Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 64 of 100
Found at i:11637152 original size:40 final size:40
Alignment explanation
Indices: 11637098--11637176 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
11637088 ATTAAAATAA
* * *
11637098 ATGATAGAACTATTTTAATGAAAA-TTATTTTATGGAACAG
1 ATGATAAAACTATTTCAAT-AAAAGTTATTTTACGGAACAG
*
11637138 ATGATAAAATTATTTCAATAAAAGTTATTTTACGGAACA
1 ATGATAAAACTATTTCAATAAAAGTTATTTTACGGAACA
11637177 ATTATTTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (40 bp):
ATGATAAAACTATTTCAATAAAAGTTATTTTACGGAACAG
Found at i:11639530 original size:22 final size:22
Alignment explanation
Indices: 11639483--11639530 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
11639473 TTGTTTTTTT
* * *
11639483 ATTTTTCTAATATTTAATAAAT
1 ATTTTTATAATATTTAAAAAAA
11639505 ATTTTTATAA-ATTATAAAAAAA
1 ATTTTTATAATATT-TAAAAAAA
11639527 ATTT
1 ATTT
11639531 ATTTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTTTATAATATTTAAAAAAA
Found at i:11653072 original size:14 final size:15
Alignment explanation
Indices: 11653049--11653078 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11653039 AAGTGAAGTA
11653049 TTTTACTTATAATTT
1 TTTTACTTATAATTT
11653064 TTTTA-TTATAATTT
1 TTTTACTTATAATTT
11653078 T
1 T
11653079 ATAATTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTACTTATAATTT
Found at i:11654111 original size:20 final size:20
Alignment explanation
Indices: 11654082--11654121 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11654072 ATTATAAATA
*
11654082 ATATTTTTAATATTTTATAT
1 ATATTATTAATATTTTATAT
*
11654102 ATATTATTAATTTTTTATAT
1 ATATTATTAATATTTTATAT
11654122 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATATTATTAATATTTTATAT
Found at i:11656606 original size:32 final size:32
Alignment explanation
Indices: 11656568--11656635 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
11656558 TATATTTCTA
* *
11656568 AAAAGAGCAATCGGTTCTTCCTTTCTTTCTCT
1 AAAAGAGCAATCAGTTCTTCCTTTCTCTCTCT
*
11656600 AAAAGAGCAATCAGTTCTTCTTTTCTCTCTCT
1 AAAAGAGCAATCAGTTCTTCCTTTCTCTCTCT
11656632 AAAA
1 AAAA
11656636 ATTCATTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (32 bp):
AAAAGAGCAATCAGTTCTTCCTTTCTCTCTCT
Found at i:11658234 original size:26 final size:26
Alignment explanation
Indices: 11658200--11658254 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
11658190 TTAGGTCAAG
11658200 TTTAAAAAAAAATTCTCACCTAAAAA
1 TTTAAAAAAAAATTCTCACCTAAAAA
* * * * *
11658226 TTTAGAAAATATTTCTCACTTAGAAA
1 TTTAAAAAAAAATTCTCACCTAAAAA
11658252 TTT
1 TTT
11658255 TTTAAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (26 bp):
TTTAAAAAAAAATTCTCACCTAAAAA
Found at i:11662545 original size:21 final size:21
Alignment explanation
Indices: 11662519--11662564 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
11662509 GGAGAGTACA
11662519 ATATGTAAAAGTATATATATT
1 ATATGTAAAAGTATATATATT
11662540 ATATGTAAAAGTATATATATT
1 ATATGTAAAAGTATATATATT
11662561 ATAT
1 ATAT
11662565 TATAACTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
ATATGTAAAAGTATATATATT
Found at i:11668856 original size:2 final size:2
Alignment explanation
Indices: 11668840--11668881 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
11668830 TACAACTCTG
*
11668840 AT AT -T AT AT AC AT AT 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 AT AT AT AT AT AT AT AT
11668881 A
1 A
11668882 GAAAAGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11675123 original size:8 final size:8
Alignment explanation
Indices: 11675100--11675162 Score: 67
Period size: 8 Copynumber: 8.0 Consensus size: 8
11675090 TCTTTGTATT
11675100 TTTATTT-
1 TTTATTTA
11675107 TTATATTTA
1 TT-TATTTA
*
11675116 TTTTTTTA
1 TTTATTTA
*
11675124 TCTATTTA
1 TTTATTTA
*
11675132 TTTACTTA
1 TTTATTTA
*
11675140 TTTATCTA
1 TTTATTTA
11675148 TTTATTTA
1 TTTATTTA
11675156 TTT-TTTA
1 TTTATTTA
11675163 AAAATATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
7 6 0.13
8 38 0.83
9 2 0.04
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTATTTA
Found at i:11675123 original size:20 final size:20
Alignment explanation
Indices: 11675110--11675161 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
11675100 TTTATTTTTA
11675110 TATTTATTTTTTTATCTATT
1 TATTTATTTTTTTATCTATT
* *
11675130 TATTTACTTATTTATCTATT
1 TATTTATTTTTTTATCTATT
11675150 TATTTATTTTTT
1 TATTTATTTTTT
11675162 AAAAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTATTTTTTTATCTATT
Found at i:11675155 original size:12 final size:12
Alignment explanation
Indices: 11675100--11675162 Score: 67
Period size: 12 Copynumber: 5.3 Consensus size: 12
11675090 TCTTTGTATT
11675100 TTTATTT-TTATA
1 TTTATTTATT-TA
*
11675112 TTTATTTTTTTA
1 TTTATTTATTTA
*
11675124 TCTATTTATTTA
1 TTTATTTATTTA
* *
11675136 CTTATTTATCTA
1 TTTATTTATTTA
11675148 TTTATTTATTT-
1 TTTATTTATTTA
11675159 TTTA
1 TTTA
11675163 AAAATATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
11 4 0.09
12 37 0.86
13 2 0.05
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTTATTTA
Found at i:11675406 original size:122 final size:119
Alignment explanation
Indices: 11675201--11675422 Score: 261
Period size: 120 Copynumber: 1.8 Consensus size: 119
11675191 TAAAAAAGCC
* ** *
11675201 TTACCAACATATTAGAGGGCTTATATTTTTATTTTCAAAATAAAATTTTACCAACATATTAGAAA
1 TTACCAACATATTAGAGAGCTTATA-TTTTATTTAAAAAATAAAATTTTACCAACAAATTAGAAA
*
11675266 ATTTCATAATTTTTTAAAAAATAAAATTTAAGAAAAAAAGTTAGTTTTCAAAAGGCT
65 ATTTAATAATTTTTT-AAAAATAAAATTTAA-AAAAAAAGTTAGTTTTCAAAAGGCT
* * * * *
11675323 TTACTAACATATTAGAGAGCTTATGA-TTT-TTTAAAAAATAATATTTTACTAACAAATTGGAGA
1 TTACCAACATATTAGAGAGCTTAT-ATTTTATTTAAAAAATAAAATTTTACCAACAAATTAGAAA
*
11675386 ATCTTAAT-ATTTTTAATAAAAATCAAATTTAAAAAAA
65 AT-TTAATAATTTTT--TAAAAATAAAATTTAAAAAAA
11675423 TAAAATAATT
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
120 40 0.47
121 21 0.25
122 23 0.27
123 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (119 bp):
TTACCAACATATTAGAGAGCTTATATTTTATTTAAAAAATAAAATTTTACCAACAAATTAGAAAA
TTTAATAATTTTTTAAAAATAAAATTTAAAAAAAAAGTTAGTTTTCAAAAGGCT
Found at i:11682864 original size:43 final size:42
Alignment explanation
Indices: 11682778--11682884 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 42
11682768 AATGAAAGAT
* *
11682778 AAGAGCTCATTTCTTATTTTAAAGTTGTTAAGCCTGTAGATAG
1 AAGAGCTCATTTCTTAATTTAAAGTTATTAAGCCTGTA-ATAG
*
11682821 AAGAGC-CTATTTCTTAATTTAAAGTTATTGAATCTCTGT-ATAG
1 AAGAGCTC-ATTTCTTAATTTAAAGTTATT-AAGC-CTGTAATAG
* *
11682864 AGGAGTTCATTTCTTAATTTA
1 AAGAGCTCATTTCTTAATTTA
11682885 GTTTTAAAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
42 1 0.02
43 46 0.84
44 4 0.07
45 4 0.07
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (42 bp):
AAGAGCTCATTTCTTAATTTAAAGTTATTAAGCCTGTAATAG
Found at i:11684385 original size:4 final size:4
Alignment explanation
Indices: 11684363--11684414 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
11684353 ATTTTCTATG
* * *
11684363 TTTA TTTTA TTTA TCTA TTTA TTTA CTTA TTTA TCTA TTTA TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
11684412 TTT
1 TTT
11684415 TTAAATACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
4 37 0.90
5 4 0.10
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:11684394 original size:20 final size:20
Alignment explanation
Indices: 11684369--11684414 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11684359 TATGTTTATT
11684369 TTATTTATCTATTTATTTAC
1 TTATTTATCTATTTATTTAC
*
11684389 TTATTTATCTATTTATTTAT
1 TTATTTATCTATTTATTTAC
11684409 TTATTT
1 TTATTT
11684415 TTAAATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTATCTATTTATTTAC
Found at i:11686550 original size:21 final size:21
Alignment explanation
Indices: 11686503--11686569 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
11686493 TTTATTTATA
* * *
11686503 TATATTTATATAATTATATAAT
1 TATATTTATAAAATAATAT-TT
11686525 TATATTTATAAAATAATATTT
1 TATATTTATAAAATAATATTT
*
11686546 TATATTTAAAAAATAATATTT
1 TATATTTATAAAATAATATTT
11686567 TAT
1 TAT
11686570 TAATTTTAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 24 0.59
22 17 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATTTATAAAATAATATTT
Found at i:11689734 original size:198 final size:199
Alignment explanation
Indices: 11689391--11689793 Score: 623
Period size: 198 Copynumber: 2.0 Consensus size: 199
11689381 TCCAATTCTA
**
11689391 ATGGTTACAAATGGAAGTGAACGATTCACCATCTATAATTATGCTTCAAAGAAGGATTTGAGAGT
1 ATGG-TACAAATGGAAGTGAACGATTCACCATCTATAAAGATGCTTCAAAGAAGGATTTGAGAGT
* *
11689456 TTGTTTTGACACAACATTAGAAAATGATATCATATGTTTCTAGGCAACTCAAACCTTTTAAGCAA
65 TTGTTTTGACACAACATTAGAAAATGATATCATATGTTTCTAGGCAACTCAAACCTTATAAACAA
* *
11689521 ATCTAACCTAATCATGGCTTAGAGCTCAT-AGTT-GTGTGTTTGCTCTTAAAATTTGAAGACACT
130 ATCTAACCTAATCATGACTTAGAGCTCATGA-TTGGTGTGTTTGCTCTTAAAATTTAAAGACACT
11689584 ACTTAT
194 ACTTAT
*
11689590 ATGGTACAAATGGAAGTGAACGATTCACCATCTATAAAGATGCTTCAAAGAAGGGTTTGAGAGTT
1 ATGGTACAAATGGAAGTGAACGATTCACCATCTATAAAGATGCTTCAAAGAAGGATTTGAGAGTT
* * * * *
11689655 TGTTTTGATACAACATTAGAAAGTGGTGTCATATGCTTT-TAGGTAACTCAAACCTTATAAACAA
66 TGTTTTGACACAACATTAGAAAATGATATCATATG-TTTCTAGGCAACTCAAACCTTATAAACAA
* * *
11689719 ATCTAACCTAATCATGACTTGGAGCTCATGATTGGTGTGTTTGCTCTTAAATTTTAAAGACATTA
130 ATCTAACCTAATCATGACTTAGAGCTCATGATTGGTGTGTTTGCTCTTAAAATTTAAAGACACTA
11689784 CTTAT
195 CTTAT
11689789 ATGGT
1 ATGGT
11689794 GAGAAGTTCA
Statistics
Matches: 186, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
198 140 0.75
199 46 0.25
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (199 bp):
ATGGTACAAATGGAAGTGAACGATTCACCATCTATAAAGATGCTTCAAAGAAGGATTTGAGAGTT
TGTTTTGACACAACATTAGAAAATGATATCATATGTTTCTAGGCAACTCAAACCTTATAAACAAA
TCTAACCTAATCATGACTTAGAGCTCATGATTGGTGTGTTTGCTCTTAAAATTTAAAGACACTAC
TTAT
Found at i:11691264 original size:3 final size:3
Alignment explanation
Indices: 11691256--11691284 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11691246 CATATCAAGT
11691256 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11691285 TATTTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11692413 original size:25 final size:25
Alignment explanation
Indices: 11692385--11692435 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
11692375 AAAGCGCTAA
11692385 AACTCT-TTTAGGCACATTCAACTAC
1 AACTCTCTTT-GGCACATTCAACTAC
*
11692410 AACTCTCTTTGGCACATTCGACTAC
1 AACTCTCTTTGGCACATTCAACTAC
11692435 A
1 A
11692436 TGGGTGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
AACTCTCTTTGGCACATTCAACTAC
Found at i:11697915 original size:30 final size:28
Alignment explanation
Indices: 11697881--11697956 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 28
11697871 TTAATTTTAT
*
11697881 ATTAAGAGTTTATTTAAATATAAATTAAA
1 ATTAAG-GTTTATTTAAATACAAATTAAA
**
11697910 GATTAATGGTTTATTTGGATACAAATTAAA
1 -ATTAA-GGTTTATTTAAATACAAATTAAA
11697940 AGTTAAGGATTTATTTA
1 A-TTAAGG-TTTATTTA
11697957 GTTACAACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.08
30 35 0.90
31 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.42
Consensus pattern (28 bp):
ATTAAGGTTTATTTAAATACAAATTAAA
Found at i:11697963 original size:30 final size:30
Alignment explanation
Indices: 11697889--11698002 Score: 85
Period size: 30 Copynumber: 3.8 Consensus size: 30
11697879 ATATTAAGAG
* *
11697889 TTTATTTAAATATAAATT-AAAGATTAATGG-
1 TTTATTTAGATACAAATTAAAAG-TTAA-GGA
*
11697919 TTTATTTGGATACAAATTAAAAGTTAAGGA
1 TTTATTTAGATACAAATTAAAAGTTAAGGA
* * *
11697949 TTTATTTAGTTAC-AA-CAAAAGTATAAAGA
1 TTTATTTAGATACAAATTAAAAGT-TAAGGA
* *
11697978 TTTATTTAAATA-AAATGATAAAGTT
1 TTTATTTAGATACAAATTA-AAAGTT
11698003 CAAGAGTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
28 6 0.09
29 21 0.31
30 32 0.47
31 9 0.13
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.39
Consensus pattern (30 bp):
TTTATTTAGATACAAATTAAAAGTTAAGGA
Found at i:11700821 original size:22 final size:23
Alignment explanation
Indices: 11700776--11700828 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
11700766 TTTATTTTAT
*
11700776 ATATTTATATATTTATTAAAAATA
1 ATATTT-TATATTTATAAAAAATA
11700800 ATATTTTATATTT-TAAAAAATA
1 ATATTTTATATTTATAAAAAATA
11700822 ATATTTT
1 ATATTTT
11700829 TTTAATTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 15 0.54
23 7 0.25
24 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTTTATATTTATAAAAAATA
Found at i:11700824 original size:25 final size:26
Alignment explanation
Indices: 11700774--11700824 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
11700764 AATTTATTTT
**
11700774 ATATATTTATATATTTATTAAAAATA
1 ATATATTTATATATTTAAAAAAAATA
11700800 ATAT-TTTATAT-TTTAAAAAATAATA
1 ATATATTTATATATTTAAAAAA-AATA
11700825 TTTTTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 7 0.32
25 11 0.50
26 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATATATTTATATATTTAAAAAAAATA
Found at i:11702791 original size:132 final size:131
Alignment explanation
Indices: 11702622--11703121 Score: 469
Period size: 132 Copynumber: 3.8 Consensus size: 131
11702612 TTGTTGTTGC
*
11702622 CTAATT-AAT-TTT-TTAAATATTTTATATAATAATAAAAAAAATTGTTA-CAAATCTCTACAAT
1 CTAATTAAATATTTCTT-AATATTTTATATAATAATAAAAATAATTGTTATCAAATCTCTACAAT
* * ** * * *
11702683 ATTTAGAATGACAACAAAAGTCATTGCT-AAATCTTATCATATTTGTAACAATTTTTCTATAATA
65 ATTCATAACAACAA-AAAAGTCATTG-TAAAATCTTATCAGATTTGTAACAATTTTT-TATAGTT
11702747 ATTGT
127 ATTGT
* * * * *
11702752 CTTATTAAATATTTCTTAATATTTTATGTAATAATAAAAATAGTTATTATGAAATCTCTACAATA
1 CTAATTAAATATTTCTTAATATTTTATATAATAATAAAAATAATTGTTATCAAATCTCTACAATA
* * * ** * * *
11702817 TTCATAACAACAAAAAAAGCCGA-TGTAAAATTTTATTAGATTTGTAATGACTTTTAATAGTTTT
66 TTCATAACAAC-AAAAAAGTC-ATTGTAAAATCTTATCAGATTTGTAACAATTTTTTATAGTTAT
11702881 TGT
129 TGT
* ** * *
11702884 CTAATTAAA-AGTTTTTTAATATTTTATATAACGATCAAAATAGTTGTTA-CAAAATCTCTACAA
1 CTAATTAAATA-TTTCTTAATATTTTATATAATAATAAAAATAATTGTTATC-AAATCTCTACAA
* * * * * * * * *
11702947 TATTCATAAAAATAAAAAAGTCATTGCAAAATTTTAACATATTTGCAACAATTTTTTATGGTTGT
64 TATTCATAACAACAAAAAAGTCATTGTAAAATCTTATCAGATTTGTAACAATTTTTTATAGTTAT
*
11703012 TCT
129 TGT
* * * * * * *
11703015 ATAATTAAATGTTTCTTAATATTTTATA-AATAATCAAAATAATTTTTATGAAATCTTTATAATA
1 CTAATTAAATATTTCTTAATATTTTATATAATAATAAAAATAATTGTTATCAAATCTCTACAATA
*
11703079 TTCATAACAATAAAAAAGTCATTGTAAAATCTTATCAGATTTG
66 TTCATAACAACAAAAAAGTCATTGTAAAATCTTATCAGATTTG
11703122 CGATCATATT
Statistics
Matches: 299, Mismatches: 59, Indels: 24
0.78 0.15 0.06
Matches are distributed among these distances:
130 72 0.24
131 68 0.23
132 103 0.34
133 53 0.18
134 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (131 bp):
CTAATTAAATATTTCTTAATATTTTATATAATAATAAAAATAATTGTTATCAAATCTCTACAATA
TTCATAACAACAAAAAAGTCATTGTAAAATCTTATCAGATTTGTAACAATTTTTTATAGTTATTG
T
Found at i:11705197 original size:28 final size:28
Alignment explanation
Indices: 11705125--11705190 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
11705115 TGGCTACTAC
11705125 TGCAGGCAGCCACTCTGCTTGCTGCAAG
1 TGCAGGCAGCCACTCTGCTTGCTGCAAG
* * *
11705153 TGCCGGCAGCCACTCTGCTTGTTGCCAG
1 TGCAGGCAGCCACTCTGCTTGCTGCAAG
11705181 TGCAGGCAGC
1 TGCAGGCAGC
11705191 TATTCTGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.21
Consensus pattern (28 bp):
TGCAGGCAGCCACTCTGCTTGCTGCAAG
Found at i:11707993 original size:92 final size:94
Alignment explanation
Indices: 11707806--11707993 Score: 326
Period size: 92 Copynumber: 2.0 Consensus size: 94
11707796 ATGATAATAT
11707806 TGTAGGATAAAATTTGCGAATTATTGGAAGAAGTTGGTGGCGGAGAGGTGGGCGGATTCCGGGTT
1 TGTAGGATAAAATTTGCGAATTATTGGAAGAAGTTGGTGGCGGAGAGGTGGGCGGATTCCGGGTT
* *
11707871 CGTCCCCTGCACATGTATAGGAGTAACCC
66 CCTCCCCTGCACATGTATAAGAGTAACCC
11707900 TGTA-GATAAAATTTGCGAATTATTGGAAGAAGTTGGTGGCGGAGA-GTGGGCGGATTCCGGGTT
1 TGTAGGATAAAATTTGCGAATTATTGGAAGAAGTTGGTGGCGGAGAGGTGGGCGGATTCCGGGTT
**
11707963 CCTCCTGTGCACATGTATAAGAGTAACCC
66 CCTCCCCTGCACATGTATAAGAGTAACCC
11707992 TG
1 TG
11707994 GTGACGGTGA
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 45 0.50
93 41 0.46
94 4 0.04
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (94 bp):
TGTAGGATAAAATTTGCGAATTATTGGAAGAAGTTGGTGGCGGAGAGGTGGGCGGATTCCGGGTT
CCTCCCCTGCACATGTATAAGAGTAACCC
Found at i:11708996 original size:23 final size:24
Alignment explanation
Indices: 11708967--11709016 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
11708957 CCAATTATTT
*
11708967 TTTAAAATTATAAATA-GTTAAAA
1 TTTAAAAATATAAATATGTTAAAA
* *
11708990 TTTAAAAATATATATATTTTAAAA
1 TTTAAAAATATAAATATGTTAAAA
11709014 TTT
1 TTT
11709017 TTAAAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TTTAAAAATATAAATATGTTAAAA
Found at i:11709061 original size:17 final size:17
Alignment explanation
Indices: 11709039--11709072 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11709029 AATTACTTAT
*
11709039 TATTGAGATATTAGCAC
1 TATTGAGATAGTAGCAC
11709056 TATTGAGATAGTAGCAC
1 TATTGAGATAGTAGCAC
11709073 GTAGTTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (17 bp):
TATTGAGATAGTAGCAC
Found at i:11710915 original size:27 final size:27
Alignment explanation
Indices: 11710885--11710939 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
11710875 AGATGACTAA
11710885 GAATTTATTTTCTAAAAGTAGAATCAT
1 GAATTTATTTTCTAAAAGTAGAATCAT
*
11710912 GAATTTATTTTTTAAAAGTAGAATCAT
1 GAATTTATTTTCTAAAAGTAGAATCAT
11710939 G
1 G
11710940 TTCTAATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (27 bp):
GAATTTATTTTCTAAAAGTAGAATCAT
Found at i:11727796 original size:19 final size:19
Alignment explanation
Indices: 11727761--11727807 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
11727751 TTTGAATTAA
11727761 AAAATAAAATTAATATATT
1 AAAATAAAATTAATATATT
*
11727780 AAAATCAAAATT-TTATATT
1 AAAAT-AAAATTAATATATT
11727799 ATAAATAAA
1 A-AAATAAA
11727808 TTCTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAAAATTAATATATT
Found at i:11729176 original size:22 final size:22
Alignment explanation
Indices: 11729150--11729206 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11729140 CTTATTTTTT
* *
11729150 AATA-AAAT-AATCTTAAATTT
1 AATATAAATAAATCATAAATTA
11729170 AATATAAATAAATCATAAATTA
1 AATATAAATAAATCATAAATTA
11729192 AATATTTAAATAAAT
1 AATA--TAAATAAAT
11729207 TTAATAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 4 0.13
21 4 0.13
22 14 0.45
24 9 0.29
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATAAATAAATCATAAATTA
Found at i:11729660 original size:35 final size:36
Alignment explanation
Indices: 11729597--11729673 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 36
11729587 TTCTTAATTA
* *
11729597 AATATT-ATATATTATTTAATATTTATATTAATGCAT
1 AATATTGA-ATATAATTTAATAATTATATTAATGCAT
* *
11729633 ATTATTGAATATAATTTAA-AATTATATTAATTCAT
1 AATATTGAATATAATTTAATAATTATATTAATGCAT
11729668 AATATT
1 AATATT
11729674 ATGTAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 19 0.54
36 15 0.43
37 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
AATATTGAATATAATTTAATAATTATATTAATGCAT
Found at i:11729910 original size:36 final size:34
Alignment explanation
Indices: 11729859--11729926 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
11729849 ATTTTTAAAA
*
11729859 TATTATAATTGTATTTAATTAATATAATATTATTTT
1 TATTAAAATTGTATTTAATTAAT-TAA-ATTATTTT
* * *
11729895 TATTAAAATTTTATTTCATTTATTAAATTATT
1 TATTAAAATTGTATTTAATTAATTAAATTATT
11729927 ATATTTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 6 0.21
35 3 0.11
36 19 0.68
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (34 bp):
TATTAAAATTGTATTTAATTAATTAAATTATTTT
Found at i:11732865 original size:21 final size:22
Alignment explanation
Indices: 11732836--11732879 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
11732826 AATTTTGAAT
* *
11732836 TTTTGAAGCATATGATTGATCC
1 TTTTGAAGCAAAAGATTGATCC
11732858 TTTT-AAGCAAAAGATTGATCC
1 TTTTGAAGCAAAAGATTGATCC
11732879 T
1 T
11732880 CTTGCACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (22 bp):
TTTTGAAGCAAAAGATTGATCC
Found at i:11734460 original size:22 final size:23
Alignment explanation
Indices: 11734405--11734461 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
11734395 AATATAGTAT
*
11734405 AGGATCGATCC-CTATTAAATAA
1 AGGATTGATCCTCTATTAAATAA
* *
11734427 GGGA-TCATTCCTCT-TTAAATAA
1 AGGATTGA-TCCTCTATTAAATAA
11734449 AGGATTGATCCTC
1 AGGATTGATCCTC
11734462 AATAACCAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
21 1 0.04
22 22 0.81
23 4 0.15
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (23 bp):
AGGATTGATCCTCTATTAAATAA
Found at i:11740770 original size:15 final size:16
Alignment explanation
Indices: 11740727--11740777 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
11740717 ATTTTGTTTG
**
11740727 TATTAAAAATATTTAT
1 TATTAAAAATAAATAT
11740743 TATTAAAATAATAAATA-
1 TATT-AAA-AATAAATAT
*
11740760 TATTAAAAATAAAAAT
1 TATTAAAAATAAATAT
11740776 TA
1 TA
11740778 ATAGAAGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.24
16 9 0.31
17 7 0.24
18 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TATTAAAAATAAATAT
Found at i:11745418 original size:28 final size:33
Alignment explanation
Indices: 11745360--11745433 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 33
11745350 AATTATGTTT
*
11745360 TATTTTATTTTTTAAACATATAAATTCTTTAT-A
1 TATTTTATATTTTAAACATAT-AATTCTTTATGA
11745393 TATTTTATATTTTAAA-AT-T-ATT-TTTATGA
1 TATTTTATATTTTAAACATATAATTCTTTATGA
*
11745422 T-TTTTTTATTTT
1 TATTTTATATTTT
11745434 TTAACATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
28 15 0.39
29 5 0.13
31 1 0.03
32 2 0.05
33 15 0.39
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (33 bp):
TATTTTATATTTTAAACATATAATTCTTTATGA
Found at i:11754661 original size:39 final size:40
Alignment explanation
Indices: 11754617--11754699 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
11754607 TTAAAGAATA
*
11754617 ATTTTTAA-ATTATCCATAATATAAAAAAATAAAATGATT
1 ATTTTTAATATTATCCATAATATAAAAAAATAAAATGATC
* * *
11754656 ATTTTTAATTTTTTTCATAATATAAAAAAATAAAATGATC
1 ATTTTTAATATTATCCATAATATAAAAAAATAAAATGATC
11754696 ATTT
1 ATTT
11754700 AAGGTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 8 0.21
40 31 0.79
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (40 bp):
ATTTTTAATATTATCCATAATATAAAAAAATAAAATGATC
Found at i:11755559 original size:131 final size:131
Alignment explanation
Indices: 11755293--11755539 Score: 322
Period size: 131 Copynumber: 1.9 Consensus size: 131
11755283 TAAATAAATT
* *
11755293 AAAGGATCATTTTTAATTTTTTTCATAGTATAAAAAAATAAAAGATCATTGAAGGCACTTTTTGT
1 AAAGGATCATTTTTAATTTTTTTCATAATATAAAAAAATAAAAGATCATTGAAAGCACTTTTTGT
* * * *** *
11755358 ACATAAATGCCTTAAATAATCTTTTTATAAATTAAAAGATAATTTTTAAATAATCCATAATATAA
66 ACAAAAACGCCTTAAATAATCTTTTTATAAACTAAAAGATAACAATTAAAGAATCCATAATATAA
11755423 A
131 A
*
11755424 AAAGGATCATTTTTAATTTTTTTCATAATAT-AAAAAATAAAATGATCATTTAAAGC-CTTTTTG
1 AAAGGATCATTTTTAATTTTTTTCATAATATAAAAAAATAAAA-GATCATTGAAAGCACTTTTTG
11755487 TACAGAAAACGCCTTAAATAAT-TATTTTATAAAACTAGAAA-ATAACCAATTAA
65 TACA-AAAACGCCTTAAATAATCT-TTTTAT-AAACTA-AAAGATAA-CAATTAA
11755540 GGCGTGCAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
130 23 0.23
131 62 0.61
132 9 0.09
133 7 0.07
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (131 bp):
AAAGGATCATTTTTAATTTTTTTCATAATATAAAAAAATAAAAGATCATTGAAAGCACTTTTTGT
ACAAAAACGCCTTAAATAATCTTTTTATAAACTAAAAGATAACAATTAAAGAATCCATAATATAA
A
Found at i:11756674 original size:217 final size:214
Alignment explanation
Indices: 11756361--11756772 Score: 483
Period size: 217 Copynumber: 1.9 Consensus size: 214
11756351 ATAAAAAAGG
* * *
11756361 TGAGAATAATCGTAAAATTAATATTATTTAGCTTTAAATGGTTAGAAATGTAGTAACACCTTTAA
1 TGAGAATAATCGTAAAATTAATATTATTTAGCTTAAAATGATTAGAAATATAGTAACACCTTTAA
* * *** **
11756426 GAAAAAATTATGATAATTTTGAACATAATGAACGGTAACAACAAGTGT-AAAAAGATATTATTAT
66 GAAAAAATTATAATAATTTTAAACATAATGAAAAATAACAACAAACGTCAAAAA-ATATTATTA-
* * *
11756490 AACATAAGTAATTAAGTTGGCAACGT-AAAAAATTATTATTACAAATAAAAAATAATTTTAAACA
129 AA-AT--GTAA-TAAATTGACAACGTAAAAAAATTAATATTACAAATAAAAAATAATTTTAAACA
11756554 AAAAAAAGAATTAAACATAAAACGA
190 AAAAAAAGAATTAAACATAAAACGA
* * *
11756579 TGAGAATAATCGTAAAATTAATATTATTTCG-TGTAAAATGATTAGAAGTATCA-TTACA-CTTT
1 TGAGAATAATCGTAAAATTAATATTATTTAGCT-TAAAATGATTAGAAATAT-AGTAACACCTTT
* * **
11756641 AATAAAAAATTTTAATAATTTTAAATGTAATGAAAAATAACAACAAACGTCAAAAAATATTATTA
64 AAGAAAAAATTATAATAATTTTAAACATAATGAAAAATAACAACAAACGTCAAAAAATATTATTA
* * * * * *
11756706 AAATGTAATAAATTTATAACGTAAAAAAATTAATATTATAAATAAAATATAATTTTAAGCCAAAA
129 AAATGTAATAAATTGACAACGTAAAAAAATTAATATTACAAATAAAAAATAATTTTAAACAAAAA
11756771 AA
194 AA
11756773 TGAGTGCTAA
Statistics
Matches: 164, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
212 10 0.06
213 43 0.26
215 2 0.01
216 2 0.01
217 53 0.32
218 53 0.32
219 1 0.01
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (214 bp):
TGAGAATAATCGTAAAATTAATATTATTTAGCTTAAAATGATTAGAAATATAGTAACACCTTTAA
GAAAAAATTATAATAATTTTAAACATAATGAAAAATAACAACAAACGTCAAAAAATATTATTAAA
ATGTAATAAATTGACAACGTAAAAAAATTAATATTACAAATAAAAAATAATTTTAAACAAAAAAA
AGAATTAAACATAAAACGA
Found at i:11757778 original size:15 final size:15
Alignment explanation
Indices: 11757750--11757797 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
11757740 AAGAATTAAC
* *
11757750 ATTTTTAATTAAAAG
1 ATTTTAAATAAAAAG
11757765 ATTTTAAATAAAAA-
1 ATTTTAAATAAAAAG
11757779 ATTGTTAACATAAAAAG
1 ATT-TTAA-ATAAAAAG
11757796 AT
1 AT
11757798 GAGAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 3 0.11
15 16 0.57
16 7 0.25
17 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (15 bp):
ATTTTAAATAAAAAG
Found at i:11757791 original size:16 final size:14
Alignment explanation
Indices: 11757752--11757794 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
11757742 GAATTAACAT
* *
11757752 TTTTAATTAAAAGA
1 TTTTAAATAAAAAA
11757766 TTTTAAATAAAAAA
1 TTTTAAATAAAAAA
11757780 TTGTTAACATAAAAA
1 TT-TTAA-ATAAAAA
11757795 GATGAGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 14 0.56
15 4 0.16
16 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
TTTTAAATAAAAAA
Found at i:11759946 original size:15 final size:15
Alignment explanation
Indices: 11759904--11759974 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 15
11759894 TTTTTTTTTT
11759904 AAAT-AATTTAATTAA
1 AAATAAATTT-ATTAA
*
11759919 AAATTTAAAATTTATTAT
1 AAA--T-AAATTTATTAA
*
11759937 AAATAAATTTATCCAA
1 AAATAAATTTAT-TAA
*
11759953 AAGATAAATTTATTAC
1 AA-ATAAATTTATTAA
11759969 AAATAA
1 AAATAA
11759975 TTTGTTGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
15 15 0.33
16 7 0.16
17 11 0.24
18 7 0.16
19 5 0.11
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (15 bp):
AAATAAATTTATTAA
Found at i:11764028 original size:17 final size:17
Alignment explanation
Indices: 11764006--11764068 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
11763996 TTAATATTTA
11764006 ATTAAATATTATAAAAT
1 ATTAAATATTATAAAAT
* **
11764023 ATTAAATATTGTAGGAT
1 ATTAAATATTATAAAAT
11764040 ATT-AATAATTTACTAAAAT
1 ATTAAAT-A-TTA-TAAAAT
11764059 ATTAAATATT
1 ATTAAATATT
11764069 CAATTAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
16 3 0.08
17 18 0.50
18 4 0.11
19 8 0.22
20 3 0.08
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (17 bp):
ATTAAATATTATAAAAT
Found at i:11764109 original size:7 final size:7
Alignment explanation
Indices: 11764097--11764293 Score: 50
Period size: 7 Copynumber: 27.6 Consensus size: 7
11764087 TAAAATTTTC
11764097 ATTAAAT
1 ATTAAAT
11764104 ATTAAATT
1 ATTAAA-T
*
11764112 ATTTTAAT
1 A-TTAAAT
*
11764120 ACTAAAT
1 ATTAAAT
*
11764127 ACTAAAT
1 ATTAAAT
11764134 ATTAAAT
1 ATTAAAT
11764141 -TTAATAT
1 ATTAA-AT
*
11764148 AATTTAAT
1 -ATTAAAT
*
11764156 -TT-AGT
1 ATTAAAT
**
11764161 ATTCGAT
1 ATTAAAT
11764168 ATTCAATATT
1 ATT-AA-A-T
*
11764178 ATTAAAA
1 ATTAAAT
*
11764185 ATGAAAT
1 ATTAAAT
*
11764192 ATAAAAT
1 ATTAAAT
*
11764199 ATT-GA-
1 ATTAAAT
11764204 ATTAAAT
1 ATTAAAT
11764211 ATTAAAT
1 ATTAAAT
*
11764218 -TATATGAT
1 AT-TA-AAT
*
11764226 ATTAGAT
1 ATTAAAT
*
11764233 ATTAAAG
1 ATTAAAT
11764240 ATT--AT
1 ATTAAAT
*
11764245 ATTTAAT
1 ATTAAAT
*
11764252 ATTAATT
1 ATTAAAT
*
11764259 GATTTAAT
1 -ATTAAAT
*
11764267 ACTTAATT
1 A-TTAAAT
*
11764275 AATTTAAT
1 -ATTAAAT
*
11764283 ATTATAT
1 ATTAAAT
11764290 ATTA
1 ATTA
11764294 TATAACATTA
Statistics
Matches: 139, Mismatches: 31, Indels: 40
0.66 0.15 0.19
Matches are distributed among these distances:
5 9 0.06
6 11 0.08
7 79 0.57
8 24 0.17
9 12 0.09
10 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.46
Consensus pattern (7 bp):
ATTAAAT
Found at i:11764274 original size:16 final size:15
Alignment explanation
Indices: 11764240--11764286 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
11764230 GATATTAAAG
11764240 ATTATATTTAATATTA
1 ATTA-ATTTAATATTA
*
11764256 ATTGATTTAATACTTA
1 ATTAATTTAATA-TTA
11764272 ATTAATTTAATATTA
1 ATTAATTTAATATTA
11764287 TATATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTAATTTAATATTA
Found at i:11764386 original size:35 final size:36
Alignment explanation
Indices: 11764323--11764399 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 36
11764313 TTTTTGATTA
* *
11764323 AATATT-ATATATTATTTAATATTTATATTAATGCAT
1 AATATTGA-ATATAATTTAATAATTATATTAATGCAT
* *
11764359 ATTATTGAATATAATTTAA-AATTATATTAATTCAT
1 AATATTGAATATAATTTAATAATTATATTAATGCAT
11764394 AATATT
1 AATATT
11764400 ATGTAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 19 0.54
36 15 0.43
37 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
AATATTGAATATAATTTAATAATTATATTAATGCAT
Found at i:11764436 original size:20 final size:18
Alignment explanation
Indices: 11764411--11764458 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
11764401 TGTAATAAAA
*
11764411 TTAATATTTACTAATTATTT
1 TTAATATTTA-TAA-AATTT
11764431 TTAATAATTTATAAAATTT
1 TTAAT-ATTTATAAAATTT
11764450 TTAAT-TTTA
1 TTAATATTTA
11764459 GGAAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.15
19 9 0.35
20 8 0.31
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATATTTATAAAATTT
Found at i:11764616 original size:19 final size:19
Alignment explanation
Indices: 11764560--11764617 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
11764550 AATAATAAAA
11764560 TAATTAATTTAAATATT-TT
1 TAATTAATTT-AATATTATT
*
11764579 TAA-AAATTATAAT-TGTATT
1 TAATTAATT-TAATAT-TATT
11764598 TAATTAATTTAATATTATT
1 TAATTAATTTAATATTATT
11764617 T
1 T
11764618 TTATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
17 1 0.03
18 8 0.25
19 18 0.56
20 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TAATTAATTTAATATTATT
Found at i:11765648 original size:10 final size:11
Alignment explanation
Indices: 11765633--11765661 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
11765623 ATTTATGGAC
11765633 TTTATTTTA-T
1 TTTATTTTATT
11765643 TTTATTTTATT
1 TTTATTTTATT
11765654 TTTATTTT
1 TTTATTTT
11765662 TGATGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:11765730 original size:42 final size:42
Alignment explanation
Indices: 11765632--11765731 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 42
11765622 TATTTATGGA
* * *
11765632 CTTTA-TTTTATT-TTATTTTATTTTTATTTTTGATGTTTAT
1 CTTTAGTTTTTTTATTAATTTATTTTTATTTTTCATGTTTAT
* * *
11765672 CTGT-GATTTTTCTATTAATTTA-TTTTATTTTTCTTGATTTAT
1 CTTTAG-TTTTTTTATTAATTTATTTTTATTTTTCATG-TTTAT
11765714 CTTTAGTTTTTTTATTAA
1 CTTTAGTTTTTTTATTAA
11765732 GATAATAATG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
40 3 0.06
41 17 0.36
42 26 0.55
43 1 0.02
ACGTcount: A:0.19, C:0.05, G:0.06, T:0.70
Consensus pattern (42 bp):
CTTTAGTTTTTTTATTAATTTATTTTTATTTTTCATGTTTAT
Found at i:11767066 original size:65 final size:63
Alignment explanation
Indices: 11766979--11767100 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 63
11766969 TTTTCTTTCC
* *
11766979 AAAAAAAAAAATAAAAGGAATTTCTAAATAGGCCCAAACGGTAGAAAATTTAGAAATCCAACA
1 AAAAAAAAAAATAAAAGGAATTTCTAAATAGACCCAAACGGTAGAAAATTTAAAAATCCAACA
* * *
11767042 AAAAATAAATAAAT-AAAGAGAATTTCTAAATAGACCCAAATGGTGGAAATTTTAAAAAT
1 AAAAA-AAA-AAATAAAAG-GAATTTCTAAATAGACCCAAACGGTAGAAAATTTAAAAAT
11767101 TATAAAAGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
63 5 0.10
64 7 0.14
65 39 0.76
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (63 bp):
AAAAAAAAAAATAAAAGGAATTTCTAAATAGACCCAAACGGTAGAAAATTTAAAAATCCAACA
Found at i:11771048 original size:18 final size:18
Alignment explanation
Indices: 11771016--11771055 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
11771006 AAAAAAGTGG
11771016 AAAAAAAGAAGAAAGA-A
1 AAAAAAAGAAGAAAGAGA
*
11771033 AAAAAAAGAGGAAAAGAGA
1 AAAAAAAGAAG-AAAGAGA
11771052 AAAA
1 AAAA
11771056 TGAAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 5 0.25
19 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAGAAAGAGA
Found at i:11771697 original size:63 final size:63
Alignment explanation
Indices: 11771592--11771716 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
11771582 TACAAAAAGC
* * * *
11771592 TGAGAAACTTATGAGTGGTGACCAAGTGATGAAAAACGAAATTTA-TTCTGAAATGGCTAGTGT
1 TGAGAAACCTATGAGTGGTAACCAAGTGATGAAAAAC-AAAATTAGTTCTAAAATGGCTAGTGT
*
11771655 TGAGAAACCTATGAGTGGTAACCAAGTGAT-AGAATACAAAATTAGTTCTAAAATGGCTAGTG
1 TGAGAAACCTATGAGTGGTAACCAAGTGATGA-AAAACAAAATTAGTTCTAAAATGGCTAGTG
11771717 CTAAAAAGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 7 0.13
63 48 0.87
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.27
Consensus pattern (63 bp):
TGAGAAACCTATGAGTGGTAACCAAGTGATGAAAAACAAAATTAGTTCTAAAATGGCTAGTGT
Found at i:11772307 original size:43 final size:43
Alignment explanation
Indices: 11772233--11772316 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
11772223 ATCTTTGAAC
*
11772233 TCAAATGAGAAGCTTTAAACTTTTGGATGTG-AACCTCCAAAAT
1 TCAAATGAAAAGCTTTAAACTTTTGGATGTGAAACC-CCAAAAT
*
11772276 TCAAATGAAAAAGC-TTAAAC-TTTGAGGTGTGAAACCCCAAA
1 TCAAATG-AAAAGCTTTAAACTTTTG-GATGTGAAACCCCAAA
11772317 TTTGTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
42 4 0.11
43 23 0.64
44 9 0.25
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (43 bp):
TCAAATGAAAAGCTTTAAACTTTTGGATGTGAAACCCCAAAAT
Found at i:11772349 original size:20 final size:20
Alignment explanation
Indices: 11772324--11772362 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11772314 AAATTTGTTA
*
11772324 AATGAGAACCTTTGAACTTG
1 AATGAGAACATTTGAACTTG
*
11772344 AATGAGAAGATTTGAACTT
1 AATGAGAACATTTGAACTT
11772363 TTGGATGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
AATGAGAACATTTGAACTTG
Found at i:11772843 original size:46 final size:46
Alignment explanation
Indices: 11772726--11772845 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 46
11772716 AAAGTTGTGA
* *
11772726 CTCTGTTTAGAGGAACCTTTTATTTTTTTTTCAAAAAGTCATTATAC
1 CTCTGTTTAGAGGAGCCTTTTA-TTTTTTTTAAAAAAGTCATTATAC
* * * *
11772773 TTCTGTTTATAGGAGACTTTTATTTTTTTTAAAAAAGTCATTGA-GC
1 CTCTGTTTAGAGGAGCCTTTTATTTTTTTTAAAAAAGTCATT-ATAC
* * *
11772819 CTCTGATTAGATGAGCCTTCTATTTTT
1 CTCTGTTTAGAGGAGCCTTTTATTTTT
11772846 CAAAGTCGTT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
46 41 0.68
47 19 0.32
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (46 bp):
CTCTGTTTAGAGGAGCCTTTTATTTTTTTTAAAAAAGTCATTATAC
Found at i:11773201 original size:5 final size:5
Alignment explanation
Indices: 11773167--11773270 Score: 72
Period size: 5 Copynumber: 19.6 Consensus size: 5
11773157 GGCCCAACTA
11773167 TTTAT TTT-T ATTTA- TTTAT TTATGAT TTTAT TTTAT TTTAT TTTA-
1 TTTAT TTTAT -TTTAT TTTAT TT-T-AT TTTAT TTTAT TTTAT TTTAT
* *
11773212 TTT-T TTTATT TTTAT TCTTGAT GTTTAT TTGTGATT TTTAT ATTAA TTTAT
1 TTTAT TTTA-T TTTAT T-TT-AT -TTTAT TT-T-A-T TTTAT TTTAT TTTAT
11773263 TTTAT TTT
1 TTTAT TTT
11773271 TCTTGATTTA
Statistics
Matches: 81, Mismatches: 4, Indels: 28
0.72 0.04 0.25
Matches are distributed among these distances:
4 11 0.14
5 43 0.53
6 13 0.16
7 10 0.12
8 4 0.05
ACGTcount: A:0.20, C:0.01, G:0.05, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:11773615 original size:18 final size:19
Alignment explanation
Indices: 11773578--11773616 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11773568 TTTGAAAAAA
11773578 TCTAAAAAATTCTCAGATT
1 TCTAAAAAATTCTCAGATT
*
11773597 TCTAAAAAATTTTCA-ATT
1 TCTAAAAAATTCTCAGATT
11773615 TC
1 TC
11773617 GGTGAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (19 bp):
TCTAAAAAATTCTCAGATT
Found at i:11774397 original size:72 final size:75
Alignment explanation
Indices: 11774292--11774448 Score: 189
Period size: 72 Copynumber: 2.1 Consensus size: 75
11774282 ATTTTATTTC
* * * *
11774292 CAAAAAAAAAAAAATAAAGAGAAATAAAAAGAATTTTTAAAT-TGGTCCAAATGGTGAAAAATTT
1 CAAAAAAATAAAAATAAAGAGAAATAAAAAGAATTTTTAAATAAGCT-CAAATGGTAAAAAATTT
*
11774356 GGAAA-TCCAA
65 AGAAATTCCAA
* * *
11774366 CAAAAAAATAAAAAT-AA-ATAAATAAAGAGAATTTTTAAATAAGCTTAAATGGTAAAAAATTTA
1 CAAAAAAATAAAAATAAAGAGAAATAAAAAGAATTTTTAAATAAGCTCAAATGGTAAAAAATTTA
11774429 GAAATTCCAA
66 GAAATTCCAA
11774439 -AAGAAAAATA
1 CAA-AAAAATA
11774449 TTTTTAATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
72 42 0.58
73 16 0.22
74 14 0.19
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.23
Consensus pattern (75 bp):
CAAAAAAATAAAAATAAAGAGAAATAAAAAGAATTTTTAAATAAGCTCAAATGGTAAAAAATTTA
GAAATTCCAA
Found at i:11785394 original size:2 final size:2
Alignment explanation
Indices: 11785387--11785431 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
11785377 AGGATTAAAT
11785387 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
11785429 AG A
1 AG A
11785432 TTAAAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11785716 original size:23 final size:25
Alignment explanation
Indices: 11785675--11785729 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
11785665 TAACAAAAAC
*
11785675 AATAATTAAAATTTGTTAAA-TTTT
1 AATATTTAAAATTTGTTAAACTTTT
* *
11785699 -ATATTTAAACTTTTTTAAACTTTT
1 AATATTTAAAATTTGTTAAACTTTT
11785723 AATATTT
1 AATATTT
11785730 TATAATATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 16 0.62
24 4 0.15
25 6 0.23
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (25 bp):
AATATTTAAAATTTGTTAAACTTTT
Found at i:11785790 original size:18 final size:18
Alignment explanation
Indices: 11785757--11785794 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
11785747 TTGAAATTTT
11785757 TATATTAAAATGATAATAAA
1 TATATTAAAA-GATAA-AAA
11785777 TATATTAAAA-ATAAAAA
1 TATATTAAAAGATAAAAA
11785794 T
1 T
11785795 TGATGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 4 0.22
20 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
TATATTAAAAGATAAAAA
Found at i:11786073 original size:179 final size:178
Alignment explanation
Indices: 11785877--11786237 Score: 600
Period size: 182 Copynumber: 2.0 Consensus size: 178
11785867 TAATTTTTTA
* * *
11785877 ATGGTTTATATTTGATATGCTGAATGAGATAATTTTTTTT-TAAATTAATATTTAAAAGATTTTA
1 ATGGTTTACATTTGATATGCTGAATGAGATAATTTTTTTTAAAAATTAATATTTAAAAGAATTTA
11785941 TTTTGAAAGATCTTTGAATATTT-ATTTTTTAAAAATATTTATTTTTACTTATTAATAAGGTGAC
66 TTTTGAAAGATCTTTGAATATTTAATTTTTT-AAAATATTTATTTTTACTTATTAATAAGGTGAC
*
11786005 ATATTATAATTAGTTCATAATATATAAGAGTTATGCATGTCATGTATAAAT
130 ATATTATAATTAGTTCATAATATATAAGAGTTACGCA--TCATGTATAAAT
*
11786056 ATGGTTTGCATTTGATATGCTGAATGAGATAATTTTTTTTAAAAAAATTAATATTTAAAAGAATT
1 ATGGTTTACATTTGATATGCTGAATGAGATAATTTTTTTT--AAAAATTAATATTTAAAAGAATT
* *
11786121 TCTTTTGAAAGATCTTTGAATATTTAATTTTTTTAAATATTTATTTTTACTTATTAATAAGGTGA
64 TATTTTGAAAGATCTTTGAATATTTAATTTTTTAAAATATTTATTTTTACTTATTAATAAGGTGA
11786186 CATATTATAATTAGTTCATAATATATAAGAGTTACGCATCATGTATAAAT
129 CATATTATAATTAGTTCATAATATATAAGAGTTACGCATCATGTATAAAT
11786236 AT
1 AT
11786238 TTTTTTGGAA
Statistics
Matches: 171, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
179 38 0.22
180 14 0.08
182 112 0.65
183 7 0.04
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (178 bp):
ATGGTTTACATTTGATATGCTGAATGAGATAATTTTTTTTAAAAATTAATATTTAAAAGAATTTA
TTTTGAAAGATCTTTGAATATTTAATTTTTTAAAATATTTATTTTTACTTATTAATAAGGTGACA
TATTATAATTAGTTCATAATATATAAGAGTTACGCATCATGTATAAAT
Found at i:11786445 original size:28 final size:28
Alignment explanation
Indices: 11786378--11786437 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
11786368 AAATTATAAT
11786378 AAAATATTTAATGTGATATCTAAACTTA
1 AAAATATTTAATGTGATATCTAAACTTA
*
11786406 AAAATATTTAATGTGATATTTAAA-TTA
1 AAAATATTTAATGTGATATCTAAACTTA
*
11786433 TAAAT
1 AAAAT
11786438 CTATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (28 bp):
AAAATATTTAATGTGATATCTAAACTTA
Found at i:11787725 original size:19 final size:19
Alignment explanation
Indices: 11787690--11787726 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11787680 TAGGTAAATT
11787690 ATTTTAAAAAATAATTAAA
1 ATTTTAAAAAATAATTAAA
11787709 ATTTTGAAAAAAT-ATTAA
1 ATTTT-AAAAAATAATTAA
11787727 TAGATTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTTTAAAAAATAATTAAA
Found at i:11791651 original size:2 final size:2
Alignment explanation
Indices: 11791644--11791673 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11791634 GTATGTTGTA
11791644 AT AT 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 AT AT
11791674 GTATGATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11793267 original size:11 final size:11
Alignment explanation
Indices: 11793244--11793275 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
11793234 TCTATTTTCA
11793244 TTATTTT-CTT
1 TTATTTTCCTT
11793254 TTATTTTCCTT
1 TTATTTTCCTT
11793265 TTA-TTTCCTT
1 TTATTTTCCTT
11793275 T
1 T
11793276 CTTTCCCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATTTTCCTT
Found at i:11794005 original size:18 final size:18
Alignment explanation
Indices: 11793984--11794018 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11793974 TTTTTTTCTC
* *
11793984 TTTATTTTTTTAAATTTT
1 TTTAATTTTTAAAATTTT
11794002 TTTAATTTTTAAAATTT
1 TTTAATTTTTAAAATTT
11794019 GGAATTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTAATTTTTAAAATTTT
Found at i:11800777 original size:22 final size:20
Alignment explanation
Indices: 11800751--11800790 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
11800741 TTTTGGAAAT
*
11800751 ATAAATTTTGCAATAAACAAAA
1 ATAAAATTTG-AA-AAACAAAA
11800773 ATAAAATTTGAAAAACAA
1 ATAAAATTTGAAAAACAA
11800791 TAAGACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
ATAAAATTTGAAAAACAAAA
Found at i:11805675 original size:22 final size:22
Alignment explanation
Indices: 11805629--11805676 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
11805619 AATTTTTCAG
*
11805629 TAATCCATTAGTAAATTATAGA
1 TAATCCATTAGTAAATTATAAA
* *
11805651 TAATCCATTAGTAATTTGTAAA
1 TAATCCATTAGTAAATTATAAA
11805673 TAAT
1 TAAT
11805677 TCATCAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (22 bp):
TAATCCATTAGTAAATTATAAA
Found at i:11806764 original size:158 final size:156
Alignment explanation
Indices: 11806460--11807015 Score: 544
Period size: 158 Copynumber: 3.5 Consensus size: 156
11806450 GTCATGATTG
* * * *
11806460 AATATGCAACAGTTTTCACCTTTCATAAAGGCATTGTATC-CAAATACGTACA-AA-ACACTATC
1 AATACGCAATAGTTTTCACCTTTCACAAAGTCATTGTATCAC-AATAC--ACATAATACACTATC
* * *
11806522 AAGTTCAATAAAGAATTTTTTACAAATTTTAGGCTTTGAATTTCTATAAAAGTAGTTCATAAACA
63 TAGTTCAATAAAGAA-TTTTTACAAATTTTAGGCTTTGAATTT-TATAAAAGTAGTTCATCAATA
* * * *
11806587 AGCACAATTCATAACAAGAATCACAAAACTA
126 AGCATAATACACAACAAGAATCACAAAACAA
* * *
11806618 AATACACAATAGTTTTCACCTTTTATAAAGTCATTGTATCACAATACACATAATACACTATCTAG
1 AATACGCAATAGTTTTCACCTTTCACAAAGTCATTGTATCACAATACACATAATACACTATCTAG
* * *
11806683 TTCAATAAAAAATTTCTTATAAATTTTAGGCTTTGAATTATTATAAAAGTAGTCCATCAATAAGC
66 TTCAATAAAGAATTT-TTACAAATTTTAGGCTTTGAATT-TTATAAAAGTAGTTCATCAATAAGC
* *
11806748 ATAATACACAATAAGAAACGAGAAACAAAAAGCAA
129 ATAATACACAACAAGAATC-----AC-AAAA-CAA
* * * * * * *
11806783 AATATGCAACAATTTTCACCTTTCACAAAATCATTGTATCATAATACACACAATACACTATCTAA
1 AATACGCAATAGTTTTCACCTTTCACAAAGTCATTGTATCACAATACACATAATACACTATCTAG
* *** *
11806848 TTCAATAAAGAATTTTTAACAAATTTTATGCTTTGAATTGCCGTAAAAGTAGTTAATCAACT-AG
66 TTCAATAAAGAATTTTT-ACAAATTTTAGGCTTTGAATT-TTATAAAAGTAGTTCATCAA-TAAG
* * * *
11806912 CATAGTATACAACAAAAATTACAAAACAA
128 CATAATACACAACAAGAATCACAAAACAA
* * * * * * *
11806941 AATACGTAATAGTTTTTACCTTTCACAAAGTCATTATATCTCAATACATATGATACATTATCTAG
1 AATACGCAATAGTTTTCACCTTTCACAAAGTCATTGTATCACAATACACATAATACACTATCTAG
*
11807006 TTCAACAAAG
66 TTCAATAAAG
11807016 CAAGGCAACT
Statistics
Matches: 327, Mismatches: 57, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
156 3 0.01
157 5 0.02
158 181 0.55
159 6 0.02
160 2 0.01
163 2 0.01
164 6 0.02
165 121 0.37
166 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (156 bp):
AATACGCAATAGTTTTCACCTTTCACAAAGTCATTGTATCACAATACACATAATACACTATCTAG
TTCAATAAAGAATTTTTACAAATTTTAGGCTTTGAATTTTATAAAAGTAGTTCATCAATAAGCAT
AATACACAACAAGAATCACAAAACAA
Found at i:11808538 original size:12 final size:12
Alignment explanation
Indices: 11808523--11808565 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
11808513 ATCATCATCA
11808523 TTTTCTTC-TTT
1 TTTTCTTCTTTT
11808534 TTTT-TTCTTTT
1 TTTTCTTCTTTT
*
11808545 TTTTCTACTTTT
1 TTTTCTTCTTTT
11808557 TTTTCTTCT
1 TTTTCTTCT
11808566 CGAATCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 3 0.11
11 11 0.39
12 14 0.50
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:11810128 original size:22 final size:23
Alignment explanation
Indices: 11810079--11810131 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
11810069 TCTTTATTTC
*
11810079 TTTT-TTTTTTCACATTTTCTCT
1 TTTTCTTTTTTCACATTTGCTCT
* *
11810101 TCTTCTTTTTTCACCTTTGCT-T
1 TTTTCTTTTTTCACATTTGCTCT
11810123 TTTTCTTTT
1 TTTTCTTTT
11810132 CTGCCCTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTCTTTTTTCACATTTGCTCT
Found at i:11810198 original size:20 final size:20
Alignment explanation
Indices: 11810159--11810199 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11810149 TAGCTCCCTT
* *
11810159 TATTCTTCTCATTTTTTCCC
1 TATTCTTCTCATCTTCTCCC
*
11810179 TATTCTTCTCGTCTTCTCCC
1 TATTCTTCTCATCTTCTCCC
11810199 T
1 T
11810200 TTTTTAATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.07, C:0.34, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTCTTCTCATCTTCTCCC
Found at i:11811160 original size:19 final size:20
Alignment explanation
Indices: 11811136--11811180 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
11811126 TTTCATCTAT
*
11811136 TTTGACTAATTTTAACTA-A
1 TTTGACTAAGTTTAACTAGA
11811155 TTTGACTAAGTTTAACTAGA
1 TTTGACTAAGTTTAACTAGA
11811175 TTTGAC
1 TTTGAC
11811181 CTTGGGGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (20 bp):
TTTGACTAAGTTTAACTAGA
Found at i:11812032 original size:32 final size:31
Alignment explanation
Indices: 11811977--11812049 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 31
11811967 TGTTTCTTAA
* * *
11811977 TTCACTTTTGATAATAATGTGTTCTTTGAAT
1 TTCACCTTTCATAATAATATGTTCTTTGAAT
11812008 TTCACCCTTTCATAATAATATGTTCTTTGAAT
1 TTCA-CCTTTCATAATAATATGTTCTTTGAAT
11812040 TTCACCTTTC
1 TTCACCTTTC
11812050 TTTTCATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 10 0.26
32 28 0.74
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (31 bp):
TTCACCTTTCATAATAATATGTTCTTTGAAT
Found at i:11812293 original size:37 final size:37
Alignment explanation
Indices: 11812238--11812357 Score: 111
Period size: 37 Copynumber: 3.3 Consensus size: 37
11812228 GTTCATCTTG
11812238 TCAATTATGAAAACAACATAAATTGCCTTTTCCTTTA
1 TCAATTATGAAAACAACATAAATTGCCTTTTCCTTTA
* * * ** * ***
11812275 TCAATTATGAAAATAACATCATTTTTCTGTGAGTTT-
1 TCAATTATGAAAACAACATAAATTGCCTTTTCCTTTA
*
11812311 T--ATTGATAAAAACAACATAAATTGCCTTTTCCTTTA
1 TCAATT-ATGAAAACAACATAAATTGCCTTTTCCTTTA
*
11812347 TCAAGTATGAA
1 TCAATTATGAA
11812358 CATAACATCA
Statistics
Matches: 58, Mismatches: 21, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
34 3 0.05
35 20 0.34
36 2 0.03
37 31 0.53
38 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (37 bp):
TCAATTATGAAAACAACATAAATTGCCTTTTCCTTTA
Found at i:11812328 original size:72 final size:72
Alignment explanation
Indices: 11812247--11812391 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
11812237 GTCAATTATG
*
11812247 AAAACAACATAAATTGCCTTTTCCTTTATCAATTATGAAAATAACATCATTTTTCTGTGAGTTTT
1 AAAACAACATAAATTGCCTTTTCCTTTATCAAGTATGAAAATAACATCATTTTTCTGTGAGTTTT
11812312 ATTGATA
66 ATTGATA
*
11812319 AAAACAACATAAATTGCCTTTTCCTTTATCAAGTATGAACATAACATCATTTTTCTGTGAGTTTT
1 AAAACAACATAAATTGCCTTTTCCTTTATCAAGTATGAAAATAACATCATTTTTCTGTGAGTTTT
11812384 ATTGATA
66 ATTGATA
11812391 A
1 A
11812392 TTTTAGTAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (72 bp):
AAAACAACATAAATTGCCTTTTCCTTTATCAAGTATGAAAATAACATCATTTTTCTGTGAGTTTT
ATTGATA
Found at i:11815014 original size:12 final size:11
Alignment explanation
Indices: 11814988--11815013 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11814978 ATCTTTCTAG
11814988 TTTTATCATTT
1 TTTTATCATTT
11814999 TTTTATCATTT
1 TTTTATCATTT
11815010 TTTT
1 TTTT
11815014 TTTCTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATCATTT
Found at i:11817533 original size:2 final size:2
Alignment explanation
Indices: 11817521--11817563 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
11817511 AGTTGTGTTC
*
11817521 AT AT CT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
11817563 A
1 A
11817564 AAAGAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11819827 original size:114 final size:114
Alignment explanation
Indices: 11819627--11819969 Score: 643
Period size: 114 Copynumber: 3.0 Consensus size: 114
11819617 TTGAATAACG
* * *
11819627 AGCCACTTGACCAATAGATAGGTCAATTTATTTTGCTTTCAGTCAATTTTAATTAAATAGCATTT
1 AGCCACTTGACCAACAGACAGGTCAATTTATTTTGCTTTCAGTCAATTTTAATTAAATAGAATTT
11819692 AACATTTGAGTACATTATTACCCTTGTATTATAATTAAAATTTCCTACA
66 AACATTTGAGTACATTATTACCCTTGTATTATAATTAAAATTTCCTACA
11819741 AGCCACTTGACCAACAGACAGGTCAATTTATTTTGCTTTCAGTCAATTTTAATTAAATAGAATTT
1 AGCCACTTGACCAACAGACAGGTCAATTTATTTTGCTTTCAGTCAATTTTAATTAAATAGAATTT
11819806 AACATTTGAGTACATTATTACCCTTGTATTATAATTAAAATTTCCTACA
66 AACATTTGAGTACATTATTACCCTTGTATTATAATTAAAATTTCCTACA
11819855 AGCCACTTGACCAACAGACAGGTCAATTTATTTTGCTTTCAGTCAATTTTAATTAAATA-ACATT
1 AGCCACTTGACCAACAGACAGGTCAATTTATTTTGCTTTCAGTCAATTTTAATTAAATAGA-ATT
11819919 TAACATTTGAGTACATTATTACCCTTGTATTATAATTAAAATTTCCTACA
65 TAACATTTGAGTACATTATTACCCTTGTATTATAATTAAAATTTCCTACA
11819969 A
1 A
11819970 TATCATTTTC
Statistics
Matches: 225, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
113 1 0.00
114 224 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (114 bp):
AGCCACTTGACCAACAGACAGGTCAATTTATTTTGCTTTCAGTCAATTTTAATTAAATAGAATTT
AACATTTGAGTACATTATTACCCTTGTATTATAATTAAAATTTCCTACA
Found at i:11820971 original size:26 final size:26
Alignment explanation
Indices: 11820948--11820997 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11820938 TAACAATTGT
*
11820948 ATTTAATAAAAATT-TTAAATAATTTA
1 ATTTAAT-AAAATTAATAAATAATTTA
*
11820974 ATTTTATAAAATTAATAAATAATT
1 ATTTAATAAAATTAATAAATAATT
11820998 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTAATAAAATTAATAAATAATTTA
Found at i:11821064 original size:13 final size:14
Alignment explanation
Indices: 11821030--11821067 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
11821020 GTTTTATTAA
*
11821030 TAATAATTAAAAAG
1 TAATAATAAAAAAG
*
11821044 TAATAATAAAAAAT
1 TAATAATAAAAAAG
11821058 TAA-AATAAAA
1 TAATAATAAAA
11821068 TAAAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
TAATAATAAAAAAG
Found at i:11821099 original size:20 final size:21
Alignment explanation
Indices: 11821062--11821101 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11821052 AAAAATTAAA
11821062 ATAAAATAAAATTTATTTATC
1 ATAAAATAAAATTTATTTATC
*
11821083 ATAAAATAATA-TTATTTAT
1 ATAAAATAAAATTTATTTAT
11821102 TAATTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAAAATAAAATTTATTTATC
Found at i:11824186 original size:103 final size:103
Alignment explanation
Indices: 11824045--11824441 Score: 426
Period size: 103 Copynumber: 3.9 Consensus size: 103
11824035 ATGTTTGTTG
* * * *
11824045 AAAATAGTTTAACAAACGATATTTAATTATTACCAAATATGCTATGTAACCACAATAATATGGTT
1 AAAATAGTTTAACAAACGACATTTAATTATAACGAAATATGTTATGTAACCACAATAATATGGTT
*
11824110 ACTTAAGAGTTTTTGCAACCAATATTTAATAGTTACTA
66 ACTTAAGAGTTTTTGCAACCAATATTTAATAGTTGCTA
** * ** * *
11824148 AAAATAGTTTAACAAATAATATTTAATCGTAACGAAATATGTTATGTAACAATAATAATATGGTT
1 AAAATAGTTTAACAAACGACATTTAATTATAACGAAATATGTTATGTAACCACAATAATATGGTT
* * *
11824213 ACTTAAAAGTTTTTGCAACCAATATTTAATAGTTGTTG
66 ACTTAAGAGTTTTTGCAACCAATATTTAATAGTTGCTA
* * * * *
11824251 AAAATAGTTTAACAAACCACATTTAATAATAATGAAATATGTTATATAACCAC-ATGAATATAGT
1 AAAATAGTTTAACAAACGACATTTAATTATAACGAAATATGTTATGTAACCACAAT-AATATGGT
* * *
11824315 TA-TATAAGAGTTTTTACGACCAATATTTTAT-GATTGCTA
65 TACT-TAAGAGTTTTTGCAACCAATATTTAATAG-TTGCTA
* * * * * * *
11824354 GAAATAGTTTAA-ACAATGACATGTAATTATTACGAAATATTTTATGTAACCAAAATAATATTGT
1 AAAATAGTTTAACA-AACGACATTTAATTATAACGAAATATGTTATGTAACCACAATAATATGGT
* *
11824418 TACCTAACA-TTTATTGCAACCAAT
65 TACTTAAGAGTTT-TTGCAACCAAT
11824442 TTATATGATT
Statistics
Matches: 243, Mismatches: 44, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
102 8 0.03
103 233 0.96
104 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (103 bp):
AAAATAGTTTAACAAACGACATTTAATTATAACGAAATATGTTATGTAACCACAATAATATGGTT
ACTTAAGAGTTTTTGCAACCAATATTTAATAGTTGCTA
Found at i:11824339 original size:206 final size:206
Alignment explanation
Indices: 11824039--11824441 Score: 494
Period size: 206 Copynumber: 2.0 Consensus size: 206
11824029 ATTTATATGT
* * * * *
11824039 TTGTTGAAAATAGTTTAACAAACGATATTTAATTATTACCAAATATGCTATGTAACCACAATAAT
1 TTGTTGAAAATAGTTTAACAAACCACATTTAATAATAACCAAATATGCTATATAACCACAATAAT
* *
11824104 ATGGTTACTTAAGAGTTTTTGCAACCAATATTTAAT-AGTTACTAAAAATAGTTT-AACAAATAA
66 ATAGTTACTTAAGAGTTTTTACAACCAATATTTAATGA-TTACTAAAAATAGTTTAAAC-AATAA
* * * *
11824167 TATTTAATCGTAACGAAATATGTTATGTAA-CAATAATAATATGGTTACTTAAAAGTTT-TTGCA
129 CATGTAATCATAACGAAATATGTTATGTAACCAA-AATAATATGGTTACCTAAAA-TTTATTGCA
11824230 ACCAATATTTAATAG
192 ACCAATATTTAATAG
** *
11824245 TTGTTGAAAATAGTTTAACAAACCACATTTAATAATAATGAAATATGTTATATAACCAC-ATGAA
1 TTGTTGAAAATAGTTTAACAAACCACATTTAATAATAACCAAATATGCTATATAACCACAAT-AA
* * * * *
11824309 TATAGTTA-TATAAGAGTTTTTACGACCAATATTTTATGATTGCTAGAAATAGTTTAAACAATGA
65 TATAGTTACT-TAAGAGTTTTTACAACCAATATTTAATGATTACTAAAAATAGTTTAAACAATAA
* * * * *
11824373 CATGTAATTATTACGAAATATTTTATGTAACCAAAATAATATTGTTACCTAACATTTATTGCAAC
129 CATGTAATCATAACGAAATATGTTATGTAACCAAAATAATATGGTTACCTAAAATTTATTGCAAC
11824438 CAAT
194 CAAT
11824442 TTATATGATT
Statistics
Matches: 167, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
205 6 0.04
206 154 0.92
207 7 0.04
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (206 bp):
TTGTTGAAAATAGTTTAACAAACCACATTTAATAATAACCAAATATGCTATATAACCACAATAAT
ATAGTTACTTAAGAGTTTTTACAACCAATATTTAATGATTACTAAAAATAGTTTAAACAATAACA
TGTAATCATAACGAAATATGTTATGTAACCAAAATAATATGGTTACCTAAAATTTATTGCAACCA
ATATTTAATAG
Found at i:11825040 original size:22 final size:22
Alignment explanation
Indices: 11824989--11825041 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
11824979 TTTTTTTTCT
*
11824989 AAATTGTTTTAAATTATTTAATAA
1 AAATT-TTTTAAATTA-TTAAAAA
*
11825013 ATATTTTTTAAAATTA-TAAAAA
1 AAATTTTTT-AAATTATTAAAAA
11825035 AAATTTT
1 AAATTTT
11825042 AAAAAGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 11 0.44
23 4 0.16
24 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATTTTTTAAATTATTAAAAA
Found at i:11825228 original size:17 final size:17
Alignment explanation
Indices: 11825206--11825240 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11825196 TGTCATGTAT
11825206 TTTTTTTATATTTTATA
1 TTTTTTTATATTTTATA
* *
11825223 TTTTTTTCTTTTTTATA
1 TTTTTTTATATTTTATA
11825240 T
1 T
11825241 ATTTAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTATATTTTATA
Found at i:11825371 original size:16 final size:17
Alignment explanation
Indices: 11825352--11825385 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11825342 TTTTTTTTGT
11825352 TATTT-TATTTTTTTAA
1 TATTTATATTTTTTTAA
11825368 TATTTAATATTTTTTTAA
1 TATTT-ATATTTTTTTAA
11825386 AATATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATATTTTTTTAA
Found at i:11825382 original size:20 final size:18
Alignment explanation
Indices: 11825359--11825410 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 18
11825349 TGTTATTTTA
11825359 TTTTTTTAATATTTAATAT
1 TTTTTTTAATATTTAA-AT
*
11825378 TTTTTTAAAATATATTTAAAT
1 TTTTTT--TA-ATATTTAAAT
11825399 TTTTTTTAATAT
1 TTTTTTTAATAT
11825411 GGGACCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 4 0.14
19 7 0.25
21 9 0.32
22 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTTTAATATTTAAAT
Found at i:11828613 original size:65 final size:65
Alignment explanation
Indices: 11828495--11828624 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 65
11828485 TTTCATATGG
* * * *
11828495 AGTACCCATTTATGTCAAATAGCTTTTGAACATTTGAATTTGAGCTCGGTTTTCTCTGCTTCATT
1 AGTACCCATTTATATCAAATAGCTTTTGAACATTTCAATTTGAACTCGATTTTCTCTGCTTCATT
*
11828560 AGTACCCATTTTATATCAAATAGGTTTTGAA-ATTTCAATTTGAACTCGATTTTCTCTGCTTCAT
1 AGTACCCA-TTTATATCAAATAGCTTTTGAACATTTCAATTTGAACTCGATTTTCTCTGCTTCAT
11828624 T
65 T
11828625 TTATCAGATC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 39 0.66
66 20 0.34
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (65 bp):
AGTACCCATTTATATCAAATAGCTTTTGAACATTTCAATTTGAACTCGATTTTCTCTGCTTCATT
Found at i:11829867 original size:19 final size:20
Alignment explanation
Indices: 11829838--11829878 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11829828 TTAGACACGT
11829838 GGAGAGATTGGATGGGGTGG
1 GGAGAGATTGGATGGGGTGG
* *
11829858 GGAG-GATTGGGTGTGGTGG
1 GGAGAGATTGGATGGGGTGG
11829877 GG
1 GG
11829879 CGTTGGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.15, C:0.00, G:0.63, T:0.22
Consensus pattern (20 bp):
GGAGAGATTGGATGGGGTGG
Found at i:11829934 original size:50 final size:50
Alignment explanation
Indices: 11829861--11829962 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 50
11829851 GGGGTGGGGA
*
11829861 GGATTGGGTGTGGTGGGGCGTTGGG-GGAAAGGTGGGGAAGGATTGGGTGT
1 GGATTAGGTGTGGTGGGGCGTTGGGAGG-AAGGTGGGGAAGGATTGGGTGT
* *
11829911 GGATTAGGTGTGGTGGGGTGTTGGGAGGAAGGTGGGGAGGGATTGGGTGT
1 GGATTAGGTGTGGTGGGGCGTTGGGAGGAAGGTGGGGAAGGATTGGGTGT
11829961 GG
1 GG
11829963 TGGGATGTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 46 0.96
51 2 0.04
ACGTcount: A:0.14, C:0.01, G:0.61, T:0.25
Consensus pattern (50 bp):
GGATTAGGTGTGGTGGGGCGTTGGGAGGAAGGTGGGGAAGGATTGGGTGT
Found at i:11829960 original size:39 final size:40
Alignment explanation
Indices: 11829911--11830010 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
11829901 GATTGGGTGT
*
11829911 GGATTAGGTGTGGTGGGGTGTT-GGGAGGAAGGTGGGGAG
1 GGATTGGGTGTGGTGGGGTGTTAGGGAGGAAGGTGGGGAG
*
11829950 GGATTGGGTGTGGTGGGATGTTAGGGAGGAAGGTGGGGAG
1 GGATTGGGTGTGGTGGGGTGTTAGGGAGGAAGGTGGGGAG
*
11829990 GGATTGGGTGTGGTAGGGTGT
1 GGATTGGGTGTGGTGGGGTGT
11830011 ATGGAGGGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 20 0.36
40 36 0.64
ACGTcount: A:0.15, C:0.00, G:0.60, T:0.25
Consensus pattern (40 bp):
GGATTGGGTGTGGTGGGGTGTTAGGGAGGAAGGTGGGGAG
Found at i:11833447 original size:6 final size:6
Alignment explanation
Indices: 11833433--11833462 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11833423 CTAGATGATA
*
11833433 ATGGTG ATGGAG ATGGTG ATGGTG ATGGTG
1 ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG
11833463 CGAACTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (6 bp):
ATGGTG
Found at i:11833831 original size:18 final size:18
Alignment explanation
Indices: 11833808--11833929 Score: 58
Period size: 18 Copynumber: 6.8 Consensus size: 18
11833798 GGTTATTATC
11833808 CACCTCAAATGTATCCTT
1 CACCTCAAATGTATCCTT
* * *
11833826 CACCTCTTTAAATATATCATC
1 CACCTC---AAATGTATCCTT
* *
11833847 CATCTCAAATGTATCAATT
1 CACCTCAAATGTATC-CTT
* * *
11833866 -ACCACAAATGTACCCTC
1 CACCTCAAATGTATCCTT
* *
11833883 CACCACAAATGTAT-CAT
1 CACCTCAAATGTATCCTT
*
11833900 --CCTCAAATATAT--TT
1 CACCTCAAATGTATCCTT
11833914 CCACCTCAAATGTATC
1 -CACCTCAAATGTATC
11833930 AAGAACAAAG
Statistics
Matches: 77, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
14 1 0.01
15 10 0.13
17 13 0.17
18 37 0.48
19 2 0.03
21 14 0.18
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.31
Consensus pattern (18 bp):
CACCTCAAATGTATCCTT
Found at i:11834683 original size:20 final size:20
Alignment explanation
Indices: 11834655--11834710 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
11834645 AAATATATAG
11834655 TTTTAATTATTTTAATTAAT
1 TTTTAATTATTTTAATTAAT
* *
11834675 TTTTTATTATTTGAAATTAAT
1 TTTTAATTATTT-TAATTAAT
*
11834696 TTTTAATTTTTTTAA
1 TTTTAATTATTTTAA
11834711 CATATAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTAATTATTTTAATTAAT
Found at i:11836628 original size:30 final size:29
Alignment explanation
Indices: 11836559--11836637 Score: 95
Period size: 30 Copynumber: 2.7 Consensus size: 29
11836549 GAGATGATGA
* * *
11836559 ATTTTTTTGGATTTGATTTCTAGATCGGG
1 ATTTTTTTGGATTTTATCTCTAAATCGGG
* *
11836588 ATATTCTTTGGATTTTATCTCTAAATCTGG
1 AT-TTTTTTGGATTTTATCTCTAAATCGGG
11836618 ACTTTTTTTGGATTTTATCT
1 A-TTTTTTTGGATTTTATCT
11836638 ATGAATTCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 2 0.05
30 39 0.93
31 1 0.02
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.54
Consensus pattern (29 bp):
ATTTTTTTGGATTTTATCTCTAAATCGGG
Found at i:11837034 original size:31 final size:31
Alignment explanation
Indices: 11836998--11837057 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
11836988 CTTTGGCTTA
*
11836998 TTAATTTGGTTGTACAAAATTGACCTAATGC
1 TTAATTTGGGTGTACAAAATTGACCTAATGC
*
11837029 TTAATTTGGGTGTACCAAATTGACCTAAT
1 TTAATTTGGGTGTACAAAATTGACCTAAT
11837058 TCCTTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (31 bp):
TTAATTTGGGTGTACAAAATTGACCTAATGC
Found at i:11837319 original size:42 final size:42
Alignment explanation
Indices: 11837260--11837474 Score: 333
Period size: 42 Copynumber: 5.1 Consensus size: 42
11837250 AAATTTATTA
*
11837260 TGGAGGGATTTGGCCTCCAGCTGAGCAAAGAGGGATGTTGGC
1 TGGAGGGATTTTGCCTCCAGCTGAGCAAAGAGGGATGTTGGC
11837302 TGGAGGGATTTTGCCTCCAGCTGAGCAAAGAGGGATGTTGGC
1 TGGAGGGATTTTGCCTCCAGCTGAGCAAAGAGGGATGTTGGC
* *
11837344 TGGAGGGATTTTGCCTCCAGCTGAGCAAACATGGATGTTGGC
1 TGGAGGGATTTTGCCTCCAGCTGAGCAAAGAGGGATGTTGGC
* * * *
11837386 TGGAGGGATTTTTCCT-CATGTTGAGCAAACATGGATGTTGGC
1 TGGAGGGATTTTGCCTCCA-GCTGAGCAAAGAGGGATGTTGGC
* *
11837428 TGGAGGGATTTTGCCTCGAGCTTAGCAAAGAGGGATGTTGGC
1 TGGAGGGATTTTGCCTCCAGCTGAGCAAAGAGGGATGTTGGC
11837470 TGGAG
1 TGGAG
11837475 CTCAGCGTGC
Statistics
Matches: 160, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
41 2 0.01
42 157 0.98
43 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (42 bp):
TGGAGGGATTTTGCCTCCAGCTGAGCAAAGAGGGATGTTGGC
Found at i:11840006 original size:18 final size:18
Alignment explanation
Indices: 11839974--11840038 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
11839964 ACAACAAAAC
* *
11839974 TTAAAAAAGTTTAAAATA
1 TTAAAAAAATCTAAAATA
11839992 TTAAAAAAATCTAAAA-A
1 TTAAAAAAATCTAAAATA
*** *
11840009 TTTTTGAAAATCTAAAAGTT
1 -TTAAAAAAATCTAAAA-TA
11840029 TTAAAAAAAT
1 TTAAAAAAAT
11840039 TGCAAAAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
17 1 0.03
18 27 0.77
19 7 0.20
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
TTAAAAAAATCTAAAATA
Found at i:11840008 original size:19 final size:18
Alignment explanation
Indices: 11839986--11840038 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
11839976 AAAAAAGTTT
11839986 AAAATATTAAAAAAATCTA
1 AAAAT-TTAAAAAAATCTA
***
11840005 AAAATTTTTGAAAATCTA
1 AAAATTTAAAAAAATCTA
*
11840023 AAAGTTTTAAAAAAAT
1 AAA-ATTTAAAAAAAT
11840039 TGCAAAAAAC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (18 bp):
AAAATTTAAAAAAATCTA
Found at i:11840035 original size:17 final size:18
Alignment explanation
Indices: 11839996--11840035 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11839986 AAAATATTAA
*
11839996 AAAAATCTAAAAATTTTT
1 AAAAATCTAAAAAGTTTT
*
11840014 GAAAATCT-AAAAGTTTT
1 AAAAATCTAAAAAGTTTT
11840031 AAAAA
1 AAAAA
11840036 AATTGCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAAATCTAAAAAGTTTT
Found at i:11840151 original size:20 final size:20
Alignment explanation
Indices: 11840128--11840170 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
11840118 ATTTTGAAGA
*
11840128 TTTTTTAAAAATTTTT-TAT
1 TTTTTTTAAAATTTTTATAT
*
11840147 TTTTTTTAGAATTTTTATAT
1 TTTTTTTAAAATTTTTATAT
11840167 TTTT
1 TTTT
11840171 AGAATACTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTTTTAAAATTTTTATAT
Found at i:11840230 original size:21 final size:20
Alignment explanation
Indices: 11840204--11840255 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
11840194 TTGTTCTAAG
*
11840204 TTTTTTAAAATTTTAAGAATT
1 TTTTTTAAAAATTTAAG-ATT
*
11840225 TCTTTTTAAAAATTTCAGA-T
1 T-TTTTTAAAAATTTAAGATT
11840245 TTTTTTAAAAA
1 TTTTTTAAAAA
11840256 AATAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.36
20 2 0.07
21 2 0.07
22 14 0.50
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTTTAAAAATTTAAGATT
Found at i:11842168 original size:31 final size:31
Alignment explanation
Indices: 11842130--11842189 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
11842120 CTTTGGTTTA
*
11842130 TTAATTTGGTTGTACAAAATTGACCTAATAC
1 TTAATTTGGGTGTACAAAATTGACCTAATAC
*
11842161 TTAATTTGGGTGTACTAAATTGACCTAAT
1 TTAATTTGGGTGTACAAAATTGACCTAAT
11842190 TCCTTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (31 bp):
TTAATTTGGGTGTACAAAATTGACCTAATAC
Found at i:11842657 original size:17 final size:17
Alignment explanation
Indices: 11842622--11842654 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11842612 TTTAATTTGG
*
11842622 TATTATTTTTTAATAAA
1 TATTATTTTTTAAAAAA
11842639 TATT-TTTTTTAAAAAA
1 TATTATTTTTTAAAAAA
11842655 ATAAAGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATTTTTTAAAAAA
Found at i:11843368 original size:30 final size:30
Alignment explanation
Indices: 11843363--11843419 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
11843353 GACCTCAAGT
*
11843363 GGGGTGATGGATCTTGACTGGACCATAATC
1 GGGGTGGTGGATCTTGACTGGACCATAATC
* *
11843393 GGGGTGGTGGATATCGACTGGACCATA
1 GGGGTGGTGGATCTTGACTGGACCATA
11843420 GTTGGTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.23, C:0.16, G:0.37, T:0.25
Consensus pattern (30 bp):
GGGGTGGTGGATCTTGACTGGACCATAATC
Found at i:11843666 original size:114 final size:114
Alignment explanation
Indices: 11843396--11843675 Score: 330
Period size: 114 Copynumber: 2.5 Consensus size: 114
11843386 CATAATCGGG
* * * * * * *
11843396 GTGGTGGATATCGACTGGACCATAGTTGGTGTTTTGGACATTGCTTGTATCATAGCTGGGGTGGT
1 GTGGTGGATATTGACTGGACCATAGCTGGAGTTTTGGATATTGCTTGGACCATAACTGGGGTGGT
11843461 GGACTTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCA
66 GGACTTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCA
* * * * * *
11843510 CTGGTGGATATTGACCGAACCATAGCTGGGGTTTTAGCTATTGCTTGGACCATAACTGGGGTGGT
1 GTGGTGGATATTGACTGGACCATAGCTGGAGTTTTGGATATTGCTTGGACCATAACTGGGGTGGT
* * * * ***
11843575 GGATTTCCGGAATGATAATGATGAATTAGATTGTAG-GTTTTTGCTTTTA
66 GGACTTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTT-CTCCCA
* *
11843624 GTGGTGGATATTGACTGGATCATAGCTGGAGTTGTGGATATTGAC-TGGACCA
1 GTGGTGGATATTGACTGGACCATAGCTGGAGTTTTGGATATTG-CTTGGACCA
11843676 CAGTTCGGTT
Statistics
Matches: 137, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
113 6 0.04
114 130 0.95
115 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (114 bp):
GTGGTGGATATTGACTGGACCATAGCTGGAGTTTTGGATATTGCTTGGACCATAACTGGGGTGGT
GGACTTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCA
Found at i:11843961 original size:30 final size:30
Alignment explanation
Indices: 11843925--11843991 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
11843915 CACTGCTAGT
11843925 GATGGATTGTTGGACCTTAGCTGGAGCTCG
1 GATGGATTGTTGGACCTTAGCTGGAGCTCG
* *
11843955 GATGGATTTTTGGACCTTATCTGGAGCTCG
1 GATGGATTGTTGGACCTTAGCTGGAGCTCG
*
11843985 GACGGAT
1 GATGGAT
11843992 GAGAGCTCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.31
Consensus pattern (30 bp):
GATGGATTGTTGGACCTTAGCTGGAGCTCG
Found at i:11844043 original size:33 final size:33
Alignment explanation
Indices: 11844003--11844209 Score: 227
Period size: 33 Copynumber: 6.2 Consensus size: 33
11843993 AGAGCTCGGA
*
11844003 ATTTTTCCCGGACCTCTTTGAAAGCTCGGATGG
1 ATTTTTCCTGGACCTCTTTGAAAGCTCGGATGG
*
11844036 ATTTTTCCTGGACCTCTTTGACAGCTCGGATGG
1 ATTTTTCCTGGACCTCTTTGAAAGCTCGGATGG
* ** *
11844069 AATTTGACTGGACCTCTTTGACAA-CTTGGATGG
1 ATTTTTCCTGGACCTCTTTGA-AAGCTCGGATGG
* *
11844102 ATTTTTCCTGGAACTCTTTGATAGCTCGGATGG
1 ATTTTTCCTGGACCTCTTTGAAAGCTCGGATGG
* ** * *
11844135 AATTTGGCTGGACCTCAGCTTGTAAAACTCGGATGG
1 ATTTTTCCTGGACCTC--TTTG-AAAGCTCGGATGG
* *
11844171 ATTTTTCCTGGACCTCTTTAACAAGCTCGGAGGG
1 ATTTTTCCTGGACCTCTTTGA-AAGCTCGGATGG
11844205 ATTTT
1 ATTTT
11844210 GACCGGAGCT
Statistics
Matches: 141, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
32 1 0.01
33 95 0.67
34 18 0.13
35 3 0.02
36 24 0.17
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (33 bp):
ATTTTTCCTGGACCTCTTTGAAAGCTCGGATGG
Found at i:11844085 original size:66 final size:65
Alignment explanation
Indices: 11844012--11844212 Score: 267
Period size: 66 Copynumber: 3.0 Consensus size: 65
11844002 AATTTTTCCC
11844012 GGACCTCTTTGAAAGCTCGGATGGATTTTTCCTGGACCTCTTTGACAGCTCGGATGGAATTTGAC
1 GGACCTCTTTGAAA-CTCGGATGGATTTTTCCTGGACCTCTTTGACAGCTCGGATGGAATTTGAC
11844077 T
65 T
* * * *
11844078 GGACCTCTTTGACAACTTGGATGGATTTTTCCTGGAACTCTTTGATAGCTCGGATGGAATTTGGC
1 GGACCTCTTTGA-AACTCGGATGGATTTTTCCTGGACCTCTTTGACAGCTCGGATGGAATTTGAC
11844143 T
65 T
* * * *
11844144 GGACCTCAGCTTGTAAAACTCGGATGGATTTTTCCTGGACCTCTTTAACAAGCTCGGAGGGATTT
1 GGACCT---CTT-TGAAACTCGGATGGATTTTTCCTGGACCTCTTTGAC-AGCTCGGATGGAATT
11844209 TGAC
61 TGAC
11844213 CGGAGCTTGG
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
66 65 0.56
67 2 0.02
69 32 0.27
70 18 0.15
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (65 bp):
GGACCTCTTTGAAACTCGGATGGATTTTTCCTGGACCTCTTTGACAGCTCGGATGGAATTTGACT
Found at i:11845879 original size:30 final size:30
Alignment explanation
Indices: 11845816--11845879 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
11845806 AACCGATGAC
* *
11845816 TTAATTGAGTGAAAATAAATATATAACATT
1 TTAATTGAGTGAAAATAAATATATAAAAAT
*
11845846 TTAATTG-GATGAAAATAAATATTTAAAAAT
1 TTAATTGAG-TGAAAATAAATATATAAAAAT
11845876 TTAA
1 TTAA
11845880 GATTTGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (30 bp):
TTAATTGAGTGAAAATAAATATATAAAAAT
Found at i:11846678 original size:21 final size:20
Alignment explanation
Indices: 11846635--11846672 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11846625 TGAGAACTTC
*
11846635 AAATTTTTTTAAAAATCTCA
1 AAATTTTTATAAAAATCTCA
*
11846655 AAATTTTTATAGAAATCT
1 AAATTTTTATAAAAATCT
11846673 AGAAAACTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATTTTTATAAAAATCTCA
Found at i:11846732 original size:17 final size:17
Alignment explanation
Indices: 11846693--11846737 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
11846683 TAAAAAGTTT
11846693 TTAAAAATAAAATTTTA
1 TTAAAAATAAAATTTTA
** *
11846710 ACAAAAATAAAATTTTC
1 TTAAAAATAAAATTTTA
*
11846727 TTAAAATTAAA
1 TTAAAAATAAA
11846738 CAAATAACAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAAATAAAATTTTA
Found at i:11846815 original size:18 final size:18
Alignment explanation
Indices: 11846773--11846815 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11846763 AAAATATTAA
11846773 AAAAAAATCTAAAAATTT
1 AAAAAAATCTAAAAATTT
***
11846791 TTGAAAATCTAAAAATTT
1 AAAAAAATCTAAAAATTT
11846809 AAAAAAA
1 AAAAAAA
11846816 AAATTGCAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAAATCTAAAAATTT
Found at i:11846941 original size:20 final size:20
Alignment explanation
Indices: 11846876--11846971 Score: 72
Period size: 20 Copynumber: 4.9 Consensus size: 20
11846866 TCTTAATATT
* * *
11846876 TTAATATTTTAAATATTTTA
1 TTAATTTTTTAGATTTTTTA
* **
11846896 TAAATTTTGAAGATTTTTTA
1 TTAATTTTTTAGATTTTTTA
**
11846916 AAAATTTTTTAGATTTTTTA
1 TTAATTTTTTAGATTTTTTA
11846936 TTAATTTTTT--ATTTTTT-
1 TTAATTTTTTAGATTTTTTA
* *
11846953 TTAGAATTTTTATATTTTT
1 TTA-ATTTTTTAGATTTTT
11846972 AGAATATTCC
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
17 3 0.05
18 13 0.21
20 45 0.74
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TTAATTTTTTAGATTTTTTA
Found at i:11847048 original size:23 final size:22
Alignment explanation
Indices: 11847004--11847053 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
11846994 TTAGTTCTAA
* *
11847004 TTTTTTTAAAATTTTAAGAATT
1 TTTTTTTAAAAATTTAACAATT
*
11847026 TCTTTTTTAAAAATTTCACAATT
1 T-TTTTTTAAAAATTTAACAATT
11847049 TTTTT
1 TTTTT
11847054 AAAAACTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTTTAAAAATTTAACAATT
Found at i:11850457 original size:114 final size:113
Alignment explanation
Indices: 11850191--11850466 Score: 304
Period size: 114 Copynumber: 2.4 Consensus size: 113
11850181 ATTGGCGTGC
* * * * * * *
11850191 TGGATATCGACTGGACCATAGTTGGTGTTTTGGACATTGCTTGTATCATAGCTGGGGTGGTGGAC
1 TGGATATTGACTGGACCATAGCTGGAG-TTTGGATATTGCTTGGACCATAACTGGGGTGGTGGAC
11850256 TTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCACTGG
65 TTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCACTGG
* * * * * *
11850305 TGGATATTGACCGAACCATAGCTGGGGCTTTAGCTATTGCTTGGACCATAACTGGGGTGGTGGAT
1 TGGATATTGACTGGACCATAGCTGGAG-TTTGGATATTGCTTGGACCATAACTGGGGTGGTGGAC
* * * *** *
11850370 TTCCGGAATGATAATGATGAATTAGATTGTAG-GTTTTTGCTTTTAGTGG
65 TTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTT-CTCCCACTGG
*
11850419 TGGATATTGACTGGATCATAGCTGGAGTTGTGGATATTGAC-TGGACCA
1 TGGATATTGACTGGACCATAGCTGGAGTT-TGGATATTG-CTTGGACCA
11850467 CAGTTCGGTT
Statistics
Matches: 133, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
113 8 0.06
114 124 0.93
115 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.34
Consensus pattern (113 bp):
TGGATATTGACTGGACCATAGCTGGAGTTTGGATATTGCTTGGACCATAACTGGGGTGGTGGACT
TCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCACTGG
Done.