Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 119 of 228
Found at i:35192363 original size:12 final size:12
Alignment explanation
Indices: 35192346--35192370 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35192336 GCAACGATGT
35192346 AAAAGAAAAGGA
1 AAAAGAAAAGGA
35192358 AAAAGAAAAGGA
1 AAAAGAAAAGGA
35192370 A
1 A
35192371 TGGTTCAACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGGA
Found at i:35194799 original size:12 final size:12
Alignment explanation
Indices: 35194782--35194806 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35194772 TAGAGATCAA
35194782 GGAAAACAGCAT
1 GGAAAACAGCAT
35194794 GGAAAACAGCAT
1 GGAAAACAGCAT
35194806 G
1 G
35194807 CAAGTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (12 bp):
GGAAAACAGCAT
Found at i:35196994 original size:20 final size:20
Alignment explanation
Indices: 35196966--35197008 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
35196956 ACCACTTTAC
*
35196966 TTACATACTTATCTTTCCAT
1 TTACATACTTATCATTCCAT
* *
35196986 TTACTTACTTTTCATTCCAT
1 TTACATACTTATCATTCCAT
35197006 TTA
1 TTA
35197009 TTTAGCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (20 bp):
TTACATACTTATCATTCCAT
Found at i:35204072 original size:40 final size:40
Alignment explanation
Indices: 35204028--35204107 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
35204018 GTACATGTTG
35204028 AATTCATGTGAATGAAATAGATTGAATACATGATAAACAT
1 AATTCATGTGAATGAAATAGATTGAATACATGATAAACAT
35204068 AATTCATGTGAATGAAATAGATTGAATACATGATAAACAT
1 AATTCATGTGAATGAAATAGATTGAATACATGATAAACAT
35204108 TGAATTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (40 bp):
AATTCATGTGAATGAAATAGATTGAATACATGATAAACAT
Found at i:35207784 original size:16 final size:18
Alignment explanation
Indices: 35207753--35207790 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
35207743 GATTTGTATG
35207753 AAATATTGATTTTTAACA
1 AAATATTGATTTTTAACA
35207771 AAATA-TGA-TTTTAACA
1 AAATATTGATTTTTAACA
35207787 AAAT
1 AAAT
35207791 TTCTGTTACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
AAATATTGATTTTTAACA
Found at i:35209436 original size:25 final size:23
Alignment explanation
Indices: 35209408--35209457 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
35209398 TTATTAAAAA
*
35209408 ATAATTTACATGTTATAAAAGGGTT
1 ATAATATACAT-TTATAAAA-GGTT
*
35209433 ATAATATATATTTATAAAAGGTT
1 ATAATATACATTTATAAAAGGTT
35209456 AT
1 AT
35209458 GGTCAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 8 0.35
25 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (23 bp):
ATAATATACATTTATAAAAGGTT
Found at i:35209671 original size:17 final size:17
Alignment explanation
Indices: 35209636--35209667 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35209626 AATAATTTTT
35209636 TTATAAATGTTTATATA
1 TTATAAATGTTTATATA
35209653 TTATAAAT-TTTATAT
1 TTATAAATGTTTATAT
35209668 TATTTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATAAATGTTTATATA
Found at i:35212742 original size:239 final size:238
Alignment explanation
Indices: 35212318--35212789 Score: 671
Period size: 239 Copynumber: 2.0 Consensus size: 238
35212308 TTCAATTTGG
* * * *
35212318 CTAAAGTTTTATTTTAAGATGCATACTGGCATGCTATTTCTACTTAAGTAGCAAATGCTGACGGG
1 CTAAAATTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGG
* * * * * * *
35212383 GTAAACATAGATATAAGTATTGTACTATGTCTAATTGGATTGTGTATTTATTTATCCGTAACTTG
66 GTAAACATAGACACAAGTATCGTACTATGTCTAATTGGATTATGTATTAAATGATCCGTAACTTG
* * *
35212448 TATGTCACATCATACTTATTTTGTGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCATTAGT
131 TATGTCACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACTAGT
35212513 AATTTT-CCTGATATCCTAAGT-CCAATCTAGATGTACCAGTTGA
196 -ATTTTCCCTGATATCCTAAGTACCAA-CTAGATGTACCAGTTGA
** *
35212556 CTAAAATTTTATTTGAAGATGTGTACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGAGGGG
1 CTAAAATTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGG
* *
35212621 GTTAAACATAGACACAAGTATCGTGCTACT-TCTAATTGGATTATGTATTAAATGATCTGTAACT
66 G-TAAACATAGACACAAGTATCGTACTA-TGTCTAATTGGATTATGTATTAAATGATCCGTAACT
* * *
35212685 TGTATGTCACATCATATTTATTCTATGTGCTTGGATTTCATTGCACTTACAGTTAGTTGTCGCTA
129 TGTATGTCACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACTA
* *
35212750 GTATTTTCCCTGTTATCCTAAGTACGAACTAGATGTACCA
194 GTATTTTCCCTGATATCCTAAGTACCAACTAGATGTACCA
35212790 TTTTACTCAG
Statistics
Matches: 206, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
238 64 0.31
239 138 0.67
240 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (238 bp):
CTAAAATTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGG
GTAAACATAGACACAAGTATCGTACTATGTCTAATTGGATTATGTATTAAATGATCCGTAACTTG
TATGTCACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACTAGT
ATTTTCCCTGATATCCTAAGTACCAACTAGATGTACCAGTTGA
Found at i:35218750 original size:20 final size:21
Alignment explanation
Indices: 35218722--35218762 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
35218712 ATAATATATC
* *
35218722 TAAAGAATTAGTTA-ATATTT
1 TAAAAAATTAATTACATATTT
35218742 TAAAAAATTAATTACATATTT
1 TAAAAAATTAATTACATATTT
35218763 ATTATTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAAAAATTAATTACATATTT
Found at i:35219677 original size:31 final size:31
Alignment explanation
Indices: 35219639--35219703 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
35219629 TAGTTTTTAT
35219639 GTTGTTTAATCGAAGATAATTGTCGATTTGA
1 GTTGTTTAATCGAAGATAATTGTCGATTTGA
* ** * *
35219670 GTTGTTTAATTGATTATGATTGTTGATTTGA
1 GTTGTTTAATCGAAGATAATTGTCGATTTGA
35219701 GTT
1 GTT
35219704 TTATGAGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.03, G:0.23, T:0.49
Consensus pattern (31 bp):
GTTGTTTAATCGAAGATAATTGTCGATTTGA
Found at i:35222051 original size:25 final size:25
Alignment explanation
Indices: 35222021--35222070 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
35222011 TGCCCATTTT
35222021 TTTAATAGAGACAAAATGCAATCTA
1 TTTAATAGAGACAAAATGCAATCTA
35222046 TTTAATAGAGACAAAATGCAATCTA
1 TTTAATAGAGACAAAATGCAATCTA
35222071 ACTCCTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (25 bp):
TTTAATAGAGACAAAATGCAATCTA
Found at i:35224860 original size:88 final size:88
Alignment explanation
Indices: 35224735--35224941 Score: 247
Period size: 88 Copynumber: 2.4 Consensus size: 88
35224725 CAAAAATGAG
* * * * ** *
35224735 TAAAATAAATTCCGTTTCGGGATTAATTCCCGTCGTTCAACA-ATTTTATACCAAATTTTGATTT
1 TAAAATAAAATCTGTTTCGAGATTTATTCCCACCGTTCAACAGATTTTATACC-AATTTTGATGT
* *
35224799 TATTTCCAAAACAAGTATTAAAAT
65 TATTTCCAAAACAAGCATTAAAAC
* * *
35224823 TAAAATAAAATCTGTTTCGAGATTTATTCCTACCGTTCTACAGATTTTATTCCAATTTTGATGTT
1 TAAAATAAAATCTGTTTCGAGATTTATTCCCACCGTTCAACAGATTTTATACCAATTTTGATGTT
**
35224888 ATTTCCAAAATGAGCATTAAAAC
66 ATTTCCAAAACAAGCATTAAAAC
*
35224911 TAAATTAAAATCTGTTTC-AGGATTTATTCCC
1 TAAAATAAAATCTGTTTCGA-GATTTATTCCC
35224942 GTTTATCAAC
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
87 1 0.01
88 91 0.90
89 9 0.09
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (88 bp):
TAAAATAAAATCTGTTTCGAGATTTATTCCCACCGTTCAACAGATTTTATACCAATTTTGATGTT
ATTTCCAAAACAAGCATTAAAAC
Found at i:35225106 original size:84 final size:84
Alignment explanation
Indices: 35224991--35225322 Score: 382
Period size: 84 Copynumber: 3.9 Consensus size: 84
35224981 AAAAAACAAG
* * *
35224991 AAATTAAAATCAAATAAAATCTGTTTTGGGATTTATTCCCACCATTTAACAAGAGTTTATTTGAT
1 AAATT-AAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGAT
35225056 TTTATTTTGTTTCCAAATTA
65 TTTATTTTGTTTCCAAATTA
* *
35225076 TAATTAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
1 AAATTAAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
* * * *
35225141 ATATTTTATTTTCAGATTA
66 TTATTTTGTTTCCAAATTA
* * * * * *
35225160 GAATTAAATAAAATAAAATCTGTTTTGGGATTTATTCCCGTCGTTTAACTAGATTTTATTCGATA
1 AAATTAAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
**
35225225 TTGGTTTGTTTCCAAA-TA
66 TTATTTTGTTTCCAAATTA
* * * *
35225243 AAGATGAAATCAAAT-AATTCTGTTTTGAGATTTATTCCCGCCGCCATTTAA-TAGATTTTATTT
1 AA-ATTAAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCG---TTTAACAAGATTTTA-TT
* *
35225306 TGATATAATTTTGTTTC
61 TGATTTTATTTTGTTTC
35225323 TAGATTTAAT
Statistics
Matches: 211, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
83 28 0.13
84 150 0.71
85 13 0.06
86 20 0.09
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (84 bp):
AAATTAAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
TTATTTTGTTTCCAAATTA
Found at i:35236174 original size:16 final size:16
Alignment explanation
Indices: 35236153--35236189 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
35236143 CTTCTTGCCC
35236153 TCTCTTCGAGAGTTAG
1 TCTCTTCGAGAGTTAG
*
35236169 TCTCTTCGAGAGTTAT
1 TCTCTTCGAGAGTTAG
35236185 TCTCT
1 TCTCT
35236190 ATGTTACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (16 bp):
TCTCTTCGAGAGTTAG
Found at i:35242633 original size:40 final size:40
Alignment explanation
Indices: 35242589--35242711 Score: 156
Period size: 40 Copynumber: 3.1 Consensus size: 40
35242579 CAAAATATGT
*
35242589 TCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* *
35242629 TCAGGGGTACCGAAGTACAAACAAGGGCACATATGAGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* * * * * **
35242669 TTAGGGATACCAAAGTACGAACAGAGGCAGGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
35242709 TCA
1 TCA
35242712 TTCAGTAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.16
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
Found at i:35244763 original size:17 final size:18
Alignment explanation
Indices: 35244730--35244766 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
35244720 ATCAAGCCAT
35244730 AAAATTTCATTAATTATTA
1 AAAATTTCA-TAATTATTA
35244749 AAAATTTCA-AATTATTA
1 AAAATTTCATAATTATTA
35244766 A
1 A
35244767 CATGCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTCATAATTATTA
Found at i:35248621 original size:33 final size:33
Alignment explanation
Indices: 35248566--35248799 Score: 117
Period size: 33 Copynumber: 6.7 Consensus size: 33
35248556 TTATCCGTTA
* *
35248566 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
35248600 TCGGGGAATCAACACTTAGCAACC-CTTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC----CA-A--T--GAT
* *
35248641 ACGGTGGGATCAGCACTTAGCAACCACCAATGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
35248675 TCGGGGAATCAGCACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* * *
35248702 T-GGGGAATTAGCACTTAGCAACCCTCTTCACATTTAAAAT
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* * *
35248742 ACGATGGAATCAGCACTTAG-ATACCACCAATGAA
1 TCG-GGGAATCAGCACTTAGCA-ACCACCAATGAT
35248776 TCGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
35248800 CTTTGGGGGA
Statistics
Matches: 154, Mismatches: 17, Indels: 59
0.67 0.07 0.26
Matches are distributed among these distances:
26 19 0.12
27 4 0.03
28 1 0.01
30 1 0.01
32 3 0.02
33 55 0.36
34 14 0.09
36 4 0.03
38 2 0.01
39 5 0.03
40 1 0.01
41 11 0.07
42 33 0.21
43 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:35248726 original size:101 final size:102
Alignment explanation
Indices: 35248602--35248872 Score: 395
Period size: 101 Copynumber: 2.7 Consensus size: 102
35248592 CCAGTGATTC
* * *
35248602 GGGGAATCAACACTTAGCAACCCTTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATTAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
35248667 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT-
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
35248703 GGGGAATTAGCACTTAGCAACCCTCTTCACATTTAAAATACGATGGAATCAGCACTTAG-ATACC
1 GGGGAATTAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCA-ACC
*
35248767 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCTTTG
65 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
35248805 GGGGAATTAGCACTTAGCAACCCCTTTT-ATATTCAATGATACGGTGGAATCAGCACTTATCAAC
1 GGGGAATTAGCACTTAGCAA-CCCTTTTCACATTTAA-GATACGGTGGAATCAGCACTTAGCAAC
35248869 CACC
64 CACC
35248873 TTATAACCAA
Statistics
Matches: 151, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
100 1 0.01
101 91 0.60
102 26 0.17
103 32 0.21
104 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (102 bp):
GGGGAATTAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:35249005 original size:51 final size:51
Alignment explanation
Indices: 35248950--35249239 Score: 288
Period size: 50 Copynumber: 5.6 Consensus size: 51
35248940 CCGATACACG
* * *
35248950 TAGTAGCTTGCACATAGTACTACACACGTGATCGGAGCTATTCAGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCA
* * * * *
35249001 TAGTAGCCTGCACATAGTACTACACATGCGACTC--ATC-ATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGA-TCGAAGCTATT-CGGTACGCA
* *
35249051 TAGTAGCCTGCACATAGTACTACACACATGATCGAAGCTATTCGGTACGAA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCA
35249102 TAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAGCTATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACA--CG----TGATCGAAGCTATTCGGTACGCA
* ** * *
35249159 TAGTAGCCTACACATAGTACTACACA--T-A-CGACCCATCATTCAGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-T-ATTC-GGTACGCA
*
35249209 TAGTAGCCTGCACATAGTACCACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
35249240 CCATCACTTT
Statistics
Matches: 199, Mismatches: 23, Indels: 32
0.78 0.09 0.13
Matches are distributed among these distances:
47 4 0.02
48 2 0.01
49 10 0.05
50 66 0.33
51 62 0.31
52 6 0.03
53 2 0.01
57 47 0.24
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCA
Found at i:35249074 original size:101 final size:101
Alignment explanation
Indices: 35248944--35249133 Score: 335
Period size: 101 Copynumber: 1.9 Consensus size: 101
35248934 TTCCACCCGA
* * * *
35248944 TACACGTAGTAGCTTGCACATAGTACTACACACGTGATCGGAGCTATTCAGTACGCATAGTAGCC
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGATCGAAGCTATTCAGTACGAATAGTAGCC
35249009 TGCACATAGTACTACACATGCGACTCATCATTCCGG
66 TGCACATAGTACTACACATGCGACTCATCATTCCGG
*
35249045 TACACGTAGTAGCCTGCACATAGTACTACACACATGATCGAAGCTATTCGGTACGAATAGTAGCC
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGATCGAAGCTATTCAGTACGAATAGTAGCC
35249110 TGCACATAGTACTACACATGCGAC
66 TGCACATAGTACTACACATGCGAC
35249134 CCTGATCGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (101 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACATGATCGAAGCTATTCAGTACGAATAGTAGCC
TGCACATAGTACTACACATGCGACTCATCATTCCGG
Found at i:35249167 original size:57 final size:56
Alignment explanation
Indices: 35249042--35249192 Score: 213
Period size: 57 Copynumber: 2.8 Consensus size: 56
35249032 CTCATCATTC
* *
35249042 CGGTACACGTAGTAGCCTGCACATAGTACTACACA-C-A---TGATCGAAGCTATT
1 CGGTACGCATAGTAGCCTGCACATAGTACTACACATCGACCCTGATCGAAGCTATT
*
35249093 CGGTACGAATAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAGCTATT
1 CGGTACGCATAGTAGCCTGCACATAGTACTACACAT-CGACCCTGATCGAAGCTATT
*
35249150 CGGTACGCATAGTAGCCTACACATAGTACTACACATACGACCC
1 CGGTACGCATAGTAGCCTGCACATAGTACTACACAT-CGACCC
35249193 ATCATTCAGG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 32 0.36
53 1 0.01
54 1 0.01
57 54 0.61
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (56 bp):
CGGTACGCATAGTAGCCTGCACATAGTACTACACATCGACCCTGATCGAAGCTATT
Found at i:35249196 original size:158 final size:152
Alignment explanation
Indices: 35248950--35249235 Score: 446
Period size: 158 Copynumber: 1.8 Consensus size: 152
35248940 CCGATACACG
* * *
35248950 TAGTAGCTTGCACATAGTACTACACACGTGATCGGAGCTATTCAGTACGCATAGTAGCCTGCACA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGCCTACACA
* * * *
35249015 TAGTACTACACATGCGACTCATCATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
66 TAGTACTACACATACGACCCATCATTCAGGTACACGTAGTAGCCTGCACATAGTACCACACACAT
35249080 GATCGAAGCTATTCGGTACGAA
131 GATCGAAGCTATTCGGTACGAA
*
35249102 TAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAGCTATTCGGTACGCATAGTAGCC
1 TAGTAGCCTGCACATAGTACTACACA--CG----TGATCGAAGCTATTCAGTACGCATAGTAGCC
35249167 TACACATAGTACTACACATACGACCCATCATTCAGGTACACGTAGTAGCCTGCACATAGTACCAC
60 TACACATAGTACTACACATACGACCCATCATTCAGGTACACGTAGTAGCCTGCACATAGTACCAC
35249232 ACAC
125 ACAC
35249236 GTGACCATCA
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
152 25 0.21
154 2 0.02
158 93 0.77
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (152 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGCCTACACA
TAGTACTACACATACGACCCATCATTCAGGTACACGTAGTAGCCTGCACATAGTACCACACACAT
GATCGAAGCTATTCGGTACGAA
Found at i:35251873 original size:75 final size:75
Alignment explanation
Indices: 35251750--35251896 Score: 226
Period size: 75 Copynumber: 2.0 Consensus size: 75
35251740 TCACAAGCTT
*
35251750 TGATTGCATAGGCTCTAGCTGGTTTTCTCACTTCAGATCGTTCATTCATCTCGCTATTCTTTC-C
1 TGATTGCATAGGCTCTAGCTGGTTTTCTCACTTCAGATCATTCATTCATCTCGCTATTC-TTCAC
35251814 TCGACCGGGTC
65 TCGACCGGGTC
* * *
35251825 TGATTGCATAGGCTTTAGCTGGTTTTCTCGCTTTAGA-CTATTCATTCATCTCGCTATTCTTCAC
1 TGATTGCATAGGCTCTAGCTGGTTTTCTCACTTCAGATC-ATTCATTCATCTCGCTATTCTTCAC
35251889 TCGACCGG
65 TCGACCGG
35251897 ATGGTGTATT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
74 4 0.06
75 62 0.94
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.39
Consensus pattern (75 bp):
TGATTGCATAGGCTCTAGCTGGTTTTCTCACTTCAGATCATTCATTCATCTCGCTATTCTTCACT
CGACCGGGTC
Found at i:35260167 original size:43 final size:42
Alignment explanation
Indices: 35260102--35260333 Score: 225
Period size: 43 Copynumber: 5.5 Consensus size: 42
35260092 TCATAGAAAT
* *
35260102 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTCTCTAC
1 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTC-CTAA
* ** **
35260145 AAACGCCGCTAAAGGTCATGTTCTTTAGCGTTGC-AACCATAA
1 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCC-TAA
* *
35260187 AAATGCCGCTAAAGGTCAAGTTCATTAGCGGCGC-TTCCATAA
1 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCC-TAA
*** * * **
35260229 AAATGCCGCTAAAACACATGATCTTTAGCGGCACTTTTCCCGA
1 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCTAA
* * *
35260272 AAATGCCCCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCTAA
*
35260315 AAACGCCGCTAAAGGTCAT
1 AAATGCCGCTAAAGGTCAT
35260334 TACTTTTAGC
Statistics
Matches: 155, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
41 1 0.01
42 65 0.42
43 85 0.55
44 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (42 bp):
AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTAA
Found at i:35260342 original size:43 final size:43
Alignment explanation
Indices: 35260251--35260354 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
35260241 AACACATGAT
* *
35260251 CTTTAGCGGCACTTTTCCCGAAAATGCCCCTAAAGGTCATGTT
1 CTTTAGCGGCACTTTTCCCGAAAACGCCCCTAAAGGTCATGTA
* *
35260294 CTTTAGCGGCGCTTTTCCC-ACAAACGCCGCTAAAGGTCAT-TA
1 CTTTAGCGGCACTTTTCCCGA-AAACGCCCCTAAAGGTCATGTA
35260336 CTTTTAGCGGTCCACTTTT
1 C-TTTAGCGG--CACTTTT
35260355 GTTTGGCGGC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
42 3 0.06
43 43 0.83
45 6 0.12
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCACTTTTCCCGAAAACGCCCCTAAAGGTCATGTA
Found at i:35260724 original size:21 final size:21
Alignment explanation
Indices: 35260700--35260749 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
35260690 TTCTGCTTTG
35260700 CTCTGCTTCCCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAAC
* **
35260721 CTCTACTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAAC
35260742 CTCTGCTT
1 CTCTGCTT
35260750 TAAGTTGTAG
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:0.06, C:0.46, G:0.14, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAAC
Found at i:35266223 original size:9 final size:9
Alignment explanation
Indices: 35266211--35266245 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
35266201 ATATTTATGT
*
35266211 ATTAAGTAA
1 ATTATGTAA
35266220 ATTATGTAA
1 ATTATGTAA
35266229 ATTATGTAA
1 ATTATGTAA
*
35266238 GTTATGTA
1 ATTATGTA
35266246 CGTGTATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (9 bp):
ATTATGTAA
Found at i:35266264 original size:9 final size:9
Alignment explanation
Indices: 35266216--35266607 Score: 218
Period size: 9 Copynumber: 44.4 Consensus size: 9
35266206 TATGTATTAA
*
35266216 GTAAATTAT
1 GTAAGTTAT
*
35266225 GTAAATTAT
1 GTAAGTTAT
35266234 GTAAGTTAT
1 GTAAGTTAT
*
35266243 GTACGTGTA-
1 GTAAGT-TAT
35266252 -TAAGTTAT
1 GTAAGTTAT
35266260 GTAAGTTAT
1 GTAAGTTAT
*
35266269 GT-A-TTAA
1 GTAAGTTAT
*
35266276 GTAAGCTAT
1 GTAAGTTAT
*
35266285 GTAAGTTGT
1 GTAAGTTAT
35266294 GT-A-TTAT
1 GTAAGTTAT
35266301 GTAAGTTAT
1 GTAAGTTAT
35266310 GTAAGTTAT
1 GTAAGTTAT
35266319 CAAAGTAATGTTAT
1 ----GTAA-GTTAT
*
35266333 GTAAGTTGT
1 GTAAGTTAT
*
35266342 GT-AG-AAT
1 GTAAGTTAT
*
35266349 GTAAGCTAT
1 GTAAGTTAT
35266358 GTAAGTTAT
1 GTAAGTTAT
35266367 GTAAGTTAT
1 GTAAGTTAT
**
35266376 GTAAAG-GGT
1 GT-AAGTTAT
*
35266385 GCATAATGTAAT
1 G--TAA-GTTAT
35266397 -TAAGTTAT
1 GTAAGTTAT
35266405 GTAAGTTAT
1 GTAAGTTAT
35266414 G--AGTTAT
1 GTAAGTTAT
35266421 GTAAGTTAT
1 GTAAGTTAT
*
35266430 GT-A-TAAT
1 GTAAGTTAT
*
35266437 GTACGTTAT
1 GTAAGTTAT
* *
35266446 GTATAATATTAAA
1 G--TAA-GTT-AT
** *
35266459 AAAAATTAT
1 GTAAGTTAT
*
35266468 GTAAGTTGT
1 GTAAGTTAT
*
35266477 GT-A-TAAT
1 GTAAGTTAT
35266484 GTAAGTTAT
1 GTAAGTTAT
*
35266493 GTAAGTAAT
1 GTAAGTTAT
*
35266502 GT--CTTAT
1 GTAAGTTAT
*
35266509 GTAAGTTGT
1 GTAAGTTAT
*
35266518 GT-A-TAAT
1 GTAAGTTAT
*
35266525 GTTAGTTAT
1 GTAAGTTAT
*
35266534 -CAGAGTTAT
1 GTA-AGTTAT
35266543 GT-A-TTAT
1 GTAAGTTAT
35266550 GTAAGTTAT
1 GTAAGTTAT
35266559 GTAAGTTAT
1 GTAAGTTAT
*
35266568 GTAAGTTGT
1 GTAAGTTAT
35266577 GTAAGTTAT
1 GTAAGTTAT
*
35266586 TTAAGTTAT
1 GTAAGTTAT
*
35266595 GTAAGTAAT
1 GTAAGTTAT
35266604 GTAA
1 GTAA
35266608 TATATACTTA
Statistics
Matches: 294, Mismatches: 51, Indels: 76
0.70 0.12 0.18
Matches are distributed among these distances:
7 46 0.16
8 23 0.08
9 192 0.65
10 14 0.05
11 6 0.02
12 3 0.01
13 5 0.02
14 5 0.02
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:35266296 original size:25 final size:24
Alignment explanation
Indices: 35266225--35266369 Score: 125
Period size: 25 Copynumber: 5.9 Consensus size: 24
35266215 AGTAAATTAT
* *
35266225 GTAAATTATGTAAGTTATGTACGTGTA
1 GTAAGTTATGTAAGTTATGTA--T-AA
35266252 -TAAGTTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTA-TAA
* * *
35266276 GTAAGCTATGTAAGTTGTGTATTAT
1 GTAAGTTATGTAAGTTATGTA-TAA
*
35266301 GTAAGTTATGTAAGTTAT-CA-AA
1 GTAAGTTATGTAAGTTATGTATAA
* *
35266323 GTAATGTTATGTAAGTTGTGTAGAA
1 GTAA-GTTATGTAAGTTATGTATAA
*
35266348 TGTAAGCTATGTAAGTTATGTA
1 -GTAAGTTATGTAAGTTATGTA
35266370 AGTTATGTAA
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
22 5 0.05
23 13 0.13
24 3 0.03
25 55 0.56
26 23 0.23
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (24 bp):
GTAAGTTATGTAAGTTATGTATAA
Found at i:35266438 original size:16 final size:16
Alignment explanation
Indices: 35266387--35266452 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 16
35266377 TAAAGGGTGC
*
35266387 ATAATGTAA-TTAAGT
1 ATAATGTAAGTTATGT
35266402 -T-ATGTAAGTTATG-
1 ATAATGTAAGTTATGT
*
35266415 AGTTATGTAAGTTATGT
1 A-TAATGTAAGTTATGT
*
35266432 ATAATGTACGTTATGT
1 ATAATGTAAGTTATGT
35266448 ATAAT
1 ATAAT
35266453 ATTAAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.14
14 5 0.12
15 1 0.02
16 30 0.70
17 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (16 bp):
ATAATGTAAGTTATGT
Found at i:35266487 original size:16 final size:15
Alignment explanation
Indices: 35266466--35266531 Score: 52
Period size: 16 Copynumber: 4.6 Consensus size: 15
35266456 AAAAAAAATT
35266466 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGT-TA
*
35266482 ATGTAAGTTATG-TA
1 ATGTAAGTTGTGTTA
*
35266496 A-GTAA--TGTCTT-
1 ATGTAAGTTGTGTTA
35266507 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGT-TA
*
35266523 ATGTTAGTT
1 ATGTAAGTT
35266532 ATCAGAGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 3 0.08
12 5 0.13
13 4 0.10
14 7 0.18
15 1 0.03
16 19 0.49
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (15 bp):
ATGTAAGTTGTGTTA
Found at i:35266510 original size:25 final size:25
Alignment explanation
Indices: 35266464--35266605 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 25
35266454 TTAAAAAAAA
35266464 TTATGTAAGT--TGTGTATAATGTAAG
1 TTATGTAAGTAATGTGT-T-ATGTAAG
*
35266489 TTATGTAAGTAATGTCTTATGTAAG
1 TTATGTAAGTAATGTGTTATGTAAG
* *
35266514 TTGTGT-A-TAATGTTAGTTAT-CAGAG
1 TTATGTAAGTAATG-T-GTTATGTA-AG
*
35266539 TTATGT-A-TTATGTAAGTTATGTAAG
1 TTATGTAAGTAATGT--GTTATGTAAG
** *
35266564 TTATGTAAGTTGTGTAAGTTATTTAAG
1 TTATGTAAGTAATGT--GTTATGTAAG
35266591 TTATGTAAGTAATGT
1 TTATGTAAGTAATGT
35266606 AATATATACT
Statistics
Matches: 97, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
23 5 0.05
24 4 0.04
25 52 0.54
26 3 0.03
27 33 0.34
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTAATGTGTTATGTAAG
Found at i:35266550 original size:41 final size:41
Alignment explanation
Indices: 35266308--35266561 Score: 142
Period size: 41 Copynumber: 6.0 Consensus size: 41
35266298 TATGTAAGTT
*
35266308 ATGTAAGTTAT-CAAAGTAATG--TTATGTAAGTTGTGTAGA
1 ATGTAAGTTATGC-AAGTAATGTATTATGTAAGTTGTGTATA
* * * * *
35266347 ATGTAAGCTATGTAAGTTATGTAAGTTATGTAAAG-GGTGCATA
1 ATGTAAGTTATGCAAGTAATGT-A-TTATGT-AAGTTGTGTATA
* * *
35266390 ATGTAATTAAGTTATGTAAGTTATG-AGTTATGTAAGTTATGTATA
1 ATG----TAAGTTATGCAAGTAATGTA-TTATGTAAGTTGTGTATA
* * * ***
35266435 ATGTACGTTATGTATAATATTAAAAAAAATTATGTAAGTTGTGTATA
1 ATGTAAGTTATG---CA-AGT--AATGTATTATGTAAGTTGTGTATA
* *
35266482 ATGTAAGTTATGTAAGTAATGTCTTATGTAAGTTGTGTATA
1 ATGTAAGTTATGCAAGTAATGTATTATGTAAGTTGTGTATA
* * *
35266523 ATGTTAGTTAT-CAGAGTTATGTATTATGTAAGTTATGTA
1 ATGTAAGTTATGCA-AGTAATGTATTATGTAAGTTGTGTA
35266562 AGTTATGTAA
Statistics
Matches: 167, Mismatches: 29, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
39 17 0.10
40 1 0.01
41 60 0.36
43 16 0.10
44 8 0.05
45 18 0.11
47 46 0.28
48 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.41
Consensus pattern (41 bp):
ATGTAAGTTATGCAAGTAATGTATTATGTAAGTTGTGTATA
Found at i:35266685 original size:13 final size:13
Alignment explanation
Indices: 35266667--35266717 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
35266657 AAATTTTAGC
*
35266667 AAGTAATGTATTT
1 AAGTAATATATTT
*
35266680 AAGTAATTTATTT
1 AAGTAATATATTT
*
35266693 AAGTAATATATTC
1 AAGTAATATATTT
35266706 AAGTAATATATT
1 AAGTAATATATT
35266718 AAATTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (13 bp):
AAGTAATATATTT
Found at i:35266751 original size:66 final size:66
Alignment explanation
Indices: 35266626--35266751 Score: 144
Period size: 66 Copynumber: 1.9 Consensus size: 66
35266616 TAAATTTTAG
* * * ** *
35266626 TAAGTAATGTATTTAAGTAATAAATTTAACCAAATTTTAGCAAGTAATGTATTTAAGTAATTTAT
1 TAAGTAATATATTCAAGTAATAAATTAAACCAAATTTTAGCAAAAAATATATTTAAGTAATTTAT
35266691 T
66 T
* ** * * *
35266692 TAAGTAATATATTCAAGTAATATATTAAATTAAATTTTAGTAAAAAATATGTTTTAGTAA
1 TAAGTAATATATTCAAGTAATAAATTAAACCAAATTTTAGCAAAAAATATATTTAAGTAA
35266752 GTAATGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
66 48 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (66 bp):
TAAGTAATATATTCAAGTAATAAATTAAACCAAATTTTAGCAAAAAATATATTTAAGTAATTTAT
T
Found at i:35267598 original size:11 final size:11
Alignment explanation
Indices: 35267582--35267606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35267572 TATTGCAAAA
35267582 AAAGAAAAAGT
1 AAAGAAAAAGT
35267593 AAAGAAAAAGT
1 AAAGAAAAAGT
35267604 AAA
1 AAA
35267607 ACATAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (11 bp):
AAAGAAAAAGT
Found at i:35268488 original size:60 final size:59
Alignment explanation
Indices: 35268398--35268517 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 59
35268388 CACAAAATTC
* * *
35268398 ATTCGGGCAACTGCTAAATAAATAATTTATACCTAAATCCCTCATACACTGTAACCAAA
1 ATTCGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
35268457 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
1 ATTC-GGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
35268517 A
1 A
35268518 GTCACAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
59 4 0.07
60 53 0.93
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.24
Consensus pattern (59 bp):
ATTCGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
Found at i:35269666 original size:233 final size:233
Alignment explanation
Indices: 35269257--35269724 Score: 642
Period size: 233 Copynumber: 2.0 Consensus size: 233
35269247 AAATAAATAA
** ** * * *
35269257 TTCTAAAATTTTTCTAAGTTAAAAATCGTTTATGGAAACAGCGTCGTTTAGCCATTACTTTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACAGCCTCGTTTACCCATTACTCTAATA
** * * *
35269322 CCCTTTTGCAGTGTTTTTGGTACAAACGCTGCTATTGCTTACACATTTCCGGCGTTTTCCTAAAA
66 CCCTTTTGCAGTGTTACTGGTAAAAACGCCGCTATTGCTTACACATTTCCGGCGTTTACCTAAAA
* *
35269387 ACGCCACTAAATATTAAAGTTGTAAAGAGGGACGACGCCATTTTGTTAGTCTCAAATTGCATT-T
131 ACGCCACTAAATATTAAAGTTGTAAAGAGGAACGACGCCATTTTGTTAGTCTCAAATTGCATTAC
*
35269451 TTTCTGGCGTTTTACGTAAAAACGCCACTAATACTTGAT
196 TTT-TGGCGTTTTACGTAAAAACGCCACTAATACTTAAT
35269490 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAAC-GACACT-GTTTACCCATTACTCTAA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACAG-C-CTCGTTTACCCATTACTCTAA
* *
35269553 TACCCTTTTGCGACGT-TTACT-GTAAAAACGCCGCTATTGCTTCCACATTTTCGGCGTTTACCT
64 TACCCTTTTGC-A-GTGTTACTGGTAAAAACGCCGCTATTGCTTACACATTTCCGGCGTTTACCT
* * *
35269616 AAAAATGCCACTAAATATTAAAGTTGTAAAG-GGAAACGGCGCCGTTTTGTTAGTCTCAAATTGC
127 AAAAACGCCACTAAATATTAAAGTTGTAAAGAGG-AACGACGCCATTTTGTTAGTCTCAAATTGC
* *
35269680 ATTACTTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAAT
191 ATTACTTTTGGCGTTTTACGTAAAAACGCCACTAATACTTAAT
35269723 TT
1 TT
35269725 ACTTTAACCC
Statistics
Matches: 207, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
232 3 0.01
233 194 0.94
234 8 0.04
235 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (233 bp):
TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACAGCCTCGTTTACCCATTACTCTAATA
CCCTTTTGCAGTGTTACTGGTAAAAACGCCGCTATTGCTTACACATTTCCGGCGTTTACCTAAAA
ACGCCACTAAATATTAAAGTTGTAAAGAGGAACGACGCCATTTTGTTAGTCTCAAATTGCATTAC
TTTTGGCGTTTTACGTAAAAACGCCACTAATACTTAAT
Found at i:35269983 original size:270 final size:270
Alignment explanation
Indices: 35269490--35270056 Score: 773
Period size: 270 Copynumber: 2.1 Consensus size: 270
35269480 AATACTTGAT
* *
35269490 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGACACTGTTTACCCATTACTCTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGACACCGTTTACACATTACTCTAATA
* * * *
35269555 CCCTTTTGCGACGTTTACTGTAAAAACGCCGCTATTGCTTCCACATTTTCGGCGTTTACCTAAAA
66 CCCTTTTGCGACATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTACCTAAAA
* * ** * * *
35269620 ATGCCACTAAATATTAAAGTTGTAAAGGGAAACGGCGCCGTTTTGTTAGTCTCAAATTGCATTAC
131 ACGCCACTAAATATTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATTAC
** *
35269685 TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAATTTACTTTAACCCAAACGGTGATGTTTT
196 TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTTTT
35269750 AAATAAATAA
261 AAATAAATAA
** * * * * *
35269760 TTCTAAAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGTCGCCGTTTAGACATTATTTTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGACACCGTTTACACATTACTCTAATA
* * *
35269825 CCCTTTTGCGGCATTTACTGTACAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTTGCC-AAA
66 CCCTTTTGCGACATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCG-TTTACCTAAA
*
35269889 AACGCCA-TAAATATTTAAAGTCGTAAACAGAAACAGTGCCGTTTTGCTACTCTCAAATTGCATT
130 AACGCCACTAAATA-TTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATT
* * *
35269953 -GTTTCTGGCGTTTTATGTTAAAAA-GCCACTAATACTTAACGTACTTTAAGCCAAATGGTGACG
194 ACTTT-TGGCGTTTTATG-TAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACG
*
35270016 TTTTAAGTAAATAA
257 TTTTAAATAAATAA
* *
35270030 TTCTAAACTTTTTATAAGTTAAAAATC
1 TTCTAAAATTTTTCTAAGTTAAAAATC
35270057 ATGGAGAGAA
Statistics
Matches: 260, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
269 9 0.03
270 240 0.92
271 11 0.04
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (270 bp):
TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGACACCGTTTACACATTACTCTAATA
CCCTTTTGCGACATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTACCTAAAA
ACGCCACTAAATATTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATTAC
TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTTTT
AAATAAATAA
Found at i:35270556 original size:14 final size:14
Alignment explanation
Indices: 35270489--35270558 Score: 61
Period size: 14 Copynumber: 4.8 Consensus size: 14
35270479 GATCTGACCT
35270489 TTAAATTCCTAAACCC
1 TTAAA-TCCT-AACCC
*
35270505 -TAAATCATTAACCCC
1 TTAAATC-CTAA-CCC
**
35270520 TTAACCCCTAACCC
1 TTAAATCCTAACCC
*
35270534 TTAATTCCTAACCC
1 TTAAATCCTAACCC
35270548 TTAAATCCTAA
1 TTAAATCCTAA
35270559 ATCCATACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
14 29 0.66
15 11 0.25
16 4 0.09
ACGTcount: A:0.36, C:0.34, G:0.00, T:0.30
Consensus pattern (14 bp):
TTAAATCCTAACCC
Found at i:35270771 original size:35 final size:35
Alignment explanation
Indices: 35270700--35270774 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
35270690 CAATATTATC
* **
35270700 TTTATAATATTTATTTTTTTGTATAAAGTTTGAAA
1 TTTATAATATTTATTTTATTGTATAAAGAATGAAA
35270735 TTTATAATATTTTATTTTATTG-ATAAATGAAT-AAA
1 TTTATAATA-TTTATTTTATTGTATAAA-GAATGAAA
35270770 TTTAT
1 TTTAT
35270775 CTAATTAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (35 bp):
TTTATAATATTTATTTTATTGTATAAAGAATGAAA
Found at i:35271708 original size:41 final size:41
Alignment explanation
Indices: 35271650--35271780 Score: 156
Period size: 41 Copynumber: 3.2 Consensus size: 41
35271640 AATTATTTTT
* *
35271650 GCGGCGCTTCATTAAAAACGCCGCTAAAACCCCTAGAATTA
1 GCGGCGCTTCATAAAAAACGCCGCTAAAACCCCTAGCATTA
* * **
35271691 GCGGCGATTCATAAAAAACGCTGCTAAAA-GTCTAAGCATTA
1 GCGGCGCTTCATAAAAAACGCCGCTAAAACCCCT-AGCATTA
* *
35271732 GCGGCGCTTCATGAAAAACGCCGCTAAAAACCCCGAGCATTA
1 GCGGCGCTTCATAAAAAACGCCGCT-AAAACCCCTAGCATTA
*
35271774 GCAGCGC
1 GCGGCGC
35271781 ATTTTTATAA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
40 2 0.03
41 54 0.73
42 17 0.23
43 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTCATAAAAAACGCCGCTAAAACCCCTAGCATTA
Found at i:35272159 original size:123 final size:124
Alignment explanation
Indices: 35271835--35272205 Score: 374
Period size: 123 Copynumber: 3.0 Consensus size: 124
35271825 AATAAAAACG
* * * * **
35271835 CCACTAATTCCCCCCGAAAGGTCACCAAACGACGCCGTTGGCTTTTATTA-TTTGCAATATTTTT
1 CCACTAAAT-CCCCCAAAAGGGCACCAAACGACGCCGTTGGCTTTTATTATTTTGCGACGTTTTT
* * *
35271899 TCAAAAAATGCCACTAATGGTTATTTTTTGCGGCGATTTTAAAGAAACGCTGCTAATGCT
65 CCAAAAAATGCCACTAATGATTATTTTTTGCGGCGATTTTAAAGAAACGCGGCTAATGCT
* * * * * *
35271959 CCACTAAATCCCCCAAAAGGGCACCGAACAACGCCGTTGGCATTTAAT-TTTTGCGGCGTTTTCC
1 CCACTAAATCCCCCAAAAGGGCACCAAACGACGCCGTTGGCTTTTATTATTTTGCGACGTTTTTC
** * * *
35272023 CAAAAAATGCCACTAATGATT-TTTTTTGCGGCGATTTTAGTGTAATGCGGCTGATGCT
66 CAAAAAATGCCACTAATGATTATTTTTTGCGGCGATTTTAAAGAAACGCGGCTAATGCT
*** * * * *
35272081 CCACTAAATCCCTTGAAA-GGCGATCAAACGACGCCATTGGGTTTTATTATTTTGTGACGTTTTT
1 CCACTAAATCCCCCAAAAGGGC-ACCAAACGACGCCGTTGGCTTTTATTATTTTGCGACGTTTTT
* * * * * * *
35272145 GCTAAAAACGCCACTAAT-ACTTATTTTTTGCGGCGTTTTTAAGGAAATGCCGCTAATGCT
65 CCAAAAAATGCCACTAATGA-TTATTTTTTGCGGCGATTTTAAAGAAACGCGGCTAATGCT
35272205 C
1 C
35272206 ACTCTTTAAC
Statistics
Matches: 200, Mismatches: 42, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
121 3 0.01
122 66 0.33
123 91 0.46
124 40 0.20
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (124 bp):
CCACTAAATCCCCCAAAAGGGCACCAAACGACGCCGTTGGCTTTTATTATTTTGCGACGTTTTTC
CAAAAAATGCCACTAATGATTATTTTTTGCGGCGATTTTAAAGAAACGCGGCTAATGCT
Found at i:35288487 original size:13 final size:13
Alignment explanation
Indices: 35288388--35288487 Score: 62
Period size: 13 Copynumber: 7.6 Consensus size: 13
35288378 CTGTAACTGA
35288388 TTCATAT-ATCCAT
1 TTCATATAAT-CAT
*
35288401 TCCATAT-ATCTAT
1 TTCATATAATC-AT
*
35288414 TTCTATATAA-CTAA
1 TTC-ATATAATC-AT
*
35288428 TTCTTATAATCAT
1 TTCATATAATCAT
* **
35288441 TTCACATACCCAT
1 TTCATATAATCAT
* *
35288454 TTCATATAAACAA
1 TTCATATAATCAT
35288467 TTCATATAATCAT
1 TTCATATAATCAT
*
35288480 TTCGTATA
1 TTCATATA
35288488 GCCATTCCAA
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
12 1 0.01
13 54 0.81
14 11 0.16
15 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.01, T:0.43
Consensus pattern (13 bp):
TTCATATAATCAT
Found at i:35288493 original size:39 final size:40
Alignment explanation
Indices: 35288381--35288482 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
35288371 TATTTATCTG
* * * * *
35288381 TAACTGATTCATAT-ATCCATTCCATATATCTATTTCTATA
1 TAACTAATTCATATAAT-CATTTCACATACCCATTTCTATA
*
35288421 TAACTAATTCTTATAATCATTTCACATACCCATTTC-ATA
1 TAACTAATTCATATAATCATTTCACATACCCATTTCTATA
35288460 TAAAC-AATTCATATAATCATTTC
1 T-AACTAATTCATATAATCATTTC
35288483 GTATAGCCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
39 21 0.40
40 30 0.57
41 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.01, T:0.42
Consensus pattern (40 bp):
TAACTAATTCATATAATCATTTCACATACCCATTTCTATA
Found at i:35291580 original size:44 final size:44
Alignment explanation
Indices: 35291467--35291580 Score: 156
Period size: 44 Copynumber: 2.6 Consensus size: 44
35291457 CTTCGATCTG
* * * *
35291467 CTCCACTACTGCTTATGGAGATAAGATCTATAATTTTCAACCTA
1 CTCCACTACTGCTTAAGGAGATAAGGTCTACAATCTTCAACCTA
* *
35291511 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACTTA
1 CTCCACTACTGCTTAAGGAGATAAGGTCTACAATCTTCAACCTA
* *
35291555 CTCCACTGCTGCTCAAGGAGATAAGG
1 CTCCACTACTGCTTAAGGAGATAAGG
35291581 CTAGTGGCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAAGGAGATAAGGTCTACAATCTTCAACCTA
Found at i:35291584 original size:176 final size:176
Alignment explanation
Indices: 35291370--35291741 Score: 536
Period size: 176 Copynumber: 2.1 Consensus size: 176
35291360 ATCTGTAATT
* * *
35291370 TTCAACCTACTACACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
* * *
35291435 TTGGGAAGATCAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTATGG-AGATAAGATCTATA
66 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTA-GGTAGATAAGATATATA
*
35291499 ATTTTCAACCTACTCCACTACTG-CTTAGGGAGATAAGG--TCTACAATC
130 ATTTTCAACCTACTCCACTACTGAC-CAGGGAGAT-AGGATTC-ACAATC
*
35291546 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATTTGCTTCCCTACTACC
1 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
* * * *
35291611 TTGGGAAGATAAGATTCACCGTTTTTGATCTGCTCCACTACTGCTTAGGTAGATAAGATATGTAA
66 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGTAGATAAGATATATAA
* * *
35291676 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCATC
131 TTTTCAACCTACTCCACTACTGACCAGGGAGATAGGATTCACAATC
*
35291722 TTCAACTTATTCCACTGCTG
1 TTCAACTTACTCCACTGCTG
35291742 ACCAGGGAGA
Statistics
Matches: 176, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
175 5 0.03
176 168 0.95
177 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (176 bp):
TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGTAGATAAGATATATAA
TTTTCAACCTACTCCACTACTGACCAGGGAGATAGGATTCACAATC
Found at i:35291621 original size:88 final size:88
Alignment explanation
Indices: 35291370--35291629 Score: 235
Period size: 88 Copynumber: 3.0 Consensus size: 88
35291360 ATCTGTAATT
* * *
35291370 TTCAACCTACTACACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
* * *
35291435 TTGGGAAGATCAGATTCGCCATC
66 TTGGGAAGATAAGATTCACAATC
* * * * * * *** * * *
35291458 TTCGA-TCTGCTCCACTACTGCTTATGGAGATAAGATCTA-TAATTTTCAACCTAC-TCCACTAC
1 TTCAACT-TACTCCACTGCTGCTCAAGGAGATAAG-GCTAGT-GGCTTAAATCTGCTTCC-CTAC
* *
35291520 T-GCTTAGGG-AGATAAG-GTCTACAATC
62 TACCTT-GGGAAGATAAGATTC-ACAATC
*
35291546 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATTTGCTTCCCTACTACC
1 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
35291611 TTGGGAAGATAAGATTCAC
66 TTGGGAAGATAAGATTCAC
35291630 CGTTTTTGAT
Statistics
Matches: 126, Mismatches: 34, Indels: 24
0.68 0.18 0.13
Matches are distributed among these distances:
87 19 0.15
88 86 0.68
89 21 0.17
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (88 bp):
TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
TTGGGAAGATAAGATTCACAATC
Found at i:35291665 original size:88 final size:87
Alignment explanation
Indices: 35291395--35291667 Score: 225
Period size: 88 Copynumber: 3.1 Consensus size: 87
35291385 TGCTGCTCAG
* * *
35291395 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATCAGATTCGCCATCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATTTT
*
35291460 CGATCTGCTCCACTACTGCTTA
66 TGATCTGCTCCACTACTGCTTA
* *** * * * * *
35291482 TGGAGATAAGATCTA-TAATTTTCAACCTAC-TCCACTACT-GCTTAGGG-AGATAAG-GTCTA-
1 -GGAGATAAG-GCTAGT-GGCTTAAATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTC-AC
* * * * * * *
35291541 CAATCTTCAACTTACTCCACTGCTGCTCAA
60 CATTTTTGATC-TGCTCCACTACTGCT-TA
* *
35291571 GGAGATAAGGCTAGTGGCTTAAATTTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTTTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATTTT
35291636 TGATCTGCTCCACTACTGCTTA
66 TGATCTGCTCCACTACTGCTTA
35291658 GGTAGATAAG
1 GG-AGATAAG
35291668 ATATGTAATT
Statistics
Matches: 133, Mismatches: 38, Indels: 28
0.67 0.19 0.14
Matches are distributed among these distances:
87 27 0.20
88 79 0.59
89 27 0.20
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (87 bp):
GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATTTT
TGATCTGCTCCACTACTGCTTA
Found at i:35291709 original size:44 final size:43
Alignment explanation
Indices: 35291678--35291897 Score: 297
Period size: 44 Copynumber: 5.1 Consensus size: 43
35291668 ATATGTAATT
* *
35291678 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATT-ACAATC
* * * *
35291722 TTCAACTTATTCCACTGCTGACCAGGGAG--A--A-TCCTATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTACAATC
35291760 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATT-ACAATC
*
35291804 TTCAACCTATTCCACTACTGACCAGGGAGATAGGAATCACAATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGG-ATTACAATC
*
35291848 TTCAACCTATTCCACTACTGACCAGGGAAATAGGACTTACAATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGA-TTACAATC
35291892 TTCAAC
1 TTCAAC
35291898 TTGATCTGCT
Statistics
Matches: 158, Mismatches: 10, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
38 31 0.20
39 1 0.01
40 2 0.01
42 2 0.01
43 2 0.01
44 118 0.75
45 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTACAATC
Found at i:35291781 original size:82 final size:87
Alignment explanation
Indices: 35291678--35291899 Score: 330
Period size: 82 Copynumber: 2.6 Consensus size: 87
35291668 ATATGTAATT
* * *
35291678 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCATCTTCAACTTATTCCACTGCTGA
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTCAACTTATTCCACTACTGA
*
35291743 CCA-GG-G-A-GAATC-CTATC
66 CCAGGGAGAAGGAATCACAATC
*
35291760 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTCAACTTATTCCACTACTGA
35291825 CCAGGGAGATAGGAATCACAATC
66 CCAGGGAGA-AGGAATCACAATC
*
35291848 TTCAACCTATTCCACTACTGACCAGGGAAATAGGACTT-ACAATCTTCAACTT
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGA-TTCACAATCTTCAACTT
35291900 GATCTGCTGT
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
82 64 0.51
83 2 0.02
84 1 0.01
86 1 0.01
87 5 0.04
88 51 0.40
89 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (87 bp):
TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTCAACTTATTCCACTACTGA
CCAGGGAGAAGGAATCACAATC
Found at i:35292171 original size:44 final size:43
Alignment explanation
Indices: 35292119--35292445 Score: 170
Period size: 44 Copynumber: 7.5 Consensus size: 43
35292109 CTACTCTACA
*
35292119 GCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACT
1 GCAACTTCAGAGAGATAAGAT-TGTGGATTTAATCCGCTCCACT
* * * * *
35292163 GCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACT
1 GCAACTTCAGAGAGATAAGATT-GTGGATTTAATCCGCTCCACT
* * ** * *
35292207 ACAACTTCAGGGAGATAAGATTCG-CCACCTTTAGTCTGC-CTCACT
1 GCAACTTCAGAGAGATAAGATT-GTGGA--TTTAATCCGCTC-CACT
* * * * **
35292252 GCTACTTCA-AGAGGATAAGACTTGCT-TACTTAGTCTACTCCACT
1 GCAACTTCAGAGA-GATAAGA-TTG-TGGATTTAATCCGCTCCACT
* * * * *** * *
35292296 ACAACTTCAGGGAGATAAGA--CTAGATGCGATCTGCT-CTCT
1 GCAACTTCAGAGAGATAAGATTGTGGATTTAATCCGCTCCACT
35292336 GCAACTTCAGAGAGATAAGATT-TGTGATTTTAATCCGCTCCACT
1 GCAACTTCAGAGAGATAAGATTGTG-GA-TTTAATCCGCTCCACT
* * * *
35292380 GCAACTTCA-AGGAGATAGGATTATTGGCTTTAA-CCTTCTCCACT
1 GCAACTTCAGA-GAGATAAGATT-GTGGATTTAATCC-GCTCCACT
*
35292424 GCAACTTCAGGGAGATAAGATT
1 GCAACTTCAGAGAGATAAGATT
35292446 CGCTATCTTC
Statistics
Matches: 217, Mismatches: 45, Indels: 42
0.71 0.15 0.14
Matches are distributed among these distances:
40 22 0.10
41 7 0.03
42 2 0.01
43 11 0.05
44 138 0.64
45 32 0.15
46 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
GCAACTTCAGAGAGATAAGATTGTGGATTTAATCCGCTCCACT
Found at i:35292396 original size:217 final size:217
Alignment explanation
Indices: 35291982--35292448 Score: 656
Period size: 217 Copynumber: 2.1 Consensus size: 217
35291972 CTCTAATCCA
* * * ** * *
35291982 CTCCACTACAACTTTAGGGAGATAGGATTTGTTTATTTAGTCTGCCCCACTTCAATTTCAGAGGG
1 CTCCACTACAACTTCAGGGAGATAAGATTCG-CCATTTAGTCTGCCCCACTGCAACTTCAGAGGG
* * *
35292047 ATAAGACTTGCTTTCTTGAGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCAATGTGATCTA
65 ATAAGACTTGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACCCAATGCGATCTA
*
35292112 CTCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACTGCAACTTCAGGGAG
130 CTCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACTGCAACTTCAAGGAG
*
35292177 ATAGGATTATTGGCTTTAATCTG
195 ATAGGATTATTGGCTTTAACCTG
* *
35292200 CTCCACTACAACTTCAGGGAGATAAGATTCGCCACCTTTAGTCTGCCTCACTGCTACTTCA-AGA
1 CTCCACTACAACTTCAGGGAGATAAGATTCGCCA--TTTAGTCTGCCCCACTGCAACTTCAGAG-
*
35292264 GGATAAGACTTGCTTACTT-AGTCTACTCCACTACAACTTCAGGGAGATAAGA-CTAGATGCGAT
63 GGATAAGACTTGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACCCA-ATGCGAT
* * * *
35292327 CTGCTCT-CTGCAACTTCAGAGAGATAAGATTTGT-GATTTTAATCCGCTCCACTGCAACTTCAA
127 CTACTCTACAGCAACTTCAGAGAGATAAGATCTGTGGA-TTTAATCCACTCCACTGCAACTTCAA
*
35292390 GGAGATAGGATTATTGGCTTTAACCTT
191 GGAGATAGGATTATTGGCTTTAACCTG
*
35292417 CTCCACTGCAACTTCAGGGAGATAAGATTCGC
1 CTCCACTACAACTTCAGGGAGATAAGATTCGC
35292449 TATCTTCAGT
Statistics
Matches: 223, Mismatches: 21, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
216 2 0.01
217 108 0.48
218 74 0.33
219 39 0.17
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (217 bp):
CTCCACTACAACTTCAGGGAGATAAGATTCGCCATTTAGTCTGCCCCACTGCAACTTCAGAGGGA
TAAGACTTGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACCCAATGCGATCTAC
TCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACTGCAACTTCAAGGAGA
TAGGATTATTGGCTTTAACCTG
Found at i:35292931 original size:260 final size:260
Alignment explanation
Indices: 35292467--35292968 Score: 819
Period size: 260 Copynumber: 1.9 Consensus size: 260
35292457 GTCTTTTTAA
** *
35292467 TTGCAATGTTGGGGAAACAAGATTCGCTGTCGTAGCTTCAATTTGTTCCACTACACCGCCAAGGA
1 TTGCAATGTTAAGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGA
* * * *
35292532 AGTAAGATTCGCCGTTGCGACTTTAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGC
66 AGTAAGATTCACCGTTGCGACTTCAATCTTTTTCACTGTAAGGCCAAAGAGATAGGATTCGCTAC
** * *
35292597 CCTTAGTTTCAATCCGCTCCACTTTAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
131 CCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
* *
35292662 GTTGTGGCTTCAATTTGCTCAGCTACAATGCCAGGGAAGTAAAATTCGCTGTTTCGGCTTCAATC
196 GTCGTGGCTTCAATTTGCTCAGCTACAATGCCACGGAAGTAAAATTCGCTGTTTCGGCTTCAATC
*
35292727 TTGCAATGTTAAGGAAACAAGATTCG-TCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGG
1 TTGCAATGTTAAGGAAACAAGATTCGCT-GTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGG
35292791 AAGTAAGATTCACCGTTGC-AGCTTCAATCTTTTTCACTGTAAGGCCAAAGAGATAGGATTCGCT
65 AAGTAAGATTCACCGTTGCGA-CTTCAATCTTTTTCACTGTAAGGCCAAAGAGATAGGATTCGCT
*
35292855 ACCCACAGCTTCAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCA
129 ACCCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCA
* *
35292920 CCGTCGTGGCTTCAATTTGCTCCGCTACAATGCCACGGAAGTAAGATTC
194 CCGTCGTGGCTTCAATTTGCTCAGCTACAATGCCACGGAAGTAAAATTC
35292969 ACCGTCGTGG
Statistics
Matches: 223, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
259 2 0.01
260 221 0.99
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (260 bp):
TTGCAATGTTAAGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGA
AGTAAGATTCACCGTTGCGACTTCAATCTTTTTCACTGTAAGGCCAAAGAGATAGGATTCGCTAC
CCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
GTCGTGGCTTCAATTTGCTCAGCTACAATGCCACGGAAGTAAAATTCGCTGTTTCGGCTTCAATC
Found at i:35293085 original size:45 final size:45
Alignment explanation
Indices: 35293036--35293172 Score: 125
Period size: 44 Copynumber: 3.1 Consensus size: 45
35293026 CGATCTGCTT
**
35293036 CACTGCCAGCACAGGAAGGTAAGATCTGCTATTTTCAACCTACTC
1 CACTGCCAGCACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
* * * * * * * * *
35293081 CACTG-CTGCTCAGGGAGACAAG-GCTGGTATCTTCGATCTACTT
1 CACTGCCAGCACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
** * *
35293124 CACTGCCAATACAAGAAGACAAGATCTGCTATTTTTAACCTACTC
1 CACTGCCAGCACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
35293169 CACT
1 CACT
35293173 ACTGCTCAGA
Statistics
Matches: 66, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 20 0.30
44 23 0.35
45 23 0.35
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (45 bp):
CACTGCCAGCACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
Found at i:35293192 original size:88 final size:88
Alignment explanation
Indices: 35293022--35293194 Score: 247
Period size: 88 Copynumber: 2.0 Consensus size: 88
35293012 AAGACGGGTG
* * * ** *
35293022 TCTTCGATCTGCTTCACTGCCAGCACAGGAAGGTAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
* *
35293087 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGAGAAACAAGGCTGGTA
* *
35293110 TCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTATTTTTAACCTACTCCACTAC
1 TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
35293175 TGCTCAGAGAAATAAGGCTG
66 TGCTCAGAGAAACAAGGCTG
35293195 AAGTTTCACC
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCTCAGAGAAACAAGGCTGGTA
Found at i:35294467 original size:19 final size:19
Alignment explanation
Indices: 35294445--35294485 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
35294435 TGACCTCTCC
35294445 TTTTCCTCTTCTTCTTTCT
1 TTTTCCTCTTCTTCTTTCT
* * *
35294464 TTTTCTTTTTCTTTTTTCT
1 TTTTCCTCTTCTTCTTTCT
35294483 TTT
1 TTT
35294486 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCCTCTTCTTCTTTCT
Found at i:35294495 original size:6 final size:6
Alignment explanation
Indices: 35294453--35294503 Score: 68
Period size: 6 Copynumber: 8.3 Consensus size: 6
35294443 CCTTTTCCTC
*
35294453 TTCTTCT TTCTTT TTCTTT TTCTTT TT-TCTT TTCTTT TTCTTT TCCTTT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TTCTTT
35294502 TT
1 TT
35294504 TCCATCATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 1 0.03
6 33 0.82
7 6 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTCTTT
Found at i:35294502 original size:24 final size:23
Alignment explanation
Indices: 35294444--35294505 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
35294434 TTGACCTCTC
*
35294444 CTTTTCCTCTTCTTCTTTCTTTTT
1 CTTTTCCT-TTTTTCTTTCTTTTT
*
35294468 CTTTTTCTTTTTTCTTTTCTTTTT
1 CTTTTCCTTTTTTC-TTTCTTTTT
35294492 CTTTTCCTTTTTTC
1 CTTTTCCTTTTTTC
35294506 CATCATCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
CTTTTCCTTTTTTCTTTCTTTTT
Found at i:35302432 original size:27 final size:27
Alignment explanation
Indices: 35302401--35302578 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
35302391 TAAATTGTAC
35302401 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
35302428 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
35302454 ATCCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35302482 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35302510 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35302537 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35302564 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35302579 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35302543 original size:82 final size:81
Alignment explanation
Indices: 35302402--35302557 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
35302392 AAATTGTACA
* *
35302402 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGATCCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATCCACTAAGTGT
35302467 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** * *
35302483 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGAT-CCACTAAGT
*
35302547 GTGCGAGTTGA
64 GTGCGAATTGA
35302558 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATCCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35302569 original size:82 final size:81
Alignment explanation
Indices: 35302398--35302578 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
35302388 GATTAAATTG
* *
35302398 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGATCCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATCCACTAA
35302463 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** * *
35302479 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGAT-CCACT
* **
35302543 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35302561 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35302579 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATCCACTAA
GTGTGCGAATTGACCA
Found at i:35304245 original size:41 final size:41
Alignment explanation
Indices: 35303931--35304243 Score: 423
Period size: 41 Copynumber: 7.6 Consensus size: 41
35303921 GTGTTACAGT
* * * *
35303931 TTTAGCGGTGTTTTTGGAAAAGCACCGCTAATGCTTTGGTC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTC
* *
35303972 TTTAGCGACGTTTTTAGGG-AAGCGTCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTT-GGGAAAGCGCCGCTAATGCTCTGGTC
* * *
35304013 TTTAGCGGCGTTTTTGGGGAAGCACCGCTATTGCTCTGGTC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTC
*
35304054 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTC
* *
35304095 TTTAGCGGCGTTTTCGGGGAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTC
* * *
35304136 TTTAGCGACGTTTTTGGGAAAGCGCCGCTAATACTCTGGTG
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTC
* * * *
35304177 TTTTGCGCCGTTTTT-AGAGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGGGA-AAGCGCCGCTAATGCTCTGGTC
35304218 TTTAGCGGCGTTTTTGGGAAAGCGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCC
35304244 ACAAAAACAT
Statistics
Matches: 237, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
40 5 0.02
41 228 0.96
42 4 0.02
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTC
Found at i:35304594 original size:21 final size:21
Alignment explanation
Indices: 35304570--35304673 Score: 73
Period size: 21 Copynumber: 4.9 Consensus size: 21
35304560 AGGTTTTTTA
*
35304570 TTTAGGGTATATGATTTAGAG
1 TTTAGGGTTTATGATTTAGAG
* * * * *
35304591 TTTAAGGTTTAGGAGTTACTAT
1 TTTAGGGTTTATGATTTA-GAG
* *
35304613 TTTAAGGTTTATCGATTTTGAG
1 TTTAGGGTTTAT-GATTTAGAG
* * *
35304635 TTTAGGGGTTATGGTTTACAG
1 TTTAGGGTTTATGATTTAGAG
* *
35304656 TTTATGGTTTAAGATTTA
1 TTTAGGGTTTATGATTTA
35304674 TGGTTTAAGG
Statistics
Matches: 61, Mismatches: 20, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
21 34 0.56
22 23 0.38
23 4 0.07
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTATGATTTAGAG
Found at i:35304660 original size:14 final size:14
Alignment explanation
Indices: 35304643--35304682 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
35304633 AGTTTAGGGG
35304643 TTATGGTTTACAG-T
1 TTATGGTTTA-AGAT
35304657 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
35304671 TTATGGTTTAAG
1 TTATGGTTTAAG
35304683 GGTATAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 2 0.08
14 23 0.92
ACGTcount: A:0.25, C:0.03, G:0.23, T:0.50
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:35304710 original size:14 final size:15
Alignment explanation
Indices: 35304691--35304734 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
35304681 AGGGTATAGA
35304691 TTAAGGGTT-GGGGT
1 TTAAGGGTTAGGGGT
*
35304705 TTAAGGTTTAGGGG-
1 TTAAGGGTTAGGGGT
*
35304719 TTAGGGGTTAGGGGT
1 TTAAGGGTTAGGGGT
35304734 T
1 T
35304735 GAGAGTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (15 bp):
TTAAGGGTTAGGGGT
Found at i:35305120 original size:21 final size:22
Alignment explanation
Indices: 35305096--35305136 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35305086 ATGGTTTATT
35305096 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
35305117 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
35305137 GGATTTCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:35311739 original size:42 final size:42
Alignment explanation
Indices: 35311693--35311792 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 42
35311683 TTTTTGCAAG
* *
35311693 AAGCGTCGCTAAAGGTTTGTT-CTATAGCGGCGTTTGTAGTGA
1 AAGCGTCGCTAAAGGTTT-TTACTATAGCGGCGTTTCTAGTAA
* *
35311735 AAGCG-CTGCTAAAGATTTTTAGCTATAGCGGCGTTTCTCGTAA
1 AAGCGTC-GCTAAAGGTTTTTA-CTATAGCGGCGTTTCTAGTAA
35311778 AAGCGTCGCTAAAGG
1 AAGCGTCGCTAAAGG
35311793 CCATGGTCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
41 3 0.06
42 15 0.31
43 30 0.61
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
AAGCGTCGCTAAAGGTTTTTACTATAGCGGCGTTTCTAGTAA
Found at i:35311807 original size:43 final size:43
Alignment explanation
Indices: 35311760--35311856 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
35311750 TTTTTAGCTA
* *
35311760 TAGCGGCGTTTCTCGTAAAAGCG-TCGCTAAAGGCCATGGTCTT
1 TAGCGGCGTTTCTCGGAAAAGCGCT-GCTAAAGGCCATGGTCCT
* * * * *
35311803 TAGCGACGTTTGTTGGAGAAGCGCTGCTAAAGGTCATGGTCCT
1 TAGCGGCGTTTCTCGGAAAAGCGCTGCTAAAGGCCATGGTCCT
35311846 TAGCGGCGTTT
1 TAGCGGCGTTT
35311857 ATTTCTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTCTCGGAAAAGCGCTGCTAAAGGCCATGGTCCT
Found at i:35314023 original size:25 final size:25
Alignment explanation
Indices: 35313995--35314042 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
35313985 AAAGAAAAAA
* *
35313995 TAAAAAAAAAGAGAGATAAATAATG
1 TAAAAAAAAAGAAAGAAAAATAATG
* *
35314020 TAAAAGAAAGGAAAGAAAAATAA
1 TAAAAAAAAAGAAAGAAAAATAA
35314043 AAGAATTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (25 bp):
TAAAAAAAAAGAAAGAAAAATAATG
Found at i:35314443 original size:40 final size:39
Alignment explanation
Indices: 35314388--35314466 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
35314378 GACCAATTTG
*
35314388 ATCTTTGATCTCACGTATTTGGCTAATTTGGTCATGTTTT
1 ATCTTTGATCTCACGTATTTGACTAATTTGGTCAT-TTTT
35314428 ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
1 ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
35314467 GACTAGAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (39 bp):
ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
Found at i:35314457 original size:23 final size:23
Alignment explanation
Indices: 35314391--35314457 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
35314381 CAATTTGATC
*
35314391 TTTGATCTCACGTATTTGGCTAA
1 TTTGATCTCACGTATTTGACTAA
* * *
35314414 TTTG--GTCATGT-TTT-A-T-C
1 TTTGATCTCACGTATTTGACTAA
35314431 TTTGATCTCACGTATTTGACTAA
1 TTTGATCTCACGTATTTGACTAA
35314454 TTTG
1 TTTG
35314458 GTCATTTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 12
0.62 0.14 0.24
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 5 0.16
20 6 0.19
21 6 0.19
22 1 0.03
23 8 0.26
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.49
Consensus pattern (23 bp):
TTTGATCTCACGTATTTGACTAA
Found at i:35315008 original size:14 final size:14
Alignment explanation
Indices: 35314976--35315002 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35314966 AGTACAGTAA
35314976 AATATTTATAAAAT
1 AATATTTATAAAAT
35314990 AATATTTATAAAA
1 AATATTTATAAAA
35315003 ATATATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATTTATAAAAT
Found at i:35315011 original size:12 final size:12
Alignment explanation
Indices: 35314974--35315013 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
35314964 GGAGTACAGT
35314974 AAAATATTTATAA
1 AAAATATTTAT-A
35314987 AATAATATTTATA
1 AA-AATATTTATA
*
35315000 AAAATATATATA
1 AAAATATTTATA
35315012 AA
1 AA
35315014 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATTTATA
Found at i:35315661 original size:11 final size:11
Alignment explanation
Indices: 35315645--35315669 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35315635 TTTTATAATT
35315645 AATTATGTTTA
1 AATTATGTTTA
35315656 AATTATGTTTA
1 AATTATGTTTA
35315667 AAT
1 AAT
35315670 AAAGTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (11 bp):
AATTATGTTTA
Found at i:35316620 original size:15 final size:16
Alignment explanation
Indices: 35316589--35316621 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35316579 TTTTTTTAAA
*
35316589 TATTTTTTTGTAGTTT
1 TATTTTTTTGTAATTT
35316605 TATTTTTTT-TAATTT
1 TATTTTTTTGTAATTT
35316620 TA
1 TA
35316622 ATTATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
TATTTTTTTGTAATTT
Found at i:35319131 original size:23 final size:22
Alignment explanation
Indices: 35319079--35319131 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
35319069 TCCTTGTCCT
*
35319079 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
35319101 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
35319124 TTTCTTTT
1 TTTCTTTT
35319132 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:35319145 original size:18 final size:18
Alignment explanation
Indices: 35319124--35319163 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35319114 CTTTCTTCAA
* * *
35319124 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
35319142 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
35319160 TTTC
1 TTTC
35319164 GCTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:35322787 original size:40 final size:40
Alignment explanation
Indices: 35322596--35322780 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
35322586 TTGAATGATG
* * * * *
35322596 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
35322636 TCCG-GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGAG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35322676 TCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35322715 TCCGAGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35322756 -CCGGGCTATA-TCCCGAAGGCATTTG
1 TCCGAGCTA-AGTCCCGAAGGCATTTG
35322781 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
39 36 0.29
40 76 0.61
41 12 0.10
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35322803 original size:79 final size:79
Alignment explanation
Indices: 35322649--35322813 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
35322639 GGACTAAGAT
* * **
35322649 CCGAAGGCATTTGTGCGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35322714 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* * *
35322728 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATATCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGAGCTA-AGCCCGAAGGCATTTGAACGAGTTA-C
* *
35322791 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
35322807 CCGAAGG
1 CCGAAGG
35322814 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.60
80 27 0.37
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:35330641 original size:79 final size:81
Alignment explanation
Indices: 35330505--35330689 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
35330495 TTGAATGATG
* *
35330505 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
35330569 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35330584 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35330646 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
35330664 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35330690 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:35330703 original size:40 final size:40
Alignment explanation
Indices: 35330506--35330689 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
35330496 TGAATGATGT
* * * *
35330506 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35330546 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35330586 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
35330624 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35330665 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35330690 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35330711 original size:79 final size:79
Alignment explanation
Indices: 35330558--35330722 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
35330548 GGACTAAGAT
* * **
35330558 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35330623 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35330637 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35330700 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35330716 CCGAAGG
1 CCGAAGG
35330723 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35333568 original size:2 final size:2
Alignment explanation
Indices: 35333561--35333592 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35333551 TCTCATAGTT
35333561 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35333593 GGGTTAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35348906 original size:27 final size:26
Alignment explanation
Indices: 35348862--35348913 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35348852 TTTGCTACAA
*
35348862 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
35348889 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
35348914 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:35355224 original size:25 final size:26
Alignment explanation
Indices: 35355181--35355230 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
35355171 TTATTAACAG
35355181 GGGGATTATGTAATCTCAACGGATCT
1 GGGGATTATGTAATCTCAACGGATCT
35355207 GGGGATTAT-TAATCTCAACGGATC
1 GGGGATTATGTAATCTCAACGGATC
35355231 AATCGCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (26 bp):
GGGGATTATGTAATCTCAACGGATCT
Found at i:35357213 original size:18 final size:19
Alignment explanation
Indices: 35357190--35357226 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
35357180 CCGAATGCAC
35357190 TTTCATATACA-CATATAT
1 TTTCATATACATCATATAT
*
35357208 TTTCATTTACATCATATAT
1 TTTCATATACATCATATAT
35357227 GATTTGCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTCATATACATCATATAT
Found at i:35357453 original size:43 final size:41
Alignment explanation
Indices: 35357435--35357553 Score: 116
Period size: 41 Copynumber: 2.8 Consensus size: 41
35357425 TATCACATAT
35357435 CGATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATCAATTA
1 CGATGCCGA-TGTCCCAGAC-GTGGTCTTACACGAATCAATTA
* *
35357476 CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCACATATA
1 CGATGCCGATGTCCCAGACGTGGTCTTACACG-AATCA-AT-TA
** * *
35357520 TCGATATCAACGTCCCAGACGTGGTCTTACACGA
1 -CGATGCCGATGTCCCAGACGTGGTCTTACACGA
35357554 GAACACATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
41 28 0.43
42 5 0.08
43 2 0.03
44 3 0.05
45 27 0.42
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
CGATGCCGATGTCCCAGACGTGGTCTTACACGAATCAATTA
Found at i:35360989 original size:21 final size:22
Alignment explanation
Indices: 35360965--35361005 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35360955 TCCTGAGTTG
35360965 ACTCA-TTTATGGTTAAAGTCT
1 ACTCAGTTTATGGTTAAAGTCT
*
35360986 ACTCAGTTTGTGGTTAAAGT
1 ACTCAGTTTATGGTTAAAGT
35361006 GTTGAACCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (22 bp):
ACTCAGTTTATGGTTAAAGTCT
Found at i:35364814 original size:21 final size:20
Alignment explanation
Indices: 35364785--35364824 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
35364775 TATGAGATTT
35364785 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
35364806 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
35364825 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:35364832 original size:20 final size:21
Alignment explanation
Indices: 35364790--35364832 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35364780 GATTTAATGA
*
35364790 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
35364811 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
35364831 TT
1 TT
35364833 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:35368632 original size:16 final size:16
Alignment explanation
Indices: 35368613--35368643 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35368603 CTTCTTCACT
35368613 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
35368629 TACTTACTTACTTAA
1 TACTCACTTACTTAA
35368644 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:35368649 original size:20 final size:20
Alignment explanation
Indices: 35368610--35368649 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35368600 AAACTTCTTC
* *
35368610 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
35368630 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
35368650 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:35369025 original size:108 final size:110
Alignment explanation
Indices: 35368881--35369081 Score: 284
Period size: 108 Copynumber: 1.8 Consensus size: 110
35368871 ATCCTTTTGA
* * *
35368881 AACTTACCATTGCCATGTCTTGAAGTGGTCTTACATGGTAGCCTTGCCTTATGA-A-CTCACTAA
1 AACTTACCAATGCCATGTCTTGAAGTGGTCTTACATGATAGCCTTGCCTTA-GAGACCTCACCAA
35368944 -TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
65 CTGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
* ** *
35368989 AACTTATCAATGCCATGTCTTGACA-TGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAA
1 AACTTACCAATGCCATGTCTTGA-AGTGGTCTTACATGATAGCCTTGCCTTAGAGACCTCACCAA
*
35369053 CTGCCATGCCTTGGCATGGTCTTACATGG
65 CTGCCATGCATTGGCATGGTCTTACATGG
35369082 TATCCTTGAA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
107 2 0.02
108 45 0.56
109 7 0.09
110 27 0.33
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGAAGTGGTCTTACATGATAGCCTTGCCTTAGAGACCTCACCAAC
TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
Found at i:35369088 original size:55 final size:53
Alignment explanation
Indices: 35368834--35369089 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
35368824 ACACGGGTAC
* * *
35368834 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
35368883 CTTACCATTGCCATGTCTT-GAAGTGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGGCA-TGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * * *
35368936 CTCACTAATGCCATGCATTGGCATGGTCTTACATGGGA-CCTTTGCTTTATAGTAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGC-CT-TAGAAA
* * * * * *
35368991 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGAC
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAGA-AA
35369045 CTTACCAACTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
35369090 AACCCTAAAG
Statistics
Matches: 164, Mismatches: 29, Indels: 22
0.76 0.13 0.10
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
52 4 0.02
53 37 0.23
54 14 0.09
55 69 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:35372854 original size:17 final size:15
Alignment explanation
Indices: 35372832--35372865 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
35372822 TCCAATATTG
35372832 TATTTATTAAGTTTTAT
1 TATTTATT-A-TTTTAT
35372849 TATTTATTATTTTAT
1 TATTTATTATTTTAT
35372864 TA
1 TA
35372866 ACTCTGGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTTATTATTTTAT
Found at i:35374904 original size:33 final size:33
Alignment explanation
Indices: 35374817--35374905 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 33
35374807 GTCCTAATAG
* * *
35374817 ACTATCTTTGTTTTGTGTTTATTGTCCTAGAGG
1 ACTATCTCTGTTTTGTGTTTACTGTCCTAGAGA
* * * * * *
35374850 ACTATCTCCGTTCTATTTTTACTGTTCTAGTGA
1 ACTATCTCTGTTTTGTGTTTACTGTCCTAGAGA
*
35374883 ACTATCTCTATTTTGTGTTTACT
1 ACTATCTCTGTTTTGTGTTTACT
35374906 CTGATTTGTC
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (33 bp):
ACTATCTCTGTTTTGTGTTTACTGTCCTAGAGA
Found at i:35378215 original size:11 final size:11
Alignment explanation
Indices: 35378192--35378247 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
35378182 TATGAACTTG
*
35378192 TTCGACCATGA
1 TTCGACAATGA
*
35378203 TTCCACAATGA
1 TTCGACAATGA
* *
35378214 TTCAACAGTGA
1 TTCGACAATGA
35378225 TTCGA-AATGA
1 TTCGACAATGA
*
35378235 TTCGACTATGA
1 TTCGACAATGA
35378246 TT
1 TT
35378248 TGGTATTGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (11 bp):
TTCGACAATGA
Found at i:35378246 original size:21 final size:21
Alignment explanation
Indices: 35378192--35378247 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
35378182 TATGAACTTG
35378192 TTCGACCATGATTCCACAATGA
1 TTCGA-CATGATTCCACAATGA
* *
35378214 TTCAACAGTGATTCGA-AATGA
1 TTCGACA-TGATTCCACAATGA
35378235 TTCGACTATGATT
1 TTCGAC-ATGATT
35378248 TGGTATTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (21 bp):
TTCGACATGATTCCACAATGA
Found at i:35379653 original size:42 final size:42
Alignment explanation
Indices: 35379603--35379698 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
35379593 ACGGCCTGAA
35379603 ACACGGGCGTGTCTAGAGCCGTGTGAGGAACATGGCCTGTTC
1 ACACGGGCGTGTCTAGAGCCGTGTGAGGAACATGGCCTGTTC
35379645 ACACGGGCGTGTCTAGAGCCGTGTGAGGAACATGGCCTGTTC
1 ACACGGGCGTGTCTAGAGCCGTGTGAGGAACATGGCCTGTTC
*
35379687 ATACGGGCGTGT
1 ACACGGGCGTGT
35379699 GACCCCTGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.36, T:0.22
Consensus pattern (42 bp):
ACACGGGCGTGTCTAGAGCCGTGTGAGGAACATGGCCTGTTC
Found at i:35384145 original size:12 final size:12
Alignment explanation
Indices: 35384130--35384158 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35384120 TAAAGATACT
35384130 GATGATGATAAG
1 GATGATGATAAG
35384142 GATGATGATAAG
1 GATGATGATAAG
35384154 GATGA
1 GATGA
35384159 GCGTCGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.24
Consensus pattern (12 bp):
GATGATGATAAG
Found at i:35386780 original size:15 final size:16
Alignment explanation
Indices: 35386760--35386789 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35386750 AAAACATCTC
35386760 AGAAAA-ATAAAGAAT
1 AGAAAACATAAAGAAT
35386775 AGAAAACATAAAGAA
1 AGAAAACATAAAGAA
35386790 AACACAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.03, G:0.13, T:0.10
Consensus pattern (16 bp):
AGAAAACATAAAGAAT
Found at i:35397385 original size:47 final size:47
Alignment explanation
Indices: 35397313--35397444 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 47
35397303 CTCAATCGAT
* *
35397313 AAGTACCTATACCATGGCACGTAGCCAAATCAAGGTAACT-TATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCT-TCCCA
* * *
35397360 GAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTTTCCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT-CTTCCCA
* *
35397408 AAATACCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
35397445 TAACTCGCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
47 37 0.50
48 36 0.49
49 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCTTCCCA
Found at i:35401220 original size:40 final size:40
Alignment explanation
Indices: 35401024--35401206 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 40
35401014 TGAATGATGT
* * * *
35401024 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
35401064 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35401104 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
35401142 TCCGGGTTAAGT-CCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35401182 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35401207 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
39 68 0.57
40 44 0.37
41 8 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35401228 original size:78 final size:78
Alignment explanation
Indices: 35401070--35401239 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 78
35401060 ATATCCAGAC
* * **
35401070 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGT
1 TAAG-TCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
35401135 TACTAAATCCGGGT
65 TACTAAATCCGGGT
* *
35401149 TAAGTCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAG
*
35401213 -TAGCTATATCC-GGT
64 TTA-CTAAATCCGGGT
*
35401227 TAAATTCCGAAGG
1 T-AAGTCCGAAGG
35401240 TACGTGATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.48
79 39 0.49
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (78 bp):
TAAGTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTT
ACTAAATCCGGGT
Found at i:35409261 original size:40 final size:39
Alignment explanation
Indices: 35409177--35409361 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
35409167 TTGAATGATG
* * * *
35409177 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35409217 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35409257 TCCGGGCTAAGCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35409296 TCCGGGTTAAGTCTCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
35409337 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
35409362 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35409314 original size:79 final size:80
Alignment explanation
Indices: 35409177--35409361 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
35409167 TTGAATGATG
* * *
35409177 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
35409242 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
35409256 TTCCGGGCTAAG-CCCGAAGGTATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCAAATCCGGACTAAGATC-CGAAGGCA
*
35409318 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
35409336 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGG-ATTTG
35409362 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 55 0.62
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:35409383 original size:79 final size:78
Alignment explanation
Indices: 35409178--35409394 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 78
35409168 TGAATGATGT
** * * * * *
35409178 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAGATCCGAAGGCAATT
*
35409242 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
* ** *
35409258 CCGGGCTAAGCCCGAAGGTATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGATC-CGAAGGCAATTG
*
35409322 TGCGAGTTACT-ATAA
64 TGCGAGATACTAAT-A
*
35409337 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAGA-TCCGAAGG
35409395 TACGTGATTT
Statistics
Matches: 115, Mismatches: 14, Indels: 17
0.79 0.10 0.12
Matches are distributed among these distances:
78 4 0.03
79 66 0.57
80 45 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGATCCGAAGGCAATTGTG
CGAGATACTAATA
Found at i:35422982 original size:13 final size:13
Alignment explanation
Indices: 35422961--35422994 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35422951 AAAGTTTCAT
* *
35422961 TCCTCACACGTTA
1 TCCTAACACGCTA
35422974 TCCTAACACGCTA
1 TCCTAACACGCTA
35422987 TCCTAACA
1 TCCTAACA
35422995 TTTATGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.38, G:0.06, T:0.26
Consensus pattern (13 bp):
TCCTAACACGCTA
Found at i:35429388 original size:79 final size:81
Alignment explanation
Indices: 35429279--35429461 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
35429269 TACTCGTTCA
* *
35429279 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
35429342 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
35429359 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
35429422 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
35429438 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
35429462 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:35429461 original size:40 final size:40
Alignment explanation
Indices: 35429258--35429461 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
35429248 CGGAATTTAA
** *
35429258 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35429298 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35429338 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35429377 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35429417 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35429457 CCGGA
1 CCGGA
35429462 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35430665 original size:56 final size:56
Alignment explanation
Indices: 35430598--35430717 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
35430588 TATTAGTTTA
35430598 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
35430654 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
35430710 TTGCCCAT
1 TTGCCCAT
35430718 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:35438637 original size:29 final size:28
Alignment explanation
Indices: 35438603--35438680 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
35438593 TCCTGAGATT
35438603 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
35438633 -GCACTTAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
35438660 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
35438681 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:35438905 original size:174 final size:174
Alignment explanation
Indices: 35438633--35439134 Score: 923
Period size: 174 Copynumber: 2.9 Consensus size: 174
35438623 AAATTGTACA
* * *
35438633 GCACTTAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
35438698 TGTGCGAACCCAATATATATTTTCTAGAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
35438763 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
35438807 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
35438872 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
35438937 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
35438981 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
35439046 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
35439111 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
35439135 ACCTTGAGTT
Statistics
Matches: 316, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 316 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:35447193 original size:18 final size:18
Alignment explanation
Indices: 35447170--35447204 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35447160 CCCAGCCGTC
35447170 TTCTCATTTATTTCTCAT
1 TTCTCATTTATTTCTCAT
*
35447188 TTCTCATTTCTTTCTCA
1 TTCTCATTTATTTCTCA
35447205 CGTCTGAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCTCATTTATTTCTCAT
Found at i:35451039 original size:59 final size:58
Alignment explanation
Indices: 35450975--35451160 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 58
35450965 ATGATAAATT
* * *
35450975 ATATATTTTTATTAACTTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAA-ATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATC
* * * * * *
35451034 ATATATTATGATTTTAGAA-A-ATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-AAT
1 ATATATT-TTA-ATTA-AATATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGTAT
35451094 C
58 C
* *
35451095 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATT-AAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATC
35451154 ATATATT
1 ATATATT
35451161 ATGATTTGAG
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
58 7 0.07
59 36 0.38
60 19 0.20
61 27 0.28
62 7 0.07
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (58 bp):
ATATATTTTAATTAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATC
Found at i:35451103 original size:120 final size:122
Alignment explanation
Indices: 35450968--35451258 Score: 460
Period size: 120 Copynumber: 2.4 Consensus size: 122
35450958 TAGTATGATG
* **
35450968 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATTTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTAT
* * *
35451033 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* * *
35451089 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTAT
* *
35451153 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
*
35451210 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTTAAA
35451259 ATATGATTAA
Statistics
Matches: 153, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
120 108 0.71
121 1 0.01
122 44 0.29
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:35451237 original size:18 final size:19
Alignment explanation
Indices: 35451202--35451238 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35451192 ATTATTAAGA
35451202 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
35451221 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
35451239 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:35451468 original size:44 final size:45
Alignment explanation
Indices: 35451403--35451493 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
35451393 ACCTCTATTC
* * *
35451403 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
35451447 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
35451492 CA
1 CA
35451494 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:35451508 original size:17 final size:16
Alignment explanation
Indices: 35451474--35451526 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
35451464 GATTAGCTAT
35451474 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35451490 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
35451507 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35451523 TACA
1 TACA
35451527 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Done.