Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 36 of 230
Found at i:9649656 original size:32 final size:32
Alignment explanation
Indices: 9649610--9649702 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
9649600 TGTCAATCAT
*
9649610 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
*
9649642 TTCAATATCTAACAAGCCTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
9649674 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCTAACAAGCTTAAAACATAAT
9649703 CAATATCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (32 bp):
TTCAATATCTAACAAGCTTAAAACATAATAAA
Found at i:9649726 original size:27 final size:27
Alignment explanation
Indices: 9649611--9649731 Score: 82
Period size: 32 Copynumber: 4.1 Consensus size: 27
9649601 GTCAATCATT
* *
9649611 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
**
9649642 TTCAATATCTAACAAGCCTAAAACATAATAAA
1 -TCAATATCTAACAAGATTAAAAC---AT-AA
*
9649674 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
9649702 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
9649729 TCA
1 TCA
9649732 TTTCAAAATC
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
26 2 0.02
27 25 0.30
28 2 0.02
29 2 0.02
32 52 0.63
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:9649737 original size:59 final size:62
Alignment explanation
Indices: 9649604--9649747 Score: 170
Period size: 59 Copynumber: 2.3 Consensus size: 62
9649594 TGTCATTGTC
9649604 AATCATTTCAATATCCAACAAGCTTAAAACATAATAAATTCAATATCTAACAAGCCTAAAACAT
1 AATCATTTCAATATCCAACAAGCTTAAAAC--AATAAATTCAATATCTAACAAGCCTAAAACAT
* * * ** *
9649668 AATAAATTCAATATCTAACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATTCAAGACAT
1 AATCATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCTAACAAGCCT-AAAACAT
*
9649727 AATCATTTCAAAATCCAACAA
1 AATCATTTCAATATCCAACAA
9649748 ACTAAAATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
58 1 0.01
59 37 0.54
60 2 0.03
61 2 0.03
64 27 0.39
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.26
Consensus pattern (62 bp):
AATCATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCTAACAAGCCTAAAACAT
Found at i:9649905 original size:80 final size:80
Alignment explanation
Indices: 9649810--9649966 Score: 314
Period size: 80 Copynumber: 2.0 Consensus size: 80
9649800 TTAATACTAA
9649810 AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
1 AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
9649875 TTAGTCCACATACAT
66 TTAGTCCACATACAT
9649890 AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
1 AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
9649955 TTAGTCCACATA
66 TTAGTCCACATA
9649967 ATTTGTGCAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.45, C:0.25, G:0.04, T:0.26
Consensus pattern (80 bp):
AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
TTAGTCCACATACAT
Found at i:9651364 original size:41 final size:41
Alignment explanation
Indices: 9651318--9651429 Score: 157
Period size: 34 Copynumber: 2.9 Consensus size: 41
9651308 ATAATTGCAT
*
9651318 TAATAATTTTTTGATAAATTAAGCTACTTTCTTTGTAATTC
1 TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTAATTC
*
9651359 TAATAATTTTTTGAGAAATTAAGCTA----C-TT-T-ATTT
1 TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTAATTC
9651393 TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTA
1 TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTA
9651430 TCAATACTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
34 29 0.47
35 1 0.02
36 2 0.03
37 1 0.02
38 1 0.02
39 2 0.03
40 1 0.02
41 25 0.40
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (41 bp):
TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTAATTC
Found at i:9653499 original size:4 final size:4
Alignment explanation
Indices: 9653490--9653592 Score: 134
Period size: 4 Copynumber: 25.5 Consensus size: 4
9653480 AACATAAATG
* * * * * *
9653490 TGTA TGTA TGTA TGTA TGCA TGTA TGCA TGCA TGCA TGCA TGCA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
9653538 TGTA TGTA TGGA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTAA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT-A
9653587 TGTA TG
1 TGTA TG
9653593 CTGCCCTTAC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
4 88 0.96
5 4 0.04
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.43
Consensus pattern (4 bp):
TGTA
Found at i:9654598 original size:22 final size:21
Alignment explanation
Indices: 9654546--9654599 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
9654536 AATAAAAATT
* *
9654546 TTATTAATGATATTAAATTAAA
1 TTATTTAT-ATATTAAAATAAA
* *
9654568 ATATGTATATATTAAAAATAAA
1 TTATTTATATATT-AAAATAAA
9654590 TTATTTATAT
1 TTATTTATAT
9654600 TTATATTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
TTATTTATATATTAAAATAAA
Found at i:9654600 original size:6 final size:6
Alignment explanation
Indices: 9654591--9654627 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
9654581 AAAAATAAAT
9654591 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T
9654628 GTTAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:9655414 original size:19 final size:20
Alignment explanation
Indices: 9655390--9655427 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9655380 ACTTTCGCCG
*
9655390 CCTCCAACTACCAT-TGTCT
1 CCTCCAACAACCATATGTCT
9655409 CCTCCAACAACCATATGTC
1 CCTCCAACAACCATATGTC
9655428 ATTACCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.42, G:0.05, T:0.26
Consensus pattern (20 bp):
CCTCCAACAACCATATGTCT
Found at i:9663050 original size:16 final size:17
Alignment explanation
Indices: 9663012--9663055 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
9663002 CATAAACAAG
9663012 TAACATCATTATTGATA
1 TAACATCATTATTGATA
9663029 TAACATCATT-TT-ATA
1 TAACATCATTATTGATA
9663044 TTAACAT-ATTAT
1 -TAACATCATTAT
9663056 ATTGCGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 9 0.36
17 10 0.40
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (17 bp):
TAACATCATTATTGATA
Found at i:9672732 original size:23 final size:23
Alignment explanation
Indices: 9672705--9672780 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
9672695 AATAGTGCCA
9672705 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
9672728 TACTGGA-ATGTAGCCGAAGCTAC
1 CACT-GATATGTAGCCGAAGCTAC
* *
9672751 CACTGAGATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
9672774 CACTGAT
1 CACTGAT
9672781 CAATAACACT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.04
23 43 0.91
24 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:9685046 original size:13 final size:13
Alignment explanation
Indices: 9685028--9685104 Score: 93
Period size: 13 Copynumber: 5.9 Consensus size: 13
9685018 AGTTTGGCAA
9685028 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
9685041 TGCTTTTCAAAAG
1 TGCTTTTGAAAAG
* *
9685054 TG-TTGTGGAAATG
1 TGCTT-TTGAAAAG
*
9685067 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
9685080 TGCTTTTGATAAG
1 TGCTTTTGAAAAG
9685093 TGCTTTTGAAAA
1 TGCTTTTGAAAA
9685105 ATTTGGTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
12 2 0.04
13 49 0.92
14 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:9685607 original size:17 final size:20
Alignment explanation
Indices: 9685585--9685623 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
9685575 ATTGACCTGC
9685585 AAACAA-CA-CAAAAAA-AG
1 AAACAAGCAGCAAAAAACAG
9685602 AAACAAGCAGCAAAAAACAG
1 AAACAAGCAGCAAAAAACAG
9685622 AA
1 AA
9685624 TATCAGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 7 0.37
20 4 0.21
ACGTcount: A:0.72, C:0.18, G:0.10, T:0.00
Consensus pattern (20 bp):
AAACAAGCAGCAAAAAACAG
Found at i:9693379 original size:21 final size:21
Alignment explanation
Indices: 9693354--9693427 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
9693344 AGTGCTAAAT
9693354 TGAAACCCATAAGGGTTGAA-
1 TGAAACCCATAAGGGTTGAAC
* *
9693374 TGGAAACACAT-AGGAGCTGAAC
1 T-GAAACCCATAAGG-GTTGAAC
*
9693396 TGAAACCCATAAGGGTTAAAC
1 TGAAACCCATAAGGGTTGAAC
* *
9693417 AGAAACTCATA
1 TGAAACCCATA
9693428 TGAGTTAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 4 0.09
21 35 0.81
22 4 0.09
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.18
Consensus pattern (21 bp):
TGAAACCCATAAGGGTTGAAC
Found at i:9693547 original size:24 final size:24
Alignment explanation
Indices: 9693513--9693560 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
9693503 TACTTGGGTA
*
9693513 ATTTACTGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
9693537 ATTTACCGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
9693561 CATAAGAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCCTTTGC
Found at i:9696219 original size:51 final size:51
Alignment explanation
Indices: 9696160--9696296 Score: 197
Period size: 51 Copynumber: 2.7 Consensus size: 51
9696150 CAATGTTATC
9696160 CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-ATACCATT
1 CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATA-ACCATT
*
9696211 CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATT
1 CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATT
* * * *
9696262 -GTATACTCATAGTAGCCTGCACATAGTACTACACA
1 CG-GTGCACGTAGTAGCCTGCACATAGTACTACACA
9696297 TGAGTTCTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
50 1 0.01
51 77 0.97
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATT
Found at i:9699046 original size:51 final size:50
Alignment explanation
Indices: 9698978--9699124 Score: 180
Period size: 51 Copynumber: 3.0 Consensus size: 50
9698968 ATCACATTTA
9698978 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCAACCACTTATCACTTG
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGC-ACCACTTATCACTTG
* *
9699029 TCACTTGTCACTAATCAGATAAGTGTAGTTAAAG-----C-TATCACTTA
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCACCACTTATCACTTG
* * * *
9699073 TTACTTGTCACTGATCAGATAAGTGTATCTAAAGCTACCATTTATCACTTG
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGC-ACCACTTATCACTTG
9699124 T
1 T
9699125 TACTGATCAA
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
44 38 0.47
45 1 0.01
51 42 0.52
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (50 bp):
TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCACCACTTATCACTTG
Found at i:9699068 original size:44 final size:44
Alignment explanation
Indices: 9699020--9699133 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 44
9699010 AGCAACCACT
* *
9699020 TATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGT-TAAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTA-TCTAAAGC
*
9699064 TATCACTTATTACTTGTCACTGATCAGATAAGTGTATCTAAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTATCTAAAGC
* * *
9699108 TACCATTTATCACTTGTTACTGATCA
1 TATCACTTATCACTTGTCACTGATCA
9699134 AAAGTACTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.02
44 61 0.98
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (44 bp):
TATCACTTATCACTTGTCACTGATCAGATAAGTGTATCTAAAGC
Found at i:9700958 original size:18 final size:17
Alignment explanation
Indices: 9700925--9700963 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9700915 TTGTATAAAT
9700925 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9700943 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
9700960 TGTG
1 TGTG
9700964 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9701095 original size:8 final size:8
Alignment explanation
Indices: 9701082--9701110 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9701072 CACTAGAGAC
9701082 CAGTGTTA
1 CAGTGTTA
9701090 CAGTGTTA
1 CAGTGTTA
9701098 CAGTGTTA
1 CAGTGTTA
9701106 CAGTG
1 CAGTG
9701111 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:9701224 original size:23 final size:23
Alignment explanation
Indices: 9701197--9701269 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
9701187 AGTGTTATTG
9701197 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9701220 TTCAGTGGTAGCTAT-GGCTACAT
1 ATCAGTGGTAGCT-TCGGCTACAT
9701243 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9701266 ATCA
1 ATCA
9701270 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9708449 original size:8 final size:8
Alignment explanation
Indices: 9708436--9708464 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9708426 CACTAGAGAC
9708436 CAGTGTTA
1 CAGTGTTA
9708444 CAGTGTTA
1 CAGTGTTA
9708452 CAGTGTTA
1 CAGTGTTA
9708460 CAGTG
1 CAGTG
9708465 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:9708578 original size:23 final size:23
Alignment explanation
Indices: 9708551--9708623 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
9708541 AGTGTTATTG
9708551 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9708574 TTCAGTGGTAGCTAT-GGCTACAT
1 ATCAGTGGTAGCT-TCGGCTACAT
9708597 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9708620 ATCA
1 ATCA
9708624 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9712467 original size:9 final size:9
Alignment explanation
Indices: 9712449--9712546 Score: 56
Period size: 9 Copynumber: 10.6 Consensus size: 9
9712439 GAGGCATGCT
9712449 CAGCAACAG
1 CAGCAACAG
9712458 CAGCATCAGCAG
1 CAGCA--A-CAG
* *
9712470 CAACAACAA
1 CAGCAACAG
9712479 CAGCAACAG
1 CAGCAACAG
* *
9712488 C-GACAGCAA
1 CAG-CAACAG
9712497 CAGCAACAG
1 CAGCAACAG
* * *
9712506 CAACAGCAA
1 CAGCAACAG
9712515 CAGCAACAG
1 CAGCAACAG
*
9712524 CCA-CAACAC
1 -CAGCAACAG
*
9712533 CAGCAGCAG
1 CAGCAACAG
9712542 CAGCA
1 CAGCA
9712547 GCAAAGAGAA
Statistics
Matches: 65, Mismatches: 17, Indels: 14
0.68 0.18 0.15
Matches are distributed among these distances:
8 3 0.05
9 50 0.77
10 4 0.06
11 1 0.02
12 7 0.11
ACGTcount: A:0.45, C:0.36, G:0.18, T:0.01
Consensus pattern (9 bp):
CAGCAACAG
Found at i:9712479 original size:6 final size:6
Alignment explanation
Indices: 9712449--9712550 Score: 114
Period size: 6 Copynumber: 17.0 Consensus size: 6
9712439 GAGGCATGCT
* * * * *
9712449 CAGCAA CAGCAG CATCAG CAGCAA CAACAA CAGCAA CAGCGA CAGCAA
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA
* * * * *
9712497 CAGCAA CAGCAA CAGCAA CAGCAA CAGCCA CAACAC CAGCAG CAGCAG
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA
9712545 CAGCAA
1 CAGCAA
9712551 AGAGAAGGGA
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.45, C:0.35, G:0.19, T:0.01
Consensus pattern (6 bp):
CAGCAA
Found at i:9733309 original size:10 final size:11
Alignment explanation
Indices: 9733294--9733354 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
9733284 CAACTAAATC
9733294 ATTTCTCTC-A
1 ATTTCTCTCAA
*
9733304 ATTTCTCTCTA
1 ATTTCTCTCAA
9733315 ATATTCTCTCAA
1 AT-TTCTCTCAA
*
9733327 ATTCCTCTCAA
1 ATTTCTCTCAA
*
9733338 ATTCCTCTCAA
1 ATTTCTCTCAA
*
9733349 TTTTCT
1 ATTTCT
9733355 ATTTAAAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
10 9 0.20
11 26 0.58
12 10 0.22
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTCTCTCAA
Found at i:9735184 original size:18 final size:18
Alignment explanation
Indices: 9735161--9735198 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9735151 AGATGATGCA
* *
9735161 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
9735179 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
9735197 GT
1 GT
9735199 TTCATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9735677 original size:49 final size:49
Alignment explanation
Indices: 9735623--9735792 Score: 304
Period size: 49 Copynumber: 3.5 Consensus size: 49
9735613 GTTTATATTA
9735623 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
9735672 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
9735721 ATATAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
9735770 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
9735793 AATATTCTTA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 116 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:9738811 original size:105 final size:105
Alignment explanation
Indices: 9738622--9738832 Score: 359
Period size: 106 Copynumber: 2.0 Consensus size: 105
9738612 CGTGGGAGCG
* **
9738622 ATTTCAGAAATTCTTTTGATAAAGCATCCTGCTTAAAGCGTTTTTATACTATTTGCTTTGAAACG
1 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTAAAGCGTTTTTATACTATTTGCTCAGAAACG
*
9738687 TCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAA
66 TCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAA
* *
9738727 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTTAAGTGTTTTTTATACTATTTGCTCAGAAAC
1 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTAAAGCG-TTTTTATACTATTTGCTCAGAAAC
9738792 GTCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAA
65 GTCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAA
9738833 GCGCGTCCAC
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
105 37 0.37
106 62 0.63
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (105 bp):
ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTAAAGCGTTTTTATACTATTTGCTCAGAAACG
TCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAA
Found at i:9738954 original size:125 final size:125
Alignment explanation
Indices: 9738727--9738981 Score: 402
Period size: 125 Copynumber: 2.0 Consensus size: 125
9738717 TGTAGCAAAA
* * *
9738727 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTTAAGTGTTTTTTATACTATTTGCTCAGAAAC
1 ATTTCAGAAACTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCTCAGAAAC
* * * *
9738792 GTCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAAGCGCGTCCACGTAGGAGCG
66 GTCAACTCAAAATTATTTTTTCAGAACCTACTATAGCAAAAACGCATCCACGTAGGAGCG
* *
9738852 ATTTCAGAAATTCTTCTGATAAAGCATCTTGCTTGAAGCGTTTTTTATACTATTTGCTCAGAAAC
1 ATTTCAGAAACTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCTCAGAAAC
* * *
9738917 GTCAACTCAAAATTATTTTTTCAGAACCTACTGTAGCAAAAACTCATCCACGTGGGAGCG
66 GTCAACTCAAAATTATTTTTTCAGAACCTACTATAGCAAAAACGCATCCACGTAGGAGCG
9738977 ATTTC
1 ATTTC
9738982 CTTAATAAAT
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 118 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (125 bp):
ATTTCAGAAACTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCTCAGAAAC
GTCAACTCAAAATTATTTTTTCAGAACCTACTATAGCAAAAACGCATCCACGTAGGAGCG
Found at i:9739695 original size:16 final size:17
Alignment explanation
Indices: 9739673--9739713 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9739663 CTTTTGTAGG
*
9739673 ATTAATATATTAAAATT
1 ATTAATATATGAAAATT
*
9739690 -TTAATA-ATGAAATTT
1 ATTAATATATGAAAATT
9739705 ATTAATATA
1 ATTAATATA
9739714 ATTATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTAATATATGAAAATT
Found at i:9746525 original size:17 final size:17
Alignment explanation
Indices: 9746503--9746542 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
9746493 TTGGGCGAGT
9746503 TAATTTTTTTAAAATTA
1 TAATTTTTTTAAAATTA
9746520 TAATTTTTTTAAAATTA
1 TAATTTTTTTAAAATTA
9746537 T-ATTTT
1 TAATTTT
9746543 AAAAGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTTTTTTAAAATTA
Found at i:9756280 original size:18 final size:18
Alignment explanation
Indices: 9756257--9756311 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
9756247 GAGGGACGTG
9756257 GAGGGAGAGGACA-GGGGA
1 GAGGGAGAGGA-AGGGGGA
9756275 GAGGGAGAGGAAGGGGGA
1 GAGGGAGAGGAAGGGGGA
*
9756293 GAGGGAGAGGGAGGGGGA
1 GAGGGAGAGGAAGGGGGA
9756311 G
1 G
9756312 GTTCGGCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 1 0.03
18 34 0.97
ACGTcount: A:0.31, C:0.02, G:0.67, T:0.00
Consensus pattern (18 bp):
GAGGGAGAGGAAGGGGGA
Found at i:9756312 original size:6 final size:6
Alignment explanation
Indices: 9756257--9756311 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
9756247 GAGGGACGTG
* * *
9756257 GAGGGA GA-GGA CAGGGGA GAGGGA GAGGAA GGGGGA GAGGGA GAGGGA
1 GAGGGA GAGGGA GA-GGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
*
9756305 GGGGGA G
1 GAGGGA G
9756312 GTTCGGCTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
5 4 0.10
6 32 0.80
7 4 0.10
ACGTcount: A:0.31, C:0.02, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:9757715 original size:2 final size:2
Alignment explanation
Indices: 9757708--9757733 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9757698 TCTCCTGTAA
9757708 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9757734 GATAAACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9758437 original size:26 final size:24
Alignment explanation
Indices: 9758395--9758476 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 24
9758385 ATATGGAAGG
9758395 ATATGCAATCTT---AGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
9758416 ATATGCAATCTTAGATATGATAT-AT
1 ATATGCAATCTTAGA-A-GATATGAT
*
9758441 ATA--CAAGCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
9758463 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
9758477 GATTTAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
21 18 0.37
22 3 0.06
23 17 0.35
25 6 0.12
26 5 0.10
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:9758453 original size:23 final size:21
Alignment explanation
Indices: 9758395--9758440 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
9758385 ATATGGAAGG
9758395 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
9758416 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
9758437 ATAT
1 ATAT
9758441 ATACAAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:9758922 original size:3 final size:3
Alignment explanation
Indices: 9758914--9758957 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
9758904 ATTAATTTTG
9758914 TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTAA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA T
9758958 ACCTACATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:9759280 original size:52 final size:51
Alignment explanation
Indices: 9759218--9759317 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 51
9759208 CGTTTTAGAT
**
9759218 TATACTTATATATTTCATT-TTTTTGTAAATGCATGAATATATTTTATATGTA
1 TATACTTATAT-TTTCATTGTTTTCATAAATGCAT-AATATATTTTATATGTA
* * * *
9759270 TATATTTATATTTTCCTTGTTTTCATAAATGCATTATGTATTTTATAT
1 TATACTTATATTTTCATTGTTTTCATAAATGCATAATATATTTTATAT
9759318 ATGTATAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 18 0.44
52 23 0.56
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (51 bp):
TATACTTATATTTTCATTGTTTTCATAAATGCATAATATATTTTATATGTA
Found at i:9763827 original size:4 final size:4
Alignment explanation
Indices: 9763818--9763857 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
9763808 CACTTTGTAC
9763818 TAAA TAAA TAACA T--A TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAA-A TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
9763858 TAAGAGCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
4 29 0.88
5 2 0.06
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:9768432 original size:21 final size:23
Alignment explanation
Indices: 9768388--9768433 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
9768378 GAGGATATAC
*
9768388 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
9768411 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
9768432 AA
1 AA
9768434 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:9768614 original size:19 final size:21
Alignment explanation
Indices: 9768590--9768628 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
9768580 GTTTTCTTTT
*
9768590 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
9768609 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
9768629 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:9768859 original size:3 final size:3
Alignment explanation
Indices: 9768851--9768894 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
9768841 ATTAATTTTG
*
9768851 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTAA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA T
9768895 ACCTACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.78
4 6 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9768859 original size:15 final size:15
Alignment explanation
Indices: 9768835--9768894 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
9768825 GTTTTTAGTC
9768835 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
9768849 TGTTATTATTATTTT
1 TATTATTATTAATTT
*
9768864 TATTATTA-T-ATTA
1 TATTATTATTAATTT
9768877 TA-TATTATTAATTAT
1 TATTATTATTAATT-T
9768892 TAT
1 TAT
9768895 ACCTACATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
12 5 0.14
13 5 0.14
14 7 0.20
15 18 0.51
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:9771045 original size:14 final size:14
Alignment explanation
Indices: 9771022--9771058 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
9771012 TAAACGAAAC
9771022 AGAG-AAGAAAAAG
1 AGAGAAAGAAAAAG
9771035 AGAGAAAGAAAAAG
1 AGAGAAAGAAAAAG
9771049 -GAGAAA-AAAA
1 AGAGAAAGAAAA
9771059 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAAAAAG
Found at i:9771052 original size:15 final size:13
Alignment explanation
Indices: 9771022--9771058 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
9771012 TAAACGAAAC
9771022 AGAGAAGAAAAAG
1 AGAGAAGAAAAAG
9771035 AGAGAAAGAAAAAG
1 AGAG-AAGAAAAAG
9771049 -GAGAA-AAAAA
1 AGAGAAGAAAAA
9771059 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 2 0.09
13 7 0.30
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAAAG
Found at i:9772391 original size:18 final size:18
Alignment explanation
Indices: 9772365--9772399 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9772355 AAAAAGTATT
*
9772365 TTTAGAAAATTTAAAAAC
1 TTTAAAAAATTTAAAAAC
9772383 TTTAAAAAATTTAAAAA
1 TTTAAAAAATTTAAAAA
9772400 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
TTTAAAAAATTTAAAAAC
Found at i:9772400 original size:9 final size:9
Alignment explanation
Indices: 9772325--9772400 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
9772315 AAAAAAGTAT
9772325 TTTAAAAATA
1 TTTAAAAA-A
*
9772335 TTT-TAAAA
1 TTTAAAAAA
*
9772343 TTAAAAAAA
1 TTTAAAAAA
*
9772352 TTAAAAAAGTA
1 TTTAAAAA--A
*
9772363 TTTTTAGAAAA
1 --TTTAAAAAA
*
9772374 TTTAAAAAC
1 TTTAAAAAA
9772383 TTTAAAAAA
1 TTTAAAAAA
9772392 TTTAAAAAA
1 TTTAAAAAA
9772401 AGTATTTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 39 0.74
10 3 0.06
11 2 0.04
13 6 0.11
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:9772413 original size:39 final size:36
Alignment explanation
Indices: 9772308--9772412 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 36
9772298 AAATTAAAAC
*
9772308 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAGTATTTT-AAAA-ATTTAAAAATT-A
9772347 AAAAATTAAAAAAGTATTTTTAGAAAATTTAAAAACTTTA
1 AAAAATTAAAAAAGTA-TTTTA-AAAATTTAAAAA--TTA
9772387 AAAAATTTAAAAAAAGTATTTTAAAA
1 AAAAA-TT-AAAAAAGTATTTTAAAA
9772413 TAAAAAAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
39 25 0.42
40 16 0.27
41 9 0.15
42 9 0.15
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (36 bp):
AAAAATTAAAAAAGTATTTTAAAAATTTAAAAATTA
Found at i:9774332 original size:33 final size:32
Alignment explanation
Indices: 9774287--9774511 Score: 123
Period size: 33 Copynumber: 6.8 Consensus size: 32
9774277 TAATGTTTAA
*
9774287 ATGTAAGACCATAGTTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* * * * * *
9774319 ATGATAAGACCATAACTGGGTTATGACACTATAA
1 ATG-TAAGACCATAGCTGGGCTATGGCATTCT-G
* * * *
9774353 ATGTAAGACCATGGCAGGGCCATGGCAATGCATG
1 ATGTAAGACCATAGCTGGGCTATGGC-ATTC-TG
* *
9774387 -TGTAAGACCATAGCTGAGCTATGACATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* * * * * *
9774418 ATGATAAGATCATAACTGGGTTTTGGCATTATAA
1 ATG-TAAGACCATAGCTGGGCTATGGCATTCT-G
* * * *
9774452 ATGTAAGACTAT-GGTAGGGCCATGGCAATACATG
1 ATGTAAGACCATAGCT-GGGCTATGGC-ATTC-TG
* *
9774486 -TGTAAGACCATAGTTGGACTATGGCA
1 ATGTAAGACCATAGCTGGGCTATGGCA
9774512 CAAAAAGAAC
Statistics
Matches: 137, Mismatches: 45, Indels: 22
0.67 0.22 0.11
Matches are distributed among these distances:
31 2 0.01
32 10 0.07
33 112 0.82
34 11 0.08
35 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTCTG
Found at i:9774393 original size:66 final size:66
Alignment explanation
Indices: 9774284--9774412 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 66
9774274 TGGTAATGTT
** * * * *
9774284 TAAATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACACT
1 TAAATGTAAGACCATAGCAGGGCCATGGCATGCTGATGATAAGACCATAACTGAGCTATGACACT
9774349 A
66 A
* *
9774350 TAAATGTAAGACCATGGCAGGGCCATGGCAATGCATG-TG-TAAGACCATAGCTGAGCTATGACA
1 TAAATGTAAGACCATAGCAGGGCCATGGC-ATGC-TGATGATAAGACCATAACTGAGCTATGACA
9774413 TTCTGATGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 46 0.87
67 5 0.09
68 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (66 bp):
TAAATGTAAGACCATAGCAGGGCCATGGCATGCTGATGATAAGACCATAACTGAGCTATGACACT
A
Found at i:9774508 original size:99 final size:99
Alignment explanation
Indices: 9774288--9774508 Score: 336
Period size: 99 Copynumber: 2.2 Consensus size: 99
9774278 AATGTTTAAA
* *
9774288 TGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACACTATAA
1 TGTAAGACCATAGTTGGACTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTATAA
*
9774353 ATGTAAGACCATGGCAGGGCCATGGCAATGCATG
66 ATGTAAGACCATGGCAGGGCCATGGCAATACATG
* * * * *
9774387 TGTAAGACCATAGCT-GAGCTATGACATTCTGATGATAAGATCATAACTGGGTTTTGGCATTATA
1 TGTAAGACCATAGTTGGA-CTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTATA
* *
9774451 AATGTAAGACTATGGTAGGGCCATGGCAATACATG
65 AATGTAAGACCATGGCAGGGCCATGGCAATACATG
9774486 TGTAAGACCATAGTTGGACTATG
1 TGTAAGACCATAGTTGGACTATG
9774509 GCACAAAAAG
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
98 1 0.01
99 106 0.97
100 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (99 bp):
TGTAAGACCATAGTTGGACTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTATAA
ATGTAAGACCATGGCAGGGCCATGGCAATACATG
Found at i:9774628 original size:24 final size:19
Alignment explanation
Indices: 9774583--9774621 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9774573 GACTTATGTG
9774583 ATTGAATTGAAAGATTTAT
1 ATTGAATTGAAAGATTTAT
9774602 ATTGAATTGAAAGATTTAT
1 ATTGAATTGAAAGATTTAT
9774621 A
1 A
9774622 GATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (19 bp):
ATTGAATTGAAAGATTTAT
Found at i:9777872 original size:41 final size:41
Alignment explanation
Indices: 9777827--9778029 Score: 259
Period size: 41 Copynumber: 5.0 Consensus size: 41
9777817 TTGTATAAAA
* * * * *
9777827 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTC
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
* *
9777868 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATAGATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
*
9777909 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
9777950 CACCGGCACT-AAGCCTGCTAGACATAAAGTCTGAAGTA-A-TT
1 CACCGGCA-TAAAGCCTGCTAGACATAAAGTCTG-A-TACATTT
* * *
9777991 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAAACAT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACAT
9778030 CTTATTTTCA
Statistics
Matches: 145, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 137 0.94
42 2 0.01
43 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
Found at i:9778702 original size:16 final size:17
Alignment explanation
Indices: 9778681--9778715 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9778671 ATCTAATAAT
9778681 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
9778697 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
9778714 TT
1 TT
9778716 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:9788848 original size:3 final size:3
Alignment explanation
Indices: 9788842--9788899 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
9788832 TTTTACAGTA
9788842 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
9788890 TCT TCT TCT T
1 TCT TCT TCT T
9788900 TGTTATTAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:9793763 original size:19 final size:20
Alignment explanation
Indices: 9793726--9793763 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
9793716 ACCTGAAAAT
* *
9793726 GCATTTTAATGACACTCAAA
1 GCATGTTAATGACAATCAAA
9793746 GCATGTTAA-GACAATCAA
1 GCATGTTAATGACAATCAA
9793764 CCTAAAACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
GCATGTTAATGACAATCAAA
Found at i:9796599 original size:30 final size:29
Alignment explanation
Indices: 9796519--9796592 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
9796509 AATTCATGTC
*
9796519 GTCAAAATAATTTTTTTAGAACACATTAT
1 GTCAAAATTATTTTTTTAGAACACATTAT
* * *
9796548 GTTAAATTTATTTTTTTAGAACCCA-TATT
1 GTCAAAATTATTTTTTTAGAACACATTA-T
9796577 GTCAAAATTATTTTTT
1 GTCAAAATTATTTTTT
9796593 CCAGAACAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (29 bp):
GTCAAAATTATTTTTTTAGAACACATTAT
Found at i:9826229 original size:16 final size:15
Alignment explanation
Indices: 9826192--9826230 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 15
9826182 CATTTCAAAC
9826192 TTAAATTTTTTAAAAT
1 TTAAA-TTTTTAAAAT
9826208 TATAAATTTTTAAAAT
1 T-TAAATTTTTAAAAT
9826224 ATTAAAT
1 -TTAAAT
9826231 AAAATTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAATTTTTAAAAT
Found at i:9827445 original size:30 final size:30
Alignment explanation
Indices: 9827411--9827468 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9827401 AAACATTTTA
*
9827411 TTTTCCCCCAAAATTTTTACTCCCTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTCCCAC
* * *
9827441 TTTTCCCCTAAAACTTTTATTCTCTCCC
1 TTTTCCCCCAAAACTTTTACTCCCTCCC
9827469 CATCCCACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCCTCCCAC
Found at i:9829629 original size:31 final size:31
Alignment explanation
Indices: 9829591--9829660 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
9829581 GTTTGCCCAC
9829591 TTTAGTCCATAACGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
* *
9829622 TTTAGTCCCTAATGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
*
9829653 TTCAGTCC
1 TTTAGTCC
9829661 TTTGGACGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTAGTCCATAACGTTATCAGACATTCTCAA
Found at i:9829760 original size:19 final size:18
Alignment explanation
Indices: 9829738--9829780 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
9829728 AAAACCCTTA
9829738 AAAATTGGAAAAAATTATT
1 AAAATTGGAAAAAATTA-T
*
9829757 AAAATAGGAAAAAATTAT
1 AAAATTGGAAAAAATTAT
9829775 AAAATT
1 AAAATT
9829781 ACAATAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (18 bp):
AAAATTGGAAAAAATTAT
Found at i:9830031 original size:15 final size:16
Alignment explanation
Indices: 9829993--9830031 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
9829983 TACATAATGA
*
9829993 AAATAAT-ATTATTTC
1 AAATAATAATCATTTC
9830008 AAATAATAATCATTT-
1 AAATAATAATCATTTC
9830023 AAATAATAA
1 AAATAATAA
9830032 ATACCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATAATCATTTC
Found at i:9831720 original size:72 final size:72
Alignment explanation
Indices: 9831607--9831742 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 72
9831597 TCGGGTTTAG
* *
9831607 AAAATGGGTCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
1 AAAATGGATCATACCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
9831672 TGGGAAA
66 TGGGAAA
* *
9831679 AAAATGGATCATACCCAGTAAGTTAGGACACGAT-TTCTTCTTAATTCCCGGGGTCGTTTAAAAC
1 AAAATGGATCATACCCAGTAAGTTAGGACACGATCTT-TTCTTAATTCCCGAGATCGTTTAAAAC
9831743 ATGAGTTTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 2 0.03
72 57 0.97
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (72 bp):
AAAATGGATCATACCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
TGGGAAA
Found at i:9832149 original size:25 final size:26
Alignment explanation
Indices: 9832121--9832175 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
9832111 AAAGAGATAT
9832121 ATATGTATATAGATATAAATTA-AAA
1 ATATGTATATAGATATAAATTATAAA
* * *
9832146 ATATGTATGTATATATGAATTATAAA
1 ATATGTATATAGATATAAATTATAAA
9832172 ATAT
1 ATAT
9832176 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (26 bp):
ATATGTATATAGATATAAATTATAAA
Found at i:9833881 original size:20 final size:19
Alignment explanation
Indices: 9833858--9833904 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
9833848 GTAAATTTTA
9833858 GTATTTTTATAATGTTTATT
1 GTATTTTTATAAT-TTTATT
*
9833878 GTATTTTTATAATTTTTTT
1 GTATTTTTATAATTTTATT
*
9833897 CTATTTTT
1 GTATTTTT
9833905 TCCTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (19 bp):
GTATTTTTATAATTTTATT
Found at i:9833905 original size:20 final size:20
Alignment explanation
Indices: 9833859--9833904 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
9833849 TAAATTTTAG
*
9833859 TATTTTTATAATGTTTATTG
1 TATTTTTATAATGTTTATTC
*
9833879 TATTTTTATAAT-TTTTTTC
1 TATTTTTATAATGTTTATTC
9833898 TATTTTT
1 TATTTTT
9833905 TCCTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
TATTTTTATAATGTTTATTC
Found at i:9833922 original size:18 final size:19
Alignment explanation
Indices: 9833901--9833942 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
9833891 TTTTTTCTAT
9833901 TTTTTCCTAA-TTTTAAA-A
1 TTTTTCC-AATTTTTAAATA
*
9833919 TTTTTGCAATTTTTAAATA
1 TTTTTCCAATTTTTAAATA
9833938 TTTTT
1 TTTTT
9833943 TTGTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 13 0.62
19 6 0.29
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTCCAATTTTTAAATA
Found at i:9835078 original size:114 final size:114
Alignment explanation
Indices: 9834874--9835196 Score: 533
Period size: 114 Copynumber: 2.9 Consensus size: 114
9834864 TAAGATGTTT
*
9834874 GGGCATAACATGAATCATTTGAAGATGGATAAGTCATCT--AGAGAGGATCTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
9834937 ATACTATAAACATATCTCATTCACCATGGTTAATTTGATCAATACTTTG
66 ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
*
9834986 GGGCATAACATGAATCATTTAAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
9835051 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
66 ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
*** * * *
9835100 ATTCATAACATGAACCATTTGAAGATGGATAGGTAATCTAGAGAGAGGATCTATCACTCAAACTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
9835165 ATACTATAAACATATCTCATTCGCTATGGTTA
66 ATACTATAAACATATCTCATTCGCCATGGTTA
9835197 CTTTAACCAG
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
112 37 0.19
114 159 0.81
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (114 bp):
GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
Found at i:9836479 original size:19 final size:19
Alignment explanation
Indices: 9836455--9836492 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9836445 ATATACATTT
9836455 TACAAAATGGTTGAATATG
1 TACAAAATGGTTGAATATG
* *
9836474 TACAAAGTGGTTTAATATG
1 TACAAAATGGTTGAATATG
9836493 GGCCTGTAGT
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:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (19 bp):
TACAAAATGGTTGAATATG
Found at i:9847608 original size:106 final size:106
Alignment explanation
Indices: 9847483--9847767 Score: 262
Period size: 107 Copynumber: 2.7 Consensus size: 106
9847473 GTTAAACGAG
* * * * *
9847483 AAATCGAAGACCCAG-ACCTTAGGGTACGTTTCCTTAAATTTCCAAACGCAAA-ATATTATC-TA
1 AAATCG-ACACCCAGCACCTTAGGGCACGTTTCCTCAAATTTCC-AACGCAAACAT-TGACCTTA
* * *
9847545 -CTTGAAATTTTTAAAAGGGTATTTAGCC-TTGGTTGAATTGAGAA
63 TCTTAAAATTTTTAAAAGGATATTAAGCCATTGGTTGAA-TGAG-A
* * * * * *
9847589 AAATCGACACCCAGCACCTTAGGGGCATGTTTTCTCGAATTTCCAATGCAAACATTGGCCTTATT
1 AAATCGACACCCAGCACCTTA-GGGCACGTTTCCTCAAATTTCCAACGCAAACATTGACCTTATC
*
9847654 TTAAAATTTTTTAAAGGATATTAAGCCATTTGGTTGAATGAGA
65 TTAAAATTTTTAAAAGGATATTAAGCCA-TTGGTTGAATGAGA
* * * * *
9847697 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCTAAAGC-AACATTG-CCTTAT-T
1 AAATCGACACCCAGCACCTTAGGGCACGTTTCCTCAAATTTCCAACGCAAACATTGACCTTATCT
*
9847759 TGAAATTTT
66 TAAAATTTT
9847768 GTTTTTTGAA
Statistics
Matches: 154, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
104 9 0.06
105 13 0.08
106 28 0.18
107 46 0.30
108 45 0.29
109 4 0.03
110 9 0.06
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (106 bp):
AAATCGACACCCAGCACCTTAGGGCACGTTTCCTCAAATTTCCAACGCAAACATTGACCTTATCT
TAAAATTTTTAAAAGGATATTAAGCCATTGGTTGAATGAGA
Found at i:9847773 original size:108 final size:109
Alignment explanation
Indices: 9847552--9847767 Score: 320
Period size: 108 Copynumber: 2.0 Consensus size: 109
9847542 CTACTTGAAA
* *
9847552 TTTTTAAAAGGGTATTTAGCCTTGGTTGAATTGAGAAAAATCGACACCCAGCACCTTAGGGGCAT
1 TTTTTAAAAGGATATTAAGCCTTGGTTGAATTGAGAAAAATCGACACCCAGCACCTTAGGGGCAT
* *
9847617 GTTTTCTCGAATTTCCAATGCAAACATTGGCCTTATTTTAAAAT
66 GTTTTCTCGAATTTCCAAAGCAAACATTGGCCTTATTTGAAAAT
9847661 TTTTT-AAAGGATATTAAGCCATTTGGTTGAA-TGAG-AAAATCGACACCCAGCACCTTA-GGGC
1 TTTTTAAAAGGATATTAAGCC--TTGGTTGAATTGAGAAAAATCGACACCCAGCACCTTAGGGGC
*
9847722 ATGTTTTCTCGAATTTCTAAAGC-AACATT-GCCTTATTTG-AAAT
64 ATGTTTTCTCGAATTTCCAAAGCAAACATTGGCCTTATTTGAAAAT
9847765 TTT
1 TTT
9847768 GTTTTTTGAA
Statistics
Matches: 100, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
104 7 0.07
105 9 0.09
106 6 0.06
107 25 0.25
108 35 0.35
109 9 0.09
110 9 0.09
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (109 bp):
TTTTTAAAAGGATATTAAGCCTTGGTTGAATTGAGAAAAATCGACACCCAGCACCTTAGGGGCAT
GTTTTCTCGAATTTCCAAAGCAAACATTGGCCTTATTTGAAAAT
Found at i:9849806 original size:44 final size:43
Alignment explanation
Indices: 9849758--9850092 Score: 131
Period size: 43 Copynumber: 7.8 Consensus size: 43
9849748 AAAATTCACC
*
9849758 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* * *
9849802 ATCTTCAA-CTTACTCCACTA-TGCTTAGGGAGATAGGA-C-TA
1 ATCTTCAATC-TGCTCCACTACTGCTTAGGGAGACAGAATCGTA
* * * * * *
9849842 ATAGCTTAAATCTGCTTCTA-TACTG-TATTGGGA-AGATAATAGTCA
1 AT--CTTCAATCTGC-TCCACTACTGCT-TAGGGAGACAGAATCGT-A
* * *
9849887 CCATCTTCGATTTGCTCCACTA-TGCTTAGGGAGACAGAATCTGCA
1 --ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* * * *
9849932 ATCTTCAACCTACTCCACTACTG-TTA-GGAGATAGGA-C-TA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATCGTA
* * * * * * * * * ***
9849971 ATGGCTTAAATATGCTTCTCCACTG-TATTGGAAGATAAGATTCACC
1 AT--CTTCAATCTGCTCCACTACTGCT-TAGGGAGA-CAGAATCGTA
** *
9850017 ATCTTTGATCTGCT-CACTACTGCTTAGGGAGACAGAATCTGCA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* *
9850060 ATCTTCAACCTACTCCACTACTGCTTAGGGAGA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGA
9850093 TAGGACTAAT
Statistics
Matches: 207, Mismatches: 57, Indels: 54
0.65 0.18 0.17
Matches are distributed among these distances:
39 3 0.01
40 4 0.02
41 16 0.08
42 28 0.14
43 73 0.35
44 59 0.29
45 19 0.09
46 3 0.01
47 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATCGTA
Found at i:9850058 original size:128 final size:132
Alignment explanation
Indices: 9849737--9850158 Score: 685
Period size: 130 Copynumber: 3.2 Consensus size: 132
9849727 TCCCTACTAC
* *
9849737 ATTGGGAAGATAAAATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
* * **
9849802 ATCTTCAACTTACTCCACTA-TGCTTAGGGAGATAGGACTAATAGCTTAAATCTGCTTCTATACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
9849866 GT
131 GT
* * *
9849868 ATTGGGAAGATAATAGTCACCATCTTCGATTTGCTCCACTA-TGCTTAGGGAGACAGAATCTGCA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
*
9849932 ATCTTCAACCTACTCCACTACTG-TTA-GGAGATAGGACTAATGGCTTAAATATGCTTCTCCACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
9849995 GT
131 GT
*
9849997 ATT-GGAAGATAAGATTCACCATCTTTGATCTGCT-CACTACTGCTTAGGGAGACAGAATCTGCA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
9850060 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
9850125 GT
131 GT
**
9850127 ATTGGGAAGATAAGATTTGCCATCTTCGATCT
1 ATTGGGAAGATAAGATTCACCATCTTCGATCT
9850159 ACCCACGCAA
Statistics
Matches: 269, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
127 5 0.02
128 73 0.27
129 41 0.15
130 85 0.32
131 65 0.24
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (132 bp):
ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
GT
Found at i:9850462 original size:215 final size:212
Alignment explanation
Indices: 9850134--9850529 Score: 584
Period size: 215 Copynumber: 1.9 Consensus size: 212
9850124 TGTATTGGGA
9850134 AGATAAGATTTGCCATCTTCGATCTACCCACGCAACTTCAGGGGGATAGACCTGCTTACTCAGTC
1 AGATAAGATTTGCCATCTTCGATCTACCCACGCAACTTCAGGGGGATAGACCTGCTTACTCAGTC
**
9850199 TACTCTGCTGCAACTTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGA
66 TACTCCACTGCAACTTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGA
* *
9850264 TACGATCTACT-ACTTTAATCCGCTCC-TCTGTAACTTTAGGGAGATAGGATTAGCTTCAATCTG
131 TAAGATCT-CTGACTTTAATCCGCTCCAT-TGTAACTTCAGGGAGATAGGATTAGCTTCAATCTG
9850327 CTTCACTACAACCTCAGGG
194 CTTCACTACAACCTCAGGG
* * *
9850346 AGATAAGGTTTGCCATCTTC-AGTCTGCCCCGCTGCAACTTCAGGGGGATAAGACCTGCTTACTC
1 AGATAAGATTTGCCATCTTCGA-TCT-ACCCAC-GCAACTTCAGGGGGAT-AGACCTGCTTACTC
* * * *
9850410 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTACTCTACTGCAACTTCAG
62 AGTCTACTCCACTGCAACTTCAGGGAGATAAGACCT-AATGCGATCCACTCTACTGCAACTTCAG
**
9850474 AGAGATAAGATCTCTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATT
126 AGAGATAAGATCTCTGACTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATT
9850530 TATTTCTTTC
Statistics
Matches: 164, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
211 1 0.01
212 22 0.13
213 4 0.02
214 20 0.12
215 116 0.71
216 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (212 bp):
AGATAAGATTTGCCATCTTCGATCTACCCACGCAACTTCAGGGGGATAGACCTGCTTACTCAGTC
TACTCCACTGCAACTTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGA
TAAGATCTCTGACTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTAGCTTCAATCTGCT
TCACTACAACCTCAGGG
Found at i:9850504 original size:85 final size:85
Alignment explanation
Indices: 9850415--9850780 Score: 221
Period size: 85 Copynumber: 4.3 Consensus size: 85
9850405 TACTCAGTCT
* *
9850415 GCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTACTCTACTGCAACTTCAGAGAGA
1 GCTCCACTGTAACTTCAGGGAGATAAGACCTGGATGTGATCTACTCCACTGCAACTTCAGAGAGA
9850479 TAAGATCTCTGGTTTTAATCC
66 TAAGAT-TCTGGTTTTAATCC
* * ** *** * * *
9850500 GCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG-TCTGCTCCACTGCAACTTCAGGG
1 GCTCCACTGTAACTTCAGGGAGATAAGA--CCTGGATGT-GATCTACTCCACTGCAACTTCAGAG
* * * *
9850564 AGATAAGA--CTGGATGTGATCT
63 AGATAAGATTCTGGTTTTAATCC
* * ** * * * **
9850585 GCTCTCTACTGCAACTTCAGAGA-ATAAGATTTGTGGTTTAATCCGCTCCACTGC-ACTTCAGTA
1 GCTC-C-ACTGTAACTTCAGGGAGATAAGACCTG-GATGTGATCTACTCCACTGCAACTTCAG-A
* * * ** *
9850648 -AGATAGGATTAAT-TTCTTTCGTCT
62 GAGATAAGATT-CTGGT-TTTAATCC
* * * * *
9850672 GCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGA
1 GCTCCACTGTAACTTCAGGGAGATAAGACCTGGATGTGATCTACTCCACTGCAACTTCAGAGAGA
*
9850736 TAAGATCTGTGGTTTTAATCC
66 TAAGAT-TCTGGTTTTAATCC
*
9850757 G-TCCATTGTAACTTCAGGGAGATA
1 GCTCCACTGTAACTTCAGGGAGATA
9850781 GGATTTATTT
Statistics
Matches: 209, Mismatches: 54, Indels: 37
0.70 0.18 0.12
Matches are distributed among these distances:
84 49 0.23
85 89 0.43
86 16 0.08
87 23 0.11
88 31 0.15
89 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (85 bp):
GCTCCACTGTAACTTCAGGGAGATAAGACCTGGATGTGATCTACTCCACTGCAACTTCAGAGAGA
TAAGATTCTGGTTTTAATCC
Found at i:9850735 original size:128 final size:129
Alignment explanation
Indices: 9850411--9851038 Score: 816
Period size: 128 Copynumber: 4.9 Consensus size: 129
9850401 TGCTTACTCA
9850411 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGAG
* * * *
9850476 AGATAAGATCTCTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTAATTTCTTTC
*
9850540 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTCTACTGCAACTTCAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCT--ACTCTACTGCAACTTCAG
* * *
9850605 AGA-ATAAGATTTGTGG-TTTAATCCGCTCCACTG-CACTTCAGTAAGATAGGATTAATTTCTTT
64 AGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTAATTTCTTT
9850667 C
129 C
* * * * *
9850668 GTCTGCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTACTCTACTGCAACTTCAGA
* * *
9850732 GAGATAAGATCTGTGGTTTTAATCCG-TCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
65 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTAATTTCTTTC
* *
9850796 GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGAG
* * * *
9850861 AAATAAGATCTATGGTTTTAAT-C-CACCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTAATTTCTTTC
* * ** * *
9850923 GTCTGC-CCACTGTAACCTCAGGGAGATAAGACCT-GATACGATCTGCTCTACTGTAACTTC--A
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTACTCTACTGCAACTTCAGA
* ** *
9850984 GAGATGAGATCCT-TTATTTTAATTCCGCTCCACTGTAACTTCA--AGGATAGGATTA
65 GAGATAAGAT-CTGTGGTTTTAA-TCCGCTCCACTGTAACTTCAGGAAGATAGGATTA
9851039 CTAGCTTCAA
Statistics
Matches: 439, Mismatches: 47, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
124 16 0.04
125 14 0.03
126 65 0.15
127 76 0.17
128 174 0.40
129 63 0.14
130 11 0.03
131 20 0.05
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (129 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGAG
AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTAATTTCTTTC
Found at i:9850838 original size:256 final size:256
Alignment explanation
Indices: 9850411--9851026 Score: 953
Period size: 254 Copynumber: 2.4 Consensus size: 256
9850401 TGCTTACTCA
* * * *
9850411 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTACTCTACTGCAACTTCAGA
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGA
9850475 GAGATAAGATCTCTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
65 GAGATAAGATCTCTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
*
9850540 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTCTACTGCAACTTCAG
130 GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTG--CTCTACTGCAACTTCAG
* * * *
9850605 AG-AATAAGATTTGTGG-TTTAATCCGCTCCACTGC-ACTTCAGTAAGATAGGATTAATTTCTTT
193 AGAAATAAGATCTATGGTTTTAAT-C-CACCACTGCAACTTCAGGAAGATAGGATTAATTTCTTT
9850667 C
256 C
*
9850668 GTCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
*
9850733 AGATAAGATCTGTGGTTTTAATCCG-TCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG
66 AGATAAGATCTCTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG
9850797 TCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
131 TCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
9850862 AATAAGATCTATGGTTTTAATCCACCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
196 AATAAGATCTATGGTTTTAATCCACCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
* *
9850923 GTCTGC-CCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTC--AG
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
* ** *
9850985 AGATGAGATC-CTTTATTTTAATTCCGCTCCACTGTAACTTCA
66 AGATAAGATCTC-TGGTTTTAA-TCCGCTCCATTGTAACTTCA
9851027 AGGATAGGAT
Statistics
Matches: 333, Mismatches: 19, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
252 18 0.05
253 4 0.01
254 92 0.28
255 47 0.14
256 89 0.27
257 81 0.24
258 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (256 bp):
GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
AGATAAGATCTCTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG
TCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
AATAAGATCTATGGTTTTAATCCACCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
Found at i:9851469 original size:46 final size:45
Alignment explanation
Indices: 9850416--9851524 Score: 320
Period size: 44 Copynumber: 25.7 Consensus size: 45
9850406 ACTCAGTCTG
* * *
9850416 CTCCACTGCAACTTCAGGGAGATAAGA-CTGGA-T-GT-GATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
* * * * * **
9850457 CTCTACTGCAACTTCAGAGAGATAAGATCTCTG-GTT-TT-AATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGA--TCTGAATTCTTCGATCTA
* * * * *
9850501 CTCCATTGTAACTTCAGGGAGATAGGAT-TTATTTCTTTCG-TCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTC-TTCGATCTA
* * * *
9850545 CTCCACTGCAACTTCAGGGAGATAAGA-CTGGA-T-GT-GATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
* * * ** ** **
9850586 CTCTCTACTGCAACTTCAGAGA-ATAAGATTTG--TGGTTTAATCCG
1 CTC-C-ACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
* ** * *
9850630 CTCCACTG-CACTTCAGTAAGATAGGAT-T-AATTTCTTTCG-TCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAA-TTC-TTCGATCTA
* * * *
9850673 CTCCACTGTAACCTCAGAGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
* * ** *
9850714 CTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATC--
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCGATCTA
* * * * *
9850756 CGTCCATTGTAACTTCAGGGAGATAGGAT-TTATTTCTTTCG-TCTG
1 C-TCCACTGTAACTTCAGGGAGATAAGATCTGAATTC-TTCGATCTA
** * * *
9850801 CTCCACTACAACTTCAGGGAGATAAGA-CTGGA-T-GT-GATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
* * * * **
9850842 CTCTACTGCAACTTCAGAGAAATAAGATCT--ATGGT-TTTAATC--
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT--TCTTCGATCTA
* * * * *
9850884 CACCACTGCAACTTCAGGAAGATAGGAT-T-AATTTCTTTCG-TCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAA-TTC-TTCGATCTA
* * * *
9850928 C-CCACTGTAACCTCAGGGAGATAAGACCTG-A---TACGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
* * ** * **
9850968 CTCTACTGTAACTTCA--GAGATGAGATCCTTTATT-TT-AATTCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCGA-TCTA
* * * * *
9851011 CTCCACTGTAACTTCA-AG-GATAGGAT-T-ACTAGCTTCAATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCGATCTA
* * * *
9851053 CT-CGCTGTAA-TCTCAGGGAGATAAGATCT--CTGGCTTC-ATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTGAAT-TCTTCGATCTA
* * * *
9851095 CTCCACTGTAACCTCAGGGAGATAAGA--T-AGTGTCTTGGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCGATCTA
* * *
9851138 CTCCGCTGTAA-TCTCAGGGAGATAAAATCTGAATTCTTCGGTCTA
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTGAATTCTTCGATCTA
* * *
9851183 CTCTACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
* * * * *
9851228 CTCCACTGTAACCTCAGGGAGAAAAGACCTG-A---TGCGATATA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
** * * *
9851269 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTG-ATT-TT-AATCCA
1 CTCCACTGTAACTTCAGGGAGATAAGAT-C-TGAATTCTTCGATCTA
* * * *
9851313 CTCCACTGTAATCTT-AGGGAGATAGGAT-T-ACTATCTTCAATCTG
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCTGAAT-TCTTCGATCTA
* * * * * *
9851357 CTCCGCTGTAA-TCTCATGGAGATAAGATCT--CTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTGAAT-TCTTCGATCTA
* * *
9851401 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCGATCTA
* * * *
9851447 CTCCACTGTAACTTCAGAGAGATAAGGTTTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCGATCTA
* *
9851493 CTCCACTGTAACCTCAGGGAGATAAGACCTGA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGA
9851525 TGCGATCTAC
Statistics
Matches: 806, Mismatches: 172, Indels: 176
0.70 0.15 0.15
Matches are distributed among these distances:
39 11 0.01
40 15 0.02
41 161 0.20
42 71 0.09
43 182 0.23
44 203 0.25
45 87 0.11
46 75 0.09
47 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCGATCTA
Found at i:9851572 original size:263 final size:263
Alignment explanation
Indices: 9851057--9851651 Score: 858
Period size: 263 Copynumber: 2.3 Consensus size: 263
9851047 AATCTACTCG
* ** * * *
9851057 CTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC-ATCTGCTCCACTGTAACCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAA
** * ** * *
9851120 GAT-AGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCTGAATTCTTCGGTCTAC
65 GATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAATTCTTCGGTCTAC
* *
9851184 TCTACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAG
130 TCCACTGTAACCTCAGAGAGATAAGATCTGAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAG
* *
9851249 AAAAGACCTGATGCGATATACTCTGCTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCCAC
195 AAAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTTGATTTTAATCCAC
9851314 TCCA
260 TCCA
* *
9851318 CTGTAATCTTAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCATGGAGATAAG
1 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAG
* *
9851383 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTAC
66 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTG-AATTCTTCGGTCTAC
* * *
9851448 TCCACTGTAACTTCAGAGAGATAAGGTTTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
130 TCCACTGTAACCTCAGAGAGATAAGATCTG-AATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
* * *
9851513 GATAAGACCTGATGCGATCTACTCTACTGT-A-TTCAGAAAGATAAGATCCTTGATTTTAATCCG
194 GAAAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTTGATTTTAATCCA
9851576 CTCCA
259 CTCCA
* * *
9851581 CTGTAATCTCAAGGAGATAGGATTATTATATTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAG
1 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAG
9851646 ATCTCT
66 ATCTCT
9851652 AATATTCACT
Statistics
Matches: 298, Mismatches: 31, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
260 1 0.00
261 27 0.09
262 30 0.10
263 139 0.47
264 40 0.13
265 61 0.20
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (263 bp):
CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAG
ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAATTCTTCGGTCTACT
CCACTGTAACCTCAGAGAGATAAGATCTGAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGA
AAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTTGATTTTAATCCACT
CCA
Found at i:9863589 original size:70 final size:70
Alignment explanation
Indices: 9863476--9863608 Score: 205
Period size: 70 Copynumber: 1.9 Consensus size: 70
9863466 TCAAACTCAT
* *
9863476 GTTTTAAACGACCCCGGGATTAAGAAGAAATCGTGTCCTAACTTACTGGGTATGATCCATTTTTT
1 GTTTTAAACGACCCCGGGATTAAGAAGAAATCGTGTCCTAACTTACTGGGCATGACCCATTTTTT
9863541 TCCCA
66 TCCCA
* * *
9863546 GTTTTAAACGATCTCGGGAATTAAGAA-AGATCGTGTCCTAACTTACTGGGCATGACCCATTTT
1 GTTTTAAACGACCCCGGG-ATTAAGAAGAAATCGTGTCCTAACTTACTGGGCATGACCCATTTT
9863609 CTAAACCCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 49 0.86
71 8 0.14
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (70 bp):
GTTTTAAACGACCCCGGGATTAAGAAGAAATCGTGTCCTAACTTACTGGGCATGACCCATTTTTT
TCCCA
Found at i:9864312 original size:27 final size:27
Alignment explanation
Indices: 9864253--9864320 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
9864243 TTTTAAAAAG
*
9864253 TTTTTAGTAATTTTTTATATTTTATATA
1 TTTTTAGTAA-TTTATATATTTTATATA
* * * *
9864281 CTTTTAGTAATTTATATTTTTTCTCTA
1 TTTTTAGTAATTTATATATTTTATATA
*
9864308 TTTTTAATAATTT
1 TTTTTAGTAATTT
9864321 TGTAAATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTTAGTAATTTATATATTTTATATA
Found at i:9865426 original size:20 final size:19
Alignment explanation
Indices: 9865387--9865423 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9865377 ATTGTAATTT
*
9865387 ATAATTTTTTCCTATTTTA
1 ATAATTTTTTCCAATTTTA
9865406 ATAATTTTTTCCAATTTT
1 ATAATTTTTTCCAATTTT
9865424 TAAGGGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATTTTTTCCAATTTTA
Found at i:9865543 original size:30 final size:30
Alignment explanation
Indices: 9865500--9865568 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
9865490 AACGTCCAAA
*
9865500 GGACTGAATTGAGAATGTCTGATAACATTAG
1 GGACT-AAATGAGAATGTCTGATAACATTAG
* *
9865531 GGACTAAATGAGAATGTCTGATAACGTTAT
1 GGACTAAATGAGAATGTCTGATAACATTAG
9865561 GGACTAAA
1 GGACTAAA
9865569 GTGGGCAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (30 bp):
GGACTAAATGAGAATGTCTGATAACATTAG
Found at i:9867608 original size:31 final size:31
Alignment explanation
Indices: 9867570--9867639 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
9867560 GTTTGCCCAC
9867570 TTTAGTCCATAACGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
* *
9867601 TTTAGTCCCTAATGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
*
9867632 TTCAGTCC
1 TTTAGTCC
9867640 TTTGGACGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTAGTCCATAACGTTATCAGACATTCTCAA
Found at i:9867738 original size:19 final size:18
Alignment explanation
Indices: 9867716--9867758 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
9867706 AAAACCCTTA
9867716 AAAATTGGAAAAAATTATT
1 AAAATTGGAAAAAATTA-T
*
9867735 AAAATAGGAAAAAATTAT
1 AAAATTGGAAAAAATTAT
9867753 AAAATT
1 AAAATT
9867759 ACAATAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (18 bp):
AAAATTGGAAAAAATTAT
Found at i:9869662 original size:72 final size:72
Alignment explanation
Indices: 9869549--9869684 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 72
9869539 TCGGGTTTAG
* *
9869549 AAAATGGGTCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
1 AAAATGGATCATACCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
9869614 TGGGAAA
66 TGGGAAA
* *
9869621 AAAATGGATCATACCCAGTAAGTTAGGACACGAT-TTCTTCTTAATTCCCGGGGTCGTTTAAAAC
1 AAAATGGATCATACCCAGTAAGTTAGGACACGATCTT-TTCTTAATTCCCGAGATCGTTTAAAAC
9869685 ATGAGTTTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 2 0.03
72 57 0.97
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (72 bp):
AAAATGGATCATACCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
TGGGAAA
Found at i:9870091 original size:25 final size:26
Alignment explanation
Indices: 9870063--9870117 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
9870053 AAAGAGATAT
9870063 ATATGTATATAGATATAAATTA-AAA
1 ATATGTATATAGATATAAATTATAAA
* * *
9870088 ATATGTATGTATATATGAATTATAAA
1 ATATGTATATAGATATAAATTATAAA
9870114 ATAT
1 ATAT
9870118 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (26 bp):
ATATGTATATAGATATAAATTATAAA
Found at i:9871816 original size:20 final size:19
Alignment explanation
Indices: 9871793--9871839 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
9871783 GTAAATTTTA
9871793 GTATTTTTATAATGTTTATT
1 GTATTTTTATAAT-TTTATT
*
9871813 GTATTTTTATAATTTTTTT
1 GTATTTTTATAATTTTATT
*
9871832 CTATTTTT
1 GTATTTTT
9871840 TCCTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (19 bp):
GTATTTTTATAATTTTATT
Found at i:9871840 original size:20 final size:20
Alignment explanation
Indices: 9871794--9871839 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
9871784 TAAATTTTAG
*
9871794 TATTTTTATAATGTTTATTG
1 TATTTTTATAATGTTTATTC
*
9871814 TATTTTTATAAT-TTTTTTC
1 TATTTTTATAATGTTTATTC
9871833 TATTTTT
1 TATTTTT
9871840 TCCTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
TATTTTTATAATGTTTATTC
Found at i:9871857 original size:18 final size:19
Alignment explanation
Indices: 9871836--9871877 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
9871826 TTTTTTCTAT
9871836 TTTTTCCTAA-TTTTAAA-A
1 TTTTTCC-AATTTTTAAATA
*
9871854 TTTTTGCAATTTTTAAATA
1 TTTTTCCAATTTTTAAATA
9871873 TTTTT
1 TTTTT
9871878 TTGTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 13 0.62
19 6 0.29
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTCCAATTTTTAAATA
Found at i:9873014 original size:114 final size:114
Alignment explanation
Indices: 9872810--9873132 Score: 533
Period size: 114 Copynumber: 2.9 Consensus size: 114
9872800 TAAGATGTTT
*
9872810 GGGCATAACATGAATCATTTGAAGATGGATAAGTCATCT--AGAGAGGATCTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
9872873 ATACTATAAACATATCTCATTCACCATGGTTAATTTGATCAATACTTTG
66 ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
*
9872922 GGGCATAACATGAATCATTTAAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
9872987 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
66 ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
*** * * *
9873036 ATTCATAACATGAACCATTTGAAGATGGATAGGTAATCTAGAGAGAGGATCTATCACTCAAACTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
9873101 ATACTATAAACATATCTCATTCGCTATGGTTA
66 ATACTATAAACATATCTCATTCGCCATGGTTA
9873133 CTTTAACCAG
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
112 37 0.19
114 159 0.81
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (114 bp):
GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
Found at i:9874420 original size:20 final size:20
Alignment explanation
Indices: 9874395--9874434 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9874385 ATATACATTT
9874395 TACAAAATGGTTGAATATGG
1 TACAAAATGGTTGAATATGG
* *
9874415 TACAAAGTGGTTTAATATGG
1 TACAAAATGGTTGAATATGG
9874435 GCCTGTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (20 bp):
TACAAAATGGTTGAATATGG
Found at i:9886042 original size:109 final size:110
Alignment explanation
Indices: 9885810--9886104 Score: 412
Period size: 109 Copynumber: 2.7 Consensus size: 110
9885800 GTTAAACGAG
* * * * ** * * ** *
9885810 AAATCGAAACCCAGCACCTTAGGGTACGTTTCCTTAAATTTCCAAACGCAAAATATTATCTTACT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
* * *
9885875 TCGAAATTTTTAAAAAGGGTATTTAGCCATTTGGTTGAATGAGAA
66 TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
*
9885920 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
* *
9885985 TTAAAATTTTT-TAAAGGATATTAAGCCATTTGGTTGAATGAGAA
66 TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
*
9886029 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCTAAAAGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
*
9886094 TGAAAATTTTT
66 TCAAAATTTTT
9886105 GTTTTTGAAA
Statistics
Matches: 166, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 103 0.62
110 63 0.38
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
Found at i:9886597 original size:3 final size:3
Alignment explanation
Indices: 9886589--9886624 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
9886579 TAGATGAGGA
*
9886589 AAT AAT AAT AACT AAT AAT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
9886625 AGATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:9886635 original size:15 final size:15
Alignment explanation
Indices: 9886589--9886624 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
9886579 TAGATGAGGA
*
9886589 AATAATAATAACTAAT
1 AATAACAATAA-TAAT
9886605 AATAACAATAATAAT
1 AATAACAATAATAAT
9886620 AATAA
1 AATAA
9886625 AGATGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACAATAATAAT
Found at i:9888204 original size:126 final size:125
Alignment explanation
Indices: 9888058--9888335 Score: 343
Period size: 126 Copynumber: 2.2 Consensus size: 125
9888048 CTTCCTATAC
*
9888058 ATTGGGAAGATAAAATTCACCATCTTCGATCTGCT-CACTA-CTGCTTAGGGAGACAG-ATCTG-
1 ATTGGGAA-ATAAGA-TCACCATCTTCGATCTGCTCCAC-AGCTGC-TAGGGAGACAGAATCTGC
* * * *
9888119 TATCTTCAACTTACTCCACTA-TGCTTAGGGAGATAGGACTAATAGCTTAAATCTGCTTCTATAC
62 AATCTTC-ACCTACTCCACTACTGCTTAGGGAGATAGGACT-ATAGCTT-AATATGCTTCT-CAC
9888183 TGT
123 TGT
* *
9888186 ATTGGGAAATATAG-TCACCATCTTCGATTTGCTCCACAGTTGCTAGGGAGACAGAATCTGCAAT
1 ATTGGGAAATA-AGATCACCATCTTCGATCTGCTCCACAGCTGCTAGGGAGACAGAATCTGCAAT
*
9888250 CTTCACCTACTCCACTACTGCTTAGGGAGATAGGACTATGGCTTAATATGCTTCTCACTGT
65 CTTCACCTACTCCACTACTGCTTAGGGAGATAGGACTATAGCTTAATATGCTTCTCACTGT
*
9888311 ATTGGGAGATAAGATTCACCATCTT
1 ATTGGGAAATAAGA-TCACCATCTT
9888336 TGAGATCCTG
Statistics
Matches: 133, Mismatches: 9, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
124 2 0.02
125 15 0.11
126 50 0.38
127 32 0.24
128 34 0.26
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (125 bp):
ATTGGGAAATAAGATCACCATCTTCGATCTGCTCCACAGCTGCTAGGGAGACAGAATCTGCAATC
TTCACCTACTCCACTACTGCTTAGGGAGATAGGACTATAGCTTAATATGCTTCTCACTGT
Found at i:9888588 original size:41 final size:41
Alignment explanation
Indices: 9888542--9888869 Score: 152
Period size: 41 Copynumber: 7.8 Consensus size: 41
9888532 ATTTCTTTCG
* *
9888542 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATTTGA
* * *
9888583 TCTGCTCTCTACTGCAACTTCAGAGA-ATAAGATTTGTGGTTTAA
1 TCTGCTC-C-ACTGCAACTTCAGAGAGATAAGA-CTG-GATTTGA
* * **
9888627 TCCGCTCCACTGC-ACTTCAGTA-AGATAGGA-TTAATTTCTTTCG-
1 TCTGCTCCACTGCAACTTCAG-AGAGATAAGACTGGA----TTT-GA
* * **
9888670 TCTGCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTGGATTTGA
* * * * *
9888711 TCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-C--TGGATTTGA
* * * * * **
9888755 TCCG-TCCATTGTAACTTCAGGGAGATAGGA-TTTATTTCTTTCG-
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGA----TTT-GA
* * *
9888798 TCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATTTGA
* *
9888839 TCTGCTCTACTGCAACTTCAGAGAAATAAGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA
9888870 TCTATGGTTT
Statistics
Matches: 212, Mismatches: 48, Indels: 54
0.68 0.15 0.17
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 74 0.35
42 18 0.08
43 62 0.29
44 50 0.24
45 3 0.01
46 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATTTGA
Found at i:9888713 original size:128 final size:127
Alignment explanation
Indices: 9888521--9889019 Score: 629
Period size: 128 Copynumber: 3.9 Consensus size: 127
9888511 GAAGGACTAG
* * *
9888521 AGATAGGATTTATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCT
1 AGATAGGATTAATTTCTTTCGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTGGATGCGATCT
* *
9888586 GCTCTCTACTGCAACTTCAGAGAATAAGATTTGTGG-TTTAATCCGCTCCACTGCACTTCAGTA
66 G--CTCTACTGCAACTTCAGAGAATAAGATCTGTGGTTTTAATCCGCTCCACTGCACTTCAGGA
* *
9888649 AGATAGGATTAATTTCTTTCGTCTGCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGATC
1 AGATAGGATTAATTTCTTTCGTCTGCTCCACTGCAACCTCAGGGAGATAAGA-CTGGATGCGATC
* * * * *
9888713 TACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCG-TCCATTGTAACTTCAGGG
65 TGCTCTACTGCAACTTCAGAGA-ATAAGATCTGTGGTTTTAATCCGCTCCACTG-CACTTCAGGA
* * * *
9888777 AGATAGGATTTATTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCT
1 AGATAGGATTAATTTCTTTCGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTGGATGCGATCT
* *
9888842 GCTCTACTGCAACTTCAGAGAAATAAGATCTATGGTTTTAAT-C-CACCACTGCAACTTCAGGA
66 GCTCTACTGCAACTTCAGAG-AATAAGATCTGTGGTTTTAATCCGCTCCACTGC-ACTTCAGGA
* *
9888904 AGATAGGATTAATTTCTTTCGTCTGC-CCACTGTAACCTCAGGGAGATAAGACCT-GATACGATC
1 AGATAGGATTAATTTCTTTCGTCTGCTCCACTGCAACCTCAGGGAGATAAGA-CTGGATGCGATC
* * **
9888967 TGCTCTACTGTAACTTCAGAG-ATGAGATCCT-TTATTTTAATTCCGCTCCACTG
65 TGCTCTACTGCAACTTCAGAGAATAAGAT-CTGTGGTTTTAA-TCCGCTCCACTG
9889020 TAACTTCAAG
Statistics
Matches: 322, Mismatches: 36, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
124 13 0.04
125 3 0.01
126 69 0.21
127 68 0.21
128 166 0.52
129 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (127 bp):
AGATAGGATTAATTTCTTTCGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTGGATGCGATCT
GCTCTACTGCAACTTCAGAGAATAAGATCTGTGGTTTTAATCCGCTCCACTGCACTTCAGGA
Found at i:9888987 original size:254 final size:255
Alignment explanation
Indices: 9888520--9888988 Score: 802
Period size: 254 Copynumber: 1.8 Consensus size: 255
9888510 GGAAGGACTA
*
9888520 GAGATAGGATTTATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATC
1 GAGATAGGATTTATTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATC
* * * *
9888585 TGCTCTCTACTGCAACTTCAGAGAATAAGATTTGTGGTTTAATCCGCTCCACTGCACTTCAGTAA
66 TGC-CTCTACTGCAACTTCAGAGAATAAGATCTATGGTTTAATCCGCACCACTGCACTTCAGGAA
*
9888650 GATAGGATTAATTTCTTTCGTCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTA
130 GATAGGATTAATTTCTTTCGTCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGATACGATCTA
9888715 CTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGTCCATTGTAACTTCAGG
195 CTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGTCCATTGTAACTTCAGG
9888776 GAGATAGGATTTATTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATC
1 GAGATAGGATTTATTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATC
9888841 TG-CTCTACTGCAACTTCAGAGAAATAAGATCTATGGTTTTAAT-C-CACCACTGCAACTTCAGG
66 TGCCTCTACTGCAACTTCAGAG-AATAAGATCTATGG-TTTAATCCGCACCACTGC-ACTTCAGG
*
9888903 AAGATAGGATTAATTTCTTTCGTCTGC-CCACTGTAACCTCAGGGAGATAAGACCTGATACGATC
128 AAGATAGGATTAATTTCTTTCGTCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGATACGATC
*
9888967 TGCTCTACTGTAACTTCAGAGA
193 TACTCTACTGTAACTTCAGAGA
9888989 TGAGATCCTT
Statistics
Matches: 202, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
254 83 0.41
255 47 0.23
256 72 0.36
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (255 bp):
GAGATAGGATTTATTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATC
TGCCTCTACTGCAACTTCAGAGAATAAGATCTATGGTTTAATCCGCACCACTGCACTTCAGGAAG
ATAGGATTAATTTCTTTCGTCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGATACGATCTAC
TCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGTCCATTGTAACTTCAGG
Found at i:9889367 original size:44 final size:44
Alignment explanation
Indices: 9889040--9889653 Score: 256
Period size: 44 Copynumber: 14.1 Consensus size: 44
9889030 GATAGGATTA
* *
9889040 CTAGCTTCAATCTACT-CGCTGTAATCTCAGGGAGATAAGATCT
1 CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
* * *
9889083 CTGGCTTC-ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-A
1 CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
* ** * *
9889125 GT-GTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCT
1 CTAG-CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
** * ** * * *
9889169 GAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGATCT
1 CTA-GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
** * ** * * *
9889214 GAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAAAAGA-C-
1 CTA-GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
* * * * * ** *
9889257 CT-GATGCGATATACTCTGCTGTAA-CTTCAGAGAGATAAGATC-
1 CTAGCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCT
* * * ** * *
9889299 CTTGATTTTAATCCACTCCACTGTAATCTTAGGGAGATAGGAT-T
1 CTAG-CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
* * *
9889343 ACTATCTTCAATCTGCTCCGCTGTAATCTCATGGAGATAAGATCT
1 -CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
* *
9889388 CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
** ** ** * * * *
9889432 GAAATTTTTCGGTCTACTCCACTGTAA-CTTCAGAGAGATAAGGTTT
1 -CTA-GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCT
** * ** * *
9889478 GAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-
1 -CTA-GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
* * * * * **
9889522 CT-GATGCGATCTACTCTACTGT-AT-TCAGAAAGATAAGATC-
1 CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
* * * * * *
9889562 CTTGATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGAT-T
1 CTAG-CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
* ** * *
9889606 ATTATATTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCT
1 -CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
9889651 CTA
1 CTA
9889654 ATATTCACTG
Statistics
Matches: 441, Mismatches: 104, Indels: 51
0.74 0.17 0.09
Matches are distributed among these distances:
39 12 0.03
40 5 0.01
41 44 0.10
42 25 0.06
43 63 0.14
44 142 0.32
45 80 0.18
46 69 0.16
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
Found at i:9889470 original size:46 final size:45
Alignment explanation
Indices: 9888666--9889525 Score: 306
Period size: 43 Copynumber: 19.9 Consensus size: 45
9888656 ATTAATTTCT
* * * *
9888666 TTCG-TCTGCTCCACTGTAACCTCAGAGAGATAAGACCTG-A---
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAATTC
* * * **
9888706 TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTT-
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTC
* * * * *
9888751 TT-AATC--CGTCCATTGTAACTTCAGGGAGATAGGAT-TTATTTC
1 TTCGATCTAC-TCCACTGTAACTTCAGGGAGATAAGATCTGAATTC
* ** *
9888793 TTTCG-TCTGCTCCACTACAACTTCAGGGAGATAAGA-CTGGA-T-
1 -TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAATTC
* * * * * *
9888835 GT-GATCTGCTCTACTGCAACTTCAGAGAAATAAGATCT--ATGGT-
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAAT--TC
** * * * *
9888878 TTTAATC--CACCACTGCAACTTCAGGAAGATAGGAT-T-AATTTC
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAA-TTC
* * *
9888920 TTTCG-TCTGC-CCACTGTAACCTCAGGGAGATAAGACCTG-A---
1 -TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAATTC
* * * * **
9888960 TACGATCTGCTCTACTGTAACTTCA--GAGATGAGATCCTTTATT-
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTC
* ** * * * *
9889003 TT-AATTCCGCTCCACTGTAACTTCA-AG-GATAGGAT-T-ACTAGC
1 TTCGA-TCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TC
* * * *
9889045 TTCAATCTACT-CGCTGTAA-TCTCAGGGAGATAAGATCT--CTGGC
1 TTCGATCTACTCCACTGTAACT-TCAGGGAGATAAGATCTGAAT-TC
* * *
9889088 TTC-ATCTGCTCCACTGTAACCTCAGGGAGATAAGA--T-AGTGTC
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TC
* * * *
9889130 TTGGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAAATCTGAATTC
1 TTCGATCTACTCCACTGTAACT-TCAGGGAGATAAGATCTGAATTC
* * *
9889175 TTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGATCTGAATTC
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAATTC
* * * *
9889220 TTCGGTCTACTCCACTGTAACCTCAGGGAGAAAAGACCTG-A---
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAATTC
* * ** *
9889261 TGCGATATACTCTGCTGTAACTTCAGAGAGATAAGATCCTTG-ATT-
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGAT-C-TGAATTC
* * * *
9889306 TT-AATCCACTCCACTGTAATCTT-AGGGAGATAGGAT-T-ACTATC
1 TTCGATCTACTCCACTGTAA-CTTCAGGGAGATAAGATCTGAAT-TC
* * * * * *
9889349 TTCAATCTGCTCCGCTGTAA-TCTCATGGAGATAAGATCT--CTGGC
1 TTCGATCTACTCCACTGTAACT-TCAGGGAGATAAGATCTGAAT-TC
* * * *
9889393 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTT
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTC
* * * *
9889439 TTCGGTCTACTCCACTGTAACTTCAGAGAGATAAGGTTTGAAATTC
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTC
* * *
9889485 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGA
1 TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGA
9889526 TGCGATCTAC
Statistics
Matches: 626, Mismatches: 128, Indels: 127
0.71 0.15 0.14
Matches are distributed among these distances:
39 11 0.02
40 14 0.02
41 118 0.19
42 51 0.08
43 150 0.24
44 121 0.19
45 85 0.14
46 75 0.12
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
TTCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTGAATTC
Found at i:9889573 original size:263 final size:263
Alignment explanation
Indices: 9889058--9889652 Score: 858
Period size: 263 Copynumber: 2.3 Consensus size: 263
9889048 AATCTACTCG
* ** * * *
9889058 CTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC-ATCTGCTCCACTGTAACCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAA
** * ** * *
9889121 GAT-AGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCTGAATTCTTCGGTCTAC
65 GATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAATTCTTCGGTCTAC
* *
9889185 TCTACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAG
130 TCCACTGTAACCTCAGAGAGATAAGATCTGAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAG
* *
9889250 AAAAGACCTGATGCGATATACTCTGCTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCCAC
195 AAAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTTGATTTTAATCCAC
9889315 TCCA
260 TCCA
* *
9889319 CTGTAATCTTAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCATGGAGATAAG
1 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAG
* *
9889384 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTAC
66 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTG-AATTCTTCGGTCTAC
* * *
9889449 TCCACTGTAACTTCAGAGAGATAAGGTTTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
130 TCCACTGTAACCTCAGAGAGATAAGATCTG-AATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
* * *
9889514 GATAAGACCTGATGCGATCTACTCTACTGT-A-TTCAGAAAGATAAGATCCTTGATTTTAATCCG
194 GAAAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTTGATTTTAATCCA
9889577 CTCCA
259 CTCCA
* * *
9889582 CTGTAATCTCAAGGAGATAGGATTATTATATTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAG
1 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAG
9889647 ATCTCT
66 ATCTCT
9889653 AATATTCACT
Statistics
Matches: 298, Mismatches: 31, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
260 1 0.00
261 27 0.09
262 30 0.10
263 139 0.47
264 40 0.13
265 61 0.20
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (263 bp):
CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAG
ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAATTCTTCGGTCTACT
CCACTGTAACCTCAGAGAGATAAGATCTGAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGA
AAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTTGATTTTAATCCACT
CCA
Found at i:9902660 original size:17 final size:18
Alignment explanation
Indices: 9902638--9902672 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9902628 ATTTGATTTA
9902638 TAAAATTT-TAAAAATAT
1 TAAAATTTCTAAAAATAT
*
9902655 TAAAATTTCTAATAATAT
1 TAAAATTTCTAAAAATAT
9902673 ATTTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATTTCTAAAAATAT
Found at i:9902723 original size:20 final size:18
Alignment explanation
Indices: 9902685--9902745 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
9902675 TTTTTAATTT
* * *
9902685 TTTTTGTAAATTTTAGTA
1 TTTTTATAATTTTTTGTA
9902703 TTTTTATAATGTTTATTGTA
1 TTTTTATAAT-TTT-TTGTA
*
9902723 TTTTTATAATTTTTTCTA
1 TTTTTATAATTTTTTGTA
9902741 TTTTT
1 TTTTT
9902746 TCCTAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 17 0.46
19 6 0.16
20 14 0.38
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.69
Consensus pattern (18 bp):
TTTTTATAATTTTTTGTA
Found at i:9902744 original size:18 final size:20
Alignment explanation
Indices: 9902701--9902745 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
9902691 TAAATTTTAG
*
9902701 TATTTTTATAATGTTTATTG
1 TATTTTTATAATGTTTATTC
9902721 TATTTTTATAAT-TTT-TTC
1 TATTTTTATAATGTTTATTC
9902739 TATTTTT
1 TATTTTT
9902746 TCCTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
20 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TATTTTTATAATGTTTATTC
Found at i:9902763 original size:18 final size:19
Alignment explanation
Indices: 9902742--9902783 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
9902732 TTTTTTCTAT
9902742 TTTTTCCTAA-TTTTAAA-A
1 TTTTTCC-AATTTTTAAATA
*
9902760 TTTTTGCAATTTTTAAATA
1 TTTTTCCAATTTTTAAATA
9902779 TTTTT
1 TTTTT
9902784 TGGAGAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 13 0.62
19 6 0.29
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTCCAATTTTTAAATA
Found at i:9903465 original size:114 final size:111
Alignment explanation
Indices: 9903258--9903577 Score: 488
Period size: 114 Copynumber: 2.9 Consensus size: 111
9903248 AAGTAAGATG
*
9903258 TTTGGGCATAACATGAATCATTTGAAGATGGATAAGTCATCT--AGAGAGGATCTATCACTCAAA
1 TTTGGGCATAACATGAATCATTT-AAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAA
*
9903321 GTGATACTATAAACATATCTCATTCACCATGGTTAATTTGATCAATAC
65 GTGATACTATAAACATATCTCATTCGCCATGGTTAATTTGATC-ATAC
9903369 TTTGGGGCATAACATGAATCATTTAAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAA
1 TTT-GGGCATAACATGAATCATTT-AAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAA
*
9903434 AGTGATACTATAAACATATCTCATTTGCCATGG-TAATTTGATCATAC
64 AGTGATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCATAC
** * * *
9903481 TTTGATCATAACATGAA-CATTTGAGATGGATAGGTAATCTAGAGAGAGGATCTATCACTCAAAC
1 TTTGGGCATAACATGAATCATTTAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAG
*
9903545 TGATACTAT-AACATATCTCATTCGCTATGGTTA
66 TGATACTATAAACATATCTCATTCGCCATGGTTA
9903578 CTTTAACCAG
Statistics
Matches: 194, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
108 19 0.10
109 50 0.26
110 5 0.03
111 15 0.08
112 44 0.23
113 10 0.05
114 51 0.26
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (111 bp):
TTTGGGCATAACATGAATCATTTAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAG
TGATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCATAC
Found at i:9904860 original size:20 final size:20
Alignment explanation
Indices: 9904835--9904874 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9904825 ATATACATTT
9904835 TACAAAATGGTTGAATATGG
1 TACAAAATGGTTGAATATGG
* *
9904855 TACAAAGTGGTTTAATATGG
1 TACAAAATGGTTGAATATGG
9904875 GCCTGTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (20 bp):
TACAAAATGGTTGAATATGG
Found at i:9916434 original size:110 final size:110
Alignment explanation
Indices: 9916252--9916547 Score: 421
Period size: 110 Copynumber: 2.7 Consensus size: 110
9916242 GTTAAACGAG
* * * * ** * * ** *
9916252 AAATCGAAACCCAGCACCTTAGGGTACGTTTCCTTAAATTTCCAAACGCAAAATATTATCTTACT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
* * *
9916317 TCGAAATTTTTAAAAAGGGTATTTAGCCATTTGGTTGAATGAGAA
66 TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
*
9916362 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
* *
9916427 TTAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
66 TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
*
9916472 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCTAAAAGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
*
9916537 TGAAAATTTTT
66 TCAAAATTTTT
9916548 GTTTTTTGAA
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 167 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
Found at i:9916755 original size:22 final size:23
Alignment explanation
Indices: 9916703--9916755 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
9916693 AAATGGACAT
*
9916703 ATAAAT-AAACACATAAATGAAC
1 ATAAATGAAACACATAAATGAAA
9916725 ATAAA-GAAACA-ATAAA-GAAAA
1 ATAAATGAAACACATAAATG-AAA
9916746 ATAAATGAAA
1 ATAAATGAAA
9916756 ATTATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 14 0.52
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.15
Consensus pattern (23 bp):
ATAAATGAAACACATAAATGAAA
Found at i:9917053 original size:3 final size:3
Alignment explanation
Indices: 9917045--9917083 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
9917035 TAGATGAGGA
*
9917045 AAT AAT AAT AAT AACT AAT AAT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
9917084 AAGATGATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:9918722 original size:44 final size:43
Alignment explanation
Indices: 9918674--9919014 Score: 169
Period size: 44 Copynumber: 7.8 Consensus size: 43
9918664 AAAATTCACC
*
9918674 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* * *
9918718 ATCTTCAA-CTTACTCCACTACTGCTTAGGGAGATAGGA-C-TA
1 ATCTTCAATC-TGCTCCACTACTGCTTAGGGAGACAGAATCGTA
* * * * * *
9918759 ATAGCTTAAATCTGCTTCTA-TACTG-TATTGGGA-AGATAATAGTCA
1 AT--CTTCAATCTGC-TCCACTACTGCT-TAGGGAGACAGAATCGT-A
* * * *
9918804 CCATCTTCGATTTGCTCCACTATTGCTTAGGGAGACAGAATCTGCA
1 --ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* * * *
9918850 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGA-C-TA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATCGTA
* * * * * * * * ***
9918891 ATGGCTTAAATATGCTTCTCCACTG-TATTGGGAAGATAAGATTCACC
1 AT--CTTCAATCTGCTCCACTACTGCT-TAGGG-AGA-CAGAATCGTA
** *
9918938 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* *
9918982 ATCTTCAACCTACTCCACTACTGCTTAGGGAGA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGA
9919015 TAGGACTAAT
Statistics
Matches: 215, Mismatches: 58, Indels: 48
0.67 0.18 0.15
Matches are distributed among these distances:
41 7 0.03
42 5 0.02
43 43 0.20
44 107 0.50
45 39 0.18
46 9 0.04
47 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATCGTA
Found at i:9919128 original size:132 final size:132
Alignment explanation
Indices: 9918653--9919080 Score: 730
Period size: 132 Copynumber: 3.2 Consensus size: 132
9918643 TCCCTACTAC
* *
9918653 ATTGGGAAGATAAAATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
* * **
9918718 ATCTTCAACTTACTCCACTACTGCTTAGGGAGATAGGACTAATAGCTTAAATCTGCTTCTATACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
9918783 GT
131 GT
* * * *
9918785 ATTGGGAAGATAATAGTCACCATCTTCGATTTGCTCCACTATTGCTTAGGGAGACAGAATCTGCA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
*
9918850 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATATGCTTCTCCACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
9918915 GT
131 GT
*
9918917 ATTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
9918982 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
9919047 GT
131 GT
**
9919049 ATTGGGAAGATAAGATTTGCCATCTTCGATCT
1 ATTGGGAAGATAAGATTCACCATCTTCGATCT
9919081 ACCCCACAGC
Statistics
Matches: 277, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 277 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (132 bp):
ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
GT
Found at i:9919389 original size:217 final size:218
Alignment explanation
Indices: 9919056--9919456 Score: 596
Period size: 217 Copynumber: 1.8 Consensus size: 218
9919046 TGTATTGGGA
9919056 AGATAAGATTTGCCATCTTCGATCTACCCCACAGCAACTTCAGGGGGATAAGACCTGCTTACTCA
1 AGATAAGATTTGCCATCTTCGATCTACCCCACAGCAACTTCAGGGGGATAAGACCTGCTTACTCA
**
9919121 GTCTACTCTGCTGCAACTTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCAGAG
66 GTCTACTCCACTGCAACTTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCAGAG
* *
9919186 AGATACGATCTACT-ACTTTAATCCGCTCC-TCTGTAACTTTAGGGAGATAGGATTATCGGCTTC
131 AGATAAGATCT-CTGACTTTAATCCGCTCCAT-TGTAACTTCAGGGAGATAGGATTATCGGCTTC
9919249 AATCTGCTTCACTACAACCTCAGGG
194 AATCTGCTTCACTACAACCTCAGGG
* * * *
9919274 AGATAAGGTTTGCCATCTTC-AGTCTGCCCCGCTGCAACTTCA-GGGGATAAGACCTGCTTACTC
1 AGATAAGATTTGCCATCTTCGA-TCTACCCCACAGCAACTTCAGGGGGATAAGACCTGCTTACTC
* * * *
9919337 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTACTCTACTGCAACTTCAG
65 AGTCTACTCCACTGCAACTTCAGGGAGATAAGACCT-AATGCGATCCACTCTACTGCAACTTCAG
* **
9919401 AGAGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATT
129 AGAGATAAGATCTCTGACTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATT
9919457 TATTTCTTTC
Statistics
Matches: 164, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
216 3 0.02
217 124 0.76
218 37 0.23
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (218 bp):
AGATAAGATTTGCCATCTTCGATCTACCCCACAGCAACTTCAGGGGGATAAGACCTGCTTACTCA
GTCTACTCCACTGCAACTTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCAGAG
AGATAAGATCTCTGACTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTATCGGCTTCAA
TCTGCTTCACTACAACCTCAGGG
Found at i:9919432 original size:85 final size:86
Alignment explanation
Indices: 9919342--9920059 Score: 306
Period size: 85 Copynumber: 8.3 Consensus size: 86
9919332 TACTCAGTCT
* *
9919342 GCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTACTCTACTGCAACTTCAGAGAGA
1 GCTCCACTGTAACTTCAGGGAGATAAGATCTGGATGTGATCTACTCCACTGCAACTTCAGAGAGA
9919406 TAAGATCTGTGGTTTTAATCC
66 TAAGATCTGTGGTTTTAATCC
* * * *** * * *
9919427 GCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG-TCTGCTCCACTGCAACTTCAGGG
1 GCTCCACTGTAACTTCAGGGAGATAAGA--TCTGGATGT-GATCTACTCCACTGCAACTTCAGAG
* * * *
9919491 AGATAAGA-C--TGGATGTGATCT
63 AGATAAGATCTGTGGTTTTAATCC
* * * * * * * * **
9919512 GCTCTACTGCAACTTCAGAGAAATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGTA-
1 GCTCCACTGTAACTTCAGGGAGATAAGA--TCTGGATGTGATCTACTCCACTGCAACTTCAG-AG
* * * ** *
9919576 AGATAGGAT-TAAT-TTCTTTCGTCT
63 AGATAAGATCT-GTGGT-TTTAATCC
* * * * * *
9919600 GCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGA
1 GCTCCACTGTAACTTCAGGGAGATAAGATCTGGATGTGATCTACTCCACTGCAACTTCAGAGAGA
9919664 TAAGATCTGTGGTTTTAATCC
66 TAAGATCTGTGGTTTTAATCC
* * * *** * * * *
9919685 GCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG-TCTGCTCCACTACAACTTCAGGG
1 GCTCCACTGTAACTTCAGGGAGATAAGA--TCTGGATGT-GATCTACTCCACTGCAACTTCAGAG
* * * *
9919749 AGATAAGA-C--TGGATGTGATCT
63 AGATAAGATCTGTGGTTTTAATCC
* * * * * * * *
9919770 GCTCTACTGCAACTTCAGAGAAATAAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAG-GA
1 GCTCCACTGTAACTTCAGGGAGATAAGATC--TGGATGTGATCTACTCCACTGCAACTTCAGAG-
* * * ** *
9919834 AGATAGGAT-TAAT-TTCTTTCGTCT
63 AGATAAGATCT-GTGGT-TTTAATCC
* * ** * * *
9919858 GCTCCACTGTAACCTCAGGGAGATAAGACCT-GATACGATCTGCTCTACTGTAACTTCAGAGAGA
1 GCTCCACTGTAACTTCAGGGAGATAAGATCTGGATGTGATCTACTCCACTGCAACTTCAGAGAGA
* **
9919922 TGAGATCCT-TTATTTTAATCC
66 TAAGAT-CTGTGGTTTTAATCC
** * * * * * * *
9919943 GCTCCACTGTAACTTCAAAGAGATAGGATTACTAGCT-TCAATCTACTCCGCTGTAA-TCTCAGG
1 GCTCCACTGTAACTTCAGGGAGATAAGA-T-CTGGATGT-GATCTACTCCACTGCAACT-TCAGA
* * * *
9920006 GAGATAAGATCTCTGGCTTCAATCT
62 GAGATAAGATCTGTGGTTTTAATCC
*
9920031 GCTCCACTGTAACCTCAGGGAGATAAGAT
1 GCTCCACTGTAACTTCAGGGAGATAAGAT
9920060 AGTGTCTTGG
Statistics
Matches: 461, Mismatches: 135, Indels: 72
0.69 0.20 0.11
Matches are distributed among these distances:
83 1 0.00
84 2 0.00
85 263 0.57
86 6 0.01
87 10 0.02
88 177 0.38
89 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (86 bp):
GCTCCACTGTAACTTCAGGGAGATAAGATCTGGATGTGATCTACTCCACTGCAACTTCAGAGAGA
TAAGATCTGTGGTTTTAATCC
Found at i:9919450 original size:44 final size:44
Alignment explanation
Indices: 9919339--9920059 Score: 337
Period size: 44 Copynumber: 16.7 Consensus size: 44
9919329 GCTTACTCAG
* * * *
9919339 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
* * *
9919380 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
* * * * * * * **
9919424 TCCGCTCCATTGTAACTTCAGGGAGATAGGATTTAT-TTCTTTCG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGT-TTTAA
* * * *
9919468 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
* * * *
9919509 TCTGCTCTACTGCAACTTCAGAGAAATAAGATTTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
* * * **
9919553 TCCGCTCCACTGCAACTTCAGTA-AGATAGGAT-TAAT-TTCTTTCG
1 TCTGCTCCACTGCAACTTCAG-AGAGATAAGATCT-ATGGT-TTTAA
* * *
9919597 TCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGATGCG-----A
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-ATG-GTTTTAA
* * * *
9919638 TCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
* * * * * * * **
9919682 TCCGCTCCATTGTAACTTCAGGGAGATAGGATTTAT-TTCTTTCG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGT-TTTAA
* * * * *
9919726 TCTGCTCCACTACAACTTCAGGGAGATAAGA-C--TGGATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
* *
9919767 TCTGCTCTACTGCAACTTCAGAGAAATAAGATCTATGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
** * * **
9919811 TCCACTCCACTGCAACTTCAG-GAAGATAGGAT-TAAT-TTCTTTCG
1 TCTGCTCCACTGCAACTTCAGAG-AGATAAGATCT-ATGGT-TTTAA
* * * * * ***
9919855 TCTGCTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATACGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
* * * **
9919896 TCTGCTCTACTGTAACTTCAGAGAGATGAGATCCT-TTATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT-CTATGGTTTTAA
* * * * * * *
9919940 TCCGCTCCACTGTAACTTCAAAGAGATAGGAT-TACTAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA-TGGTTTTAA
* * * * * * *
9919984 TCTACTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGCAACT-TCAGAGAGATAAGATCTATGGTTTTAA
* * *
9920028 TCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
9920060 AGTGTCTTGG
Statistics
Matches: 507, Mismatches: 134, Indels: 75
0.71 0.19 0.10
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 147 0.29
42 4 0.01
43 11 0.02
44 336 0.66
45 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
Found at i:9919477 original size:129 final size:129
Alignment explanation
Indices: 9919338--9919973 Score: 936
Period size: 129 Copynumber: 4.9 Consensus size: 129
9919328 TGCTTACTCA
*
9919338 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
* *
9919403 AGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAATTTCTTTC
9919467 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
* * * **
9919532 AAATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGTAAGATAGGATTAATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAATTTCTTTC
* * * * * *
9919596 GTCTGCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTGCTCTACTGCAACTTCAGA
* *
9919660 GAGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
65 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAATTTCTTTC
*
9919725 GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
* * * * *
9919790 AAATAAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAATTTCTTTC
* * ** *
9919854 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCT-GATACGATCTGCTCTACTGTAACTTCAGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTGCTCTACTGCAACTTCAGA
* ** **
9919918 GAGATGAGATCCT-TTATTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATTA
65 GAGATAAGAT-CTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTA
9919974 CTAGCTTCAA
Statistics
Matches: 453, Mismatches: 50, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
128 2 0.00
129 445 0.98
130 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (129 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAATTTCTTTC
Found at i:9919997 original size:129 final size:128
Alignment explanation
Indices: 9919338--9920059 Score: 871
Period size: 129 Copynumber: 5.6 Consensus size: 128
9919328 TGCTTACTCA
* * * *
9919338 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
* *
9919403 AGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGA-TTATTTCTTTC
* * *
9919467 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
* * * *
9919532 AAATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTC-AGTAAGATAGGATTAATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAG-GAGATAGGATT-ATTTCTTTC
* * *
9919596 GTCTGCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGA
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGA-CTGGATGCGATCTGCTCTACTGCAACTTCAGA
* *
9919660 GAGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
65 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGA-TTATTTCTTTC
** * *
9919725 GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
* * * *
9919790 AAATAAGATCTATGGTTTTAATCCACTCCACTGCAACTTC-AGGAAGATAGGATTAATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGG-AGATAGGATT-ATTTCTTTC
* *
9919854 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCT-GATACGATCTGCTCTACTGTAACTTCAGA
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGA-CTGGATGCGATCTGCTCTACTGCAACTTCAGA
* ** * **
9919918 GAGATGAGATCCT-TTATTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATTACTAGC-TT
65 GAGATAAGAT-CTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTA-TTTCTTT
9919981 C
128 C
* * * * * * * * * *
9919982 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 -GTCTGCTCCACTGTAACCTCAGGGAGATAAGA---CTGGATGCGATCTGCTCTACTGCAACTTC
*
9920047 AGGGAGATAAGAT
62 AGAGAGATAAGAT
9920060 AGTGTCTTGG
Statistics
Matches: 518, Mismatches: 59, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
128 13 0.03
129 460 0.89
130 11 0.02
131 2 0.00
132 32 0.06
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (128 bp):
GTCTGCTCCACTGTAACCTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTATTTCTTTC
Found at i:9920014 original size:258 final size:258
Alignment explanation
Indices: 9919338--9919972 Score: 1076
Period size: 258 Copynumber: 2.5 Consensus size: 258
9919328 TGCTTACTCA
* * * *
9919338 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTACTCTACTGCAACTTCAGA
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGA
9919402 GAGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
65 GAGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTC
9919467 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
130 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
* * * *
9919532 AAATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGTAAGATAGGATTAATTTCTTTC
195 AAATAAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
*
9919596 GTCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
9919661 AGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG
66 AGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG
*
9919726 TCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
131 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
9919791 AATAAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
196 AATAAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
* *
9919854 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAG
1 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
* ** * **
9919919 AGATGAGATCCT-TTATTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATT
66 AGATAAGAT-CTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATT
9919973 ACTAGCTTCA
Statistics
Matches: 356, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
258 352 0.99
259 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (258 bp):
GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
AGATAAGATCTGTGGTTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTTATTTCTTTCG
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
AATAAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTC
Done.