Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 76 of 226
Found at i:24239709 original size:14 final size:15
Alignment explanation
Indices: 24239674--24239720 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
24239664 TATTTTAAGG
*
24239674 TTTAGGGAGTATGGA
1 TTTAGGGAATATGGA
*
24239689 TTTAGGGATTATGGA
1 TTTAGGGAATATGGA
24239704 -TTAGGGAATATGG-
1 TTTAGGGAATATGGA
24239717 TTTA
1 TTTA
24239721 AAGGTTGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (15 bp):
TTTAGGGAATATGGA
Found at i:24239810 original size:280 final size:282
Alignment explanation
Indices: 24239314--24239877 Score: 809
Period size: 294 Copynumber: 2.0 Consensus size: 282
24239304 AGGGTTTTGT
* *
24239314 GTTTTTGTTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGATACTATTTTAAG
1 GTTTTTGTTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAAGAGATACTATTTTAAG
* *
24239379 GTTTAGGGAGTATGAATTTAAGGATTATGGATTAGGGATTATGGTTTAAAGGTTGGAATTTAGGG
66 GTTTAGGGAGTATGAATTTAAGGATTATGGATTAGGGAATATGGTTTAAAGGTTGGAATTTAAGG
*
24239444 TTTAAGGGTTAAAGGTTTAAGGGTTAGAGGTTATAGTGTTAAGAGTTAGGGATTCAGGGGTCGGG
131 TTTAAGGG----AGGTTTAAGGGTTAGAGGTTATAGGGTTAAGAGTTAGGGATTCAGGGGT---G
*
24239509 TTAGGTTTTTGGGTGTAGATTAATTAGTTTTTTAATTTATATTTTAAATGTGTTCTTATATATAT
189 TTAGG-TTTTGGGTGTAGATTAATTAGTTTTTTAATTTATATTTTAAATATGTTC---T-TATAT
24239574 AATTGTAAAAGAAATAATAATAAATTTATTTAGG
249 AATTGTAAAAGAAATAATAATAAATTTATTTAGG
*
24239608 GTTTTTAG-TTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAAGAGTTACTATTTTAA
1 GTTTTT-GTTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAAGAGATACTATTTTAA
* * *
24239672 GGTTTAGGGAGTATGGATTTAGGGATTATGGATTAGGGAATATGGTTTAAAGGTTGGGATTTAAG
65 GGTTTAGGGAGTATGAATTTAAGGATTATGGATTAGGGAATATGGTTTAAAGGTTGGAATTTAAG
* * * * *
24239737 GTTT-A-GG-GGTTTAAGGGTTAGATGTTTTGGGGTTAATAGTTAGGGATTTA-GGGT-TTAGG-
130 GTTTAAGGGAGGTTTAAGGGTTAGAGGTTATAGGGTTAAGAGTTAGGGATTCAGGGGTGTTAGGT
*
24239796 TTTGGGTTTAGATTAATTAGTTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAG
195 TTTGGGTGTAGATTAATTAGTTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAG
*
24239861 AGATAATAATAAATTTA
260 AAATAATAATAAATTTA
24239878 ATATATTGAA
Statistics
Matches: 252, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
276 32 0.13
277 1 0.00
280 46 0.18
282 5 0.02
286 4 0.02
287 37 0.15
292 2 0.01
293 1 0.00
294 123 0.49
295 1 0.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (282 bp):
GTTTTTGTTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAAGAGATACTATTTTAAG
GTTTAGGGAGTATGAATTTAAGGATTATGGATTAGGGAATATGGTTTAAAGGTTGGAATTTAAGG
TTTAAGGGAGGTTTAAGGGTTAGAGGTTATAGGGTTAAGAGTTAGGGATTCAGGGGTGTTAGGTT
TTGGGTGTAGATTAATTAGTTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGA
AATAATAATAAATTTATTTAGG
Found at i:24240196 original size:19 final size:19
Alignment explanation
Indices: 24240172--24240219 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
24240162 AAATTATAAG
*
24240172 AAAT-AAAATAAAAATACAA
1 AAATAAAAAT-AAAATAAAA
*
24240191 AAATAAAAATGAAATAAAA
1 AAATAAAAATAAAATAAAA
24240210 AAATAAAAAT
1 AAATAAAAAT
24240220 TATAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATAAAA
Found at i:24240219 original size:14 final size:14
Alignment explanation
Indices: 24240176--24240218 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
24240166 TATAAGAAAT
*
24240176 AAAATAAAAATACA
1 AAAATAAAAATAAA
*
24240190 AAAATAAAAATGAA
1 AAAATAAAAATAAA
*
24240204 ATAA-AAAAATAAA
1 AAAATAAAAATAAA
24240217 AA
1 AA
24240219 TTATAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:24241820 original size:19 final size:18
Alignment explanation
Indices: 24241796--24241849 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
24241786 TAATGTTTAC
*
24241796 TATATTATTATTTTAATAT
1 TATATTATTA-TTTAATAA
24241815 TATATTA-TATTTAATAA
1 TATATTATTATTTAATAA
*
24241832 TACTTTTATTATTTAATA
1 TA-TATTATTATTTAATA
24241850 CATTAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 16 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATTATTTAATAA
Found at i:24244157 original size:27 final size:26
Alignment explanation
Indices: 24244127--24244183 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
24244117 AATTTTGAGG
*
24244127 TTTACAATTTT-TAATTTTTATTAATT
1 TTTAC-ATTTTCTAACTTTTATTAATT
* *
24244153 ATTTACGTTTTCTCACTTTTATTAATT
1 -TTTACATTTTCTAACTTTTATTAATT
24244180 TTTA
1 TTTA
24244184 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTACATTTTCTAACTTTTATTAATT
Found at i:24244479 original size:43 final size:42
Alignment explanation
Indices: 24244416--24244644 Score: 255
Period size: 43 Copynumber: 5.3 Consensus size: 42
24244406 GTTTGTTTTA
* * *
24244416 TAGCGGCGTTTTTAACAAAAGTGTCGCTAAAGGTCATGAG-CTT
1 TAGCGGCGTTTGTGACAAAAGCG-CGCTAAAGGTCATG-GTCTT
* *
24244459 TAGCGGCGTTTGTGATAAAAGCGCTGCTAAAGGTCATGGTCCT
1 TAGCGGCGTTTGTGACAAAAGCGC-GCTAAAGGTCATGGTCTT
* * *
24244502 TAGCTGCGTTTGTTACAAAAGCGCAGCTAAAGGTCATAAG-CTT
1 TAGCGGCGTTTGTGACAAAAGCGC-GCTAAAGGTCAT-GGTCTT
* *
24244545 TAGTGGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGACAAAAGCG-CGCTAAAGGTCATGGTCTT
* * *
24244588 TAGCAGCGTTTATGACAAAAGCGCCGCTAAAGGTCGTGGTCTT
1 TAGCGGCGTTTGTGACAAAAGCG-CGCTAAAGGTCATGGTCTT
*
24244631 TAGCGGCGCTTGTG
1 TAGCGGCGTTTGTG
24244645 GGTAAAAACG
Statistics
Matches: 156, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
42 3 0.02
43 151 0.97
44 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
TAGCGGCGTTTGTGACAAAAGCGCGCTAAAGGTCATGGTCTT
Found at i:24244531 original size:86 final size:84
Alignment explanation
Indices: 24244416--24244644 Score: 291
Period size: 86 Copynumber: 2.7 Consensus size: 84
24244406 GTTTGTTTTA
* *
24244416 TAGCGGCGTTTTTAACAAAAGTGTCGCTAAAGGTCATGAGCTTTAGCGGCGTTTGTGATAAAAGC
1 TAGCAGCGTTTTT-ACAAAAGCG-CGCTAAAGGTCATGAGCTTTAGCGGCGTTTGTGATAAAAGC
24244481 G-CTGCTAAAGGTCATGGTCCT
64 GTC-GCTAAAGGTCATGGTCCT
* * *
24244502 TAGCTGCGTTTGTTACAAAAGCGCAGCTAAAGGTCATAAGCTTTAGTGGCGTTTGTGATAAAAGC
1 TAGCAGCGTTT-TTACAAAAGCGC-GCTAAAGGTCATGAGCTTTAGCGGCGTTTGTGATAAAAGC
*
24244567 GTCGCTAAAGGTCATGGTCTT
64 GTCGCTAAAGGTCATGGTCCT
* * *
24244588 TAGCAGCGTTTATGACAAAAGCGCCGCTAAAGGTCGTG-GTCTTTAGCGGCGCTTGTG
1 TAGCAGCGTTT-TTACAAAAGCG-CGCTAAAGGTCATGAG-CTTTAGCGGCGTTTGTG
24244645 GGTAAAAACG
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
85 2 0.02
86 120 0.95
87 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (84 bp):
TAGCAGCGTTTTTACAAAAGCGCGCTAAAGGTCATGAGCTTTAGCGGCGTTTGTGATAAAAGCGT
CGCTAAAGGTCATGGTCCT
Found at i:24254639 original size:44 final size:43
Alignment explanation
Indices: 24254603--24254745 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 43
24254593 GCGTTTATGT
*
24254603 AAAAAAATGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAC
1 AAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAC
** * *
24254646 CCACAAACGCCGCTAAAGAACATGATCTTTACCGGCGCTTTTATC
1 AAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTA-C
* * ** * *
24254691 --ACAAACGTCGCTAAA-AGTATGTTCTTTAGCGGCG-TTTAT
1 AAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAC
* *
24254730 GAAAAAACGCCACTAA
1 AAAAAAACGCCGCTAA
24254746 TTTTGGCAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
40 4 0.05
41 11 0.13
42 15 0.18
43 47 0.57
44 4 0.05
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (43 bp):
AAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAC
Found at i:24254659 original size:43 final size:42
Alignment explanation
Indices: 24254611--24254728 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
24254601 GTAAAAAAAT
24254611 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTA-CCACAAAC
* *
24254654 GCCGCTAAAGAACATGATCTTTACCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCACAAAC
* ** *
24254697 GTCGCTAAA-AGTATGTTCTTTAGCGGCG-TTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTA
24254729 TGAAAAAACG
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 4 0.06
42 15 0.22
43 44 0.66
44 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCACAAAC
Found at i:24259391 original size:14 final size:15
Alignment explanation
Indices: 24259364--24259396 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
24259354 CCTAACATCT
24259364 AACCCCTAAACCTTA
1 AACCCCTAAACCTTA
*
24259379 AACCCC-AACCCTTA
1 AACCCCTAAACCTTA
24259393 AACC
1 AACC
24259397 ACAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACCTTA
Found at i:24260468 original size:41 final size:41
Alignment explanation
Indices: 24260355--24260806 Score: 502
Period size: 41 Copynumber: 11.1 Consensus size: 41
24260345 ACAAATATTT
* * * *
24260355 TAAATCCCTGAGCATTAGCGGCGCTT-TTTAGAACACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCA-AAAACGCCGC
** ** *
24260396 TAAA--AATAGAGCATTAGCGATGCTAT-TTCAAAAACGCCGC
1 TAAAGCCCT-GAGCATTAGCGGCGCT-TCCTCAAAAACGCCGC
*
24260436 TAAAGCCCTGAGCATTAACGGCGCTTCCTC-AAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * * *
24260476 TAAAGCCTTG-TCATTAGCGACGCTTCCTTAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * * *
24260516 TAAAGCCTTGATCATTAGCGGCGCTTCCACAAAAACGTCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
*
24260557 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * *
24260598 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCGAAAACCCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* *
24260639 TAAAGCCCTGATCATTAGCGGCGCTTCCTCAAAAATGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * ** *
24260680 TAAAGCCCTGATCATTAACGATGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * * **
24260721 TGAAGCCCTAAGCATCAGCGGCGCTTCCTCAAAAACGATGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * *
24260762 TAAAGCCTTGAGCATTAGCGGCGTTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
24260803 TAAA
1 TAAA
24260807 ACCCCGAAAG
Statistics
Matches: 348, Mismatches: 56, Indels: 14
0.83 0.13 0.03
Matches are distributed among these distances:
39 16 0.05
40 67 0.19
41 264 0.76
42 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
Found at i:24261504 original size:49 final size:49
Alignment explanation
Indices: 24261392--24261521 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 49
24261382 AAAAAGTAAG
* * * * * *
24261392 ATAGGCCGCTGGTAAGGCATATTAGTTGCTAAAAAGATTGGCAGATAAG
1 ATAGGCCGCTAGTAGGGCATGTTAGTTGCTAACAAGATTGGAAGATAAA
** *
24261441 ACGGGCCGCTAGTAGGGCATGTTAGTTGCTAACTAGATTGGAAGATAAA
1 ATAGGCCGCTAGTAGGGCATGTTAGTTGCTAACAAGATTGGAAGATAAA
* * *
24261490 ATAGGCCACTAGTAGGG-ATGTTAATTGTTAAC
1 ATAGGCCGCTAGTAGGGCATGTTAGTTGCTAAC
24261522 CATAATGACA
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 13 0.19
49 54 0.81
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (49 bp):
ATAGGCCGCTAGTAGGGCATGTTAGTTGCTAACAAGATTGGAAGATAAA
Found at i:24264396 original size:29 final size:31
Alignment explanation
Indices: 24264364--24264422 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
24264354 TCATGCGTAT
* *
24264364 AATT-ACATCAAATT-AAAATTTATGTATTA
1 AATTAACATAAAATTAAAAAATTATGTATTA
24264393 AATTACACATAAAATTAAAAAATTATGTAT
1 AATTA-ACATAAAATTAAAAAATTATGTAT
24264423 AACTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.16
31 9 0.36
32 12 0.48
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (31 bp):
AATTAACATAAAATTAAAAAATTATGTATTA
Found at i:24269337 original size:18 final size:16
Alignment explanation
Indices: 24269316--24269349 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
24269306 ACAACATAAC
24269316 AACAGTAAACAACAACAT
1 AACAGT-AACAA-AACAT
24269334 AACAGTAACAAAACAT
1 AACAGTAACAAAACAT
24269350 GTAAAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.62, C:0.21, G:0.06, T:0.12
Consensus pattern (16 bp):
AACAGTAACAAAACAT
Found at i:24269792 original size:19 final size:20
Alignment explanation
Indices: 24269770--24269807 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24269760 TGTAAACAAT
24269770 TAATAT-TAATTTAAATATA
1 TAATATATAATTTAAATATA
* *
24269789 TAATCTATATTTTAAATAT
1 TAATATATAATTTAAATAT
24269808 TATTAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATATATAATTTAAATATA
Found at i:24287912 original size:12 final size:12
Alignment explanation
Indices: 24287897--24287926 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24287887 TTGTTTTTGA
24287897 AAAATATTATAG
1 AAAATATTATAG
*
24287909 AAAATCTTATAG
1 AAAATATTATAG
24287921 AAAATA
1 AAAATA
24287927 ATTTTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (12 bp):
AAAATATTATAG
Found at i:24288128 original size:22 final size:23
Alignment explanation
Indices: 24288090--24288133 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
24288080 TATTGTAAAA
*
24288090 TTTAATTAATATATAACTTATAT
1 TTTAATTAATATATAACGTATAT
24288113 TTTAA-TAAT-TATTAACGTATA
1 TTTAATTAATATA-TAACGTATA
24288134 ACCATTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 12 0.63
23 5 0.26
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAATTAATATATAACGTATAT
Found at i:24288862 original size:22 final size:22
Alignment explanation
Indices: 24288819--24288874 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
24288809 TAGTCATATA
* * *
24288819 ATAAATTATTACTATAACAAAT
1 ATAATTTATTATTTTAACAAAT
*
24288841 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAACAAAT
*
24288863 -T-ATTTAATATTT
1 ATAATTTATTATTT
24288875 CAATTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 10 0.34
21 1 0.03
22 18 0.62
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTATTTTAACAAAT
Found at i:24289490 original size:14 final size:13
Alignment explanation
Indices: 24289471--24289511 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
24289461 CCAAAAAAGC
24289471 AAATCATTTTCTAG
1 AAATCATTTTC-AG
*
24289485 AAATCATTTTCCG
1 AAATCATTTTCAG
24289498 AAAGTCATTTTCAG
1 AAA-TCATTTTCAG
24289512 TGAAACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:24292074 original size:2 final size:2
Alignment explanation
Indices: 24292067--24292117 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
24292057 CTTATCAAAG
24292067 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
24292109 AC AC AC AC A
1 AC AC AC AC A
24292118 TATATATCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:24292842 original size:41 final size:41
Alignment explanation
Indices: 24292797--24292886 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 41
24292787 TGGCACTTCA
24292797 CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAC
1 CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAC
* *
24292838 CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAG
1 CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAC
24292879 CCTGCTAG
1 CCTGCTAG
24292887 ACGTAAAGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (41 bp):
CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAC
Found at i:24293733 original size:21 final size:19
Alignment explanation
Indices: 24293690--24293729 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24293680 CTAATTTCAT
24293690 TACAATAGATTTTCATATA
1 TACAATAGATTTTCATATA
24293709 TACAATAGATTTTCATATA
1 TACAATAGATTTTCATATA
24293728 TA
1 TA
24293730 TACATGCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (19 bp):
TACAATAGATTTTCATATA
Found at i:24294646 original size:28 final size:31
Alignment explanation
Indices: 24294614--24294672 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
24294604 TGTTTTGTTT
24294614 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
24294642 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
24294673 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:24296351 original size:42 final size:43
Alignment explanation
Indices: 24296241--24296351 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
24296231 AGCTCGTACA
* *** *
24296241 ATGCCAATGTCCCAGACGTGGTCTTACATGTATTCGAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCGAATAACG
* *
24296284 ATGCCACTGTCCCAGACAAGGTCTTACACAAAATC--ATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCGAATA-ACG
*
24296326 ATGCCAATGTCCCAGACATGATCTTA
1 ATGCCAATGTCCCAGACATGGTCTTA
24296352 TATGTAATTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 3 0.05
42 26 0.46
43 28 0.49
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCGAATAACG
Found at i:24301343 original size:23 final size:23
Alignment explanation
Indices: 24301313--24301359 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
24301303 TTTTTGAAGT
24301313 CATGGGAGCTTAATTAAGGTAGC
1 CATGGGAGCTTAATTAAGGTAGC
*
24301336 CATGGGAGCTTAATTTAGGTAGC
1 CATGGGAGCTTAATTAAGGTAGC
24301359 C
1 C
24301360 TATGTACCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (23 bp):
CATGGGAGCTTAATTAAGGTAGC
Found at i:24303497 original size:20 final size:20
Alignment explanation
Indices: 24303472--24303510 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24303462 TATATATATA
*
24303472 TATTA-TAATATTTAATAAAT
1 TATTATTAAT-TTAAATAAAT
24303492 TATTATTAATTTAAATAAA
1 TATTATTAATTTAAATAAA
24303511 ATGTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTATTAATTTAAATAAAT
Found at i:24312844 original size:21 final size:21
Alignment explanation
Indices: 24312820--24312870 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24312810 TTCTTTTGAA
* *
24312820 CCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
24312841 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
24312862 CCTCTGCTT
1 CCTCTGCTT
24312871 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:24313604 original size:114 final size:114
Alignment explanation
Indices: 24313399--24313762 Score: 570
Period size: 114 Copynumber: 3.2 Consensus size: 114
24313389 AAAGTTGAAA
* * *
24313399 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCGGCGCTCTCTTAAAAACACTGCTAA
1 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
* * *
24313464 ATCCCCAAAAGCTCAGAAAACGGCGTCGTCGGTCTTAGGTTTTTTTGCG
66 ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTTTTTTTGCG
24313513 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
1 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
*
24313578 ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCG
66 ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTTTTTTTGCG
* * * * * *
24313627 GTGCTTTCTCAAAAACACAGCTAAAGCCCTGAGTATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
1 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
*
24313692 ATCCCCGAAAGCTCCGAAAACAGCGTCGTTGGTCTTAGG--TTTTTGCG
66 ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTTTTTTTGCG
* *
24313739 GCGCTTTCTGAAAAACGCCGCTAA
1 GCGCTTCCTCAAAAACGCCGCTAA
24313763 TGATTATTTT
Statistics
Matches: 231, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
112 28 0.12
114 203 0.88
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (114 bp):
GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTTTTTTTGCG
Found at i:24313838 original size:12 final size:12
Alignment explanation
Indices: 24313821--24313846 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24313811 TTTAGCAAAC
24313821 AAACGCCGCTAA
1 AAACGCCGCTAA
24313833 AAACGCCGCTAA
1 AAACGCCGCTAA
24313845 AA
1 AA
24313847 GCCTGTTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:24326580 original size:27 final size:27
Alignment explanation
Indices: 24326541--24326594 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
24326531 ATGCTAAAAG
24326541 GATAGGCGACACCAGTGACCCCTATCT
1 GATAGGCGACACCAGTGACCCCTATCT
24326568 GATAGGC-AGCACCAGTGACCCCTATCT
1 GATAGGCGA-CACCAGTGACCCCTATCT
24326595 AGGGGTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (27 bp):
GATAGGCGACACCAGTGACCCCTATCT
Found at i:24326805 original size:9 final size:9
Alignment explanation
Indices: 24326791--24326851 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
24326781 TTTGGTTAAA
24326791 AATTACCCG
1 AATTACCCG
*
24326800 AATTACTCG
1 AATTACCCG
24326809 AATTACCCG
1 AATTACCCG
24326818 AATTACCCG
1 AATTACCCG
*
24326827 AATTAACCG
1 AATTACCCG
*
24326836 AATTAACCG
1 AATTACCCG
24326845 AATTACC
1 AATTACC
24326852 GAAAAATACC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:24327331 original size:14 final size:15
Alignment explanation
Indices: 24327306--24327334 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24327296 GGAGAAGAGA
24327306 AGAAAGAAAGAAAAG
1 AGAAAGAAAGAAAAG
24327321 AGAAA-AAAGAAAAG
1 AGAAAGAAAGAAAAG
24327335 GTATTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAAAG
Found at i:24330578 original size:443 final size:443
Alignment explanation
Indices: 24329752--24330640 Score: 1670
Period size: 443 Copynumber: 2.0 Consensus size: 443
24329742 GGGATCAACA
24329752 CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
1 CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
*
24329817 GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATATGCGGGACACGTGTTTAT
66 GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATAGGCGGGACACGTGTTTAT
24329882 CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATAACGAGGTCGATGAATGTAGAAGTAG
131 CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATAACGAGGTCGATGAATGTAGAAGTAG
*
24329947 ATTTATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
196 ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
*
24330012 AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTGATTGCAGGAGGCCCCAAACGCTTCATTA
261 AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTGATTGCAAGAGGCCCCAAACGCTTCATTA
24330077 TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
326 TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
*
24330142 ATGTGTACACACTCGAGCGCACATGGCGTGTCTGGGAGAATGAGTTCCCCGCC
391 ATGTGTACACACTCGAGCACACATGGCGTGTCTGGGAGAATGAGTTCCCCGCC
*
24330195 CTGTGTTGTTGAAAACACGACATTTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
1 CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
24330260 GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATAGGCGGGACACGTGTTTAT
66 GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATAGGCGGGACACGTGTTTAT
*
24330325 CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATGACGAGGTCGATGAATGTAGAAGTAG
131 CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATAACGAGGTCGATGAATGTAGAAGTAG
24330390 ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
196 ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
*
24330455 AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTGATTGCAAGAGGTCCCAAACGCTTCATTA
261 AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTGATTGCAAGAGGCCCCAAACGCTTCATTA
24330520 TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
326 TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
* * * * *
24330585 ATGTGTGCACACTCGAGCACACATTGTGTGTTTGGGAGAATGAGTTCCCCGTC
391 ATGTGTACACACTCGAGCACACATGGCGTGTCTGGGAGAATGAGTTCCCCGCC
24330638 CTG
1 CTG
24330641 CCTAACCTGT
Statistics
Matches: 434, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
443 434 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (443 bp):
CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATAGGCGGGACACGTGTTTAT
CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATAACGAGGTCGATGAATGTAGAAGTAG
ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTGATTGCAAGAGGCCCCAAACGCTTCATTA
TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
ATGTGTACACACTCGAGCACACATGGCGTGTCTGGGAGAATGAGTTCCCCGCC
Found at i:24331128 original size:33 final size:33
Alignment explanation
Indices: 24331090--24331172 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
24331080 GAGGAATGCC
24331090 ATACTGCAGTGGATAC-GACCTAGGAGGAGTG-G
1 ATACTGCAGTGGATACAG-CCTAGGAGGAGTGTG
* * *
24331122 AGTACTGCAGTGGATTCAGGCTAGGAGGAGTGTT
1 A-TACTGCAGTGGATACAGCCTAGGAGGAGTGTG
*
24331156 ATACTGCGGTGGATACA
1 ATACTGCAGTGGATACA
24331173 ACCCAAAGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
32 1 0.02
33 40 0.93
34 2 0.05
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (33 bp):
ATACTGCAGTGGATACAGCCTAGGAGGAGTGTG
Found at i:24334950 original size:2 final size:2
Alignment explanation
Indices: 24334945--24334969 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24334935 CATAAAAAAC
24334945 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24334970 AACCATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24338259 original size:23 final size:23
Alignment explanation
Indices: 24338214--24338259 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24338204 ATTAGTAGGG
* *
24338214 TTGTCAAAATGGGATTACCAACA
1 TTGTCAAAATGGGATCACAAACA
* *
24338237 TTGTGAAAATGGGATCAGAAACA
1 TTGTCAAAATGGGATCACAAACA
24338260 AAAGCAGTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (23 bp):
TTGTCAAAATGGGATCACAAACA
Found at i:24340657 original size:39 final size:39
Alignment explanation
Indices: 24340573--24340721 Score: 156
Period size: 39 Copynumber: 3.7 Consensus size: 39
24340563 CCGCAAAAGG
* * *
24340573 TCAAGCATTAGCGGCGTTTCTGAAACAAACGTCACTATAGG
1 TCAAGCATTAGCGGCGTTTTTG-AA-AAACGCCACTATAGA
24340614 TCAAGCATTAGCGGCGTTTTTTG-AAAACGCCACTATAGA
1 TCAAGCATTAGCGGCG-TTTTTGAAAAACGCCACTATAGA
* * * * *
24340653 TCAAGCATTGGCGGCCCTTTTTGAAAAATGCCGCTATATA
1 TCAAGCATTAGCGG-CGTTTTTGAAAAACGCCACTATAGA
* *
24340693 TCAAGCATTAGCGGCATTTCTCGAAAAAC
1 TCAAGCATTAGCGGCGTTT-TTGAAAAAC
24340722 ACCGCTACAA
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.39
40 35 0.38
41 16 0.17
42 5 0.05
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (39 bp):
TCAAGCATTAGCGGCGTTTTTGAAAAACGCCACTATAGA
Found at i:24340719 original size:40 final size:40
Alignment explanation
Indices: 24340573--24340721 Score: 160
Period size: 40 Copynumber: 3.7 Consensus size: 40
24340563 CCGCAAAAGG
* *
24340573 TCAAGCATTAGCGGCGTTTC-TGAAACAAACGTCACTATAGG
1 TCAAGCATTAGCGGCGTTTCTTG-AA-AAACGCCACTATAGA
*
24340614 TCAAGCATTAGCGGCGTTTTTTG-AAAACGCCACTATAGA
1 TCAAGCATTAGCGGCGTTTCTTGAAAAACGCCACTATAGA
* * * * *
24340653 TCAAGCATTGGCGGCCCTTT-TTGAAAAATGCCGCTATATA
1 TCAAGCATTAGCGG-CGTTTCTTGAAAAACGCCACTATAGA
* *
24340693 TCAAGCATTAGCGGCATTTCTCGAAAAAC
1 TCAAGCATTAGCGGCGTTTCTTGAAAAAC
24340722 ACCGCTACAA
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 33 0.36
40 38 0.41
41 19 0.21
42 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
TCAAGCATTAGCGGCGTTTCTTGAAAAACGCCACTATAGA
Found at i:24340979 original size:154 final size:155
Alignment explanation
Indices: 24340715--24341140 Score: 630
Period size: 154 Copynumber: 2.8 Consensus size: 155
24340705 GGCATTTCTC
* * *
24340715 GAAAAACACCGCTA-CAATCGAGCA-TAGTGGCGCTTTTCGGAGAACGCCACAAAAAAGTTGAGC
1 GAAAAACGCCGCTATAAATCGAGCATTAGTGGCGCTTTTCGGAGAATGCCACAAAAAAGTTGAGC
* *
24340778 AAAACACGTCG-TT-TTGTTGAGCTTTAGTGGCATTAGAGGCTCTTTTGTAAAAAACACCACAAT
66 AAAACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTGTAAAAAACACCACAAT
*
24340841 AGATCGAGAATTAGCGGCGCTTGTT
131 AGATCGAGAATTAGCGGCGCTTATT
* *
24340866 GAAAAACGCCGCTATAAATCGAGCATTAGTGACACTTTTCGGAGAATGCCACAAAAAA-TTGAGC
1 GAAAAACGCCGCTATAAATCGAGCATTAGTGGCGCTTTTCGGAGAATGCCACAAAAAAGTTGAGC
*
24340930 AAAACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTGTAAAAAACACCGCAAT
66 AAAACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTGTAAAAAACACCACAAT
24340995 AGATCGAGAATTAGCGGCGCTTATT
131 AGATCGAGAATTAGCGGCGCTTATT
* * * * * *
24341020 GAAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTTTCGCAAAATGCCGCAAAAAAGTTGAG-
1 GAAAAACGCCGCTATAAATCGAGCATTAGTGGCGCTTTTCGGAGAATGCCACAAAAAAGTTGAGC
* * *
24341084 AAAACGACGTCATTTGTTGTTGAGCTTTAGTGGCATTAGCAGCGTTTTTGATAAAAA
66 AAAAC-ACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTG-TAAAAA
24341141 CGCTACAAAA
Statistics
Matches: 248, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
151 13 0.05
152 26 0.10
153 31 0.12
154 126 0.51
155 46 0.19
156 6 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (155 bp):
GAAAAACGCCGCTATAAATCGAGCATTAGTGGCGCTTTTCGGAGAATGCCACAAAAAAGTTGAGC
AAAACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTGTAAAAAACACCACAAT
AGATCGAGAATTAGCGGCGCTTATT
Found at i:24341037 original size:40 final size:39
Alignment explanation
Indices: 24340963--24341073 Score: 141
Period size: 40 Copynumber: 2.7 Consensus size: 39
24340953 CTTTAGTGGC
**
24340963 ATTAGCGGCGCTTTTGTAAAAAACACCGCAATAGATCGAGA
1 ATTAGCGGCGCTTTTG--AAAAATGCCGCAATAGATCGAGA
* *
24341004 ATTAGCGGCGCTTATTGAAAAATGCCGCTATAGATCGAGC
1 ATTAGCGGCGCTT-TTGAAAAATGCCGCAATAGATCGAGA
*
24341044 ATTAGCGGCGCTTTTCGCAAAATGCCGCAA
1 ATTAGCGGCGCTTTT-GAAAAATGCCGCAA
24341074 AAAAGTTGAG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 2 0.03
40 44 0.71
41 13 0.21
42 3 0.05
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTGAAAAATGCCGCAATAGATCGAGA
Found at i:24341292 original size:28 final size:28
Alignment explanation
Indices: 24341249--24341306 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
24341239 TATTTTGGGA
*
24341249 TTAGAGTTTTGAGTTTAGGGTTTATGAT
1 TTAGAGTTTTGAGTTTAGGGTCTATGAT
* *
24341277 TTAGAGTTTGTG-GTTTGGGGTCTATTAT
1 TTAGAGTTT-TGAGTTTAGGGTCTATGAT
24341305 TT
1 TT
24341307 TATAGTTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.52
Consensus pattern (28 bp):
TTAGAGTTTTGAGTTTAGGGTCTATGAT
Found at i:24341474 original size:7 final size:7
Alignment explanation
Indices: 24341464--24341669 Score: 101
Period size: 7 Copynumber: 29.4 Consensus size: 7
24341454 GTAATATATA
24341464 TTTAGGG
1 TTTAGGG
*
24341471 TTTAGGA
1 TTTAGGG
*
24341478 TGTA-GG
1 TTTAGGG
*
24341484 TTTATGG
1 TTTAGGG
* *
24341491 CTTATGG
1 TTTAGGG
*
24341498 TTTAAGG
1 TTTAGGG
*
24341505 TTTAGGA
1 TTTAGGG
* *
24341512 TTTATGA
1 TTTAGGG
*
24341519 TTTAGTG
1 TTTAGGG
* *
24341526 TTAAGAG
1 TTTAGGG
*
24341533 TTTAGTG
1 TTTAGGG
***
24341540 TTTACAA
1 TTTAGGG
24341547 TTTAGGG
1 TTTAGGG
*
24341554 TGTA-GG
1 TTTAGGG
*
24341560 TTTATGG
1 TTTAGGG
*
24341567 TTTAGTG
1 TTTAGGG
*
24341574 TTTATGG
1 TTTAGGG
*
24341581 TTTATGG
1 TTTAGGG
*
24341588 TTTAGAG
1 TTTAGGG
* *
24341595 ATTAGAG
1 TTTAGGG
24341602 TTTAGGG
1 TTTAGGG
*
24341609 TTTATGG
1 TTTAGGG
**
24341616 TTTAAAG
1 TTTAGGG
24341623 TTTAGGAG
1 TTTAGG-G
*
24341631 CTTAGGGG
1 TTTA-GGG
*
24341639 CTTAGGG
1 TTTAGGG
*
24341646 TTTATGG
1 TTTAGGG
*
24341653 TTTAGTG
1 TTTAGGG
24341660 TTTAGGG
1 TTTAGGG
24341667 TTT
1 TTT
24341670 GATTTTAAAC
Statistics
Matches: 150, Mismatches: 45, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
6 9 0.06
7 130 0.87
8 9 0.06
9 2 0.01
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:24342346 original size:23 final size:22
Alignment explanation
Indices: 24342320--24342362 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24342310 ACTCTTTTTC
*
24342320 AAAAGGTTAATGGTCAAATTTGA
1 AAAAGATTAA-GGTCAAATTTGA
*
24342343 AAAAGATTGAGGTCAAATTT
1 AAAAGATTAAGGTCAAATTT
24342363 AACTGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (22 bp):
AAAAGATTAAGGTCAAATTTGA
Found at i:24344602 original size:6 final size:6
Alignment explanation
Indices: 24344591--24344630 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
24344581 TCATACTCTT
* * *
24344591 ATTTTA ATTTTA ATTTTA ATTTTG ATTTTG ATTTTG ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTT
24344631 ATTTGCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:24344608 original size:12 final size:12
Alignment explanation
Indices: 24344591--24344630 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
24344581 TCATACTCTT
*
24344591 ATTTTAATTTTA
1 ATTTTAATTTTG
24344603 ATTTTAATTTTG
1 ATTTTAATTTTG
*
24344615 ATTTTGATTTTG
1 ATTTTAATTTTG
24344627 ATTT
1 ATTT
24344631 ATTTGCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:24346073 original size:43 final size:43
Alignment explanation
Indices: 24346026--24346154 Score: 129
Period size: 42 Copynumber: 3.0 Consensus size: 43
24346016 GAACGGTACT
* *
24346026 TTTAGCTGCATTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
**
24346069 TTTAGCGGCGTTTGTGA-AAAAAAGCCGCTAAA-AGTCAT-TCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGA-TCATGT-TC
* * ** * *
24346111 TATAGCGGCGTCTGTGATAAAAGCATCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
24346154 T
1 T
24346155 ATATCGGCTT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
41 2 0.03
42 34 0.49
43 32 0.46
44 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
Found at i:24348463 original size:20 final size:19
Alignment explanation
Indices: 24348438--24348502 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
24348428 AAAATTAAAA
*
24348438 ATATTTCTTTTATAATTTTT
1 ATATTT-TTTTATATTTTTT
*
24348458 ATATTTTTTAAATATTTTTT
1 ATATTTTTT-TATATTTTTT
24348478 ATATTTTTTTGA-ATTTTTT
1 ATATTTTTTT-ATATTTTTT
24348497 ATATTT
1 ATATTT
24348503 AAAAATTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 16 0.40
20 24 0.60
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
ATATTTTTTTATATTTTTT
Found at i:24348476 original size:19 final size:19
Alignment explanation
Indices: 24348452--24348502 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
24348442 TTCTTTTATA
24348452 ATTTTTATATTTTTTAAAT
1 ATTTTTATATTTTTTAAAT
*
24348471 ATTTTTTATATTTTTTTGAAT
1 A-TTTTTATA-TTTTTTAAAT
24348492 -TTTTTATATTT
1 ATTTTTATATTT
24348503 AAAAATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 9 0.31
20 8 0.28
21 9 0.31
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTTATATTTTTTAAAT
Found at i:24348502 original size:9 final size:9
Alignment explanation
Indices: 24348445--24348502 Score: 64
Period size: 9 Copynumber: 6.1 Consensus size: 9
24348435 AAAATATTTC
*
24348445 TTTTATAAT
1 TTTTATATT
24348454 TTTTATATT
1 TTTTATATT
24348463 TTTTAAATATT
1 TTTT--ATATT
24348474 TTTTATATT
1 TTTTATATT
24348483 TTTT-TGAATT
1 TTTTAT--ATT
24348493 TTTTATATT
1 TTTTATATT
24348502 T
1 T
24348503 AAAAATTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
8 1 0.02
9 25 0.58
10 7 0.16
11 10 0.23
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTATATT
Found at i:24349800 original size:11 final size:10
Alignment explanation
Indices: 24349764--24349814 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
24349754 GATTTTTTAA
*
24349764 TTTTAAATTT
1 TTTTATATTT
24349774 TTTTATATATT
1 TTTTATAT-TT
*
24349785 CTTTATGATTT
1 TTTTAT-ATTT
*
24349796 TTTTATA-GT
1 TTTTATATTT
24349805 TTTTATATTT
1 TTTTATATTT
24349815 GTTAAAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
9 8 0.24
10 9 0.27
11 14 0.42
12 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (10 bp):
TTTTATATTT
Found at i:24349802 original size:20 final size:20
Alignment explanation
Indices: 24349772--24349814 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
24349762 AATTTTAAAT
24349772 TTTTTTATATA-TTCTTTATGA
1 TTTTTTATATAGTT-TTTAT-A
24349793 TTTTTT-TATAGTTTTTATA
1 TTTTTTATATAGTTTTTATA
24349812 TTT
1 TTT
24349815 GTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
20 9 0.43
21 8 0.38
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTTTTATATAGTTTTTATA
Found at i:24352452 original size:21 final size:21
Alignment explanation
Indices: 24352428--24352480 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
24352418 CATTGTTTCT
*
24352428 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
24352449 AATCTCACCGCTATAGTAACT
1 AATCTCACCGCTACAGTAACC
24352470 AATCTCACCGC
1 AATCTCACCGC
24352481 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:24353722 original size:54 final size:54
Alignment explanation
Indices: 24353643--24353746 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
24353633 TTGTTATTAG
* * *
24353643 ATATCGATTATATTGTAATATGATTTGGATTATATCTTGTCTTTATTTAATTCA
1 ATATCAATTATACTGTAATAGGATTTGGATTATATCTTGTCTTTATTTAATTCA
* * * *
24353697 ATATCAATTATACTGTACTAGGATTTTGATTATATTTTTTCTTTATTTAA
1 ATATCAATTATACTGTAATAGGATTTGGATTATATCTTGTCTTTATTTAA
24353747 AAATAAGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.53
Consensus pattern (54 bp):
ATATCAATTATACTGTAATAGGATTTGGATTATATCTTGTCTTTATTTAATTCA
Found at i:24355829 original size:16 final size:18
Alignment explanation
Indices: 24355805--24355837 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24355795 TTCAAGTAGT
24355805 AAATAATAT-ATTTTTTA
1 AAATAATATAATTTTTTA
24355822 AAAT-ATATAATTTTTT
1 AAATAATATAATTTTTT
24355838 TTATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATAATATAATTTTTTA
Found at i:24355834 original size:17 final size:17
Alignment explanation
Indices: 24355805--24355894 Score: 58
Period size: 20 Copynumber: 5.0 Consensus size: 17
24355795 TTCAAGTAGT
24355805 AAATAATATATTTTTTA
1 AAATAATATATTTTTTA
*
24355822 AAATATATAATTTTTTTTA
1 AAATA-AT-ATATTTTTTA
* * **
24355841 TATTTTTACTATTTTTTA
1 AAATAATA-TATTTTTTA
24355859 AAATTTGAA-ATTATTTTTTA
1 AAA--T-AATA-TATTTTTTA
24355879 AAA-AATATATTTTTTA
1 AAATAATATATTTTTTA
24355895 TTTTTTTAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
16 11 0.20
17 7 0.13
18 12 0.22
19 11 0.20
20 14 0.25
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (17 bp):
AAATAATATATTTTTTA
Found at i:24357449 original size:2 final size:2
Alignment explanation
Indices: 24357442--24357468 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24357432 GAAATGGATA
24357442 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24357469 AAGATAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24370775 original size:41 final size:41
Alignment explanation
Indices: 24370719--24370844 Score: 121
Period size: 41 Copynumber: 3.1 Consensus size: 41
24370709 TGATTCGGTA
* * *
24370719 CACCGGCTTTTAGCCTGCTAGACTTATTGTCCG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCCGAATAAT-T-T
* *
24370760 CACCGGCATTAAGCCTGTTAGACTTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCCGAATAATTT
* * * * * *
24370801 CACCTGCATCAAGCCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCCGAATAATTT
24370842 CAC
1 CAC
24370845 TGACAATAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
41 67 0.93
42 2 0.03
43 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACTTATAGTCCGAATAATTT
Found at i:24375545 original size:13 final size:13
Alignment explanation
Indices: 24375529--24375554 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24375519 AAAACAATCC
24375529 CTAAAAATCAGTA
1 CTAAAAATCAGTA
24375542 CTAAAAATCAGTA
1 CTAAAAATCAGTA
24375555 ACTTCCTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
CTAAAAATCAGTA
Found at i:24375762 original size:25 final size:25
Alignment explanation
Indices: 24375728--24375780 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
24375718 AAATTCTTAG
24375728 TAATTTCAAATGGAAAACATTGTAC
1 TAATTTCAAATGGAAAACATTGTAC
24375753 TAATTTCAAATGGAAAACATTGTAC
1 TAATTTCAAATGGAAAACATTGTAC
24375778 TAA
1 TAA
24375781 CCTTGTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (25 bp):
TAATTTCAAATGGAAAACATTGTAC
Found at i:24381820 original size:20 final size:20
Alignment explanation
Indices: 24381783--24381820 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24381773 AAAAAAACTC
*
24381783 AAAATAATTTTCAGATTTTT
1 AAAATAATTTTCAAATTTTT
*
24381803 AAAATAATTTTTAAATTT
1 AAAATAATTTTCAAATTT
24381821 AAAAATATTT
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:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAATAATTTTCAAATTTTT
Found at i:24381827 original size:19 final size:20
Alignment explanation
Indices: 24381783--24381827 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
24381773 AAAAAAACTC
* *
24381783 AAAATAATTTTCAGATTTTT
1 AAAATAATTTTCAGAATTTA
*
24381803 AAAATAATTTTTA-AATTTA
1 AAAATAATTTTCAGAATTTA
24381822 AAAATA
1 AAAATA
24381828 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATAATTTTCAGAATTTA
Found at i:24381844 original size:20 final size:20
Alignment explanation
Indices: 24381819--24381890 Score: 58
Period size: 24 Copynumber: 3.4 Consensus size: 20
24381809 ATTTTTAAAT
24381819 TTAAAAATATTTATAAAAAA
1 TTAAAAATATTTATAAAAAA
*
24381839 TTAAAAATTTATATTTTTAAAAAA
1 TT-AAAA---ATATTTATAAAAAA
24381863 TTATAAAA-ATTCTA-AAAAAA
1 TTA-AAAATATT-TATAAAAAA
24381883 TATAAAAA
1 T-TAAAAA
24381891 AAAAGTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
20 16 0.37
21 8 0.19
23 1 0.02
24 18 0.42
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAAATATTTATAAAAAA
Found at i:24387553 original size:16 final size:16
Alignment explanation
Indices: 24387532--24387573 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24387522 TTATTAAATT
*
24387532 ATATATTTTAATTATA
1 ATATATTTTAATAATA
24387548 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
24387563 AT-TATGTTTAA
1 ATATAT-TTTAA
24387574 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:24387558 original size:15 final size:15
Alignment explanation
Indices: 24387523--24387564 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24387513 TTAAGAATTT
*
24387523 TATTAAATTAT-ATA
1 TATTTAATTATAATA
24387537 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
24387551 TATTTAATAATAAT
1 TATTTAATTATAAT
24387565 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:24387810 original size:16 final size:16
Alignment explanation
Indices: 24387789--24387824 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24387779 GATTTGCTAT
24387789 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24387805 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24387821 TACA
1 TACA
24387825 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:24393686 original size:23 final size:23
Alignment explanation
Indices: 24393659--24393734 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
24393649 AGTGTTATTG
* *
24393659 ATCAGTGGTTGCTTCAGCTACGT
1 ATCAGTGGTAGCTTCAGCTACAT
*
24393682 TTCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* *
24393705 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
24393728 ATCAGTG
1 ATCAGTG
24393735 TTGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:24396333 original size:25 final size:24
Alignment explanation
Indices: 24396305--24396362 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
24396295 ACATAACAAA
24396305 AAGCTCAT-GTGAGCTGTATAACGGG
1 AAGCTCATCG-GA-CTGTATAACGGG
*
24396330 AAGCTTATCCGGACTGTATAACGGG
1 AAGCTCAT-CGGACTGTATAACGGG
*
24396355 ACGCTCAT
1 AAGCTCAT
24396363 AAGAGCCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 25 0.89
26 2 0.07
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (24 bp):
AAGCTCATCGGACTGTATAACGGG
Found at i:24396456 original size:25 final size:25
Alignment explanation
Indices: 24396407--24396543 Score: 70
Period size: 25 Copynumber: 5.5 Consensus size: 25
24396397 AACGGGTAGC
24396407 TCTGAAGAGCCATTAATCAGGAAGT
1 TCTGAAGAGCCATTAATCAGGAAGT
*
24396432 TCTGAATAGCCA-TATATC-GGAAAGT
1 TCTGAAGAGCCATTA-ATCAGG-AAGT
* ** *
24396457 TC--AAGCGAGTCA-T-ATTTGGAAGC
1 TCTGAA--GAGCCATTAATCAGGAAGT
* *
24396480 TCCGGAGAGCCATTAATCAGGAAGT
1 TCTGAAGAGCCATTAATCAGGAAGT
** * * *
24396505 TCACAAAGAGCCTTTAATCGGGAAGC
1 TC-TGAAGAGCCATTAATCAGGAAGT
*
24396531 TCCGAAGAGCCAT
1 TCTGAAGAGCCAT
24396544 ATAACGGGAT
Statistics
Matches: 85, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
23 14 0.16
24 7 0.08
25 44 0.52
26 20 0.24
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (25 bp):
TCTGAAGAGCCATTAATCAGGAAGT
Found at i:24396515 original size:26 final size:25
Alignment explanation
Indices: 24396474--24396543 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 25
24396464 AGTCATATTT
**
24396474 GGAAGCTCCGGAGAGCCATTAATCA
1 GGAAGCTCCAAAGAGCCATTAATCA
* * *
24396499 GGAAGTTCACAAAGAGCCTTTAATCG
1 GGAAGCTC-CAAAGAGCCATTAATCA
*
24396525 GGAAGCTCCGAAGAGCCAT
1 GGAAGCTCCAAAGAGCCAT
24396544 ATAACGGGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 16 0.44
26 20 0.56
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (25 bp):
GGAAGCTCCAAAGAGCCATTAATCA
Found at i:24396551 original size:25 final size:25
Alignment explanation
Indices: 24396474--24396557 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
24396464 AGTCATATTT
* *
24396474 GGAAGCTCCGGAGAGCCATTAATCA
1 GGAAGCTCCGAAGAGCCATTAATCG
* * *
24396499 GGAAGTTCACAAAGAGCCTTTAATCG
1 GGAAGCTC-CGAAGAGCCATTAATCG
24396525 GGAAGCTCCGAAGAGCCATATAA-CG
1 GGAAGCTCCGAAGAGCCAT-TAATCG
*
24396550 GGATGCTC
1 GGAAGCTC
24396558 ATAAGAGCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
25 25 0.52
26 23 0.48
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (25 bp):
GGAAGCTCCGAAGAGCCATTAATCG
Found at i:24396886 original size:20 final size:20
Alignment explanation
Indices: 24396861--24396899 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
24396851 GCATTTATAC
24396861 AATTC-ACATATACAATATTA
1 AATTCAACATATA-AATATTA
24396881 AATTCAAACATATAAATAT
1 AATTC-AACATATAAATAT
24396900 ACACAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCAACATATAAATATTA
Found at i:24401018 original size:25 final size:25
Alignment explanation
Indices: 24400984--24401061 Score: 81
Period size: 25 Copynumber: 3.1 Consensus size: 25
24400974 TCATGTACAT
*
24400984 GTATGCTCATACGAGCTGTGA-ATCG
1 GTATGCTCATACGAGCTG-AATATCG
**
24401009 GTATGCTCATTTGAGCTGAATATCG
1 GTATGCTCATACGAGCTGAATATCG
24401034 GTATGCTC-TCACGAGCT-ATATATCG
1 GTATGCTCAT-ACGAGCTGA-ATATCG
24401059 GTA
1 GTA
24401062 ACCCTAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 3 0.07
25 42 0.93
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGAATATCG
Found at i:24401549 original size:14 final size:15
Alignment explanation
Indices: 24401513--24401549 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
24401503 AATTGCTAAT
24401513 TTTATCAAAAATTCC
1 TTTATCAAAAATTCC
*
24401528 TTTA-CAAAAATT-G
1 TTTATCAAAAATTCC
24401541 TTTATCAAA
1 TTTATCAAA
24401550 CAACAACCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 12 0.60
15 4 0.20
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.41
Consensus pattern (15 bp):
TTTATCAAAAATTCC
Found at i:24402611 original size:138 final size:137
Alignment explanation
Indices: 24402366--24402622 Score: 311
Period size: 138 Copynumber: 1.9 Consensus size: 137
24402356 AGCTTTCTTC
* * * * * *
24402366 TCGCTAACTGTTTTAGAGGCTGCGACTCTTTGCCTACGAACATTGTTTTCACAATTGGGAGCTTT
1 TCGCTAACAGTTTTAAAGGCTACGACTCTTCGCCTACAAACATTGTTTTCACAATTGAGAGCTTT
* * *
24402431 GCTTTTACTAATCGTTTTAGAGGCTGCAGCTCTGTACCTGCAAACCTTATTTTTACAACTGAGAG
66 GCTCTCACTAATCGTTTTAGAGGCTGCAGCTCTG-ACATGCAAACCTTATTTTTACAACTGAGAG
24402496 ATTTGCTA
130 ATTTGCTA
* * * * * *
24402504 TCGCTAACAGTTTTAAAGGCTACGGCTCTTCGCTTGCAAACATTGTTTTTACAGTTGAGAGTTTT
1 TCGCTAACAGTTTTAAAGGCTACGACTCTTCGCCTACAAACATTGTTTTCACAATTGAGAGCTTT
* *
24402569 GCTCTCACTAA-CTGTTTTAGAGGCTGTAGCTCATCG-CATGCAAACCTTGTTTTT
66 GCTCTCACTAATC-GTTTTAGAGGCTGCAGCTC-T-GACATGCAAACCTTATTTTT
24402623 TACAGTTGAA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
137 1 0.01
138 96 0.97
139 1 0.01
140 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (137 bp):
TCGCTAACAGTTTTAAAGGCTACGACTCTTCGCCTACAAACATTGTTTTCACAATTGAGAGCTTT
GCTCTCACTAATCGTTTTAGAGGCTGCAGCTCTGACATGCAAACCTTATTTTTACAACTGAGAGA
TTTGCTA
Found at i:24402658 original size:70 final size:69
Alignment explanation
Indices: 24402343--24402694 Score: 209
Period size: 69 Copynumber: 5.1 Consensus size: 69
24402333 CGAGCTTTGG
* * * * * * *
24402343 TTTTACAGTT-AGAAGCTTT-CTTCTCGCTAACTGTTTTAGAGGCTGC-GACTCTTTGCCTACGA
1 TTTTACAGTTGA-AAGCTTTGC-TCTCACTAACTGTTTTAGAAGCTGCAG-CTCATCGCATGCAA
24402405 ACATTGT
63 ACATTGT
* * ** * * * *
24402412 TTTCACAATTGGGAGCTTTGCTTTTACTAA-TCGTTTTAGAGGCTGCAGCTC-T-GTACCTGCAA
1 TTTTACAGTTGAAAGCTTTGCTCTCACTAACT-GTTTTAGAAGCTGCAGCTCATCG--CATGCAA
* *
24402474 ACCTTAT
63 ACATTGT
** * * * * * * * * *
24402481 TTTTACAACTGAGAGATTTGCTATCGCTAACAGTTTTA-AAGGCTACGGCTCTTCGCTTGCAAAC
1 TTTTACAGTTGAAAGCTTTGCTCTCACTAACTGTTTTAGAA-GCTGCAGCTCATCGCATGCAAAC
24402545 ATTGT
65 ATTGT
* * * * *
24402550 TTTTACAGTTGAGAGTTTTGCTCTCACTAACTGTTTTAGAGGCTGTAGCTCATCGCATGCAAACC
1 TTTTACAGTTGAAAGCTTTGCTCTCACTAACTGTTTTAGAAGCTGCAGCTCATCGCATGCAAACA
24402615 TTGTT
66 TTG-T
** * * *
24402620 TTTTACAGTTGAAAGCTTTGCTCTCGTTACACTG-TTTAGAAGCTGCAGCTCCTCGTC-TACGAA
1 TTTTACAGTTGAAAGCTTTGCTCTCACTA-ACTGTTTTAGAAGCTGCAGCTCATCG-CATGCAAA
24402683 CATTGT
64 CATTGT
24402689 TTTTAC
1 TTTTAC
24402695 CGACGATAGT
Statistics
Matches: 221, Mismatches: 48, Indels: 28
0.74 0.16 0.09
Matches are distributed among these distances:
67 1 0.00
68 3 0.01
69 155 0.70
70 56 0.25
71 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (69 bp):
TTTTACAGTTGAAAGCTTTGCTCTCACTAACTGTTTTAGAAGCTGCAGCTCATCGCATGCAAACA
TTGT
Found at i:24416613 original size:31 final size:31
Alignment explanation
Indices: 24416578--24416645 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
24416568 TACAAAATGA
*
24416578 TCACTGAATTA-TCTGAAAGTTTTCATTTAAG
1 TCACTAAATTATTC-GAAAGTTTTCATTTAAG
** *
24416609 TCACTAAATTATTCGAATTTTTTTATTTAAG
1 TCACTAAATTATTCGAAAGTTTTCATTTAAG
24416640 TCACTA
1 TCACTA
24416646 GACTGTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (31 bp):
TCACTAAATTATTCGAAAGTTTTCATTTAAG
Found at i:24417397 original size:16 final size:17
Alignment explanation
Indices: 24417373--24417419 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
24417363 TAATTTAATT
*
24417373 AAATATAAAA-AAAATC
1 AAATATAAAATAAAATA
*
24417389 AAATGTAAAATAAAATA
1 AAATATAAAATAAAATA
24417406 AAATA-ATAAATAAA
1 AAATATA-AAATAAA
24417420 TGTAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATATAAAATAAAATA
Found at i:24417409 original size:17 final size:16
Alignment explanation
Indices: 24417373--24417415 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
24417363 TAATTTAATT
*
24417373 AAATATAAAAAAAATC
1 AAATATAAAAAAAATA
*
24417389 AAATGTAAAATAAAATA
1 AAATATAAAA-AAAATA
24417406 AAATAATAAA
1 AAAT-ATAAA
24417416 TAAATGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 9 0.41
17 9 0.41
18 4 0.18
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
AAATATAAAAAAAATA
Found at i:24425997 original size:120 final size:120
Alignment explanation
Indices: 24425831--24426298 Score: 893
Period size: 120 Copynumber: 3.9 Consensus size: 120
24425821 ACTAGCATCA
*
24425831 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAACATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
24425896 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
24425951 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
24426016 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
24426071 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
24426136 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
24426191 ACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
24426256 AATTATATA-TTGTAATTAAAATATATTTAATAATAATTATGTT
66 AATTATATAGTT-TAATTAAAATATATTTAATAATAATTATGTT
24426299 TAAATATGAT
Statistics
Matches: 344, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
119 2 0.01
120 342 0.99
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (120 bp):
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
Found at i:24426495 original size:44 final size:45
Alignment explanation
Indices: 24426446--24426536 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
24426436 ACCTCTATTC
* * *
24426446 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
24426490 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
24426535 CA
1 CA
24426537 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:24426538 original size:16 final size:16
Alignment explanation
Indices: 24426517--24426585 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
24426507 GATTAGCTAT
24426517 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24426533 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
24426550 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
24426566 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
24426582 TACA
1 TACA
24426586 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:24426559 original size:33 final size:32
Alignment explanation
Indices: 24426517--24426585 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
24426507 GATTAGCTAT
24426517 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
24426550 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
24426582 TACA
1 TACA
24426586 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:24428076 original size:89 final size:88
Alignment explanation
Indices: 24427926--24428232 Score: 431
Period size: 89 Copynumber: 3.5 Consensus size: 88
24427916 TTAATGGTGT
* *
24427926 AAAAA-ACCCTCAAACTTTTTTCAGAAAAAGCAATTAAGCCCCT-CCTTTTTTTCCACTCAATTG
1 AAAAAGACCCTCAAAC-TTCTTC-GAAAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTG
* *
24427989 AGCACTTGAACTTTCAAAATGCATC
64 GGTACTTGAACTTTCAAAATGCATC
24428014 AAAAAGACCCTCAAACTTCTTCGAAAAGAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
1 AAAAAGACCCTCAAACTTCTTCGAAAA-AGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
* *
24428079 GTACTTGAAATTTTAAAATGCATC
65 GTACTTGAACTTTCAAAATGCATC
* * * *
24428103 AAAAAGACCCTCAAGCTTCTTTGACAAAAGCAATAAAGCCCCTA-CTTTTTTTTCACTTAATTGG
1 AAAAAGACCCTCAAACTTCTTCGA-AAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
24428167 GTACTTGAACTTTCAAAATGCATC
65 GTACTTGAACTTTCAAAATGCATC
* * * *
24428191 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGTCCCT
1 AAAAAGACCCTCAAACTTCTTCGAAAAAGCAATTAAGCCCCT
24428233 GCTCTTATTA
Statistics
Matches: 196, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
87 21 0.11
88 85 0.43
89 87 0.44
90 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.30
Consensus pattern (88 bp):
AAAAAGACCCTCAAACTTCTTCGAAAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGGG
TACTTGAACTTTCAAAATGCATC
Found at i:24428320 original size:19 final size:20
Alignment explanation
Indices: 24428296--24428341 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
24428286 AATAAAAATA
24428296 TAAAAAATTTA-AATTTTAT
1 TAAAAAATTTAGAATTTTAT
24428315 T-AAAAA-TTAGAATTTTAT
1 TAAAAAATTTAGAATTTTAT
24428333 TATAAAAAT
1 TA-AAAAAT
24428342 CGTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.13
18 14 0.61
19 1 0.04
20 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAAAAATTTAGAATTTTAT
Found at i:24428597 original size:29 final size:29
Alignment explanation
Indices: 24428564--24428632 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
24428554 TTACATTTTG
24428564 TATAATTTTCTTACGA-CTTTATAAAATTT
1 TATAATTTT-TTACGATCTTTATAAAATTT
*
24428593 TATAATTTTTTACGATTTTTATAAAATTT
1 TATAATTTTTTACGATCTTTATAAAATTT
* *
24428622 TACATTTTTTT
1 TATAATTTTTT
24428633 TAATATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (29 bp):
TATAATTTTTTACGATCTTTATAAAATTT
Found at i:24428614 original size:19 final size:18
Alignment explanation
Indices: 24428590--24428630 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24428580 CTTTATAAAA
**
24428590 TTTTATAATTTTTTACGAT
1 TTTTATAAAATTTTAC-AT
24428609 TTTTATAAAATTTTACAT
1 TTTTATAAAATTTTACAT
24428627 TTTT
1 TTTT
24428631 TTTAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTATAAAATTTTACAT
Found at i:24428631 original size:20 final size:20
Alignment explanation
Indices: 24428608--24428697 Score: 59
Period size: 19 Copynumber: 4.8 Consensus size: 20
24428598 TTTTTTACGA
*
24428608 TTTTTATAA-AATTTTACAT
1 TTTTTTTAATAATTTTACAT
* *
24428627 TTTTTTTAATATTTTTATAT
1 TTTTTTTAATAATTTTACAT
*
24428647 TTTTTCTAAT--TTTTA-AT
1 TTTTTTTAATAATTTTACAT
**
24428664 ACATTTTTAAT-ATTTTA-AT
1 -TTTTTTTAATAATTTTACAT
24428683 TTTTTATTAA-AATTT
1 TTTTT-TTAATAATTT
24428698 AATAATATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
17 2 0.04
18 15 0.26
19 23 0.40
20 17 0.30
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTTTAATAATTTTACAT
Found at i:24428650 original size:8 final size:9
Alignment explanation
Indices: 24428629--24428688 Score: 54
Period size: 8 Copynumber: 6.7 Consensus size: 9
24428619 TTTTACATTT
24428629 TTTTTAATA
1 TTTTTAATA
24428638 TTTTT-ATA
1 TTTTTAATA
**
24428646 TTTTTTCTAA
1 TTTTTAAT-A
24428656 TTTTTAATACA
1 TTTTTAAT--A
24428667 TTTTTAATA
1 TTTTTAATA
24428676 -TTTTAAT-
1 TTTTTAATA
24428683 TTTTTA
1 TTTTTA
24428689 TTAAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 20 0.47
9 7 0.16
10 7 0.16
11 9 0.21
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:24428699 original size:37 final size:38
Alignment explanation
Indices: 24428629--24428701 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
24428619 TTTTACATTT
**
24428629 TTTTTAATATTTTTATATTTTTTCTAATTTTTAATACA
1 TTTTTAATATTTTTATATTTTTTCTAAAATTTAATACA
*
24428667 TTTTTAATA-TTTTA-ATTTTTTATTAAAATTTAATA
1 TTTTTAATATTTTTATATTTTTT-CTAAAATTTAATA
24428702 ATATTTATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 7 0.23
37 15 0.48
38 9 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTTTAATATTTTTATATTTTTTCTAAAATTTAATACA
Found at i:24429923 original size:15 final size:15
Alignment explanation
Indices: 24429903--24429932 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24429893 TATGTATGAG
24429903 ATAATTAAACTTCGT
1 ATAATTAAACTTCGT
24429918 ATAATTAAACTTCGT
1 ATAATTAAACTTCGT
24429933 GTAGATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
ATAATTAAACTTCGT
Found at i:24430107 original size:39 final size:40
Alignment explanation
Indices: 24430046--24430135 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
24430036 TACTTTTGTA
* * *
24430046 CTCCTTATAGCACATTCATGCTCAT-TTAGCATTACAGTG
1 CTCCTGATAGCACATTCATGCTCATGTTAACACTACAGTG
* *
24430085 CTCCTGATAGCACATAT-GTGCTCTTGTTAACACTACAGTG
1 CTCCTGATAGCACAT-TCATGCTCATGTTAACACTACAGTG
*
24430125 CTCCTGTTAGC
1 CTCCTGATAGC
24430136 TACACATTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
39 20 0.47
40 23 0.53
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (40 bp):
CTCCTGATAGCACATTCATGCTCATGTTAACACTACAGTG
Found at i:24432152 original size:21 final size:23
Alignment explanation
Indices: 24432128--24432170 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
24432118 ACAATTTTTT
*
24432128 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
24432149 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
24432171 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:24434311 original size:9 final size:8
Alignment explanation
Indices: 24434268--24434311 Score: 61
Period size: 8 Copynumber: 5.1 Consensus size: 8
24434258 TTTATAAATT
24434268 ATTTTTATA
1 ATTTTTA-A
24434277 ATTTTTTAA
1 A-TTTTTAA
24434286 ATTTTTAA
1 ATTTTTAA
24434294 ATTTTTAA
1 ATTTTTAA
24434302 ATTTTATAA
1 ATTTT-TAA
24434311 A
1 A
24434312 ATTAATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 20 0.61
9 7 0.21
10 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTTTTAA
Found at i:24435941 original size:14 final size:12
Alignment explanation
Indices: 24435909--24435957 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
24435899 TTTATATATA
24435909 TAATTTTTTATT
1 TAATTTTTTATT
*
24435921 GAATTTTTATGATT
1 TAATTTTT-T-ATT
*
24435935 TAATTTTTTTTT
1 TAATTTTTTATT
24435947 TATATTTTTTA
1 TA-ATTTTTTA
24435958 GAATTCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
12 11 0.37
13 9 0.30
14 10 0.33
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (12 bp):
TAATTTTTTATT
Found at i:24435954 original size:26 final size:24
Alignment explanation
Indices: 24435891--24435954 Score: 56
Period size: 26 Copynumber: 2.5 Consensus size: 24
24435881 AATTTATTAG
*
24435891 TTTTTAAATTTATATATATAATTTT
1 TTTTTTAATTT-TATATATAATTTT
* * *
24435916 TTATTGAATTTTTATGATTTAATTTT
1 TTTTTTAA-TTTTAT-ATATAATTTT
24435942 TTTTTTATATTTT
1 TTTTTTA-ATTTT
24435955 TTAGAATTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 9 0.29
26 21 0.68
27 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (24 bp):
TTTTTTAATTTTATATATAATTTT
Found at i:24452704 original size:22 final size:21
Alignment explanation
Indices: 24452676--24452729 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
24452666 GTTCGTGTAA
24452676 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
24452698 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
24452717 TGTGAATTGTATA
1 T-TAAATTGTATA
24452730 ATTGCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:24468974 original size:20 final size:20
Alignment explanation
Indices: 24468951--24468998 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
24468941 TTATAAATTT
24468951 TAAAAAGTCA-AAATAATA-TA
1 TAAAAAGT-AGAAA-AATATTA
24468971 TAAAAA-TAGAAAAATATTA
1 TAAAAAGTAGAAAAATATTA
24468990 TAAAAAGTA
1 TAAAAAGTA
24468999 CTTAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.20
19 12 0.48
20 8 0.32
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
TAAAAAGTAGAAAAATATTA
Found at i:24469206 original size:19 final size:19
Alignment explanation
Indices: 24469182--24469249 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
24469172 CGTAAACTTT
24469182 ATTTATATATATTTTTATA
1 ATTTATATATATTTTTATA
* * *
24469201 ATTTATATGTTTTTTTCTA
1 ATTTATATATATTTTTATA
*
24469220 GA-TTATATATATTTTTGATT
1 -ATTTATATATATTTTT-ATA
*
24469240 TTTTATATAT
1 ATTTATATAT
24469250 TTATTTTGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
19 28 0.74
20 10 0.26
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTATATATATTTTTATA
Found at i:24469245 original size:20 final size:21
Alignment explanation
Indices: 24469222--24469262 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24469212 TTTTTCTAGA
24469222 TTATATATAT-TTTTGATTTT
1 TTATATATATATTTTGATTTT
*
24469242 TTATATATTTATTTTGATTTT
1 TTATATATATATTTTGATTTT
24469263 AAATGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTATATATATATTTTGATTTT
Found at i:24469855 original size:27 final size:25
Alignment explanation
Indices: 24469786--24469856 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 25
24469776 TAGTTTATAA
24469786 TATATTTAT-AT-TAAATATTAAAC
1 TATATTTATGATATAAATATTAAAC
* *
24469809 T-TATTTTATGTTATATAATAGTTAAAG
1 TATA-TTTATGATATA-AATA-TTAAAC
24469836 TATATTTATGATAATAAATAT
1 TATATTTATGAT-ATAAATAT
24469857 ATATTTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
22 2 0.05
23 6 0.16
24 1 0.03
25 2 0.05
26 5 0.13
27 17 0.45
28 5 0.13
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (25 bp):
TATATTTATGATATAAATATTAAAC
Found at i:24477892 original size:14 final size:14
Alignment explanation
Indices: 24477866--24477902 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
24477856 TGTTTGACTT
24477866 AAAATAA-TTTTAA
1 AAAATAATTTTTAA
24477879 AAAATAATTTTTAA
1 AAAATAATTTTTAA
24477893 AAAATAATTT
1 AAAATAATTT
24477903 ATTTTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:24478218 original size:28 final size:28
Alignment explanation
Indices: 24478179--24478235 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 28
24478169 AAATATTTTG
24478179 TAATAATCAATG-TT-ATATATAAACTTAA
1 TAATAATCAATGCTTAAT-TA-AAACTTAA
24478207 TAATAGAT-AATGCTTAATTAAAACTTAA
1 TAATA-ATCAATGCTTAATTAAAACTTAA
24478235 T
1 T
24478236 TAAATTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
28 18 0.69
29 6 0.23
30 2 0.08
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (28 bp):
TAATAATCAATGCTTAATTAAAACTTAA
Found at i:24478335 original size:18 final size:18
Alignment explanation
Indices: 24478308--24478351 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
24478298 GCTAAGCATG
* * *
24478308 ATTTAAATAAATACACAT
1 ATTTATATAAATAAAAAT
*
24478326 ATTTATATAATTAAAAAT
1 ATTTATATAAATAAAAAT
24478344 ATTTATAT
1 ATTTATAT
24478352 TTTTATACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTATATAAATAAAAAT
Found at i:24487230 original size:16 final size:16
Alignment explanation
Indices: 24487209--24487244 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
24487199 TTTGGTTCGC
24487209 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
24487225 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
24487241 TGTA
1 TGTA
24487245 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24487502 original size:18 final size:17
Alignment explanation
Indices: 24487481--24487515 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24487471 TTATTATTTA
*
24487481 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24487499 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24487516 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24487509 original size:28 final size:27
Alignment explanation
Indices: 24487439--24487511 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
24487429 TTTATTATCA
*
24487439 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
24487467 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
24487494 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
24487512 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:24487651 original size:18 final size:17
Alignment explanation
Indices: 24487624--24487658 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24487614 ATAATTATTA
*
24487624 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24487642 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24487659 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24487664 original size:143 final size:148
Alignment explanation
Indices: 24487400--24487670 Score: 471
Period size: 143 Copynumber: 1.9 Consensus size: 148
24487390 ATGATTATTG
*
24487400 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
24487465 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAA-TATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
24487530 AGAAATTTGTTTTGGTAAA
130 AGAAATTTGTTTTGGTAAA
* *
24487549 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
24487612 ACAT-A-ATTA-TTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
24487671 ATATTCTTAT
Statistics
Matches: 119, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
143 50 0.42
144 4 0.03
146 1 0.01
147 36 0.30
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (148 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
GAAATTTGTTTTGGTAAA
Found at i:24487705 original size:59 final size:58
Alignment explanation
Indices: 24487642--24487824 Score: 153
Period size: 53 Copynumber: 3.1 Consensus size: 58
24487632 TAATTAAAAT
*
24487642 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTC-TAATAATTAATATTCTTATATGAATTTACTAAAATCATA
** ** * * *
24487701 ATATATGATACTGTAAAATATAAATTAAAATAA-TAATTATT-AAATAT-ATTTTAATTAAA--A
1 ATATA--AT--T-T--AATA-AAATTCTAATAATTAA-TATTCTTATATGAATTTACTAAAATCA
24487761 T-
57 TA
*
24487762 ATATAATTTAATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATTCTAATAATTAATATTCTTATATGAATTTACTAAAATCATA
24487820 ATATA
1 ATATA
24487825 TGATACTATA
Statistics
Matches: 94, Mismatches: 15, Indels: 31
0.67 0.11 0.22
Matches are distributed among these distances:
53 14 0.15
54 10 0.11
55 9 0.10
56 1 0.01
57 3 0.03
58 5 0.05
59 7 0.07
61 7 0.07
62 2 0.02
63 1 0.01
64 10 0.11
65 7 0.07
66 13 0.14
67 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (58 bp):
ATATAATTTAATAAAATTCTAATAATTAATATTCTTATATGAATTTACTAAAATCATA
Found at i:24487743 original size:119 final size:119
Alignment explanation
Indices: 24487614--24487898 Score: 484
Period size: 119 Copynumber: 2.4 Consensus size: 119
24487604 ATATTTAAAC
*
24487614 ATAATTATT-AATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCT
* *
24487678 TATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAAAATA
65 TATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATTAAAATA
24487733 ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTT
1 ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTT
* *
24487798 ATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAATA
66 ATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATTAAAATA
*
24487852 ATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 A-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
24487899 TAAAATAATT
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 117 0.74
120 41 0.26
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (119 bp):
ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTT
ATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATTAAAATA
Found at i:24487766 original size:18 final size:17
Alignment explanation
Indices: 24487726--24487778 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
24487716 AAATATAAAT
24487726 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
24487740 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
24487755 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
24487773 TAAAAT
1 TAAAAT
24487779 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:24487836 original size:60 final size:59
Alignment explanation
Indices: 24487652--24487838 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
24487642 ATATAATTTA
*
24487652 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
24487713 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
24487771 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
24487832 ATAAAAT
1 ATAAAAT
24487839 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:24487895 original size:59 final size:58
Alignment explanation
Indices: 24487714--24487897 Score: 149
Period size: 59 Copynumber: 3.1 Consensus size: 58
24487704 TATGATACTG
* *
24487714 TAAAATATAAATTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAA
1 TAAAATAT-AATTTAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAA
* * * ** * * * ** * * *
24487773 TAAAATTCTAATAATCAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT-A
1 TAAAA-TATAAT-TTAAATAATTAATAT-TAAATATATTTTAATTAAAATATATGAT-TTAA
24487833 TAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 TAAAATATAATTT-AAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
24487892 TAAAAT
1 TAAAAT
24487898 TTAAAATAAT
Statistics
Matches: 89, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
58 2 0.02
59 48 0.54
60 38 0.43
61 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (58 bp):
TAAAATATAATTTAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
Found at i:24491640 original size:30 final size:30
Alignment explanation
Indices: 24491604--24491660 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
24491594 AATTATAAAC
*
24491604 AAATTA-TACAAAATATA-TAAATTTATTTCA
1 AAATTATTA-AAAA-ATATTAAAGTTATTTCA
24491634 AAATTATTAAAAAATATTAAAGTTATT
1 AAATTATTAAAAAATATTAAAGTTATT
24491661 AAAAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 19 0.79
31 2 0.08
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (30 bp):
AAATTATTAAAAAATATTAAAGTTATTTCA
Found at i:24494551 original size:25 final size:25
Alignment explanation
Indices: 24494515--24494587 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
24494505 GTAACCAATT
24494515 TCAGCTCT-TATGAGCTTACTGTTAC
1 TCAGCT-TGTATGAGCTTACTGTTAC
* *
24494540 TCAGCTTGTATGAGCTTACCGTTAT
1 TCAGCTTGTATGAGCTTACTGTTAC
* *
24494565 TTAGCTTAG-AGGAGCTTACTGTT
1 TCAGCTT-GTATGAGCTTACTGTT
24494588 TACCGCTCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (25 bp):
TCAGCTTGTATGAGCTTACTGTTAC
Found at i:24496601 original size:16 final size:16
Alignment explanation
Indices: 24496580--24496615 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24496570 TTTGGTTCGC
24496580 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24496596 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24496612 TGTA
1 TGTA
24496616 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24496872 original size:18 final size:17
Alignment explanation
Indices: 24496851--24496885 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24496841 TTATTATTAA
*
24496851 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24496869 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24496886 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24496895 original size:82 final size:81
Alignment explanation
Indices: 24496808--24497059 Score: 198
Period size: 78 Copynumber: 3.2 Consensus size: 81
24496798 TATTATTATC
*
24496808 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATAT
1 AATAATAAATATTTTAAT-ATATTTAAGCATAATTATTATTAAATATATTTTAATTAAAATATAT
24496873 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* ** ** * * ** * * * * *
24496890 AATAATTACCA--GAAATTTGTTTTGGTA-AATTATTATT--GT-TATTGTTATTTAAATTTTAA
1 AATAATAAATATTTTAATATATTTAAGCATAATTATTATTAAATATATT-TTAATTAAAATAT-A
* * *
24496949 TAAGATTATTAATA-TC--
64 TAA-TTTAATAAAATTCTT
* * *
24496965 AATAATAAATAATTTAATTATATTTAAGCATAATAATTATTAAATATATTATAATTAAAATATAT
1 AATAATAAATATTTTAA-TATATTTAAGCATAATTATTATTAAATATATTTTAATTAAAATATAT
24497030 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
24497047 AATAATTAATATT
1 AATAATAAATATT
24497060 CTTATATGAA
Statistics
Matches: 118, Mismatches: 39, Indels: 26
0.64 0.21 0.14
Matches are distributed among these distances:
75 12 0.10
76 11 0.09
77 8 0.07
78 24 0.20
79 21 0.18
80 9 0.08
81 10 0.08
82 23 0.19
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (81 bp):
AATAATAAATATTTTAATATATTTAAGCATAATTATTATTAAATATATTTTAATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:24496939 original size:157 final size:157
Alignment explanation
Indices: 24496745--24497054 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
24496735 CCCTTAGCAT
* * *
24496745 AAATTTGTTTTTGTAAATGATTATTGTTATTTTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
24496810 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAA
24496875 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
*
24496902 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
24496967 TAATAAATAATTTAATTATATTTAAGCATAATAATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAA
24497032 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
24497055 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Done.