTTTAATAT
* *
8718120 GTTTTATCAAACATTATAATTTAAAATAAATAAATTTCAATATTTCTTTTTGAATAAGTTTTTTT
64 GTTTTATCAAACATTATAATTTAAAATAAATAAATTTC-ATAATTCTTTCTGAATAAGTTTTTTT
* *
8718185 AAAAATTTCTTAAATATAATATAGTTTAAATATATTTTATCAAATTTTATAGCTTAAAATAAATA
128 -AAAATTTCTTAAATATAATATAGTTTAAATACATTTTATCAAAATTTATAGCTTAAAATAAATA
8718250 AAATTTA
192 AAATTTA
* *
8718257 AAATTTTCTATTTTTAAGAAGTTTTTGCTTTTTAGTTTTT-AAGGT-ATAATGTA-TTTTTATAT
1 AAATTTTCTATTTTTAAGAAGTTTTTG-TTTTTAGTTTTTAAAGGTAAT-ATATACTTTTAATAT
* *** *
8718319 -TTTTATCTAGTTTTATGATTTAAAATAAATAAATTTC-TGAATT-TTTCT-AATAAGTTTTTTT
64 GTTTTATCAAACATTATAATTTAAAATAAATAAATTTCAT-AATTCTTTCTGAATAAGTTTTTTT
* * * **
8718380 -AAATTTTTTAAATATAATATAGTTTTAATACATTTTATCAAAATTTATAGTTTAAAATAGTTAA
128 AAAATTTCTTAAATATAATATAGTTTAAATACATTTTATCAAAATTTATAGCTTAAAATAAATAA
*
8718444 ATTTTA
193 AATTTA
*
8718450 AAATTTTCTATTTTTATGAAGTT
1 AAATTTTCTATTTTTAAGAAGTT
8718473 CTAGTTTTAT
Statistics
Matches: 192, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
193 84 0.44
195 13 0.07
196 5 0.03
197 3 0.02
198 32 0.17
199 10 0.05
200 8 0.04
201 13 0.07
202 24 0.12
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (198 bp):
AAATTTTCTATTTTTAAGAAGTTTTTGTTTTTAGTTTTTAAAGGTAATATATACTTTTAATATGT
TTTATCAAACATTATAATTTAAAATAAATAAATTTCATAATTCTTTCTGAATAAGTTTTTTTAAA
ATTTCTTAAATATAATATAGTTTAAATACATTTTATCAAAATTTATAGCTTAAAATAAATAAAAT
TTA
Found at i:8722153 original size:2 final size:2
Alignment explanation
Indices: 8722146--8722180 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8722136 CCTATGGTAA
*
8722146 AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8722181 ACTTTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8729104 original size:17 final size:18
Alignment explanation
Indices: 8729078--8729112 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8729068 AATGAAAAAA
8729078 AAAATCATTT-TAATTAT
1 AAAATCATTTATAATTAT
*
8729095 AAAATTATTTATAATTAT
1 AAAATCATTTATAATTAT
8729113 TTTAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAATCATTTATAATTAT
Found at i:8729226 original size:2 final size:2
Alignment explanation
Indices: 8729219--8729257 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8729209 TATGTACGTG
* * *
8729219 TA TA TA TA TA TA TA TA TG TA TA TG TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8729258 TTCTATGTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8729234 original size:12 final size:12
Alignment explanation
Indices: 8729219--8729257 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
8729209 TATGTACGTG
*
8729219 TATATATATATA
1 TATATGTATATA
*
8729231 TATATGTATATG
1 TATATGTATATA
8729243 TATATGTATATA
1 TATATGTATATA
8729255 TAT
1 TAT
8729258 TTCTATGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (12 bp):
TATATGTATATA
Found at i:8729238 original size:24 final size:24
Alignment explanation
Indices: 8729208--8729257 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
8729198 CCACTAATAA
*
8729208 ATATGTACGTGTATATATATATAT
1 ATATGTACATGTATATATATATAT
* *
8729232 ATATGTATATGTATATGTATATAT
1 ATATGTACATGTATATATATATAT
8729256 AT
1 AT
8729258 TTCTATGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (24 bp):
ATATGTACATGTATATATATATAT
Found at i:8730779 original size:13 final size:13
Alignment explanation
Indices: 8730763--8730787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8730753 AATTTTTTTA
8730763 TTAAATTAGTTAT
1 TTAAATTAGTTAT
8730776 TTAAATTAGTTA
1 TTAAATTAGTTA
8730788 AACCAGAGAA
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TTAAATTAGTTAT
Found at i:8731811 original size:27 final size:27
Alignment explanation
Indices: 8731777--8731836 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
8731767 GTTTTTATGA
* *
8731777 TGGTGAATTAGATGTTAAATCAAATGG
1 TGGTGAATCAAATGTTAAATCAAATGG
* *
8731804 TGGTGAATCAAATGTTAAGTTAAATGG
1 TGGTGAATCAAATGTTAAATCAAATGG
8731831 TGGTGA
1 TGGTGA
8731837 TGTTGTAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.33
Consensus pattern (27 bp):
TGGTGAATCAAATGTTAAATCAAATGG
Found at i:8734000 original size:10 final size:10
Alignment explanation
Indices: 8733993--8734059 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
8733983 AAAGTCAAGT
8733993 TTAGTCAAAC
1 TTAGTCAAAC
8734003 TTAGTCAAA-
1 TTAGTCAAAC
* *
8734012 TAAAGTCAAAA
1 T-TAGTCAAAC
*
8734023 TTAGTCAAAT
1 TTAGTCAAAC
*
8734033 TTA-TCAAAA
1 TTAGTCAAAC
8734042 TT-GATCAAAC
1 TTAG-TCAAAC
8734052 TT-GTCAAA
1 TTAGTCAAA
8734060 ATGGATAGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 13 0.27
10 34 0.71
11 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (10 bp):
TTAGTCAAAC
Found at i:8734010 original size:20 final size:20
Alignment explanation
Indices: 8733985--8734061 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
8733975 AATATCCCAA
* *
8733985 AGTCAAGTTTAGTCAAACTT
1 AGTCAAATTTAGTCAAAATT
**
8734005 AGTCAAATAAAGTCAAAATT
1 AGTCAAATTTAGTCAAAATT
8734025 AGTCAAATTTA-TCAAAATT
1 AGTCAAATTTAGTCAAAATT
*
8734044 -GATCAAACTT-GTCAAAAT
1 AG-TCAAATTTAGTCAAAAT
8734062 GGATAGAACC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.02
19 22 0.46
20 25 0.52
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
AGTCAAATTTAGTCAAAATT
Found at i:8734019 original size:30 final size:29
Alignment explanation
Indices: 8733983--8734040 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
8733973 CAAATATCCC
**
8733983 AAAGTCAAGTTTAGTCAAACTTAGTCAAAT
1 AAAGTCAAAATTAGTCAAACTTA-TCAAAT
*
8734013 AAAGTCAAAATTAGTCAAATTTATCAAA
1 AAAGTCAAAATTAGTCAAACTTATCAAA
8734041 ATTGATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (29 bp):
AAAGTCAAAATTAGTCAAACTTATCAAAT
Found at i:8734152 original size:24 final size:23
Alignment explanation
Indices: 8734124--8734170 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8734114 AGATTAAAAT
*
8734124 TGAAATTTAAGATTTTTAAAGCAC
1 TGAAATGTAA-ATTTTTAAAGCAC
*
8734148 TGAAATGTCAATTTTTAAAGCAC
1 TGAAATGTAAATTTTTAAAGCAC
8734171 ATCTTGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (23 bp):
TGAAATGTAAATTTTTAAAGCAC
Found at i:8736080 original size:15 final size:15
Alignment explanation
Indices: 8736056--8736085 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8736046 AGCTTAAACC
*
8736056 AAACCTTAAACCCTA
1 AAACCATAAACCCTA
8736071 AAACCATAAACCCTA
1 AAACCATAAACCCTA
8736086 TACCTAGACC
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:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCATAAACCCTA
Found at i:8736101 original size:27 final size:27
Alignment explanation
Indices: 8736071--8736130 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
8736061 TTAAACCCTA
8736071 AAACCATAAACCCTATACCTAGACCTC-
1 AAACCATAAACCCTA-ACCTAGACCTCT
** *
8736098 AAACTTTAAACCCTAATCTAGACCTCT
1 AAACCATAAACCCTAACCTAGACCTCT
8736125 AAACCA
1 AAACCA
8736131 ACCCAAACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.22
Consensus pattern (27 bp):
AAACCATAAACCCTAACCTAGACCTCT
Found at i:8736623 original size:22 final size:22
Alignment explanation
Indices: 8736579--8736637 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
8736569 AGATTTTGAG
* ** *
8736579 ATTTATAAGACCTCCGGGTATA
1 ATTTCTAAGACCTCTAGGCATA
8736601 ATTTCTAAGACCTCTAGGCATA
1 ATTTCTAAGACCTCTAGGCATA
* *
8736623 ATCTCTAAAACCTCT
1 ATTTCTAAGACCTCT
8736638 GGTCATGATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (22 bp):
ATTTCTAAGACCTCTAGGCATA
Found at i:8737015 original size:3 final size:3
Alignment explanation
Indices: 8737007--8737061 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
8736997 ATACAAATAA
8737007 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8737055 ATT ATT A
1 ATT ATT A
8737062 CAATTAAGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8737654 original size:77 final size:77
Alignment explanation
Indices: 8737563--8737721 Score: 318
Period size: 77 Copynumber: 2.1 Consensus size: 77
8737553 TATGAGCAAT
8737563 ACCCTTAATCATCAACCTTTGTCAGAACCAACAACAACCTTGGCCAAAACCCACCACCCAGCTAT
1 ACCCTTAATCATCAACCTTTGTCAGAACCAACAACAACCTTGGCCAAAACCCACCACCCAGCTAT
8737628 AGCAATTTCAGA
66 AGCAATTTCAGA
8737640 ACCCTTAATCATCAACCTTTGTCAGAACCAACAACAACCTTGGCCAAAACCCACCACCCAGCTAT
1 ACCCTTAATCATCAACCTTTGTCAGAACCAACAACAACCTTGGCCAAAACCCACCACCCAGCTAT
8737705 AGCAATTTCAGA
66 AGCAATTTCAGA
8737717 ACCCT
1 ACCCT
8737722 AGTACAGCCC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.36, C:0.36, G:0.09, T:0.19
Consensus pattern (77 bp):
ACCCTTAATCATCAACCTTTGTCAGAACCAACAACAACCTTGGCCAAAACCCACCACCCAGCTAT
AGCAATTTCAGA
Found at i:8742447 original size:30 final size:30
Alignment explanation
Indices: 8742411--8742471 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
8742401 CAAAACCTCA
* *
8742411 TAATAATATTCTGCATCAATTGGCATGTAT
1 TAATAATATTCTGCACCAATTGACATGTAT
* *
8742441 TAATAATATTTTGCACCAATTGACATTTAT
1 TAATAATATTCTGCACCAATTGACATGTAT
8742471 T
1 T
8742472 TTATTCATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (30 bp):
TAATAATATTCTGCACCAATTGACATGTAT
Found at i:8742641 original size:14 final size:13
Alignment explanation
Indices: 8742608--8742642 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
8742598 TACATAATGA
8742608 TATTATTATTTAT
1 TATTATTATTTAT
8742621 TATTTATTATTTATT
1 TA-TTATTATTTA-T
8742636 TATTATT
1 TATTATT
8742643 TGATTTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 15 0.75
15 3 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTATTATTTAT
Done.