Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 13 of 290
Found at i:3843299 original size:68 final size:70
Alignment explanation
Indices: 3843227--3843384 Score: 178
Period size: 68 Copynumber: 2.3 Consensus size: 70
3843217 CATCATGTGT
* ** * * *
3843227 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGATACGATAAAGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
3843289 ATGTAG
65 ATGTAG
* * * * *
3843295 ACAAGAGAGCTACGGGAGAGGATAAATTAGCTAGGTCACATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGAGATACGATAAAGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
3843360 ATGTAG
65 ATGTAG
3843366 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
3843385 AATTGGCTAG
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
68 40 0.55
69 1 0.01
70 1 0.01
71 31 0.42
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (70 bp):
ACAAGAGAGCTACGAGATACGATAAAGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCA
TGTAG
Found at i:3843416 original size:66 final size:68
Alignment explanation
Indices: 3843287--3843416 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 68
3843277 GGGATGTATC
* * *
3843287 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATTAGCTAGGTCACATGTGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGGATAAATTAGCTAGGTCACATGGGCGATACCAAGTGA
3843352 AGGACA
63 AGGACA
* * *
3843358 CCATGTAGACAAGAGAGCTAC-GA-GATAAATTGGCTAGGTCACATGGGCGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGGATAAATTAGCTAGGTCACATGGGCGATACCAAGTG
3843417 TTCACCATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
66 30 0.57
67 2 0.04
71 21 0.40
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGGATAAATTAGCTAGGTCACATGGGCGATACCAAGTGAAGG
ACA
Found at i:3846464 original size:25 final size:25
Alignment explanation
Indices: 3846436--3846485 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3846426 TCAGTGCCGA
3846436 TAGTCTGTGAATTTCCAGATGTATT
1 TAGTCTGTGAATTTCCAGATGTATT
3846461 TAGTCTGTGAATTTCCAGATGTATT
1 TAGTCTGTGAATTTCCAGATGTATT
3846486 CCCAGAGGAA
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:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (25 bp):
TAGTCTGTGAATTTCCAGATGTATT
Found at i:3861469 original size:208 final size:208
Alignment explanation
Indices: 3861111--3861527 Score: 834
Period size: 208 Copynumber: 2.0 Consensus size: 208
3861101 ATGTAACATC
3861111 TTGAAATAGGGCCTAGTCGGAATGGTGGTTTCAGGACCACAAATCCAACATCAAAATATTTATTT
1 TTGAAATAGGGCCTAGTCGGAATGGTGGTTTCAGGACCACAAATCCAACATCAAAATATTTATTT
3861176 TATGATTATTATGAGGCCTAGAATATGAGTATATGTATGTGTTAAAGTTTCATGAAGAAATTCTT
66 TATGATTATTATGAGGCCTAGAATATGAGTATATGTATGTGTTAAAGTTTCATGAAGAAATTCTT
3861241 TAAGGTGTTCAATTGGAAATTAAGAACTAAATTGAATAAATTGTAAAACTTGAATTCTAGAAGAA
131 TAAGGTGTTCAATTGGAAATTAAGAACTAAATTGAATAAATTGTAAAACTTGAATTCTAGAAGAA
3861306 ATTTGTATGAAAT
196 ATTTGTATGAAAT
3861319 TTGAAATAGGGCCTAGTCGGAATGGTGGTTTCAGGACCACAAATCCAACATCAAAATATTTATTT
1 TTGAAATAGGGCCTAGTCGGAATGGTGGTTTCAGGACCACAAATCCAACATCAAAATATTTATTT
3861384 TATGATTATTATGAGGCCTAGAATATGAGTATATGTATGTGTTAAAGTTTCATGAAGAAATTCTT
66 TATGATTATTATGAGGCCTAGAATATGAGTATATGTATGTGTTAAAGTTTCATGAAGAAATTCTT
3861449 TAAGGTGTTCAATTGGAAATTAAGAACTAAATTGAATAAATTGTAAAACTTGAATTCTAGAAGAA
131 TAAGGTGTTCAATTGGAAATTAAGAACTAAATTGAATAAATTGTAAAACTTGAATTCTAGAAGAA
3861514 ATTTGTATGAAAT
196 ATTTGTATGAAAT
3861527 T
1 T
3861528 GCTTTTGGTT
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 209 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (208 bp):
TTGAAATAGGGCCTAGTCGGAATGGTGGTTTCAGGACCACAAATCCAACATCAAAATATTTATTT
TATGATTATTATGAGGCCTAGAATATGAGTATATGTATGTGTTAAAGTTTCATGAAGAAATTCTT
TAAGGTGTTCAATTGGAAATTAAGAACTAAATTGAATAAATTGTAAAACTTGAATTCTAGAAGAA
ATTTGTATGAAAT
Found at i:3863032 original size:23 final size:25
Alignment explanation
Indices: 3863001--3863052 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
3862991 CTCATTGTGT
**
3863001 TTATCAAAAG-GGCTTTG-CTCCAG
1 TTATCAAAAGAGGCTAGGCCTCCAG
*
3863024 TTATTAAAAGAGGCTAGGCCTCCAG
1 TTATCAAAAGAGGCTAGGCCTCCAG
3863049 TTAT
1 TTAT
3863053 ATGATAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.38
24 5 0.21
25 10 0.42
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
TTATCAAAAGAGGCTAGGCCTCCAG
Found at i:3863505 original size:20 final size:20
Alignment explanation
Indices: 3863480--3863526 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3863470 GATTTGATAT
3863480 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
3863500 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
3863520 ACATGAT
1 ACATGAT
3863527 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:3863631 original size:24 final size:25
Alignment explanation
Indices: 3863574--3863642 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
3863564 AGGAAGTGCA
*
3863574 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
3863599 AAAAGGGCTTTGCCCCTGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
3863623 AAAAGGGCTTTGCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
3863643 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 18 0.46
25 21 0.54
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:3863655 original size:24 final size:23
Alignment explanation
Indices: 3863574--3863669 Score: 75
Period size: 25 Copynumber: 4.0 Consensus size: 23
3863564 AGGAAGTGCA
* * *
3863574 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCTCCAG-TTATC
* *
3863598 GAAAAGGGCTTTGCCCCTGTTTATC
1 -AAAAGGGCTTTGCTCCAG-TTATC
*
3863623 AAAAGGGCTTTGCTCCAGTTATT
1 AAAAGGGCTTTGCTCCAGTTATC
**
3863646 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTG-CTCCAGTTAT
3863670 ATGATAAAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
23 9 0.15
24 21 0.34
25 31 0.51
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTTGCTCCAGTTATC
Found at i:3863899 original size:31 final size:30
Alignment explanation
Indices: 3863864--3863926 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
3863854 CGTTTGCAGT
3863864 AAAGGCTTC-AGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGA-CC-AGTAATATGAAATATGA
**
3863895 AAAGGCTTCGACCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCAGTAATATGAAATATGA
3863925 AA
1 AA
3863927 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 17 0.59
31 11 0.38
32 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGACCAGTAATATGAAATATGA
Found at i:3866066 original size:12 final size:14
Alignment explanation
Indices: 3866037--3866068 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
3866027 TGCGTGAAGA
3866037 CAAAAGCAGCACAG
1 CAAAAGCAGCACAG
3866051 CAAAA-CAGCA-AG
1 CAAAAGCAGCACAG
3866063 CAAAAG
1 CAAAAG
3866069 AAGACGAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 5 0.29
14 5 0.29
ACGTcount: A:0.56, C:0.25, G:0.19, T:0.00
Consensus pattern (14 bp):
CAAAAGCAGCACAG
Found at i:3866986 original size:16 final size:17
Alignment explanation
Indices: 3866965--3867003 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
3866955 TATTTTATAT
3866965 TATTATCCATT-TTTTA
1 TATTATCCATTGTTTTA
*
3866981 TATTATTCATTGTTTTA
1 TATTATCCATTGTTTTA
*
3866998 AATTAT
1 TATTAT
3867004 TTTATGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTATCCATTGTTTTA
Found at i:3866996 original size:17 final size:16
Alignment explanation
Indices: 3866948--3867004 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
3866938 AAAATTGTTT
* *
3866948 TATTATTTATTTTATA
1 TATTATTCATTTTTTA
*
3866964 TTATTATCCATTTTTTA
1 -TATTATTCATTTTTTA
3866981 TATTATTCATTGTTTTA
1 TATTATTCATT-TTTTA
*
3866998 AATTATT
1 TATTATT
3867005 TTATGTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 10 0.29
17 24 0.71
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTATTCATTTTTTA
Found at i:3867013 original size:27 final size:26
Alignment explanation
Indices: 3866976--3867032 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
3866966 ATTATCCATT
3866976 TTTTATATTATTCATTGTTTTAAATTA
1 TTTTATATTATTCATT-TTTTAAATTA
* * *
3867003 TTTTATGTTATTCATTTTTTTATTTA
1 TTTTATATTATTCATTTTTTAAATTA
3867029 TTTT
1 TTTT
3867033 CGTTTGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTTATATTATTCATTTTTTAAATTA
Found at i:3875504 original size:15 final size:17
Alignment explanation
Indices: 3875486--3875523 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
3875476 GAAAAATGCC
3875486 GAAACCAA-AATCA-AA
1 GAAACCAACAATCAGAA
*
3875501 GAAACCAACACTCAGAA
1 GAAACCAACAATCAGAA
3875518 GAAACC
1 GAAACC
3875524 CATTCGACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.58, C:0.26, G:0.11, T:0.05
Consensus pattern (17 bp):
GAAACCAACAATCAGAA
Found at i:3880624 original size:27 final size:26
Alignment explanation
Indices: 3880593--3880770 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
3880583 TAAATTGTAC
3880593 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
3880620 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
3880646 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
3880674 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
3880702 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
3880729 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
3880756 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3880771 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:3880709 original size:82 final size:81
Alignment explanation
Indices: 3880594--3880749 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
3880584 AAATTGTACA
* *
3880594 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
3880658 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
3880675 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
3880740 TGCGAGTTGA
65 TGCGAATTGA
3880750 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:3880761 original size:82 final size:81
Alignment explanation
Indices: 3880590--3880770 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
3880580 GATTAAATTG
* *
3880590 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
3880655 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
3880671 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
3880735 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
3880753 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
3880771 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:3880781 original size:27 final size:27
Alignment explanation
Indices: 3880675--3880781 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
3880665 TGACCATGCG
* * * *
3880675 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
3880703 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
3880730 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
3880757 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
3880782 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:3895604 original size:19 final size:19
Alignment explanation
Indices: 3895580--3895620 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3895570 CACTAGCTCT
3895580 CATATACCCGCGCCGATGC
1 CATATACCCGCGCCGATGC
** *
3895599 CATATACTTGGGCCGATGC
1 CATATACCCGCGCCGATGC
3895618 CAT
1 CAT
3895621 GTCCCAGACA
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:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (19 bp):
CATATACCCGCGCCGATGC
Found at i:3895719 original size:46 final size:46
Alignment explanation
Indices: 3895605--3895826 Score: 202
Period size: 46 Copynumber: 4.8 Consensus size: 46
3895595 ATGCCATATA
* * * *
3895605 CTTG-GGCCGATGCCATGTCCCAGACATGGTCTTACA-TTG-ACACAT
1 CTTGAGGCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT
* *
3895650 CTCGTA-GCCAATGCATGTCCCAGACATGTCTTACACTGGCT-TAAAT
1 CTTG-AGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCT-CAT
* * **
3895696 CTTGAGGCTAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGC
1 CTTGAGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
** *
3895742 CTCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 CTTGAGGCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT
** * *
3895790 AATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
1 CTTGAGGCCAATGCATGTCCCAGACATGTCTTACACT
3895827 AGCGTACAGA
Statistics
Matches: 142, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
44 8 0.06
45 20 0.14
46 63 0.44
47 29 0.20
48 22 0.15
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CTTGAGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
Found at i:3895804 original size:94 final size:92
Alignment explanation
Indices: 3895656--3895829 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 92
3895646 ACATCTCGTA
** *
3895656 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAAATCTTGAGGCTAATGCATGTCCCAGAC
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAAATAATGAGGCCAATGCATGTCCCAGAC
3895721 ATGTCTTACACTAGCTCTCGCCTCAAT
66 ATGTCTTACACTAGCTCTCGCCTCAAT
* * *
3895748 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCA
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TAAATAATGAGGCCAATGCATGTCCCA
3895812 GACATGTCTTACACTAGC
63 GACATGTCTTACACTAGC
3895830 GTACAGATGA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 51 0.70
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAAATAATGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGCCTCAAT
Found at i:3897575 original size:19 final size:19
Alignment explanation
Indices: 3897551--3897591 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3897541 CACTAGCTCT
3897551 CATATACCCGCGCCGATGC
1 CATATACCCGCGCCGATGC
** *
3897570 CATATACTTGGGCCGATGC
1 CATATACCCGCGCCGATGC
3897589 CAT
1 CAT
3897592 GTCCCAGACA
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:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (19 bp):
CATATACCCGCGCCGATGC
Found at i:3897690 original size:46 final size:46
Alignment explanation
Indices: 3897576--3897797 Score: 202
Period size: 46 Copynumber: 4.8 Consensus size: 46
3897566 ATGCCATATA
* * * *
3897576 CTTG-GGCCGATGCCATGTCCCAGACATGGTCTTACA-TTG-ACACAT
1 CTTGAGGCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT
* *
3897621 CTCGTA-GCCAATGCATGTCCCAGACATGTCTTACACTGGCT-TAAAT
1 CTTG-AGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCT-CAT
* * **
3897667 CTTGAGGCTAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGC
1 CTTGAGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
** *
3897713 CTCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 CTTGAGGCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT
** * *
3897761 AATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
1 CTTGAGGCCAATGCATGTCCCAGACATGTCTTACACT
3897798 AGCGTACAGA
Statistics
Matches: 142, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
44 8 0.06
45 20 0.14
46 63 0.44
47 29 0.20
48 22 0.15
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CTTGAGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
Found at i:3897775 original size:94 final size:92
Alignment explanation
Indices: 3897627--3897800 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 92
3897617 ACATCTCGTA
** *
3897627 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAAATCTTGAGGCTAATGCATGTCCCAGAC
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAAATAATGAGGCCAATGCATGTCCCAGAC
3897692 ATGTCTTACACTAGCTCTCGCCTCAAT
66 ATGTCTTACACTAGCTCTCGCCTCAAT
* * *
3897719 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCA
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TAAATAATGAGGCCAATGCATGTCCCA
3897783 GACATGTCTTACACTAGC
63 GACATGTCTTACACTAGC
3897801 GTACAGATGA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 51 0.70
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAAATAATGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGCCTCAAT
Found at i:3905400 original size:43 final size:42
Alignment explanation
Indices: 3905339--3905437 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
3905329 GAGCTCATTG
3905339 AGTGGTCCGAGTTCGTGATATATGTGAGAATCTGAACTTGTTA
1 AGTGGTCCGAGTTCGTGATATATGT-AGAATCTGAACTTGTTA
* * * *
3905382 AGTGGTCCAAGTTCGTGATATATGTAGCATCTGAGCTTGTTG
1 AGTGGTCCGAGTTCGTGATATATGTAGAATCTGAACTTGTTA
3905424 AGTGGTCCGAGTTC
1 AGTGGTCCGAGTTC
3905438 ATTATGGATG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 27 0.53
43 24 0.47
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.34
Consensus pattern (42 bp):
AGTGGTCCGAGTTCGTGATATATGTAGAATCTGAACTTGTTA
Found at i:3905428 original size:42 final size:42
Alignment explanation
Indices: 3905336--3905480 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 42
3905326 TCCGAGCTCA
* * *
3905336 TTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCTGAACTTG
1 TTGAGTGGTCCAAGTTCGTGATATATGT-AGCATCTGAGCTTG
*
3905379 TTAAGTGGTCCAAGTTCGTGATATATGTAGCATCTGAGCTTG
1 TTGAGTGGTCCAAGTTCGTGATATATGTAGCATCTGAGCTTG
* * * ** * * *
3905421 TTGAGTGGTCCGAGTTCATTATGGATGCAAGCATCCGAGCTCG
1 TTGAGTGGTCCAAGTTCGTGATATATG-TAGCATCTGAGCTTG
*
3905464 TTGAGTGGTCTAAGTTC
1 TTGAGTGGTCCAAGTTC
3905481 ATAATGGATG
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 33 0.38
43 53 0.62
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (42 bp):
TTGAGTGGTCCAAGTTCGTGATATATGTAGCATCTGAGCTTG
Found at i:3905467 original size:43 final size:45
Alignment explanation
Indices: 3905407--3905541 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 45
3905397 TGATATATGT
* * *
3905407 AGCATCTGAGCTTGTTGAGTGGTCCGAGTTCATTATGGATGC-A-
1 AGCATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCAAC
* *
3905450 AGCATCCGAGCTCGTTGAGTGGTCTAAGTTCATAATGGATGCGATAC
1 AGCATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGC-A-AC
* *
3905497 ATGTAACATCCGAGCTCGTTGAGAGGTCTGAGTTTATTATGGATG
1 A-G---CATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATG
3905542 TGTTACATGT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
43 37 0.49
46 1 0.01
47 1 0.01
48 1 0.01
51 35 0.47
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (45 bp):
AGCATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCAAC
Found at i:3905539 original size:51 final size:51
Alignment explanation
Indices: 3905452--3905551 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
3905442 TGGATGCAAG
*
3905452 CATCCGAGCTCGTTGAGTGGTCTAAGTTCATAATGGATGCGATACATGTAA
1 CATCCGAGCTCGTTGAGAGGTCTAAGTTCATAATGGATGCGATACATGTAA
* * * * *
3905503 CATCCGAGCTCGTTGAGAGGTCTGAGTTTATTATGGATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAGGTCTAAGTTCATAATGGATGCGATACATGT
3905552 TATAAGGTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCTAAGTTCATAATGGATGCGATACATGTAA
Found at i:3907907 original size:15 final size:15
Alignment explanation
Indices: 3907867--3907915 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
3907857 GTATCGTATA
*
3907867 TTGGATTTCTGTATC
1 TTGGATTTCTTTATC
*
3907882 TTGAATTTCTTTATC
1 TTGGATTTCTTTATC
*
3907897 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
3907912 TTGG
1 TTGG
3907916 TCTTATAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.14, C:0.10, G:0.16, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:3911102 original size:43 final size:43
Alignment explanation
Indices: 3911021--3911107 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
3911011 TGATATATGT
* * **
3911021 AGCATCCGAGCTCATTGAGTGGTCTGAGTTCATTATGGAGGCA
1 AGCATCCAAGCTCATTGAGTGATCTGAGTTCACAATGGAGGCA
* *
3911064 AGCATCCAAGCTCGTTGAGTGATCTGAGTTCACAATGGATGCA
1 AGCATCCAAGCTCATTGAGTGATCTGAGTTCACAATGGAGGCA
3911107 A
1 A
3911108 TACATGTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (43 bp):
AGCATCCAAGCTCATTGAGTGATCTGAGTTCACAATGGAGGCA
Found at i:3912197 original size:19 final size:19
Alignment explanation
Indices: 3912170--3912207 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3912160 ATGTTGTTGA
*
3912170 CATGTTGTTTACTTCGACT
1 CATGCTGTTTACTTCGACT
*
3912189 CATGCTGTTTACTTGGACT
1 CATGCTGTTTACTTCGACT
3912208 TTTTCTTATG
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:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
CATGCTGTTTACTTCGACT
Found at i:3917711 original size:30 final size:31
Alignment explanation
Indices: 3917635--3917717 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
3917625 TCAGTCTCGA
*
3917635 CATAT-ACTGGGCCGAAGCTTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
3917665 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
3917696 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
3917718 ACTGTAAGCA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:3917965 original size:25 final size:25
Alignment explanation
Indices: 3917937--3918006 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
3917927 CTCTTTTAAT
*
3917937 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
3917962 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
3917987 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
3918007 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:3919009 original size:27 final size:27
Alignment explanation
Indices: 3918915--3919071 Score: 93
Period size: 27 Copynumber: 5.7 Consensus size: 27
3918905 ATCTACAAAC
* * *
3918915 CAAGGGTGTTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* **
3918942 CAATGGTATTTCTATAATTTT-TAGAAAGT
1 CAAGGGTATTTCGGTAATTTTGT--AAA-T
* **
3918971 CAAGGGTTTTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* * **
3918998 CAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* * ***
3919025 TAGGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTGTAAAT
*
3919051 CCAGTGGTATTTCGGTAATTT
1 CAAG-GGTATTTCGGTAATTT
3919072 GACAAACTAG
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
26 2 0.02
27 78 0.75
28 6 0.06
29 17 0.16
30 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTGTAAAT
Found at i:3919076 original size:27 final size:27
Alignment explanation
Indices: 3918999--3919097 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 27
3918989 TTTGTAAATC
* * * *
3918999 AGGGGTATTTTGGTAATTTTAAAAATT
1 AGGGGTATTTCGGTAATTTCACAAACT
*
3919026 AGGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTCACAAACT
* *
3919053 AGTGGTATTTCGGTAATTTGACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACT
*
3919080 AGGGGTATTTTGGTAATT
1 AGGGGTATTTCGGTAATT
3919098 CTATCCTACA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAACT
Found at i:3919114 original size:54 final size:54
Alignment explanation
Indices: 3918998--3919130 Score: 146
Period size: 54 Copynumber: 2.5 Consensus size: 54
3918988 TTTTGTAAAT
*
3918998 CAGGGGTATTTTGGTAATTTTAA-AAATTAGGGGTATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAA-TTTAACAAACTAGGGGTATTTCGGTAATTTCACAAAC
* * * * **
3919052 CAGTGGTATTTCGGTAATTTGACAAACTAGGGGTATTTTGGTAA-TTCTATCCTA-
1 CAGGGGTATTTTGGTAATTTAACAAACTAGGGGTATTTCGGTAATTTC-A-CAAAC
*
3919106 CAGGGGTATTTTAGTAATTTAACAA
1 CAGGGGTATTTTGGTAATTTAACAA
3919131 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
53 7 0.11
54 56 0.86
55 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTAACAAACTAGGGGTATTTCGGTAATTTCACAAAC
Found at i:3919137 original size:27 final size:26
Alignment explanation
Indices: 3918995--3919137 Score: 117
Period size: 27 Copynumber: 5.3 Consensus size: 26
3918985 TAATTTTGTA
*
3918995 AATCAGGGGTATTTTGGTAATTTTAAA
1 AATCAGGGGTATTTTGGTAA-TTTAAC
* * *
3919022 AATTAGGGGTATTTCGGTAATTTCAC
1 AATCAGGGGTATTTTGGTAATTTAAC
* * * *
3919048 AAACCAGTGGTATTTCGGTAATTTGAC
1 -AATCAGGGGTATTTTGGTAATTTAAC
* *
3919075 AAACTAGGGGTATTTTGGTAATTCTATC
1 AATC-AGGGGTATTTTGGTAATT-TAAC
* *
3919103 -CTACAGGGGTATTTTAGTAATTTAAC
1 AAT-CAGGGGTATTTTGGTAATTTAAC
3919129 AATCGAGGG
1 AATC-AGGG
3919138 TAAAACGTTA
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
26 11 0.12
27 78 0.85
28 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.36
Consensus pattern (26 bp):
AATCAGGGGTATTTTGGTAATTTAAC
Found at i:3919163 original size:27 final size:27
Alignment explanation
Indices: 3919129--3919277 Score: 201
Period size: 27 Copynumber: 5.5 Consensus size: 27
3919119 GTAATTTAAC
*
3919129 AATCGAGGGTAAAACGTTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
3919156 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
*
3919183 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
3919210 AATCGAGGGTAAAATGATAATTTTATA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
3919237 AATCAAGGGTAAAAC-AGTAATTTTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTA
3919264 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
3919278 TGGTAATTCT
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 107 0.99
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTGTA
Found at i:3919204 original size:54 final size:54
Alignment explanation
Indices: 3919129--3919299 Score: 236
Period size: 54 Copynumber: 3.2 Consensus size: 54
3919119 GTAATTTAAC
* * *
3919129 AATCGAGGGTAAAACGTTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATA
* *
3919183 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGATAATTTTATA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATA
* * * *
3919237 AATCAAGGGTAAAAC-AGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATA
*
3919291 AATTGAGGG
1 AATCGAGGG
3919300 CATTTTAGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 102 0.99
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATA
Found at i:3919239 original size:81 final size:81
Alignment explanation
Indices: 3919129--3919287 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
3919119 GTAATTTAAC
* * ** ** *
3919129 AATCGAGGGTAAAACGTTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTATAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTA
3919194 AAACGATAATTCTGTA
66 AAACGATAATTCTGTA
*
3919210 AATCGAGGGTAAAATGATAATTTTATAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTATAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTA
* *
3919275 AAATGGTAATTCT
66 AAACGATAATTCT
3919288 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAACGATAATTTTATAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTA
AAACGATAATTCTGTA
Found at i:3919283 original size:27 final size:27
Alignment explanation
Indices: 3919129--3919299 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
3919119 GTAATTTAAC
* *
3919129 AATCGAGGGTAAAACGTTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
3919156 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
3919183 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
3919210 AATCGAGGGTAAAATGATAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
3919237 AATCAAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
3919264 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
3919291 AATTGAGGG
1 AATCGAGGG
3919300 CATTTTAGTA
Statistics
Matches: 124, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:3921643 original size:31 final size:31
Alignment explanation
Indices: 3921563--3921646 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
3921553 TCAGTCTCGA
*
3921563 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTCGGCCGAAGCCTTTTCATAAAT
*
3921593 CATATCACTCGGCCAAAGCCTTTTCATAAAT
1 CATATCACTCGGCCGAAGCCTTTTCATAAAT
* *
3921624 CATTTCACT-GCGCTGAAGCCTTT
1 CATATCACTCG-GCCGAAGCCTTT
3921647 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
30 6 0.13
31 41 0.87
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (31 bp):
CATATCACTCGGCCGAAGCCTTTTCATAAAT
Found at i:3921886 original size:24 final size:24
Alignment explanation
Indices: 3921839--3921910 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
3921829 GCTTTATCAT
** *
3921839 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCCTTTTTTA
*
3921864 ATAACTGGGGCAAAGCCTTTTTTG
1 ATAACTGGGGCAAAGCCTTTTTTA
* *
3921888 ATAAACTAGGGCAAAGCCCTTTT
1 AT-AACTGGGGCAAAGCCTTTTT
3921911 CGGTAAACTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.35
25 26 0.65
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCTTTTTTA
Found at i:3921894 original size:25 final size:25
Alignment explanation
Indices: 3921866--3921935 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
3921856 CTCTTTTAAT
*
3921866 AACTGGGGCAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
3921891 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
3921916 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
3921936 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:3922754 original size:27 final size:26
Alignment explanation
Indices: 3922724--3922801 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
3922714 GGGCATATTC
3922724 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
3922751 GTCACTTTACCCTAGAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
3922778 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-CAGGGGTATT
3922802 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 5 0.12
27 34 0.81
28 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:3922862 original size:27 final size:27
Alignment explanation
Indices: 3922832--3922884 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
3922822 GGGTGTTTTG
3922832 GTAAATCTATAAACCAAGGGTATTTCA
1 GTAAATCTATAAACCAAGGGTATTTCA
* * * *
3922859 GTAATTTTGTAAACCAATGGTATTTC
1 GTAAATCTATAAACCAAGGGTATTTC
3922885 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAAATCTATAAACCAAGGGTATTTCA
Found at i:3922890 original size:27 final size:27
Alignment explanation
Indices: 3922841--3922949 Score: 87
Period size: 27 Copynumber: 4.0 Consensus size: 27
3922831 GGTAAATCTA
3922841 TAAACCAAGGGTATTTCAGTAATTTTG
1 TAAACCAAGGGTATTTCAGTAATTTTG
*
3922868 TAAACCAATGGTATTTCTA-TAATTTT-
1 TAAACCAAGGGTATTTC-AGTAATTTTG
* * **
3922894 TAGAAAGTCAAGGGTTTTTTTGTAATTTTG
1 T--AAA-CCAAGGGTATTTCAGTAATTTTG
* * **
3922924 TAAATCAGGGGTATTTTGGTAATTTT
1 TAAACCAAGGGTATTTCAGTAATTTT
3922950 AAAAATTAGG
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.01
27 42 0.63
28 7 0.10
29 16 0.24
30 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.44
Consensus pattern (27 bp):
TAAACCAAGGGTATTTCAGTAATTTTG
Found at i:3922955 original size:27 final size:27
Alignment explanation
Indices: 3922930--3923056 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
3922920 TTTGTAAATC
* *
3922930 AGGGGTATTTTGGTAATTTTAAAAATT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
3922957 AGGGGTATTTCGGTAATTTCACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
3922984 AGTGGTATTTCGGTAATTTGACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
3923011 AGGGGTATTTTTGGTAATTTTACAAACT
1 AGGGGTA-TTTTGGTAATTTTACAAACT
*
3923039 AAGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
3923057 CTATCCTATA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 65 0.73
28 24 0.27
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:3923047 original size:55 final size:53
Alignment explanation
Indices: 3922932--3923056 Score: 169
Period size: 55 Copynumber: 2.3 Consensus size: 53
3922922 TGTAAATCAG
* *
3922932 GGGTATTTTGGTAATTTTAAAAATTAGGGGTATTTCGGTAATTTCACAAACTA
1 GGGTATTTTGGTAATTTGAAAAACTAGGGGTATTTCGGTAATTTCACAAACTA
* * * *
3922985 GTGGTATTTCGGTAATTTGACAAACTAGGGGTATTTTTGGTAATTTTACAAACTAA
1 G-GGTATTTTGGTAATTTGAAAAACTAGGGGTA-TTTCGGTAATTTCACAAACT-A
3923041 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
3923057 CTATCCTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.02
54 27 0.44
55 32 0.52
56 2 0.03
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTGAAAAACTAGGGGTATTTCGGTAATTTCACAAACTA
Found at i:3923073 original size:82 final size:81
Alignment explanation
Indices: 3922930--3923089 Score: 198
Period size: 82 Copynumber: 2.0 Consensus size: 81
3922920 TTTGTAAATC
* * *
3922930 AGGGGTATTTTGGTAATTTTAAAAATTAGGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTC
1 AGGGGTATTTTGGTAATTTTAAAAACTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTC
* *
3922995 GGTAATTTGACAAACT
66 AGTAATTTCACAAACT
* * **
3923011 AGGGGTATTTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAA-TTCTATCCTA-TAGGGGTAT
1 AGGGGTA-TTTTGGTAATTTTAAAAACTAAGGGTATTTCGGTAATTTC-A-CAAACTAGGGGTAT
3923074 TTCAGTAATTTCACAA
63 TTCAGTAATTTCACAA
3923090 TCGAGGGTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
81 10 0.15
82 55 0.82
83 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTAAAAACTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTC
AGTAATTTCACAAACT
Found at i:3923096 original size:27 final size:27
Alignment explanation
Indices: 3922930--3923089 Score: 162
Period size: 27 Copynumber: 5.9 Consensus size: 27
3922920 TTTGTAAATC
* * * *
3922930 AGGGGTATTTTGGTAATTTTAAAAATT
1 AGGGGTATTTCGGTAATTTCACAAACT
3922957 AGGGGTATTTCGGTAATTTCACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACT
* *
3922984 AGTGGTATTTCGGTAATTTGACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACT
* *
3923011 AGGGGTATTTTTGGTAATTTTACAAACT
1 AGGGGTA-TTTCGGTAATTTCACAAACT
* * **
3923039 AAGGGTATTTTGGTAA-TTCTATCCTA-T
1 AGGGGTATTTCGGTAATTTC-A-CAAACT
*
3923066 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTCACAA
3923090 TCGAGGGTAA
Statistics
Matches: 111, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.03
27 79 0.71
28 29 0.26
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAACT
Found at i:3923118 original size:27 final size:27
Alignment explanation
Indices: 3923088--3923268 Score: 121
Period size: 27 Copynumber: 6.3 Consensus size: 27
3923078 GTAATTTCAC
*
3923088 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * *
3923115 AATCAATGGTAAAACAGT-ATTTCTGTA
1 AATCGAGGGTAAAACGGTAATTT-TATA
*
3923142 AATCAAGGGTAAAACAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAAC--GGT--AA---T--TT-TATA
* *
3923179 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
3923206 AATCGATGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * *
3923233 AATCGAGTGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
3923260 AATCGAGGG
1 AATCGAGGG
3923269 CATTTCAGTA
Statistics
Matches: 123, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
26 4 0.03
27 88 0.72
28 2 0.02
29 2 0.02
30 1 0.01
32 1 0.01
33 2 0.02
35 3 0.02
37 20 0.16
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:3923163 original size:37 final size:37
Alignment explanation
Indices: 3923122--3923195 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
3923112 GTAAATCAAT
* *
3923122 GGTAAAACAGTATTTCTGTAAATCAAGGGTAAAACAG
1 GGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAG
** *
3923159 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
1 GGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAG
3923196 TAATTTTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.24
Consensus pattern (37 bp):
GGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAG
Found at i:3930382 original size:45 final size:44
Alignment explanation
Indices: 3930214--3930385 Score: 156
Period size: 45 Copynumber: 4.0 Consensus size: 44
3930204 TATATAAAAA
* ** *
3930214 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCCA-ATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATACATATATCG
* * *
3930257 ATGCC-ACTGTCCCAAACGTAGTCTTACAC-AAAT-CAAATA-CG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGAAATACATATATCG
* * * **
3930298 ATGCCGATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATACATATATCG
* *
3930343 ATGCCAACGTCCCAGACTTGGTCTTACTCGAAAATACATATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATACATATAT
3930386 TAGAATCCTA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 27 0.26
42 8 0.08
43 25 0.24
44 5 0.05
45 38 0.37
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATACATATATCG
Found at i:3932827 original size:14 final size:15
Alignment explanation
Indices: 3932810--3932838 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3932800 GCACGAAAAT
3932810 TTCACACAT-ATAAA
1 TTCACACATAATAAA
3932824 TTCACACATAATAAA
1 TTCACACATAATAAA
3932839 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:3952697 original size:20 final size:20
Alignment explanation
Indices: 3952669--3952706 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3952659 CTAGGAACTA
3952669 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
3952689 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
3952707 TATATATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:3955007 original size:27 final size:27
Alignment explanation
Indices: 3954983--3955326 Score: 258
Period size: 27 Copynumber: 12.7 Consensus size: 27
3954973 TTAGTTTACC
*
3954983 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
3955010 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
3955037 AAATTACCAAAAAACCTTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
3955064 AAATTACCAAAATACCCTTTGTTTATG
1 AAATTACCAAAATACCCTTGGTTTATA
*
3955091 AAATTACCAAAATACCAC-TGGTTTGTA
1 AAATTACCAAAATACC-CTTGGTTTATA
* *
3955118 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * * *
3955145 AAATTATCAAGATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
3955172 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
** ** *
3955199 AAATTACTGAAATACCCTCAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*** * ** *
3955226 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
3955253 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* **** * *
3955280 GAATTACCGTTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
3955307 AAATTATCGAAATACCCTTG
1 AAATTACCAAAATACCCTTG
3955327 TAGGGTAGAA
Statistics
Matches: 258, Mismatches: 57, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
26 1 0.00
27 256 0.99
28 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:3955115 original size:81 final size:81
Alignment explanation
Indices: 3954971--3955205 Score: 290
Period size: 81 Copynumber: 2.9 Consensus size: 81
3954961 GTTTAGAATA
* * * * * *
3954971 CTTTAGTTTACCAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGT
1 CTTTGGTTTACAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGT
3955036 AAAATTACCAAAAAAC
66 AAAATTACCAAAAAAC
* * *
3955052 CTTTGGTTTACAAAATTACCAAAATACCCTTTGTTTATGAAATTACCAAAATACCACTGGTTTGT
1 CTTTGGTTTACAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGT
*
3955117 AAAATTACCAAAATAC
66 AAAATTACCAAAAAAC
** ** * * * * *
3955133 CCCTGGTTTGTAAAATTATCAAGATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
1 CTTTGGTTTACAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGT
*
3955198 GAAATTAC
66 AAAATTAC
3955206 TGAAATACCC
Statistics
Matches: 132, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 132 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
CTTTGGTTTACAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGT
AAAATTACCAAAAAAC
Found at i:3955376 original size:27 final size:27
Alignment explanation
Indices: 3955306--3955368 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
3955296 CTTGATTTAC
* *
3955306 AAAATTATCGAAATACCCTTGTAGGGT
1 AAAATTACCGAGATACCCTTGTAGGGT
* *
3955333 AGAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAGATACCCTTGTAGGGT
3955360 AAAATTACC
1 AAAATTACC
3955369 ATTTTACCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAGATACCCTTGTAGGGT
Found at i:3955714 original size:33 final size:32
Alignment explanation
Indices: 3955665--3955728 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
3955655 CTCGCTGCAA
* *
3955665 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
3955698 TCTGGTGGCCTAGCCACAATATCTTTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
3955729 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:3955908 original size:6 final size:6
Alignment explanation
Indices: 3955868--3955977 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
3955858 TTGCATTCAC
* * * * *
3955868 ATTCTG ATTTTG ATTCTA ATTCTG -TCACCTA ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG AT-TC-TG
**
3955918 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG ATAGTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG ATTCTG
*
3955966 ATTCTT ATTCTG
1 ATTCTG ATTCTG
3955978 TAATGGGTTA
Statistics
Matches: 80, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
5 3 0.04
6 69 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:3955908 original size:19 final size:19
Alignment explanation
Indices: 3955880--3955929 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3955870 TCTGATTTTG
*
3955880 ATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
*
3955899 ATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGTCACCTA
3955918 ATTCTGATTCTG
1 ATTCTGATTCTG
3955930 ATTCTGATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:3957808 original size:31 final size:32
Alignment explanation
Indices: 3957770--3957831 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
3957760 CTCGCTGCAA
* *
3957770 TCTGGTGGCTTCGCCAC-ATATA-TATATCTGT
1 TCTGGTGGCCTAGCCACAATA-ACTATATCTGT
3957801 TCTGGTGGCCTAGCCACAATAACTATATCTG
1 TCTGGTGGCCTAGCCACAATAACTATATCTG
3957832 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATAACTATATCTGT
Found at i:3958042 original size:6 final size:6
Alignment explanation
Indices: 3958031--3958129 Score: 112
Period size: 6 Copynumber: 16.3 Consensus size: 6
3958021 CACCTAATTT
* *
3958031 TGATTC TGATTC TGATTC TAATTC TG-TCACC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
** *
3958080 TGATTC TGATTC TGATTC TGATTC T-AGTTC TGATAA TGATTC TTATTC
1 TGATTC TGATTC TGATTC TGATTC TGA-TTC TGATTC TGATTC TGATTC
3958128 TG
1 TG
3958130 TAATGGGTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
5 2 0.03
6 71 0.91
7 4 0.05
8 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:3958049 original size:37 final size:37
Alignment explanation
Indices: 3957994--3958093 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
3957984 TTTTGTTACG
* * *
3957994 TGATACTGATTTTGATTCTAATTCTGTCACCTAATTT
1 TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTC
*
3958031 TGATTCTGATTCTGATTCTAATTCTGTCACCTGATTC
1 TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTC
*
3958068 TGATTCTGATTCTGATTCTGATTCTG
1 TGATTCTGATTCTGATTCTAATTCTG
3958094 ATTCTGATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTC
Found at i:3960058 original size:27 final size:27
Alignment explanation
Indices: 3960042--3960364 Score: 308
Period size: 27 Copynumber: 12.0 Consensus size: 27
3960032 CCAAATTATT
*
3960042 AAAATACCCTTGGTTTATAAAATCACC
1 AAAATACCCTTGGTTTATAAAATTACC
* * *
3960069 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACC
* *
3960096 AAAATACCCTTGGTTTA-CAATTTACC
1 AAAATACCCTTGGTTTATAAAATTACC
* * *
3960122 AAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCCTTGGTTTATAAAATTACC
* *
3960149 AAAATACCCTTTGTTTATAAAATAACC
1 AAAATACCCTTGGTTTATAAAATTACC
*
3960176 AAAATACCAC-TGGTTTGTAAAATTACC
1 AAAATACC-CTTGGTTTATAAAATTACC
* * * *
3960203 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATACCCTTGGTTTATAAAATTACC
* *
3960230 AAAATACCCTTAGTTTGTAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACC
* * * *
3960257 AAAATACCCTTGATTTGTGAAATTACT
1 AAAATACCCTTGGTTTATAAAATTACC
** * **
3960284 AAAATACCCTCAGTTTGTAAAATTATT
1 AAAATACCCTTGGTTTATAAAATTACC
* * ** *
3960311 GAAATACCCTCGACTTGTAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACC
* * *
3960338 AAAGTACCCTTGATTTATAGAATTACC
1 AAAATACCCTTGGTTTATAAAATTACC
3960365 GTTTTACCCT
Statistics
Matches: 246, Mismatches: 47, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 23 0.09
27 222 0.90
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATACCCTTGGTTTATAAAATTACC
Found at i:3960100 original size:54 final size:54
Alignment explanation
Indices: 3960042--3960346 Score: 353
Period size: 54 Copynumber: 5.7 Consensus size: 54
3960032 CCAAATTATT
*
3960042 AAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
* * * *
3960096 AAAATACCCTTGGTTTA-CAATTTACCAAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
* * * *
3960149 AAAATACCCTTTGTTTATAAAATAACCAAAATACCACTGGTTTGTAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
* * * * *
3960203 AAAATACCCCTAGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
* * * * **
3960257 AAAATACCCTTGATTTGTGAAATTACTAAAATA-CCCTCAGTTTGTAAAATTATT
1 AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACC
* * ** * *
3960311 GAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAAATACCCTTGGTTTATAAAATTACCAAAATACCC
3960347 TTGATTTATA
Statistics
Matches: 214, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
53 50 0.23
54 162 0.76
55 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
Found at i:3960234 original size:81 final size:81
Alignment explanation
Indices: 3960042--3960364 Score: 361
Period size: 81 Copynumber: 4.0 Consensus size: 81
3960032 CCAAATTATT
* * * * * *
3960042 AAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTT
1 AAAATACCCCTAGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTT
*
3960107 GG-TT-TACAATTTACC
66 GGTTTGTA-AAATTACC
* * * *
3960122 AAAATACCCCTGGTTTGTAAAATTA-CTAAAATACCCTTTGTTTATAAAATAACCAAAATACCAC
1 AAAATACCCCTAGTTTGTAAAATTATC-AAAATACCCTTAGTTTGTAAAATTACCAAAATACC-C
3960186 -TGGTTTGTAAAATTACC
64 TTGGTTTGTAAAATTACC
3960203 AAAATACCCCTAGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTT
1 AAAATACCCCTAGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTT
* * *
3960268 GATTTGTGAAATTACT
66 GGTTTGTAAAATTACC
** * * *
3960284 AAAATA-CCCTCAGTTTGTAAAATTATTGAAATACCC-TCGACTTGTAAAATTACCAAAGTACCC
1 AAAATACCCCT-AGTTTGTAAAATTATCAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCC
* * *
3960347 TTGATTTATAGAATTACC
64 TTGGTTTGTAAAATTACC
3960365 GTTTTACCCT
Statistics
Matches: 211, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
79 1 0.00
80 63 0.30
81 144 0.68
82 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (81 bp):
AAAATACCCCTAGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTT
GGTTTGTAAAATTACC
Found at i:3960373 original size:81 final size:81
Alignment explanation
Indices: 3960042--3960400 Score: 286
Period size: 81 Copynumber: 4.4 Consensus size: 81
3960032 CCAAATTATT
** * * * * *
3960042 AAAATACCCTTGGTTTATAAAATCACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCT
1 AAAATACCCTCAGTTTGTAAAATTATCGAAATA-CCCTGAGCTTGTAAAATTACCAAAATACCCT
* * *
3960106 TGGTTTA-CAATTTACC
65 TGATTTATGAAATTACC
* * ** * * *
3960122 AAAATACCC-CTGGTTTGTAAAATTA-CTAAAATACCCTTTGTTTATAAAATAACCAAAATACCA
1 AAAATACCCTC-AGTTTGTAAAATTATC-GAAATACCCTGAGCTTGTAAAATTACCAAAATACC-
* * *
3960185 C-TGGTTTGTAAAATTACC
63 CTTGATTTATGAAATTACC
* * *
3960203 AAAATACCC-CTAGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCT
1 AAAATACCCTC-AGTTTGTAAAATTATCGAAATACCCTGAGCTTGTAAAATTACCAAAATACCCT
* *
3960267 TGATTTGTGAAATTACT
65 TGATTTATGAAATTACC
* *
3960284 AAAATACCCTCAGTTTGTAAAATTATTGAAATACCCTCGA-CTTGTAAAATTACCAAAGTACCCT
1 AAAATACCCTCAGTTTGTAAAATTATCGAAATACCCT-GAGCTTGTAAAATTACCAAAATACCCT
3960348 TGATTTAT-AGAATTACC
65 TGATTTATGA-AATTACC
**** **
3960365 GTTTTACCCTC-GATTTAAAAAATTATCGAAATACCC
1 AAAATACCCTCAG-TTTGTAAAATTATCGAAATACCC
3960401 CTGTAGGGTA
Statistics
Matches: 238, Mismatches: 30, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
79 5 0.02
80 57 0.24
81 173 0.73
82 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (81 bp):
AAAATACCCTCAGTTTGTAAAATTATCGAAATACCCTGAGCTTGTAAAATTACCAAAATACCCTT
GATTTATGAAATTACC
Found at i:3960399 original size:27 final size:27
Alignment explanation
Indices: 3960162--3960400 Score: 112
Period size: 27 Copynumber: 8.9 Consensus size: 27
3960152 ATACCCTTTG
* * * *
3960162 TTTATAAAATAACCAAAATACCACT-GG
1 TTTATAAAATTATCGAAATACC-CTCGA
* * * *
3960189 TTTGTAAAATTACCAAAATACCC-CTA
1 TTTATAAAATTATCGAAATACCCTCGA
* * *
3960215 GTTTGTAAAATTATCAAAATACCCT-TA
1 -TTTATAAAATTATCGAAATACCCTCGA
* * * *
3960242 GTTTGTAAAATTACCAAAATACCCTTGA
1 -TTTATAAAATTATCGAAATACCCTCGA
* * *
3960270 TTTGTGAAATTA-CTAAAATACCCTC-A
1 TTTATAAAATTATC-GAAATACCCTCGA
* *
3960296 GTTTGTAAAATTATTGAAATACCCTCGA
1 -TTTATAAAATTATCGAAATACCCTCGA
* * * *
3960324 CTTGTAAAATTA-CCAAAGTACCCTTGA
1 TTTATAAAATTATCGAAA-TACCCTCGA
* * ***
3960351 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTATAAAATTATCGAAATACCCTCGA
*
3960378 TTTAAAAAATTATCGAAATACCC
1 TTTATAAAATTATCGAAATACCC
3960401 CTGTAGGGTA
Statistics
Matches: 172, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
26 6 0.03
27 163 0.95
28 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTATAAAATTATCGAAATACCCTCGA
Found at i:3960415 original size:27 final size:27
Alignment explanation
Indices: 3960383--3960444 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
3960373 CTCGATTTAA
3960383 AAAATTA-TCGAAATACCCCTGTAGGGT
1 AAAATTACT-GAAATACCCCTGTAGGGT
* * * *
3960410 AGAATTACTGAGATACCCTTGTGGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
3960437 AAAATTAC
1 AAAATTAC
3960445 CATTTTACCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGTAGGGT
Found at i:3960453 original size:27 final size:27
Alignment explanation
Indices: 3960423--3960487 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
3960413 ATTACTGAGA
*
3960423 TACCCTTGTGGGGTAAAATTACCATTT
1 TACCCTTGTGGGGTAAAATGACCATTT
* **
3960450 TA-CCTT-TAGGGGTTAAATGACTGTTT
1 TACCCTTGT-GGGGTAAAATGACCATTT
3960476 TACCCTTGTGGG
1 TACCCTTGTGGG
3960488 CAAGTGACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 1 0.03
26 20 0.65
27 9 0.29
28 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (27 bp):
TACCCTTGTGGGGTAAAATGACCATTT
Found at i:3961035 original size:6 final size:6
Alignment explanation
Indices: 3961026--3961112 Score: 97
Period size: 6 Copynumber: 14.3 Consensus size: 6
3961016 CTGTCACCTA
* * *
3961026 ATTCTG ATTCTG ATTCTG ATTTTG ATTCTA ATTCTG -TCACCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
*
3961075 ATTCTG ATTCTG ATTCTG ACTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
3961113 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
5 2 0.03
6 61 0.90
7 4 0.06
8 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:3961055 original size:43 final size:43
Alignment explanation
Indices: 3961001--3961103 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
3960991 CTCGATACTA
*
3961001 ATTCTGGTTCTAATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTG
* *
3961044 ATTTTGATTCTAATTCTGTCACCTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTG
* *
3961087 ATTCTGACTCTGATTCT
1 ATTCTGATTCTAATTCT
3961104 AGTTCTGATA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (43 bp):
ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTG
Found at i:3973344 original size:28 final size:28
Alignment explanation
Indices: 3973311--3973369 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
3973301 CCAGTACATT
3973311 TTCTTCAAATCATTATACATCTTGGTAC
1 TTCTTCAAATCATTATACATCTTGGTAC
3973339 TTCTTCAAATCATTATACATCTTGGTAC
1 TTCTTCAAATCATTATACATCTTGGTAC
3973367 TTC
1 TTC
3973370 CAGGATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (28 bp):
TTCTTCAAATCATTATACATCTTGGTAC
Found at i:3974636 original size:19 final size:19
Alignment explanation
Indices: 3974612--3974650 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3974602 TAACTGGTAG
3974612 TACCCGGATCTCAAATCTA
1 TACCCGGATCTCAAATCTA
3974631 TACCCGGATCTCAAATCTA
1 TACCCGGATCTCAAATCTA
3974650 T
1 T
3974651 CTTAGAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (19 bp):
TACCCGGATCTCAAATCTA
Found at i:3992843 original size:14 final size:14
Alignment explanation
Indices: 3992805--3992847 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
3992795 CAAAATGTAC
3992805 AATATAATTAAA-T
1 AATATAATTAAATT
3992818 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
3992833 AA-ATAATTTAATT
1 AATATAATTAAATT
3992846 AA
1 AA
3992848 CTATTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:3997880 original size:20 final size:20
Alignment explanation
Indices: 3997855--3997892 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3997845 GTCACATATA
3997855 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
3997875 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
3997893 TAGTTTCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:4004540 original size:31 final size:29
Alignment explanation
Indices: 4004502--4004564 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
4004492 CCCCTAGTAG
*
4004502 CCCATATTTTT-CATTTATTCACATATTTAAC
1 CCCATATTTTTACATTT-TT-ACA-AATTAAC
4004533 CCCATATTTTTACATTTTTACAAATTAAC
1 CCCATATTTTTACATTTTTACAAATTAAC
4004562 CCC
1 CCC
4004565 TAATTGACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 9 0.30
30 3 0.10
31 13 0.43
32 5 0.17
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.44
Consensus pattern (29 bp):
CCCATATTTTTACATTTTTACAAATTAAC
Found at i:4006080 original size:37 final size:37
Alignment explanation
Indices: 4006030--4006105 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
4006020 ATAGAATGTA
4006030 AAGCCAACATAAATAATTCATGCGTACGTACATCATC
1 AAGCCAACATAAATAATTCATGCGTACGTACATCATC
4006067 AAGCCAACATAAATAATTCATGCGTACGTACATCATC
1 AAGCCAACATAAATAATTCATGCGTACGTACATCATC
4006104 AA
1 AA
4006106 ACATTATTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (37 bp):
AAGCCAACATAAATAATTCATGCGTACGTACATCATC
Found at i:4029444 original size:45 final size:45
Alignment explanation
Indices: 4029371--4029488 Score: 193
Period size: 45 Copynumber: 2.6 Consensus size: 45
4029361 ACTAGCTTTA
* * *
4029371 TAGCCTGCTAGGCTTGAAA-GCCCAAATAGTATGTCACCGGCATTG
1 TAGCCTGCTAGGC-TCAAAGGCCCGAATAGTATCTCACCGGCATTG
4029416 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTG
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTG
4029461 TAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATA
4029489 ATCAAATCCA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
44 4 0.06
45 65 0.94
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.22
Consensus pattern (45 bp):
TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTG
Found at i:4031548 original size:76 final size:76
Alignment explanation
Indices: 4031422--4031573 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
4031412 TAAAATAAAA
*
4031422 TTCATATTATCTATCACCCATCATCTTGGCCGGCCACTATATTAAAAGTGGTCCATTTGACATGC
1 TTCATATTATCTATCACCCATCATATTGGCCGGCCACTATATTAAAAGTGGTCCATTTGACATGC
4031487 AAGTCCCCCAT
66 AAGTCCCCCAT
4031498 TTCATATTATCTATCACCCATCATATTGGCCGGCCACTATATTAAAAGTGGTCCATTTGACATGC
1 TTCATATTATCTATCACCCATCATATTGGCCGGCCACTATATTAAAAGTGGTCCATTTGACATGC
4031563 AAGTCCCCCAT
66 AAGTCCCCCAT
4031574 GTCAATAATT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (76 bp):
TTCATATTATCTATCACCCATCATATTGGCCGGCCACTATATTAAAAGTGGTCCATTTGACATGC
AAGTCCCCCAT
Found at i:4033710 original size:31 final size:31
Alignment explanation
Indices: 4033672--4033731 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4033662 TTCATATTTC
4033672 ATATTTCATAACACTGGGCCAAAGCCTTTTT
1 ATATTTCATAACACTGGGCCAAAGCCTTTTT
** *
4033703 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCAAAGCCTTT
4033732 ACTGTAAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCAAAGCCTTTTT
Found at i:4033969 original size:25 final size:24
Alignment explanation
Indices: 4033925--4034069 Score: 170
Period size: 24 Copynumber: 6.0 Consensus size: 24
4033915 ACTTTATCAT
*
4033925 ATAACTGGAGGCCT-AGCCTTTTTTA
1 ATAACTGG-GGCATAAGCC-TTTTTA
4033950 ATAACTGGGGCA-AAGTCC-TTTTA
1 ATAACTGGGGCATAAG-CCTTTTTA
*
4033973 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCTTTTTA
*
4033997 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCTTTTTA
* *
4034021 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAG-CCTTTTTA
* *
4034046 ATAAATGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCTTTTTA
4034070 CACTTCCTCC
Statistics
Matches: 107, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
23 19 0.18
24 58 0.54
25 30 0.28
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCTTTTTA
Found at i:4033993 original size:24 final size:24
Alignment explanation
Indices: 4033945--4034069 Score: 207
Period size: 24 Copynumber: 5.2 Consensus size: 24
4033935 GCCTAGCCTT
*
4033945 TTTTAATAACTGGGGCA-AAGTCC
1 TTTTAATAACTGGGGCATAAGCCC
4033968 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
4033992 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
4034016 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
4034040 TTTATCATAAATGGGGCATAAGCCC
1 TTT-TAATAACTGGGGCATAAGCCC
4034065 TTTTA
1 TTTTA
4034070 CACTTCCTCC
Statistics
Matches: 96, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 17 0.18
24 57 0.59
25 22 0.23
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:4034143 original size:20 final size:20
Alignment explanation
Indices: 4034118--4034164 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
4034108 TTATGAATAC
4034118 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
4034138 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
4034158 ACCATGT
1 ATCATGT
4034165 TTACTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:4035418 original size:458 final size:458
Alignment explanation
Indices: 4034561--4035477 Score: 1834
Period size: 458 Copynumber: 2.0 Consensus size: 458
4034551 GGCCCAACTT
4034561 ATCGTGAACTCCAAAAATCACGTTCTTACCGTTTCCAATGTTCCTGATCATCATCTCAATGAATC
1 ATCGTGAACTCCAAAAATCACGTTCTTACCGTTTCCAATGTTCCTGATCATCATCTCAATGAATC
4034626 TAACTAACTAATGAGCATTCGCTTGCTCACGAGTCCTCGAAATGCCCAAATTATGCATTTAGGCT
66 TAACTAACTAATGAGCATTCGCTTGCTCACGAGTCCTCGAAATGCCCAAATTATGCATTTAGGCT
4034691 TTTCGGCACTTATCGCTTTTAAGCTTAGGAAAGAGGGTTCGTTACACACCTGTTTGGCGATATTC
131 TTTCGGCACTTATCGCTTTTAAGCTTAGGAAAGAGGGTTCGTTACACACCTGTTTGGCGATATTC
4034756 CTCGACGAGATCTCCTACACGATTTCTCCTATACTCCACCATTAATAAATCAGCTTCCATTAATT
196 CTCGACGAGATCTCCTACACGATTTCTCCTATACTCCACCATTAATAAATCAGCTTCCATTAATT
4034821 GACCCCAAAACAAGAACCATCTTATATTAGTACTTACACATTCGGCCACCATCCAGAATGGCCTT
261 GACCCCAAAACAAGAACCATCTTATATTAGTACTTACACATTCGGCCACCATCCAGAATGGCCTT
4034886 AAGAACCTTACCTTGCCGATATTGATTGACTAGATCTAGCCACTCCAGAGAATCAAGCTGATTCA
326 AAGAACCTTACCTTGCCGATATTGATTGACTAGATCTAGCCACTCCAGAGAATCAAGCTGATTCA
4034951 AGTCGAAAATCCGTCTTGCTGCTCCTCCACTATAGAAACCATAAAAATATTAAAAGAAGAACCCC
391 AGTCGAAAATCCGTCTTGCTGCTCCTCCACTATAGAAACCATAAAAATATTAAAAGAAGAACCCC
4035016 CAA
456 CAA
4035019 ATCGTGAACTCCAAAAATCACGTTCTTACCGTTTCCAATGTTCCTGATCATCATCTCAATGAATC
1 ATCGTGAACTCCAAAAATCACGTTCTTACCGTTTCCAATGTTCCTGATCATCATCTCAATGAATC
4035084 TAACTAACTAATGAGCATTCGCTTGCTCACGAGTCCTCGAAATGCCCAAATTATGCATTTAGGCT
66 TAACTAACTAATGAGCATTCGCTTGCTCACGAGTCCTCGAAATGCCCAAATTATGCATTTAGGCT
4035149 TTTCGGCACTTATCGCTTTTAAGCTTAGGAAAGAGGGTTCGTTACACACCTGTTTGGCGATATTC
131 TTTCGGCACTTATCGCTTTTAAGCTTAGGAAAGAGGGTTCGTTACACACCTGTTTGGCGATATTC
4035214 CTCGACGAGATCTCCTACACGATTTCTCCTATACTCCACCATTAATAAATCAGCTTCCATTAATT
196 CTCGACGAGATCTCCTACACGATTTCTCCTATACTCCACCATTAATAAATCAGCTTCCATTAATT
4035279 GACCCCAAAACAAGAACCATCTTATATTAGTACTTACACATTCGGCCACCATCCAGAATGGCCTT
261 GACCCCAAAACAAGAACCATCTTATATTAGTACTTACACATTCGGCCACCATCCAGAATGGCCTT
4035344 AAGAACCTTACCTTGCCGATATTGATTGACTAGATCTAGCCACTCCAGAGAATCAAGCTGATTCA
326 AAGAACCTTACCTTGCCGATATTGATTGACTAGATCTAGCCACTCCAGAGAATCAAGCTGATTCA
4035409 AGTCGAAAATCCGTCTTGCTGCTCCTCCACTATAGAAACCATAAAAATATTAAAAGAAGAACCCC
391 AGTCGAAAATCCGTCTTGCTGCTCCTCCACTATAGAAACCATAAAAATATTAAAAGAAGAACCCC
4035474 CAA
456 CAA
4035477 A
1 A
4035478 AACCTATACC
Statistics
Matches: 459, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
458 459 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (458 bp):
ATCGTGAACTCCAAAAATCACGTTCTTACCGTTTCCAATGTTCCTGATCATCATCTCAATGAATC
TAACTAACTAATGAGCATTCGCTTGCTCACGAGTCCTCGAAATGCCCAAATTATGCATTTAGGCT
TTTCGGCACTTATCGCTTTTAAGCTTAGGAAAGAGGGTTCGTTACACACCTGTTTGGCGATATTC
CTCGACGAGATCTCCTACACGATTTCTCCTATACTCCACCATTAATAAATCAGCTTCCATTAATT
GACCCCAAAACAAGAACCATCTTATATTAGTACTTACACATTCGGCCACCATCCAGAATGGCCTT
AAGAACCTTACCTTGCCGATATTGATTGACTAGATCTAGCCACTCCAGAGAATCAAGCTGATTCA
AGTCGAAAATCCGTCTTGCTGCTCCTCCACTATAGAAACCATAAAAATATTAAAAGAAGAACCCC
CAA
Found at i:4042040 original size:31 final size:31
Alignment explanation
Indices: 4042002--4042061 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4041992 TTCATATTTC
4042002 ATATTTCATAACACTGGGCCAAAGCCTTTTT
1 ATATTTCATAACACTGGGCCAAAGCCTTTTT
** *
4042033 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCAAAGCCTTT
4042062 ACTGTAAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCAAAGCCTTTTT
Found at i:4042221 original size:24 final size:24
Alignment explanation
Indices: 4042151--4042223 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
4042141 ACTACTCAAC
* *
4042151 AATAACTAGGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGTCCTTTT
4042175 AATAACTGGGGCATAA-TACCTTTT
1 AATAACTGGGGCATAAGT-CCTTTT
*
4042199 AATAACTGGGGCATAAGTTCTTTT
1 AATAACTGGGGCATAAGTCCTTTT
4042223 A
1 A
4042224 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 43 0.98
25 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (24 bp):
AATAACTGGGGCATAAGTCCTTTT
Found at i:4042297 original size:20 final size:20
Alignment explanation
Indices: 4042272--4042312 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4042262 TTATGAATAC
4042272 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
4042292 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
4042312 A
1 A
4042313 NTCCCATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:4042373 original size:25 final size:25
Alignment explanation
Indices: 4042341--4042388 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4042331 ATACATAAAC
* *
4042341 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
4042366 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
4042389 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:4047436 original size:15 final size:15
Alignment explanation
Indices: 4047416--4047445 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4047406 TTCACTATTA
*
4047416 TGTCTTTTATATTTT
1 TGTCTTTCATATTTT
4047431 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
4047446 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (15 bp):
TGTCTTTCATATTTT
Found at i:4048614 original size:16 final size:15
Alignment explanation
Indices: 4048587--4048616 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4048577 TTGATGAAGT
4048587 AAAATTAAATTAATC
1 AAAATTAAATTAATC
4048602 AAAATTAAAATTAAT
1 AAAATT-AAATTAAT
4048617 ATGATATTTT
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:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTAAATTAATC
Found at i:4059226 original size:21 final size:21
Alignment explanation
Indices: 4059201--4059273 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
4059191 TGTGGTCTAA
*
4059201 GGGACTCGCCTGTGTGACCCT
1 GGGACACGCCTGTGTGACCCT
*
4059222 GGGACACGCTTGTGTGACCCT
1 GGGACACGCCTGTGTGACCCT
* * *
4059243 AGGACACACCTGTGTGACCTT
1 GGGACACGCCTGTGTGACCCT
4059264 GGGACACGCC
1 GGGACACGCC
4059274 CTTGTTGGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (21 bp):
GGGACACGCCTGTGTGACCCT
Found at i:4064818 original size:40 final size:40
Alignment explanation
Indices: 4064741--4064842 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
4064731 AAACCAAGTA
* *
4064741 CCTTCGGGAATTAG-CCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGAATTAGCCCGGTTATAGCTACTCGCACAAATG
*
4064780 CCTTCGGGATTTAGCCCGGTTATAG-TAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGTTATAGCT-ACTCGCACAAATG
*
4064820 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGAATTAGCCCGGTTAT
4064843 CATCCGAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 14 0.25
40 43 0.75
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGAATTAGCCCGGTTATAGCTACTCGCACAAATG
Found at i:4066940 original size:39 final size:39
Alignment explanation
Indices: 4066873--4067129 Score: 356
Period size: 39 Copynumber: 6.5 Consensus size: 39
4066863 ACAAAGCATG
* * *
4066873 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
4066913 CGGGACTTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
** *
4066953 CGGGGTTTAGCCCGGATAAAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
4066992 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
4067031 -TGGAGCTTAGCCCGAATATAACACCAGCACGAATGCCTT
1 CGGGA-CTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
4067070 CGGGCCTTAGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
4067109 TGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
4067130 TTCTCCATTA
Statistics
Matches: 194, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
38 3 0.02
39 170 0.88
40 21 0.11
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:4070906 original size:40 final size:40
Alignment explanation
Indices: 4070685--4070902 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
4070675 AAACCAAGTA
* *
4070685 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
4070724 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
4070764 CCTTTGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
4070804 CCTTCGGGACTTAGTCCGGATATAGTAACTAGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
4070844 CCTTCGGGACTTAGCCCGGTTATAGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
4070884 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
4070903 TTATCATCCG
Statistics
Matches: 159, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 14 0.09
40 145 0.91
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:4084618 original size:21 final size:21
Alignment explanation
Indices: 4084578--4084619 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4084568 TTGGTAAATG
*
4084578 GCATTTGAATGTAATTTTGGT
1 GCATTTGAATGTAATATTGGT
4084599 GCATTTGAATG-ACATATTGGT
1 GCATTTGAATGTA-ATATTGGT
4084620 TAGATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (21 bp):
GCATTTGAATGTAATATTGGT
Found at i:4085756 original size:25 final size:25
Alignment explanation
Indices: 4085717--4085764 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4085707 TTCTAAAGAG
*
4085717 AAAATTCTCTGAAGAAATTATTTCAA
1 AAAATTCTCTAAAGAAATT-TTTCAA
*
4085743 AAAATT-TCTAAAGATATTTTTC
1 AAAATTCTCTAAAGAAATTTTTC
4085765 TCATTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAATTCTCTAAAGAAATTTTTCAA
Found at i:4090920 original size:41 final size:40
Alignment explanation
Indices: 4090817--4091010 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
4090807 ATAACAAACC
* * *
4090817 GCACAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
4090857 GCACAAATGCCTTCGAGACTTAGCCCGGAAATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* * *
4090897 GCACAAAATGCCCTCGGGTCTTAGCCCGGATATCGTCACTA
1 GCAC-AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
4090938 GCGCAAATGCCTTCGGGACTTAGCCCGGATATTGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
4090978 GCACAAAGTCCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAA-TGCCTTCGGGACTTAGCCCGGATAT
4091011 CATCCGAATA
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 78 0.58
41 57 0.42
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:4091011 original size:81 final size:80
Alignment explanation
Indices: 4090817--4091011 Score: 266
Period size: 81 Copynumber: 2.4 Consensus size: 80
4090807 ATAACAAACC
* * * * *
4090817 GCACAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCC
1 GCACAAATCCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGAGACTTAGCC
4090882 CGGAAATAGTCACTA
66 CGGAAATAGTCACTA
* * *
4090897 GCACAAAATGCCC-TCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATGCCTTCGGGACTTAG
1 GCAC-AAAT-CCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGAGACTTAG
* *
4090961 CCCGGATATTGTCACTA
64 CCCGGAAATAGTCACTA
4090978 GCACAAAGTCCCTTCGGGTCTTAGCCCGGATATC
1 GCACAAA-TCCCTTCGGGTCTTAGCCCGGATATC
4091012 ATCCGAATAA
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
80 10 0.10
81 89 0.88
82 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
GCACAAATCCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGAGACTTAGCC
CGGAAATAGTCACTA
Found at i:4095218 original size:19 final size:19
Alignment explanation
Indices: 4095196--4095232 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4095186 TTAATTTTAG
*
4095196 TTAATTTATGTTATTTTGA
1 TTAATTAATGTTATTTTGA
4095215 TTAATTAATGTTATTTTG
1 TTAATTAATGTTATTTTG
4095233 GTTTTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (19 bp):
TTAATTAATGTTATTTTGA
Found at i:4108136 original size:43 final size:42
Alignment explanation
Indices: 4108066--4108239 Score: 176
Period size: 43 Copynumber: 4.1 Consensus size: 42
4108056 CACATATATT
* *
4108066 ATAT-AATGCCAACGTCCCAGACGTGGTCTTACATGCAATCAC
1 ATATCAATGCCAACGTCCCAGACATGGTCTTACACG-AATCAC
*
4108108 ATATCAATGCC-ACTGTCCCAGACATGGTCTTACACGAATCAA
1 ATATCAATGCCAAC-GTCCCAGACATGGTCTTACACGAATCAC
** * *
4108150 ATA-CGGTGCCAATGTCCCAGACATGGTCTTACACATAATCAC
1 ATATCAATGCCAACGTCCCAGACATGGTCTTACAC-GAATCAC
* * * *
4108192 ATATCGATGCCAACATCCCAGA-AGTGGTCTTACTCGAGAACAC
1 ATATCAATGCCAACGTCCCAGACA-TGGTCTTACACGA-ATCAC
4108235 ATATC
1 ATATC
4108240 GAAAATCCTA
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
41 26 0.23
42 25 0.23
43 60 0.54
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
ATATCAATGCCAACGTCCCAGACATGGTCTTACACGAATCAC
Found at i:4108558 original size:15 final size:15
Alignment explanation
Indices: 4108538--4108566 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4108528 GTTCTTGATC
4108538 TAAACTTATTCAAAT
1 TAAACTTATTCAAAT
4108553 TAAACTTATTCAAA
1 TAAACTTATTCAAA
4108567 AATAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAACTTATTCAAAT
Found at i:4113043 original size:27 final size:27
Alignment explanation
Indices: 4113013--4113156 Score: 132
Period size: 27 Copynumber: 5.3 Consensus size: 27
4113003 TATTTACTTG
4113013 AAAATGACTGAAATACCCCCATAGGAT
1 AAAATGACTGAAATACCCCCATAGGAT
* * * *
4113040 AAAATGACCGAAATACCCCTATGGGGT
1 AAAATGACTGAAATACCCCCATAGGAT
** * *
4113067 AAAATGACAAAAATACCCTCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGAT
4113094 AAAATGA-TCGAAATA-CCCCAGTAGGAT
1 AAAATGACT-GAAATACCCCCA-TAGGAT
* * **
4113121 AAAATGATTGTAATACCCCTGTAAGG-T
1 AAAATGACTGAAATACCCCCAT-AGGAT
4113148 AAAATGACT
1 AAAATGACT
4113157 ATTTTGCCTT
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.04
27 84 0.88
28 7 0.07
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCATAGGAT
Found at i:4113072 original size:54 final size:54
Alignment explanation
Indices: 4113013--4113139 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
4113003 TATTTACTTG
* *
4113013 AAAATGACTGAAATACCCCCATAGGATAAAATGACCGAAATACCCCTA-TGGGGT
1 AAAATGACTGAAATACCCCCATAGGATAAAATGACCGAAATACCCC-AGTAGGAT
** * * *
4113067 AAAATGACAAAAATACCCTCATAGGGTAAAATGATCGAAATACCCCAGTAGGAT
1 AAAATGACTGAAATACCCCCATAGGATAAAATGACCGAAATACCCCAGTAGGAT
* *
4113121 AAAATGATTGTAATACCCC
1 AAAATGACTGAAATACCCC
4113140 TGTAAGGTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (54 bp):
AAAATGACTGAAATACCCCCATAGGATAAAATGACCGAAATACCCCAGTAGGAT
Found at i:4113175 original size:27 final size:26
Alignment explanation
Indices: 4113145--4113272 Score: 123
Period size: 27 Copynumber: 4.8 Consensus size: 26
4113135 ACCCCTGTAA
4113145 GGTAAAATGACTATTTTGCCTTCATGT
1 GGTAAAATGACTATTTTGCCTT-ATGT
** *
4113172 GGTAAAATGACGGTTTTGCCCTCATGT
1 GGTAAAATGACTATTTTG-CCTTATGT
*
4113199 GGCAAAATGA-TAGTTTTGCCCTTATGT
1 GGTAAAATGACTA-TTTTG-CCTTATGT
** *
4113226 GGTAAAATGACTAATTTACCCTTAGGT
1 GGTAAAATGACT-ATTTTGCCTTATGT
* *
4113253 GGTAAGATGACTGTTTTGCC
1 GGTAAAATGACTATTTTGCC
4113273 CCAACGTGAT
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
26 5 0.06
27 69 0.84
28 7 0.09
29 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (26 bp):
GGTAAAATGACTATTTTGCCTTATGT
Found at i:4113269 original size:54 final size:55
Alignment explanation
Indices: 4113145--4113273 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 55
4113135 ACCCCTGTAA
* ** * *
4113145 GGTAAAATGACTATTTTG-CCTTCATGTGGTAAAATGACGGTTTTGCCCTCATGT
1 GGTAAAATGACTGTTTTGCCCTTCATGTGGTAAAATGACGAATTTACCCTCAGGT
* * *
4113199 GGCAAAATGA-TAGTTTTGCCCTT-ATGTGGTAAAATGACTAATTTACCCTTAGGT
1 GGTAAAATGACT-GTTTTGCCCTTCATGTGGTAAAATGACGAATTTACCCTCAGGT
*
4113253 GGTAAGATGACTGTTTTGCCC
1 GGTAAAATGACTGTTTTGCCC
4113274 CAACGTGATG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.02
54 56 0.90
55 5 0.08
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (55 bp):
GGTAAAATGACTGTTTTGCCCTTCATGTGGTAAAATGACGAATTTACCCTCAGGT
Found at i:4115592 original size:43 final size:43
Alignment explanation
Indices: 4115531--4115614 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
4115521 AGGTGCCATT
4115531 CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAATC
1 CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAATC
4115574 CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAA
1 CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAA
4115615 CTCAATACCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (43 bp):
CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAATC
Found at i:4119610 original size:41 final size:43
Alignment explanation
Indices: 4119543--4119652 Score: 143
Period size: 41 Copynumber: 2.6 Consensus size: 43
4119533 TCTTACGTGC
* * *
4119543 AATCACATATTGATGCCACTGTCCCAGACAGGGTCTTAAACG-
1 AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTAAACGT
* * *
4119585 AATCAAATA-CGATGCCAATGTCCCAGGCATGGTCTTACACGT
1 AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTAAACGT
*
4119627 AATCACATATCGATGCCAATGTCCCA
1 AATCAAATATCGATGCCAATGTCCCA
4119653 AACGTAGTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 27 0.46
42 16 0.27
43 16 0.27
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTAAACGT
Found at i:4119663 original size:43 final size:42
Alignment explanation
Indices: 4119512--4119665 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 42
4119502 ATATCGTACA
** ** *
4119512 ATGCCAACATCCCAGACGTGGTCTTACGTGCAATCACATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* * *
4119555 ATGCCACTGTCCCAGACAG-GGTCTTAAACGAATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAATCACATATCG
* *
4119596 ATGCCAATGTCCCAGGCATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* *
4119639 ATGCCAATGTCCCAAACGTAGTCTTAC
1 ATGCCAATGTCCCAGACGTGGTCTTAC
4119666 TTGAACACAC
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 26 0.29
42 16 0.18
43 47 0.52
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:4124461 original size:24 final size:24
Alignment explanation
Indices: 4124397--4124462 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
4124387 TATCCATTAA
*
4124397 ATAATAATAA-TAATTATAAAACC
1 ATAATAATAATTAAATATAAAACC
**
4124420 ATAATAATAATTTTATATAAAACC
1 ATAATAATAATTAAATATAAAACC
**
4124444 ATGGTAATAATTAAATATA
1 ATAATAATAATTAAATATA
4124463 TATAATACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
23 10 0.29
24 25 0.71
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (24 bp):
ATAATAATAATTAAATATAAAACC
Found at i:4130771 original size:53 final size:52
Alignment explanation
Indices: 4130631--4130830 Score: 192
Period size: 53 Copynumber: 3.8 Consensus size: 52
4130621 ATTAGGGTTT
* *
4130631 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-G-TTCTAAGGC
* * *
4130686 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-TAAGGC
* * * *
4130739 AAGGATACCATGTAAGACCGTGTCAAGACATGGCAATGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCT-AAGGC
* * * * * *
4130788 AAAGATACCACGTAAGACCATGACAAGTCATAGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAG
4130831 GTACTCGCGT
Statistics
Matches: 125, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
49 37 0.30
51 1 0.01
52 5 0.04
53 44 0.35
54 7 0.06
55 31 0.25
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTAAGGC
Found at i:4136546 original size:86 final size:86
Alignment explanation
Indices: 4136400--4136593 Score: 223
Period size: 86 Copynumber: 2.3 Consensus size: 86
4136390 GGTTACCGAG
* * *
4136400 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGTATTGTGATTACATATAAGACCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATCGTAATGCGATTACATATAAGACCAT
*
4136465 GTCTGGGACA-TTGGCATTG-T
66 GTCTAGGACAGTT-GCATTGAT
* *** *
4136485 ATTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-CGATTTTGTGTAAGACC
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGAATCG-TAATGCGATTACATATAAGACC
*
4136549 CTGTCTAGGACAGTTGCATTGAT
64 ATGTCTAGGACAGTTGCATTGAT
* * *
4136572 AGGTGATAACATGTATGACCAT
1 ATGTGATTACATGTAAGACCAT
4136594 ATCTAGGATA
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
85 1 0.01
86 84 0.91
87 7 0.08
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (86 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATCGTAATGCGATTACATATAAGACCAT
GTCTAGGACAGTTGCATTGAT
Found at i:4136548 original size:43 final size:43
Alignment explanation
Indices: 4136401--4136524 Score: 230
Period size: 43 Copynumber: 2.9 Consensus size: 43
4136391 GTTACCGAGA
*
4136401 TGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
4136444 TGTGATTACATATAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
4136487 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
4136525 CGTTAATCGA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:4136554 original size:43 final size:43
Alignment explanation
Indices: 4136404--4136560 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
4136394 ACCGAGATGT
* * * *
4136404 GATTACATGTAAGACCATGTCTGGGACATTGGAATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
* * * *
4136447 GATTACATATAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
4136490 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
*** * *
4136533 GATTTTGTGTAAGACCCTGTCTAGGACA
1 GATTACATGTAAGACCATGTCTGGGACA
4136561 GTTGCATTGA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
43 99 0.97
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:4137250 original size:22 final size:22
Alignment explanation
Indices: 4137225--4137266 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4137215 TTTTTGGATA
*
4137225 CTTGTAAGTTGG-AGTATTATTG
1 CTTGAAAGTTGGCA-TATTATTG
4137247 CTTGAAAGTTGGCATATTAT
1 CTTGAAAGTTGGCATATTAT
4137267 GGTTTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (22 bp):
CTTGAAAGTTGGCATATTATTG
Found at i:4137273 original size:22 final size:22
Alignment explanation
Indices: 4137225--4137273 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4137215 TTTTTGGATA
* *
4137225 CTTGTAAGTTGGAGTATTATTG
1 CTTGAAAGTTGGAGTATTATGG
4137247 CTTGAAAGTTGGCA-TATTATGG
1 CTTGAAAGTTGG-AGTATTATGG
*
4137269 TTTGA
1 CTTGA
4137274 TTTTGAGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (22 bp):
CTTGAAAGTTGGAGTATTATGG
Found at i:4137634 original size:28 final size:28
Alignment explanation
Indices: 4137569--4137635 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
4137559 TACACGGGCA
* * *
4137569 GAGAAACGGGCGTGTGTCTTAGCCGTAT
1 GAGACACGGTCGTGTGTCTCAGCCGTAT
4137597 GAGACACGGTCGTGTGTCTCAGCCGTAT
1 GAGACACGGTCGTGTGTCTCAGCCGTAT
4137625 GAGACACGGTC
1 GAGACACGGTC
4137636 ATGTTACACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.22
Consensus pattern (28 bp):
GAGACACGGTCGTGTGTCTCAGCCGTAT
Found at i:4137647 original size:28 final size:28
Alignment explanation
Indices: 4137589--4137650 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
4137579 CGTGTGTCTT
* *
4137589 AGCCGTATGAGACACGGTCGTGTGTCTC
1 AGCCGTATGAGACACGGTCATGTGTCAC
4137617 AGCCGTATGAGACACGGTCATGT-TACAC
1 AGCCGTATGAGACACGGTCATGTGT-CAC
4137645 AGCCGT
1 AGCCGT
4137651 GTGTCTCCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (28 bp):
AGCCGTATGAGACACGGTCATGTGTCAC
Done.