Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013960.1 Kokia drynarioides strain JFW-HI SEQ_128991, whole genome shotgun sequence
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: 137648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Warning! 33 characters in sequence are not A, C, G, or T
Found at i:6285 original size:2 final size:2
Alignment explanation
Indices: 6278--6303 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6268 TTTGAAGGTA
6278 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6304 TATTCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7634 original size:65 final size:65
Alignment explanation
Indices: 7530--7659 Score: 190
Period size: 65 Copynumber: 2.0 Consensus size: 65
7520 ATCCCTGTAC
* * * *
7530 GAGAGCGTTAACGAATTTGAAACCATCAATGGTGAGGAAGAGTAAGTTATGAAGTGATATAATGG
1 GAGAGCGGTAACGAATTTGAAACCATCAATGGGGAGGAAGAATAAGTCATGAAGTGATATAATGG
* *
7595 GAGAGCGGTAATGAATTTGAAACCATTC-ATGGGGAGGAAGAATAAGTCATTAAGTGATATAATG
1 GAGAGCGGTAACGAATTTGAAACCA-TCAATGGGGAGGAAGAATAAGTCATGAAGTGATATAATG
7659 G
65 G
7660 AAGCGAGTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 56 0.97
66 2 0.03
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (65 bp):
GAGAGCGGTAACGAATTTGAAACCATCAATGGGGAGGAAGAATAAGTCATGAAGTGATATAATGG
Found at i:8382 original size:15 final size:16
Alignment explanation
Indices: 8352--8382 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8342 GGTATTATCA
8352 TATTTGCCTGCAGCTT
1 TATTTGCCTGCAGCTT
8368 TATTTGCCT-CAGCTT
1 TATTTGCCTGCAGCTT
8383 CAAGAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTGCCTGCAGCTT
Found at i:25529 original size:52 final size:52
Alignment explanation
Indices: 25410--25801 Score: 490
Period size: 52 Copynumber: 7.6 Consensus size: 52
25400 TAAATGCAAA
* * * * * *
25410 AGGTCCAATAACTTTGTGTCATCGTGAGTTTTATGAATCTTTTAAGAATT-TCG
1 AGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCTTTTACGGATTAT-G
* * *
25463 AGGTCTGATGACTATGTGTCATCATGAGTATATGAATCTTTTACGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
** * *
25515 AGGTTTGATAACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* * * *
25567 AGGTCCAATGAC--TGTGTCATCGTGAGTATATGAATCCTTTACGAATTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* *
25617 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* **
25669 AGGTCTGATGACTATGT-T-ATCGTGAGTATATGAATCTTTTATC-GATTACA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTA-CGGATTATG
* *
25719 AGGTCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
*
25771 AGGTTCGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
25802 TAAATGAGAA
Statistics
Matches: 296, Mismatches: 36, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
50 89 0.30
51 4 0.01
52 179 0.60
53 24 0.08
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
Found at i:25608 original size:102 final size:103
Alignment explanation
Indices: 25409--25801 Score: 488
Period size: 102 Copynumber: 3.8 Consensus size: 103
25399 GTAAATGCAA
* * * * * * * *
25409 AAGGTCCAATAACTTTGTGTCATCGTGAGTTTTATGAATCTTTTAAGAATTTCGAGGTCTGATGA
1 AAGGTCCGATAACTATGTGTCATCGTGAG-TATATGAATCCTTTACGGATTACGAGGTCCGATGA
* *
25474 CTATGTGTCATCATGAGTATATGAATCTTTTACGGATTAT
65 C-ATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAC
** * *
25514 AAGGTTTGATAACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTACGAGGTCCAATGAC
1 AAGGTCCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCCGATGAC
* *
25579 -TGTGTCATCGTGAGTATATGAATCCTTTACGAATTAC
66 ATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAC
* * * * *
25616 GAGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCTGATGAC
1 AAGGTCCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCCGATGAC
25681 TATGT-T-ATCGTGAGTATATGAATCTTTTATC-GATTAC
66 -ATGTGTCATCGTGAGTATATGAATCTTTTA-CGGATTAC
* * * *
25718 AAGGTCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACGGATTATGAGGTTCGATGAC
1 AAGGTCCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCCGATGAC
25783 TATGTGTCATCGTGAGTAT
66 -ATGTGTCATCGTGAGTAT
25802 TAAATGAGAA
Statistics
Matches: 253, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
102 181 0.72
103 3 0.01
104 44 0.17
105 25 0.10
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (103 bp):
AAGGTCCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCCGATGAC
ATGTGTCATCGTGAGTATATGAATCTTTTACGGATTAC
Found at i:25639 original size:154 final size:153
Alignment explanation
Indices: 25409--25801 Score: 565
Period size: 154 Copynumber: 2.5 Consensus size: 153
25399 GTAAATGCAA
* * * * * *
25409 AAGGTCCAATAACTTTGTGTCATCGTGAGTTTTATGAATCTTTTAAGAATTTCGAGGTCTGATGA
1 AAGGTCCAATGAC-TTGTGTCATCGTGAG-TATATGAATCCTTTACGAATTACGAGGTCCGATGA
* *
25474 CTATGTGTCATCATGAGTATATGAATCTTTTACGGATTATAAGGTTTGATAACTATGTGTCATCG
64 CTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTCTGATAACTATGT-T-ATCG
25539 TGAGTATATGAATCTTTTA-CGGATTAC
127 TGAGTATATGAATCTTTTATC-GATTAC
*
25566 GAGGTCCAATGAC-TGTGTCATCGTGAGTATATGAATCCTTTACGAATTACGAGGTCCGATGACT
1 AAGGTCCAATGACTTGTGTCATCGTGAGTATATGAATCCTTTACGAATTACGAGGTCCGATGACT
* *
25630 ATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCTGATGACTATGTTATCGTGAG
66 ATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTCTGATAACTATGTTATCGTGAG
25695 TATATGAATCTTTTATCGATTAC
131 TATATGAATCTTTTATCGATTAC
* * * * *
25718 AAGGTCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACGGATTATGAGGTTCGATGAC
1 AAGGTCCAATGACT-TGTGTCATCGTGAGTATATGAATCCTTTACGAATTACGAGGTCCGATGAC
*
25783 TATGTGTCATCGTGAGTAT
65 TATGTGTCATCATGAGTAT
25802 TAAATGAGAA
Statistics
Matches: 215, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
152 40 0.19
153 2 0.01
154 148 0.69
155 14 0.07
157 11 0.05
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (153 bp):
AAGGTCCAATGACTTGTGTCATCGTGAGTATATGAATCCTTTACGAATTACGAGGTCCGATGACT
ATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTCTGATAACTATGTTATCGTGAG
TATATGAATCTTTTATCGATTAC
Found at i:27063 original size:23 final size:21
Alignment explanation
Indices: 27014--27063 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
27004 AGTGATGAAA
27014 GTTGTGTGTTTGAGTCACAGG
1 GTTGTGTGTTTGAGTCACAGG
27035 GTTGTGTGTTTGAGTCACAGG
1 GTTGTGTGTTTGAGTCACAGG
*
27056 GTTATGTG
1 GTTGTGTG
27064 ATCCCTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.08, G:0.38, T:0.40
Consensus pattern (21 bp):
GTTGTGTGTTTGAGTCACAGG
Found at i:30368 original size:6 final size:6
Alignment explanation
Indices: 30353--30385 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
30343 TTAATGAGAC
30353 TTTT-A TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
30386 TTTTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTAA
Found at i:32285 original size:24 final size:24
Alignment explanation
Indices: 32224--32286 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
32214 TAGACTAATA
* *
32224 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
32248 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
32272 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
32287 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:35822 original size:6 final size:6
Alignment explanation
Indices: 35811--35847 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
35801 TTTCCTTTCC
35811 CGTCAT CGTCAT CGTCAT CGTCAT CGTCAT CGTCAT C
1 CGTCAT CGTCAT CGTCAT CGTCAT CGTCAT CGTCAT C
35848 ACCAAAACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.35, G:0.16, T:0.32
Consensus pattern (6 bp):
CGTCAT
Found at i:47968 original size:30 final size:30
Alignment explanation
Indices: 47910--47968 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
47900 GATATATCTC
* *
47910 ATATCACATATCATGTTTCAATCCATTTTA
1 ATATCACATATCATGTATCAATCAATTTTA
47940 ATATCACATATCATGTATC-ATACAATTTT
1 ATATCACATATCATGTATCAAT-CAATTTT
47969 CTACTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (30 bp):
ATATCACATATCATGTATCAATCAATTTTA
Found at i:48490 original size:227 final size:228
Alignment explanation
Indices: 48061--48523 Score: 671
Period size: 227 Copynumber: 2.0 Consensus size: 228
48051 CCTTGATACT
* * *
48061 CAATCATGCAATTAATATGAATATGTATACAAATATGATAAAATTAAATGTTGACAATGAAGAAA
1 CAATCATGCAATTAATATGAATATGTATACAAATATGATAAAATTAAATATCGACAATAAAGAAA
* * ** ** * *
48126 TTATCGCAAAGAAAATGGGGAAAAAACACACAAATTTTACGTGGAAACCCTTTCGGAAAAATAAA
66 TTATCACAAAAAAAAAAGAAAAAAAACACACAAATTTTACGTGAAAACCCTTTAGG--AAATAAA
* * *
48191 AAACCACGGGTAGAGGAGAAGAAGATTCACTAATGTCAAAAATTGAAATAATTACAAGAGGAGAT
129 AAACCACGGGCAGAGAAGAAGAAGATTCACTAATGTCAAAAATTGAAATAATTACAAGAGAAGAT
48256 AACTATGCCTATTTATAGGTTGAAAAACCTTATTC
194 AACTATGCCTATTTATAGGTTGAAAAACCTTATTC
*
48291 CAATCATGCAATTAATATGAATATGTATACAAATGTGATAAAATTAAATATCGACAATAAAGAAA
1 CAATCATGCAATTAATATGAATATGTATACAAATATGATAAAATTAAATATCGACAATAAAGAAA
** * *
48356 -TATCACAAAAAAAAAAAAGAAAAAAAACACACAGGTTTTAGGTGAAAACCCTTTAGG-GA-AAA
66 TTATCAC--AAAAAAAAAAGAAAAAAAACACACAAATTTTACGTGAAAACCCTTTAGGAAATAAA
*
48418 AAACTACGGGCAGAGAAGAAGAAGATTCACTAATGTCAAAAATTGAAATAATTACAAGAGAAGAT
129 AAACCACGGGCAGAGAAGAAGAAGATTCACTAATGTCAAAAATTGAAATAATTACAAGAGAAGAT
* *
48483 GACTATGCCTATTTATAGGTTGAAAAACTTTATTC
194 AACTATGCCTATTTATAGGTTGAAAAACCTTATTC
48518 CAATCA
1 CAATCA
48524 ACAACTAATA
Statistics
Matches: 209, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
227 103 0.49
228 1 0.00
229 5 0.02
230 61 0.29
231 39 0.19
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (228 bp):
CAATCATGCAATTAATATGAATATGTATACAAATATGATAAAATTAAATATCGACAATAAAGAAA
TTATCACAAAAAAAAAAGAAAAAAAACACACAAATTTTACGTGAAAACCCTTTAGGAAATAAAAA
ACCACGGGCAGAGAAGAAGAAGATTCACTAATGTCAAAAATTGAAATAATTACAAGAGAAGATAA
CTATGCCTATTTATAGGTTGAAAAACCTTATTC
Found at i:57309 original size:40 final size:40
Alignment explanation
Indices: 57260--57345 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
57250 ACTAATTTAA
57260 AATTTTATAAATTATAAAAAGCATAAATGAAAAATTTTCC
1 AATTTTATAAATTATAAAAAGCATAAATGAAAAATTTTCC
57300 AATTTTATAAATTATAAAAAGCATAAATGAAAAATTTTCC
1 AATTTTATAAATTATAAAAAGCATAAATGAAAAATTTTCC
57340 -ATTTTA
1 AATTTTA
57346 AGAGGATCTG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 6 0.13
40 40 0.87
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (40 bp):
AATTTTATAAATTATAAAAAGCATAAATGAAAAATTTTCC
Found at i:65595 original size:29 final size:29
Alignment explanation
Indices: 65559--65695 Score: 111
Period size: 29 Copynumber: 4.7 Consensus size: 29
65549 TTTTAGACAC
65559 TCGAGGGT-AAAATGGTAATTTTTGGAAAGT
1 TCGAGGGTAAAAAT-GTAA-TTTTGGAAAGT
* *
65589 T-TAGGGTCAAAAATGAAATTTTGGAAAGT
1 TCGAGGGT-AAAAATGTAATTTTGGAAAGT
* **
65618 TCGGGGGTAAAAATGTAATTTTGGAAAAAA
1 TCGAGGGTAAAAATGTAATTTTGG-AAAGT
* * *
65648 TCG-GGG-AAAAATGAAATGTAGGAAAGT
1 TCGAGGGTAAAAATGTAATTTTGGAAAGT
* * *
65675 TTGGGGGTAAAAATATAATTT
1 TCGAGGGTAAAAATGTAATTT
65696 CTAGATAGTT
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
27 5 0.06
28 16 0.19
29 45 0.53
30 14 0.16
31 5 0.06
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.29
Consensus pattern (29 bp):
TCGAGGGTAAAAATGTAATTTTGGAAAGT
Found at i:66643 original size:3 final size:3
Alignment explanation
Indices: 66637--66724 Score: 81
Period size: 3 Copynumber: 29.0 Consensus size: 3
66627 TATTATTTGT
* * * *
66637 TTA TTA TTA TTA TTTA TTA ATG TCA TTA GTA TTA -TA CTTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* *
66683 ATA TTA TTA TTA TTA TTA TTA TTA TTA TT- TATG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
66725 AGGCTATTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
2 3 0.04
3 60 0.87
4 6 0.09
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:66791 original size:21 final size:20
Alignment explanation
Indices: 66752--66792 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
66742 GAAGAGGCAA
66752 TAAATATTGATTGAATGTAT
1 TAAATATTGATTGAATGTAT
66772 TAAATATATGCATT-AATGTAT
1 TAAATAT-TG-ATTGAATGTAT
66793 ATTGGAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 9 0.47
22 3 0.16
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (20 bp):
TAAATATTGATTGAATGTAT
Found at i:67472 original size:6 final size:6
Alignment explanation
Indices: 67463--67544 Score: 51
Period size: 6 Copynumber: 13.3 Consensus size: 6
67453 ATTTTTAATC
* * *
67463 AATTTA AATTTA AATTCTTA AAATTG AACTT- AATTTA AATTTA AATTTCA
1 AATTTA AATTTA AA-T-TTA AATTTA AATTTA AATTTA AATTTA AATTT-A
*** *
67513 AAAGAA AAGTTTA AACTTA AA-TTA AATTTA AA
1 AATTTA AA-TTTA AATTTA AATTTA AATTTA AA
67545 CTCAAAATGA
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 9 0.15
6 38 0.64
7 7 0.12
8 5 0.08
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:75757 original size:16 final size:16
Alignment explanation
Indices: 75736--75766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75726 TTATAGAGGA
75736 ATTATGATTAAAGTTT
1 ATTATGATTAAAGTTT
*
75752 ATTATGATTATAGTT
1 ATTATGATTAAAGTT
75767 GAAACTTCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (16 bp):
ATTATGATTAAAGTTT
Found at i:80767 original size:16 final size:16
Alignment explanation
Indices: 80728--80758 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
80718 AATTGATACA
80728 AAACAAAAAAGCAAAG
1 AAACAAAAAAGCAAAG
80744 AAACAAAAAAGCAAA
1 AAACAAAAAAGCAAA
80759 CGGAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.13, G:0.10, T:0.00
Consensus pattern (16 bp):
AAACAAAAAAGCAAAG
Found at i:81764 original size:29 final size:29
Alignment explanation
Indices: 81689--82047 Score: 127
Period size: 30 Copynumber: 12.3 Consensus size: 29
81679 ACACTCGAGA
* *
81689 GGTAAAATGGTAATTTTGGGAATGTTCGTGG
1 GGTAAAATGGTAATTTTTGGAA-GTTTG-GG
* *
81720 GTTAAAAATGG-AATTTTTAGAAGTTTGGG
1 GGT-AAAATGGTAATTTTTGGAAGTTTGGG
* ** * *
81749 GGTAAAATGGTAATTTTGGGAA-AATCGA
1 GGTAAAATGGTAATTTTTGGAAGTTTGGG
* ** * *
81777 GGTAAAAAAT-GAAACTTTTTAAAAGTTCGAG
1 GGT--AAAATGGTAA-TTTTTGGAAGTTTGGG
**
81808 GGTAAAATGGTAA--TTT-GAAAATT-GG
1 GGTAAAATGGTAATTTTTGGAAGTTTGGG
** *
81833 GGTCAAAAAT-AAAAGTTTTGGAAGTTTGGG
1 GGT--AAAATGGTAATTTTTGGAAGTTTGGG
* ** *
81863 CGTAAAATGGTAATTTTTGGAAAAATCGGG
1 GGTAAAATGGTAATTTTTGG-AAGTTTGGG
* *
81893 GTTAAAATGG-AA-TTTTGGAAAGTTTGGT
1 GGTAAAATGGTAATTTTTGG-AAGTTTGGG
* **
81921 GGTAAAAAT-GTAATTTTTAGAAAG-TTCAG
1 GGT-AAAATGGTAATTTTT-GGAAGTTTGGG
* * *
81950 GGTCAAAAATGG-AATTTTAGAAAGGTTGGG
1 GGT--AAAATGGTAATTTTTGGAAGTTTGGG
* *
81980 GGTAAAAT-GTATTTTTTGGAAAGTTTAGG
1 GGTAAAATGGTAATTTTTGG-AAGTTTGGG
* *
82009 GGTCAAAAT-ATAATTTTAGAGAAGTTTGAGG
1 GGT-AAAATGGTAATTTTTG-GAAGTTTG-GG
*
82040 GTTAAAAT
1 GGTAAAAT
82048 ATGATTTCTA
Statistics
Matches: 239, Mismatches: 62, Indels: 55
0.67 0.17 0.15
Matches are distributed among these distances:
25 4 0.02
26 5 0.02
27 9 0.04
28 46 0.19
29 63 0.26
30 84 0.35
31 21 0.09
32 7 0.03
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (29 bp):
GGTAAAATGGTAATTTTTGGAAGTTTGGG
Found at i:81916 original size:58 final size:58
Alignment explanation
Indices: 81689--82001 Score: 250
Period size: 58 Copynumber: 5.4 Consensus size: 58
81679 ACACTCGAGA
* *** * *
81689 GGTAAAATGGTAATTTTGGGAATGTTCGTGGGTTAAAAATGGAATTTT-TAGAAGTTTGGG
1 GGTAAAATGGTAATTTTTGGAAAAATCG-GGGTCAAAAATGGAATTTTGGA-AAGTTT-GG
* * * * ** *
81749 GGTAAAATGGTAA-TTTTGGGAAAATCGAGGTAAAAAATGAAACTTTTTAAAAGTTCGAG
1 GGTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAA-TTTTGGAAAGTTTG-G
* **
81808 GGTAAAATGGTAA--TTT-G-AAAATTGGGGTCAAAAATAAAAGTTTTGG-AAGTTTGG
1 GGTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAA-TTTTGGAAAGTTTGG
*
81862 GCGTAAAATGGTAATTTTTGGAAAAATCGGGGT-TAAAATGGAATTTTGGAAAGTTTGG
1 G-GTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTGG
* ** * * *
81920 TGGTAAAAAT-GTAATTTTTAGAAAGTTCAGGGTCAAAAATGGAATTTTAGAAAGGTTGGG
1 -GGT-AAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTGGAAA-GTTTGG
*
81980 GGTAAAAT-GTATTTTTTGGAAA
1 GGTAAAATGGTAATTTTTGGAAA
82002 GTTTAGGGGT
Statistics
Matches: 209, Mismatches: 31, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
54 2 0.01
55 18 0.09
56 22 0.11
57 10 0.05
58 70 0.33
59 68 0.33
60 19 0.09
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (58 bp):
GGTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTGG
Found at i:81967 original size:59 final size:57
Alignment explanation
Indices: 81689--82047 Score: 227
Period size: 58 Copynumber: 6.1 Consensus size: 57
81679 ACACTCGAGA
* * * * *
81689 GGTAAAATGGTAATTTTGGGAATGTTCGTGGGTTAAAAATGGAATTTT-TAGAAGTTTGGG
1 GGTAAAAT-GTAATTTTTGGAAAGTTC-AGGGTCAAAAATGGAATTTTGGA-AAGTTT-GG
* * * * ** *
81749 GGTAAAATGGTAATTTTGGGAAA-ATC-GAGGTAAAAAATGAAACTTTTTAAAAGTTCGAG
1 GGTAAAAT-GTAATTTTTGGAAAGTTCAG-GGTCAAAAATGGAA-TTTTGGAAAGTTTG-G
* * **
81808 GGTAAAATGGTAA--TTT-GAAAATT-GGGGTCAAAAATAAAAGTTTTGG-AAGTTTGG
1 GGTAAAAT-GTAATTTTTGGAAAGTTCAGGGTCAAAAATGGAA-TTTTGGAAAGTTTGG
** * *
81862 GCGTAAAATGGTAATTTTTGGAAAAATCGGGGT-TAAAATGGAATTTTGGAAAGTTTGG
1 G-GTAAAAT-GTAATTTTTGGAAAGTTCAGGGTCAAAAATGGAATTTTGGAAAGTTTGG
* * *
81920 TGGTAAAAATGTAATTTTTAGAAAGTTCAGGGTCAAAAATGGAATTTTAGAAAGGTTGGG
1 -GGT-AAAATGTAATTTTTGGAAAGTTCAGGGTCAAAAATGGAATTTTGGAAA-GTTTGG
* * *
81980 GGTAAAATGTATTTTTTGGAAAGTTTAGGGGTCAAAATAT--AATTTTAGAGAAGTTTGAG
1 GGTAAAATGTAATTTTTGGAAAGTTCA-GGGTCAAAA-ATGGAATTTTGGA-AAGTTTG-G
82039 GGTTAAAAT
1 GG-TAAAAT
82048 ATGATTTCTA
Statistics
Matches: 249, Mismatches: 29, Indels: 42
0.78 0.09 0.13
Matches are distributed among these distances:
54 2 0.01
55 18 0.07
56 20 0.08
57 14 0.06
58 89 0.36
59 70 0.28
60 36 0.14
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (57 bp):
GGTAAAATGTAATTTTTGGAAAGTTCAGGGTCAAAAATGGAATTTTGGAAAGTTTGG
Found at i:82907 original size:12 final size:12
Alignment explanation
Indices: 82892--82935 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
82882 TATTAAAATT
82892 TTATTATTACTA
1 TTATTATTACTA
82904 TTATTATTACTA
1 TTATTATTACTA
*
82916 TTATTATTATTA
1 TTATTATTACTA
82928 TTATTATT
1 TTATTATT
82936 TATTAATGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:82956 original size:3 final size:3
Alignment explanation
Indices: 82892--82940 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
82882 TATTAAAATT
* *
82892 TTA TTA TTA CTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
82938 TTA
1 TTA
82941 ATGCTAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:83727 original size:17 final size:18
Alignment explanation
Indices: 83707--83770 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 18
83697 AAATGTATTT
*
83707 TAAATTCAAATT-TATAA
1 TAAATTCAAATTGTAAAA
*
83724 TAAATTTAAATTGTAAAA
1 TAAATTCAAATTGTAAAA
83742 TAAACTT--AATAT-TAAAA
1 TAAA-TTCAAAT-TGTAAAA
*
83759 TAAATTTAAATT
1 TAAATTCAAATT
83771 CCCGAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
16 2 0.05
17 24 0.60
18 12 0.30
19 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAATTCAAATTGTAAAA
Found at i:84324 original size:51 final size:51
Alignment explanation
Indices: 84258--84356 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
84248 GCTTCACTGC
84258 GTAGGATTTGATGTCGAAGCTTCATCTTGCTCTTACTACAACTTCAGAAAG
1 GTAGGATTTGATGTCGAAGCTTCATCTTGCTCTTACTACAACTTCAGAAAG
84309 GTAGGATTTGATGTCGAAGCTTCATCTTGCTCTTACTACAACTTCAGA
1 GTAGGATTTGATGTCGAAGCTTCATCTTGCTCTTACTACAACTTCAGA
84357 GAGATAAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (51 bp):
GTAGGATTTGATGTCGAAGCTTCATCTTGCTCTTACTACAACTTCAGAAAG
Found at i:84528 original size:49 final size:49
Alignment explanation
Indices: 84475--84893 Score: 203
Period size: 49 Copynumber: 8.3 Consensus size: 49
84465 TCATTGTGAT
*
84475 TTAAACCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGTGGC
1 TTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGTGGC
* *
84524 TTAAATCTTTCCCTTCATGTCTTCGTATTTTTGCAGTACTAGATCCGCCGTTGTGGC
1 TTAAATCTTTCCCTTCATGTCTTC--A----TG--GTACTGGATTCGCCGTTGTGGC
* * * * ** *
84581 TTAGATCTTTCCCTTCATGTCTCTGA-GGTA-TAAGG-TTCACCATTACGAC
1 TTAAATCTTTCCCTTCATGTCT-TCATGGTACT--GGATTCGCCGTTGTGGC
* * ** * * * * * *
84630 TTAAACCCTTCCCTTTGTGCCTTTACGGTACTGGATCCGCCGTTGCGAC
1 TTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGTGGC
* * * * * * *
84679 TTAGATATTTCCCTTCATGCCTTTGA-GGTACTAGG-TTCGCCATTGCGAC
1 TTAAATCTTTCCCTTCATGTC-TTCATGGTACT-GGATTCGCCGTTGTGGC
* * * *
84728 TTAAA-CATTTCCCTT-GTGTCTTCATTGCGGTACTAGATCCGCCGTTGTTGC
1 TTAAATC-TTTCCCTTCATGTCTTCA-T--GGTACTGGATTCGCCGTTGTGGC
* * *
84779 TTATATCTTTCCCTTCATGTCTTC-TGAGGTACTGGGTTCGCCATT-TGCGAC
1 TTAAATCTTTCCCTTCATGTCTTCAT--GGTACTGGATTCGCCGTTGTG-G-C
* * * * *
84830 TTAAACCTTTCCCTT-GTGTCTTCGTGGTACTGGATACGCTGTT-TCGGC
1 TTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGT-GGC
*
84878 TTAGATCTTTCCCTTC
1 TTAAATCTTTCCCTTC
84894 GTGTTTCCTG
Statistics
Matches: 281, Mismatches: 60, Indels: 58
0.70 0.15 0.15
Matches are distributed among these distances:
47 3 0.01
48 22 0.08
49 126 0.45
50 33 0.12
51 44 0.16
52 8 0.03
55 2 0.01
56 1 0.00
57 41 0.15
58 1 0.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (49 bp):
TTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGTGGC
Found at i:84690 original size:98 final size:97
Alignment explanation
Indices: 84553--84893 Score: 396
Period size: 98 Copynumber: 3.5 Consensus size: 97
84543 TCTTCGTATT
* *
84553 TTTGCAGTACTAGATCCGCCGTTGTGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTA-TAAGGT
1 TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACT-AGGT
* * *
84617 TCACCATTACGACTTAAACCCTTCCCTTTGTGCC
65 TCGCCATTGCGACTTAAACCTTTCCC-TTGTGCC
* * * * * *
84651 TTTACGGTACTGGATCCGCCGTTGCGACTTAGATATTTCCCTTCATGCCTTTGAGGTACTAGGTT
1 TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTT
*
84716 CGCCATTGCGACTTAAACATTTCCCTTGTGTCTTC
66 CGCCATTGCGACTTAAACCTTTCCCTTGTG-C--C
* ** * *
84751 ATTGCGGTACTAGATCCGCCGTTGTTGCTTATATCTTTCCCTTCATGTCTTCTGAGGTACTGGGT
1 TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTC-TCTGAGGTACTAGGT
*
84816 TCGCCATTTGCGACTTAAACCTTTCCCTTGTGTC
65 TCGCCA-TTGCGACTTAAACCTTTCCCTTGTGCC
* * * * * *
84850 TTCGTGGTACTGGATACGCTGTTTCGGCTTAGATCTTTCCCTTC
1 TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTC
84894 GTGTTTCCTG
Statistics
Matches: 202, Mismatches: 35, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
97 5 0.02
98 77 0.38
99 36 0.18
100 41 0.20
101 19 0.09
102 24 0.12
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (97 bp):
TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTT
CGCCATTGCGACTTAAACCTTTCCCTTGTGCC
Found at i:96144 original size:29 final size:28
Alignment explanation
Indices: 96059--96297 Score: 130
Period size: 29 Copynumber: 8.2 Consensus size: 28
96049 AAGTCTGAGT
* * *
96059 GTAAAATAGTAATTTGGGAAAAATC-AGG
1 GTAAAAT-GGAATTTTGGAAAATTCGAGG
* *
96087 GTAAAAAATGGAACCTTTTAG-AAGTTCGAGG
1 GT--AAAATGGAA--TTTTGGAAAATTCGAGG
*
96118 GTAAAATGGTAATTTTGGAAAAATCGAGG
1 GTAAAATGG-AATTTTGGAAAATTCGAGG
* * * * *
96147 TTAAAAATAGAATTTTTGG-AAGTTTGGGG
1 GT-AAAATGGAA-TTTTGGAAAATTCGAGG
96176 GTAAAATGGTAATTTTTGGAAAA-TCGA-G
1 GTAAAATGG-AA-TTTTGGAAAATTCGAGG
* * **
96204 GTCAAAATGGAATTTTAGAAAGTTTAAGG
1 GT-AAAATGGAATTTTGGAAAATTCGAGG
*
96233 GTAAAATGGTAATTTTTGAAAAGTTCGA-G
1 GTAAAATGG-AATTTTGGAAAA-TTCGAGG
* * *
96262 GTCAAAAATGGAATTTTAGAAAGTTTGAGG
1 GT--AAAATGGAATTTTGGAAAATTCGAGG
96292 GTAAAA
1 GTAAAA
96298 ATGTATTTTT
Statistics
Matches: 162, Mismatches: 30, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
27 8 0.05
28 31 0.19
29 66 0.41
30 41 0.25
31 16 0.10
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.30
Consensus pattern (28 bp):
GTAAAATGGAATTTTGGAAAATTCGAGG
Found at i:96298 original size:29 final size:29
Alignment explanation
Indices: 96084--96300 Score: 160
Period size: 29 Copynumber: 7.4 Consensus size: 29
96074 GGGAAAAATC
96084 AGGGTAAAAAATGGAACCTTTTAG-AAGTTCG
1 AGGGT-AAAAATGGAA--TTTTAGAAAGTTCG
* **
96115 AGGGT-AAAATGGTAATTTTGGAAAAATCG
1 AGGGTAAAAATGG-AATTTTAGAAAGTTCG
* * * * *
96144 AGGTTAAAAATAGAATTTTTGGAAGTTTG
1 AGGGTAAAAATGGAATTTTAGAAAGTTCG
* * *
96173 GGGGT-AAAATGGTAATTTTTGGAAA-ATCG
1 AGGGTAAAAATGG-AA-TTTTAGAAAGTTCG
* **
96202 A-GGTCAAAATGGAATTTTAGAAAGTTTA
1 AGGGTAAAAATGGAATTTTAGAAAGTTCG
*
96230 AGGGT-AAAATGGTAATTTTTGAAAAGTTCG
1 AGGGTAAAAATGG-AATTTTAG-AAAGTTCG
*
96260 A-GGTCAAAAATGGAATTTTAGAAAGTTTG
1 AGGGT-AAAAATGGAATTTTAGAAAGTTCG
96289 AGGGTAAAAATG
1 AGGGTAAAAATG
96301 TATTTTTTGG
Statistics
Matches: 146, Mismatches: 27, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
27 8 0.05
28 25 0.17
29 69 0.47
30 32 0.22
31 12 0.08
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (29 bp):
AGGGTAAAAATGGAATTTTAGAAAGTTCG
Found at i:96316 original size:59 final size:59
Alignment explanation
Indices: 96002--96314 Score: 309
Period size: 59 Copynumber: 5.4 Consensus size: 59
95992 TCGATGGGGC
* * * * * * * * *
96002 AAAATGGTAATTTTGGGAATGTTCGGGGGTTAAAAACGAAATTTTAG-AAGTCTGAGTGT
1 AAAATGGTAATTTTTGGAAAGATC-GAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
* * * * *
96061 AAAATAGTAA-TTTGGGAAAAATC-AGGGTAAAAAATGGAACCTTTTAG-AAGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAAGATCGA-GGTCAAAAATGGAA--TTTTAGAAAGTTTGAGGGT
* * * * * *
96120 AAAATGGTAA-TTTTGGAAAAATCGAGGTTAAAAATAGAATTTTTGGAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGAAAGATCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
*
96178 AAAATGGTAATTTTTGGAAA-ATCGAGGTC-AAAATGGAATTTTAGAAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGAAAGATCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
* *
96235 AAAATGGTAATTTTTGAAAAGTTCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGAAAGATCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
*
96294 AAAAAT-GTATTTTTTGGAAAG
1 -AAAATGGTAATTTTTGGAAAG
96315 TTTAGGGGTC
Statistics
Matches: 216, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
57 58 0.27
58 46 0.21
59 106 0.49
60 6 0.03
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGAAAGATCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
Found at i:96317 original size:30 final size:29
Alignment explanation
Indices: 96108--96377 Score: 137
Period size: 30 Copynumber: 9.2 Consensus size: 29
96098 AACCTTTTAG
* *
96108 AAGTTCGAGGGT-AAAATGGTAATTTTGGA
1 AAGTTTGAGGGTAAAAAT-GTATTTTTGGA
** * * *
96137 AAAATCGAGGTTAAAAATAGAATTTTTGG-
1 AAGTTTGAGGGTAAAAAT-GTATTTTTGGA
*
96166 AAGTTTGGGGGT-AAAATGGTAATTTTTGGA
1 AAGTTTGAGGGTAAAAAT-GT-ATTTTTGGA
* * * * * *
96196 AA-ATCGA-GGTCAAAATGGAATTTTAGA
1 AAGTTTGAGGGTAAAAATGTATTTTTGGA
* *
96223 AAGTTTAAGGGT-AAAATGGTAATTTTTGAA
1 AAGTTTGAGGGTAAAAAT-GT-ATTTTTGGA
* * * *
96253 AAGTTCGA-GGTCAAAAATGGAATTTTAGA
1 AAGTTTGAGGGT-AAAAATGTATTTTTGGA
96282 AAGTTTGAGGGTAAAAATGTATTTTTTGGA
1 AAGTTTGAGGGTAAAAATGTA-TTTTTGGA
* * *
96312 AAGTTT-AGGGGTCAAAATATAATTTTGGA
1 AAGTTTGA-GGGTAAAAATGTATTTTTGGA
96341 GAAGTTT-AGAGGTCAAAATATG-ATTTTTGGA
1 -AAGTTTGAG-GGT-AAAA-ATGTATTTTTGGA
*
96372 TAGTTT
1 AAGTTT
96378 AAGGACCTCT
Statistics
Matches: 181, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
27 9 0.05
28 17 0.09
29 68 0.38
30 69 0.38
31 16 0.09
32 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (29 bp):
AAGTTTGAGGGTAAAAATGTATTTTTGGA
Found at i:96329 original size:59 final size:58
Alignment explanation
Indices: 96102--96352 Score: 249
Period size: 59 Copynumber: 4.3 Consensus size: 58
96092 AAATGGAACC
* ** * *
96102 TTTTAG-AAGTTCGAGGGTAAAATGGTAA-TTTTGGAAAAATCGAGGTTAAAAATAGAA
1 TTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGAGG-TCAAAATAGAA
* * * * * *
96159 TTTTTGGAAGTTTGGGGGTAAAATGGTAATTTTTGGAAA-ATCGAGGTCAAAATGGAA
1 TTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGAGGTCAAAATAGAA
* * * *
96216 TTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTTGAAAAGTTCGAGGTCAAAAATGGAA
1 TTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGAGGTC-AAAATAGAA
* * *
96275 TTTTAGAAAGTTTGAGGGTAAAAAT-GTATTTTTTGGAAAGTTTAGGGGTCAAAATATAA
1 TTTTAGAAAGTTTGAGGGT-AAAATGGTAATTTTTGGAAAG-TTAGAGGTCAAAATAGAA
*
96334 TTTTGGAGAAGTTTAGAGG
1 TTTTAGA-AAGTTT-GAGG
96353 TCAAAATATG
Statistics
Matches: 167, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
57 48 0.29
58 35 0.21
59 62 0.37
60 18 0.11
61 4 0.02
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.33
Consensus pattern (58 bp):
TTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGAGGTCAAAATAGAA
Found at i:97510 original size:13 final size:13
Alignment explanation
Indices: 97492--97539 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
97482 GCTATTATTA
*
97492 TTATTATTATTAT
1 TTATTATTACTAT
* * *
97505 TTATTAATGCTAA
1 TTATTATTACTAT
*
97518 TTATTATTACTGT
1 TTATTATTACTAT
97531 TTATTATTA
1 TTATTATTA
97540 ATGTTATTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (13 bp):
TTATTATTACTAT
Found at i:98309 original size:17 final size:17
Alignment explanation
Indices: 98289--98351 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 17
98279 AAATGTATTT
* *
98289 TAAATTCAAATTTATAA
1 TAAATTTAAATTTAAAA
98306 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* * *
98323 TATACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
98340 TAAATTTAAATT
1 TAAATTTAAATT
98352 CTGTTGAGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:98670 original size:46 final size:45
Alignment explanation
Indices: 98618--98707 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 45
98608 TTATCCTATT
*
98618 TTTAATTTAATATTTGATATTTTAGATATTTTTTA-TTAATATTTAA
1 TTTAATTTAATATTTGATA-TTT-GATATTTTTAATTTAATATTTAA
*
98664 TTTAATTTAATGTTTGATATTTGATATTTTTAATTTAATATTTA
1 TTTAATTTAATATTTGATATTTGATATTTTTAATTTAATATTTA
98708 TTGTTTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 10 0.24
45 13 0.32
46 18 0.44
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (45 bp):
TTTAATTTAATATTTGATATTTGATATTTTTAATTTAATATTTAA
Found at i:99875 original size:49 final size:49
Alignment explanation
Indices: 99822--100240 Score: 203
Period size: 49 Copynumber: 8.3 Consensus size: 49
99812 TCATTGTGAT
*
99822 TTAAACCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGTGGC
1 TTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGTGGC
* *
99871 TTAAATCTTTCCCTTCATGTCTTCGTATTTTTGCAGTACTAGATCCGCCGTTGTGGC
1 TTAAATCTTTCCCTTCATGTCTTC--A----TG--GTACTGGATTCGCCGTTGTGGC
* * * * ** *
99928 TTAGATCTTTCCCTTCATGTCTCTGA-GGTA-TAAGG-TTCACCATTACGAC
1 TTAAATCTTTCCCTTCATGTCT-TCATGGTACT--GGATTCGCCGTTGTGGC
* * ** * * * * * *
99977 TTAAACCCTTCCCTTTGTGCCTTTACGGTACTGGATCCGCCGTTGCGAC
1 TTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGTGGC
* * * * * * *
100026 TTAGATATTTCCCTTCATGCCTTTGA-GGTACTAGG-TTCGCCATTGCGAC
1 TTAAATCTTTCCCTTCATGTC-TTCATGGTACT-GGATTCGCCGTTGTGGC
* * * *
100075 TTAAA-CATTTCCCTT-GTGTCTTCATTGCGGTACTAGATCCGCCGTTGTTGC
1 TTAAATC-TTTCCCTTCATGTCTTCA-T--GGTACTGGATTCGCCGTTGTGGC
* * *
100126 TTATATCTTTCCCTTCATGTCTTC-TGAGGTACTGGGTTCGCCATT-TGCGAC
1 TTAAATCTTTCCCTTCATGTCTTCAT--GGTACTGGATTCGCCGTTGTG-G-C
* * * * *
100177 TTAAACCTTTCCCTT-GTGTCTTCGTGGTACTGGATACGCTGTT-TCGGC
1 TTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGT-GGC
*
100225 TTAGATCTTTCCCTTC
1 TTAAATCTTTCCCTTC
100241 GTGTTTCCTG
Statistics
Matches: 281, Mismatches: 60, Indels: 58
0.70 0.15 0.15
Matches are distributed among these distances:
47 3 0.01
48 22 0.08
49 126 0.45
50 33 0.12
51 44 0.16
52 8 0.03
55 2 0.01
56 1 0.00
57 41 0.15
58 1 0.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (49 bp):
TTAAATCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGTGGC
Found at i:100037 original size:98 final size:97
Alignment explanation
Indices: 99900--100240 Score: 396
Period size: 98 Copynumber: 3.5 Consensus size: 97
99890 TCTTCGTATT
* *
99900 TTTGCAGTACTAGATCCGCCGTTGTGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTA-TAAGGT
1 TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACT-AGGT
* * *
99964 TCACCATTACGACTTAAACCCTTCCCTTTGTGCC
65 TCGCCATTGCGACTTAAACCTTTCCC-TTGTGCC
* * * * * *
99998 TTTACGGTACTGGATCCGCCGTTGCGACTTAGATATTTCCCTTCATGCCTTTGAGGTACTAGGTT
1 TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTT
*
100063 CGCCATTGCGACTTAAACATTTCCCTTGTGTCTTC
66 CGCCATTGCGACTTAAACCTTTCCCTTGTG-C--C
* ** * *
100098 ATTGCGGTACTAGATCCGCCGTTGTTGCTTATATCTTTCCCTTCATGTCTTCTGAGGTACTGGGT
1 TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTC-TCTGAGGTACTAGGT
*
100163 TCGCCATTTGCGACTTAAACCTTTCCCTTGTGTC
65 TCGCCA-TTGCGACTTAAACCTTTCCCTTGTGCC
* * * * * *
100197 TTCGTGGTACTGGATACGCTGTTTCGGCTTAGATCTTTCCCTTC
1 TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTC
100241 GTGTTTCCTG
Statistics
Matches: 202, Mismatches: 35, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
97 5 0.02
98 77 0.38
99 36 0.18
100 41 0.20
101 19 0.09
102 24 0.12
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (97 bp):
TTTGCGGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTT
CGCCATTGCGACTTAAACCTTTCCCTTGTGCC
Found at i:111491 original size:29 final size:28
Alignment explanation
Indices: 111406--111644 Score: 130
Period size: 29 Copynumber: 8.2 Consensus size: 28
111396 AAGTCTGAGT
* * *
111406 GTAAAATAGTAATTTGGGAAAAATC-AGG
1 GTAAAAT-GGAATTTTGGAAAATTCGAGG
* *
111434 GTAAAAAATGGAACCTTTTAG-AAGTTCGAGG
1 GT--AAAATGGAA--TTTTGGAAAATTCGAGG
*
111465 GTAAAATGGTAATTTTGGAAAAATCGAGG
1 GTAAAATGG-AATTTTGGAAAATTCGAGG
* * * * *
111494 TTAAAAATAGAATTTTTGG-AAGTTTGGGG
1 GT-AAAATGGAA-TTTTGGAAAATTCGAGG
111523 GTAAAATGGTAATTTTTGGAAAA-TCGA-G
1 GTAAAATGG-AA-TTTTGGAAAATTCGAGG
* * **
111551 GTCAAAATGGAATTTTAGAAAGTTTAAGG
1 GT-AAAATGGAATTTTGGAAAATTCGAGG
*
111580 GTAAAATGGTAATTTTTGAAAAGTTCGA-G
1 GTAAAATGG-AATTTTGGAAAA-TTCGAGG
* * *
111609 GTCAAAAATGGAATTTTAGAAAGTTTGAGG
1 GT--AAAATGGAATTTTGGAAAATTCGAGG
111639 GTAAAA
1 GTAAAA
111645 ATGTATTTTT
Statistics
Matches: 162, Mismatches: 30, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
27 8 0.05
28 31 0.19
29 66 0.41
30 41 0.25
31 16 0.10
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.30
Consensus pattern (28 bp):
GTAAAATGGAATTTTGGAAAATTCGAGG
Found at i:111645 original size:29 final size:29
Alignment explanation
Indices: 111431--111647 Score: 160
Period size: 29 Copynumber: 7.4 Consensus size: 29
111421 GGGAAAAATC
111431 AGGGTAAAAAATGGAACCTTTTAG-AAGTTCG
1 AGGGT-AAAAATGGAA--TTTTAGAAAGTTCG
* **
111462 AGGGT-AAAATGGTAATTTTGGAAAAATCG
1 AGGGTAAAAATGG-AATTTTAGAAAGTTCG
* * * * *
111491 AGGTTAAAAATAGAATTTTTGGAAGTTTG
1 AGGGTAAAAATGGAATTTTAGAAAGTTCG
* * *
111520 GGGGT-AAAATGGTAATTTTTGGAAA-ATCG
1 AGGGTAAAAATGG-AA-TTTTAGAAAGTTCG
* **
111549 A-GGTCAAAATGGAATTTTAGAAAGTTTA
1 AGGGTAAAAATGGAATTTTAGAAAGTTCG
*
111577 AGGGT-AAAATGGTAATTTTTGAAAAGTTCG
1 AGGGTAAAAATGG-AATTTTAG-AAAGTTCG
*
111607 A-GGTCAAAAATGGAATTTTAGAAAGTTTG
1 AGGGT-AAAAATGGAATTTTAGAAAGTTCG
111636 AGGGTAAAAATG
1 AGGGTAAAAATG
111648 TATTTTTTGG
Statistics
Matches: 146, Mismatches: 27, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
27 8 0.05
28 25 0.17
29 69 0.47
30 32 0.22
31 12 0.08
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (29 bp):
AGGGTAAAAATGGAATTTTAGAAAGTTCG
Found at i:111663 original size:59 final size:59
Alignment explanation
Indices: 111349--111661 Score: 309
Period size: 59 Copynumber: 5.4 Consensus size: 59
111339 TCGATGGGGC
* * * * * * * * *
111349 AAAATGGTAATTTTGGGAATGTTCGGGGGTTAAAAACGAAATTTTAG-AAGTCTGAGTGT
1 AAAATGGTAATTTTTGGAAAGATC-GAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
* * * * *
111408 AAAATAGTAA-TTTGGGAAAAATC-AGGGTAAAAAATGGAACCTTTTAG-AAGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAAGATCGA-GGTCAAAAATGGAA--TTTTAGAAAGTTTGAGGGT
* * * * * *
111467 AAAATGGTAA-TTTTGGAAAAATCGAGGTTAAAAATAGAATTTTTGGAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGAAAGATCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
*
111525 AAAATGGTAATTTTTGGAAA-ATCGAGGTC-AAAATGGAATTTTAGAAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGAAAGATCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
* *
111582 AAAATGGTAATTTTTGAAAAGTTCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGAAAGATCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
*
111641 AAAAAT-GTATTTTTTGGAAAG
1 -AAAATGGTAATTTTTGGAAAG
111662 TTTAGGGGTC
Statistics
Matches: 216, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
57 58 0.27
58 46 0.21
59 106 0.49
60 6 0.03
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGAAAGATCGAGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
Found at i:111664 original size:30 final size:29
Alignment explanation
Indices: 111455--111724 Score: 137
Period size: 30 Copynumber: 9.2 Consensus size: 29
111445 AACCTTTTAG
* *
111455 AAGTTCGAGGGT-AAAATGGTAATTTTGGA
1 AAGTTTGAGGGTAAAAAT-GTATTTTTGGA
** * * *
111484 AAAATCGAGGTTAAAAATAGAATTTTTGG-
1 AAGTTTGAGGGTAAAAAT-GTATTTTTGGA
*
111513 AAGTTTGGGGGT-AAAATGGTAATTTTTGGA
1 AAGTTTGAGGGTAAAAAT-GT-ATTTTTGGA
* * * * * *
111543 AA-ATCGA-GGTCAAAATGGAATTTTAGA
1 AAGTTTGAGGGTAAAAATGTATTTTTGGA
* *
111570 AAGTTTAAGGGT-AAAATGGTAATTTTTGAA
1 AAGTTTGAGGGTAAAAAT-GT-ATTTTTGGA
* * * *
111600 AAGTTCGA-GGTCAAAAATGGAATTTTAGA
1 AAGTTTGAGGGT-AAAAATGTATTTTTGGA
111629 AAGTTTGAGGGTAAAAATGTATTTTTTGGA
1 AAGTTTGAGGGTAAAAATGTA-TTTTTGGA
* * *
111659 AAGTTT-AGGGGTCAAAATATAATTTTGGA
1 AAGTTTGA-GGGTAAAAATGTATTTTTGGA
111688 GAAGTTT-AGAGGTCAAAATATG-ATTTTTGGA
1 -AAGTTTGAG-GGT-AAAA-ATGTATTTTTGGA
*
111719 TAGTTT
1 AAGTTT
111725 AAGGACCTCT
Statistics
Matches: 181, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
27 9 0.05
28 17 0.09
29 68 0.38
30 69 0.38
31 16 0.09
32 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (29 bp):
AAGTTTGAGGGTAAAAATGTATTTTTGGA
Found at i:111676 original size:59 final size:58
Alignment explanation
Indices: 111449--111699 Score: 249
Period size: 59 Copynumber: 4.3 Consensus size: 58
111439 AAATGGAACC
* ** * *
111449 TTTTAG-AAGTTCGAGGGTAAAATGGTAA-TTTTGGAAAAATCGAGGTTAAAAATAGAA
1 TTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGAGG-TCAAAATAGAA
* * * * * *
111506 TTTTTGGAAGTTTGGGGGTAAAATGGTAATTTTTGGAAA-ATCGAGGTCAAAATGGAA
1 TTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGAGGTCAAAATAGAA
* * * *
111563 TTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTTGAAAAGTTCGAGGTCAAAAATGGAA
1 TTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGAGGTC-AAAATAGAA
* * *
111622 TTTTAGAAAGTTTGAGGGTAAAAAT-GTATTTTTTGGAAAGTTTAGGGGTCAAAATATAA
1 TTTTAGAAAGTTTGAGGGT-AAAATGGTAATTTTTGGAAAG-TTAGAGGTCAAAATAGAA
*
111681 TTTTGGAGAAGTTTAGAGG
1 TTTTAGA-AAGTTT-GAGG
111700 TCAAAATATG
Statistics
Matches: 167, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
57 48 0.29
58 35 0.21
59 62 0.37
60 18 0.11
61 4 0.02
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.33
Consensus pattern (58 bp):
TTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGAGGTCAAAATAGAA
Found at i:112857 original size:13 final size:13
Alignment explanation
Indices: 112839--112886 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
112829 GCTATTATTA
*
112839 TTATTATTATTAT
1 TTATTATTACTAT
* * *
112852 TTATTAATGCTAA
1 TTATTATTACTAT
*
112865 TTATTATTACTGT
1 TTATTATTACTAT
112878 TTATTATTA
1 TTATTATTA
112887 ATGTTATTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (13 bp):
TTATTATTACTAT
Found at i:113656 original size:17 final size:17
Alignment explanation
Indices: 113636--113698 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 17
113626 AAATGTATTT
* *
113636 TAAATTCAAATTTATAA
1 TAAATTTAAATTTAAAA
113653 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* * *
113670 TATACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
113687 TAAATTTAAATT
1 TAAATTTAAATT
113699 CTGTTGAGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:114017 original size:46 final size:45
Alignment explanation
Indices: 113965--114054 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 45
113955 TTATCCTATT
*
113965 TTTAATTTAATATTTGATATTTTAGATATTTTTTA-TTAATATTTAA
1 TTTAATTTAATATTTGATA-TTT-GATATTTTTAATTTAATATTTAA
*
114011 TTTAATTTAATGTTTGATATTTGATATTTTTAATTTAATATTTA
1 TTTAATTTAATATTTGATATTTGATATTTTTAATTTAATATTTA
114055 TTGTTTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 10 0.24
45 13 0.32
46 18 0.44
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (45 bp):
TTTAATTTAATATTTGATATTTGATATTTTTAATTTAATATTTAA
Found at i:121185 original size:26 final size:27
Alignment explanation
Indices: 121156--121207 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
121146 TTATTTTTAA
121156 TAATATAAA-GATTAAATTCAT-CCATT
1 TAATA-AAATGATTAAATTCATACCATT
*
121182 TAATAAAATGATTAATTTCATACCAT
1 TAATAAAATGATTAAATTCATACCAT
121208 CCTTATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 16 0.70
27 4 0.17
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (27 bp):
TAATAAAATGATTAAATTCATACCATT
Found at i:137496 original size:4 final size:4
Alignment explanation
Indices: 137487--137572 Score: 61
Period size: 4 Copynumber: 21.2 Consensus size: 4
137477 AAATAAACGG
* * * *
137487 GAAA GAAA GAAA GGAAA GAAA GAAA GGAA GGAA GAAG GAGAG GAAA GAAA
1 GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA
* *
137537 G-AA GAAG GAGAG GAAA GAAA G-AA G-AA GAAAA GAAA G
1 GAAA GAAA GA-AA GAAA GAAA GAAA GAAA G-AAA GAAA G
137573 GTAATATGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
3 9 0.13
4 46 0.66
5 15 0.21
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:137504 original size:13 final size:13
Alignment explanation
Indices: 137486--137559 Score: 75
Period size: 13 Copynumber: 5.9 Consensus size: 13
137476 AAAATAAACG
137486 GGAAAGAAAGAAA
1 GGAAAGAAAGAAA
137499 GGAAAGAAAGAAA
1 GGAAAGAAAGAAA
*
137512 GG-AAGGAAG-AA
1 GGAAAGAAAGAAA
*
137523 GGAGAGGAAAGAAA
1 GGA-AAGAAAGAAA
* *
137537 -G-AAGAAGGAGA
1 GGAAAGAAAGAAA
137548 GGAAAGAAAGAA
1 GGAAAGAAAGAA
137560 GAAGAAAAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
11 11 0.23
12 7 0.15
13 28 0.58
14 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
GGAAAGAAAGAAA
Found at i:137509 original size:17 final size:17
Alignment explanation
Indices: 137487--137572 Score: 74
Period size: 17 Copynumber: 5.3 Consensus size: 17
137477 AAATAAACGG
137487 GAAAGAAAGAAAGGAAA
1 GAAAGAAAGAAAGGAAA
*
137504 GAAAGAAAGGAAGG-AA
1 GAAAGAAAGAAAGGAAA
* *
137520 GAAGGAGAGGAAA-GAAA
1 GAAAGA-AAGAAAGGAAA
* *
137537 G-AAGAAGGAGAGGAAA
1 GAAAGAAAGAAAGGAAA
*
137553 GAAAG-AAG-AAGAAAA
1 GAAAGAAAGAAAGGAAA
137568 GAAAG
1 GAAAG
137573 GTAATATGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
15 15 0.27
16 18 0.32
17 23 0.41
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
GAAAGAAAGAAAGGAAA
Found at i:137521 original size:29 final size:29
Alignment explanation
Indices: 137489--137573 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
137479 ATAAACGGGA
137489 AAGAAAGAAAGGAAAGAAAGAAAGGAAGG
1 AAGAAAGAAAGGAAAGAAAGAAAGGAAGG
* *
137518 AAGAAGGAGAGGAAAGAAAG-AA-GAAGG
1 AAGAAAGAAAGGAAAGAAAGAAAGGAAGG
*
137545 AGAGGAAAGAAAGAAGAAGAAAAGAAAGG
1 A-A-GAAAGAAAGGA-AAG-AAAGAAAGG
137574 TAATATGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
27 6 0.13
28 3 0.07
29 26 0.58
30 3 0.07
31 4 0.09
32 2 0.04
33 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (29 bp):
AAGAAAGAAAGGAAAGAAAGAAAGGAAGG
Found at i:137542 original size:20 final size:20
Alignment explanation
Indices: 137486--137563 Score: 95
Period size: 20 Copynumber: 3.8 Consensus size: 20
137476 AAAATAAACG
*
137486 GGAAAGAAAGAAAGGAAAGA-A
1 GGAAAGAAAG-AA-GAAGGAGA
* *
137507 AGAAAGGAAGGAAGAAGGAGA
1 GGAAA-GAAAGAAGAAGGAGA
137528 GGAAAGAAAGAAGAAGGAGA
1 GGAAAGAAAGAAGAAGGAGA
137548 GGAAAGAAAGAAGAAG
1 GGAAAGAAAGAAGAAG
137564 AAAAGAAAGG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
20 35 0.70
21 11 0.22
22 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
GGAAAGAAAGAAGAAGGAGA
Done.