Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 191 of 328
Found at i:56850497 original size:23 final size:23
Alignment explanation
Indices: 56850471--56850534 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
56850461 CGATTTTGTC
56850471 TGCTTTTATGGCATGGTTATGTT
1 TGCTTTTATGGCATGGTTATGTT
*
56850494 TGCTTTTATGGAATGGTTATGTT
1 TGCTTTTATGGCATGGTTATGTT
* *
56850517 TGCTTCTATAGCATGGTT
1 TGCTTTTATGGCATGGTT
56850535 GTTTAAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.16, C:0.09, G:0.25, T:0.50
Consensus pattern (23 bp):
TGCTTTTATGGCATGGTTATGTT
Found at i:56852573 original size:34 final size:36
Alignment explanation
Indices: 56852530--56852605 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 36
56852520 TTATGTTTCT
*
56852530 TATTTAATTTTTACATTTTTAAAG-GTA-ATTTTGA
1 TATTTAATTTTAACATTTTTAAAGAGTATATTTTGA
* *
56852564 TATTTAATTTTAATATTTTTAAAGATTATATTTTGA
1 TATTTAATTTTAACATTTTTAAAGAGTATATTTTGA
56852600 -ATTTAA
1 TATTTAA
56852606 AATAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 22 0.59
35 8 0.22
36 7 0.19
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.57
Consensus pattern (36 bp):
TATTTAATTTTAACATTTTTAAAGAGTATATTTTGA
Found at i:56853710 original size:31 final size:30
Alignment explanation
Indices: 56853640--56853711 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 30
56853630 TGTAAATATG
*
56853640 AACTTTAATTTGGTGCAATTATACACGTGA
1 AACTTTAATTTGGTGCAAATATACACGTGA
* * * * * *
56853670 AAGTCTAATTGTGGTTCAAATGTATACTTGA
1 AACTTTAATT-TGGTGCAAATATACACGTGA
56853701 AACTTTAATTT
1 AACTTTAATTT
56853712 TGATTTAATC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAAATATACACGTGA
Found at i:56853871 original size:29 final size:29
Alignment explanation
Indices: 56853839--56853894 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
56853829 GAATTGGATC
56853839 AAATC-AAATATCATATATAAAATTACATA
1 AAATCAAAAT-TCATATATAAAATTACATA
56853868 AAATCAAAATTCATATATAAAATTACA
1 AAATCAAAATTCATATATAAAATTACA
56853895 CATTAGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (29 bp):
AAATCAAAATTCATATATAAAATTACATA
Found at i:56858002 original size:2 final size:2
Alignment explanation
Indices: 56857995--56858027 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
56857985 AAATAATGAG
56857995 AT AT AT AT 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 AT AT AT AT A
56858028 ATGAAGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56865543 original size:15 final size:15
Alignment explanation
Indices: 56865520--56865550 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56865510 TATCAACGTT
*
56865520 AGAGTTGAACTCATG
1 AGAGGTGAACTCATG
56865535 AGAGGTGAACTCATG
1 AGAGGTGAACTCATG
56865550 A
1 A
56865551 CCTTCAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (15 bp):
AGAGGTGAACTCATG
Found at i:56866774 original size:8 final size:8
Alignment explanation
Indices: 56866761--56866786 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
56866751 TTTTATCAAC
56866761 TTTTATTA
1 TTTTATTA
56866769 TTTTATTA
1 TTTTATTA
56866777 TTTTATTA
1 TTTTATTA
56866785 TT
1 TT
56866787 CTAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:56873188 original size:10 final size:9
Alignment explanation
Indices: 56873162--56873192 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
56873152 TTATGTGTTC
56873162 TTTATTTTA
1 TTTATTTTA
56873171 TTTATTTTA
1 TTTATTTTA
56873180 TTCTATTTTA
1 TT-TATTTTA
56873190 TTT
1 TTT
56873193 TTCACAGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:56874127 original size:22 final size:22
Alignment explanation
Indices: 56874101--56874147 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
56874091 TTATAGACAT
56874101 TCTCTTGCAAAATT-TTTTTCTA
1 TCTCTTGC-AAATTCTTTTTCTA
56874123 TCTCTTGCAAATTCTTTTTCTA
1 TCTCTTGCAAATTCTTTTTCTA
56874145 TCT
1 TCT
56874148 TAACCTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.19, C:0.21, G:0.04, T:0.55
Consensus pattern (22 bp):
TCTCTTGCAAATTCTTTTTCTA
Found at i:56876106 original size:13 final size:13
Alignment explanation
Indices: 56876088--56876113 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56876078 CTTTGCAAAG
56876088 AAAGCATCTCATC
1 AAAGCATCTCATC
56876101 AAAGCATCTCATC
1 AAAGCATCTCATC
56876114 TTGCTCCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAGCATCTCATC
Found at i:56882827 original size:16 final size:16
Alignment explanation
Indices: 56882806--56882839 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
56882796 TTATTAAAAG
56882806 AAAGTTCAATTTCATT
1 AAAGTTCAATTTCATT
56882822 AAAGTTCAATTTCATT
1 AAAGTTCAATTTCATT
56882838 AA
1 AA
56882840 CTACCCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAGTTCAATTTCATT
Found at i:56886008 original size:40 final size:40
Alignment explanation
Indices: 56885963--56886129 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56885953 CGGAATATAA
56885963 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56886003 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56886043 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56886083 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56886122 CCGGATAT
1 CCGGATAT
56886130 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56886113 original size:80 final size:79
Alignment explanation
Indices: 56885963--56886129 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
56885953 CGGAATATAA
* *
56885963 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
56886028 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
56886043 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
56886105 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
56886122 CCGGATAT
1 CCGGATAT
56886130 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:56886977 original size:17 final size:19
Alignment explanation
Indices: 56886954--56886999 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
56886944 AAGAAGCATG
56886954 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
56886972 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
56886990 AATCATGCTC
1 AATCATGCTC
56887000 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:56894016 original size:40 final size:40
Alignment explanation
Indices: 56893971--56894137 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56893961 CGGAATATAA
56893971 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56894011 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56894051 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56894091 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56894130 CCGGATAT
1 CCGGATAT
56894138 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56894121 original size:80 final size:79
Alignment explanation
Indices: 56893971--56894137 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
56893961 CGGAATATAA
* *
56893971 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
56894036 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
56894051 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
56894113 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
56894130 CCGGATAT
1 CCGGATAT
56894138 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:56894983 original size:17 final size:19
Alignment explanation
Indices: 56894960--56895005 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
56894950 AAGAAGCATG
56894960 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
56894978 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
56894996 AATCATGCTC
1 AATCATGCTC
56895006 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:56895961 original size:15 final size:15
Alignment explanation
Indices: 56895941--56895972 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
56895931 CAACACTCCA
56895941 CTGGGAATCAAATTT
1 CTGGGAATCAAATTT
56895956 CTGGGAATCAAATTT
1 CTGGGAATCAAATTT
56895971 CT
1 CT
56895973 AAAAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (15 bp):
CTGGGAATCAAATTT
Found at i:56903043 original size:40 final size:40
Alignment explanation
Indices: 56902995--56903182 Score: 297
Period size: 40 Copynumber: 4.7 Consensus size: 40
56902985 GCTTCTCGTT
56902995 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
56903035 CAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
56903075 CAATTGCCTTCGAGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
56903115 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
56903155 CAAATGCCTTCGGG-CTTAGGCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
56903183 CAATCCGAAT
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.09
40 124 0.91
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:56907321 original size:49 final size:49
Alignment explanation
Indices: 56907255--56907512 Score: 383
Period size: 49 Copynumber: 5.5 Consensus size: 49
56907245 TATATATATG
* * * * *
56907255 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
56907304 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
56907353 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG--TA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
56907400 --T-AT---G--TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
56907441 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
56907490 TGTGATGAGGCCTAATGGCCGAT
1 TGTGATGAGGCCTAATGGCCGAT
56907513 ATGTATATGT
Statistics
Matches: 192, Mismatches: 7, Indels: 20
0.88 0.03 0.09
Matches are distributed among these distances:
39 33 0.17
41 3 0.02
43 1 0.01
44 4 0.02
45 1 0.01
47 3 0.02
49 147 0.77
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:56907409 original size:39 final size:39
Alignment explanation
Indices: 56907365--56907443 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
56907355 TGATAAGGCC
56907365 TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATG
56907404 TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATG
56907443 T
1 T
56907444 GATGAGGCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.34
Consensus pattern (39 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATG
Found at i:56907516 original size:30 final size:30
Alignment explanation
Indices: 56907482--56907542 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
56907472 TGTGAAAGTG
56907482 TATGTATATGTGATGAGGCCTAATGGCCGA
1 TATGTATATGTGATGAGGCCTAATGGCCGA
56907512 TATGTATATGTGATGAGGCCTAATGGCCGA
1 TATGTATATGTGATGAGGCCTAATGGCCGA
56907542 T
1 T
56907543 GTGGTGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (30 bp):
TATGTATATGTGATGAGGCCTAATGGCCGA
Found at i:56907519 original size:79 final size:79
Alignment explanation
Indices: 56907433--56907591 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
56907423 TGTGAAAGTG
56907433 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGA
1 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGA
56907498 GGCCTAATGGCCGA
66 GGCCTAATGGCCGA
56907512 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGA
1 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGA
56907577 GGCCTAATGGCCGA
66 GGCCTAATGGCCGA
56907591 T
1 T
56907592 GTGGTGAATG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.26, C:0.10, G:0.33, T:0.31
Consensus pattern (79 bp):
TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGA
GGCCTAATGGCCGA
Found at i:56907537 original size:128 final size:128
Alignment explanation
Indices: 56907246--56907640 Score: 558
Period size: 128 Copynumber: 3.0 Consensus size: 128
56907236 TATGTATGAT
* * * * * * *
56907246 ATATATATGTGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGGATGTATATGTGATG
1 ATATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATG
*
56907311 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
66 AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
* ***
56907374 ATGTG-ATGAATGTGAAAGTGTATGTATATGTAATGGCCGATGTGATGAATGTGAAAGTGTATGT
1 ATATGTAT--ATGTG--A-TG-A-G---GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGT
*
56907438 ATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
56 ATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCT
56907503 AATGGCCG
121 AATGGCCG
*
56907511 ATATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATG
1 ATATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATG
*
56907576 AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGACG
66 AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
56907639 AT
1 AT
56907641 GTGGTGAATG
Statistics
Matches: 236, Mismatches: 20, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
127 2 0.01
128 109 0.46
129 4 0.02
131 2 0.01
132 2 0.01
133 3 0.01
134 2 0.01
136 5 0.02
137 105 0.44
138 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (128 bp):
ATATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATG
AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
Found at i:56907566 original size:49 final size:49
Alignment explanation
Indices: 56907512--56907734 Score: 410
Period size: 49 Copynumber: 4.6 Consensus size: 49
56907502 TAATGGCCGA
*
56907512 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
*
56907561 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
*
56907610 TATGTATATGTGATAAGGCCTAATGGACGATGTGGTGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
56907659 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
*
56907708 TGTGTATATGTGATAAGGCCTAATGGC
1 TATGTATATGTGATAAGGCCTAATGGC
56907735 TAATGTAAAA
Statistics
Matches: 170, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 170 1.00
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.31
Consensus pattern (49 bp):
TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
Found at i:56907633 original size:177 final size:167
Alignment explanation
Indices: 56907345--56907689 Score: 546
Period size: 177 Copynumber: 2.0 Consensus size: 167
56907335 TGTGAAAGTG
56907345 TATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTAATGG
1 TATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTAATGG
* *
56907410 CCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGT
66 CCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGACGATGTGGTGAATGT
*
56907475 GAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGA
131 GAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGA
* *
56907512 TATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGA
1 TATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG--TA--T-AT--
*
56907577 GGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGACGATG
59 -G--TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGACGATG
56907642 TGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGA
121 TGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGA
56907689 T
1 T
56907690 GTGGTGAATG
Statistics
Matches: 162, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
167 51 0.31
169 2 0.01
171 1 0.01
172 2 0.01
175 1 0.01
177 105 0.65
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.31
Consensus pattern (167 bp):
TATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTAATGG
CCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGACGATGTGGTGAATGT
GAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGA
Found at i:56907886 original size:37 final size:37
Alignment explanation
Indices: 56907836--56907957 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
56907826 GGAATATGTT
*
56907836 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56907873 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56907910 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56907947 CCGGGTAAGAC
1 CCGGGTAAGAC
56907958 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56918898 original size:25 final size:25
Alignment explanation
Indices: 56918870--56918917 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56918860 TGTTTTAACC
56918870 AAAAATACTATGGATAGTATATTCT
1 AAAAATACTATGGATAGTATATTCT
* * *
56918895 AAAACTACTGTGGGTAGTATATT
1 AAAAATACTATGGATAGTATATT
56918918 GATAAAACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (25 bp):
AAAAATACTATGGATAGTATATTCT
Found at i:56922249 original size:40 final size:40
Alignment explanation
Indices: 56922190--56922331 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
56922180 AAATTGAATG
* * *
56922190 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
56922230 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
56922270 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
56922310 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56922332 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56922332 original size:40 final size:39
Alignment explanation
Indices: 56922229--56922357 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
56922219 TGCTGGAAAT
* * *
56922229 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
56922269 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
56922309 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
56922349 TATATCCGG
1 TATATCCGG
56922358 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:56928278 original size:16 final size:14
Alignment explanation
Indices: 56928257--56928290 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
56928247 TAGAAATGAT
56928257 AAAATAGTATAAAAAA
1 AAAATAG-A-AAAAAA
56928273 AAAATAGAAAAAAA
1 AAAATAGAAAAAAA
56928287 AAAA
1 AAAA
56928291 AAAAAGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 1 0.06
16 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAATAGAAAAAAA
Found at i:56928291 original size:16 final size:16
Alignment explanation
Indices: 56928257--56928292 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56928247 TAGAAATGAT
* *
56928257 AAAATAGTATAAAAAA
1 AAAATAGAAAAAAAAA
56928273 AAAATAGAAAAAAAAA
1 AAAATAGAAAAAAAAA
56928289 AAAA
1 AAAA
56928293 AAAGTGTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAATAGAAAAAAAAA
Found at i:56929642 original size:40 final size:40
Alignment explanation
Indices: 56929583--56929724 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
56929573 AAATTGAATG
* * *
56929583 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
56929623 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
56929663 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
56929703 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56929725 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56929725 original size:40 final size:39
Alignment explanation
Indices: 56929622--56929750 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
56929612 TGCTGGAAAT
* * *
56929622 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
56929662 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
56929702 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
56929742 TATATCCGG
1 TATATCCGG
56929751 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:56937307 original size:21 final size:22
Alignment explanation
Indices: 56937263--56937308 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
56937253 ATAATAATTC
* *
56937263 ATAATTTACTATAATAACCTTT
1 ATAAATTAATATAATAACCTTT
*
56937285 ATAAATTAATATAA-AATCTTT
1 ATAAATTAATATAATAACCTTT
56937306 ATA
1 ATA
56937309 TTGGTTGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAATTAATATAATAACCTTT
Found at i:56940127 original size:29 final size:29
Alignment explanation
Indices: 56940099--56940200 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
56940089 CCTCCGAGCT
** * * *
56940099 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56940128 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56940157 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56940186 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
56940201 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56947987 original size:29 final size:29
Alignment explanation
Indices: 56947959--56948060 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
56947949 CCTCCGAGCT
** * * *
56947959 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56947988 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56948017 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56948046 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
56948061 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56956042 original size:21 final size:22
Alignment explanation
Indices: 56955998--56956043 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
56955988 ATAAGATTTC
* *
56955998 ATAATTTACTATAATAACCTTT
1 ATAAATTAATATAATAACCTTT
*
56956020 ATAAATTAATATAA-AATCTTT
1 ATAAATTAATATAATAACCTTT
56956041 ATA
1 ATA
56956044 TTGGTTGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAATTAATATAATAACCTTT
Found at i:56960087 original size:39 final size:40
Alignment explanation
Indices: 56960029--56960129 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
56960019 AAATTGAATG
* *
56960029 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
56960068 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
56960108 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56960130 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56960122 original size:40 final size:40
Alignment explanation
Indices: 56960029--56960211 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
56960019 AAATTGAATG
* * * * *
56960029 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
56960068 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
56960108 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
56960148 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
56960188 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
56960212 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:56968179 original size:39 final size:40
Alignment explanation
Indices: 56968121--56968221 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
56968111 AAATTGAATG
* *
56968121 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
56968160 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
56968200 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56968222 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56968214 original size:40 final size:40
Alignment explanation
Indices: 56968121--56968303 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
56968111 AAATTGAATG
* * * * *
56968121 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
56968160 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
56968200 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
56968240 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
56968280 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
56968304 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:56973631 original size:20 final size:20
Alignment explanation
Indices: 56973606--56973650 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56973596 AGGGACTAAA
* *
56973606 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
56973626 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
56973646 ATGAA
1 ATGAA
56973651 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:56979386 original size:31 final size:30
Alignment explanation
Indices: 56979325--56979405 Score: 110
Period size: 31 Copynumber: 2.7 Consensus size: 30
56979315 AAGTTACAGG
* * *
56979325 TTTAGTCCATGTAC-TTTTATTTGATCAAT
1 TTTAGTCCTTGTACTTTTTAATTGATAAAT
56979354 TTTAGTCCTTGTACTTTTTGAATTGATAAAT
1 TTTAGTCCTTGTACTTTTT-AATTGATAAAT
*
56979385 TTTAGTCCTTTTACTTTTTAA
1 TTTAGTCCTTGTACTTTTTAA
56979406 AAATTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 13 0.28
30 6 0.13
31 27 0.59
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.54
Consensus pattern (30 bp):
TTTAGTCCTTGTACTTTTTAATTGATAAAT
Found at i:56979416 original size:31 final size:31
Alignment explanation
Indices: 56979325--56979422 Score: 105
Period size: 31 Copynumber: 3.2 Consensus size: 31
56979315 AAGTTACAGG
* * *
56979325 TTTAGTCCATGTAC-TTTT-ATTTGATCAAT
1 TTTAGTCCTTGTACTTTTTAAATTGATAAAT
*
56979354 TTTAGTCCTTGTACTTTTTGAATTGATAAAT
1 TTTAGTCCTTGTACTTTTTAAATTGATAAAT
*
56979385 TTTAGTCCTTTTACTTTTTAAAAATT-A-AAAT
1 TTTAGTCCTTGTACTTTTT--AAATTGATAAAT
56979416 TTTAGTC
1 TTTAGTC
56979423 TTTACCCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
29 13 0.22
30 4 0.07
31 38 0.63
32 1 0.02
33 4 0.07
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (31 bp):
TTTAGTCCTTGTACTTTTTAAATTGATAAAT
Found at i:56981918 original size:48 final size:47
Alignment explanation
Indices: 56981852--56981966 Score: 135
Period size: 47 Copynumber: 2.4 Consensus size: 47
56981842 AAGCTGACTC
* *
56981852 CATGTCCCAAATAGGTCTTACACTAGCT-T-GTATATCACGAGGGCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCGT-TATCA--AGGGCGATG
* * *
56981900 CATGTCCCAAACATGTCTTACACTAGCTCTCGTTCTCAATGTCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCGTTATCAAGGGCGATG
*
56981947 CATGTCCCAGACATGTCTTA
1 CATGTCCCAAACATGTCTTA
56981967 TAGTGACTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 26 0.44
48 26 0.44
49 5 0.08
50 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (47 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCGTTATCAAGGGCGATG
Found at i:56981961 original size:47 final size:45
Alignment explanation
Indices: 56981893--56982019 Score: 139
Period size: 47 Copynumber: 2.8 Consensus size: 45
56981883 ATATCACGAG
* * *
56981893 GGCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTTCTCAAT
1 GGCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCT--AT
* * * *
56981940 GTCGATGCATGTCCCAGACATGTCTTATAGT-GACTCTCATGCTGT
1 GGCGATGCATGTCCCAGACATGTCTTACACTAG-CTCTCATGCTAT
*
56981985 GGCTGATGCATGTTCCAGACATGTCTTACACTAGC
1 GGC-GATGCATGTCCCAGACATGTCTTACACTAGC
56982020 ACACATATCA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
45 3 0.05
46 27 0.41
47 36 0.55
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (45 bp):
GGCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTAT
Found at i:56984148 original size:43 final size:43
Alignment explanation
Indices: 56984087--56984196 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 43
56984077 TGGGAAGACT
** * *
56984087 CCGCTATAGAACATGACCTTTAGTGGTACTTTTCCTAAAAACG
1 CCGCTATAGAACATGACCTTTAGTGACACTTTTCCCAAAAACA
* * *
56984130 CCGCTATAGAACATGACCTTTAGCGACGCTTTTCCCACAAACA
1 CCGCTATAGAACATGACCTTTAGTGACACTTTTCCCAAAAACA
* *
56984173 CCGCTAAAGAACATGATCTTTAGT
1 CCGCTATAGAACATGACCTTTAGT
56984197 TGGCATTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
CCGCTATAGAACATGACCTTTAGTGACACTTTTCCCAAAAACA
Found at i:56984269 original size:43 final size:43
Alignment explanation
Indices: 56984221--56984384 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 43
56984211 CAAGCGCCAC
* *
56984221 AAAGGTCATGTTATATAGCAGCATTTGTGGGAAAAGCTTCGCT
1 AAAGGTCATGTTATATAGCAGCGTTTGTGGGAAAAGCGTCGCT
* *** * *
56984264 AAAGGTCATGTTATTTAATGGCGTTTGTGGGGAAAGGGTCGCT
1 AAAGGTCATGTTATATAGCAGCGTTTGTGGGAAAAGCGTCGCT
* * * * * * * *
56984307 AAAGATCATGTTCTTTAGCAGCGTTTTTAGTAAAAGCGCCGTT
1 AAAGGTCATGTTATATAGCAGCGTTTGTGGGAAAAGCGTCGCT
* * * *
56984350 AAAGGTCATGTTTTATAGTAGCGTTTTTAGGAAAA
1 AAAGGTCATGTTATATAGCAGCGTTTGTGGGAAAA
56984385 CGCCACTAAC
Statistics
Matches: 96, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 96 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (43 bp):
AAAGGTCATGTTATATAGCAGCGTTTGTGGGAAAAGCGTCGCT
Found at i:56989742 original size:51 final size:51
Alignment explanation
Indices: 56989684--56989933 Score: 403
Period size: 51 Copynumber: 4.9 Consensus size: 51
56989674 CGGATACACG
* *
56989684 GTGGCCTTCACTTAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
56989735 GTGGCCTTCACATAGTACCCCACTTGTGTCCAAAGCTATTTTATTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
56989786 GTGGCTTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTAACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
56989837 GTGGCCTTCACATAGTACCAAACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
56989888 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
56989934 CTAAGGTTCA
Statistics
Matches: 184, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 183 0.99
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:56992870 original size:35 final size:35
Alignment explanation
Indices: 56992831--56992903 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
56992821 TTTTATATTA
* *
56992831 TTTAAATGTTTATATTAGTTATGACAATCATTTAC
1 TTTAAATGTTTATATAAGTTATGACAATCATTAAC
* *
56992866 TTTAAATGTTTATGTAAGTTATGATAATCATTAAC
1 TTTAAATGTTTATATAAGTTATGACAATCATTAAC
56992901 TTT
1 TTT
56992904 TATTCTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (35 bp):
TTTAAATGTTTATATAAGTTATGACAATCATTAAC
Found at i:56993688 original size:57 final size:56
Alignment explanation
Indices: 56993609--56993726 Score: 127
Period size: 57 Copynumber: 2.1 Consensus size: 56
56993599 ATTTTTCATT
* *
56993609 ATATGATTATATAATTATTTAATT-AAA-TAATT-TTATATATCATAAAATTATTATGAA
1 ATATGATTATATAATTAATTAATTGAAATTAATTAAT-TAT-TCATAAAATTATT-T-AA
*
56993666 ATATGATTACT-TATTTAATTAATTGGAAATTAATTAATTATTCATAAAATTATTTAA
1 ATATGATTA-TATAATTAATTAATT-GAAATTAATTAATTATTCATAAAATTATTTAA
56993723 ATAT
1 ATAT
56993727 AAAATGCTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
57 26 0.49
58 2 0.04
59 16 0.30
60 8 0.15
61 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (56 bp):
ATATGATTATATAATTAATTAATTGAAATTAATTAATTATTCATAAAATTATTTAA
Found at i:56994742 original size:12 final size:12
Alignment explanation
Indices: 56994725--56994750 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56994715 CTTTCTGCCT
56994725 TAACAAACAAAA
1 TAACAAACAAAA
56994737 TAACAAACAAAA
1 TAACAAACAAAA
56994749 TA
1 TA
56994751 TTTTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (12 bp):
TAACAAACAAAA
Found at i:56996431 original size:17 final size:19
Alignment explanation
Indices: 56996397--56996435 Score: 69
Period size: 19 Copynumber: 2.0 Consensus size: 19
56996387 TTATTGTTTA
56996397 CTTGTTTTTCCTTCTTCTT
1 CTTGTTTTTCCTTCTTCTT
56996416 CTTGTTTTTCTCTTCTTCTT
1 CTTGTTTTTC-CTTCTTCTT
56996436 TTTTTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.00, C:0.26, G:0.05, T:0.69
Consensus pattern (19 bp):
CTTGTTTTTCCTTCTTCTT
Found at i:56996441 original size:17 final size:17
Alignment explanation
Indices: 56996397--56996440 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
56996387 TTATTGTTTA
56996397 CTTGTTTTTCCTTCTTCTT
1 CTTGTTTTT-C-TCTTCTT
56996416 CTTGTTTTTCTCTTCTT
1 CTTGTTTTTCTCTTCTT
56996433 CTT-TTTTT
1 CTTGTTTTT
56996441 TGTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 1 0.04
19 9 0.36
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.73
Consensus pattern (17 bp):
CTTGTTTTTCTCTTCTT
Found at i:56999222 original size:33 final size:33
Alignment explanation
Indices: 56999180--56999253 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
56999170 TTGTTTCCTT
* *
56999180 TTGGAAATCAAG-AGTTTGTCATTTTATTTACTG
1 TTGGAAATC-AGCAGTTTGTCATTATATCTACTG
*
56999213 TTGGAAATCAGCAGTTTGTCGTTATATCTACTG
1 TTGGAAATCAGCAGTTTGTCATTATATCTACTG
56999246 TTGGAAAT
1 TTGGAAAT
56999254 TAAGCACATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (33 bp):
TTGGAAATCAGCAGTTTGTCATTATATCTACTG
Found at i:57001551 original size:19 final size:18
Alignment explanation
Indices: 57001504--57001551 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
57001494 TTCTTCCTAT
57001504 TTAAACTCTAAAAGATAAA
1 TTAAA-TCTAAAAGATAAA
* *
57001523 -TAAATATAAAAGCTGAAA
1 TTAAATCTAAAAGAT-AAA
57001541 TTAAATCTAAA
1 TTAAATCTAAA
57001552 TAATAATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (18 bp):
TTAAATCTAAAAGATAAA
Found at i:57002515 original size:74 final size:76
Alignment explanation
Indices: 57002378--57002554 Score: 218
Period size: 74 Copynumber: 2.4 Consensus size: 76
57002368 ATATATCAGG
* * * * ** *
57002378 GAGGGGGAACTGATTTGGGG-AAAAATTCGAGAGAAAAGGAAAGGGATTTTGAAAAAAATTTAGG
1 GAGGGGGAATTGATTTGGGGAAAAAATTAGAGAAAAAAGAAAAGGGATTAGGAAAAAAACTTAGG
*
57002442 GATTTCATGGA
66 GATTTCAGGGA
* *
57002453 -A-GGGGAATTGATTTGGGGAAAAAATTAGGGAAAAAAGAAAAGGG-TCTAGGAAAGAAACTTAG
1 GAGGGGGAATTGATTTGGGGAAAAAATTAGAGAAAAAAGAAAAGGGAT-TAGGAAAAAAACTTAG
*
57002515 GGATTTCGGGGA
65 GGATTTCAGGGA
57002527 GAGGGGGAATTGATTTGGGGAAAAAATT
1 GAGGGGGAATTGATTTGGGGAAAAAATT
57002555 TGACGTTCCA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
73 17 0.20
74 44 0.51
75 1 0.01
76 25 0.29
ACGTcount: A:0.40, C:0.03, G:0.35, T:0.21
Consensus pattern (76 bp):
GAGGGGGAATTGATTTGGGGAAAAAATTAGAGAAAAAAGAAAAGGGATTAGGAAAAAAACTTAGG
GATTTCAGGGA
Found at i:57002727 original size:41 final size:42
Alignment explanation
Indices: 57002682--57002773 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
57002672 GCTATAGTTC
*
57002682 TACCTTTTTTCGGC-GTTTAT-TCAAAAACACCGCTAATGCCT
1 TACCTTTTGT-GGCTGTTTATCTCAAAAACACCGCTAATGCCT
* * * *
57002723 TACCTTTTGTGGCTTTTTTTCTCATAAACGCCGCTAATGCCT
1 TACCTTTTGTGGCTGTTTATCTCAAAAACACCGCTAATGCCT
57002765 TACCTTTTG
1 TACCTTTTG
57002774 CGGCATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
40 3 0.07
41 13 0.30
42 28 0.64
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (42 bp):
TACCTTTTGTGGCTGTTTATCTCAAAAACACCGCTAATGCCT
Found at i:57003336 original size:24 final size:25
Alignment explanation
Indices: 57003284--57003336 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
57003274 TCAATTATCT
* * *
57003284 TAATTAGAGTGGCTAAATTGAAAAA
1 TAATTAGAGTGACCAAAATGAAAAA
57003309 TAATTAGAGTGACCAAAAT-AAAAA
1 TAATTAGAGTGACCAAAATGAAAAA
57003333 TAAT
1 TAAT
57003337 ACTATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (25 bp):
TAATTAGAGTGACCAAAATGAAAAA
Found at i:57005870 original size:12 final size:13
Alignment explanation
Indices: 57005853--57005889 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
57005843 ATGGAAAAAA
57005853 TTTATAAAT-ATT
1 TTTATAAATAATT
57005865 TTTATAAATAATT
1 TTTATAAATAATT
*
57005878 TATATAAA-AATT
1 TTTATAAATAATT
57005890 AAATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTATAAATAATT
Found at i:57026180 original size:20 final size:20
Alignment explanation
Indices: 57026155--57026206 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
57026145 TTAATGATCT
57026155 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
57026175 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
57026195 ACACGCCCGTGT
1 ACACGCCCGTGT
57026207 CCCCTACCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.33, G:0.33, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGG
Found at i:57034025 original size:40 final size:40
Alignment explanation
Indices: 57033935--57034087 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
57033925 GGATATAGCG
* * * * ***
57033935 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
57033975 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * **
57034015 ACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
57034055 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
57034088 CATCATTCGA
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 77 0.86
41 10 0.11
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:57042405 original size:19 final size:20
Alignment explanation
Indices: 57042371--57042411 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
57042361 TTAAACCGAT
* *
57042371 AACTTATGAAATTTTTAGAA
1 AACTTATGAAAATTTTACAA
57042391 AACTTA-GAAAATTTTACAA
1 AACTTATGAAAATTTTACAA
57042410 AA
1 AA
57042412 TATAGGGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (20 bp):
AACTTATGAAAATTTTACAA
Found at i:57044410 original size:27 final size:27
Alignment explanation
Indices: 57044353--57044410 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
57044343 TTTTTCATTT
*
57044353 ATTTCACAATTTAACCACAATTTACAC
1 ATTTCACAATTTAACCACAATTGACAC
57044380 ATTTCACAATTTAATCC-CTAATTGACA-
1 ATTTCACAATTTAA-CCAC-AATTGACAC
57044407 ATTT
1 ATTT
57044411 TACTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (27 bp):
ATTTCACAATTTAACCACAATTGACAC
Found at i:57046670 original size:24 final size:24
Alignment explanation
Indices: 57046638--57046683 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57046628 TAATTTAATT
*
57046638 TTAAAAAAATTATAAATATATAAA
1 TTAAAAAAATAATAAATATATAAA
* *
57046662 TTAATAAAATAATAAATTTATA
1 TTAAAAAAATAATAAATATATA
57046684 TTTTTATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TTAAAAAAATAATAAATATATAAA
Found at i:57048424 original size:31 final size:31
Alignment explanation
Indices: 57048386--57048461 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
57048376 TTTTTTGTCC
* **
57048386 AATTTGATACTTAAATTTGACACTTTTTCTT
1 AATTTGATACTTAAACTTGACAAGTTTTCTT
*
57048417 AATTTGATACCTAAACTTGACAAGTTTTCTT
1 AATTTGATACTTAAACTTGACAAGTTTTCTT
* *
57048448 AAGTTAATACTTAA
1 AATTTGATACTTAA
57048462 TCTTTTTTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (31 bp):
AATTTGATACTTAAACTTGACAAGTTTTCTT
Found at i:57048974 original size:28 final size:29
Alignment explanation
Indices: 57048910--57048984 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
57048900 GGAAAAAGCG
* *
57048910 TCAAGTTCAGATACCAAATTGGGCAAAAAAA
1 TCAAGTTTAGATACCAAATT--GAAAAAAAA
57048941 --AAGTTTAGATACCAAATT-AAAAAAAA
1 TCAAGTTTAGATACCAAATTGAAAAAAAA
57048967 TCAAGTTTAGATACCAAA
1 TCAAGTTTAGATACCAAA
57048985 AATTATATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.17
28 16 0.40
29 17 0.43
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.23
Consensus pattern (29 bp):
TCAAGTTTAGATACCAAATTGAAAAAAAA
Found at i:57048986 original size:24 final size:24
Alignment explanation
Indices: 57048934--57048983 Score: 64
Period size: 28 Copynumber: 1.9 Consensus size: 24
57048924 CAAATTGGGC
57048934 AAAAAAAAAGTTTAGATACCAAATTA
1 AAAAAAAAAGTTTAGATACC-AA-TA
57048960 AAAAAAATCAAGTTTAGATACCAA
1 AAAAAAA--AAGTTTAGATACCAA
57048984 AAATTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.32
27 2 0.09
28 13 0.59
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.22
Consensus pattern (24 bp):
AAAAAAAAAGTTTAGATACCAATA
Found at i:57054824 original size:34 final size:34
Alignment explanation
Indices: 57054781--57054848 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
57054771 AAAAGAAAAG
57054781 AAAAAAAATTTGTTCATCCTTTTCATTCTCTCTT
1 AAAAAAAATTTGTTCATCCTTTTCATTCTCTCTT
57054815 AAAAAAAATTTGTTCATCCTTTTCATTCTCTCTT
1 AAAAAAAATTTGTTCATCCTTTTCATTCTCTCTT
57054849 GACCGAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (34 bp):
AAAAAAAATTTGTTCATCCTTTTCATTCTCTCTT
Found at i:57056273 original size:40 final size:40
Alignment explanation
Indices: 57056218--57056425 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
57056208 TGAATGATAC
* *
57056218 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
57056258 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* ** *
57056298 CCAGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
57056338 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
57056378 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
57056418 CC-GGCTAA
1 CCGGGCTAA
57056426 ATTCAGAAGA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 135 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:57064408 original size:40 final size:40
Alignment explanation
Indices: 57064353--57064560 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
57064343 TGAATGATAC
* *
57064353 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
57064393 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** *
57064433 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
57064473 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
57064513 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
57064553 CC-GGCTAA
1 CCGGGCTAA
57064561 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 137 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:57067948 original size:20 final size:20
Alignment explanation
Indices: 57067923--57067961 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57067913 GTGTGTAATA
*
57067923 ATTAAATTAAAAACAAAAAT
1 ATTAAAATAAAAACAAAAAT
*
57067943 ATTAAAATAAAAATAAAAA
1 ATTAAAATAAAAACAAAAA
57067962 ATGGCTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (20 bp):
ATTAAAATAAAAACAAAAAT
Found at i:57071132 original size:5 final size:5
Alignment explanation
Indices: 57071122--57071159 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
57071112 ATTTGTGAAA
*
57071122 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
57071160 CACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:57075579 original size:5 final size:5
Alignment explanation
Indices: 57075569--57075605 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
57075559 ATTTGTGAAA
57075569 AAAAT AAAAT AAAAT AAAAT AAAGA- AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
57075606 CGCACAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:57079802 original size:3 final size:3
Alignment explanation
Indices: 57079796--57079870 Score: 95
Period size: 3 Copynumber: 25.7 Consensus size: 3
57079786 GTTACCATCA
*
57079796 AAG AAG -AG AAG -AG AAG -AG TAG ACAG ATA- AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG A-AG A-AG AAG AAG AAG AAG AAG
57079839 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
57079871 ATGGACTTAC
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
2 7 0.11
3 54 0.83
4 4 0.06
ACGTcount: A:0.64, C:0.01, G:0.32, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:57080362 original size:14 final size:14
Alignment explanation
Indices: 57080345--57080375 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57080335 GTAATTTAGA
57080345 AAATTTAATTAATT
1 AAATTTAATTAATT
*
57080359 AAATTTATTTAATT
1 AAATTTAATTAATT
57080373 AAA
1 AAA
57080376 AAATCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:57083916 original size:2 final size:2
Alignment explanation
Indices: 57083909--57083948 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
57083899 TGGAATTTGG
*
57083909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57083949 TACAGAGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57087184 original size:10 final size:10
Alignment explanation
Indices: 57087169--57087193 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57087159 CCACATTTTT
57087169 CATTTATTCA
1 CATTTATTCA
57087179 CATTTATTCA
1 CATTTATTCA
57087189 CATTT
1 CATTT
57087194 TTACACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (10 bp):
CATTTATTCA
Found at i:57093212 original size:18 final size:18
Alignment explanation
Indices: 57093189--57093225 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
57093179 CAAATCTAAG
57093189 GAGAAACCATTCATAAAT
1 GAGAAACCATTCATAAAT
57093207 GAGAAACCATTCATAAAT
1 GAGAAACCATTCATAAAT
57093225 G
1 G
57093226 GGCTAAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (18 bp):
GAGAAACCATTCATAAAT
Found at i:57094473 original size:46 final size:46
Alignment explanation
Indices: 57094417--57094637 Score: 273
Period size: 46 Copynumber: 4.8 Consensus size: 46
57094407 ATTTGGGCAT
* * **
57094417 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACAC
* * * *** * * * *
57094463 CCAAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTA-ACTAGGCAT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGA-ACAC
*
57094510 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACAC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACAC
*
57094556 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACAC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACAC
57094602 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57094638 GCGGGTTACA
Statistics
Matches: 150, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
46 116 0.77
47 34 0.23
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACAC
Found at i:57094553 original size:93 final size:93
Alignment explanation
Indices: 57094412--57094637 Score: 285
Period size: 93 Copynumber: 2.4 Consensus size: 93
57094402 AGGATATTTG
* * **
57094412 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCAAACTCGTTGAG
* * *
57094477 TTGAGTCCAAGTTCGAGAGATGTA-ACTA
66 TTGAGTCCAAGTTC-ACAGATGGATACGA
* * *
57094505 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACACCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCAAACTCGTTGAG
** **
57094570 TTGAGTCTGAGTTCACTTATGGATACGA
66 TTGAGTCCAAGTTCACAGATGGATACGA
* *
57094598 -ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57094638 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
92 42 0.37
93 73 0.63
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCAAACTCGTTGAG
TTGAGTCCAAGTTCACAGATGGATACGA
Found at i:57097806 original size:39 final size:38
Alignment explanation
Indices: 57097752--57097883 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 38
57097742 GAGTCACGTA
*
57097752 CCTTCGGGAT-TTAACCGGATATAACCACAAGCATAATTG
1 CCTTCGGG-TCTTAACCGGATATAACCACTAGCATAA-TG
* * *
57097791 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAATG
1 CCTTCGGGTCTTAA-CCGGATATAACCACTAGCA-TAATG
* *
57097831 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTA-ACCGGATATAACCACTAGCAT-AATG
*
57097871 CCTTCGGGACTTA
1 CCTTCGGGTCTTA
57097884 GCCCGGGTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 12 0.15
40 63 0.81
41 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (38 bp):
CCTTCGGGTCTTAACCGGATATAACCACTAGCATAATG
Found at i:57097833 original size:40 final size:40
Alignment explanation
Indices: 57097766--57097889 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
57097756 CGGGATTTAA
* * * * *
57097766 CCGGATATAACCACAAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
57097806 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
57097846 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57097886 CCGG
1 CCGG
57097890 GTATCATTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 70 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57111162 original size:40 final size:40
Alignment explanation
Indices: 57111117--57111246 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 40
57111107 CGGAATATAA
57111117 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
57111157 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * * *
57111197 CCGGATAT-AGC-CGCTAGCACAATTGTCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
57111237 CCGGATATAA
1 CCGGATATAA
57111247 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 68 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:57111261 original size:40 final size:40
Alignment explanation
Indices: 57111133--57111283 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
57111123 ATAAGCATGT
* * * *
57111133 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAA-TGACTC-
1 GCACAATTGTCTTCGGGTCTTAGCCCGGATATAACCG-C-CA
* * *
57111173 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGTCTTCGGGTCTTAGCCCGGATATAACCGCCA
* ***
57111213 GCACAATTGTCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGTCTTCGGGTCTTAGCCCGGATATAACCGCCA
*
57111253 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGTCTTCGGGTCTTAGCCCGGATAT
57111284 CATTCAATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 15 0.16
40 76 0.81
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGTCTTCGGGTCTTAGCCCGGATATAACCGCCA
Found at i:57119055 original size:40 final size:40
Alignment explanation
Indices: 57119010--57119176 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
57119000 CGGAATATAA
*
57119010 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
57119050 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
57119090 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
57119130 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
57119169 CCGGATAT
1 CCGGATAT
57119177 CATTCAATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 14 0.13
40 89 0.83
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57119160 original size:80 final size:79
Alignment explanation
Indices: 57119026--57119176 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
57119016 ATAAGCATGT
*
57119026 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
57119091 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
57119106 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
57119169 CCGGATAT
64 CCGGATAT
57119177 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:57126892 original size:40 final size:41
Alignment explanation
Indices: 57126847--57126974 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 41
57126837 CGGAATATAA
57126847 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACGTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57126887 CCGGATA-GA--ATGTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACGTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57126925 CCGGATGTAGCCAC-TAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACGTAGCACAAATGCCTTCGGGTCTTAGC
57126965 CCGGATATAA
1 CCGGATATAA
57126975 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
37 3 0.04
38 29 0.41
39 1 0.01
40 37 0.52
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (41 bp):
CCGGATATAACCACGTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57126989 original size:40 final size:40
Alignment explanation
Indices: 57126863--57127011 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
57126853 ATAACCACGT
* * *
57126863 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGT-C-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* ** * *
57126901 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
57126941 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
57126981 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
57127012 CATTCAATTT
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
38 28 0.31
39 17 0.19
40 45 0.50
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:57134885 original size:40 final size:40
Alignment explanation
Indices: 57134841--57134970 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
57134831 TCGAATATAA
57134841 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
57134881 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
57134921 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
57134961 CCGGATATAA
1 CCGGATATAA
57134971 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:57134985 original size:40 final size:40
Alignment explanation
Indices: 57134857--57135008 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
57134847 ATAAGCATGT
* * *
57134857 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
57134897 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
57134937 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
57134977 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
57135009 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:57134991 original size:80 final size:80
Alignment explanation
Indices: 57134857--57135008 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
57134847 ATAAGCATGT
* *
57134857 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
57134922 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
57134937 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
57135000 CCCGGATAT
64 CCCGGATAT
57135009 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:57139115 original size:33 final size:33
Alignment explanation
Indices: 57139073--57139139 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
57139063 AATGAAAAGG
57139073 TATATCATTCAAGCCCTTACACTGGCTAACCAA
1 TATATCATTCAAGCCCTTACACTGGCTAACCAA
57139106 TATATCATTCAAGCCCTTACACTGGCTAACCAA
1 TATATCATTCAAGCCCTTACACTGGCTAACCAA
57139139 T
1 T
57139140 GACAATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.28
Consensus pattern (33 bp):
TATATCATTCAAGCCCTTACACTGGCTAACCAA
Found at i:57151062 original size:42 final size:43
Alignment explanation
Indices: 57150992--57151073 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
57150982 TCGTACTTGT
* *
57150992 AATCAAATATTGATGCCACTATCCCAGACAAGGTCTTACACGA
1 AATCAAATATCGATGCCAATATCCCAGACAAGGTCTTACACGA
*
57151035 AATCAAATA-CGATGCCAATATCCCAGACATGGTCTTACA
1 AATCAAATATCGATGCCAATATCCCAGACAAGGTCTTACA
57151074 TATAAAGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 27 0.75
43 9 0.25
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATATCCCAGACAAGGTCTTACACGA
Found at i:57157244 original size:23 final size:23
Alignment explanation
Indices: 57157217--57157264 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
57157207 GAAATGAGAC
57157217 ACCCTAACACAGAGTTGCGAATA
1 ACCCTAACACAGAGTTGCGAATA
57157240 ACCCTAACACAGAGTTGCGAATA
1 ACCCTAACACAGAGTTGCGAATA
57157263 AC
1 AC
57157265 ATATTTCGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (23 bp):
ACCCTAACACAGAGTTGCGAATA
Found at i:57157670 original size:17 final size:16
Alignment explanation
Indices: 57157628--57157674 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
57157618 AACTTTCCTT
*
57157628 TCTTACAAAACTAATA
1 TCTTACAAAAATAATA
*
57157644 CCTTACAAAAATAATA
1 TCTTACAAAAATAATA
57157660 TCTTACAAAAA-AATA
1 TCTTACAAAAATAATA
57157675 AAAATTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (16 bp):
TCTTACAAAAATAATA
Found at i:57165201 original size:37 final size:35
Alignment explanation
Indices: 57165141--57165210 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
57165131 TATTTTGAAA
*
57165141 TTAAAAAATATATTAAATGTAAAAAATGTAATTTT
1 TTAAAAAATATATTAAATGTAAAAAATGAAATTTT
*
57165176 TTAATAAAATTATATTAAA-GATAAAATATGAAATT
1 TTAA-AAAA-TATATTAAATG-TAAAAAATGAAATT
57165211 AATACCAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 4 0.13
36 5 0.17
37 21 0.70
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (35 bp):
TTAAAAAATATATTAAATGTAAAAAATGAAATTTT
Found at i:57166817 original size:11 final size:11
Alignment explanation
Indices: 57166801--57166848 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
57166791 TTTTTAAAAC
*
57166801 TATATTATGTA
1 TATATTATATA
57166812 TATATTATATA
1 TATATTATATA
57166823 TATA-TATTATA
1 TATATTA-TATA
57166834 TATATT-TAT-
1 TATATTATATA
57166843 TATATT
1 TATATT
57166849 TTTATGTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
9 6 0.18
10 5 0.15
11 22 0.65
12 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
TATATTATATA
Found at i:57166822 original size:9 final size:9
Alignment explanation
Indices: 57166801--57166848 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
57166791 TTTTTAAAAC
*
57166801 TATATTATG
1 TATATTATA
57166810 TATA-TAT-
1 TATATTATA
57166817 TATA-TATA
1 TATATTATA
57166825 TATATTATA
1 TATATTATA
57166834 TATATT-TA
1 TATATTATA
57166842 TTATATT
1 -TATATT
57166849 TTTATGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 9 0.25
9 20 0.56
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TATATTATA
Found at i:57166828 original size:13 final size:13
Alignment explanation
Indices: 57166810--57166847 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
57166800 CTATATTATG
57166810 TATATATTATATA
1 TATATATTATATA
57166823 TATATATTATATA
1 TATATATTATATA
*
57166836 TATTTATTATAT
1 TATATATTATAT
57166848 TTTTATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATATTATATA
Found at i:57166864 original size:13 final size:12
Alignment explanation
Indices: 57166814--57166895 Score: 62
Period size: 13 Copynumber: 6.7 Consensus size: 12
57166804 ATTATGTATA
*
57166814 TATTATATATATA
1 TATTATATAT-TT
57166827 TATTATATATATT
1 TATTATATAT-TT
57166840 TATTATAT-TTT
1 TATTATATATTT
57166851 TATGTATATATTT
1 TAT-TATATATTT
* * *
57166864 T-TAATATCGTAT
1 TATTATAT-ATTT
57166876 TATTCATATATTT
1 TATT-ATATATTT
57166889 T-TTATAT
1 TATTATAT
57166896 TATGTAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
11 13 0.23
12 12 0.21
13 28 0.49
14 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (12 bp):
TATTATATATTT
Found at i:57169117 original size:28 final size:29
Alignment explanation
Indices: 57169086--57169147 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
57169076 TGGGATGGGA
*
57169086 AGAGAGTA-AAAGTTTTAGGG-GGAAAGTG
1 AGAGAGAATAAAGTTTT-GGGTGGAAAGTG
57169114 AGAGAGAATAAAGTTTTGGGTGGAAAGTG
1 AGAGAGAATAAAGTTTTGGGTGGAAAGTG
57169143 A-AGAG
1 AGAGAG
57169148 GTTTCAGAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.40, C:0.00, G:0.39, T:0.21
Consensus pattern (29 bp):
AGAGAGAATAAAGTTTTGGGTGGAAAGTG
Found at i:57172465 original size:2 final size:2
Alignment explanation
Indices: 57172458--57172504 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
57172448 GATCTACTTT
57172458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57172500 T- TA TA
1 TA TA TA
57172505 ATAAAACTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:57172736 original size:25 final size:24
Alignment explanation
Indices: 57172662--57172742 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 24
57172652 TATTATTTTG
*
57172662 ATAATGATACTTTAATATAA-TTAT
1 ATAATGA-ATTTTAATATAATTTAT
* * *
57172686 AAAAT--ATTTTAATAAAATGTAT
1 ATAATGAATTTTAATATAATTTAT
57172708 -TAATGAATTTTAATATAATTTAT
1 ATAATGAATTTTAATATAATTTAT
*
57172731 GATAATAAATTT
1 -ATAATGAATTT
57172743 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
21 13 0.30
22 3 0.07
23 15 0.34
24 4 0.09
25 9 0.20
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (24 bp):
ATAATGAATTTTAATATAATTTAT
Found at i:57172760 original size:25 final size:26
Alignment explanation
Indices: 57172732--57172787 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
57172722 ATAATTTATG
57172732 ATAATAAATTT-ATATTTTTA-AAAAT
1 ATAATAAATTTAAT-TTTTTATAAAAT
**
57172757 ATAATTTATTTAATTTTTTATAAAAT
1 ATAATAAATTTAATTTTTTATAAAAT
57172783 -TAATA
1 ATAATA
57172788 TTACGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAATAAATTTAATTTTTTATAAAAT
Found at i:57174081 original size:3 final size:3
Alignment explanation
Indices: 57174073--57174100 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
57174063 CTGGTTTAAG
57174073 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
57174101 AGTAGGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:57179008 original size:17 final size:18
Alignment explanation
Indices: 57178988--57179021 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57178978 AAGTGAATTG
57178988 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
*
57179005 AAATTGTAGAAATTAAA
1 AAATTGCAGAAATTAAA
57179022 ATGAGGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:57181331 original size:49 final size:49
Alignment explanation
Indices: 57181157--57181575 Score: 591
Period size: 49 Copynumber: 8.7 Consensus size: 49
57181147 CCCTTCGGGA
* * * *
57181157 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
57181204 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57181251 CTTGTCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57181298 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57181347 CTTATCACATATATATACCCTTTCGCATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57181396 CTTATCACATATATATACGCTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57181445 CTTATCACATACATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57181494 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57181543 CTTATCTCATATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
57181576 GTGTAAAATC
Statistics
Matches: 342, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
46 2 0.01
47 86 0.25
49 254 0.74
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57184963 original size:30 final size:30
Alignment explanation
Indices: 57184927--57185028 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 30
57184917 GACAAGATTG
* *
57184927 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
* * *
57184957 GCACTAAGTGTGCGCGTTT--GATTCTATA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
* * *
57184985 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
57185014 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
57185029 ATTCACTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 22 0.37
29 19 0.32
30 19 0.32
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGGGTTTAAAATTATATA
Found at i:57185039 original size:29 final size:28
Alignment explanation
Indices: 57184956--57185031 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
57184946 AAAATTGTAC
* *
57184956 AGCACTAAGTGTGCGCGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
57184984 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
57185013 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
57185032 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:57192381 original size:80 final size:80
Alignment explanation
Indices: 57192297--57192445 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
57192287 TATGGTAACC
* * * *
57192297 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57192361 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
57192377 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57192442 CCGG
66 CCGG
57192446 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57192387 original size:40 final size:38
Alignment explanation
Indices: 57192338--57192445 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
57192328 ATCACGATTT
*
57192338 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
57192378 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
57192418 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
57192446 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:57194749 original size:25 final size:23
Alignment explanation
Indices: 57194712--57194757 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
57194702 TTTCTTTTAA
*
57194712 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
57194735 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
57194758 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:57198384 original size:46 final size:46
Alignment explanation
Indices: 57198317--57198533 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
57198307 TGGCAACCTG
* *
57198317 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
57198363 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
57198409 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
57198455 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * * *
57198501 TGAGTAAGACCGTAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
57198534 TCACGTCAAA
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 154 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:57198520 original size:138 final size:130
Alignment explanation
Indices: 57198268--57198533 Score: 345
Period size: 138 Copynumber: 2.0 Consensus size: 130
57198258 AGTGTGCTCT
*
57198268 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
57198333 TGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGACAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
57198398 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
* *
57198463 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCGTAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGACAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
57198527 TATGGCA
122 CATGGCA
57198534 TCACGTCAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
130 47 0.41
133 2 0.02
136 1 0.01
137 1 0.01
138 65 0.56
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGACAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:57198839 original size:23 final size:25
Alignment explanation
Indices: 57198794--57198840 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
57198784 AATAAATATA
*
57198794 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
57198819 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
57198841 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:57206526 original size:43 final size:44
Alignment explanation
Indices: 57206461--57206585 Score: 157
Period size: 45 Copynumber: 2.9 Consensus size: 44
57206451 CTCGAATTCA
* * * *
57206461 TTCACTGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGATA-TCCT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATAGT-AT
*
57206503 TTCACCGGCATTATAGCCCGCTAGGCTCAAAGGCCCGAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCG-ATAGTAT
*
57206548 CTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
57206586 ATAATGTCGT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
42 11 0.15
43 13 0.18
44 8 0.11
45 39 0.54
46 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (44 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATAGTAT
Found at i:57211128 original size:7 final size:7
Alignment explanation
Indices: 57211116--57211144 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
57211106 AAAATCAAGG
57211116 TTTGTAA
1 TTTGTAA
57211123 TTTGTAA
1 TTTGTAA
57211130 TTTGTAA
1 TTTGTAA
57211137 TTTGTAA
1 TTTGTAA
57211144 T
1 T
57211145 ATTTGTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TTTGTAA
Found at i:57212379 original size:132 final size:131
Alignment explanation
Indices: 57212169--57212673 Score: 442
Period size: 132 Copynumber: 3.8 Consensus size: 131
57212159 GATGATGAGA
* * * * * * *
57212169 TTCGATATTTGGCAATTTGCGGAATAGTGCCCTAATGTGTTGGGTTGCAATTTCGCGTTTGCTCG
1 TTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCA
* * * *
57212234 AAATAATTGAATATCCCTTCAAACTTTCACTCATGCCTTTTAAAAATTCTTTAAAACGAAGGCAA
66 AAACAATCGAATATCCCTTCAAA-TTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGCAA
57212299 AG
130 AG
* * *
57212301 TTTGATATTTGGCAATTCGCGGAATCGTACCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCA
1 TTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCA
* * * * * * * *
57212366 AAATAATCAAATATCCCTTCTAGATTCCATTCAGGTCTTCTAAAAATCCTCTAAAACGAAGGCAA
66 AAACAATCGAATATCCCTTC-AAATTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGCAA
57212431 TA-
130 -AG
* * * * * * **
57212433 CTC-AGTGTTTGACAATTCG-AGAATCATGCCCTATCGTGTTAGGTTGTGATTTCTCGTTTGTTC
1 TTCGA-TATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTC
* * * * ** * *
57212496 AAAACGATCGAATATTCTTTTAGGTTTTCACTCATGTCTTTTAAGAAAACCCTTTAAAACAAAGG
65 AAAACAATCGAATATCCCTTCA-AATTTCACTCATGTCTTTT-A-AAAATCCTTTAAAACGAAGG
* *
57212561 CTATG
127 CAAAG
* * * * *** *
57212566 TTCGATGTTTGGCAATTC-AAGTATCGTGCCCTATCGCACTGGGTTGCAATCTCTCGTTTGTTCA
1 TTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCA
* * * *
57212630 AAACAATCGAGTATCTCTTCAGAATTTCACTCATATTTTTTAAA
66 AAACAATCGAATATCCCTTCA-AATTTCACTCATGTCTTTTAAA
57212674 GTGAGGCAAT
Statistics
Matches: 298, Mismatches: 66, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
130 1 0.00
131 69 0.23
132 124 0.42
133 103 0.35
134 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (131 bp):
TTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCA
AAACAATCGAATATCCCTTCAAATTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGCAAA
G
Done.