Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 296 of 345
Found at i:88897255 original size:48 final size:46
Alignment explanation
Indices: 88897090--88897256 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 46
88897080 TGATATGTGT
* * * * *
88897090 GCTACTGTAAGACATGTCAGGGACATGCATCGGCCACA-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATAGATACGAGA
* *
88897136 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGATACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAGATACGAGA
*
88897182 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAC-A-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT--AG--ATACGAGA
* *
88897230 GCTAGTGTAAGACTTGTCTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
88897257 GGATCAGCTT
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
45 2 0.02
46 70 0.67
48 27 0.26
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAGATACGAGA
Found at i:88900991 original size:18 final size:19
Alignment explanation
Indices: 88900970--88901005 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88900960 AATAAAGAAA
*
88900970 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
88900988 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
88901006 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:88902464 original size:29 final size:29
Alignment explanation
Indices: 88902351--88902452 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
88902341 AAAATTGTAC
88902351 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
88902380 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
88902409 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
88902438 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
88902453 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:88907329 original size:93 final size:93
Alignment explanation
Indices: 88907217--88907388 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88907207 CGCCCATAAG
* *
88907217 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88907282 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
88907310 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88907375 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88907389 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88907385 original size:46 final size:46
Alignment explanation
Indices: 88907210--88907385 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88907200 TGTAACCCGC
* * *
88907210 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
88907256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
88907306 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
88907349 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88907386 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:88914912 original size:93 final size:93
Alignment explanation
Indices: 88914800--88914971 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88914790 CGCCCATAAG
* *
88914800 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88914865 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
88914893 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88914958 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88914972 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88914968 original size:46 final size:46
Alignment explanation
Indices: 88914793--88914968 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88914783 TGTAACCCGC
* * *
88914793 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
88914839 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
88914889 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
88914932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88914969 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:88919061 original size:18 final size:19
Alignment explanation
Indices: 88919040--88919075 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88919030 AATAAAGAAA
*
88919040 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
88919058 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
88919076 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:88920457 original size:29 final size:29
Alignment explanation
Indices: 88920415--88920487 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
88920405 AAAATTGTAC
88920415 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
88920444 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
88920473 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
88920488 GATTCACTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:88922671 original size:48 final size:48
Alignment explanation
Indices: 88922600--88922912 Score: 316
Period size: 48 Copynumber: 6.5 Consensus size: 48
88922590 TGTGCTACTA
88922600 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAG-CATGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCA-GTG
* *** * * *
88922648 TAAGACCATGTCTGGGACATGGCATCGACGTTGA-TATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCCAGTG
*
88922696 TAAGACCATGTCTGAGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* * * * *
88922744 TAAGACCCTGTCTAGGACATGGCATC-GCCTCAATATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* * * ** * *
88922791 TAAGACCATGTTTGGAACATGGCATCAG-CATTGTTAT-A-TGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAGAGCCAGTG
* *
88922837 TAAGACCATGTCTGGGACATGGCATTGG-CACCGATGTATGAGAGACAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCA-C-AT-TATGAGAGCCAGTG
*
88922887 TAAGACCATGTCCGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
88922913 AGCATTTTAC
Statistics
Matches: 213, Mismatches: 43, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
46 32 0.15
47 43 0.20
48 105 0.49
49 3 0.01
50 30 0.14
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
Found at i:88922877 original size:143 final size:144
Alignment explanation
Indices: 88922600--88922912 Score: 413
Period size: 143 Copynumber: 2.2 Consensus size: 144
88922590 TGTGCTACTA
* *
88922600 TAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCATGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCATGTGTAAGACCATGTCTGGAA
* *
88922665 CATGGCATCGACGTTGATATGTGTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCACAT
66 CATGGCATCGACATTGATATATGTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCACAT
*
88922730 TATGAGAGCCAGTG
131 TATGAGAGACAGTG
* * * * *
88922744 TAAGACCCTGTCTAGGACATGGCATC-GCCTCAATATGTGAGCCA-GTGTAAGACCATGTTTGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAG-CATGTGTAAGACCATGTCTGGA
* * *
88922807 ACATGGCATC-AGCATTGTTATATGT-C-AGTGTAAGACCATGTCTGGGACATGGCATTGG-CAC
65 ACATGGCATCGA-CATTGATATATGTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCA-
88922868 CGATGTATGAGAGACAGTG
128 C-AT-TATGAGAGACAGTG
*
88922887 TAAGACCATGTCCGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
88922913 AGCATTTTAC
Statistics
Matches: 148, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
140 2 0.01
141 31 0.21
142 4 0.03
143 85 0.57
144 26 0.18
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (144 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCATGTGTAAGACCATGTCTGGAA
CATGGCATCGACATTGATATATGTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCACAT
TATGAGAGACAGTG
Found at i:88924715 original size:40 final size:40
Alignment explanation
Indices: 88924666--88924851 Score: 284
Period size: 40 Copynumber: 4.7 Consensus size: 40
88924656 TAATTATATC
*
88924666 CGGGTTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATA
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATA
88924706 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATA
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATA
* *
88924746 CGGGCTAAGACCTGAAGGCATTCGTGCGAGTTGTTAAATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATA
* * * ** *
88924786 CGGGCTAATACCCGAAGGCATTTGTGCAAG-TGTTCTATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATA
88924825 CGGGCTAAGACCCGAAGGCATTCGTGC
1 CGGGCTAAGACCCGAAGGCATTCGTGC
88924852 ATGTGGTTAT
Statistics
Matches: 135, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 32 0.24
40 103 0.76
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATA
Found at i:88925660 original size:31 final size:32
Alignment explanation
Indices: 88925625--88925689 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
88925615 AAAAATCACC
88925625 AAAA-TTTTAGGAATGGTATTAAATAGTGAAT
1 AAAATTTTTAGGAATGGTATTAAATAGTGAAT
88925656 AAAATTTTTAGGAATGGTATTAAATAGTGAAT
1 AAAATTTTTAGGAATGGTATTAAATAGTGAAT
88925688 AA
1 AA
88925690 GTTATGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.35
Consensus pattern (32 bp):
AAAATTTTTAGGAATGGTATTAAATAGTGAAT
Found at i:88928564 original size:12 final size:12
Alignment explanation
Indices: 88928547--88928571 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88928537 AAGTTACATT
88928547 ATGTTAGAACAA
1 ATGTTAGAACAA
88928559 ATGTTAGAACAA
1 ATGTTAGAACAA
88928571 A
1 A
88928572 AAATTTGATA
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATGTTAGAACAA
Found at i:88931429 original size:43 final size:42
Alignment explanation
Indices: 88931369--88931494 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 42
88931359 TACCATGCCA
** *
88931369 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCAAATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAAATAG
* * *
88931411 ATGCCAATAGCCCAGATATGGTCTTATATGAAATCTCATATAG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCAAATAG
* *
88931454 ATAG-CATATCCCAAATATGGTCTTACACGTAAA-CTCAAATA
1 AT-GCCATATCCCAGATATGGTCTTACATG-AAATCTCAAATA
88931495 ACCTTAATGC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.46
43 37 0.53
44 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAAATAG
Found at i:88934252 original size:10 final size:10
Alignment explanation
Indices: 88934215--88934255 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
88934205 CTAATTTTTT
88934215 TTCATTTCTA
1 TTCATTTCTA
88934225 TT--TTTCTA
1 TTCATTTCTA
*
88934233 TTC-GTTCTA
1 TTCATTTCTA
88934242 TTCATTTCTA
1 TTCATTTCTA
88934252 TTCA
1 TTCA
88934256 AACATGCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 8 0.30
9 8 0.30
10 11 0.41
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (10 bp):
TTCATTTCTA
Found at i:88939990 original size:53 final size:53
Alignment explanation
Indices: 88939813--88940019 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
88939803 ATTAGGGTTT
* * * * * *
88939813 AAGGATACCAAGTAAGACCACGCCAA-AGCATGGCATTCGTAAGTTTTAAAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
88939867 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TCATAAGGC
* * * *
88939922 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* **
88939975 AAGGATACCACGTAAGACCATGTTAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
88940020 TAAAAAGAAA
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
53 46 0.38
54 33 0.28
55 41 0.34
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:88940037 original size:53 final size:53
Alignment explanation
Indices: 88939813--88940037 Score: 123
Period size: 54 Copynumber: 4.2 Consensus size: 53
88939803 ATTAGGGTTT
* * * * * **
88939813 AAGGATACCAAGTAAGACCACGCCAA-AGCATGGCATTCGTAAGTTTTAAAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGA-CATGGCAATGGTAAG-TTAAAAAGAA
* * * * * * * * * * *
88939867 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTATGATAAGGCA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-T-AAAAAGAA
* * * * * * **
88939923 AA-GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTAAAAAGAA
**
88939975 AAGGATACCACGTAAGACCATGTTAAGACATGGCAATGGTAAGTTTAAAAAGAA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTAAAAAGAA
88940029 AAGG-TACCA
1 AAGGATACCA
88940038 GTGTATCCTT
Statistics
Matches: 125, Mismatches: 40, Indels: 13
0.70 0.22 0.07
Matches are distributed among these distances:
52 4 0.03
53 40 0.32
54 43 0.34
55 33 0.26
56 5 0.04
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTAAAAAGAA
Found at i:88946664 original size:53 final size:51
Alignment explanation
Indices: 88946548--88946726 Score: 188
Period size: 52 Copynumber: 3.5 Consensus size: 51
88946538 ACACATCGAA
* * * * *
88946548 GCCACAGCCCTGCCATGGTCTTACACGGATCACATAT-A-AT---ACTGAT
1 GCCATAGCCCAGCTATGGTCTTATACGGAACACATATCACATCACACTGAT
* **
88946594 GCCATATCCCAAATATGGTCTTATACGGAATCACATTATCACATCACACTGAT
1 GCCATAGCCCAGCTATGGTCTTATACGGAA-CACA-TATCACATCACACTGAT
** *
88946647 GCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTGCACCGAT
1 GCCATAGCCCAGCTATGGTCTTATAC-GGAACACATATCACATCACACTGAT
*
88946699 GCCATAGCCCAGCTCTGGTCTTATACGG
1 GCCATAGCCCAGCTATGGTCTTATACGG
88946727 GCGCACATAT
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
46 22 0.20
47 4 0.04
48 3 0.03
49 1 0.01
50 2 0.02
51 2 0.02
52 39 0.35
53 33 0.30
54 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (51 bp):
GCCATAGCCCAGCTATGGTCTTATACGGAACACATATCACATCACACTGAT
Found at i:88946707 original size:52 final size:52
Alignment explanation
Indices: 88946591--88946738 Score: 190
Period size: 52 Copynumber: 2.8 Consensus size: 52
88946581 ATATAATACT
* ** *
88946591 GATGCCATATCCCAAATATGGTCTTATAC-GGAATCACATTATCACATCACACT
1 GATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACATCACACC
**
88946644 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTGCACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATCACACC
* **
88946696 GATGCCATAGCCCAGCTCTGGTCTTATACGGGCGCACATATCA
1 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCA
88946739 TATCTTTTTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
52 51 0.60
53 30 0.35
54 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATCACACC
Found at i:88947948 original size:17 final size:18
Alignment explanation
Indices: 88947915--88947948 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88947905 TTTTATCCCA
*
88947915 TTTAATTTATAAATTTCC
1 TTTAATTCATAAATTTCC
88947933 TTTAATTCAT-AATTTC
1 TTTAATTCATAAATTTC
88947949 ACTAATTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTCATAAATTTCC
Found at i:88948381 original size:15 final size:16
Alignment explanation
Indices: 88948357--88948390 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
88948347 GTATCTTGGA
88948357 TTCCTCTATTTCGGAT
1 TTCCTCTATTTCGGAT
*
88948373 TTCCT-TATTTTGGAT
1 TTCCTCTATTTCGGAT
88948388 TTC
1 TTC
88948391 TTGTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.12, C:0.21, G:0.12, T:0.56
Consensus pattern (16 bp):
TTCCTCTATTTCGGAT
Found at i:88977198 original size:15 final size:16
Alignment explanation
Indices: 88977178--88977217 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
88977168 TAAATTGAAA
88977178 AAATGAAAAGTT-ATT
1 AAATGAAAAGTTAATT
* *
88977193 AAATGACAATTTAATT
1 AAATGAAAAGTTAATT
88977209 AAATGAAAA
1 AAATGAAAA
88977218 AGAAAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (16 bp):
AAATGAAAAGTTAATT
Found at i:88988417 original size:26 final size:27
Alignment explanation
Indices: 88988351--88988420 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
88988341 AGCAAGCACT
* *
88988351 ATCGAGAAGCTCACAAAGAGCCAATTTA
1 ATCGAGATGCTCATAAAGAGCC-ATTTA
* *
88988379 AT-GGGATGCTCATGAAGAGCC-TTTA
1 ATCGAGATGCTCATAAAGAGCCATTTA
88988404 ATCGAGATGCTCATAAA
1 ATCGAGATGCTCATAAA
88988421 ATCTAAGGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 6 0.17
26 12 0.34
27 15 0.43
28 2 0.06
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
ATCGAGATGCTCATAAAGAGCCATTTA
Found at i:88999498 original size:42 final size:43
Alignment explanation
Indices: 88999425--88999560 Score: 150
Period size: 43 Copynumber: 3.2 Consensus size: 43
88999415 ATCTAGGACG
* *
88999425 TTGGCATCGAT-TTTAGCTTTACGTGTAAGACCATGTCTGAGACA
1 TTGGCATCGATATTT-G-ATTACATGTAAGACCATGTCTGAGACA
* * * *
88999469 TTGGCATCG-TATTTGATTTCATGTAAGACCCTGTCTAAGATA
1 TTGGCATCGATATTTGATTACATGTAAGACCATGTCTGAGACA
* * * *
88999511 GTGGCATCGATATTTGATTACATGTAAGACCATATCTGGGACG
1 TTGGCATCGATATTTGATTACATGTAAGACCATGTCTGAGACA
88999554 TTGGCAT
1 TTGGCAT
88999561 TGTACGAGCT
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.39
43 34 0.45
44 12 0.16
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (43 bp):
TTGGCATCGATATTTGATTACATGTAAGACCATGTCTGAGACA
Found at i:88999539 original size:43 final size:43
Alignment explanation
Indices: 88999426--88999543 Score: 141
Period size: 42 Copynumber: 2.7 Consensus size: 43
88999416 TCTAGGACGT
* * * *
88999426 TGGCATCGAT-TTTAGCTTTACGTGTAAGACCATGTCTGAGACAT
1 TGGCATCGATATTT-G-ATTACATGTAAGACCATGTCTAAGACAG
* * *
88999470 TGGCATCG-TATTTGATTTCATGTAAGACCCTGTCTAAGATAG
1 TGGCATCGATATTTGATTACATGTAAGACCATGTCTAAGACAG
88999512 TGGCATCGATATTTGATTACATGTAAGACCAT
1 TGGCATCGATATTTGATTACATGTAAGACCAT
88999544 ATCTGGGACG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 29 0.46
43 23 0.37
44 11 0.17
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (43 bp):
TGGCATCGATATTTGATTACATGTAAGACCATGTCTAAGACAG
Found at i:88999559 original size:43 final size:43
Alignment explanation
Indices: 88999404--88999560 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
88999394 TTTCATTTTT
* * * * *
88999404 TGTAAAACCAAATCTAGGACGTTGGCATCGAT-TTTAGCTTTACG
1 TGTAAGACCATATCTAAGACGTTGGCATCGATATTT-G-ATTACA
* * * *
88999448 TGTAAGACCATGTCTGAGACATTGGCATCG-TATTTGATTTCA
1 TGTAAGACCATATCTAAGACGTTGGCATCGATATTTGATTACA
* * *
88999490 TGTAAGACCCTGTCTAAGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATATCTAAGA-CGTTGGCATCGATATTTGATTACA
**
88999533 TGTAAGACCATATCTGGGACGTTGGCAT
1 TGTAAGACCATATCTAAGACGTTGGCAT
88999561 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
42 29 0.32
43 34 0.38
44 27 0.30
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATATCTAAGACGTTGGCATCGATATTTGATTACA
Found at i:89005801 original size:46 final size:46
Alignment explanation
Indices: 89005655--89005829 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
89005645 TCACTTGTGT
* *
89005655 GAGCTAGTGTAAGACATGTCTGGGACATGCATAGGCCAC-ATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GACGA
* * * *
89005701 GAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCAATGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGACGA
* * *
89005749 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACG-A
* *
89005796 -AGCTAGTGTAAGATATATCTGGGACATGCATCGG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG
89005830 TAACGAGATA
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 57 0.52
47 27 0.25
48 24 0.22
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGA
Found at i:89005837 original size:46 final size:43
Alignment explanation
Indices: 89005656--89005877 Score: 133
Period size: 46 Copynumber: 4.8 Consensus size: 43
89005646 CACTTGTGTG
* * ** *
89005656 AGCTAGTGTAAGACATGTCTGGGACATGCATAGGCCACATTACGA-G
1 AGCTAGTGTAAGA-ATATCTGGGACATGCATCGG-CA-ACGA-GATA
* * * * *
89005702 AGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCAATGAGACGA
1 AGCTAGTGTAAGA--ATATCTGGGACAT-GCATCGGCAACGAGA-TA
* * **
89005749 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATGTA
1 -AGCTAGTGTAAGA-ATATCTGGGACATGCATCGGCAACGAGA--TA
*
89005796 AGCTAGTGTAAGATATATCTGGGACATGCATCGGTAACGAGATA
1 AGCTAGTGTAAGA-ATATCTGGGACATGCATCGGCAACGAGATA
*
89005840 TG-TCAGTGTAAGGCAATATCTGGGACATAGCATCGGCA
1 AGCT-AGTGTAA-G-AATATCTGGGACAT-GCATCGGCA
89005878 CAGATATACT
Statistics
Matches: 145, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 16 0.11
46 72 0.50
47 29 0.20
48 17 0.12
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (43 bp):
AGCTAGTGTAAGAATATCTGGGACATGCATCGGCAACGAGATA
Found at i:89007259 original size:34 final size:32
Alignment explanation
Indices: 89007220--89007314 Score: 102
Period size: 34 Copynumber: 2.9 Consensus size: 32
89007210 TCAAGCCCAT
* **
89007220 TGGGCCTAAGCCCTATTCAGATAACAGTGGGTAC
1 TGGGCCTAAGCCCTTTTCAGATAACAGT--AAAC
* *
89007254 TGGGCCGAAGCCCTTTTCAAAT-ACAGTAAAC
1 TGGGCCTAAGCCCTTTTCAGATAACAGTAAAC
*
89007285 TGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 TGGGCCTAAG-CCCTTTTCAGATAACAGTA
89007315 TGGCCCATAG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
31 10 0.20
32 11 0.22
33 11 0.22
34 19 0.37
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (32 bp):
TGGGCCTAAGCCCTTTTCAGATAACAGTAAAC
Found at i:89007290 original size:31 final size:33
Alignment explanation
Indices: 89007252--89007314 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
89007242 AACAGTGGGT
89007252 ACTGGGCCGAAG-CCCTTTTCAAAT-ACAGTAA
1 ACTGGGCCGAAGCCCCTTTTCAAATAACAGTAA
** *
89007283 ACTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTTTTCAAATAACAGTA
89007315 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 10 0.37
32 11 0.41
33 6 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTTTTCAAATAACAGTAA
Found at i:89007637 original size:64 final size:65
Alignment explanation
Indices: 89007563--89007692 Score: 235
Period size: 64 Copynumber: 2.0 Consensus size: 65
89007553 AGTCCCATGC
*
89007563 ATCAGATAATAATAACATTGCAAGCAGTAAATAGTAACAGTCAAACATGCATT-AGGTCAACCTT
1 ATCAGATAATAATAACATGGCAAGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
*
89007627 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCAAGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
89007692 A
1 A
89007693 ACCTAGGGTA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
64 51 0.81
65 12 0.19
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCAAGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:89007721 original size:24 final size:25
Alignment explanation
Indices: 89007694--89007740 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
89007684 TCAACCTTAA
*
89007694 CCTAGGGTATATCAGT-AATTTTGC
1 CCTAGGGTAAATCAGTAAATTTTGC
*
89007718 CCTAGGGTAAATCTGTAAATTTT
1 CCTAGGGTAAATCAGTAAATTTT
89007741 CCACCTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (25 bp):
CCTAGGGTAAATCAGTAAATTTTGC
Found at i:89017571 original size:11 final size:11
Alignment explanation
Indices: 89017541--89017597 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
89017531 ATTATTTTAT
*
89017541 TTTTTATAAAA
1 TTTTTATAATA
* *
89017552 TTATCATAATA
1 TTTTTATAATA
89017563 TTTTTATAAATA
1 TTTTTAT-AATA
89017575 TTTTTAATTAAT-
1 TTTTT-A-TAATA
89017587 TTTTTATAATA
1 TTTTTATAATA
89017598 ATTTAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
10 4 0.11
11 14 0.38
12 14 0.38
13 4 0.11
14 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTTATAATA
Found at i:89017602 original size:22 final size:21
Alignment explanation
Indices: 89017539--89017608 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 21
89017529 AAATTATTTT
*
89017539 ATTTTTTATAA-AATTATCATA
1 ATTTTTTATAATAATT-TAATA
*
89017560 ATATTTTTATAAATATTTTTAATTA
1 AT-TTTTTAT-AATA-ATTTAA-TA
*
89017585 ATTTTTTATAATAATTTAAAA
1 ATTTTTTATAATAATTTAATA
89017606 ATT
1 ATT
89017609 ACTAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 6 0.15
22 12 0.30
23 6 0.15
24 10 0.25
25 6 0.15
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTTATAATAATTTAATA
Found at i:89022060 original size:21 final size:21
Alignment explanation
Indices: 89022019--89022062 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
89022009 TCATATTCTT
* *
89022019 TTAAATTTTTAGTATTTTTAA
1 TTAAATTTTTAATATTATTAA
89022040 TTAATATTTTTAATA-TATTAA
1 TTAA-ATTTTTAATATTATTAA
89022061 TT
1 TT
89022063 CTTTTGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTAAATTTTTAATATTATTAA
Found at i:89022827 original size:24 final size:22
Alignment explanation
Indices: 89022784--89022838 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
89022774 TAATGTATTA
89022784 AAAATATTAATTAAAAATAAAAAT
1 AAAATATTAA-TAAAAAT-AAAAT
89022808 AAAATATTAA-AACAACATAAAAT
1 AAAATATTAATAA-AA-ATAAAAT
89022831 AAAA-ATTA
1 AAAATATTA
89022839 CAACTGTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.21
23 11 0.38
24 12 0.41
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAATATTAATAAAAATAAAAT
Found at i:89024242 original size:20 final size:20
Alignment explanation
Indices: 89024217--89024258 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
89024207 ATGAATGAGA
*
89024217 AAAGTGTTTCAATACGGCGT
1 AAAGTGATTCAATACGGCGT
89024237 AAAGTGATTCAATACGGCGT
1 AAAGTGATTCAATACGGCGT
89024257 AA
1 AA
89024259 TTTTGGGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (20 bp):
AAAGTGATTCAATACGGCGT
Found at i:89025988 original size:143 final size:143
Alignment explanation
Indices: 89025784--89026059 Score: 473
Period size: 143 Copynumber: 1.9 Consensus size: 143
89025774 GTAATATTTG
* * *
89025784 AGAATGTTCGAATGAGTATCACAAATGACATGAACGAAAAGTTATTGCAGGTATTTTCTATGGAG
1 AGAATGTTCGAATGAGTATAACAAATGACATGAACGAAAAGTTATTGCAGGTATTTACTATGGAA
* * *
89025849 GAAATACGA-GTGGCAGTGAAAGATATGGTGCCTCTGAAAGCTTTTGGCCTTGATGGTTTCCCTA
66 GAAATA-GAGGTGGCAATGAAAGATATGGTGCCTCTGAAAGCTTCTGGCCTAGATGGTTTCCCTA
89025913 CACTATCACAAATA
130 CACTATCACAAATA
89025927 AGAATGTTCGAATGAGTATAACAAATGACATGAACGAAAAGTTATTGCAGGTATTTACTATGGAA
1 AGAATGTTCGAATGAGTATAACAAATGACATGAACGAAAAGTTATTGCAGGTATTTACTATGGAA
*
89025992 GAAATATAGGTGGCAATGAAAGATATGGTGCCTCTGAAAGCTTCTGGCCTAGATGGTTTCCCTAC
66 GAAATAGAGGTGGCAATGAAAGATATGGTGCCTCTGAAAGCTTCTGGCCTAGATGGTTTCCCTAC
89026057 ACT
131 ACT
89026060 TTTCTATCAA
Statistics
Matches: 125, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
142 1 0.01
143 124 0.99
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (143 bp):
AGAATGTTCGAATGAGTATAACAAATGACATGAACGAAAAGTTATTGCAGGTATTTACTATGGAA
GAAATAGAGGTGGCAATGAAAGATATGGTGCCTCTGAAAGCTTCTGGCCTAGATGGTTTCCCTAC
ACTATCACAAATA
Found at i:89027397 original size:27 final size:27
Alignment explanation
Indices: 89027343--89027397 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
89027333 TCACCAACAC
* *
89027343 TTAGATTTTATTTTAGCTGGGTTTGGT
1 TTAGATTTTATTTTAGCTGGGCTAGGT
89027370 TTAGATTTTATTTTAGCTGGGCTAGGT
1 TTAGATTTTATTTTAGCTGGGCTAGGT
89027397 T
1 T
89027398 CTTACCCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.16, C:0.05, G:0.25, T:0.53
Consensus pattern (27 bp):
TTAGATTTTATTTTAGCTGGGCTAGGT
Found at i:89032712 original size:26 final size:26
Alignment explanation
Indices: 89032683--89032790 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
89032673 TGATACAAAT
89032683 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89032709 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89032735 TGATAATGTGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89032761 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89032787 TGAT
1 TGAT
89032791 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89035124 original size:29 final size:29
Alignment explanation
Indices: 89035091--89035222 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
89035081 GTGACGAGAT
*
89035091 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
89035120 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
89035149 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
89035178 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
89035207 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89035223 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:89042868 original size:29 final size:29
Alignment explanation
Indices: 89042835--89042966 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
89042825 GTGACGAGAT
*
89042835 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
89042864 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
89042893 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
89042922 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
89042951 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89042967 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:89045257 original size:28 final size:26
Alignment explanation
Indices: 89045215--89045288 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
89045205 AAAAGCGGTT
* * *
89045215 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
89045243 AAATTACTGTTATA-CCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
89045268 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
89045289 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 16 0.40
26 7 0.17
27 5 0.12
28 12 0.30
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:89045435 original size:27 final size:27
Alignment explanation
Indices: 89045393--89045479 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
89045383 AGGAAGCGTC
* *
89045393 CTGGTGGCTATGCCACGAT-TATTTGAT
1 CTGGTGGCTATACCAC-ATATATCTGAT
* *
89045420 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATACCACATATATCTGAT
*
89045447 CTGGTGGCTATGCCACA-ATATCTGTAT
1 CTGGTGGCTATACCACATATATCTG-AT
89045474 CTGGTG
1 CTGGTG
89045480 ACTTCGTCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
26 9 0.18
27 42 0.82
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATACCACATATATCTGAT
Found at i:89045490 original size:27 final size:26
Alignment explanation
Indices: 89045393--89045497 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 26
89045383 AGGAAGCGTC
* * * *
89045393 CTGGTGGCTATGCCACGATTATTTGAT
1 CTGGTGACTATGCCAC-AATATCTGTT
* * *
89045420 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGACTATGCCACA-ATATCTGTT
*
89045447 CTGGTGGCTATGCCACAATATCTGTAT
1 CTGGTGACTATGCCACAATATCTGT-T
*
89045474 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTAT-GCCACAATATCTG
89045498 GCAGCCTCGC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
26 10 0.15
27 56 0.85
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGACTATGCCACAATATCTGTT
Found at i:89047014 original size:12 final size:12
Alignment explanation
Indices: 89046997--89047051 Score: 101
Period size: 12 Copynumber: 4.6 Consensus size: 12
89046987 CTCTGACTTG
89046997 TGCCACACGGCC
1 TGCCACACGGCC
89047009 TGCCACACGGCC
1 TGCCACACGGCC
89047021 TGCCACACGGCC
1 TGCCACACGGCC
89047033 TGCCACACGGCC
1 TGCCACACGGCC
*
89047045 TACCACA
1 TGCCACA
89047052 TGCCTATGGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.09
Consensus pattern (12 bp):
TGCCACACGGCC
Found at i:89055640 original size:40 final size:40
Alignment explanation
Indices: 89055580--89055766 Score: 275
Period size: 40 Copynumber: 4.7 Consensus size: 40
89055570 CAATTGAGGA
* *
89055580 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
89055620 TTATTTCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
89055660 TTATTTTCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
89055700 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
89055740 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
89055767 ATTGGGTTGG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:89059052 original size:13 final size:13
Alignment explanation
Indices: 89059034--89059058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89059024 TGGTCATCAT
89059034 GGTGTGAACACAA
1 GGTGTGAACACAA
89059047 GGTGTGAACACA
1 GGTGTGAACACA
89059059 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:89059627 original size:30 final size:31
Alignment explanation
Indices: 89059542--89059628 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 31
89059532 TAAACTAAAA
* * *
89059542 TGAGCTAAGCTTTAGCTTGTGACCT-AAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAAGT
* * * * *
89059572 TGAGCTGAGATTAAACTCCTAAGCTGAAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAAGT
*
89059602 TGAGCTAAGGTTTAGCTCGTGAGCTGA
1 TGAGCTAAGATTTAGCTCGTGAGCTGA
89059629 GTATGAGCTA
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
30 39 0.93
31 3 0.07
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAAGT
Found at i:89067972 original size:23 final size:22
Alignment explanation
Indices: 89067941--89067983 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
89067931 TATCCATAAA
*
89067941 AAACATCCAATATTTATTAATGG
1 AAACATCCAAAATTT-TTAATGG
*
89067964 AAACTTCCAAAATTTTTAAT
1 AAACATCCAAAATTTTTAAT
89067984 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (22 bp):
AAACATCCAAAATTTTTAATGG
Found at i:89075884 original size:38 final size:38
Alignment explanation
Indices: 89075841--89075917 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
89075831 TTTCAAATTA
*
89075841 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGACATATCCACTTAGCACCACGTT
* * *
89075879 ACATGTTTAACCATGATATATCCACTTAGCACCATGTT
1 ACATGTATAACCATGACATATCCACTTAGCACCACGTT
89075917 A
1 A
89075918 ATGAATCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGACATATCCACTTAGCACCACGTT
Found at i:89075955 original size:47 final size:48
Alignment explanation
Indices: 89075896--89076004 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
89075886 TAACCATGAT
**
89075896 ATATCCACTTAGCACCATGTTA-ATGAATCAATATATGTAACCGTGGC
1 ATATCCACTTAGCACCACATTACATGAATCAATATATGTAACCGTGGC
* * * * * *
89075943 ATATCCGCTTAGCATCACATTACATGTATCAATATGTGTAATCGTGGT
1 ATATCCACTTAGCACCACATTACATGAATCAATATATGTAACCGTGGC
89075991 ATATCCACTTAGCA
1 ATATCCACTTAGCA
89076005 GCACGTTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
47 18 0.35
48 34 0.65
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (48 bp):
ATATCCACTTAGCACCACATTACATGAATCAATATATGTAACCGTGGC
Found at i:89078375 original size:30 final size:30
Alignment explanation
Indices: 89078341--89078400 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
89078331 AAGATTTGGC
89078341 ACCATTATCTGTTCGGTGAAAAATGCCATG
1 ACCATTATCTGTTCGGTGAAAAATGCCATG
89078371 ACCATTATCTGTTCGGTGAAAAATGCCATG
1 ACCATTATCTGTTCGGTGAAAAATGCCATG
89078401 TTTACTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (30 bp):
ACCATTATCTGTTCGGTGAAAAATGCCATG
Found at i:89081443 original size:29 final size:28
Alignment explanation
Indices: 89081411--89081511 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 28
89081401 GACGAGATTA
* *
89081411 GCACTGAGTGTGCGAGCTTGTAATGTATG
1 GCACTAAGTGTGCGAGCTTG-AATATATG
* *
89081440 GCACTAAGTGTGCGAGTTTGGACTATATG
1 GCACTAAGTGTGCGAGCTT-GAATATATG
* * *
89081469 GCACTATGTGTGCGGGCTTGAATCACATG
1 GCACTAAGTGTGCGAGCTTGAAT-ATATG
89081498 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
89081512 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 56 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGCTTGAATATATG
Found at i:89084422 original size:43 final size:43
Alignment explanation
Indices: 89084336--89084438 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
89084326 TGATTACCTA
* * *
89084336 TAAGACCATGTCTGGTACATTGGCATTGCATTGAGATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATTGCATTAAAATTACGTG
*
89084379 TAAGACCATGTCTGGGACATTGGCA-T-CATTAATCAATTTCGTG
1 TAAGACCATGTCTGGGACATTGGCATTGCATTAA--AATTACGTG
* *
89084422 TAAGACCCTATCTGGGA
1 TAAGACCATGTCTGGGA
89084439 TAATGGCGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 5 0.10
42 1 0.02
43 46 0.88
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATTGCATTAAAATTACGTG
Found at i:89091468 original size:10 final size:10
Alignment explanation
Indices: 89091450--89091481 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
89091440 CCCCTTCTTG
*
89091450 ATAAATTTTT
1 ATAATTTTTT
89091460 ATAATTTTTT
1 ATAATTTTTT
89091470 ATAATTTTTT
1 ATAATTTTTT
89091480 AT
1 AT
89091482 TAAAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:89091576 original size:10 final size:10
Alignment explanation
Indices: 89091558--89091588 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
89091548 CCCCTTCTTG
89091558 ATAAATTTTT
1 ATAAATTTTT
89091568 AT-AATTTTT
1 ATAAATTTTT
89091577 ATAAATTTTT
1 ATAAATTTTT
89091587 AT
1 AT
89091589 TAAAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATAAATTTTT
Found at i:89091631 original size:107 final size:108
Alignment explanation
Indices: 89091418--89091636 Score: 413
Period size: 107 Copynumber: 2.0 Consensus size: 108
89091408 CCCCTGTAAC
*
89091418 TTTTGCTCCCCTCCCATCCCACCCCCTTCTTGATAAATTTTTATAATTTTTTATAATTTTTTATT
1 TTTTGCTCCCCTCCCATCCCACCCCCTTCTTGATAAATTTTTATAATTTTTTATAAATTTTTATT
*
89091483 AAAATTGAATTATTGATGACGCCATAAAATATTCGTGTTAAAA
66 AAAATTGAATTATTGATGACGCCATAAAATATTCGAGTTAAAA
89091526 TTTTGCTCCCCTCCCATCCCACCCCCTTCTTGATAAATTTTTATAA-TTTTTATAAATTTTTATT
1 TTTTGCTCCCCTCCCATCCCACCCCCTTCTTGATAAATTTTTATAATTTTTTATAAATTTTTATT
89091590 AAAATTGAATTATTGATGACGCCATAAAATATTCGAGTTAAAA
66 AAAATTGAATTATTGATGACGCCATAAAATATTCGAGTTAAAA
89091633 TTTT
1 TTTT
89091637 ATGTTGGTAT
Statistics
Matches: 109, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 63 0.58
108 46 0.42
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.43
Consensus pattern (108 bp):
TTTTGCTCCCCTCCCATCCCACCCCCTTCTTGATAAATTTTTATAATTTTTTATAAATTTTTATT
AAAATTGAATTATTGATGACGCCATAAAATATTCGAGTTAAAA
Found at i:89092524 original size:2 final size:2
Alignment explanation
Indices: 89092472--89092510 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
89092462 GTTATGTGCT
89092472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89092511 TGTGAGGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89101113 original size:27 final size:28
Alignment explanation
Indices: 89101076--89101215 Score: 148
Period size: 27 Copynumber: 5.2 Consensus size: 28
89101066 AGCATGGCTG
*
89101076 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGACAGAGCCA
89101102 CCAGATACAGATA-ATCGTGACAGAGCCA
1 CCAGATACAGATATAT-GTGACAGAGCCA
* *
89101130 CCAGA-ATAGATATGTGTGACAGAGCCA
1 CCAGATACAGATATATGTGACAGAGCCA
* * *
89101157 CCAAAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGACAGAGCCA
* * *
89101184 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGACAGAGCCA
89101211 CCAGA
1 CCAGA
89101216 ACGCTTCCTC
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.05
27 79 0.78
28 17 0.17
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGACAGAGCCA
Found at i:89101869 original size:26 final size:26
Alignment explanation
Indices: 89101833--89101968 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
89101823 CATGATATTC
89101833 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
89101859 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89101885 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
89101911 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89101937 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
89101963 TTATCA
1 TTATCA
89101969 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89105970 original size:27 final size:28
Alignment explanation
Indices: 89105933--89106072 Score: 139
Period size: 27 Copynumber: 5.2 Consensus size: 28
89105923 AGCATGGCTG
*
89105933 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGACAGAGCCA
89105959 CCAGATACAGATA-ATCGTGACAGAGCCA
1 CCAGATACAGATATAT-GTGACAGAGCCA
* * *
89105987 CCAGA-ATAGATATGTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGACAGAGCCA
* *
89106014 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGACAGAGCCA
* * * *
89106041 CCAGAT-CAAATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGACAGAGCCA
89106068 CCAGA
1 CCAGA
89106073 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.05
27 80 0.78
28 17 0.17
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGACAGAGCCA
Found at i:89105992 original size:54 final size:54
Alignment explanation
Indices: 89105933--89106072 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
89105923 AGCATGGCTG
*
89105933 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGACAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGACAGAGCCA
* * * * * *
89105987 CCAGAATAGATATGTGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGACAGAGCCA
* * * * *
89106041 CCAGATCAAATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGACAGAGCCACCAGA
89106073 ACGCTTCCTC
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 56 0.77
55 17 0.23
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGACAGAGCCA
Found at i:89106726 original size:26 final size:26
Alignment explanation
Indices: 89106690--89106825 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
89106680 CATGATATTC
89106690 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
89106716 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89106742 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
89106768 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89106794 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
89106820 TTATCA
1 TTATCA
89106826 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89112724 original size:25 final size:25
Alignment explanation
Indices: 89112690--89112738 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
89112680 GCCAATCTAA
*
89112690 AAATTATAATTGATTGATTAGATCC
1 AAATCATAATTGATTGATTAGATCC
89112715 AAATCATAATTGATTGATTAGATC
1 AAATCATAATTGATTGATTAGATC
89112739 TCTGAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (25 bp):
AAATCATAATTGATTGATTAGATCC
Found at i:89113381 original size:3 final size:3
Alignment explanation
Indices: 89113373--89113425 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
89113363 CTAAATTGTT
89113373 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89113421 TAA TA
1 TAA TA
89113426 GTATCTTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:89118183 original size:4 final size:4
Alignment explanation
Indices: 89118169--89118208 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
89118159 GTAATGATTG
* * *
89118169 AATA CATA AATA AATA AATA AATT AATG AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
89118209 TAGAAAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:89118561 original size:25 final size:22
Alignment explanation
Indices: 89118526--89118622 Score: 76
Period size: 25 Copynumber: 4.3 Consensus size: 22
89118516 GGATAAATAC
89118526 ATATA-AC-TAATAATACTAACGA
1 ATATATACATAAT-ATACTAAC-A
*
89118548 TATATATACATAATATACAAAACAAA
1 -ATATATACATAATATAC-TAAC--A
* *
89118574 ATATACACATAATATATTAA-A
1 ATATATACATAATATACTAACA
89118595 ATATATACATAATATACGTAA-A
1 ATATATACATAATATAC-TAACA
89118617 ATATAT
1 ATATAT
89118623 GTAATGTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
21 16 0.26
22 10 0.16
23 5 0.08
24 8 0.13
25 22 0.35
26 1 0.02
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATATACATAATATACTAACA
Found at i:89118597 original size:21 final size:22
Alignment explanation
Indices: 89118571--89118621 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
89118561 TATACAAAAC
*
89118571 AAAATATACACATAATATA-TT
1 AAAATATACACATAATATACGT
*
89118592 AAAATATATACATAATATACGT
1 AAAATATACACATAATATACGT
89118614 AAAATATA
1 AAAATATA
89118622 TGTAATGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATATACACATAATATACGT
Found at i:89120578 original size:43 final size:44
Alignment explanation
Indices: 89120523--89120626 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 44
89120513 GATCTGTTTT
* *
89120523 CCTACTGTTTAGGGGGTTT-AGATCTGTACATTCAACCTGTTAC
1 CCTACTGCTTAGGGGGTTTGAGATCTGTAAATTCAACCTGTTAC
* * *** *
89120566 CCTACTGCTTA-GGGATTTGAGGTCTGTAAATTTGGCTTGTTAC
1 CCTACTGCTTAGGGGGTTTGAGATCTGTAAATTCAACCTGTTAC
89120609 CCTACTGCTTAGGGGGTT
1 CCTACTGCTTAGGGGGTT
89120627 AAAGCTCATC
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
42 6 0.12
43 39 0.78
44 5 0.10
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (44 bp):
CCTACTGCTTAGGGGGTTTGAGATCTGTAAATTCAACCTGTTAC
Found at i:89120679 original size:87 final size:85
Alignment explanation
Indices: 89120523--89120969 Score: 266
Period size: 87 Copynumber: 5.2 Consensus size: 85
89120513 GATCTGTTTT
* * * * * * * *
89120523 CCTACTGTTTAGGGGGTTTAGATCT-GTACATTCAACCTGTTACCCTACTGCTTAGGGAT-TTGA
1 CCTACTGCTTAGGGGGTTAAGCTCTCGT-C-TTCGATCTGTTTCCCTACTGCTTAGGG-TGATAA
* **
89120586 GGTCTGTAAATTTGGCTTGTTAC
63 GATCTGTAAATTCAGCTTGTTAC
* *
89120609 CCTACTGCTTAGGGGGTTAAAGCTCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGTGATAAG
1 CCTACTGCTTAGGGGGTT-AAGCTC-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAG
*
89120674 ATCTGTAAATTCAG-TCTGCT-C
64 ATCTGTAAATTCAGCT-TGTTAC
* * * * * * ** * ** *
89120695 CACTGC-GACTTCAGAGAGATGAGACTCGCTGGATTCGATCTG-TTCCACTGCAACTTCAGGGAG
1 C-CTACTG-CTT-AGGGGGTTAAG-CTCTC-GTCTTCGATCTGTTTCC-CTACTGCTT-AGGGTG
* * * *
89120758 ACAAGATCTGTAATTTTCAGCCTATTAC
59 ATAAGATCTGTAA-ATTCAGCTTGTTAC
** * *
89120786 CCTACTGCTTAAAGGGTTAAG-GCTCGTCTTTGATCTGTTTCCCTACTGCTTAGGGTGATAAGAT
1 CCTACTGCTTAGGGGGTTAAGCTCTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGAT
* *
89120850 CTATAAATTCAGCCTGTTAC
66 CTGTAAATTCAGCTTGTTAC
* * * * * *
89120870 CCTACTGTTTAGGGGGTTAAGGCCCTCCGTCTTCGATCTG-CTCTGCTACTGCTTAAGGAGATAA
1 CCTACTGCTTAGGGGGTTAA-GCTCT-CGTCTTCGATCTGTTTC-CCTACTGCTTAGGGTGATAA
* *
89120934 GATCTG-CAATTC-GGTCTGTTAC
63 GATCTGTAAATTCAGCT-TGTTAC
89120956 CCTACTGCTTAGGG
1 CCTACTGCTTAGGG
89120970 AGATAAGGTT
Statistics
Matches: 274, Mismatches: 65, Indels: 44
0.72 0.17 0.11
Matches are distributed among these distances:
84 29 0.11
85 18 0.07
86 65 0.24
87 97 0.35
88 24 0.09
89 25 0.09
90 13 0.05
91 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (85 bp):
CCTACTGCTTAGGGGGTTAAGCTCTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGAT
CTGTAAATTCAGCTTGTTAC
Found at i:89132865 original size:4 final size:4
Alignment explanation
Indices: 89132851--89132890 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
89132841 GTAATGATCG
* * *
89132851 AATA CATA AATA AATA AATA AATT AATG AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
89132891 TAGAAAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:89133242 original size:25 final size:22
Alignment explanation
Indices: 89133207--89133303 Score: 76
Period size: 25 Copynumber: 4.3 Consensus size: 22
89133197 GGTTTAATAC
89133207 ATATA-AC-TAATAATACTAACGA
1 ATATATACATAAT-ATACTAAC-A
*
89133229 TATATATACATAATATACAAAACAAA
1 -ATATATACATAATATAC-TAAC--A
* *
89133255 ATATACACATAATATATTAA-A
1 ATATATACATAATATACTAACA
89133276 ATATATACATAATATACATAA-A
1 ATATATACATAATATAC-TAACA
89133298 ATATAT
1 ATATAT
89133304 GTAATGTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
21 16 0.26
22 10 0.16
23 5 0.08
24 8 0.13
25 22 0.35
26 1 0.02
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (22 bp):
ATATATACATAATATACTAACA
Found at i:89133278 original size:21 final size:22
Alignment explanation
Indices: 89133252--89133302 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
89133242 TATACAAAAC
*
89133252 AAAATATACACATAATATA-TT
1 AAAATATACACATAATATACAT
*
89133273 AAAATATATACATAATATACAT
1 AAAATATACACATAATATACAT
89133295 AAAATATA
1 AAAATATA
89133303 TGTAATGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATATACACATAATATACAT
Found at i:89134657 original size:19 final size:19
Alignment explanation
Indices: 89134633--89134669 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89134623 AATTGGGCTA
* *
89134633 GGGTTAGGTATTGGGTTTG
1 GGGTTAGGAAATGGGTTTG
89134652 GGGTTAGGAAATGGGTTT
1 GGGTTAGGAAATGGGTTT
89134670 TGATTTGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (19 bp):
GGGTTAGGAAATGGGTTTG
Found at i:89136377 original size:11 final size:11
Alignment explanation
Indices: 89136346--89136378 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
89136336 AAAAAAATTA
*
89136346 TTTTAACTTTT
1 TTTTAATTTTT
89136357 TTTTAATTTTT
1 TTTTAATTTTT
89136368 TTTT-ATTTTT
1 TTTTAATTTTT
89136378 T
1 T
89136379 AAACTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTAATTTTT
Found at i:89138975 original size:23 final size:22
Alignment explanation
Indices: 89138933--89138975 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
89138923 AAAAAAGAGA
**
89138933 TACTATTTTGTTTTGTTGTTTC
1 TACTATTTTGTTTTACTGTTTC
89138955 TACTATTATTGTTTTACTGTT
1 TACTATT-TTGTTTTACTGTT
89138976 GTATTTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.14, C:0.09, G:0.12, T:0.65
Consensus pattern (22 bp):
TACTATTTTGTTTTACTGTTTC
Found at i:89140892 original size:2 final size:2
Alignment explanation
Indices: 89140885--89140909 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89140875 TTAATAAATA
89140885 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
89140910 AATACCTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89146342 original size:27 final size:27
Alignment explanation
Indices: 89146308--89146364 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
89146298 ATTGAACACA
89146308 TTACTCAAAGAATTTCCTCATGAAACT
1 TTACTCAAAGAATTTCCTCATGAAACT
* * *
89146335 TTACTCAAATAATTTCTTTATGAAACT
1 TTACTCAAAGAATTTCCTCATGAAACT
89146362 TTA
1 TTA
89146365 ACACATGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (27 bp):
TTACTCAAAGAATTTCCTCATGAAACT
Found at i:89147491 original size:21 final size:21
Alignment explanation
Indices: 89147462--89147508 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
89147452 CAAGACATTA
*
89147462 TCATTTCATCTCATAATTCTC
1 TCATCTCATCTCATAATTCTC
*
89147483 TCATCTCATCTCATAATTCTT
1 TCATCTCATCTCATAATTCTC
89147504 TCATC
1 TCATC
89147509 ATGCCAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
TCATCTCATCTCATAATTCTC
Found at i:89150649 original size:7 final size:7
Alignment explanation
Indices: 89150637--89150662 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
89150627 TTCCCTGAAA
89150637 ACTTCGG
1 ACTTCGG
89150644 ACTTCGG
1 ACTTCGG
89150651 ACTTCGG
1 ACTTCGG
89150658 ACTTC
1 ACTTC
89150663 AGACACATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (7 bp):
ACTTCGG
Found at i:89158157 original size:65 final size:66
Alignment explanation
Indices: 89158020--89158182 Score: 195
Period size: 65 Copynumber: 2.5 Consensus size: 66
89158010 TTCTTTCTGA
* * * * **
89158020 GTGGTATACACAAAGTATACATTTCTTTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTACACACAAAGTATACATAACCTTTTCA
89158085 T
66 T
* * * *
89158086 ATGGTATACACAAAGTAGACCTTTCCTTTTCA-A-GTGTACATACAAAGTGTACATAACCTTTTC
1 GTGGTATACACAAAGTATACCTTTCCTTTTCATATG-GTACACACAAAGTATACATAACCTTTTC
89158149 AT
65 AT
**
89158151 GTGGTATACACAAAGTATACCTAACCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCA
89158183 CATTCGATAG
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 1 0.01
65 53 0.65
66 28 0.34
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (66 bp):
GTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTACACACAAAGTATACATAACCTTTTCA
T
Found at i:89158176 original size:33 final size:33
Alignment explanation
Indices: 89158020--89158182 Score: 193
Period size: 33 Copynumber: 5.0 Consensus size: 33
89158010 TTCTTTCTGA
* *
89158020 GTGGTATACACAAAGTATACATTTCTTTTTCAT
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAT
*
89158053 ATGGTATACACAAAGTATACCTTTCCTTTTCAT
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAT
* * *
89158086 ATGGTATACACAAAGTAGACCTTTCCTTTTCAA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAT
* * * * **
89158119 GT-GTACATACAAAGTGTACATAACCTTTTCAT
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAT
**
89158151 GTGGTATACACAAAGTATACCTAACCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCA
89158183 CATTCGATAG
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
32 24 0.22
33 87 0.78
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (33 bp):
GTGGTATACACAAAGTATACCTTTCCTTTTCAT
Found at i:89158217 original size:29 final size:29
Alignment explanation
Indices: 89158175--89158272 Score: 187
Period size: 29 Copynumber: 3.4 Consensus size: 29
89158165 GTATACCTAA
89158175 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
89158204 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
89158233 CCTTTTCACATTCGGTAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
89158262 CCTTTTCACAT
1 CCTTTTCACAT
89158273 GGTACACACA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.33
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:89164401 original size:21 final size:21
Alignment explanation
Indices: 89164357--89164418 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
89164347 ATTGGGTGAA
*
89164357 TCAGCTCTTACGAGCTTTTAT
1 TCAGCTCTTACGAGCTTCTAT
* *
89164378 TCAGTTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTAT
*
89164399 TCAGCT-TT-CAAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
89164418 T
1 T
89164419 GGCATATTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
21 23 0.66
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAT
Found at i:89164950 original size:4 final size:4
Alignment explanation
Indices: 89164941--89165010 Score: 131
Period size: 4 Copynumber: 17.5 Consensus size: 4
89164931 AATATAAGTG
*
89164941 ATGT ATGT ATGT ATGT ATGT CTGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
89164989 ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT AT
89165011 TTCAAATATG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 64 1.00
ACGTcount: A:0.24, C:0.01, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:89174401 original size:26 final size:26
Alignment explanation
Indices: 89174372--89174433 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
89174362 CCAGTCACTA
*
89174372 ATAAGTCAT-CTACATGCAAAGAGAGT
1 ATAAGTAATGCTACAT-CAAAGAGAGT
* *
89174398 ATAAGTAATGTTTCATCAAAGAGAGT
1 ATAAGTAATGCTACATCAAAGAGAGT
*
89174424 ATGAGTAATG
1 ATAAGTAATG
89174434 TTTAATCACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (26 bp):
ATAAGTAATGCTACATCAAAGAGAGT
Found at i:89174434 original size:26 final size:26
Alignment explanation
Indices: 89174388--89174441 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
89174378 CATCTACATG
*
89174388 CAAAGAGAGTATAAGTAATGTTTCAT
1 CAAAGAGAGTATAAGTAATGTTTAAT
*
89174414 CAAAGAGAGTATGAGTAATGTTTAAT
1 CAAAGAGAGTATAAGTAATGTTTAAT
89174440 CA
1 CA
89174442 CCTTCCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (26 bp):
CAAAGAGAGTATAAGTAATGTTTAAT
Found at i:89185238 original size:35 final size:35
Alignment explanation
Indices: 89185192--89185259 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
89185182 AACACGGATA
89185192 CTAGAGGCTGATACAATATGACCTAGAAAACCATG
1 CTAGAGGCTGATACAATATGACCTAGAAAACCATG
89185227 CTAGAGGCTGATACAATATGACCTAGAAAACCA
1 CTAGAGGCTGATACAATATGACCTAGAAAACCA
89185260 ACTTCTCGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (35 bp):
CTAGAGGCTGATACAATATGACCTAGAAAACCATG
Found at i:89188107 original size:411 final size:411
Alignment explanation
Indices: 89187341--89188169 Score: 1523
Period size: 411 Copynumber: 2.0 Consensus size: 411
89187331 TACATTCCTC
*
89187341 AGGATTCAAAGACAATTCATCAAACACTCTGATCGTGTTCTCTAACCAGAACTCGGCCTTTTCAG
1 AGGATTCAAAGACAATTCATCAAACACTCTGATCGTGTTCTCTAACCAGAACTCGACCTTTTCAG
*
89187406 CATCATCGTTCATTGTAGCTCAGAACTCTTCAGGCCCATACTTTCTAATCTTATCTACTGGAGGG
66 CATCATCGTTCATTGTAGCTCAGAACTCTTCAGCCCCATACTTTCTAATCTTATCTACTGGAGGG
*
89187471 TTACTTATCTGAACCGGATTCACTGATGGCATAACAGGAGCTTGTGGTGAGTTAACCGGGGTAGA
131 TTACTTATCTGAACCGGATTCACTGATGGCATAACAGGAGCTTGTGGTGAATTAACCGGGGTAGA
*
89187536 GGTTTTTGAACAGCCAGATTGATTCTAATATATTGGCTAAACCAATCGTTCATCATCTGATAGAA
196 GGTTTTTGAACAGCCAGATTGATTCTAATATATTGGCTAAACCAATCATTCATCATCTGATAGAA
*
89187601 GGCTTGTCTAGCGTCACCATCACGGCTACTCATAGCCGGTCTAGAATGGGATGGTGTCGTCCCTT
261 GGCTTGTCTAGCGTCACCATCACGGCTACTCATAGCCGGTCTAGAATAGGATGGTGTCGTCCCTT
* * *
89187666 GCGTGAGAGCAGGTGCATTACTTCTGACATCATCCGCTGCAGCTCGATCGGGACCCATTTGCTAT
326 GCGTGAGAGCAGGCGCATTACTTCTGACATCATCCGCTACAGCTCGATCGAGACCCATTTGCTAT
89187731 ATAAAAGCACATTTAATTGTT
391 ATAAAAGCACATTTAATTGTT
89187752 AGGATTCAAAGACAATTCATCAAACACTCTGATCGTGTTCTCTAACCAGAACTCGACCTTTTCAG
1 AGGATTCAAAGACAATTCATCAAACACTCTGATCGTGTTCTCTAACCAGAACTCGACCTTTTCAG
89187817 CATCATCGTTCATTGTAGCTCAGAACTCTTCAGCCCCATACTTTCTAATCTTATCTACTGGAGGG
66 CATCATCGTTCATTGTAGCTCAGAACTCTTCAGCCCCATACTTTCTAATCTTATCTACTGGAGGG
* *
89187882 TTACTTATCTGAACTGGATTCACTGATGGCATAACAGGAGCTTGTGGTGAATTAACCGGGGTAGT
131 TTACTTATCTGAACCGGATTCACTGATGGCATAACAGGAGCTTGTGGTGAATTAACCGGGGTAGA
*
89187947 GGTTTTTGAACAGCCAGATTGATTCTAATATATTGGCTAAACTAATCATTCATCATCTGATAGAA
196 GGTTTTTGAACAGCCAGATTGATTCTAATATATTGGCTAAACCAATCATTCATCATCTGATAGAA
*
89188012 GGCTTGTCTAGCGTCACCATCACGGCTACTCATAGCTGGTCTAGAATAGGATGGTGTCGTCCCTT
261 GGCTTGTCTAGCGTCACCATCACGGCTACTCATAGCCGGTCTAGAATAGGATGGTGTCGTCCCTT
* *
89188077 GCGTGGGAGCAGGCGCATTACTTTTGACATCATCCGCTACAGCTCGATCGAGACCCATTTGCTAT
326 GCGTGAGAGCAGGCGCATTACTTCTGACATCATCCGCTACAGCTCGATCGAGACCCATTTGCTAT
*
89188142 ATAAAAGCATATTTAATTGTT
391 ATAAAAGCACATTTAATTGTT
89188163 AGGATTC
1 AGGATTC
89188170 GTCACACTAT
Statistics
Matches: 403, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
411 403 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (411 bp):
AGGATTCAAAGACAATTCATCAAACACTCTGATCGTGTTCTCTAACCAGAACTCGACCTTTTCAG
CATCATCGTTCATTGTAGCTCAGAACTCTTCAGCCCCATACTTTCTAATCTTATCTACTGGAGGG
TTACTTATCTGAACCGGATTCACTGATGGCATAACAGGAGCTTGTGGTGAATTAACCGGGGTAGA
GGTTTTTGAACAGCCAGATTGATTCTAATATATTGGCTAAACCAATCATTCATCATCTGATAGAA
GGCTTGTCTAGCGTCACCATCACGGCTACTCATAGCCGGTCTAGAATAGGATGGTGTCGTCCCTT
GCGTGAGAGCAGGCGCATTACTTCTGACATCATCCGCTACAGCTCGATCGAGACCCATTTGCTAT
ATAAAAGCACATTTAATTGTT
Found at i:89189721 original size:42 final size:43
Alignment explanation
Indices: 89189660--89189776 Score: 141
Period size: 43 Copynumber: 2.7 Consensus size: 43
89189650 CAATGCCACA
* * * *
89189660 GTCCTAGACAGGGTCTTACACGAAATCAGATA-CGATGTCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAGATAGCGATGTCAAC
*
89189702 GTCCCAGACATGGTCTTACACGTAAA-CAGA-AGTTGATGTCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCAGATAG-CGATGTCAAC
*
89189745 GTCCCAGACGTGGTCTTACACGAAATCAGATA
1 GTCCCAGACATGGTCTTACACGAAATCAGATA
89189777 ACGGAATCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.02
42 27 0.42
43 35 0.55
44 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAGATAGCGATGTCAAC
Found at i:89191925 original size:807 final size:807
Alignment explanation
Indices: 89190372--89191985 Score: 3219
Period size: 807 Copynumber: 2.0 Consensus size: 807
89190362 TCAAACTTTC
89190372 ATATTTCATCATATAACAACATAAAGCTCATGATTTATCCATGGAACATTTCAAAATCATCAATA
1 ATATTTCATCATATAACAACATAAAGCTCATGATTTATCCATGGAACATTTCAAAATCATCAATA
89190437 AAATCAGAAATTAATACATAGGCTTGATAGTATACAAAGCAACGATTACAAAAACGTAGAAATTA
66 AAATCAGAAATTAATACATAGGCTTGATAGTATACAAAGCAACGATTACAAAAACGTAGAAATTA
89190502 TCAAAAACCGAGTTAAAACTGACTTTTAATCAAGCTAAATGTTGGCTGAATGCTTCAAACACATA
131 TCAAAAACCGAGTTAAAACTGACTTTTAATCAAGCTAAATGTTGGCTGAATGCTTCAAACACATA
89190567 AACCCTAGCTTTTGTTTCTTCAATTTCGGCAAACAAGATGATAAAATGCACAATTTCCATGTTTT
196 AACCCTAGCTTTTGTTTCTTCAATTTCGGCAAACAAGATGATAAAATGCACAATTTCCATGTTTT
89190632 GTTATAATTAATAAACATTTATATTCATTTTACCATTTTAGCCTGGCTATTTTTATTAGAATTCC
261 GTTATAATTAATAAACATTTATATTCATTTTACCATTTTAGCCTGGCTATTTTTATTAGAATTCC
89190697 ACTATCTAATGTCCAACTATGACATTTAATTCATTCAATGGTCAAATAACATCATAAGGACCTCA
326 ACTATCTAATGTCCAACTATGACATTTAATTCATTCAATGGTCAAATAACATCATAAGGACCTCA
89190762 CAGTCATAAAGCCAAATCAAATAGGTCATTTTTCAAAATTAAGCACACAAACATTCAAATTTCCA
391 CAGTCATAAAGCCAAATCAAATAGGTCATTTTTCAAAATTAAGCACACAAACATTCAAATTTCCA
89190827 TACAAGATTTTCACACATGCTCATTCATATATCATAAGTACATAAAATAATATTTAACTATTTTT
456 TACAAGATTTTCACACATGCTCATTCATATATCATAAGTACATAAAATAATATTTAACTATTTTT
89190892 CTGACGCGGATATGTGGTCCTGAAACCACTGTTTCGACTAGGGTCTAAACCGGACTGTTACACAA
521 CTGACGCGGATATGTGGTCCTGAAACCACTGTTTCGACTAGGGTCTAAACCGGACTGTTACACAA
89190957 CATATATCTCCTCATTAAGAAAACCATTGAGGAAGGCAGATTTTACATCAAGTTGATGTATTTTC
586 CATATATCTCCTCATTAAGAAAACCATTGAGGAAGGCAGATTTTACATCAAGTTGATGTATTTTC
89191022 CACTGCCTTTGAGCAGCAAATGATACTAAAAGTATGATAGTATCAAGTATTGCCACTAGTTCAAA
651 CACTGCCTTTGAGCAGCAAATGATACTAAAAGTATGATAGTATCAAGTATTGCCACTAGTTCAAA
89191087 TGTTTCAAAGTAGTCAATCCCATACTTCTGACTGAATCCTTTCACAACTAACCTTGCCTTCAGCT
716 TGTTTCAAAGTAGTCAATCCCATACTTCTGACTGAATCCTTTCACAACTAACCTTGCCTTCAGCT
89191152 TGTTCAAAGTTCCATCAGCATTGTGTT
781 TGTTCAAAGTTCCATCAGCATTGTGTT
89191179 ATATTTCATCATATAACAACATAAAGCTCATGATTTATCCATGGAACATTTCAAAATCATCAATA
1 ATATTTCATCATATAACAACATAAAGCTCATGATTTATCCATGGAACATTTCAAAATCATCAATA
89191244 AAATCAGAAATTAATACATAGGCTTGATAGTATACAAAGCAACGATTACAAAAACGTAGAAATTA
66 AAATCAGAAATTAATACATAGGCTTGATAGTATACAAAGCAACGATTACAAAAACGTAGAAATTA
*
89191309 TCAAAAATCGAGTTAAAACTGACTTTTAATCAAGCTAAATGTTGGCTGAATGCTTCAAACACATA
131 TCAAAAACCGAGTTAAAACTGACTTTTAATCAAGCTAAATGTTGGCTGAATGCTTCAAACACATA
89191374 AACCCTAGCTTTTGTTTCTTCAATTTCGGCAAACAAGATGATAAAATGCACAATTTCCATGTTTT
196 AACCCTAGCTTTTGTTTCTTCAATTTCGGCAAACAAGATGATAAAATGCACAATTTCCATGTTTT
89191439 GTTATAATTAATAAACATTTATATTCATTTTACCATTTTAGCCTGGCTATTTTTATTAGAATTCC
261 GTTATAATTAATAAACATTTATATTCATTTTACCATTTTAGCCTGGCTATTTTTATTAGAATTCC
89191504 ACTATCTAATGTCCAACTATGACATTTAATTCATTCAATGGTCAAATAACATCATAAGGACCTCA
326 ACTATCTAATGTCCAACTATGACATTTAATTCATTCAATGGTCAAATAACATCATAAGGACCTCA
89191569 CAGTCATAAAGCCAAATCAAATAGGTCATTTTTCAAAATTAAGCACACAAACATTCAAATTTCCA
391 CAGTCATAAAGCCAAATCAAATAGGTCATTTTTCAAAATTAAGCACACAAACATTCAAATTTCCA
89191634 TACAAGATTTTCACACATGCTCATTCATATATCATAAGTACATAAAATAATATTTAACTATTTTT
456 TACAAGATTTTCACACATGCTCATTCATATATCATAAGTACATAAAATAATATTTAACTATTTTT
89191699 CTGACGCGGATATGTGGTCCTGAAACCACTGTTTCGACTAGGGTCTAAACCGGACTGTTACACAA
521 CTGACGCGGATATGTGGTCCTGAAACCACTGTTTCGACTAGGGTCTAAACCGGACTGTTACACAA
89191764 CATATATCTCCTCATTAAGAAAACCATTGAGGAAGGCAGATTTTACATCAAGTTGATGTATTTTC
586 CATATATCTCCTCATTAAGAAAACCATTGAGGAAGGCAGATTTTACATCAAGTTGATGTATTTTC
89191829 CACTGCCTTTGAGCAGCAAATGATACTAAAAGTATGATAGTATCAAGTATTGCCACTAGTTCAAA
651 CACTGCCTTTGAGCAGCAAATGATACTAAAAGTATGATAGTATCAAGTATTGCCACTAGTTCAAA
89191894 TGTTTCAAAGTAGTCAATCCCATACTTCTGACTGAATCCTTTCACAACTAACCTTGCCTTCAGCT
716 TGTTTCAAAGTAGTCAATCCCATACTTCTGACTGAATCCTTTCACAACTAACCTTGCCTTCAGCT
89191959 TGTTCAAAGTTCCATCAGCATTGTGTT
781 TGTTCAAAGTTCCATCAGCATTGTGTT
89191986 TAGCTGGAAA
Statistics
Matches: 806, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
807 806 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (807 bp):
ATATTTCATCATATAACAACATAAAGCTCATGATTTATCCATGGAACATTTCAAAATCATCAATA
AAATCAGAAATTAATACATAGGCTTGATAGTATACAAAGCAACGATTACAAAAACGTAGAAATTA
TCAAAAACCGAGTTAAAACTGACTTTTAATCAAGCTAAATGTTGGCTGAATGCTTCAAACACATA
AACCCTAGCTTTTGTTTCTTCAATTTCGGCAAACAAGATGATAAAATGCACAATTTCCATGTTTT
GTTATAATTAATAAACATTTATATTCATTTTACCATTTTAGCCTGGCTATTTTTATTAGAATTCC
ACTATCTAATGTCCAACTATGACATTTAATTCATTCAATGGTCAAATAACATCATAAGGACCTCA
CAGTCATAAAGCCAAATCAAATAGGTCATTTTTCAAAATTAAGCACACAAACATTCAAATTTCCA
TACAAGATTTTCACACATGCTCATTCATATATCATAAGTACATAAAATAATATTTAACTATTTTT
CTGACGCGGATATGTGGTCCTGAAACCACTGTTTCGACTAGGGTCTAAACCGGACTGTTACACAA
CATATATCTCCTCATTAAGAAAACCATTGAGGAAGGCAGATTTTACATCAAGTTGATGTATTTTC
CACTGCCTTTGAGCAGCAAATGATACTAAAAGTATGATAGTATCAAGTATTGCCACTAGTTCAAA
TGTTTCAAAGTAGTCAATCCCATACTTCTGACTGAATCCTTTCACAACTAACCTTGCCTTCAGCT
TGTTCAAAGTTCCATCAGCATTGTGTT
Found at i:89192899 original size:40 final size:40
Alignment explanation
Indices: 89192844--89192923 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
89192834 AAGCATTGAG
89192844 GCTACTTCTAACTTGAGCTTTAGAAAGTAAACCTAGTAAA
1 GCTACTTCTAACTTGAGCTTTAGAAAGTAAACCTAGTAAA
89192884 GCTACTTCTAACTTGAGCTTTAGAAAGTAAACCTAGTAAA
1 GCTACTTCTAACTTGAGCTTTAGAAAGTAAACCTAGTAAA
89192924 ATCTTGAATA
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:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (40 bp):
GCTACTTCTAACTTGAGCTTTAGAAAGTAAACCTAGTAAA
Found at i:89198982 original size:9 final size:9
Alignment explanation
Indices: 89198970--89199007 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
89198960 ATTAATTTTT
89198970 TTTTATAAA
1 TTTTATAAA
89198979 TTTTATAAA
1 TTTTATAAA
89198988 TTTTATAAA
1 TTTTATAAA
89198997 TTTTATAAA
1 TTTTATAAA
89199006 TT
1 TT
89199008 ATTCTTTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTATAAA
Found at i:89201333 original size:26 final size:27
Alignment explanation
Indices: 89201260--89201320 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
89201250 TATTTTCTTG
* *
89201260 AAATTTTACCAATGGTAAAATCGTCAA
1 AAATTTTACCGAGGGTAAAATCGTCAA
*
89201287 AAATTTTACCGAGGGTAAAATTGTC-A
1 AAATTTTACCGAGGGTAAAATCGTCAA
89201313 AAATTTTA
1 AAATTTTA
89201321 GTGGGGGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (27 bp):
AAATTTTACCGAGGGTAAAATCGTCAA
Found at i:89213590 original size:48 final size:48
Alignment explanation
Indices: 89213386--89213613 Score: 193
Period size: 48 Copynumber: 4.9 Consensus size: 48
89213376 GGTTATGTAC
* *
89213386 GATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCATCGATATGTA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG-A
**** * * * *
89213435 -ATTTTGTGTAAGACCATAGT-TGGG-C-T---ATCGGTACCGATATGT
1 GATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGA
* * * * *
89213477 GATACCATGTAAGACCAAGTATGGGACATGACATTGGCATCGATCT-A
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
*
89213524 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACGATATGA
1 -GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* ** *
89213573 GATCCCATGTAAGACCATATCCAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
89213614 CTACCATGTG
Statistics
Matches: 138, Mismatches: 31, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
42 2 0.01
43 27 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 102 0.74
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:89219069 original size:93 final size:93
Alignment explanation
Indices: 89218910--89219082 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
89218900 GGACCATATA
* ** * *
89218910 ACTATGGATTTTGTGACTGGTTTGCCTTTGACACTGAGAAAGAAAGATGCTGTATGGGTTGTTGT
1 ACTATGGATTTTGTGAATGGTTTGCCTTTGACACCAAGAAAGAAAGATGATGTATGGGTTATTGT
89218975 AGATCGATTGACAAATTCGAACCGTATT
66 AGATCGATTGACAAATTCGAACCGTATT
89219003 ACTATGGATTTTGT-AATGGGTTTGCCTTTGACACCAAGAAAGAAAGATGATGTATGGGTTATTG
1 ACTATGGATTTTGTGAAT-GGTTTGCCTTTGACACCAAGAAAGAAAGATGATGTATGGGTTATTG
89219067 TAGATCGATTGACAAA
65 TAGATCGATTGACAAA
89219083 GCCAACTCAC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (93 bp):
ACTATGGATTTTGTGAATGGTTTGCCTTTGACACCAAGAAAGAAAGATGATGTATGGGTTATTGT
AGATCGATTGACAAATTCGAACCGTATT
Found at i:89221500 original size:48 final size:48
Alignment explanation
Indices: 89221296--89221523 Score: 198
Period size: 48 Copynumber: 4.9 Consensus size: 48
89221286 GGTTATGTGC
* * * *
89221296 GATCCCATTTAAGACCATGTCTGAGACATGGCTTTGGCATCAATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* **** * *
89221344 AATTTTGTATAAGACCATAG-CTGGG-C-T---ATCGGCATCGATATGT
1 GATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGT
** * * * * **
89221387 GATATCATGTAAGACCAAGTCTGGGACATGACATTGCCATCGATCTAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
89221435 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * *
89221483 GATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
89221524 TTGCCATGTG
Statistics
Matches: 139, Mismatches: 34, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
42 1 0.01
43 30 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 103 0.74
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:89222624 original size:30 final size:30
Alignment explanation
Indices: 89222580--89222648 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
89222570 CACGGGCAGA
* *
89222580 GACACGGCCGTGTGTCTCAGCCGTGTGAAG
1 GACACAGCCATGTGTCTCAGCCGTGTGAAG
89222610 GACACAGCCATGTGTCTCAGCCGTGTGAAG
1 GACACAGCCATGTGTCTCAGCCGTGTGAAG
89222640 GACACAGCC
1 GACACAGCC
89222649 TCAGGACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.32, T:0.17
Consensus pattern (30 bp):
GACACAGCCATGTGTCTCAGCCGTGTGAAG
Found at i:89225553 original size:19 final size:19
Alignment explanation
Indices: 89225516--89225553 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
89225506 ATAATTGAAC
*
89225516 TTGAAAATTAGAATTGAGA
1 TTGAAAATTAGAATCGAGA
*
89225535 TTGAAAATTAGAGTCGAGA
1 TTGAAAATTAGAATCGAGA
89225554 ACAAAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.29
Consensus pattern (19 bp):
TTGAAAATTAGAATCGAGA
Found at i:89225811 original size:33 final size:33
Alignment explanation
Indices: 89225773--89225835 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
89225763 ACGGTAATGG
*
89225773 TTTTTCGATAGTTGAGCAGTGGAAGAATCATGA
1 TTTTTCGACAGTTGAGCAGTGGAAGAATCATGA
* *
89225806 TTTTTCGGCAGTTGAGTAGTGGAAGAATCA
1 TTTTTCGACAGTTGAGCAGTGGAAGAATCA
89225836 CACTCTCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (33 bp):
TTTTTCGACAGTTGAGCAGTGGAAGAATCATGA
Found at i:89225912 original size:12 final size:11
Alignment explanation
Indices: 89225897--89225985 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 11
89225887 TTATTTTAAA
89225897 TAAATTTAATAT
1 TAAA-TTAATAT
89225909 TAAATTAATA-
1 TAAATTAATAT
*
89225919 -AAA-TACTAT
1 TAAATTAATAT
* *
89225928 CAAATT--TAA
1 TAAATTAATAT
*
89225937 TAAATTACTAT
1 TAAATTAATAT
89225948 TAAATTTAATAT
1 TAAA-TTAATAT
89225960 T-AA--AATGAT
1 TAAATTAAT-AT
*
89225969 TATATTAATAT
1 TAAATTAATAT
89225980 TAAATT
1 TAAATT
89225986 TAATTTAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 21
0.68 0.08 0.24
Matches are distributed among these distances:
8 7 0.12
9 13 0.22
10 4 0.07
11 22 0.37
12 14 0.23
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (11 bp):
TAAATTAATAT
Found at i:89225920 original size:20 final size:20
Alignment explanation
Indices: 89225895--89225958 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
89225885 TATTATTTTA
*
89225895 AATAAATTTAATATTAAA-TT
1 AATAAA-TTACTATTAAATTT
* *
89225915 AATAAAATACTATCAAATTT
1 AATAAATTACTATTAAATTT
89225935 AATAAATTACTATTAAATTT
1 AATAAATTACTATTAAATTT
89225955 AATA
1 AATA
89225959 TTAAAATGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 8 0.21
20 30 0.79
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAAATTACTATTAAATTT
Found at i:89226518 original size:32 final size:32
Alignment explanation
Indices: 89226482--89226543 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
89226472 CAAAAAAAAA
89226482 ATTAAATCTTTAAGAAATTCTAGAAAACTAAG
1 ATTAAATCTTTAAGAAATTCTAGAAAACTAAG
89226514 ATTAAATCTTTAAGAAATTCTAGAAAACTA
1 ATTAAATCTTTAAGAAATTCTAGAAAACTA
89226544 TCTTTGGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (32 bp):
ATTAAATCTTTAAGAAATTCTAGAAAACTAAG
Found at i:89233168 original size:38 final size:38
Alignment explanation
Indices: 89233117--89233193 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
89233107 GACAAAAGTA
89233117 AGTGCAATTTTTATATTACTAAATCTGGCTATTTTATG
1 AGTGCAATTTTTATATTACTAAATCTGGCTATTTTATG
89233155 AGTGCAATTTTTATATTACTAAATCTGGCTATTTTATG
1 AGTGCAATTTTTATATTACTAAATCTGGCTATTTTATG
89233193 A
1 A
89233194 TCCTTCATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (38 bp):
AGTGCAATTTTTATATTACTAAATCTGGCTATTTTATG
Found at i:89239111 original size:21 final size:20
Alignment explanation
Indices: 89239087--89239125 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
89239077 TTTTCCTAAG
89239087 ATATGAATTGGATTGAAATGA
1 ATATGAATTGGATT-AAATGA
*
89239108 ATATGAATTGTATTAAAT
1 ATATGAATTGGATTAAAT
89239126 TGAGCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (20 bp):
ATATGAATTGGATTAAATGA
Found at i:89241937 original size:24 final size:24
Alignment explanation
Indices: 89241910--89242092 Score: 312
Period size: 24 Copynumber: 7.6 Consensus size: 24
89241900 CTTATTATGT
* * *
89241910 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
89241934 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
89241958 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
89241982 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
89242006 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
89242030 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
89242054 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
89242078 TCGCACACATAGTGC
1 TCGCACACATAGTGC
89242093 ATTTGAGATA
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 151 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:89244339 original size:44 final size:44
Alignment explanation
Indices: 89244268--89244356 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
89244258 AAACTATGTG
*
89244268 ATCTGAACTCATGAGTTATGGTCTGAGTTCATGATATATGCGAC
1 ATCTGAACTCATGAGTTATGGTATGAGTTCATGATATATGCGAC
* *
89244312 ATCTGAACTCATGAGTTGTGGTATGAGTTCATGATATATGTGAC
1 ATCTGAACTCATGAGTTATGGTATGAGTTCATGATATATGCGAC
89244356 A
1 A
89244357 CATGTTATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (44 bp):
ATCTGAACTCATGAGTTATGGTATGAGTTCATGATATATGCGAC
Found at i:89251068 original size:22 final size:22
Alignment explanation
Indices: 89251043--89251088 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
89251033 TTACTTAAGC
89251043 AACATGTAGAAATTCAAGGACT
1 AACATGTAGAAATTCAAGGACT
89251065 AACATGTAGAAATTCAAGGACT
1 AACATGTAGAAATTCAAGGACT
89251087 AA
1 AA
89251089 GTCAATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (22 bp):
AACATGTAGAAATTCAAGGACT
Found at i:89251425 original size:7 final size:6
Alignment explanation
Indices: 89251411--89251473 Score: 54
Period size: 6 Copynumber: 9.5 Consensus size: 6
89251401 AAAGGAAAAG
* *
89251411 AAAGAA AATAGAA AAAGAA AGAAGAA TAAAAAA CAAAGAAA CAAAAAA
1 AAAGAA AA-AGAA AAAGAA A-AAGAA -AAAGAA -AAAG-AA -AAAGAA
89251459 AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAA
89251474 AAATGAGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
6 21 0.44
7 20 0.42
8 7 0.15
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:89251428 original size:17 final size:16
Alignment explanation
Indices: 89251406--89251466 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
89251396 AAGGGAAAGG
89251406 AAAAGAAAGAAAATAGA
1 AAAAGAAAGAAAATA-A
89251423 AAAAGAAAGAAGAATAA
1 AAAAGAAAGAA-AATAA
* *
89251440 AAAACAAAG-AAACAA
1 AAAAGAAAGAAAATAA
89251455 AAAA-AAAGAAAA
1 AAAAGAAAGAAAA
89251467 AGAAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.10
15 11 0.28
16 1 0.03
17 20 0.50
18 4 0.10
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAGAAAGAAAATAA
Found at i:89251429 original size:13 final size:13
Alignment explanation
Indices: 89251411--89251474 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 13
89251401 AAAGGAAAAG
*
89251411 AAAGAAAATAGAA
1 AAAGAAAAAAGAA
*
89251424 AAAGAAAGAAGAA
1 AAAGAAAAAAGAA
89251437 TAAA-AAACAAAGAA
1 -AAAGAAA-AAAGAA
*
89251451 ACAAAAAAAAAGAA
1 A-AAGAAAAAAGAA
89251465 AAAGAAAAAA
1 AAAGAAAAAA
89251475 AATGAGAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
13 23 0.53
14 17 0.40
15 3 0.07
ACGTcount: A:0.81, C:0.03, G:0.12, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:89251456 original size:14 final size:14
Alignment explanation
Indices: 89251438--89251475 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
89251428 AAAGAAGAAT
89251438 AAAAAACAAAGAAAC
1 AAAAAA-AAAGAAAC
89251453 AAAAAAAAAGAAA-
1 AAAAAAAAAGAAAC
89251466 AAGAAAAAAA
1 AA-AAAAAAA
89251476 ATGAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 14 0.64
15 6 0.27
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAC
Found at i:89251473 original size:17 final size:17
Alignment explanation
Indices: 89251411--89251476 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 17
89251401 AAAGGAAAAG
89251411 AAAGAAAATAGAAAAAGAA
1 AAAGAAAA-A-AAAAAGAA
*
89251430 AGAAGAATAAAAAACAA-AG
1 A-AAGAA-AAAAAA-AAGAA
*
89251449 AAA-CAAAAAAAAAGAA
1 AAAGAAAAAAAAAAGAA
89251465 AAAGAAAAAAAA
1 AAAGAAAAAAAA
89251477 TGAGAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
15 2 0.05
16 10 0.26
17 8 0.21
18 2 0.05
19 6 0.16
20 8 0.21
21 2 0.05
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAAAAAAGAA
Found at i:89251482 original size:18 final size:18
Alignment explanation
Indices: 89251406--89251485 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 18
89251396 AAGGGAAAGG
*
89251406 AAAAGAAAGAAAAT-AGA
1 AAAAGAAAAAAAATAAGA
* *
89251423 AAAAGAAAGAAGAATAAAAA
1 AAAAGAAA-AAAAAT-AAGA
*
89251443 ACAAAGAAACAAAAAAAAAGA
1 A-AAAG-AA-AAAAAATAAGA
*
89251464 AAAAGAAAAAAAATGAGA
1 AAAAGAAAAAAAATAAGA
89251482 AAAA
1 AAAA
89251486 ATGAAATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
17 8 0.16
18 17 0.35
19 2 0.04
20 7 0.14
21 8 0.16
22 6 0.12
23 1 0.02
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAAAATAAGA
Found at i:89258331 original size:85 final size:86
Alignment explanation
Indices: 89258139--89258359 Score: 311
Period size: 85 Copynumber: 2.6 Consensus size: 86
89258129 AAAAAAATTT
* * *
89258139 CGCTATAGAACATGGCCTTTAGCGATC-CTTTTACCACAAACGCCACTAAAGAACATGACCTTTA
1 CGCTAAAGAACATGGCCTTTAGC-AGCGCTTTTCCCACAAACGCCACTAAAGAACATGACCTTTA
89258203 GCGGCACTTTTCCCACAAACGC
65 GCGGCACTTTTCCCACAAACGC
89258225 CGCTAAAGAACATGGCCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAAGAACA-GACCTTTAG
1 CGCTAAAGAACATGGCCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAAGAACATGACCTTTAG
* * *
89258289 TGGCGCTTTTCCCACCAACGC
66 CGGCACTTTTCCCACAAACGC
** * * * *
89258310 CGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCATAAATGCCGCTAAA
1 CGCTAAAGAACATGGCCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAA
89258360 AATTATAACC
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
85 73 0.60
86 49 0.40
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (86 bp):
CGCTAAAGAACATGGCCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAAGAACATGACCTTTAG
CGGCACTTTTCCCACAAACGC
Found at i:89258373 original size:43 final size:43
Alignment explanation
Indices: 89258139--89258359 Score: 293
Period size: 43 Copynumber: 5.2 Consensus size: 43
89258129 AAAAAAATTT
* * * *
89258139 CGCTATAGAACATGGCCTTTAGCGATC-CTTTTACCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCG-GCGCTTTTCCCACAAACGC
* *
89258182 CACTAAAGAACATGACCTTTAGCGGCACTTTTCCCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* *
89258225 CGCTAAAGAACATGGCCTTTAGCAGCGCTTTTCCCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * *
89258268 CACTAAAGAACA-GACCTTTAGTGGCGCTTTTCCCACCAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * *
89258310 CGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCATAAATGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGC
89258353 CGCTAAA
1 CGCTAAA
89258360 AATTATAACC
Statistics
Matches: 156, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 38 0.24
43 118 0.76
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGC
Found at i:89261889 original size:6 final size:6
Alignment explanation
Indices: 89261878--89261907 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
89261868 AAATGAGTAT
*
89261878 GTGGGA GTGGGA GTGAGA GTGGGA GTGGGA
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA
89261908 ATGTGAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.63, T:0.17
Consensus pattern (6 bp):
GTGGGA
Found at i:89261918 original size:18 final size:18
Alignment explanation
Indices: 89261879--89261919 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
89261869 AATGAGTATG
* *
89261879 TGGGAGTGGGAGTGAGAG
1 TGGGAGTGGGAATGAGAA
*
89261897 TGGGAGTGGGAATGTGAA
1 TGGGAGTGGGAATGAGAA
89261915 TGGGA
1 TGGGA
89261920 ATGAAGTAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.56, T:0.20
Consensus pattern (18 bp):
TGGGAGTGGGAATGAGAA
Done.