Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 167 of 318
Found at i:52742805 original size:23 final size:23
Alignment explanation
Indices: 52742779--52742849 Score: 133
Period size: 23 Copynumber: 3.0 Consensus size: 23
52742769 TTAAGGTAGC
52742779 TAAGGGTTAAATTAGCGACGGTA
1 TAAGGGTTAAATTAGCGACGGTA
52742802 TAAGGGTTAAATTAGCGACGGTA
1 TAAGGGTTAAATTAGCGACGGTA
52742825 TTAAGGGTTAAATTAGCGACGGTA
1 -TAAGGGTTAAATTAGCGACGGTA
52742849 T
1 T
52742850 TAAACGGTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
23 24 0.51
24 23 0.49
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (23 bp):
TAAGGGTTAAATTAGCGACGGTA
Found at i:52742865 original size:24 final size:24
Alignment explanation
Indices: 52742779--52742852 Score: 141
Period size: 24 Copynumber: 3.1 Consensus size: 24
52742769 TTAAGGTAGC
52742779 TAAGGGTTAAATTAGCGACGGTA-
1 TAAGGGTTAAATTAGCGACGGTAT
52742802 TAAGGGTTAAATTAGCGACGGTAT
1 TAAGGGTTAAATTAGCGACGGTAT
52742826 TAAGGGTTAAATTAGCGACGGTAT
1 TAAGGGTTAAATTAGCGACGGTAT
52742850 TAA
1 TAA
52742853 ACGGTACATT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 23 0.46
24 27 0.54
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.28
Consensus pattern (24 bp):
TAAGGGTTAAATTAGCGACGGTAT
Found at i:52743651 original size:31 final size:30
Alignment explanation
Indices: 52743594--52743652 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
52743584 GTAAGTACTC
* * * *
52743594 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAAGGACTAAAGTGAAAATATGA
52743624 AAAAGTTGAAGGACTAATAGTGAAAATAT
1 AAAAGTTGAAGGACTAA-AGTGAAAATAT
52743653 TTTAATGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGAAAATATGA
Found at i:52743916 original size:8 final size:8
Alignment explanation
Indices: 52743905--52743936 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
52743895 TTTAATAAGA
52743905 TATTTTAT
1 TATTTTAT
52743913 TA-TTTAT
1 TATTTTAT
52743920 TATTTTAT
1 TATTTTAT
52743928 TATTTTAT
1 TATTTTAT
52743936 T
1 T
52743937 TAGCCTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTAT
Found at i:52747561 original size:20 final size:20
Alignment explanation
Indices: 52747522--52747562 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
52747512 AGGAACTATC
* * *
52747522 CTAGAATTAGGGGATTACAA
1 CTAGAATTAGAGAATCACAA
52747542 CTAGAATTAGAGAATCACAA
1 CTAGAATTAGAGAATCACAA
52747562 C
1 C
52747563 AAATTATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (20 bp):
CTAGAATTAGAGAATCACAA
Found at i:52754756 original size:28 final size:28
Alignment explanation
Indices: 52754718--52754794 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
52754708 AATCAAATAT
* * *
52754718 GGCACTCAGTGTACGAAATATTGAGAAA
1 GGCACTTAGTGTGCGAGATATTGAGAAA
*
52754746 GGCACTTAGTGTGCGAGATATTGAGAAT
1 GGCACTTAGTGTGCGAGATATTGAGAAA
*
52754774 GACACTTAGTGTGCGAGATAT
1 GGCACTTAGTGTGCGAGATAT
52754795 CAAATGATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGATATTGAGAAA
Found at i:52755234 original size:25 final size:25
Alignment explanation
Indices: 52755184--52755234 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
52755174 AAGGTAAGTA
*
52755184 TATGTGCAAAGAATATATTGTGATG
1 TATGTGCAAAGAATATATGGTGATG
* *
52755209 TATGTGGAAATGAA-ATATGGTTATG
1 TATGTGCAAA-GAATATATGGTGATG
52755234 T
1 T
52755235 GCCAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.37
Consensus pattern (25 bp):
TATGTGCAAAGAATATATGGTGATG
Found at i:52759789 original size:22 final size:20
Alignment explanation
Indices: 52759745--52759791 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
52759735 ATTTTTTTAA
* *
52759745 ATTTTTAATATTTAACTGTT
1 ATTTTTAATAATAAACTGTT
52759765 ATTTTTAATGAATAAACATGTT
1 ATTTTTAAT-AATAAAC-TGTT
52759787 ATTTT
1 ATTTT
52759792 CAAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 9 0.39
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTTTAATAATAAACTGTT
Found at i:52761448 original size:104 final size:104
Alignment explanation
Indices: 52761264--52761465 Score: 287
Period size: 104 Copynumber: 1.9 Consensus size: 104
52761254 TGAGTCACAT
* * * * *
52761264 GGCCTGGGCACACGCACGTGTCCCTGGCCGTATGGTCTTAAATCATAAATAGTGAGTTACACGGC
1 GGCCTGGGCACACACACATGTCCCTGGCCGTATCGTCCTAAATCATAAACAGTGAGTTACACGGC
** * *
52761329 CTGGACACATGCCCATGTCCTTGCCTGTGTGGCTCAAAC
66 CTGGACACACACCCATGTCCTTACCCGTGTGGCTCAAAC
** * *
52761368 GGCCTGGGCACACACTTATGTCCCTGGCTGTGTCGTCCTAAATCATAAACAGTGAGTTACACGGC
1 GGCCTGGGCACACACACATGTCCCTGGCCGTATCGTCCTAAATCATAAACAGTGAGTTACACGGC
52761433 CTGGACACACACCCATGTCCTTACCCGTGTGGC
66 CTGGACACACACCCATGTCCTTACCCGTGTGGC
52761466 GTCGACAGCC
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
104 85 1.00
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.24
Consensus pattern (104 bp):
GGCCTGGGCACACACACATGTCCCTGGCCGTATCGTCCTAAATCATAAACAGTGAGTTACACGGC
CTGGACACACACCCATGTCCTTACCCGTGTGGCTCAAAC
Found at i:52762740 original size:26 final size:22
Alignment explanation
Indices: 52762691--52762735 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
52762681 CAAATCTAAG
52762691 TAGAAATATTTATTTTATTATT
1 TAGAAATATTTATTTTATTATT
52762713 TAGAAATATTTATTTTATTATT
1 TAGAAATATTTATTTTATTATT
52762735 T
1 T
52762736 CTTTAACGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TAGAAATATTTATTTTATTATT
Found at i:52765165 original size:42 final size:42
Alignment explanation
Indices: 52765106--52765225 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
52765096 GGGTTAGTTG
*
52765106 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATATA
1 AGATTACGTGTAAGACCATATCTGGGATATGGCATCAATATA
* * * * *
52765148 AGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCAATTTG
1 AGATTACGTGTAAGACCATATCTGGGATA-TGGCATCAATATA
** *
52765191 AGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATATCTGGGATATGGCAT
52765226 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATGGCATCAATATA
Found at i:52767055 original size:28 final size:29
Alignment explanation
Indices: 52767004--52767058 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
52766994 ACAGGGGTTT
*
52767004 TCACACGGCCAAGTACACGTCTGTGTCCC
1 TCACACGGCCAAGTACACGCCTGTGTCCC
* *
52767033 TCACATGGCCTAG-ACACGCCTGTGTC
1 TCACACGGCCAAGTACACGCCTGTGTC
52767059 ATCGCCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.20, C:0.36, G:0.22, T:0.22
Consensus pattern (29 bp):
TCACACGGCCAAGTACACGCCTGTGTCCC
Found at i:52773916 original size:55 final size:54
Alignment explanation
Indices: 52773829--52774083 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
52773819 ATTAGGGTTT
* *
52773829 AAGGGTACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
52773884 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
52773939 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
52773992 CAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
52774041 AATGATACCATGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
52774084 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
48 2 0.01
49 36 0.21
52 6 0.04
53 41 0.24
54 11 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:52774296 original size:16 final size:16
Alignment explanation
Indices: 52774275--52774305 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52774265 ATAAATTTGA
52774275 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
52774291 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
52774306 ATTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:52776150 original size:42 final size:42
Alignment explanation
Indices: 52776030--52776174 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 42
52776020 AAACAGTGAG
* * *
52776030 TCACATGGCCTGGGCACACACCCATGTCCTTGCCCGTGTGGC
1 TCACACGGCCTAGGCACACACCCATGTCCTTGCTCGTGTGGC
* * * * * * *
52776072 TTACATGGCTTGGGCATACGCACATGTCCTTGCTCGTGTGGC
1 TCACACGGCCTAGGCACACACCCATGTCCTTGCTCGTGTGGC
* * * * *
52776114 TCACACGGCCTAGGCACACACCCATCTTCTTACTCGTATGAC
1 TCACACGGCCTAGGCACACACCCATGTCCTTGCTCGTGTGGC
*
52776156 TCACACGACCTAGGCACAC
1 TCACACGGCCTAGGCACAC
52776175 GCCTATATTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.19, C:0.35, G:0.22, T:0.23
Consensus pattern (42 bp):
TCACACGGCCTAGGCACACACCCATGTCCTTGCTCGTGTGGC
Found at i:52777728 original size:22 final size:23
Alignment explanation
Indices: 52777703--52777756 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
52777693 AACATAATGA
*
52777703 TATATATATAATATATTT-TTAT
1 TATATATATAACATATTTATTAT
*
52777725 TATATA-ATTACATATTTATTAT
1 TATATATATAACATATTTATTAT
* *
52777747 TTTATTTATA
1 TATATATATA
52777757 TAAATAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 9 0.36
22 14 0.56
23 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TATATATATAACATATTTATTAT
Found at i:52777744 original size:19 final size:18
Alignment explanation
Indices: 52777707--52777746 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
52777697 TAATGATATA
* *
52777707 TATATAATATATTTTTAT
1 TATATAATACATATTTAT
52777725 TATATAATTACATATTTAT
1 TATATAA-TACATATTTAT
52777744 TAT
1 TAT
52777747 TTTATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATAATACATATTTAT
Found at i:52778134 original size:21 final size:21
Alignment explanation
Indices: 52778108--52778149 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
52778098 TTTTGTCTAC
52778108 TTATTTTACATATA-ATTAATT
1 TTATTTTA-ATATATATTAATT
52778129 TTATTTTAATATATATTAATT
1 TTATTTTAATATATATTAATT
52778150 ATTTACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTTAATATATATTAATT
Found at i:52779366 original size:18 final size:18
Alignment explanation
Indices: 52779339--52779378 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
52779329 TAGTTATACC
52779339 TCTACGTCTACTA-CTACA
1 TCTACGTCTA-TATCTACA
*
52779357 TCTACTTCTATATCTACA
1 TCTACGTCTATATCTACA
52779375 TCTA
1 TCTA
52779379 TGTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.28, C:0.30, G:0.03, T:0.40
Consensus pattern (18 bp):
TCTACGTCTATATCTACA
Found at i:52781474 original size:20 final size:20
Alignment explanation
Indices: 52781446--52781483 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52781436 TAGGAAATTA
52781446 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
*
52781466 TGTGGTCTGAGCTCATGA
1 TGTGATCTGAGCTCATGA
52781484 TATATGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:52784338 original size:28 final size:28
Alignment explanation
Indices: 52784298--52784356 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
52784288 GTTCAGCTAC
52784298 ATATATGGCTAATAAATGCAATATTCTA
1 ATATATGGCTAATAAATGCAATATTCTA
* *
52784326 ATATATGGCTAATAAATGCATTTTTCTA
1 ATATATGGCTAATAAATGCAATATTCTA
52784354 ATA
1 ATA
52784357 AATGTTAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (28 bp):
ATATATGGCTAATAAATGCAATATTCTA
Found at i:52788481 original size:20 final size:19
Alignment explanation
Indices: 52788458--52788504 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
52788448 TATTTCTTAA
52788458 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
52788478 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
52788498 AATTAAA
1 AATTAAA
52788505 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:52792279 original size:14 final size:14
Alignment explanation
Indices: 52792236--52792281 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
52792226 AATAAGCATA
*
52792236 AAATA-TAATTTTT
1 AAATATTAATGTTT
* *
52792249 AAAAATT-ATGTTA
1 AAATATTAATGTTT
52792262 AAATATTAATGTTT
1 AAATATTAATGTTT
52792276 AAATAT
1 AAATAT
52792282 GTGGGGATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (14 bp):
AAATATTAATGTTT
Found at i:52802505 original size:29 final size:29
Alignment explanation
Indices: 52802467--52802528 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
52802457 GTGTAAATTA
* *
52802467 GTTTATTTGAAATATGAAGATAATTATAT
1 GTTTACTTGAAATATCAAGATAATTATAT
*
52802496 GTTTACTTGAAATATCAAGATGATTATAT
1 GTTTACTTGAAATATCAAGATAATTATAT
52802525 GTTT
1 GTTT
52802529 TTGTGATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (29 bp):
GTTTACTTGAAATATCAAGATAATTATAT
Found at i:52803291 original size:35 final size:34
Alignment explanation
Indices: 52803231--52803401 Score: 123
Period size: 35 Copynumber: 4.9 Consensus size: 34
52803221 CCAACATTTA
* * *
52803231 AAAAAGGTTGGAATAAACCCATCTAAAGCAACCTT
1 AAAAAGGTAGG-ATAGACCCGTCTAAAGCAACCTT
* *
52803266 AAAAAGGTAAGGATTGACCCGTCTAATGCAACCTT
1 AAAAAGGT-AGGATAGACCCGTCTAAAGCAACCTT
* *
52803301 TAAAAGGCT-GGAATAGACCCATCT-AAGACAACCTT
1 AAAAAGG-TAGG-ATAGACCCGTCTAAAG-CAACCTT
* * * *
52803336 AAAAAAGTTGAGATAGACACGTCT-AAGACAACTTT
1 AAAAAGGTAG-GATAGACCCGTCTAAAG-CAACCTT
* * *
52803371 TAAAAGATTAGGATAGACTCGTCTAAAGCAA
1 AAAAAG-GTAGGATAGACCCGTCTAAAGCAA
52803402 TTTGTTTTCT
Statistics
Matches: 109, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
34 5 0.05
35 95 0.87
36 9 0.08
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (34 bp):
AAAAAGGTAGGATAGACCCGTCTAAAGCAACCTT
Found at i:52803359 original size:70 final size:70
Alignment explanation
Indices: 52803232--52803376 Score: 179
Period size: 70 Copynumber: 2.1 Consensus size: 70
52803222 CAACATTTAA
* * *
52803232 AAAAGGTTGGAATAAACCCATCTAAAGCAACCTTAAAAAGGTAAGGATTGACCCGTCTAATG-CA
1 AAAAGGCTGGAATAAACCCATCTAAAGCAACCTTAAAAAGGTAAGGATAGACACGTCTAA-GACA
52803296 ACCTTT
65 ACCTTT
* * *
52803302 AAAAGGCTGGAATAGACCCATCT-AAGACAACCTTAAAAAAGT-TGAGATAGACACGTCTAAGAC
1 AAAAGGCTGGAATAAACCCATCTAAAG-CAACCTTAAAAAGGTAAG-GATAGACACGTCTAAGAC
*
52803365 AACTTTT
64 AACCTTT
52803372 AAAAG
1 AAAAG
52803377 ATTAGGATAG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
69 5 0.08
70 60 0.92
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (70 bp):
AAAAGGCTGGAATAAACCCATCTAAAGCAACCTTAAAAAGGTAAGGATAGACACGTCTAAGACAA
CCTTT
Found at i:52803387 original size:70 final size:70
Alignment explanation
Indices: 52803239--52803401 Score: 172
Period size: 70 Copynumber: 2.3 Consensus size: 70
52803229 TAAAAAAGGT
* * *
52803239 TGGAATAAACCCATCTAAAGCAACCTTAAAAAGGTAAGGATTGACCCGTCTAATGCAACCTTTAA
1 TGGAATAGACCCATCTAAAGCAACCTTAAAAAGGTAAGGATAGACACGTCTAATGCAACCTTTAA
*
52803304 AAGGC
66 AAGAC
* * *
52803309 TGGAATAGACCCATCT-AAGACAACCTTAAAAAAGT-TGAGATAGACACGTCTAA-GACAACTTT
1 TGGAATAGACCCATCTAAAG-CAACCTTAAAAAGGTAAG-GATAGACACGTCTAATG-CAACCTT
*
52803371 TAAAAGAT
63 TAAAAGAC
* *
52803379 TAGG-ATAGACTCGTCTAAAGCAA
1 T-GGAATAGACCCATCTAAAGCAA
52803402 TTTGTTTTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
69 5 0.06
70 68 0.87
71 5 0.06
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (70 bp):
TGGAATAGACCCATCTAAAGCAACCTTAAAAAGGTAAGGATAGACACGTCTAATGCAACCTTTAA
AAGAC
Found at i:52804289 original size:15 final size:15
Alignment explanation
Indices: 52804269--52804302 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
52804259 CATAAAGGCT
52804269 TAAAGGTAAAATCAA
1 TAAAGGTAAAATCAA
*
52804284 TAAAGGTGAAATCAA
1 TAAAGGTAAAATCAA
52804299 TAAA
1 TAAA
52804303 CTGTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.21
Consensus pattern (15 bp):
TAAAGGTAAAATCAA
Found at i:52804318 original size:16 final size:16
Alignment explanation
Indices: 52804297--52804344 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
52804287 AGGTGAAATC
52804297 AATAAACTGTTAAAAA
1 AATAAACTGTTAAAAA
*
52804313 AATAAATTGTTAAAAA
1 AATAAACTGTTAAAAA
*
52804329 AATAAACTATTAAAAA
1 AATAAACTGTTAAAAA
52804345 CTGTTAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (16 bp):
AATAAACTGTTAAAAA
Found at i:52816823 original size:49 final size:49
Alignment explanation
Indices: 52816751--52816944 Score: 169
Period size: 50 Copynumber: 3.9 Consensus size: 49
52816741 GCCGAAGCTA
* *
52816751 TCTGGTACGCATAGTA-CCTTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCC-TGCACTTAGTACTACACACGCGACCAACAG
* ** *
52816800 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** ** * * *
52816850 TCTAATACACGCAGTAGCCTGCACTTAGTACTACACACGTGATC-ATAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
52816898 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
52816945 TCGTAATAGA
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 34 0.29
50 41 0.35
51 39 0.34
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:52820310 original size:12 final size:12
Alignment explanation
Indices: 52820293--52820320 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
52820283 GTTTAACAAA
52820293 TATGTTATAACT
1 TATGTTATAACT
52820305 TATGTTATAACT
1 TATGTTATAACT
52820317 TATG
1 TATG
52820321 GTGAAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (12 bp):
TATGTTATAACT
Found at i:52838187 original size:13 final size:13
Alignment explanation
Indices: 52838171--52838201 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
52838161 GATACAGTCA
52838171 ACAGATTAGATAT
1 ACAGATTAGATAT
52838184 ACAGATTAGATAT
1 ACAGATTAGATAT
52838197 ACAGA
1 ACAGA
52838202 ATCCTACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (13 bp):
ACAGATTAGATAT
Found at i:52840185 original size:140 final size:140
Alignment explanation
Indices: 52839945--52840346 Score: 579
Period size: 140 Copynumber: 2.9 Consensus size: 140
52839935 AAAAGTCGGT
* * * * * *
52839945 ATAGTGTTAGACAAAGCTGAATCTTATTGAAGTGTTGCCTTAGTCATGCATATCCCAAACCTTAT
1 ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTAT
52840010 ACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAA
66 ACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAA
52840075 AAATGTCGAC
131 AAATGTCGAC
*
52840085 ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTAAT
1 ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTAT
* * * * * * *
52840150 ATAAAGGGTTGGCTAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTGTCCGCCCAA
66 ACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAA
* *
52840215 AAGTGTCGGC
131 AAATGTCGAC
** * * *
52840225 ATAGTGTTGGACAAAGCCAACTCTAATTTAAGCCTTGCCTTGGGCATGCATATCCCAACCCTTAT
1 ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTAT
** * *
52840290 ACAAAGAGTAAGCCAAAGCATGTGTTGGCAAGTCTATCCCAACACTCAGGAAAGTGT
66 ACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT
52840347 TGGCATAGTA
Statistics
Matches: 230, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
140 230 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (140 bp):
ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTAT
ACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAA
AAATGTCGAC
Found at i:52840446 original size:126 final size:126
Alignment explanation
Indices: 52840213--52840473 Score: 342
Period size: 126 Copynumber: 2.1 Consensus size: 126
52840203 GTGTCCGCCC
** * *
52840213 AAAAGTGTCGGCATAGTGTTGGACAAAGCCAACTCTAATTTAAGCCTTGCCTTGGGCATGCATAT
1 AAAAGTGTCGGCATAGTACTAGACAAAGCCAACTCTAATTTAAGCCTTGCCTTAGGCATGCATAT
* * *
52840278 CCCAACCCTTATACAAAGAGTAAGCCAAAGCATGTGTTGGCAAGTCTATCCCAACACTCAG
66 CCCAACCCTTATACAAAGAGTAAGCCAAAACATGGGTAGGCAAGTCTATCCCAACACTCAG
* * * * * * *
52840339 GAAAGTGTTGGCATAGTACTAGACAAAGCCGACTCTTATTTAATCGTTGCCTTAGGCATGTATAT
1 AAAAGTGTCGGCATAGTACTAGACAAAGCCAACTCTAATTTAAGCCTTGCCTTAGGCATGCATAT
** * * * *
52840404 CCCAACCCTTATACAAAGAGTTGGGCAAAACGTGGGTAGGCAAGTCTATCCTAACACTTAG
66 CCCAACCCTTATACAAAGAGTAAGCCAAAACATGGGTAGGCAAGTCTATCCCAACACTCAG
52840465 AAAAGTGTC
1 AAAAGTGTC
52840474 AGCCCAAAAA
Statistics
Matches: 113, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
126 113 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (126 bp):
AAAAGTGTCGGCATAGTACTAGACAAAGCCAACTCTAATTTAAGCCTTGCCTTAGGCATGCATAT
CCCAACCCTTATACAAAGAGTAAGCCAAAACATGGGTAGGCAAGTCTATCCCAACACTCAG
Found at i:52840753 original size:23 final size:24
Alignment explanation
Indices: 52840727--52840797 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 24
52840717 CAATAATTTT
* *
52840727 TTTATTTTTATATGTTTTT-AAAA
1 TTTATTATTATATATTTTTGAAAA
52840750 TTTATTATTATATATTTTTGAAAATA
1 TTTATTATTATATATTTTTG-AAA-A
*
52840776 TTTATGTATTTTATATATTTTG
1 TTTAT-TATTATATAT-TTTTG
52840798 TTGAATCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
23 17 0.43
25 3 0.08
26 6 0.15
27 9 0.22
28 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTATTATTATATATTTTTGAAAA
Found at i:52841286 original size:13 final size:13
Alignment explanation
Indices: 52841270--52841294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52841260 TTTCTTTTCT
52841270 TTCTTTTTTTTTG
1 TTCTTTTTTTTTG
52841283 TTCTTTTTTTTT
1 TTCTTTTTTTTT
52841295 TCTTCTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTCTTTTTTTTTG
Found at i:52841295 original size:14 final size:14
Alignment explanation
Indices: 52841259--52841301 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
52841249 CGAGGGGCTG
*
52841259 TTTTCTTTTCTT-T
1 TTTTTTTTTCTTCT
*
52841272 CTTTTTTTTTGTTCT
1 -TTTTTTTTTCTTCT
52841287 TTTTTTTTTCTTCT
1 TTTTTTTTTCTTCT
52841301 T
1 T
52841302 GTTTAGGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 24 0.96
15 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTCTTCT
Found at i:52844631 original size:3 final size:3
Alignment explanation
Indices: 52844623--52844654 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
52844613 AATGTTATCT
52844623 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52844655 TTACCTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:52848921 original size:23 final size:22
Alignment explanation
Indices: 52848895--52848937 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
52848885 TTAATCATTC
* *
52848895 ATTTAATTTTAATATTTTTTAAT
1 ATTTAAATTT-ATATTATTTAAT
52848918 ATTTAAATTTATATTATTTA
1 ATTTAAATTTATATTATTTA
52848938 TTAAATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTAAATTTATATTATTTAAT
Found at i:52849047 original size:17 final size:18
Alignment explanation
Indices: 52849027--52849068 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
52849017 AATTATTTTT
52849027 TTAAAATTTAAAAAA-AA
1 TTAAAATTTAAAAAAGAA
* *
52849044 TTAAAA-ATAAAAAAGTA
1 TTAAAATTTAAAAAAGAA
52849061 TTAAAATT
1 TTAAAATT
52849069 ATTATCAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
TTAAAATTTAAAAAAGAA
Found at i:52852661 original size:12 final size:11
Alignment explanation
Indices: 52852629--52852663 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
52852619 GCTACACTAG
*
52852629 TTTAGTTTTCA
1 TTTAGTTTTCT
52852640 TTTAGTTTTCT
1 TTTAGTTTTCT
52852651 TTTAGGTTTTCT
1 TTTA-GTTTTCT
52852663 T
1 T
52852664 CCCCATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.69
Consensus pattern (11 bp):
TTTAGTTTTCT
Found at i:52854390 original size:45 final size:45
Alignment explanation
Indices: 52854304--52854390 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
52854294 TATGTGATCT
*
52854304 GAACTCATTGAGTTGCGGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGCGGTCTGAGTTCATGATATATATGACATCC
* * *
52854349 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATTTATGACA
1 GAACTCATTGAGTTGCGGTCTGAGTTCATGATATATATGACA
52854391 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (45 bp):
GAACTCATTGAGTTGCGGTCTGAGTTCATGATATATATGACATCC
Found at i:52863392 original size:19 final size:20
Alignment explanation
Indices: 52863348--52863394 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
52863338 GCAACTCAAT
* *
52863348 TTTATTTTATTTATTTTCCA
1 TTTATTTTAGTAATTTTCCA
52863368 TTTATTTTAGTAATTTTCC-
1 TTTATTTTAGTAATTTTCCA
52863387 TTTATTTT
1 TTTATTTT
52863395 TATTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTTAGTAATTTTCCA
Found at i:52868565 original size:17 final size:18
Alignment explanation
Indices: 52868529--52868565 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
52868519 ACTTTCAAGG
52868529 AAAACTTCCCATTCTAAA
1 AAAACTTCCCATTCTAAA
*
52868547 AAAACTTCCCATTGTAAA
1 AAAACTTCCCATTCTAAA
52868565 A
1 A
52868566 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAACTTCCCATTCTAAA
Found at i:52869274 original size:15 final size:16
Alignment explanation
Indices: 52869248--52869277 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52869238 TTCATCCTCG
52869248 TTTGGCTTTGAGTTGC
1 TTTGGCTTTGAGTTGC
52869264 TTTGG-TTTGAGTTG
1 TTTGGCTTTGAGTTG
52869278 GATTTTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.07, G:0.33, T:0.53
Consensus pattern (16 bp):
TTTGGCTTTGAGTTGC
Found at i:52871984 original size:37 final size:37
Alignment explanation
Indices: 52871925--52872033 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
52871915 AGCTCAGATG
* * *
52871925 AAATCTCCACACGAAGTTATCGGGTCCTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52871962 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52871999 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52872034 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52872453 original size:47 final size:47
Alignment explanation
Indices: 52872236--52872455 Score: 386
Period size: 47 Copynumber: 4.7 Consensus size: 47
52872226 CATACATATT
* *
52872236 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
52872283 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
52872330 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
52872377 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
52872424 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
52872456 ACACATAAAA
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 164 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:52876571 original size:40 final size:40
Alignment explanation
Indices: 52876522--52876770 Score: 428
Period size: 40 Copynumber: 6.2 Consensus size: 40
52876512 CCAGCATGAT
* *
52876522 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
52876562 TGCTCTTC-GGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
52876601 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
52876641 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* *
52876681 TGCTCTTCGGGATTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* * *
52876721 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
52876761 TGCTCTTCGG
1 TGCTCTTCGG
52876771 ATTTAGCCCG
Statistics
Matches: 201, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 37 0.18
40 164 0.82
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
Found at i:52878114 original size:37 final size:37
Alignment explanation
Indices: 52878056--52878237 Score: 319
Period size: 37 Copynumber: 4.9 Consensus size: 37
52878046 GCTCAGACGA
* * *
52878056 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
52878093 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
52878130 AATCTCCACACGTAGTCATCGGGTCTTACCCGGGCAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
52878167 AATCTCCACACGTAGTCATCGGGTCTTACCCGGGCAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
52878204 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52878238 ATATATTTCC
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 140 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:52878438 original size:48 final size:48
Alignment explanation
Indices: 52878384--52878519 Score: 218
Period size: 48 Copynumber: 2.8 Consensus size: 48
52878374 GCACATCGCC
*
52878384 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
52878432 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
52878480 TACATATTTCATATTAGCCATTCGGCCTTATCACACATAT
1 TACATATTTCACACTAGCCATTCGGCTTTA-C-CACATAT
52878520 GCATGTTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
48 74 0.90
49 1 0.01
50 7 0.09
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:52878705 original size:47 final size:47
Alignment explanation
Indices: 52878496--52878707 Score: 361
Period size: 47 Copynumber: 4.5 Consensus size: 47
52878486 TTTCATATTA
*
52878496 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
**
52878543 GCCATTCGGCCTTAAAACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
52878590 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
52878637 GCCATTCGGCCTTAACACATATATGCATGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
52878684 GCCATTCGGCCTTATCTCATATAT
1 GCCATTCGGCCTTATCACATATAT
52878708 ACACATAAAA
Statistics
Matches: 154, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 154 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:52886919 original size:33 final size:32
Alignment explanation
Indices: 52886882--52886983 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 32
52886872 ATGTAAGACT
* *
52886882 ATAGCTGGACTATAGCATCCTGATGATAAGATC
1 ATAGCTGGGCTAT-GCATCATGATGATAAGATC
* * *
52886915 ATAGCTGGGTTATGGCATCTTGATGATAAAATC
1 ATAGCTGGGCTAT-GCATCATGATGATAAGATC
* * *
52886948 ATAGTTGGGCTATGACATTATGATGATAAGACC
1 ATAGCTGGGCTATG-CATCATGATGATAAGATC
52886981 ATA
1 ATA
52886984 ACCAGGTTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 1 0.02
33 56 0.98
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (32 bp):
ATAGCTGGGCTATGCATCATGATGATAAGATC
Found at i:52887552 original size:28 final size:26
Alignment explanation
Indices: 52887484--52887550 Score: 111
Period size: 26 Copynumber: 2.6 Consensus size: 26
52887474 CCCTCCCCCC
52887484 AAAAAAACCTAA-CCCAAAAAAAAAG
1 AAAAAAACCTAACCCCAAAAAAAAAG
52887509 AAAAAAACCTAACCCCAAAAAAAAA-
1 AAAAAAACCTAACCCCAAAAAAAAAG
52887534 AAGAAAAACCTAACCCC
1 AA-AAAAACCTAACCCC
52887551 CCCAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 14 0.35
26 26 0.65
ACGTcount: A:0.67, C:0.25, G:0.03, T:0.04
Consensus pattern (26 bp):
AAAAAAACCTAACCCCAAAAAAAAAG
Found at i:52887557 original size:28 final size:27
Alignment explanation
Indices: 52887484--52887560 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
52887474 CCCTCCCCCC
52887484 AAAAAAACCTAA--CCCAAAAAAAAAG
1 AAAAAAACCTAACCCCCAAAAAAAAAG
52887509 AAAAAAACCTAA-CCCCAAAAAAAAA-
1 AAAAAAACCTAACCCCCAAAAAAAAAG
**
52887534 AAGAAAAACCTAACCCCCCCAAAAAAA
1 AA-AAAAACCTAACCCCCAAAAAAAAA
52887561 CCAAGAAACC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
25 14 0.30
26 22 0.47
27 11 0.23
ACGTcount: A:0.68, C:0.26, G:0.03, T:0.04
Consensus pattern (27 bp):
AAAAAAACCTAACCCCCAAAAAAAAAG
Found at i:52890121 original size:12 final size:12
Alignment explanation
Indices: 52890104--52890139 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
52890094 ATTCATTTGA
52890104 CATTCATGCATT
1 CATTCATGCATT
52890116 CATTCATGCATT
1 CATTCATGCATT
*
52890128 CATTCATACATT
1 CATTCATGCATT
52890140 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:52898716 original size:72 final size:71
Alignment explanation
Indices: 52898618--52898783 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
52898608 GAGTTAAGCC
** * * *
52898618 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAC
52898682 TGAGGTA
65 TGAGGTA
*
52898689 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAC
52898754 TGAGGTA
65 TGAGGTA
* *
52898761 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
52898784 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACT
GAGGTA
Found at i:52898886 original size:140 final size:140
Alignment explanation
Indices: 52898716--52899343 Score: 1150
Period size: 140 Copynumber: 4.5 Consensus size: 140
52898706 TTAATTTCAA
*
52898716 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
52898781 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
52898846 TCAAAATCAG
131 TCAAAATCAG
52898856 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
52898921 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
52898986 TCAAAATCAG
131 TCAAAATCAG
52898996 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
52899061 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
52899126 TCAAAATCAG
131 TCAAAATCAG
*
52899136 CTCATATTGCGAGAGGTGAGGTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
**
52899201 TTTATATTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
52899266 TCAAAATCAG
131 TCAAAATCAG
* *
52899276 CTCATATAGCGGGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
52899340 TCAA
62 TCAA
52899344 AAAAAATTTC
Statistics
Matches: 477, Mismatches: 7, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
139 2 0.00
140 446 0.94
142 23 0.05
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:52899059 original size:13 final size:13
Alignment explanation
Indices: 52899041--52899074 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
52899031 CGCTGAGGTA
*
52899041 TTTTCAATTTCTG
1 TTTTCAATTTATG
52899054 TTTTCAATTTATG
1 TTTTCAATTTATG
52899067 TTGTTCAA
1 TT-TTCAA
52899075 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:52899425 original size:49 final size:49
Alignment explanation
Indices: 52899369--52899464 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
52899359 ATATTGCGAG
* *
52899369 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTCA
52899418 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTT
52899465 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTCA
Found at i:52899644 original size:72 final size:72
Alignment explanation
Indices: 52899418--52900376 Score: 1157
Period size: 72 Copynumber: 13.2 Consensus size: 72
52899408 TTTCTGTTCA
* *
52899418 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
52899483 TTGCGAG
66 TTGCGAG
* * * *
52899490 AAATTAGTTGAGCCTCAAGACATGCTGAGTTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-----AAAAATCAA
*
52899555 CTCATATTGTGAG
60 CTCATATTGCGAG
* * *
52899568 AAATGAGTTGAGCCTCAAGACATGCTAAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
52899633 TTGCGAG
66 TTGCGAG
* * * *
52899640 AAATGAGTTGAACCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAAATCAACTC
52899705 ATATTGCGAG
63 ATATTGCGAG
** * ** *
52899715 AGGTGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAAATCAACTCA
52899780 TATTGCGAG
64 TATTGCGAG
** ** *
52899789 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
52899854 TTGCGAG
66 TTGCGAG
** ** *
52899861 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
52899926 TTGCGAG
66 TTGCGAG
* * * *
52899933 AAATGAGTTGAGCCTCAAGAAACGTTGAGGTATTTTCAATTTTTGTCTTTCAAAACAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTC-AAA-AATCAACTC
* *
52899998 ATACTGCTAG
63 ATATTGCGAG
** * *
52900008 AGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT-TT-CAAAAATCAACTCA
52900073 TATTGCGAG
64 TATTGCGAG
*
52900082 AAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTT------TCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
52900140 TTGCGAG
66 TTGCGAG
* * * *
52900147 AAATGAGTTGAGCCTTAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAAATCAACTC
52900212 ATATTGCGAG
63 ATATTGCGAG
** * *
52900222 --A-G-GTTTGAGCCTCGGGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAAATCAACTCAT
1 AAATGAG-TTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCAT
52900283 ATTGCGAG
65 ATTGCGAG
** **
52900291 AGGTGAGTTGAGCCTTGAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC-AAAAATCAACTCAT
52900356 ATTGCGAG
65 ATTGCGAG
**
52900364 AGGTGAGTTGAGC
1 AAATGAGTTGAGC
52900377 TTCAGATCAC
Statistics
Matches: 784, Mismatches: 73, Indels: 59
0.86 0.08 0.06
Matches are distributed among these distances:
65 57 0.07
67 3 0.00
69 22 0.03
71 6 0.01
72 306 0.39
73 52 0.07
74 138 0.18
75 134 0.17
77 5 0.01
78 61 0.08
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (72 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
TTGCGAG
Found at i:52899828 original size:221 final size:219
Alignment explanation
Indices: 52899418--52900376 Score: 1292
Period size: 221 Copynumber: 4.4 Consensus size: 219
52899408 TTTCTGTTCA
* *
52899418 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
* * *
52899483 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGTTATTTTCAATTTCTGTTTTTCAAAAAAA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAA
* ** * * *
52899548 AAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTAATTTCAATTTCTG
128 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
*
52899613 TTTTCAAAATTCAACTCATATTGCGAG
193 TTTTCAAAAATCAACTCATATTGCGAG
* * * *
52899640 AAATGAGTTGAACCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAAATCAACTC
** * ** * *
52899705 ATATTGCGAGAGGTGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAA
63 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAA
* *
52899769 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTT
128 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
52899834 TTTTCAAAAATCAACTCATATTGCGAG
193 TTTTCAAAAATCAACTCATATTGCGAG
** ** *
52899861 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
* * * * *
52899926 TTGCGAGAAATGAGTTGAGCCTCAAGAAACGTTGAGGTATTTTCAATTTTTGTCTTTCAAAACAA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAA
* * *
52899991 TCAACTCATACTGCTAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTCTGTTG
131 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
*
52900056 TTAAAAAAATCAACTCATATTGCGAG
195 TT-CAAAAATCAACTCATATTGCGAG
*
52900082 AAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTT------TCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
* * *
52900140 TTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAA
* * *
52900205 TCAACTCATATTGCGAGAGGT---TTGAGCCTCGGGACACGTTGAGGTAATTTCAATTTTTGTTT
131 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
52900267 TCAAAAATCAACTCATATTGCGAG
196 TCAAAAATCAACTCATATTGCGAG
** **
52900291 AGGTGAGTTGAGCCTTGAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC-AAAAATCAACTCAT
**
52900356 ATTGCGAGAGGTGAGTTGAGC
65 ATTGCGAGAAATGAGTTGAGC
52900377 TTCAGATCAC
Statistics
Matches: 649, Mismatches: 74, Indels: 33
0.86 0.10 0.04
Matches are distributed among these distances:
209 62 0.10
210 5 0.01
211 36 0.06
214 88 0.14
217 28 0.04
218 57 0.09
219 68 0.10
220 10 0.02
221 188 0.29
222 41 0.06
223 5 0.01
224 4 0.01
225 57 0.09
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (219 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAA
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TCAAAAATCAACTCATATTGCGAG
Found at i:52899964 original size:293 final size:292
Alignment explanation
Indices: 52899421--52900381 Score: 1304
Period size: 293 Copynumber: 3.3 Consensus size: 292
52899411 CTGTTCAAAA
* * *
52899421 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTC-AAAATTCAACTCATATT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATT
* * * * *
52899485 GCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGTTATTTTCAATTTCTGTTTTTCAAAAAAAAA
66 GCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-TTTTTC-----AAAA
* *
52899550 ATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTAATTTCAATTTCTGTT
125 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTT
* * *
52899615 TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACATGCTGAGGTATTTTCAAT
190 TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
52899680 TTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGG
255 TTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGG
* **
52899718 TGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATAT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAAATCAACTCATAT
** *
52899783 TGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAA
65 TGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAA
** ** *
52899848 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
130 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
52899913 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAAACGTTGAGGTATTTTCAATTTTTG
195 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTG
* * * *
52899978 TCTTTCAAAACAATCAACTCATACTGCTAGAGG
260 TTTTTCAAAAAAATCAACTCATATTGCGAGAGG
* *
52900011 TGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCATAT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTG-TCAAAAAATCAACTCATAT
*
52900076 TGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC-TGTTT------TCAA
65 TGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAA
* * *
52900134 CTCATATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCA
130 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTG-TTTTC-
* ** *
52900199 AAAAAATCAACTCATATTGCGAG--A-G-GTTTGAGCCTCGGGACACGTTGAGGTAATTTCAATT
193 -AAAATTCAACTCATATTGCGAGAAATGAG-TTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
52900260 TTTG-TTTTC--AAAAATCAACTCATATTGCGAGAGG
256 TTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGG
** *
52900294 TGAGTTGAGCCTTGAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATT
** *
52900359 GCGAGAGGTGAGTTGAGCTTCAG
66 GCGAGAAATGAGTTGAGCCTCAG
52900382 ATCACACATG
Statistics
Matches: 595, Mismatches: 62, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
282 39 0.07
283 63 0.11
285 5 0.01
286 89 0.15
287 6 0.01
289 21 0.04
292 4 0.01
293 262 0.44
294 1 0.00
297 42 0.07
298 6 0.01
299 57 0.10
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (292 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATT
GCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAAC
TCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTCAAA
ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGT
TTTTCAAAAAAATCAACTCATATTGCGAGAGG
Found at i:52901297 original size:30 final size:30
Alignment explanation
Indices: 52901236--52901318 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 30
52901226 CCCTCCCCAA
**
52901236 AAAAAAACCTAA-CCCAAAAAAAAGAAAAAG
1 AAAAAAACCTAACCCCCCAAAAAA-AAAAAG
*
52901266 AAAAAAACCTAACCCCCCAAAAAAAAGAAG
1 AAAAAAACCTAACCCCCCAAAAAAAAAAAG
*
52901296 --AAAAACCTAACCCCCCCAAAAAA
1 AAAAAAACCTAACCCCCCAAAAAAA
52901319 CCAAGAAACC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.46
30 17 0.35
31 9 0.19
ACGTcount: A:0.65, C:0.27, G:0.05, T:0.04
Consensus pattern (30 bp):
AAAAAAACCTAACCCCCCAAAAAAAAAAAG
Found at i:52901331 original size:27 final size:28
Alignment explanation
Indices: 52901260--52901326 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
52901250 CAAAAAAAAG
*
52901260 AAAAAGAA-AAAAACCTAACCCCCCAAA
1 AAAAACAAGAAAAACCTAACCCCCCAAA
* *
52901287 AAAAAGAAGAAAAACCTAACCCCCCCAA
1 AAAAACAAGAAAAACCTAACCCCCCAAA
*
52901315 AAAACCAAGAAA
1 AAAAACAAGAAA
52901327 CCCTAGCCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.63, C:0.28, G:0.06, T:0.03
Consensus pattern (28 bp):
AAAAACAAGAAAAACCTAACCCCCCAAA
Found at i:52905516 original size:39 final size:39
Alignment explanation
Indices: 52905455--52905565 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
52905445 TGATGTTTAT
* * * *
52905455 CCGGGCTTAGGGTCAGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAA
* * *
52905494 CTGGACTTTAGGTCCGCAGGCTATATGCTGGAATTATAA
1 CCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAA
*
52905533 CCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 CCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
52905566 ATATGTTTGG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (39 bp):
CCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAA
Found at i:52913761 original size:37 final size:37
Alignment explanation
Indices: 52913711--52913821 Score: 141
Period size: 37 Copynumber: 2.9 Consensus size: 37
52913701 AGTTTGAGTA
*
52913711 TTTAATTATGTCATAATTTGAACATCGTTAATATGAT
1 TTTAATTATGTCATAATTTGAACATCTTTAATATGAT
* * *
52913748 TTTAATTATGTCATAATCTGAACATCTTTAATAAGGGTT
1 TTTAATTATGTCATAATTTGAACATCTTTAAT-A-TGAT
* *
52913787 TTTAATTATGTCATAGTTTAGGACATCTTTAATAT
1 TTTAATTATGTCATAATTT-GAACATCTTTAATAT
52913822 ATGTTTTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
37 30 0.48
38 1 0.02
39 20 0.32
40 12 0.19
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (37 bp):
TTTAATTATGTCATAATTTGAACATCTTTAATATGAT
Found at i:52913829 original size:39 final size:39
Alignment explanation
Indices: 52913711--52913837 Score: 145
Period size: 39 Copynumber: 3.3 Consensus size: 39
52913701 AGTTTGAGTA
*
52913711 TTTAATTATGTCATAATTTGAACATCGTT-A-ATATGAT
1 TTTAATTATGTCATAATTTGAACATCTTTAATATATGAT
* * *
52913748 TTTAATTATGTCATAATCTGAACATCTTTAATA-AGGGTT
1 TTTAATTATGTCATAATTTGAACATCTTTAATATA-TGAT
* *
52913787 TTTAATTATGTCATAGTTTAGGACATCTTTAATATATG-T
1 TTTAATTATGTCATAATTT-GAACATCTTTAATATATGAT
*
52913826 TTTAAATATGTC
1 TTTAATTATGTC
52913838 TTAGTTTAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
37 27 0.36
38 2 0.03
39 32 0.42
40 14 0.18
41 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (39 bp):
TTTAATTATGTCATAATTTGAACATCTTTAATATATGAT
Found at i:52915880 original size:162 final size:162
Alignment explanation
Indices: 52915578--52915886 Score: 447
Period size: 162 Copynumber: 1.9 Consensus size: 162
52915568 TTCTAATAAA
* * *
52915578 TTTTCCAAGACAAGATCTTGGTTGTGATATCTAAAGTAATAAACCCTTAAGCAAAATTTTAGCTT
1 TTTTCCAAAACAAGATCTTGGTTGTGATATCTAAAGTAATAAACACTTAAGCAAAATTTTACCTT
* * * * * *
52915643 TTCAATTTTTCTAGGATGAGTGCTTCTACTGAGTAGTCTTCTTCGCTATCCTCAAGCTCATGTCT
66 TTCAATTTGTCTAGGATGAGCGCTTCAACCGAGTAGTCTTCTCCGCTATCCTCAAGCTCACGTCT
52915708 GCCAAGTGTGGGCTTGCGTTAGTTTTAAATTT
131 GCCAAGTGTGGGCTTGCGTTAGTTTTAAATTT
* * *
52915740 TTTTCCAAAATAAGATCTTGGTTGTGATATCTAAAGTAATAAAGACTTAATCAAAATTTTACCTT
1 TTTTCCAAAACAAGATCTTGGTTGTGATATCTAAAGTAATAAACACTTAAGCAAAATTTTACCTT
* * * *
52915805 TTCGATTTGTCTAGGATGAGCGCTTCAACCGAGTAGTCTTCTCCTCTATCCTTAAGCTCACGTTT
66 TTCAATTTGTCTAGGATGAGCGCTTCAACCGAGTAGTCTTCTCCGCTATCCTCAAGCTCACGTCT
***
52915870 GTTGAGTGTGGGCTTGC
131 GCCAAGTGTGGGCTTGC
52915887 TTTGAATCAA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
162 128 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (162 bp):
TTTTCCAAAACAAGATCTTGGTTGTGATATCTAAAGTAATAAACACTTAAGCAAAATTTTACCTT
TTCAATTTGTCTAGGATGAGCGCTTCAACCGAGTAGTCTTCTCCGCTATCCTCAAGCTCACGTCT
GCCAAGTGTGGGCTTGCGTTAGTTTTAAATTT
Found at i:52916010 original size:25 final size:26
Alignment explanation
Indices: 52915967--52916019 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
52915957 AAGTTGTAAA
52915967 CTAGAAAAATATCTCTAGA-AATTTT
1 CTAGAAAAATATCTCTAGATAATTTT
* * *
52915992 CTAGAATAATCTCTTTAGATAATTTT
1 CTAGAAAAATATCTCTAGATAATTTT
52916018 CT
1 CT
52916020 CTTTACAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (26 bp):
CTAGAAAAATATCTCTAGATAATTTT
Found at i:52924156 original size:16 final size:16
Alignment explanation
Indices: 52924135--52924165 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52924125 CTATGCATGC
52924135 AAAATATAAAAGACAG
1 AAAATATAAAAGACAG
*
52924151 AAAATATAATAGACA
1 AAAATATAAAAGACA
52924166 TAATTGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.10, T:0.16
Consensus pattern (16 bp):
AAAATATAAAAGACAG
Found at i:52940307 original size:19 final size:20
Alignment explanation
Indices: 52940283--52940324 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
52940273 AAATAGTTAT
52940283 ATATATTAATAC-TTATAAA
1 ATATATTAATACATTATAAA
* *
52940302 ATATATTATTTCATTATAAA
1 ATATATTAATACATTATAAA
52940322 ATA
1 ATA
52940325 CTATATCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATTAATACATTATAAA
Found at i:52940424 original size:35 final size:35
Alignment explanation
Indices: 52940378--52940449 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
52940368 ATTATTATAT
52940378 TAGTTGAAATATGCTTTGAGTCCTTATACTTTTCA
1 TAGTTGAAATATGCTTTGAGTCCTTATACTTTTCA
*
52940413 TAGTTGAAATATGTTTTGAGTCCTTATACTTTTCA
1 TAGTTGAAATATGCTTTGAGTCCTTATACTTTTCA
52940448 TA
1 TA
52940450 CATTTGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (35 bp):
TAGTTGAAATATGCTTTGAGTCCTTATACTTTTCA
Found at i:52940638 original size:20 final size:19
Alignment explanation
Indices: 52940613--52940692 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
52940603 CTTCAAATAT
* *
52940613 TTTTAACTCAAGTGAAACAA
1 TTTTAAATCAAGT-AAAAAA
*
52940633 TTTTAAATCGAGTAAAAAA
1 TTTTAAATCAAGTAAAAAA
** *
52940652 TTTTAAATTGAGTGAAAACAT
1 TTTTAAATCAAGT-AAAA-AA
52940673 TTTTAAA-CAAGTAAAAAA
1 TTTTAAATCAAGTAAAAAA
52940691 TT
1 TT
52940693 GCTCAAAACA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.06
19 21 0.42
20 18 0.36
21 8 0.16
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (19 bp):
TTTTAAATCAAGTAAAAAA
Found at i:52940656 original size:39 final size:39
Alignment explanation
Indices: 52940613--52940692 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
52940603 CTTCAAATAT
* *
52940613 TTTTAACTCAAGTG-AAACAATTTTAAATCGAGTAAAAAA
1 TTTTAAATCAAGTGAAAACAATTTTAAA-CAAGTAAAAAA
** *
52940652 TTTTAAATTGAGTGAAAACATTTTTAAACAAGTAAAAAA
1 TTTTAAATCAAGTGAAAACAATTTTAAACAAGTAAAAAA
52940691 TT
1 TT
52940693 GCTCAAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 23 0.66
40 12 0.34
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (39 bp):
TTTTAAATCAAGTGAAAACAATTTTAAACAAGTAAAAAA
Found at i:52940890 original size:103 final size:103
Alignment explanation
Indices: 52940703--52940890 Score: 245
Period size: 103 Copynumber: 1.8 Consensus size: 103
52940693 GCTCAAAACA
* * * *
52940703 AAAAGTATCGATATTTTTCAATAAGTATCGATACCTATACATTTTTGTCGATACCTTTTCTGGTA
1 AAAAGTATCGATACTTATCAATAAGTATCGATACCTATACATTTTTCTCGATACCTTTTCTAGTA
* *
52940768 TCGATATGAAAATGTCATTCTGGAGTTTTTATCAAAGT
66 TCGATACGAAAATGACATTCTGGAGTTTTTATCAAAGT
* * * *
52940806 AAAATTATCGATACTTATCATTAAGTATCGATACC-ATGATATTTTTCTTGATACCTTTT-TCAG
1 AAAAGTATCGATACTTATCAATAAGTATCGATACCTAT-ACATTTTTCTCGATACCTTTTCT-AG
*
52940869 TATCGATACGAAATTGACATTC
64 TATCGATACGAAAATGACATTC
52940891 CGGCTTTGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
102 3 0.04
103 69 0.96
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (103 bp):
AAAAGTATCGATACTTATCAATAAGTATCGATACCTATACATTTTTCTCGATACCTTTTCTAGTA
TCGATACGAAAATGACATTCTGGAGTTTTTATCAAAGT
Found at i:52944963 original size:40 final size:40
Alignment explanation
Indices: 52944908--52945254 Score: 604
Period size: 40 Copynumber: 8.7 Consensus size: 40
52944898 AACATTGGAT
52944908 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
52944948 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
52944988 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
52945028 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
52945068 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
52945108 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
52945148 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
52945188 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
52945228 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
52945255 ATGTGTTTGC
Statistics
Matches: 289, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 289 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:52961656 original size:15 final size:15
Alignment explanation
Indices: 52961636--52961675 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
52961626 TAGCTTCTTC
52961636 TTTTTTTTCACGAAT
1 TTTTTTTTCACGAAT
52961651 TTTTTTTTCACGAAT
1 TTTTTTTTCACGAAT
52961666 TTTTTTTTCA
1 TTTTTTTTCA
52961676 ACTTCATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.65
Consensus pattern (15 bp):
TTTTTTTTCACGAAT
Found at i:52961729 original size:12 final size:12
Alignment explanation
Indices: 52961712--52961761 Score: 82
Period size: 12 Copynumber: 4.2 Consensus size: 12
52961702 AAAGCAAACC
52961712 AATTTTTTTTTG
1 AATTTTTTTTTG
52961724 AATTTTTTTTTG
1 AATTTTTTTTTG
*
52961736 AATTTTTTTTTC
1 AATTTTTTTTTG
*
52961748 AAATTTTTTTTG
1 AATTTTTTTTTG
52961760 AA
1 AA
52961762 GAAACTACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:52961732 original size:13 final size:13
Alignment explanation
Indices: 52961714--52961758 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
52961704 AGCAAACCAA
52961714 TTTTTTTTTGAA-
1 TTTTTTTTTGAAT
52961726 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
**
52961739 TTTTTTTTCAAAT
1 TTTTTTTTTGAAT
52961752 TTTTTTT
1 TTTTTTT
52961759 GAAGAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 12 0.40
13 18 0.60
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:52962386 original size:30 final size:30
Alignment explanation
Indices: 52962352--52962448 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
52962342 AGCTCACTCC
52962352 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
52962382 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
52962412 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
52962442 TAGCTCA
1 TAGCTCA
52962449 TTTTAGTTTT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:52964190 original size:10 final size:10
Alignment explanation
Indices: 52964175--52964224 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
52964165 GAAGAAATTC
52964175 AAAAAAAATG
1 AAAAAAAATG
52964185 AAAAAAAATCG
1 AAAAAAAAT-G
*
52964196 -AAAAAAAGG
1 AAAAAAAATG
52964205 AAAAAAAAGTG
1 AAAAAAAA-TG
52964216 AAAAAAAAT
1 AAAAAAAAT
52964225 CGAGTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 1 0.03
10 24 0.69
11 10 0.29
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:52964193 original size:21 final size:20
Alignment explanation
Indices: 52964155--52964224 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
52964145 TATTGGATTT
* *
52964155 AAAAAAAA-GAGAAGAAATTC
1 AAAAAAAATGA-AAAAAAATC
52964175 AAAAAAAATGAAAAAAAATC
1 AAAAAAAATGAAAAAAAATC
* * *
52964195 GAAAAAAAGGAAAAAAAAGTG
1 AAAAAAAATGAAAAAAAA-TC
52964216 AAAAAAAAT
1 AAAAAAAAT
52964225 CGAGTTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 31 0.76
21 10 0.24
ACGTcount: A:0.76, C:0.03, G:0.13, T:0.09
Consensus pattern (20 bp):
AAAAAAAATGAAAAAAAATC
Found at i:52965187 original size:37 final size:37
Alignment explanation
Indices: 52965136--52965206 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
52965126 CATTCTTGTA
52965136 AAGAGAAAACAAAG-AAAAGAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAAAG-AAAGAAAAAGAAAAAGC
*
52965173 AAGAGAAGAA-AAAGAAAAAGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAAAGAAAGAAAAAGAAAA
52965207 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 24 0.77
38 7 0.23
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.01
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAAAGAAAGAAAAAGAAAAAGC
Found at i:52965194 original size:15 final size:16
Alignment explanation
Indices: 52965135--52965206 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 16
52965125 ACATTCTTGT
*
52965135 AAAGAGAAAACAAAG-A
1 AAAGA-AAAAGAAAGAA
*
52965151 AAAGAAAAGAAAAAGAA
1 AAAGAAAA-AGAAAGAA
* *
52965168 AAAGCAAGAG-AAGAA
1 AAAGAAAAAGAAAGAA
*
52965183 AAAGAAAAAGAAATAA
1 AAAGAAAAAGAAAGAA
52965199 AAAGAAAA
1 AAAGAAAA
52965207 GAGAGGCAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
15 16 0.35
16 23 0.50
17 7 0.15
ACGTcount: A:0.78, C:0.03, G:0.18, T:0.01
Consensus pattern (16 bp):
AAAGAAAAAGAAAGAA
Found at i:52965206 original size:6 final size:6
Alignment explanation
Indices: 52965146--52965195 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
52965136 AAGAGAAAAC
52965146 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
52965195 A
1 A
52965196 TAAAAAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
5 9 0.22
6 23 0.56
7 3 0.07
8 3 0.07
9 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:52965208 original size:21 final size:21
Alignment explanation
Indices: 52965146--52965206 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
52965136 AAGAGAAAAC
52965146 AAAGAAAAGAAAAGAAAAAGAA
1 AAAGAAAA-AAAAGAAAAAGAA
* * *
52965168 AAAGCAAGAGAAGAAAAAGAA
1 AAAGAAAAAAAAGAAAAAGAA
52965189 AAAGAAATAAAAAGAAAA
1 AAAGAAA-AAAAAGAAAA
52965207 GAGAGGCAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAAAGAAAAAGAA
Found at i:52965288 original size:11 final size:12
Alignment explanation
Indices: 52965256--52965286 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52965246 TTGAGAGAAC
52965256 TTGAAAAAGCCT
1 TTGAAAAAGCCT
52965268 TTGAAAAAGCCT
1 TTGAAAAAGCCT
52965280 TTGAAAA
1 TTGAAAA
52965287 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:52967498 original size:30 final size:30
Alignment explanation
Indices: 52967464--52967560 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
52967454 AGCTCACTCC
52967464 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
52967494 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
52967524 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
52967554 TAGCTCA
1 TAGCTCA
52967561 TTTTAGTTTT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:52970566 original size:39 final size:40
Alignment explanation
Indices: 52970415--52970584 Score: 209
Period size: 40 Copynumber: 4.3 Consensus size: 40
52970405 GGACTAAGAT
* *
52970415 CCGAAGGCATTGGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACTAAA-TCCGGGTTAAGTC
* *
52970455 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
52970495 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
52970535 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
52970574 CCGAAGGCATT
1 CCGAAGGCATT
52970585 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 35 0.30
40 79 0.68
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:52970604 original size:79 final size:80
Alignment explanation
Indices: 52970442--52970619 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
52970432 AGATACAAAT
* * * *
52970442 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
52970507 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
52970522 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
52970586 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
52970601 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
52970620 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:52977733 original size:39 final size:40
Alignment explanation
Indices: 52977582--52977751 Score: 209
Period size: 40 Copynumber: 4.3 Consensus size: 40
52977572 GGACTAAGAT
* *
52977582 CCGAAGGCATTGGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACTAAA-TCCGGGTTAAGTC
* *
52977622 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
52977662 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
52977702 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
52977741 CCGAAGGCATT
1 CCGAAGGCATT
52977752 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 35 0.30
40 79 0.68
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:52977771 original size:79 final size:80
Alignment explanation
Indices: 52977609--52977786 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
52977599 AGATACAAAT
* * * *
52977609 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
52977674 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
52977689 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
52977753 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
52977768 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
52977787 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:52983588 original size:20 final size:19
Alignment explanation
Indices: 52983569--52983615 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
52983559 AATCCGAGGT
52983569 TGAAAATTTTATGACTAGG
1 TGAAAATTTTATGACTAGG
**
52983588 TGTTTAATTTTATGACTAGG
1 TG-AAAATTTTATGACTAGG
52983608 ATGAAAAT
1 -TGAAAAT
52983616 GTGTGTTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.40
Consensus pattern (19 bp):
TGAAAATTTTATGACTAGG
Found at i:52986447 original size:95 final size:95
Alignment explanation
Indices: 52986281--52986480 Score: 274
Period size: 95 Copynumber: 2.1 Consensus size: 95
52986271 AAGTATAGGA
* * * **
52986281 CAGTTAATCTGCATTAATGTAAAACTATTCACGATTTGATTATATGACAGTTTATCTGTGACTCT
1 CAGTTTATCTGCATTAATGTAAAACTAATCACGATATGATTATATGACAGTTTATCTACGACTCT
*
52986346 GATGGCTTGTCCATGATTTTGTTTATGTGG
66 GATGGCTTGTCCATGATTTTGATTATGTGG
* * * ** *
52986376 CAGTTTATTTGCATTAATGTGACACTAATCACGATATGATTATATGGGAGTTTATGTACGACTCT
1 CAGTTTATCTGCATTAATGTAAAACTAATCACGATATGATTATATGACAGTTTATCTACGACTCT
* *
52986441 GGTGGCTTGTGCATGATTTTGATTATGTGG
66 GATGGCTTGTCCATGATTTTGATTATGTGG
52986471 CAGTTTATCT
1 CAGTTTATCT
52986481 ACGTTGCTGT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (95 bp):
CAGTTTATCTGCATTAATGTAAAACTAATCACGATATGATTATATGACAGTTTATCTACGACTCT
GATGGCTTGTCCATGATTTTGATTATGTGG
Found at i:52990189 original size:42 final size:46
Alignment explanation
Indices: 52990126--52990337 Score: 143
Period size: 49 Copynumber: 4.6 Consensus size: 46
52990116 CTTCGTTTAC
** * *
52990126 TCGATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
52990168 TCGAT-CTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGC-CATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
* * *
52990217 TCGATGCCATAGCCTAGCTATGGTCTTACACGAATCACATATCTCA-C
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATCACATA
* * * * * *
52990264 T-GATGCCATATCCCAGATAAGGTCTTATACAGTAGCATAT-ATCACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATA-CATATCA-CATA
* * * *
52990310 CCGATGCCATATCCCAGATATGGCCTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTA
52990338 TACGAAAATC
Statistics
Matches: 138, Mismatches: 19, Indels: 21
0.78 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.19
44 1 0.01
45 11 0.08
46 24 0.17
47 26 0.19
48 14 0.10
49 34 0.25
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:52990228 original size:49 final size:48
Alignment explanation
Indices: 52990167--52990337 Score: 163
Period size: 47 Copynumber: 3.6 Consensus size: 48
52990157 ATCTTCATAT
*
52990167 ATCGAT-CTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGC-CATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * *
52990215 TATCGATGCCATAGCCTAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * * *
52990263 CT-GATGCCATATCCCAGATAAGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* * *
52990309 ACCGATGCCATATCCCAGATATGGCCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
52990338 TACGAAAATC
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 24 0.23
47 35 0.34
48 13 0.13
49 30 0.29
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:52990394 original size:31 final size:31
Alignment explanation
Indices: 52990359--52990507 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
52990349 CTTGTCACTT
*
52990359 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
52990390 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
52990421 GTAGTCGGAGCTGCCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
52990452 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
52990483 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
52990508 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:52990586 original size:50 final size:51
Alignment explanation
Indices: 52990483--52990611 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
52990473 CACTAATCAG
* * * * *
52990483 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGT
*
52990534 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGT
52990584 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
52990612 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGT
Found at i:52997182 original size:12 final size:12
Alignment explanation
Indices: 52997163--52997196 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52997153 AGTATTTTTT
52997163 TAAAAAATTATA
1 TAAAAAATTATA
* *
52997175 TAATAAATAATA
1 TAAAAAATTATA
52997187 TAAAAAATTA
1 TAAAAAATTA
52997197 ATACGACTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAAAAATTATA
Found at i:52998845 original size:13 final size:13
Alignment explanation
Indices: 52998827--52998868 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
52998817 ATTTTTCCTA
52998827 AAAAATAACAA-CT
1 AAAAATAA-AATCT
*
52998840 AAAAATAAAATTT
1 AAAAATAAAATCT
*
52998853 AAAAATAAAATTT
1 AAAAATAAAATCT
52998866 AAA
1 AAA
52998869 CTATTTATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 2 0.07
13 25 0.93
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATAAAATCT
Found at i:52999478 original size:115 final size:114
Alignment explanation
Indices: 52999349--52999556 Score: 344
Period size: 115 Copynumber: 1.8 Consensus size: 114
52999339 TCAATATATA
* * *
52999349 CTTTTTTTTTACATATTTGAGACATAGTCAAACCTTTTTACGCGAAATGAGATGACAACCCAAGC
1 CTTTTTTTTAACATATTTGAGACATAGTCAAACCTTTTTACGCAAAATAAGATGACAACCCAAGC
52999414 ACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTTTCTTTTTTTCC
66 ACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTTTCTTTTTTTCC
* * *
52999463 CTTTTTTTTAAACATATTTGAGACATAGTCAAATCTTTTTATGCAAAATAAGATGACAACTCAAG
1 CTTTTTTTT-AACATATTTGAGACATAGTCAAACCTTTTTACGCAAAATAAGATGACAACCCAAG
*
52999528 CACCTCACCTCAGTTACTTAATTTGACAT
65 CACCTCACCTCAGTTACTCAATTTGACAT
52999557 ATCCATAATC
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
114 9 0.10
115 77 0.90
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (114 bp):
CTTTTTTTTAACATATTTGAGACATAGTCAAACCTTTTTACGCAAAATAAGATGACAACCCAAGC
ACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTTTCTTTTTTTCC
Found at i:53000117 original size:9 final size:9
Alignment explanation
Indices: 53000105--53000139 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
53000095 TGACAAGTAA
53000105 ATTATTTTT
1 ATTATTTTT
53000114 ATTATTTTT
1 ATTATTTTT
53000123 ATTATTTTT
1 ATTATTTTT
53000132 ATTATTTT
1 ATTATTTT
53000140 AATGTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTATTTTT
Found at i:53003499 original size:96 final size:96
Alignment explanation
Indices: 53003335--53003521 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 96
53003325 ATGTATCGTA
* * * **
53003335 CCAATGCCATGTCTCAGACATGGTCTTACACTGGCTCTTATATCGTGGCTGATGCCATGTCTTAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
53003400 ACATGGTCTTACACTAGCAT-ACATATCAATG
66 ACATGGTCTTACACTAGC-TCACATATCAATG
*
53003431 CCAATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
53003496 ACATGGTCTTACACTAGCTCACATAT
66 ACATGGTCTTACACTAGCTCACATAT
53003522 TGCCATGGTC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 1 0.01
96 83 0.99
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (96 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
ACATGGTCTTACACTAGCTCACATATCAATG
Found at i:53003521 original size:48 final size:48
Alignment explanation
Indices: 53003338--53003521 Score: 219
Period size: 48 Copynumber: 3.8 Consensus size: 48
53003328 TATCGTACCA
* * **
53003338 ATGCCATGTCTCAGACATGGTCTTACACTGGCTCTTATATCGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
** * **
53003386 ATGCCATGTCTTAGACATGGTCTTACACTAGCAT-ACATATCAAT-GCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATC-GTGGCTG
* * *
53003434 ATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
*
53003482 ATGACATGTCCCAGACATGGTCTTACACTAGCTCACATAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT
53003522 TGCCATGGTC
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
47 2 0.02
48 109 0.96
49 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
Found at i:53004595 original size:32 final size:32
Alignment explanation
Indices: 53004556--53004683 Score: 211
Period size: 32 Copynumber: 4.0 Consensus size: 32
53004546 CATAAAAAAT
* *
53004556 ATCATACATTTGTTTTACATATAAAAAAGTAA
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
53004588 ATCATACATTAGGTTTACATATAAAAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
53004620 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
53004652 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
53004684 TATAGTTAGA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 88 1.00
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:53007363 original size:20 final size:19
Alignment explanation
Indices: 53007338--53007377 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
53007328 TGGTAAATAA
53007338 ATTATTTTCTTGATCACTTT
1 ATTATTTTCTTGATCA-TTT
53007358 ATTATTTTCTTGATCATTT
1 ATTATTTTCTTGATCATTT
53007377 A
1 A
53007378 GCACAGGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTATTTTCTTGATCATTT
Found at i:53007464 original size:5 final size:5
Alignment explanation
Indices: 53007454--53007497 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
53007444 AGCTACAATC
*
53007454 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG AATAG ATTAG ATTA
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
53007498 CATGTTTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (5 bp):
ATTAG
Found at i:53009386 original size:35 final size:31
Alignment explanation
Indices: 53009340--53009428 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 31
53009330 TTTGGTACCT
53009340 ATACAAGTAGAAATCTCAATGTTAAGCACAGACCC
1 ATACAAGTAGAAATCTCAATGTT-AG--CA-ACCC
53009375 ATACAAGTAGAAATCTC-A-GCTT-GCAACCC
1 ATACAAGTAGAAATCTCAATG-TTAGCAACCC
53009404 ATACAAGTAGAAATCTCAATGTTAG
1 ATACAAGTAGAAATCTCAATGTTAG
53009429 GTATAGACCC
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
29 21 0.42
30 5 0.10
31 2 0.04
32 1 0.02
33 1 0.02
34 3 0.06
35 17 0.34
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (31 bp):
ATACAAGTAGAAATCTCAATGTTAGCAACCC
Found at i:53009637 original size:35 final size:35
Alignment explanation
Indices: 53009598--53009704 Score: 187
Period size: 35 Copynumber: 3.1 Consensus size: 35
53009588 GAGGAGTTGA
*
53009598 CACAGCTTACAGCAGAGGTATTTCTTCCTCGTTAT
1 CACAGCTTGCAGCAGAGGTATTTCTTCCTCGTTAT
*
53009633 CACAGCTTGCAGCAAAGGTATTTCTTCCTCGTTAT
1 CACAGCTTGCAGCAGAGGTATTTCTTCCTCGTTAT
*
53009668 CACAGCTTGCAGCAGAGGTATTTGTTCCTCGTTAT
1 CACAGCTTGCAGCAGAGGTATTTCTTCCTCGTTAT
53009703 CA
1 CA
53009705 GCAGAATTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (35 bp):
CACAGCTTGCAGCAGAGGTATTTCTTCCTCGTTAT
Found at i:53017478 original size:13 final size:13
Alignment explanation
Indices: 53017462--53017492 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
53017452 TATTATTTGA
53017462 CCTATGAATTTAG
1 CCTATGAATTTAG
*
53017475 CCTATGTATTTAG
1 CCTATGAATTTAG
53017488 CCTAT
1 CCTAT
53017493 AAATAGGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (13 bp):
CCTATGAATTTAG
Found at i:53020201 original size:21 final size:21
Alignment explanation
Indices: 53020149--53020202 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
53020139 CTTGATTCTC
*
53020149 AAAATTTAAAATATAAAAAAT
1 AAAATTTAAAAAATAAAAAAT
***
53020170 ATTTTTTAAAAAATAAAAAAT
1 AAAATTTAAAAAATAAAAAAT
*
53020191 AAAATTCAAAAA
1 AAAATTTAAAAA
53020203 GAATTAAAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATTTAAAAAATAAAAAAT
Found at i:53020699 original size:3 final size:3
Alignment explanation
Indices: 53020679--53020765 Score: 54
Period size: 3 Copynumber: 29.7 Consensus size: 3
53020669 GTTGGGCAGT
* * * *
53020679 AGA AGA AAA ATA AG- AGA AGA ATAA AGA AGA AGA AGA AGA AG- AGG
1 AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA
* * * * * *
53020723 AGG AGG AGA ACA ATA AGA AGA AAA AGA AGA AGA A-A AGA TGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
53020766 TGGATATACC
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.09
3 59 0.88
4 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.30, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:53021805 original size:21 final size:21
Alignment explanation
Indices: 53021762--53021811 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
53021752 ATCTTTTATC
* * *
53021762 TTAGGGTAACTTCTTGGTGAG
1 TTAGGGCAACTTCTTGATAAG
53021783 TTAGGGCAACTTCTTGATAAG
1 TTAGGGCAACTTCTTGATAAG
*
53021804 TTGGGGCA
1 TTAGGGCA
53021812 GCCACTTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.12, G:0.32, T:0.34
Consensus pattern (21 bp):
TTAGGGCAACTTCTTGATAAG
Found at i:53026544 original size:20 final size:19
Alignment explanation
Indices: 53026504--53026546 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
53026494 GGTGACTAAA
*
53026504 TTAACAAAAAATAATATCT
1 TTAACAAAAAAGAATATCT
53026523 TTAACAAAAATAGAGATA-CT
1 TTAACAAAAA-AGA-ATATCT
53026543 TTAA
1 TTAA
53026547 AATTTAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 8 0.38
21 3 0.14
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (19 bp):
TTAACAAAAAAGAATATCT
Found at i:53029051 original size:7 final size:7
Alignment explanation
Indices: 53029030--53029077 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
53029020 ATAGATACAT
53029030 TTTTTAA
1 TTTTTAA
53029037 TATTTTAA
1 T-TTTTAA
53029045 TTTTTAA
1 TTTTTAA
*
53029052 TTTTTAG
1 TTTTTAA
53029059 TTTTTAA
1 TTTTTAA
53029066 TTTTT-A
1 TTTTTAA
53029072 TTTTTA
1 TTTTTA
53029078 TTCTCCTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 6 0.16
7 24 0.65
8 7 0.19
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:53034293 original size:33 final size:33
Alignment explanation
Indices: 53034256--53034409 Score: 105
Period size: 33 Copynumber: 4.6 Consensus size: 33
53034246 ACATTTGTAG
*
53034256 TGCCATAACCCAGTTATGGTCTTATCATCATAA
1 TGCCATAACCCAGCTATGGTCTTATCATCATAA
* * * * * *
53034289 TGCCATAGCCCAACTATGATCTTACTTATAGATAT
1 TGCCATAACCCAGCTATGGTCTTA-TCAT-CATAA
** * * *
53034324 TGCCATAGTCCAACCATGGTCTTA-CGTTCA-AA
1 TGCCATAACCCAGCTATGGTCTTATC-ATCATAA
* * * *
53034356 GTGCCATAACCCAGTTATGGTCTTTTCATTAAAA
1 -TGCCATAACCCAGCTATGGTCTTATCATCATAA
*
53034390 TGCCATATCCCAGCTATGGT
1 TGCCATAACCCAGCTATGGT
53034410 ATTACATATA
Statistics
Matches: 91, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
32 1 0.01
33 59 0.65
34 7 0.08
35 24 0.26
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (33 bp):
TGCCATAACCCAGCTATGGTCTTATCATCATAA
Found at i:53034340 original size:101 final size:100
Alignment explanation
Indices: 53034221--53034448 Score: 303
Period size: 101 Copynumber: 2.3 Consensus size: 100
53034211 CTTATACATG
* ***
53034221 CATTGCCATGGCCAACCATGGTCTTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATCATCA
1 CATTGCCATGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCA
* * * *
53034286 TAATGCCATAGCCCAACTATGATCTTACTTATAGA
66 AAATGCCATAGCCCAACTATGATATTACATATAAA
* * * *
53034321 TATTGCCATAGTCCAACCATGGTCTTACGTTCAAAGTGCCATAACCCAGTTATGGTCTTTTCATT
1 CATTGCCAT-GTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATC
* * *
53034386 AAAATGCCATATCCCAGCTATGGTATTACATATAAA
65 AAAATGCCATAGCCCAACTATGATATTACATATAAA
53034422 CATTGCCATGGTCCAACCATGGTCTTA
1 CATTGCCAT-GTCCAACCATGGTCTTA
53034449 TCCGTCAATT
Statistics
Matches: 110, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 8 0.07
101 102 0.93
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (100 bp):
CATTGCCATGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCA
AAATGCCATAGCCCAACTATGATATTACATATAAA
Found at i:53037886 original size:86 final size:86
Alignment explanation
Indices: 53037741--53037912 Score: 326
Period size: 86 Copynumber: 2.0 Consensus size: 86
53037731 CAAGTCATCA
53037741 ATACGAGACAAAGGATATTTATTTTTAATTGTGACCTTGTTCAACTTTAGGTAATCTATACACAG
1 ATACGAGACAAAGGATATTTATTTTTAATTGTGACCTTGTTCAACTTTAGGTAATCTATACACAG
53037806 TCTCAAAGAACAATCTTTCTT
66 TCTCAAAGAACAATCTTTCTT
*
53037827 ATACGAGACAAAGGATATTTATTTTTAATTGTGACCTTGTTCAACTTTAGGTAGTCTATACACAG
1 ATACGAGACAAAGGATATTTATTTTTAATTGTGACCTTGTTCAACTTTAGGTAATCTATACACAG
*
53037892 TCTCAAAGAACCATCTTTCTT
66 TCTCAAAGAACAATCTTTCTT
53037913 TTTCACAAAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (86 bp):
ATACGAGACAAAGGATATTTATTTTTAATTGTGACCTTGTTCAACTTTAGGTAATCTATACACAG
TCTCAAAGAACAATCTTTCTT
Found at i:53046967 original size:119 final size:120
Alignment explanation
Indices: 53046791--53047013 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
53046781 TACTCGTTCA
* * *
53046791 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
53046856 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
53046911 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
53046973 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
53047014 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.74
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:53047013 original size:40 final size:40
Alignment explanation
Indices: 53046770--53047013 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
53046760 CGGAATTTAA
** *
53046770 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53046810 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53046850 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53046890 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
53046929 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
53046969 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
53047009 CCGGA
1 CCGGA
53047014 CATCATTCAA
Statistics
Matches: 180, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.18
40 133 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.