Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 45 of 64
Found at i:7155599 original size:30 final size:32
Alignment explanation
Indices: 7155493--7155633 Score: 111
Period size: 30 Copynumber: 4.6 Consensus size: 32
7155483 TTTATTTATT
* *
7155493 TATTATTA-CTATTATTATTTAT-TAAT-ATA
1 TATTATTATTTATTATTATTTATCTATTAATA
* *
7155522 TAATTTATTA-TTATTATTA-TTAT-TATTTATC
1 T-A-TTATTATTTATTATTATTTATCTATTAATA
** *
7155553 TATTAACATATT-TTATTATTTATCTGTTAATA
1 TATTATTAT-TTATTATTATTTATCTATTAATA
*
7155585 TA-TA-TATTTATTATTATTTATCTATTCATA
1 TATTATTATTTATTATTATTTATCTATTAATA
7155615 TATTATTATTTATCTATTA
1 TATTATTATTTAT-TATTA
7155634 ATATATATCT
Statistics
Matches: 90, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
29 7 0.08
30 37 0.41
31 27 0.30
32 14 0.16
33 5 0.06
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (32 bp):
TATTATTATTTATTATTATTTATCTATTAATA
Found at i:7155620 original size:22 final size:22
Alignment explanation
Indices: 7155593--7155639 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
7155583 TATATATATT
*
7155593 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTAATA
7155615 TATTATTATTTATCTATTAATA
1 TATTATTATTTATCTATTAATA
7155637 TAT
1 TAT
7155640 ATCTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTATTTATCTATTAATA
Found at i:7156602 original size:59 final size:58
Alignment explanation
Indices: 7156536--7156721 Score: 169
Period size: 59 Copynumber: 3.2 Consensus size: 58
7156526 TTATTTTTTG
* *
7156536 ATTTTCTTTAAATAAAAATTCTAAAAAAAATATTTTTGAGGAGAAGTTAAAAGTATCA
1 ATTTTCTTTAAATAAAATTTCTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCA
* ** * * * * *
7156594 ATTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTTTTG-GAAAAAATTTAAAGTATCA
1 A-TTTTCTT-TAAATAAAATTTCTAAAAAA-AATATTTTTGAGGAAAAGTTAAAAGTATCA
* * *** *
7156654 ATTTTCCTTAAA-AATAAGTTTTTTCTAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTAAATAA-AA-TTTCTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCA
7156713 ATTTTCTTT
1 ATTTTCTTT
7156722 GGAAATAATG
Statistics
Matches: 98, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
57 2 0.02
58 12 0.12
59 44 0.45
60 32 0.33
61 8 0.08
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (58 bp):
ATTTTCTTTAAATAAAATTTCTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCA
Found at i:7156618 original size:60 final size:60
Alignment explanation
Indices: 7156554--7156843 Score: 216
Period size: 60 Copynumber: 4.8 Consensus size: 60
7156544 TAAATAAAAA
*
7156554 TTCTAAAAAAAATATTTTTGAGGAGAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGTT
1 TTCTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGTT
* * * * * * *
7156614 TTCTAAAAAATATTTTTTTTG-GAAAAAATTTAAAGTATCAATTTTCCTTAAAAATAAGTT
1 TTCTAAAAAA-AATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGTT
*** * * *
7156674 TT-TTCTAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGGAAATAA-TG
1 TTCTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTC-TTGAAAATAAGTT
** * ** * * * *
7156732 TTCTAAAAAAGGTTTTTTTTTCTCGAAAAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAG-
1 TTCTAAAAAA---AATATTTT-T-GAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAAT-AAGT
7156796 -
60 T
* * * *
7156796 -TCTCAAGAAAATATTTTCGAAGAAAAGTTAAAAGTATCAATTTTTCTT
1 TTCTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTT
7156844 ATGTAAAAGC
Statistics
Matches: 176, Mismatches: 42, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
58 41 0.23
59 33 0.19
60 50 0.28
61 8 0.05
62 5 0.03
63 8 0.05
64 24 0.14
65 7 0.04
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (60 bp):
TTCTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGTT
Found at i:7156716 original size:119 final size:120
Alignment explanation
Indices: 7156560--7156843 Score: 328
Period size: 119 Copynumber: 2.4 Consensus size: 120
7156550 AAAATTCTAA
* *
7156560 AAAAAATATTTTTGAGGAGAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAAA-
1 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAA-TGTTCTAAAAAAG
* * * *
7156624 TATTTTTTT-T-G-GAAAAAATTTAAAGTATCAATTTTCCTTAAAAAT-AAGTTTTTTC
65 TATTTTTTTCTCGAAAAAAAATTGAAAGTATCAATTTTCCTCAAAAATAAAG---TCTC
* * *
7156679 TAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGGAAATAATGTTCTAAAAAAG
1 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTC-TTGAAAATAATGTTCTAAAAAA-
* * * *
7156743 GTTTTTTTTTCTCGAAAAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTCTC
64 GTATTTTTTTCTCGAAAAAAAATTGAAAGTATCAATTTTCCTCAAAAATAAAGTCTC
* *
7156800 AAGAAAATATTTTCGAAGAAAAGTTAAAAGTATCAATTTTTCTT
1 AA-AAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTT
7156844 ATGTAAAAGC
Statistics
Matches: 139, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
118 16 0.12
119 41 0.29
120 8 0.06
121 5 0.04
122 33 0.24
123 33 0.24
124 3 0.02
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (120 bp):
AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAATGTTCTAAAAAAGT
ATTTTTTTCTCGAAAAAAAATTGAAAGTATCAATTTTCCTCAAAAATAAAGTCTC
Found at i:7156728 original size:59 final size:58
Alignment explanation
Indices: 7156560--7156741 Score: 208
Period size: 59 Copynumber: 3.1 Consensus size: 58
7156550 AAAATTCTAA
*
7156560 AAAAAATATTTTTGAGGAGAAGTTAAAAGTATCAATTTT-TCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCT-TTGAAAATAAGTTTTCT
** * * * *
7156618 AAAAAATATTTTTTTTGGAAAAAATTTAAAGTATCAATTTTCCTTAAAAATAAGTTTTTTCT
1 AAAAAATA-TTTTTGAGG-AAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAG--TTTTCT
* * *
7156680 -AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGGAAATAA-TGTTCT
1 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAGTTTTCT
7156736 AAAAAA
1 AAAAAA
7156742 GGTTTTTTTT
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
56 5 0.05
57 5 0.05
58 8 0.08
59 36 0.35
60 36 0.35
61 7 0.07
62 6 0.06
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAGTTTTCT
Found at i:7161350 original size:52 final size:50
Alignment explanation
Indices: 7161230--7161351 Score: 122
Period size: 52 Copynumber: 2.4 Consensus size: 50
7161220 GAGTTTTGAT
* * * *
7161230 TTTAGGGTTTTGGTTTTATGGTTTAGAGGTTTAGGGTTTCAAGGGTTTCAA
1 TTTAAGGTTTTGATTTTATGGTCTAGAGGTTTA-GGTTTCAAGGGTTTAAA
* *
7161281 TTTGAGGTTTTGAATTTTATGGTCTAGAGGGTTTA-GTTTTAA-GGTTTGAAAGA
1 TTTAAGGTTTTG-ATTTTATGGTCTAGA-GGTTTAGGTTTCAAGGGTTT--AA-A
7161334 TTTAAGGTTTTGATTTTA
1 TTTAAGGTTTTGATTTTA
7161352 GGATTTAAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
50 5 0.08
51 16 0.27
52 20 0.34
53 18 0.31
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.48
Consensus pattern (50 bp):
TTTAAGGTTTTGATTTTATGGTCTAGAGGTTTAGGTTTCAAGGGTTTAAA
Found at i:7161403 original size:60 final size:58
Alignment explanation
Indices: 7161329--7161468 Score: 169
Period size: 60 Copynumber: 2.4 Consensus size: 58
7161319 TTAAGGTTTG
*
7161329 AAAGATTTAAGGTTTT-GATTTTAGGATTTAAAGGGTTTTAGGGTTTCGATTTTAGGGTT
1 AAAGATTTAAGGTTTTAG-TTTTAGGATTTAAAGGG-TTTAAGGTTTCGATTTTAGGGTT
* * *
7161388 AAAGAGTTTAGGGTTTTAGTTTTAGGATTTGAAGGGTTTAAGGTTTCGATTTTAGCGTTT
1 AAAGA-TTTAAGGTTTTAGTTTTAGGATTTAAAGGGTTTAAGGTTTCGATTTTAG-GGTT
*
7161448 GAAG-TTT-AGGATTTTAGTTTT
1 AAAGATTTAAGG-TTTTAGTTTT
7161469 TGAAAAAGAC
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
57 2 0.03
58 13 0.18
59 23 0.32
60 32 0.45
61 1 0.01
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.46
Consensus pattern (58 bp):
AAAGATTTAAGGTTTTAGTTTTAGGATTTAAAGGGTTTAAGGTTTCGATTTTAGGGTT
Found at i:7161413 original size:14 final size:15
Alignment explanation
Indices: 7161364--7161413 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
7161354 ATTTAAAGGG
*
7161364 TTTTAGGG-TTTCGA
1 TTTTAGGGTTTTAGA
**
7161378 TTTTAGGGTTAAAGA
1 TTTTAGGGTTTTAGA
*
7161393 GTTTAGGGTTTTAG-
1 TTTTAGGGTTTTAGA
7161407 TTTTAGG
1 TTTTAGG
7161414 ATTTGAAGGG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 14 0.50
15 14 0.50
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (15 bp):
TTTTAGGGTTTTAGA
Found at i:7161451 original size:30 final size:29
Alignment explanation
Indices: 7161317--7161451 Score: 119
Period size: 30 Copynumber: 4.5 Consensus size: 29
7161307 GAGGGTTTAG
* * *
7161317 TTTTAAGGTTTGAAAGATTTAAGGTTTTGA
1 TTTT-AGGTTTGAAGGGTTTAAGGTTTCGA
* *
7161347 TTTTAGGATTTAAAGGGTTTTAGGGTTTCGA
1 TTTTAGG-TTTGAAGGG-TTTAAGGTTTCGA
* * * * *
7161378 TTTTAGGGTTAAAGAGTTTAGGGTTT-TA
1 TTTTAGGTTTGAAGGGTTTAAGGTTTCGA
7161406 GTTTTAGGATTTGAAGGGTTTAAGGTTTCGA
1 -TTTTAGG-TTTGAAGGGTTTAAGGTTTCGA
7161437 TTTTAGCGTTTGAAG
1 TTTTAG-GTTTGAAG
7161452 TTTAGGATTT
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
28 1 0.01
29 20 0.23
30 45 0.52
31 20 0.23
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.45
Consensus pattern (29 bp):
TTTTAGGTTTGAAGGGTTTAAGGTTTCGA
Found at i:7161633 original size:18 final size:19
Alignment explanation
Indices: 7161593--7161637 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
7161583 TTTTATGAAA
7161593 ATTTATTATTATTATTAAT
1 ATTTATTATTATTATTAAT
* *
7161612 -TTTATTATTGTT-TTATT
1 ATTTATTATTATTATTAAT
7161629 ATTTATTAT
1 ATTTATTAT
7161638 CTTTTTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTATTATTATTATTAAT
Found at i:7161848 original size:13 final size:13
Alignment explanation
Indices: 7161830--7161865 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7161820 TGTTTTCATT
* *
7161830 TTATTATTATTTA
1 TTATTATAAATTA
7161843 TTATTATAAATTA
1 TTATTATAAATTA
7161856 TTATTATAAA
1 TTATTATAAA
7161866 ATAGTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATTATAAATTA
Found at i:7163447 original size:16 final size:17
Alignment explanation
Indices: 7163428--7163487 Score: 74
Period size: 16 Copynumber: 3.7 Consensus size: 17
7163418 TTCAAAATTT
7163428 TTTTTTTGTTTTGT-TA
1 TTTTTTTGTTTTGTATA
7163444 TTTTTTTTGTTTT-TATA
1 -TTTTTTTGTTTTGTATA
*
7163461 TTTTTTTGTTTTGTCT-
1 TTTTTTTGTTTTGTATA
7163477 TTTTTTT-TTTT
1 TTTTTTTGTTTT
7163488 AGGAATGAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 4 0.10
16 20 0.50
17 16 0.40
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.85
Consensus pattern (17 bp):
TTTTTTTGTTTTGTATA
Found at i:7163449 original size:17 final size:17
Alignment explanation
Indices: 7163427--7163484 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
7163417 TTTCAAAATT
7163427 TTTTTTTTGTTTTGTTA
1 TTTTTTTTGTTTTGTTA
7163444 TTTTTTTTG-TTT-TTA
1 TTTTTTTTGTTTTGTTA
7163459 TATTTTTTTGTTTTGTCT-
1 T-TTTTTTTGTTTTGT-TA
7163477 TTTTTTTT
1 TTTTTTTT
7163485 TTTAGGAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.11
16 11 0.30
17 19 0.51
18 2 0.05
19 1 0.03
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.84
Consensus pattern (17 bp):
TTTTTTTTGTTTTGTTA
Found at i:7163585 original size:36 final size:36
Alignment explanation
Indices: 7163534--7163629 Score: 115
Period size: 36 Copynumber: 2.7 Consensus size: 36
7163524 CTAGGATAAT
* *
7163534 ATCGCAAGTTGAAAAATAAAGAATGA-CAGGGACAAC
1 ATCGTAAGTTGAAAAATAAAGAATAATCA-GGACAAC
* *
7163570 A-CTGTGAGTTTAAAAATAAAGAATAATCAGGACAAC
1 ATC-GTAAGTTGAAAAATAAAGAATAATCAGGACAAC
*
7163606 ATCGTAAGTTGAGAAATAAAGAAT
1 ATCGTAAGTTGAAAAATAAAGAAT
7163630 TGATCGAGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
35 1 0.02
36 46 0.92
37 3 0.06
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (36 bp):
ATCGTAAGTTGAAAAATAAAGAATAATCAGGACAAC
Found at i:7163833 original size:22 final size:22
Alignment explanation
Indices: 7163802--7163859 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
7163792 TAAAATTTTT
*
7163802 TGCTTGGAGGTTTTAAAAATTA
1 TGCTTAGAGGTTTTAAAAATTA
* * *
7163824 TGCTTAGAGGTCTTAGAGATTA
1 TGCTTAGAGGTTTTAAAAATTA
* *
7163846 TGCCTAAAGGTTTT
1 TGCTTAGAGGTTTT
7163860 GAAGATTACA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.40
Consensus pattern (22 bp):
TGCTTAGAGGTTTTAAAAATTA
Found at i:7163865 original size:22 final size:21
Alignment explanation
Indices: 7163809--7163867 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
7163799 TTTTGCTTGG
* * *
7163809 AGGTTTTAAAAATTATGCTTAG
1 AGGTTTT-AAGATTATGCCTAA
*
7163831 AGGTCTTAGAGATTATGCCTAA
1 AGGTTTTA-AGATTATGCCTAA
7163853 AGGTTTTGAAGATTA
1 AGGTTTT-AAGATTA
7163868 CAAAATCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (21 bp):
AGGTTTTAAGATTATGCCTAA
Found at i:7163969 original size:97 final size:97
Alignment explanation
Indices: 7163868--7164329 Score: 529
Period size: 97 Copynumber: 4.8 Consensus size: 97
7163858 TTGAAGATTA
* *
7163868 CAAAATCTTTGAATGCTTTTCTCAATCAAAGGCAATGAAACTTTAAAATGTTTTGCCCAGAGGTC
1 CAAAATCTTTGAATGCTTTTCTCAATCAGAGGCAATGAAACTTTAAAATGTTTTACCCAGAGGTC
* *
7163933 TTAAAAATTATG-CTCGGAGGTCTTACAAATTT
66 TTAAAAATTATGCCT-GAAGATCTTACAAATTT
* * * ** *
7163965 CAAAATCTTTGAAT-ATTCTTCTCAATCAGAGACAATTAAACTTTAAAATGTTTTACTTAGAGAT
1 CAAAATCTTTGAATGCTT-TTCTCAATCAGAGGCAATGAAACTTTAAAATGTTTTACCCAGAGGT
* * **
7164029 CTTGAAAATTATTCCTGGTGATCTTACAAATTT
65 CTTAAAAATTATGCCTGAAGATCTTACAAATTT
* * *
7164062 CAAAATCTTTGAATGCTCTTCTCAATCAGAGGCAATGAAACTTTAAAATGTTTTACCCGGAGGCC
1 CAAAATCTTTGAATGCTTTTCTCAATCAGAGGCAATGAAACTTTAAAATGTTTTACCCAGAGGTC
* *
7164127 TTGAAATTTATGCCTGAAGATCTTACAAATTTT
66 TTAAAAATTATGCCTGAAGATCTTACAAA-TTT
* * * * * * ***
7164160 C-AAATCTTTGAATGCTCTTCCCAGTTAGAGTCAATGAAACTTTAAAATATTTTACTTGGAGGTC
1 CAAAATCTTTGAATGCTTTTCTCAATCAGAGGCAATGAAACTTTAAAATGTTTTACCCAGAGGTC
* *
7164224 TTAAAAATTATGCCCGAATATCTTACAAATTT
66 TTAAAAATTATGCCTGAAGATCTTACAAATTT
* * * *
7164256 CAAAATCTTTGAATG-TTCATCAT-AATAAAAGGCAATGAAACTTTAAAATGTTTTGCCCAGAGG
1 CAAAATCTTTGAATGCTT-TTC-TCAATCAGAGGCAATGAAACTTTAAAATGTTTTACCCAGAGG
*
7164319 TCTTATAAATT
64 TCTTAAAAATT
7164330 TCAAAATCTT
Statistics
Matches: 308, Mismatches: 50, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
96 7 0.02
97 294 0.95
98 7 0.02
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (97 bp):
CAAAATCTTTGAATGCTTTTCTCAATCAGAGGCAATGAAACTTTAAAATGTTTTACCCAGAGGTC
TTAAAAATTATGCCTGAAGATCTTACAAATTT
Found at i:7164155 original size:194 final size:194
Alignment explanation
Indices: 7163868--7164329 Score: 608
Period size: 194 Copynumber: 2.4 Consensus size: 194
7163858 TTGAAGATTA
* *
7163868 CAAAATCTTTGAATGCTTTTCTCAATCAAAGGCAATGAAACTTTAAAATGTTTTGCCCAGAGGTC
1 CAAAATCTTTGAATGCTCTTCTCAATCAAAGGCAATGAAACTTTAAAATGTTTTGCCCAGAGGCC
* * * *
7163933 TTAAAAATTATGCTCGGAGGTCTTACAAA-TTTCAAAATCTTTGAATATTCTTCTCAATCAGAGA
66 TTAAAAATTATGCTCGAAGATCTTACAAATTTTC-AAATCTTTGAATACTCTTCCCAATCAGAGA
* * * * * *
7163997 CAATTAAACTTTAAAATGTTTTACTTAGAGATCTTGAAAATTATTCCTG-GTGATCTTACAAATT
130 CAATGAAACTTTAAAATATTTTACTTAGAGATCTTAAAAATTATGCCCGAAT-ATCTTACAAATT
7164061 T
194 T
* * *
7164062 CAAAATCTTTGAATGCTCTTCTCAATCAGAGGCAATGAAACTTTAAAATGTTTTACCCGGAGGCC
1 CAAAATCTTTGAATGCTCTTCTCAATCAAAGGCAATGAAACTTTAAAATGTTTTGCCCAGAGGCC
* * * * * *
7164127 TTGAAATTTATGC-CTGAAGATCTTACAAATTTTCAAATCTTTGAATGCTCTTCCCAGTTAGAGT
66 TTAAAAATTATGCTC-GAAGATCTTACAAATTTTCAAATCTTTGAATACTCTTCCCAATCAGAGA
* *
7164191 CAATGAAACTTTAAAATATTTTACTTGGAGGTCTTAAAAATTATGCCCGAATATCTTACAAATTT
130 CAATGAAACTTTAAAATATTTTACTTAGAGATCTTAAAAATTATGCCCGAATATCTTACAAATTT
* * * *
7164256 CAAAATCTTTGAATGTTCATCAT-AATAAAAGGCAATGAAACTTTAAAATGTTTTGCCCAGAGGT
1 CAAAATCTTTGAATGCTCTTC-TCAATCAAAGGCAATGAAACTTTAAAATGTTTTGCCCAGAGGC
*
7164320 CTTATAAATT
65 CTTAAAAATT
7164330 TCAAAATCTT
Statistics
Matches: 231, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
193 1 0.00
194 224 0.97
195 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (194 bp):
CAAAATCTTTGAATGCTCTTCTCAATCAAAGGCAATGAAACTTTAAAATGTTTTGCCCAGAGGCC
TTAAAAATTATGCTCGAAGATCTTACAAATTTTCAAATCTTTGAATACTCTTCCCAATCAGAGAC
AATGAAACTTTAAAATATTTTACTTAGAGATCTTAAAAATTATGCCCGAATATCTTACAAATTT
Found at i:7164323 original size:75 final size:75
Alignment explanation
Indices: 7164244--7164387 Score: 236
Period size: 75 Copynumber: 1.9 Consensus size: 75
7164234 TGCCCGAATA
*
7164244 TCTTACAAATTTCAAAATCTTTGAATGTTCATCAT-AATAAAAGGCAATGAAACTTTAAAATGTT
1 TCTTACAAATTTCAAAATCTTTGAATGTTCATC-TCAATAAAAGGCAATGAAACTTTAAAATGGT
7164308 TTGCCCAGAGG
65 TTGCCCAGAGG
* * *
7164319 TCTTATAAATTTCAAAATCTTTGAATGTTCCTCTCAATCAAAGGCAATGAAACTTTAAAATGGTT
1 TCTTACAAATTTCAAAATCTTTGAATGTTCATCTCAATAAAAGGCAATGAAACTTTAAAATGGTT
7164384 TGCC
66 TGCC
7164388 TATAAGTATT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 1 0.02
75 63 0.98
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (75 bp):
TCTTACAAATTTCAAAATCTTTGAATGTTCATCTCAATAAAAGGCAATGAAACTTTAAAATGGTT
TGCCCAGAGG
Found at i:7164418 original size:97 final size:96
Alignment explanation
Indices: 7164309--7164516 Score: 285
Period size: 97 Copynumber: 2.2 Consensus size: 96
7164299 TAAAATGTTT
* *
7164309 TGCCCAGAGGTCTTATAAATTTCAAAATCTTTGAATGTTCC-TCTCAATCAAAGGCAATGAAACT
1 TGCCTAGAGGTCTTATAAATTTCAAAATCTTTGAATGTTCCTTC-CAATCAAAGGCAATAAAACT
* *
7164373 TTAAAATGGTTT-GCCTATAAGTATTGAAAATTG
65 TTAAAAT-GTTTACCCT-GAAGTATTGAAAATTG
* * *
7164406 TGCCTAGAGGTCTTATAAATTTTAAAATCTTTGAATGTTCCTTCCAATCAGAGGTAATAAAACTT
1 TGCCTAGAGGTCTTATAAATTTCAAAATCTTTGAATGTTCCTTCCAATCAAAGGCAATAAAACTT
* *
7164471 TAACATGTTTACCCTGAAGTCTTGAAAATTG
66 TAAAATGTTTACCCTGAAGTATTGAAAATTG
*
7164502 TGCCTGGAGGTCTTA
1 TGCCTAGAGGTCTTA
7164517 GAGATTATGC
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
96 32 0.32
97 65 0.66
98 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (96 bp):
TGCCTAGAGGTCTTATAAATTTCAAAATCTTTGAATGTTCCTTCCAATCAAAGGCAATAAAACTT
TAAAATGTTTACCCTGAAGTATTGAAAATTG
Found at i:7164514 original size:22 final size:22
Alignment explanation
Indices: 7164496--7164538 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7164486 GAAGTCTTGA
* *
7164496 AAATTGTGCCTGGAGGTCTTAG
1 AAATTATGCCCGGAGGTCTTAG
*
7164518 AGATTATGCCCGGAGGTCTTA
1 AAATTATGCCCGGAGGTCTTA
7164539 AGAATTCCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (22 bp):
AAATTATGCCCGGAGGTCTTAG
Found at i:7165366 original size:20 final size:20
Alignment explanation
Indices: 7165304--7165366 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
7165294 CCTTTTTAAA
*
7165304 AAAAATCAAAA-AATAAAAT
1 AAAAATCAAAATAAAAAAAT
* * **
7165323 ATAAAT-TAAATAAATTAAT
1 AAAAATCAAAATAAAAAAAT
*
7165342 TAAAATCAAAATAAAAAAAT
1 AAAAATCAAAATAAAAAAAT
7165362 AAAAA
1 AAAAA
7165367 GAAAATGAAA
Statistics
Matches: 31, Mismatches: 11, Indels: 3
0.69 0.24 0.07
Matches are distributed among these distances:
18 3 0.10
19 14 0.45
20 14 0.45
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATCAAAATAAAAAAAT
Found at i:7166233 original size:3 final size:3
Alignment explanation
Indices: 7166227--7166288 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
7166217 TAAAAAAAGA
7166227 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7166275 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
7166289 GAGCACCTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7166936 original size:116 final size:117
Alignment explanation
Indices: 7166721--7166988 Score: 330
Period size: 116 Copynumber: 2.3 Consensus size: 117
7166711 ATAAAACGAT
* * * *
7166721 CAAGATCGAGTCAAGGTCTAAAACAAATGACCTGGATAGAACCACAAATCATCAGAACTGATCTG
1 CAAGATCGAGTCAAGGTCTGAAATAAATGATC-GGATAGAACCACAAATCA-CAGAAATGATCTG
* * * *
7166786 GACTGAGCCAAGACCCAATGATCGAGGTGAAACCATAAGTCAAAATAAAGTGAC
64 GACTGAGCCAAGACCAAACGATCGAGGTAAAACCATAAGTCAAAACAAAGTGAC
**
7166840 CAAGATCGAGTCAAGGTC-GAAATAAATGATCGAGAT-GAAACCATGAATCA-AGAAATGATCTG
1 CAAGATCGAGTCAAGGTCTGAAATAAATGATCG-GATAG-AACCACAAATCACAGAAATGATCTG
* * *
7166902 GACTGAGCTAAGATCAAACGATCGGGGTAAAACCATAAGTCAAAACAAAGTGAC
64 GACTGAGCCAAGACCAAACGATCGAGGTAAAACCATAAGTCAAAACAAAGTGAC
*
7166956 C-AGAACTGAGTCAAGG-CTGAAATAAATGATCGG
1 CAAGATC-GAGTCAAGGTCTGAAATAAATGATCGG
7166989 GTGAGTGAGA
Statistics
Matches: 131, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
115 6 0.05
116 82 0.63
117 2 0.02
118 23 0.18
119 18 0.14
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (117 bp):
CAAGATCGAGTCAAGGTCTGAAATAAATGATCGGATAGAACCACAAATCACAGAAATGATCTGGA
CTGAGCCAAGACCAAACGATCGAGGTAAAACCATAAGTCAAAACAAAGTGAC
Found at i:7177893 original size:16 final size:17
Alignment explanation
Indices: 7177866--7177905 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
7177856 AAATAGCAAA
*
7177866 TTTTATATTTTTCTTTT
1 TTTTATATTTTTCATTT
7177883 TTTTATA-TTTTCATTT
1 TTTTATATTTTTCATTT
7177899 TTTTATA
1 TTTTATA
7177906 AAAAGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATATTTTTCATTT
Found at i:7177952 original size:26 final size:27
Alignment explanation
Indices: 7177895--7177953 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
7177885 TTATATTTTC
* *
7177895 ATTTTTTTATAAAAAGATAGAATAATA
1 ATTTTTTTATAAAAAAATAGAATAACA
* * *
7177922 TTTTTTTTA-AAAAAAATATAATAGCA
1 ATTTTTTTATAAAAAAATAGAATAACA
7177948 ATTTTT
1 ATTTTT
7177954 CCTTTTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (27 bp):
ATTTTTTTATAAAAAAATAGAATAACA
Found at i:7178008 original size:14 final size:15
Alignment explanation
Indices: 7177989--7178029 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
7177979 AAATATGGGT
* *
7177989 AAAATAAATAAAT-C
1 AAAATAAAAAAATAA
7178003 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
7178018 AAAATAAAAAAA
1 AAAATAAAAAAA
7178030 GGAAAACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:7178014 original size:8 final size:8
Alignment explanation
Indices: 7177988--7178029 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
7177978 AAAATATGGG
7177988 TAAAATAAA
1 TAAAA-AAA
7177997 TAAATCAAAA
1 TAAA--AAAA
7178007 TAAAAAAA
1 TAAAAAAA
7178015 T-AAAAAA
1 TAAAAAAA
7178022 TAAAAAAA
1 TAAAAAAA
7178030 GGAAAACCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.23
8 11 0.37
9 4 0.13
10 7 0.23
11 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (8 bp):
TAAAAAAA
Found at i:7178382 original size:13 final size:13
Alignment explanation
Indices: 7178364--7178388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7178354 TCAAACACTG
7178364 CCAAAAAATTCAA
1 CCAAAAAATTCAA
7178377 CCAAAAAATTCA
1 CCAAAAAATTCA
7178389 TTATTCGTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (13 bp):
CCAAAAAATTCAA
Found at i:7178444 original size:13 final size:12
Alignment explanation
Indices: 7178428--7178457 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7178418 AAAAAAACCC
*
7178428 AAAAAAATTTCA
1 AAAAAAAATTCA
7178440 AAAAAAAATTCA
1 AAAAAAAATTCA
7178452 AAAAAA
1 AAAAAA
7178458 TTCCTAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:7178879 original size:3 final size:3
Alignment explanation
Indices: 7178871--7178934 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
7178861 CAGAAAAAGA
7178871 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7178919 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
7178935 GCACCTAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7179054 original size:27 final size:26
Alignment explanation
Indices: 7179023--7179077 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
7179013 AGTTAGAATA
* *
7179023 GGCCTAATCGGGCCTAGAATCAAAATG
1 GGCCTAATCGGGCCCAG-ACCAAAATG
7179050 GGCCTAATCGGGCCCAGACCAAAATG
1 GGCCTAATCGGGCCCAGACCAAAATG
7179076 GG
1 GG
7179078 TGTATACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (26 bp):
GGCCTAATCGGGCCCAGACCAAAATG
Found at i:7184215 original size:20 final size:21
Alignment explanation
Indices: 7184185--7184225 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
7184175 AGAATTTAAG
7184185 AAAAATCTTTAATTTTTTTCT
1 AAAAATCTTTAATTTTTTTCT
*
7184206 AAAAAT-TTTATTTTTTTTCT
1 AAAAATCTTTAATTTTTTTCT
7184226 TTTTTTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
AAAAATCTTTAATTTTTTTCT
Found at i:7185866 original size:15 final size:15
Alignment explanation
Indices: 7185842--7185882 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7185832 ATTTTTGGAT
*
7185842 TTTTATGGTTTTGAA
1 TTTTAGGGTTTTGAA
7185857 TTTTAGGGTTTTGAA
1 TTTTAGGGTTTTGAA
* *
7185872 ATCTAGGGTTT
1 TTTTAGGGTTT
7185883 AGTTTTGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (15 bp):
TTTTAGGGTTTTGAA
Found at i:7185934 original size:44 final size:43
Alignment explanation
Indices: 7185886--7185990 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
7185876 AGGGTTTAGT
* * **
7185886 TTTGAAGGTTTTGGGGTTTGAATTTACTGTTTTGAATTTGAAGG
1 TTTGAAGGTTTAGAGGTTTGAATTTAAGGTTTTG-ATTTGAAGG
* * * *
7185930 TTTGAAAGTTTAGAGTTTTGATTTTAAGGTTTTGATTTTAAGG
1 TTTGAAGGTTTAGAGGTTTGAATTTAAGGTTTTGATTTGAAGG
*
7185973 TTTAAAGGTTTAG-GGTTT
1 TTTGAAGGTTTAGAGGTTT
7185991 CAAAGGTTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
42 4 0.08
43 19 0.38
44 27 0.54
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.50
Consensus pattern (43 bp):
TTTGAAGGTTTAGAGGTTTGAATTTAAGGTTTTGATTTGAAGG
Found at i:7185961 original size:14 final size:14
Alignment explanation
Indices: 7185944--7185975 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7185934 AAAGTTTAGA
7185944 GTTTTGATTTTAAG
1 GTTTTGATTTTAAG
7185958 GTTTTGATTTTAAG
1 GTTTTGATTTTAAG
7185972 GTTT
1 GTTT
7185976 AAAGGTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (14 bp):
GTTTTGATTTTAAG
Found at i:7185989 original size:15 final size:16
Alignment explanation
Indices: 7185966--7185999 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7185956 AGGTTTTGAT
7185966 TTTAAGGTTT-AAAGG
1 TTTAAGGTTTCAAAGG
*
7185981 TTTAGGGTTTCAAAGG
1 TTTAAGGTTTCAAAGG
7185997 TTT
1 TTT
7186000 TAAGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (16 bp):
TTTAAGGTTTCAAAGG
Found at i:7186019 original size:8 final size:8
Alignment explanation
Indices: 7185951--7186099 Score: 73
Period size: 8 Copynumber: 19.2 Consensus size: 8
7185941 AGAGTTTTGA
7185951 TTTTAAGG
1 TTTTAAGG
*
7185959 TTTT--GA
1 TTTTAAGG
7185965 TTTTAAGG
1 TTTTAAGG
*
7185973 TTTAAAGG
1 TTTTAAGG
*
7185981 -TTTAGGG
1 TTTTAAGG
*
7185988 TTTCAAAGG
1 TTT-TAAGG
*
7185997 TTTTAAGTA
1 TTTTAAG-G
7186006 TTTTAAGG
1 TTTTAAGG
*
7186014 TTTTAA-A
1 TTTTAAGG
*
7186021 TTTTAGGG
1 TTTTAAGG
*
7186029 TTTGGAA-G
1 TTT-TAAGG
*
7186037 ATTT-A-G
1 TTTTAAGG
7186043 TTTTAAGG
1 TTTTAAGG
*
7186051 TTTGAAGG
1 TTTTAAGG
*
7186059 ATTTAAGG
1 TTTTAAGG
*
7186067 TTTT--GA
1 TTTTAAGG
7186073 TTTTAAGG
1 TTTTAAGG
*
7186081 TTTAAAAGG
1 TTT-TAAGG
*
7186090 TTTTAGGG
1 TTTTAAGG
7186098 TT
1 TT
7186100 AAAGAGTTTA
Statistics
Matches: 102, Mismatches: 27, Indels: 24
0.67 0.18 0.16
Matches are distributed among these distances:
6 15 0.15
7 11 0.11
8 55 0.54
9 21 0.21
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.48
Consensus pattern (8 bp):
TTTTAAGG
Found at i:7186047 original size:22 final size:22
Alignment explanation
Indices: 7186021--7186063 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7186011 AGGTTTTAAA
*
7186021 TTTTAGGGTTTGGAA-GATTTAG
1 TTTTAAGGTTT-GAAGGATTTAG
7186043 TTTTAAGGTTTGAAGGATTTA
1 TTTTAAGGTTTGAAGGATTTA
7186064 AGGTTTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
TTTTAAGGTTTGAAGGATTTAG
Found at i:7186125 original size:14 final size:14
Alignment explanation
Indices: 7186106--7186180 Score: 62
Period size: 14 Copynumber: 5.2 Consensus size: 14
7186096 GGTTAAAGAG
7186106 TTTAGGATTTTAGT
1 TTTAGGATTTTAGT
* * *
7186120 TTTAGGGTTTGGAGGG
1 TTTAGGATTT-TA-GT
* *
7186136 TTTAGGGTTTTAAT
1 TTTAGGATTTTAGT
*
7186150 TTTAGGATTTGAAG-
1 TTTAGGATTT-TAGT
7186164 TTTAGGATTTTAGT
1 TTTAGGATTTTAGT
7186178 TTT
1 TTT
7186181 TGAGAAAAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
13 2 0.04
14 31 0.66
15 3 0.06
16 11 0.23
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTTAGGATTTTAGT
Found at i:7186141 original size:30 final size:28
Alignment explanation
Indices: 7186104--7186180 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 28
7186094 AGGGTTAAAG
*
7186104 AGTTTAGGATTTTAGTTTTAGGGTTTGGA
1 AGTTTAGGATTTTAGTTTTAGGATTT-GA
* * *
7186133 GGGTTTAGGGTTTTAATTTTAGGATTTGA
1 -AGTTTAGGATTTTAGTTTTAGGATTTGA
7186162 AGTTTAGGATTTTAGTTTT
1 AGTTTAGGATTTTAGTTTT
7186181 TGAGAAAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 16 0.40
29 2 0.05
30 22 0.55
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (28 bp):
AGTTTAGGATTTTAGTTTTAGGATTTGA
Found at i:7186310 original size:3 final size:3
Alignment explanation
Indices: 7186304--7186370 Score: 75
Period size: 3 Copynumber: 22.3 Consensus size: 3
7186294 TTATGAAGTT
* *
7186304 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTAA TT- GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
7186349 TTA TTG TT- TTA TTA TTTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA T
7186371 CTTTTTTATA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
2 3 0.05
3 46 0.84
4 6 0.11
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7186582 original size:13 final size:13
Alignment explanation
Indices: 7186564--7186599 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7186554 TATTTTCATT
* *
7186564 TTATTATTATTTA
1 TTATTATAAATTA
7186577 TTATTATAAATTA
1 TTATTATAAATTA
7186590 TTATTATAAA
1 TTATTATAAA
7186600 ATAACAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATTATAAATTA
Found at i:7188299 original size:16 final size:16
Alignment explanation
Indices: 7188280--7188361 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 16
7188270 TTCAAACTAA
*
7188280 TTTAGATTTAAATTAT
1 TTTAAATTTAAATTAT
* *
7188296 TTTAAATTTAGATTAA
1 TTTAAATTTAAATTAT
* * * * *
7188312 CTTAAGTATGAATCAT
1 TTTAAATTTAAATTAT
*
7188328 TTTAATTTTAAATTAT
1 TTTAAATTTAAATTAT
*
7188344 TTT-AATATTAAGTTAT
1 TTTAAAT-TTAAATTAT
7188360 TT
1 TT
7188362 AATTTGGGGT
Statistics
Matches: 48, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
15 2 0.04
16 46 0.96
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (16 bp):
TTTAAATTTAAATTAT
Found at i:7188950 original size:22 final size:22
Alignment explanation
Indices: 7188902--7188951 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
7188892 TTTTATTGAT
**
7188902 TTATTATTAATTTTTTAAGTTTA
1 TTATT-TTAATTTTTTAAAATTA
*
7188925 -TATTTTTATTTTTTAAAATTA
1 TTATTTTAATTTTTTAAAATTA
7188946 TTATTT
1 TTATTT
7188952 GTCTATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTATTTTAATTTTTTAAAATTA
Found at i:7195167 original size:21 final size:19
Alignment explanation
Indices: 7195141--7195197 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 19
7195131 CCATCCTCGA
7195141 TTTTTTTT-TATTTTTTGT
1 TTTTTTTTGTATTTTTTGT
7195159 TCTTTTTTTGTATTTTTTGT
1 T-TTTTTTTGTATTTTTTGT
7195179 TTTATATTTTGTATTTTTT
1 TTT-T-TTTTGTATTTTTT
7195198 TATTGTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 9 0.26
20 12 0.34
21 13 0.37
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.82
Consensus pattern (19 bp):
TTTTTTTTGTATTTTTTGT
Found at i:7195189 original size:32 final size:33
Alignment explanation
Indices: 7195141--7195207 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
7195131 CCATCCTCGA
*
7195141 TTTTTTTTTATTTTTTGT-TCTTTTT-TTGTAT
1 TTTTTTTTTATATTTTGTATCTTTTTATTGTAT
*
7195172 TTTTTGTTTTATATTTTGTATTTTTTTATTGTAT
1 TTTTT-TTTTATATTTTGTATCTTTTTATTGTAT
7195206 TT
1 TT
7195208 CGTATTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 5 0.16
32 12 0.39
33 6 0.19
34 8 0.26
ACGTcount: A:0.10, C:0.01, G:0.07, T:0.81
Consensus pattern (33 bp):
TTTTTTTTTATATTTTGTATCTTTTTATTGTAT
Found at i:7195206 original size:20 final size:21
Alignment explanation
Indices: 7195164--7195215 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
7195154 TTTGTTCTTT
*
7195164 TTTTGTATTTTTTGTTTTATA
1 TTTTGTATTTTTTGTATTATA
*
7195185 TTTTGTATTTTTT-TATTGTA
1 TTTTGTATTTTTTGTATTATA
*
7195205 TTTCGTATTTT
1 TTTTGTATTTT
7195216 GTATTTATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.13, C:0.02, G:0.10, T:0.75
Consensus pattern (21 bp):
TTTTGTATTTTTTGTATTATA
Found at i:7195242 original size:7 final size:7
Alignment explanation
Indices: 7195164--7195221 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
7195154 TTTGTTCTTT
7195164 TTTTGTA
1 TTTTGTA
* *
7195171 TTTTTTG
1 TTTTGTA
*
7195178 TTTTATA
1 TTTTGTA
7195185 TTTTGTA
1 TTTTGTA
7195192 TTTT-T-
1 TTTTGTA
7195197 TTATTGTA
1 TT-TTGTA
*
7195205 TTTCGTA
1 TTTTGTA
7195212 TTTTGTA
1 TTTTGTA
7195219 TTT
1 TTT
7195222 ATACTTCATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
5 2 0.05
6 3 0.07
7 34 0.83
8 2 0.05
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.74
Consensus pattern (7 bp):
TTTTGTA
Found at i:7195876 original size:11 final size:12
Alignment explanation
Indices: 7195854--7195879 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7195844 CATGTAATGG
7195854 TTTTGTCTTTTT
1 TTTTGTCTTTTT
7195866 TTTTGTCTTTTT
1 TTTTGTCTTTTT
7195878 TT
1 TT
7195880 CAGGTTATCT
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:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTGTCTTTTT
Found at i:7205904 original size:16 final size:16
Alignment explanation
Indices: 7205883--7205920 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7205873 AATTTTTTTA
7205883 ATAATATAATGTATAT
1 ATAATATAATGTATAT
* *
7205899 ATAATATTATGTTTAT
1 ATAATATAATGTATAT
7205915 ATAATA
1 ATAATA
7205921 AAAGTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
ATAATATAATGTATAT
Found at i:7206098 original size:2 final size:2
Alignment explanation
Indices: 7206091--7206137 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
7206081 AAATTTGAAA
7206091 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7206133 AG AG A
1 AG AG A
7206138 CGATTGCATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7206646 original size:21 final size:21
Alignment explanation
Indices: 7206622--7206672 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
7206612 CCCGAAATTA
7206622 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
7206643 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
7206664 AT-AAATATT
1 ATAAAATATT
7206673 TAAAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:7206708 original size:30 final size:30
Alignment explanation
Indices: 7206640--7206709 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
7206630 TTATTTTTTA
* * *
7206640 AATATAAAATATTATTTTTTAAATATAAAT
1 AATAAAAAATATTATTATATAAATATAAAT
* * *
7206670 ATTTAAAAATATTATTATATAAATATATAT
1 AATAAAAAATATTATTATATAAATATAAAT
7206700 AATAAAAAAT
1 AATAAAAAAT
7206710 TAAATAATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
AATAAAAAATATTATTATATAAATATAAAT
Found at i:7211135 original size:4 final size:4
Alignment explanation
Indices: 7211126--7211155 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
7211116 CGTTTCACTG
7211126 AAAT AAAT AAAT AAAT AAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
7211156 ACACAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:7211830 original size:34 final size:34
Alignment explanation
Indices: 7211787--7211852 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
7211777 GTAATTAAAA
7211787 TGATAATGGTAGACATTGAACTCGTTATAAATAT
1 TGATAATGGTAGACATTGAACTCGTTATAAATAT
* *
7211821 TGATAATGGTGGACGTTGAACTCGTTATAAAT
1 TGATAATGGTAGACATTGAACTCGTTATAAAT
7211853 TTTTTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (34 bp):
TGATAATGGTAGACATTGAACTCGTTATAAATAT
Found at i:7214194 original size:16 final size:15
Alignment explanation
Indices: 7214175--7214204 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7214165 TTAATTTATT
7214175 TTAAATTTCTAAAATC
1 TTAAATTT-TAAAATC
7214191 TTAAATTTTAAAAT
1 TTAAATTTTAAAAT
7214205 GTAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATTTTAAAATC
Found at i:7217853 original size:15 final size:15
Alignment explanation
Indices: 7217830--7217859 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7217820 AAAGGCAAAA
*
7217830 ATGGGAAGGTATAAT
1 ATGGAAAGGTATAAT
7217845 ATGGAAAGGTATAAT
1 ATGGAAAGGTATAAT
7217860 TAAGTCATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (15 bp):
ATGGAAAGGTATAAT
Found at i:7226424 original size:29 final size:29
Alignment explanation
Indices: 7226392--7226458 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
7226382 TTCTTTTCAC
7226392 TTTTTA-ATTAAATAATATATATTATAAAT
1 TTTTTATATTAAA-AATATATATTATAAAT
*
7226421 TTTTTATTTTAAAAATATATATTATAAAT
1 TTTTTATATTAAAAATATATATTATAAAT
7226450 TTTTT-TATT
1 TTTTTATATT
7226459 TTATTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 27 0.77
30 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTTATATTAAAAATATATATTATAAAT
Found at i:7226441 original size:31 final size:31
Alignment explanation
Indices: 7226399--7226461 Score: 103
Period size: 29 Copynumber: 2.1 Consensus size: 31
7226389 CACTTTTTAA
*
7226399 TTAAATAATATATATTATAAA-TTTTTTATT
1 TTAAAAAATATATATTATAAATTTTTTTATT
7226429 TT-AAAAATATATATTATAAATTTTTTTATT
1 TTAAAAAATATATATTATAAATTTTTTTATT
7226459 TTA
1 TTA
7226462 TTAATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TTAAAAAATATATATTATAAATTTTTTTATT
Found at i:7226454 original size:30 final size:30
Alignment explanation
Indices: 7226399--7226461 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
7226389 CACTTTTTAA
7226399 TTAAATAATATATATTATAAATTTTTTATT
1 TTAAATAATATATATTATAAATTTTTTATT
7226429 TTAAA-AATATATATTATAAATTTTTTTATT
1 TTAAATAATATATATTATAAA-TTTTTTATT
7226459 TTA
1 TTA
7226462 TTAATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TTAAATAATATATATTATAAATTTTTTATT
Found at i:7229300 original size:19 final size:20
Alignment explanation
Indices: 7229276--7229319 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7229266 CCTAAGCCCA
7229276 ATTTTGATAAT-TTTTTTTT
1 ATTTTGATAATGTTTTTTTT
**
7229295 ATTTTGATTTTGTTTTTTTT
1 ATTTTGATAATGTTTTTTTT
7229315 ATTTT
1 ATTTT
7229320 TATCTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (20 bp):
ATTTTGATAATGTTTTTTTT
Found at i:7229402 original size:13 final size:13
Alignment explanation
Indices: 7229386--7229448 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 13
7229376 TATTTATGAT
7229386 TTTTTTTGCATTA
1 TTTTTTTGCATTA
*
7229399 TTTTTTT-TATTA
1 TTTTTTTGCATTA
7229411 TTTATTTTTGCATGATA
1 -TT-TTTTTGCAT--TA
*
7229428 TTTATTTGCATTA
1 TTTTTTTGCATTA
7229441 TTTATTTT
1 TTT-TTTT
7229449 TACATGAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
12 4 0.10
13 14 0.35
14 8 0.20
15 10 0.25
16 2 0.05
17 2 0.05
ACGTcount: A:0.19, C:0.05, G:0.06, T:0.70
Consensus pattern (13 bp):
TTTTTTTGCATTA
Found at i:7229403 original size:15 final size:15
Alignment explanation
Indices: 7229385--7229449 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
7229375 TTATTTATGA
7229385 TTTTTTTTGCATTA-
1 TTTTTTTTGCATTAT
7229399 TTTTTTTT--ATTAT
1 TTTTTTTTGCATTAT
* *
7229412 TTATTTTTGCATGAT
1 TTTTTTTTGCATTAT
* *
7229427 ATTTATTTGCATTAT
1 TTTTTTTTGCATTAT
7229442 TTATTTTT
1 TT-TTTTT
7229450 ACATGAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 4 0.10
13 7 0.18
14 8 0.21
15 16 0.41
16 4 0.10
ACGTcount: A:0.18, C:0.05, G:0.06, T:0.71
Consensus pattern (15 bp):
TTTTTTTTGCATTAT
Found at i:7229413 original size:26 final size:27
Alignment explanation
Indices: 7229373--7229449 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
7229363 AATTTATATG
7229373 TTTTATTTATGATTT-TTTTTGCATTA
1 TTTTATTTATGATTTATTTTTGCATTA
* * *
7229399 TTTTTTTTATTATTTATTTTTGCATGA
1 TTTTATTTATGATTTATTTTTGCATTA
*
7229426 TATTTATTTGCATTATTTATTTTT
1 T-TTTATTT--ATGATTTATTTTT
7229450 ACATGAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.30
27 11 0.26
28 6 0.14
30 13 0.30
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.70
Consensus pattern (27 bp):
TTTTATTTATGATTTATTTTTGCATTA
Found at i:7229429 original size:17 final size:17
Alignment explanation
Indices: 7229409--7229460 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 17
7229399 TTTTTTTTAT
7229409 TATTTATTTTTGCATGA
1 TATTTATTTTTGCATGA
7229426 TATTTA--TTTGCAT--
1 TATTTATTTTTGCATGA
*
7229439 TATTTATTTTTACATGA
1 TATTTATTTTTGCATGA
7229456 -ATTTA
1 TATTTA
7229461 ATTTAATTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 6 0.20
15 13 0.43
16 5 0.17
17 6 0.20
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.60
Consensus pattern (17 bp):
TATTTATTTTTGCATGA
Found at i:7229441 original size:30 final size:30
Alignment explanation
Indices: 7229384--7229460 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
7229374 TTTATTTATG
**
7229384 ATTT-TTTTTGCAT--TATTT-TTTTTATT
1 ATTTATTTTTGCATGATATTTATTTGCATT
7229410 ATTTATTTTTGCATGATATTTATTTGCATT
1 ATTTATTTTTGCATGATATTTATTTGCATT
*
7229440 ATTTATTTTTACATGA-ATTTA
1 ATTTATTTTTGCATGATATTTA
7229461 ATTTAATTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
26 4 0.09
27 9 0.20
29 10 0.23
30 21 0.48
ACGTcount: A:0.23, C:0.05, G:0.06, T:0.65
Consensus pattern (30 bp):
ATTTATTTTTGCATGATATTTATTTGCATT
Found at i:7229617 original size:20 final size:21
Alignment explanation
Indices: 7229577--7229618 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7229567 TAATTATTGT
*
7229577 TTGCATGATATTTTAATATTA
1 TTGCATGATAATTTAATATTA
7229598 TTGCATGATAATTT-ATATTA
1 TTGCATGATAATTTAATATTA
7229618 T
1 T
7229619 ATTTGCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
TTGCATGATAATTTAATATTA
Found at i:7229655 original size:14 final size:14
Alignment explanation
Indices: 7229614--7229664 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
7229604 GATAATTTAT
*
7229614 ATTATATTTGCATA
1 ATTATATTTGCATG
7229628 ATTATATTTGCATG
1 ATTATATTTGCATG
* *
7229642 ATTATATCTACATG
1 ATTATATTTGCATG
7229656 ATTAATATT
1 ATT-ATATT
7229665 ATATTTGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 28 0.88
15 4 0.12
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (14 bp):
ATTATATTTGCATG
Found at i:7229811 original size:21 final size:22
Alignment explanation
Indices: 7229786--7229827 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
7229776 AATTACATGT
7229786 TTATTTGCATGATT-TATATTA
1 TTATTTGCATGATTATATATTA
7229807 TTATTTGCATGATTATATATT
1 TTATTTGCATGATTATATATT
7229828 TAATTGCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (22 bp):
TTATTTGCATGATTATATATTA
Found at i:7229822 original size:53 final size:53
Alignment explanation
Indices: 7229762--7229917 Score: 210
Period size: 53 Copynumber: 3.0 Consensus size: 53
7229752 TGATTTTGGT
*
7229762 ATGATTATATATTTAATTACATGTTTATTTGCATGATTTATATTATTATTTGC
1 ATGATTATATATTTAATTACATGTCTATTTGCATGATTTATATTATTATTTGC
* * * *
7229815 ATGATTATATATTTAATTGCATGTCTATTTACATGATTTATATTGTTA-ATGC
1 ATGATTATATATTTAATTACATGTCTATTTGCATGATTTATATTATTATTTGC
* * *
7229867 ATTATTATATATTTAATTTCATATCTATTTGCATGA-TTAT-TTATTTATTTG
1 ATGATTATATATTTAATTACATGTCTATTTGCATGATTTATATTA-TTATTTG
7229918 TGTGATTGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
50 2 0.02
51 7 0.08
52 37 0.41
53 44 0.49
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.54
Consensus pattern (53 bp):
ATGATTATATATTTAATTACATGTCTATTTGCATGATTTATATTATTATTTGC
Found at i:7229824 original size:20 final size:21
Alignment explanation
Indices: 7229785--7229837 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
7229775 TAATTACATG
7229785 TTTATTTGCATGATTTATAT-
1 TTTATTTGCATGATTTATATA
7229805 TATTATTTGCATGA-TTATATA
1 T-TTATTTGCATGATTTATATA
*
7229826 TTTAATTGCATG
1 TTTATTTGCATG
7229838 TCTATTTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTATTTGCATGATTTATATA
Found at i:7229930 original size:28 final size:29
Alignment explanation
Indices: 7229899--7229971 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
7229889 ATCTATTTGC
*
7229899 ATGATTATTTATTTATTTGTGTG-ATTGT
1 ATGATTATTTATTTATTTGTGTGCATAGT
* * *
7229927 ATGATTATTAATATATTTGTTTGCATAGT
1 ATGATTATTTATTTATTTGTGTGCATAGT
7229956 -T-ATTTATTTATTTATT
1 ATGA-TTATTTATTTATT
7229972 ATTATTGCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
27 1 0.03
28 32 0.86
29 4 0.11
ACGTcount: A:0.26, C:0.01, G:0.12, T:0.60
Consensus pattern (29 bp):
ATGATTATTTATTTATTTGTGTGCATAGT
Found at i:7230022 original size:18 final size:18
Alignment explanation
Indices: 7229980--7230022 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7229970 TTATTATTGC
* *
7229980 ATATTATTGCATGATTTT
1 ATATTATTGCATGATATG
*
7229998 ATTTTATTGCATGATATG
1 ATATTATTGCATGATATG
7230016 ATATTAT
1 ATATTAT
7230023 ATGTTATTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (18 bp):
ATATTATTGCATGATATG
Found at i:7230046 original size:24 final size:25
Alignment explanation
Indices: 7230001--7230048 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
7229991 TGATTTTATT
7230001 TTATTGCATGATATGATATTATATG
1 TTATTGCATGATATGATATTATATG
7230026 TTATTGCATGAT-TGATATTATAT
1 TTATTGCATGATATGATATTATAT
7230049 TTGAATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (25 bp):
TTATTGCATGATATGATATTATATG
Found at i:7230227 original size:17 final size:20
Alignment explanation
Indices: 7230196--7230246 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 20
7230186 GAATGATACT
* *
7230196 ATATATTTATATGATTATT-
1 ATATATTTGTATGATAATTA
7230215 AT-TA-TTGTATGATAATTA
1 ATATATTTGTATGATAATTA
7230233 ATATATTTGTATGA
1 ATATATTTGTATGA
7230247 CATTCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 11 0.41
18 4 0.15
19 4 0.15
20 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
ATATATTTGTATGATAATTA
Found at i:7230246 original size:20 final size:19
Alignment explanation
Indices: 7230140--7230246 Score: 69
Period size: 20 Copynumber: 5.6 Consensus size: 19
7230130 ATTTTATTTC
* *
7230140 ATATTTGTATGGTTATTAAT
1 ATATTTGTATGATAATT-AT
* * *
7230160 ATATTTGCATGGTACTT-T
1 ATATTTGTATGATAATTAT
* *
7230178 ATATTATTGAATGAT-ACTAT
1 ATA-T-TTGTATGATAATTAT
* *
7230198 ATATTTATATGATTATTAT
1 ATATTTGTATGATAATTAT
7230217 -TA-TTGTATGATAATTAAT
1 ATATTTGTATGATAATT-AT
7230235 ATATTTGTATGA
1 ATATTTGTATGA
7230247 CATTCTTGTA
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
17 11 0.16
18 15 0.22
19 9 0.13
20 33 0.49
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (19 bp):
ATATTTGTATGATAATTAT
Found at i:7230340 original size:14 final size:16
Alignment explanation
Indices: 7230321--7230353 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7230311 TTATAATATA
7230321 TTTGCAT-G-ATAATT
1 TTTGCATGGTATAATT
7230335 TTTGCATGGTATAATT
1 TTTGCATGGTATAATT
7230351 TTT
1 TTT
7230354 AATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 1 0.06
16 9 0.53
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (16 bp):
TTTGCATGGTATAATT
Found at i:7231459 original size:16 final size:15
Alignment explanation
Indices: 7231433--7231466 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
7231423 AAGCAACAGA
*
7231433 AAAGAAAGGGAAGAG
1 AAAGAAAGGGAAAAG
7231448 AAAGAAAGGGGAAAAG
1 AAAGAAA-GGGAAAAG
7231464 AAA
1 AAA
7231467 TTTAAGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AAAGAAAGGGAAAAG
Found at i:7233531 original size:9 final size:9
Alignment explanation
Indices: 7233517--7233551 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
7233507 ACGCCAGTCT
7233517 ATAAAAAAA
1 ATAAAAAAA
7233526 ATAAAAAAA
1 ATAAAAAAA
7233535 A-AAAAAAA
1 ATAAAAAAA
7233543 ATCAAAAAA
1 AT-AAAAAA
7233552 GCCACTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 10 0.42
10 6 0.25
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.09
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:7234200 original size:13 final size:13
Alignment explanation
Indices: 7234181--7234215 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
7234171 TTATTGTTTT
*
7234181 ATAATAATAATAA
1 ATAATAAAAATAA
*
7234194 TTAATAAAAATAA
1 ATAATAAAAATAA
7234207 ATAATAAAA
1 ATAATAAAA
7234216 TTTTAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATAAAAATAA
Found at i:7234285 original size:21 final size:21
Alignment explanation
Indices: 7234242--7234285 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7234232 TGATAAGTAT
* *
7234242 AATTAAATAAAAATAATACAA
1 AATTAAATAAAAATAAGAAAA
7234263 AATT-AATAAAAAATAAGAAAA
1 AATTAAAT-AAAAATAAGAAAA
7234284 AA
1 AA
7234286 AGAAGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTAAATAAAAATAAGAAAA
Found at i:7234477 original size:22 final size:21
Alignment explanation
Indices: 7234433--7234491 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
7234423 TTTCTTTTCT
* *
7234433 TTAATAAAATAATAAAAATTAA
1 TTAAT-AAATAAGAAAAAGTAA
*
7234455 TTAATAAATTAAGAATAAGTAA
1 TTAATAAA-TAAGAAAAAGTAA
7234477 -TAA-AAATAAGAAAAA
1 TTAATAAATAAGAAAAA
7234492 AGAAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 8 0.25
20 3 0.09
21 6 0.19
22 15 0.47
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (21 bp):
TTAATAAATAAGAAAAAGTAA
Found at i:7248489 original size:43 final size:43
Alignment explanation
Indices: 7248423--7248624 Score: 181
Period size: 43 Copynumber: 4.7 Consensus size: 43
7248413 AAAGGATTCT
* * * * * * **
7248423 TATTTTAAAGTTATTGAACCTCTATATAGAGGAGTTTATTTCC
1 TATTCTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCTATTTCC
* * *
7248466 TATTCTAAAGTTGTTTAGCCTCTATATAGAAAAGCCTATTCCC
1 TATTCTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCTATTTCC
* * * *
7248509 TATTCTAAAGTTGTTTAGCTTCTGTATAGATGA-ACTCATTTCT
1 TATTCTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCT-ATTTCC
* * * *
7248552 TATTTTAAAGTTGTTTAGCCTTTGTATAGAAAAGCCTATTTCG
1 TATTCTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCTATTTCC
* * * *
7248595 TAATGTAAAGTTGTTTAGACTTTGTATAGA
1 TATTCTAAAGTTGTTTAGCCTCTGTATAGA
7248625 GGGGCCCATT
Statistics
Matches: 131, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
42 2 0.02
43 127 0.97
44 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (43 bp):
TATTCTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCTATTTCC
Found at i:7248562 original size:86 final size:86
Alignment explanation
Indices: 7248460--7248624 Score: 242
Period size: 86 Copynumber: 1.9 Consensus size: 86
7248450 AGAGGAGTTT
*
7248460 ATTTCCTATTCTAAAGTTGTTTAGCCTCTATATAGAAAAGCCTATTCCCTATTCTAAAGTTGTTT
1 ATTTCCTATTCTAAAGTTGTTTAGCCTCTATATAGAAAAGCCTATTCCCTAATCTAAAGTTGTTT
7248525 AG-CTTCTGTATAGATGAACTC
66 AGACTT-TGTATAGATGAACTC
* * * * * * *
7248546 ATTTCTTATTTTAAAGTTGTTTAGCCTTTGTATAGAAAAGCCTATTTCGTAATGTAAAGTTGTTT
1 ATTTCCTATTCTAAAGTTGTTTAGCCTCTATATAGAAAAGCCTATTCCCTAATCTAAAGTTGTTT
7248611 AGACTTTGTATAGA
66 AGACTTTGTATAGA
7248625 GGGGCCCATT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
86 67 0.96
87 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (86 bp):
ATTTCCTATTCTAAAGTTGTTTAGCCTCTATATAGAAAAGCCTATTCCCTAATCTAAAGTTGTTT
AGACTTTGTATAGATGAACTC
Found at i:7248652 original size:86 final size:86
Alignment explanation
Indices: 7248471--7248664 Score: 223
Period size: 86 Copynumber: 2.3 Consensus size: 86
7248461 TTTCCTATTC
* *
7248471 TAAAGTTGTTTAGCCTCTATATAGAAAAGCCTATTCCCTATTCTAAAGTTGTTTAGCTTCTGTAT
1 TAAAGTTGTTTAGCCTCTGTATAGAAAAGCCTATTCCCTAATCTAAAGTTGTTTAGCTTCTGTAT
* * **
7248536 AGATGAACTCATTTCTTATTT
66 AGAGGAACCCATTTCTTAACT
* * * *
7248557 TAAAGTTGTTTAGCCTTTGTATAGAAAAGCCTATTTCGTAATGTAAAGTTGTTTAGACTT-TGTA
1 TAAAGTTGTTTAGCCTCTGTATAGAAAAGCCTATTCCCTAATCTAAAGTTGTTTAG-CTTCTGTA
**
7248621 TAGAGGGGCCCATTT-TGTAACT
65 TAGAGGAACCCATTTCT-TAACT
* *
7248643 TATATTTGTTT-GCCTCTGTATA
1 TAAAGTTGTTTAGCCTCTGTATA
7248665 TAGGAGTTTT
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
85 11 0.12
86 77 0.85
87 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (86 bp):
TAAAGTTGTTTAGCCTCTGTATAGAAAAGCCTATTCCCTAATCTAAAGTTGTTTAGCTTCTGTAT
AGAGGAACCCATTTCTTAACT
Found at i:7249479 original size:19 final size:20
Alignment explanation
Indices: 7249455--7249494 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7249445 AGGTTTGTTA
*
7249455 GGGTTTATGGAAATTT-TTT
1 GGGTTTATAGAAATTTCTTT
*
7249474 GGGTTTTTAGAAATTTCTTT
1 GGGTTTATAGAAATTTCTTT
7249494 G
1 G
7249495 AATTTTTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.53
Consensus pattern (20 bp):
GGGTTTATAGAAATTTCTTT
Found at i:7254574 original size:134 final size:134
Alignment explanation
Indices: 7254334--7254736 Score: 752
Period size: 134 Copynumber: 3.0 Consensus size: 134
7254324 GTAATTCCAC
* * *
7254334 CAAAGTTTAAAGTGTCTGAGTTTAAAAAGTATGATTGGATCAAATGCCTTATTAGACATGTTATG
1 CAAAGCTTAAAGTGTCTGAGTTTAAAAAGTATGATTGGATCAAATGCCCTATTAGACATGTTACG
7254399 ATATATTGTCGCAAGATGGACGCATACATTTATAATGAAAAGTTGTTCATTCATGTTTTTCAAGA
66 ATATATTGTCGCAAGATGGACGCATACATTTATAATGAAAAGTTGTTCATTCATGTTTTTCAAGA
7254464 CAAT
131 CAAT
7254468 CAAAGCTTAAAGTGTCTGAGTTTAAAAAGTATGATTGGATCAAATGCCCTATTAGACATGTTACG
1 CAAAGCTTAAAGTGTCTGAGTTTAAAAAGTATGATTGGATCAAATGCCCTATTAGACATGTTACG
*
7254533 ATATATTATCGCAAGATGGACGCATACATTTATAATGAAAAGTTGTTCATTCATGTTTTTCAAGA
66 ATATATTGTCGCAAGATGGACGCATACATTTATAATGAAAAGTTGTTCATTCATGTTTTTCAAGA
7254598 CAAT
131 CAAT
7254602 CAAAGCTTAAAGTGTCTGAGTTTAAAAAGTATGATTGGATCAAATGCCCTATTAGACATGTTACG
1 CAAAGCTTAAAGTGTCTGAGTTTAAAAAGTATGATTGGATCAAATGCCCTATTAGACATGTTACG
* *
7254667 ATATATTGTCGCAAGATGGATGCATACATTTATAATGAAAAGTTGTTCATCCATGTTTTTCAAGA
66 ATATATTGTCGCAAGATGGACGCATACATTTATAATGAAAAGTTGTTCATTCATGTTTTTCAAGA
7254732 CAAT
131 CAAT
7254736 C
1 C
7254737 TTACCGGTTC
Statistics
Matches: 262, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 262 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (134 bp):
CAAAGCTTAAAGTGTCTGAGTTTAAAAAGTATGATTGGATCAAATGCCCTATTAGACATGTTACG
ATATATTGTCGCAAGATGGACGCATACATTTATAATGAAAAGTTGTTCATTCATGTTTTTCAAGA
CAAT
Found at i:7257597 original size:23 final size:23
Alignment explanation
Indices: 7257571--7257641 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
7257561 AAAAAAAATG
* *
7257571 AAAGTGAGAAGAAAAAATAAGAA
1 AAAGTGAAAAGAAAAAAAAAGAA
*
7257594 AAAGATGTACAAAGAAAAAAGAA-AA
1 AAAG-TG-A-AAAGAAAAAAAAAGAA
*
7257619 AAAGTAAAAGAGAAAAAAAAAGA
1 AAAGTGAAA-AGAAAAAAAAAGA
7257642 CTCAAAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.05
23 15 0.38
24 4 0.10
25 7 0.18
26 11 0.28
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.07
Consensus pattern (23 bp):
AAAGTGAAAAGAAAAAAAAAGAA
Found at i:7257627 original size:16 final size:15
Alignment explanation
Indices: 7257604--7257637 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
7257594 AAAGATGTAC
7257604 AAAGAAAAAAGAAAA
1 AAAGAAAAAAGAAAA
*
7257619 AAAGTAAAAGAGAAAA
1 AAAG-AAAAAAGAAAA
7257635 AAA
1 AAA
7257638 AAGACTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAGAAAA
Found at i:7258955 original size:43 final size:43
Alignment explanation
Indices: 7258897--7259205 Score: 250
Period size: 43 Copynumber: 7.1 Consensus size: 43
7258887 ATATGGGATT
7258897 TTTTTTCAAAGTTTCAAAGCCTCAGTTATGATGGAGCATTTTA
1 TTTTTTCAAAGTTTCAAAGCCTCAGTTATGATGGAGCATTTTA
* * * * *
7258940 TTTTTCCAAAATTTCAAAACTTCAATTATGGAT-GAGCATTTTA
1 TTTTTTCAAAGTTTCAAAGCCTCAGTTAT-GATGGAGCATTTTA
** * * * *
7258983 TTTTATTTTTTTAAGTTTCAAAGTCTTAGTTGTGA-GAGACCATTTT-
1 ---T-TTTTTCAAAGTTTCAAAGCCTCAGTTATGATG-GAGCATTTTA
* * * ****
7259029 GTTTTTCAAAGTTTCAAAACCTCAGTTGTGGCAAAGCATTTTA
1 TTTTTTCAAAGTTTCAAAGCCTCAGTTATGATGGAGCATTTTA
* * * *
7259072 TTTTTTGAAAGTTTCAAAGCTTCAGTTGTTG-GGGAGCATTTTA
1 TTTTTTCAAAGTTTCAAAGCCTCAGTT-ATGATGGAGCATTTTA
**
7259115 TTTTCTTCAAAGTTTCAAAGCCTCAGTTATGGGGGAGCATTTTA
1 TTTT-TTCAAAGTTTCAAAGCCTCAGTTATGATGGAGCATTTTA
** * *
7259159 TTTTTTTGAAGTTTCAAAGCCTTAGTTAT-ATGAGAGCATTCTA
1 TTTTTTCAAAGTTTCAAAGCCTCAGTTATGATG-GAGCATTTTA
7259202 TTTT
1 TTTT
7259206 CAAAACCTCA
Statistics
Matches: 210, Mismatches: 43, Indels: 26
0.75 0.15 0.09
Matches are distributed among these distances:
42 32 0.15
43 107 0.51
44 42 0.20
46 3 0.01
47 26 0.12
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.44
Consensus pattern (43 bp):
TTTTTTCAAAGTTTCAAAGCCTCAGTTATGATGGAGCATTTTA
Found at i:7259206 original size:87 final size:87
Alignment explanation
Indices: 7258896--7259205 Score: 296
Period size: 87 Copynumber: 3.6 Consensus size: 87
7258886 CATATGGGAT
* * * *
7258896 TTTTTTTCAAAGTTTCAAAGCCTCAGTTATGATG-GAGCATTTTATTTTTCCAAAATTTCAAAAC
1 TTTTTTT-GAAGTTTCAAAGCCTTAGTTATGATGAGAGCATTTTATTTTTTCAAAGTTTCAAAAC
* * *
7258960 TTCAATTATGGATGAGCATTTTA
65 CTCAGTTATGGAAGAGCATTTTA
* * * * *
7258983 TTTTATTTTTTTAAGTTTCAAAGTCTTAGTTGTGA-GAGACCATTTT-GTTTTTCAAAGTTTCAA
1 ---T-TTTTTTGAAGTTTCAAAGCCTTAGTTATGATGAGAGCATTTTATTTTTTCAAAGTTTCAA
*
7259046 AACCTCAGTTGTGGCAA-AGCATTTTA
62 AACCTCAGTTATGG-AAGAGCATTTTA
* *
7259072 -TTTTTTGAAAGTTTCAAAG-CTTCAG-T-TGTTGGGGAGCATTTTATTTTCTTCAAAGTTTCAA
1 TTTTTTTG-AAGTTTCAAAGCCTT-AGTTATGAT-GAGAGCATTTTATTTT-TTCAAAGTTTCAA
* **
7259133 AGCCTCAGTTATGGGGGAGCATTTTA
62 AACCTCAGTTATGGAAGAGCATTTTA
*
7259159 TTTTTTTGAAGTTTCAAAGCCTTAGTTAT-ATGAGAGCATTCTATTTT
1 TTTTTTTGAAGTTTCAAAGCCTTAGTTATGATGAGAGCATTTTATTTT
7259206 CAAAACCTCA
Statistics
Matches: 182, Mismatches: 24, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
83 2 0.01
84 10 0.05
85 22 0.12
86 3 0.02
87 61 0.34
88 12 0.07
89 36 0.20
90 30 0.16
91 6 0.03
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (87 bp):
TTTTTTTGAAGTTTCAAAGCCTTAGTTATGATGAGAGCATTTTATTTTTTCAAAGTTTCAAAACC
TCAGTTATGGAAGAGCATTTTA
Found at i:7259241 original size:33 final size:33
Alignment explanation
Indices: 7259170--7259237 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
7259160 TTTTTTGAAG
* *
7259170 TTTCAAAGCCTTAGTTATATGAGAGCATTCTAT
1 TTTCAAAACCTCAGTTATATGAGAGCATTCTAT
7259203 TTTCAAAACCTCAGTTATATTG-GAGCATT-TAT
1 TTTCAAAACCTCAGTTATA-TGAGAGCATTCTAT
7259235 TTT
1 TTT
7259238 TCAATTGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 6 0.19
33 24 0.75
34 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (33 bp):
TTTCAAAACCTCAGTTATATGAGAGCATTCTAT
Found at i:7260680 original size:20 final size:21
Alignment explanation
Indices: 7260640--7260681 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7260630 TAATTATTGT
*
7260640 TTGCATGATATTTTAATATTA
1 TTGCATGATAATTTAATATTA
7260661 TTGCATGATAATTT-ATATTA
1 TTGCATGATAATTTAATATTA
7260681 T
1 T
7260682 ATTTGCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
TTGCATGATAATTTAATATTA
Found at i:7260855 original size:53 final size:53
Alignment explanation
Indices: 7260796--7260947 Score: 209
Period size: 53 Copynumber: 2.9 Consensus size: 53
7260786 GTGATCTTGG
* *
7260796 TATGATTATATATTTAATTTCATGTTTATTTGCATGATTTATATTATTATTTA
1 TATGATTATATATTTAATTTCATGTCTATTTGCATGATTTATATTATTAATTA
* ** * *
7260849 TATGATTATACATTTAATTGGATGTCTATTTGCATGATTTATACTGTTAATTA
1 TATGATTATATATTTAATTTCATGTCTATTTGCATGATTTATATTATTAATTA
* *
7260902 CATGATTATATATTTAATTTCATATCTATTTGCATGA-TTAT-TTATT
1 TATGATTATATATTTAATTTCATGTCTATTTGCATGATTTATATTATT
7260948 TCTTTGTGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 3 0.04
52 4 0.05
53 78 0.92
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (53 bp):
TATGATTATATATTTAATTTCATGTCTATTTGCATGATTTATATTATTAATTA
Found at i:7260918 original size:20 final size:21
Alignment explanation
Indices: 7260881--7260920 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7260871 TGTCTATTTG
7260881 CATGATTTATACTGTTAATTA
1 CATGATTTATACTGTTAATTA
7260902 CATGATTATATA-T-TTAATT
1 CATGATT-TATACTGTTAATT
7260921 TCATATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (21 bp):
CATGATTTATACTGTTAATTA
Found at i:7261211 original size:18 final size:18
Alignment explanation
Indices: 7261170--7261255 Score: 77
Period size: 18 Copynumber: 4.7 Consensus size: 18
7261160 TATTTGATTT
*
7261170 TATATTTGTATGGTTATTAA
1 TATATTTGCATGG-TATT-A
*
7261190 TATATTTGCATGGTATTT
1 TATATTTGCATGGTATTA
*
7261208 TATATTATTGCAT-G-ATAA
1 TATA-T-TTGCATGGTATTA
*
7261226 TATATTTGCATGATATTA
1 TATATTTGCATGGTATTA
*
7261244 TATATTTACATG
1 TATATTTGCATG
7261256 ATTATTATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
16 6 0.11
17 1 0.02
18 24 0.44
19 6 0.11
20 18 0.33
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (18 bp):
TATATTTGCATGGTATTA
Found at i:7261256 original size:18 final size:18
Alignment explanation
Indices: 7261170--7261296 Score: 89
Period size: 20 Copynumber: 6.7 Consensus size: 18
7261160 TATTTGATTT
* *
7261170 TATATTTGTATGGTTATTAA
1 TATATTTGCAT-GATATT-A
* *
7261190 TATATTTGCATGGTATTT
1 TATATTTGCATGATATTA
7261208 TATATTATTGCATGATA--A
1 TATA-T-TTGCATGATATTA
7261226 TATATTTGCATGATATTA
1 TATATTTGCATGATATTA
*
7261244 TATATTTACATGATTATTA
1 TATATTTGCATGA-TATTA
*
7261263 T-TATTATTGTATGATAATTAA
1 TATA-T-TTGCATGAT-ATT-A
*
7261284 TATATTTGTATGA
1 TATATTTGCATGA
7261297 CATTCTTGCA
Statistics
Matches: 89, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
16 10 0.11
17 1 0.01
18 23 0.26
19 14 0.16
20 36 0.40
21 3 0.03
22 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (18 bp):
TATATTTGCATGATATTA
Found at i:7261259 original size:16 final size:16
Alignment explanation
Indices: 7261218--7261264 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 16
7261208 TATATTATTG
* *
7261218 CATGATAATATATTTG
1 CATGATTATATATTTA
7261234 CATGATATTATATATTTA
1 CATG--ATTATATATTTA
7261252 CATGATTAT-TATT
1 CATGATTATATATT
7261265 ATTATTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
18 14 0.52
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (16 bp):
CATGATTATATATTTA
Found at i:7261268 original size:54 final size:56
Alignment explanation
Indices: 7261170--7261280 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 56
7261160 TATTTGATTT
* * *
7261170 TATATTTGTATGGTTATTAATATATTTGCATGGTATTTTATATTATTGCATGATAA
1 TATATTTGCATGGATATTAATATATTTACATGGTATTTTATATTATTGCATGATAA
*
7261226 TATATTTGCAT-GATATT-ATATATTTACAT-G-ATTATTATTATTATTGTATGATAA
1 TATATTTGCATGGATATTAATATATTTACATGGTATT-TTA-TATTATTGCATGATAA
7261280 T
1 T
7261281 TAATATATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
52 3 0.06
53 4 0.08
54 27 0.55
55 5 0.10
56 10 0.20
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (56 bp):
TATATTTGCATGGATATTAATATATTTACATGGTATTTTATATTATTGCATGATAA
Found at i:7265788 original size:24 final size:23
Alignment explanation
Indices: 7265735--7265800 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
7265725 TTAAAAACGT
*
7265735 TTTTAAT--AATTTTTTAAAAAA
1 TTTTAATAAAATTATTTAAAAAA
* *
7265756 TTTTGATAAAATTATTTAAAATTA
1 TTTTAATAAAATTATTTAAAA-AA
*
7265780 TTTTAATAAAAATATCTTAAA
1 TTTTAATAAAATTAT-TTAAA
7265801 TAATAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 6 0.17
23 11 0.31
24 14 0.39
25 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTAATAAAATTATTTAAAAAA
Found at i:7265801 original size:24 final size:24
Alignment explanation
Indices: 7265747--7265800 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
7265737 TTAATAATTT
* * *
7265747 TTTAAAA-AATTTTGATAAAATTA
1 TTTAAAATTATTTTAATAAAAATA
7265770 TTTAAAATTATTTTAATAAAAATA
1 TTTAAAATTATTTTAATAAAAATA
7265794 TCTTAAA
1 T-TTAAA
7265801 TAATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.27
24 14 0.54
25 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTAAAATTATTTTAATAAAAATA
Found at i:7265860 original size:28 final size:26
Alignment explanation
Indices: 7265808--7265860 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
7265798 AAATAATAAT
*
7265808 TTTAAATTTTTTATTAAAAGTTATTA
1 TTTAAATTTTTTATTAAAAGATATTA
7265834 TTTAAATTATTTTTATTTAAAA-ATATT
1 TTTAAA-T-TTTTTA-TTAAAAGATATT
7265861 TTAAACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.26
27 1 0.04
28 10 0.43
29 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTAAATTTTTTATTAAAAGATATTA
Found at i:7265863 original size:26 final size:25
Alignment explanation
Indices: 7265796--7265879 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 25
7265786 TAAAAATATC
7265796 TTAAATAATAATTTTAAAT-TTTTTA-
1 TTAAA-AAT-ATTTTAAATATTTTTAT
*
7265821 TTAAAAGTTATTATTTAAATTATTTTTAT
1 TTAAAA-ATA-T-TTTAAA-TATTTTTAT
*
7265850 TTAAAAATATTTTAAACAATTTTT-T
1 TTAAAAATATTTTAAA-TATTTTTAT
7265875 TTAAA
1 TTAAA
7265880 TTTTTTATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
24 2 0.04
25 13 0.27
26 18 0.37
27 2 0.04
28 8 0.16
29 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
TTAAAAATATTTTAAATATTTTTAT
Found at i:7265896 original size:64 final size:64
Alignment explanation
Indices: 7265766--7265888 Score: 167
Period size: 66 Copynumber: 1.9 Consensus size: 64
7265756 TTTTGATAAA
*
7265766 ATTATTTAAAATTATTTTAATAAAAATATCTTAAATAATAATTTTAAATTTTTTATTAAAAGTT
1 ATTATTTAAAATTATTTTAATAAAAATATCTTAAACAATAATTTTAAATTTTTTATTAAAAGTT
* * **
7265830 ATTATTT-AAATTATTTTTATTTAAAAATATTTTAAACAATTTTTTTTAAATTTTTTATT
1 ATTATTTAAAATTA-TTTTA-ATAAAAATATCTTAAACAA-TAATTTTAAATTTTTTATT
7265889 GAATTATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
63 6 0.12
64 12 0.24
65 16 0.31
66 17 0.33
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (64 bp):
ATTATTTAAAATTATTTTAATAAAAATATCTTAAACAATAATTTTAAATTTTTTATTAAAAGTT
Found at i:7266688 original size:12 final size:12
Alignment explanation
Indices: 7266664--7266699 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
7266654 GTAAATAAAA
7266664 AAAATAATTTAAT
1 AAAA-AATTTAAT
*
7266677 AAAAATTTTAAT
1 AAAAAATTTAAT
7266689 AAAAAATTTAA
1 AAAAAATTTAA
7266700 ATTGATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAAAATTTAAT
Found at i:7266923 original size:6 final size:6
Alignment explanation
Indices: 7266914--7266962 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
7266904 AAATTTATCG
* *
7266914 ATTTTA ATTTTG ATTTTG ATTTTA ATTTTTA ATTTTA ATTTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA A-TTTTA ATTTTA A-TTTTA ATTTT
7266963 GTTATTCCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 27 0.69
7 12 0.31
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:7266945 original size:7 final size:7
Alignment explanation
Indices: 7266933--7266962 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7266923 TTGATTTTGA
7266933 TTTTAAT
1 TTTTAAT
7266940 TTTTAA-
1 TTTTAAT
7266946 TTTTAAT
1 TTTTAAT
7266953 TTTTAAT
1 TTTTAAT
7266960 TTT
1 TTT
7266963 GTTATTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:7266948 original size:13 final size:13
Alignment explanation
Indices: 7266915--7266962 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
7266905 AATTTATCGA
*
7266915 TTTTAATTTTGA-
1 TTTTAATTTTAAT
*
7266927 TTTTGATTTTAAT
1 TTTTAATTTTAAT
7266940 TTTTAATTTTAAT
1 TTTTAATTTTAAT
7266953 TTTTAATTTT
1 TTTTAATTTT
7266963 GTTATTCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:7267179 original size:2 final size:2
Alignment explanation
Indices: 7267160--7267214 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
7267150 AGCCATGGTT
* *
7267160 TA TA TA TC TA TA TC 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
*
7267202 TA TA TA TT TA TA T
1 TA TA TA TA TA TA T
7267215 GGAACCTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7280083 original size:41 final size:44
Alignment explanation
Indices: 7279990--7280076 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 44
7279980 CACAATGGAA
* * * *
7279990 ACAAAATGTTATGATGGGAATCGGAGAGTATTATCAACTTCAGAGC
1 ACAAAATGATATGATGGGAATCGAAAAGTATCATCAACTTC--AGC
*
7280036 ACAAAATGATATGATGGGAATTGAAAAGTATCATCAACTTC
1 ACAAAATGATATGATGGGAATCGAAAAGTATCATCAACTTC
7280077 GAAAAATAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (44 bp):
ACAAAATGATATGATGGGAATCGAAAAGTATCATCAACTTCAGC
Found at i:7283068 original size:24 final size:23
Alignment explanation
Indices: 7283016--7283068 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
7283006 TATATTTGAT
* *
7283016 TTATTATTAATATATAAAATTTA
1 TTATTATCAATAAATAAAATTTA
*
7283039 TATATTATCAATAAATCAAATTATA
1 T-TATTATCAATAAATAAAATT-TA
7283064 TTATT
1 TTATT
7283069 TTATTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.84
25 3 0.12
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATTATCAATAAATAAAATTTA
Found at i:7285955 original size:20 final size:19
Alignment explanation
Indices: 7285905--7285956 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
7285895 ATTATTTAAA
*
7285905 AAAATTAATTATTTATTATT
1 AAAATT-ATTATTAATTATT
*
7285925 -AAATAATTTATTAATTTATT
1 AAAATTA-TTATTAA-TTATT
7285945 AAAATTATTATT
1 AAAATTATTATT
7285957 TATGATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.04
19 10 0.38
20 10 0.38
21 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AAAATTATTATTAATTATT
Found at i:7289406 original size:22 final size:23
Alignment explanation
Indices: 7289362--7289408 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
7289352 TTAACTTAAC
* *
7289362 AAAAACTCAATAAATATATAACA
1 AAAAACTCAACAAATATAGAACA
*
7289385 AAAAACTCAACAAATCT-GAACA
1 AAAAACTCAACAAATATAGAACA
7289407 AA
1 AA
7289409 TCTATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.64, C:0.17, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAAACTCAACAAATATAGAACA
Found at i:7297416 original size:14 final size:16
Alignment explanation
Indices: 7297397--7297428 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
7297387 AATTTTTTCC
7297397 AAAAAA-AAAA-AGAA
1 AAAAAAGAAAAGAGAA
7297411 AAAAAAGAAAAGAGAA
1 AAAAAAGAAAAGAGAA
7297427 AA
1 AA
7297429 GAATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAGAA
Found at i:7302666 original size:87 final size:88
Alignment explanation
Indices: 7302556--7302772 Score: 267
Period size: 87 Copynumber: 2.4 Consensus size: 88
7302546 AAAGATATTC
* * * * * * *
7302556 ACATTTGCTTTCAGCTCTGCATCATAAAAAAATGACATTCATATTTGCATCACTTTTATTCG-CA
1 ACATTTGCTTTCAACTCTACATCACAAAAAAAGGACATTCACATTTGCATCACCTGTATTCGTCA
*
7302620 CTTGCATGTGCATCATGAGAAAG
66 CTTGCATGTACATCATGAGAAAG
* * *
7302643 ACATTTACTTTCAACTCTACATCACAAAAAAAGGACATTCGCATTTGCATCACCTGTATTTGTAT
1 ACATTTGCTTTCAACTCTACATCACAAAAAAAGGACATTCACATTTGCATCACCTGTATTCG--T
*
7302708 CATTTGCATGTACATCATGAGAAAG
64 CACTTGCATGTACATCATGAGAAAG
*
7302733 ACATTTGCATTC-ACATCTACATCACAAAAAAAGAGACATT
1 ACATTTGCTTTCAAC-TCTACATCACAAAAAAAG-GACATT
7302773 TGCATCACTT
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
87 52 0.47
89 2 0.02
90 51 0.46
91 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (88 bp):
ACATTTGCTTTCAACTCTACATCACAAAAAAAGGACATTCACATTTGCATCACCTGTATTCGTCA
CTTGCATGTACATCATGAGAAAG
Found at i:7302752 original size:90 final size:87
Alignment explanation
Indices: 7302556--7302777 Score: 259
Period size: 90 Copynumber: 2.5 Consensus size: 87
7302546 AAAGATATTC
* * * ** * *
7302556 ACATTTGCTTTCAGC-TCTGCATCATAAAAAAATGACATTCATATTTGCATCACTTTTATTCGCA
1 ACATTTGCTTTCA-CATCTACATCACAAAAAAAGGACATTCGCATTTGCATCACCTGTATTCGCA
*
7302620 CTTGCATGTGCATCATGAGAAAG
65 CTTGCATGTACATCATGAGAAAG
* *
7302643 ACATTTACTTTCA-ACTCTACATCACAAAAAAAGGACATTCGCATTTGCATCACCTGTATTTGTA
1 ACATTTGCTTTCACA-TCTACATCACAAAAAAAGGACATTCGCATTTGCATCACCTGTATTCG--
*
7302707 TCATTTGCATGTACATCATGAGAAAG
63 -CACTTGCATGTACATCATGAGAAAG
* *
7302733 ACATTTGCATTCACATCTACATCACAAAAAAAGAGACATTTGCAT
1 ACATTTGCTTTCACATCTACATCACAAAAAAAG-GACATTCGCAT
7302778 CACTTACATC
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
87 51 0.45
90 52 0.46
91 11 0.10
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (87 bp):
ACATTTGCTTTCACATCTACATCACAAAAAAAGGACATTCGCATTTGCATCACCTGTATTCGCAC
TTGCATGTACATCATGAGAAAG
Found at i:7303074 original size:88 final size:88
Alignment explanation
Indices: 7302947--7303141 Score: 221
Period size: 88 Copynumber: 2.2 Consensus size: 88
7302937 TAAAAAAATG
* * * * * *
7302947 AAAATGACATTCGCATTTATATCTCTTACATTCGCACTTGCATGTGCATCATGAAAAAGACATTT
1 AAAAAGACATTCGCATTTGTATCACTCACATTCACACTTGCATATGCATCATGAAAAAGACATTT
* * *
7303012 GCTTTCA-ACTTTACATCACAAAA
66 ACATTCACA-TCTACATCACAAAA
* * * *
7303035 AAAAAGACATTCGCATTTGTATCACTCGCATTCATACTTGTATATGCATCATGAGAAAGACATTT
1 AAAAAGACATTCGCATTTGTATCACTCACATTCACACTTGCATATGCATCATGAAAAAGACATTT
* *
7303100 ACATTCACATCTACATCATAAAG
66 ACATTCACATCTACATCACAAAA
* *
7303123 AAAGAGACATTTGCATTTG
1 AAAAAGACATTCGCATTTG
7303142 CATTGCTTGC
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
88 88 0.99
89 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (88 bp):
AAAAAGACATTCGCATTTGTATCACTCACATTCACACTTGCATATGCATCATGAAAAAGACATTT
ACATTCACATCTACATCACAAAA
Found at i:7303235 original size:24 final size:24
Alignment explanation
Indices: 7303186--7303250 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
7303176 GTATTTACAT
*
7303186 CACTTGCATTTGCATTTATATAAGA
1 CACTTGCATTTGCA-TCATATAAGA
*
7303211 CGCTTGCATTTGCATCATATAAGA
1 CACTTGCATTTGCATCATATAAGA
* *
7303235 CATTTGCATTTTCATC
1 CACTTGCATTTGCATC
7303251 CTGGTATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 22 0.63
25 13 0.37
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (24 bp):
CACTTGCATTTGCATCATATAAGA
Done.