Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 64 of 318
Found at i:22756492 original size:7 final size:7
Alignment explanation
Indices: 22756480--22756528 Score: 62
Period size: 7 Copynumber: 6.6 Consensus size: 7
22756470 ATAATATATT
22756480 TTTAAAA
1 TTTAAAA
22756487 TTTAAAA
1 TTTAAAA
22756494 TTTAGAAA
1 TTTA-AAA
*
22756502 TATAATATA
1 TTTAA-A-A
22756511 TTTAAAA
1 TTTAAAA
22756518 TTTAAAA
1 TTTAAAA
22756525 TTTA
1 TTTA
22756529 GAAAAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
7 24 0.65
8 8 0.22
9 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:22756515 original size:31 final size:32
Alignment explanation
Indices: 22756457--22756535 Score: 133
Period size: 31 Copynumber: 2.5 Consensus size: 32
22756447 CATAATTTCA
22756457 AAAATTTAGAAAAATAATATATTTTTAAAATTT
1 AAAATTTAGAAAAATAATATA-TTTTAAAATTT
*
22756490 AAAATTTAGAAATATAATATA-TTTAAAATTT
1 AAAATTTAGAAAAATAATATATTTTAAAATTT
22756521 AAAATTTAGAAAAAT
1 AAAATTTAGAAAAAT
22756536 TAATTTCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 24 0.55
33 20 0.45
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (32 bp):
AAAATTTAGAAAAATAATATATTTTAAAATTT
Found at i:22756564 original size:36 final size:33
Alignment explanation
Indices: 22756517--22756640 Score: 135
Period size: 36 Copynumber: 3.6 Consensus size: 33
22756507 TATATTTAAA
22756517 ATTTAAAATTTAGAAAAATTAATTTCAAAAATATAT
1 ATTTAAAATTTA-AAAAA-TAATTT-AAAAATATAT
* *
22756553 TTTTAAAATTTATAAGACATAATTTTAAAAA-ATAAT
1 ATTTAAAATTTA-AA-AAATAA-TTTAAAAATAT-AT
*
22756589 ATTCAAAATTTAAAAAATAATTTAAAAATA-AT
1 ATTTAAAATTTAAAAAATAATTTAAAAATATAT
22756621 ATTTAAAATTTTAAAAAATA
1 ATTTAAAA-TTTAAAAAATA
22756641 TATATTATAA
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
32 9 0.12
33 19 0.25
34 6 0.08
35 4 0.05
36 33 0.43
37 5 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (33 bp):
ATTTAAAATTTAAAAAATAATTTAAAAATATAT
Found at i:22756602 original size:21 final size:20
Alignment explanation
Indices: 22756576--22756617 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
22756566 AAGACATAAT
*
22756576 TTTAAAAAATAATATTCAAAA
1 TTTAAAAAATAAT-TTAAAAA
22756597 TTTAAAAAATAATTTAAAAA
1 TTTAAAAAATAATTTAAAAA
22756617 T
1 T
22756618 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAAATAATTTAAAAA
Found at i:22756698 original size:13 final size:14
Alignment explanation
Indices: 22756668--22756745 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
22756658 CAAATATTTT
*
22756668 AAAATTAATAACAA
1 AAAATAAATAACAA
*
22756682 AAAATAAATAA-AC
1 AAAATAAATAACAA
*
22756695 AAAATAAAATAAGAA
1 AAAAT-AAATAACAA
*
22756710 AAAATATAA-AACTTA
1 AAAATA-AATAAC-AA
* *
22756725 AAAA-AAAGAAAAA
1 AAAATAAATAACAA
22756738 AAAATAAA
1 AAAATAAA
22756746 GAAAAAGACA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
13 13 0.25
14 25 0.49
15 13 0.25
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAATAAATAACAA
Found at i:22756705 original size:28 final size:27
Alignment explanation
Indices: 22756674--22756745 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
22756664 TTTTAAAATT
*
22756674 AATAACAAAAAATAAATAAAC-AAAATAA
1 AATAAAAAAAAATAAA-AAACTAAAA-AA
* *
22756702 AATAAGAAAAAATATAAAACTTAAAAAA
1 AATAAAAAAAAATAAAAAAC-TAAAAAA
*
22756730 AAGAAAAAAAAATAAA
1 AATAAAAAAAAATAAA
22756746 GAAAAAGACA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.11
28 29 0.78
29 4 0.11
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.14
Consensus pattern (27 bp):
AATAAAAAAAAATAAAAAACTAAAAAA
Found at i:22756739 original size:19 final size:18
Alignment explanation
Indices: 22756717--22756769 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
22756707 GAAAAAATAT
*
22756717 AAAACTTAAAAAAAAGAAA
1 AAAAATTAAAAAAAAG-AA
* *
22756736 AAAAAATAAAGAAAAAGAC
1 AAAAATTAAA-AAAAAGAA
*
22756755 AAAAGTTAAAAAAAA
1 AAAAATTAAAAAAAA
22756770 AGTGAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 5 0.18
19 17 0.61
20 6 0.21
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.09
Consensus pattern (18 bp):
AAAAATTAAAAAAAAGAA
Found at i:22756751 original size:38 final size:38
Alignment explanation
Indices: 22756695--22756769 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
22756685 ATAAATAAAC
* * *
22756695 AAAATAAAATAAGAAAAAATATAAAACTTAAAAAAAAG
1 AAAAAAAAATAAGAAAAAAGACAAAACTTAAAAAAAAG
*
22756733 AAAAAAAAATAA-AGAAAAAGACAAAAGTTAAAAAAAA
1 AAAAAAAAATAAGA-AAAAAGACAAAACTTAAAAAAAA
22756770 AGTGAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.79, C:0.03, G:0.07, T:0.12
Consensus pattern (38 bp):
AAAAAAAAATAAGAAAAAAGACAAAACTTAAAAAAAAG
Found at i:22758624 original size:31 final size:30
Alignment explanation
Indices: 22758584--22758643 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
22758574 TTTAATTTTA
*
22758584 TTTATTTTAATAATATATTATCCTATAAAC
1 TTTATTTTAATAATATATTATCCCATAAAC
*
22758614 TTTATATTTAATATTATATTATCCCATAAA
1 TTTAT-TTTAATAATATATTATCCCATAAA
22758644 AATTTTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTATTTTAATAATATATTATCCCATAAAC
Found at i:22761252 original size:28 final size:28
Alignment explanation
Indices: 22761212--22761269 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
22761202 CTATTGGAAC
22761212 AATACCAATTCCTTGAATGAAGTATAAG
1 AATACCAATTCCTTGAATGAAGTATAAG
22761240 AATACCAATTCCTTGAATGAAGTATAAG
1 AATACCAATTCCTTGAATGAAGTATAAG
22761268 AA
1 AA
22761270 AACGAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (28 bp):
AATACCAATTCCTTGAATGAAGTATAAG
Found at i:22765105 original size:19 final size:18
Alignment explanation
Indices: 22765073--22765109 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
22765063 AAAACTAATA
*
22765073 TTTTTAAAATATTCATTT
1 TTTTTAAAAAATTCATTT
22765091 TTTTTATAAAAATTCATTT
1 TTTTTA-AAAAATTCATTT
22765110 AAAATTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTAAAAAATTCATTT
Found at i:22775732 original size:19 final size:19
Alignment explanation
Indices: 22775708--22775815 Score: 64
Period size: 19 Copynumber: 5.6 Consensus size: 19
22775698 AATTAGAAAA
* *
22775708 AAAATTATTAAATTTTATT
1 AAAATTATAAAATATTATT
22775727 AAAATTATAAAATATTA-T
1 AAAATTATAAAATATTATT
* *
22775745 AGAAA-TATAAAAAAATTTGTTT
1 A-AAATTAT-AAAATA-TT-ATT
22775767 AAAATTA-AAAATA-TATT
1 AAAATTATAAAATATTATT
* * *
22775784 AGAATTCTTAAAAATATT-TA
1 AAAATT-AT-AAAATATTATT
22775804 AAAATTATAAAA
1 AAAATTATAAAA
22775816 ATAAATTTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
17 7 0.10
18 10 0.15
19 24 0.35
20 19 0.28
21 4 0.06
22 4 0.06
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATTATAAAATATTATT
Found at i:22775809 original size:20 final size:19
Alignment explanation
Indices: 22775771--22775835 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
22775761 TTGTTTAAAA
*
22775771 TTAAAAATATATTAGAATT
1 TTAAAAATATATTAAAATT
22775790 CTTAAAAATAT-TTAAAAATT
1 -TTAAAAATATATT-AAAATT
* * *
22775810 ATAAAAATAAATTTAAAATA
1 TTAAAAATATA-TTAAAATT
22775830 TTAAAA
1 TTAAAA
22775836 CTGAAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 10 0.27
20 25 0.68
21 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TTAAAAATATATTAAAATT
Found at i:22775816 original size:19 final size:19
Alignment explanation
Indices: 22775727--22775832 Score: 58
Period size: 21 Copynumber: 5.4 Consensus size: 19
22775717 AAATTTTATT
22775727 AAAATTAT-AAAATATTATA
1 AAAATTATAAAAATATT-TA
* * * *
22775746 GAAATATAAAAAAATTTGTTT
1 AAAAT-TATAAAAATAT-TTA
22775767 AAAA-T-TAAAAATATATT-
1 AAAATTATAAAAATAT-TTA
* *
22775784 AGAATTCTTAAAAATATTTA
1 AAAATT-ATAAAAATATTTA
22775804 AAAATTATAAAAATAAATTTA
1 AAAATTATAAAAAT--ATTTA
22775825 AAATATTA
1 AAA-ATTA
22775833 AAACTGAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
17 3 0.05
18 10 0.15
19 14 0.21
20 16 0.24
21 18 0.27
22 5 0.08
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAATTATAAAAATATTTA
Found at i:22776006 original size:19 final size:19
Alignment explanation
Indices: 22775984--22776031 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
22775974 TTTAATTTTT
*
22775984 TTATCAAACTAAAATTTCA
1 TTATCAAACTAAAAATTCA
22776003 TTATCCAAA--AAAAATTCA
1 TTAT-CAAACTAAAAATTCA
*
22776021 TTATCTAACTA
1 TTATCAAACTA
22776032 TTAGCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 5 0.21
20 4 0.17
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (19 bp):
TTATCAAACTAAAAATTCA
Found at i:22776444 original size:10 final size:9
Alignment explanation
Indices: 22776341--22776490 Score: 72
Period size: 9 Copynumber: 15.7 Consensus size: 9
22776331 TTAATAATTT
*
22776341 TTTTTATAG
1 TTTTTATAA
*
22776350 TTTTTATGA
1 TTTTTATAA
*
22776359 TTTTTACAGA
1 TTTTTATA-A
22776369 TTTTTAATACA
1 TTTTT-ATA-A
22776380 TTTTTATAAA
1 TTTTTAT-AA
*
22776390 ATTTTA-AA
1 TTTTTATAA
*
22776398 TATTTTAAATA
1 T-TTTTATA-A
*
22776409 TGTTTTATTA
1 T-TTTTATAA
22776419 TTTTTATAAA
1 TTTTTAT-AA
***
22776429 AAATTATAA
1 TTTTTATAA
*
22776438 TTTATTA-CA
1 TTT-TTATAA
22776447 TTTATTATAA
1 TTT-TTATAA
*
22776457 TATTTATAA
1 TTTTTATAA
22776466 GTTTTTATTAA
1 -TTTTTA-TAA
22776477 TTTTTAT-A
1 TTTTTATAA
22776485 TTTTTA
1 TTTTTA
22776491 ATATTCAATA
Statistics
Matches: 108, Mismatches: 22, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
8 9 0.08
9 41 0.38
10 39 0.36
11 19 0.18
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:22776489 original size:8 final size:9
Alignment explanation
Indices: 22776454--22776537 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
22776444 ACATTTATTA
*
22776454 TAATATTTA
1 TAATATTTT
*
22776463 TAA-GTTTT
1 TAATATTTT
*
22776471 TATTAATTTT
1 TAAT-ATTTT
22776481 T-ATATTTT
1 TAATATTTT
22776489 TAATA--TT
1 TAATATTTT
* *
22776496 CAATAATTT
1 TAATATTTT
22776505 TAATATTTTTT
1 TAATA--TTTT
22776516 TAATAATTTT
1 TAAT-ATTTT
22776526 CTAATATTTT
1 -TAATATTTT
22776536 TA
1 TA
22776538 TGGGAAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
7 6 0.10
8 11 0.19
9 15 0.26
10 14 0.24
11 11 0.19
12 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (9 bp):
TAATATTTT
Found at i:22776518 original size:11 final size:11
Alignment explanation
Indices: 22776502--22776536 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
22776492 TATTCAATAA
22776502 TTTTAATATTT
1 TTTTAATATTT
*
22776513 TTTTAATAATT
1 TTTTAATATTT
*
22776524 TTCTAATATTT
1 TTTTAATATTT
22776535 TT
1 TT
22776537 ATGGGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATATTT
Found at i:22776522 original size:20 final size:22
Alignment explanation
Indices: 22776497--22776536 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22776487 TTTAATATTC
22776497 AATAA-TTT-TAATATTTTTTT
1 AATAATTTTCTAATATTTTTTT
22776517 AATAATTTTCTAATATTTTT
1 AATAATTTTCTAATATTTTT
22776537 ATGGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (22 bp):
AATAATTTTCTAATATTTTTTT
Found at i:22784434 original size:51 final size:51
Alignment explanation
Indices: 22784379--22784481 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
22784369 AATCTTATAC
22784379 ATGACATATCAACTCATATGTTCAATTATTCAAACTTACCAAAACAACCAT
1 ATGACATATCAACTCATATGTTCAATTATTCAAACTTACCAAAACAACCAT
22784430 ATGACATATCAACTCATATGTTCAATTATTCAAACTTACCAAAACAACCAT
1 ATGACATATCAACTCATATGTTCAATTATTCAAACTTACCAAAACAACCAT
22784481 A
1 A
22784482 CATATATGGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (51 bp):
ATGACATATCAACTCATATGTTCAATTATTCAAACTTACCAAAACAACCAT
Found at i:22785325 original size:24 final size:24
Alignment explanation
Indices: 22785279--22785326 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22785269 TTCGGGCTGT
* *
22785279 ATAACGGGAAGCTCATAAGAGCCA
1 ATAACGGGAAGCTCAGAAAAGCCA
* *
22785303 ATAACGGGTAGCTCCGAAAAGCCA
1 ATAACGGGAAGCTCAGAAAAGCCA
22785327 TTAATCGAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (24 bp):
ATAACGGGAAGCTCAGAAAAGCCA
Found at i:22788532 original size:19 final size:19
Alignment explanation
Indices: 22788487--22788532 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
22788477 ATTAACACAG
*
22788487 AATTAATTAAAATATAACT
1 AATTAATAAAAATATAACT
*
22788506 -ATTCATAAAAATCATAA-T
1 AATTAATAAAAAT-ATAACT
22788524 AATTAATAA
1 AATTAATAA
22788533 TTAAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAATAAAAATATAACT
Found at i:22790444 original size:18 final size:18
Alignment explanation
Indices: 22790419--22790464 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
22790409 TCTTTTTCGT
*
22790419 TCTCTTTTTCAATCTCAT
1 TCTCTTTTTCAATCTCAA
* *
22790437 TTTCTTTTTCACTCTCAA
1 TCTCTTTTTCAATCTCAA
22790455 TCTCTTTTTC
1 TCTCTTTTTC
22790465 TTTTTCTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (18 bp):
TCTCTTTTTCAATCTCAA
Found at i:22790454 original size:24 final size:24
Alignment explanation
Indices: 22790390--22790471 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
22790380 CTTGTTCACA
*
22790390 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
22790414 TTCGTTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
22790438 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
22790462 TTCTTTTTCT
1 TTCTTTTTCT
22790472 TTCTTTTCTC
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.11, C:0.27, G:0.01, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:22790501 original size:42 final size:41
Alignment explanation
Indices: 22790467--22790551 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 41
22790457 TCTTTTTCTT
*
22790467 TTTCTTTCTTTTCTCGATTTCATTCAAGATTCTCTCATTTTC
1 TTTCTTTCTTCTCTCGATTTCATTCAAGATTCTCT-ATTTTC
* * *
22790509 TTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCATTTTC
1 TTTCTTTCTTCTCTCGATTTCATTCAAGATTCTCT-ATTTTC
22790551 T
1 T
22790552 CTCATAATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.15, C:0.25, G:0.05, T:0.55
Consensus pattern (41 bp):
TTTCTTTCTTCTCTCGATTTCATTCAAGATTCTCTATTTTC
Found at i:22792777 original size:19 final size:19
Alignment explanation
Indices: 22792732--22792777 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
22792722 ATTAACACAC
*
22792732 AATTAATTAAAATATAACT
1 AATTAATAAAAATATAACT
*
22792751 -ATTCATAAAAATCATAA-T
1 AATTAATAAAAAT-ATAACT
22792769 AATTAATAA
1 AATTAATAA
22792778 TTAAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAATAAAAATATAACT
Found at i:22793034 original size:20 final size:20
Alignment explanation
Indices: 22792988--22793035 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
22792978 AGTAAGCTCG
*
22792988 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGATGA
*** *
22793008 AACGAGCTCAAATGAGATGA
1 GTTGAGCTCAAACGAGATGA
22793028 GTTGAGCT
1 GTTGAGCT
22793036 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGATGA
Found at i:22798463 original size:23 final size:23
Alignment explanation
Indices: 22798437--22798488 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
22798427 GTTAAATTTT
22798437 TCTTAAATATTATCACAAAATAA
1 TCTTAAATATTATCACAAAATAA
*
22798460 TCTTAAATATTATCACTAAATAA
1 TCTTAAATATTATCACAAAATAA
22798483 T-TTAAA
1 TCTTAAA
22798489 AATCAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (23 bp):
TCTTAAATATTATCACAAAATAA
Found at i:22798913 original size:5 final size:5
Alignment explanation
Indices: 22798903--22798928 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22798893 AAGATTCAAA
22798903 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
22798929 GTAAGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:22801525 original size:26 final size:27
Alignment explanation
Indices: 22801467--22801542 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 27
22801457 TTTAAGTTCC
22801467 TTAAAAGTTGAATATTTTTTTTTAGATCCT
1 TTAAAAGTT--ATATTTTTTTTTA-ATCCT
*
22801497 TTAAAAGTTAGTATTTTTTTTT-A-CTT
1 TTAAAAGTTA-TATTTTTTTTTAATCCT
*
22801523 TTAAAAGTTAAATTTTTTTT
1 TTAAAAGTTATATTTTTTTT
22801543 GGACTCATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 9 0.21
26 12 0.28
27 1 0.02
28 1 0.02
29 11 0.26
30 9 0.21
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (27 bp):
TTAAAAGTTATATTTTTTTTTAATCCT
Found at i:22801553 original size:27 final size:26
Alignment explanation
Indices: 22801497--22801555 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
22801487 TTTAGATCCT
* * *
22801497 TTAAAAGTTAGTATTTTTTTTTACTT
1 TTAAAAGTTAGAATTTTTTTTGACTA
22801523 TTAAAAGTTA-AATTTTTTTTGGACTCA
1 TTAAAAGTTAGAATTTTTTTT-GACT-A
22801550 TTAAAA
1 TTAAAA
22801556 ACTAGAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 13 0.46
27 6 0.21
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (26 bp):
TTAAAAGTTAGAATTTTTTTTGACTA
Found at i:22802384 original size:20 final size:22
Alignment explanation
Indices: 22802344--22802385 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
22802334 ATTATTAATA
*
22802344 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
22802366 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
22802386 CATTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:22802426 original size:15 final size:16
Alignment explanation
Indices: 22802398--22802428 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22802388 TTTTTATTTT
22802398 AATAATAGATTTTAAA
1 AATAATAGATTTTAAA
22802414 AATAATA-ATTTTAAA
1 AATAATAGATTTTAAA
22802429 TAACATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AATAATAGATTTTAAA
Found at i:22802485 original size:15 final size:15
Alignment explanation
Indices: 22802451--22802526 Score: 59
Period size: 15 Copynumber: 5.0 Consensus size: 15
22802441 CGATTATTGA
*
22802451 AAATA-TTTAATAGT
1 AAATATTTTAATAAT
22802465 -AATATTTTAATAAT
1 AAATATTTTAATAAT
*
22802479 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
22802498 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
22802513 AAATGTTTT-ATAAT
1 AAATATTTTAATAAT
22802527 GTAAAAGTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
13 4 0.08
14 13 0.26
15 16 0.32
16 2 0.04
17 4 0.08
18 1 0.02
19 10 0.20
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:22803001 original size:14 final size:14
Alignment explanation
Indices: 22802979--22803017 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
22802969 TCAGAAAAAT
*
22802979 AAATTATTTTCTAG
1 AAATTATTTTCCAG
*
22802993 AAATCATTTTCCAG
1 AAATTATTTTCCAG
22803007 AAATTATTTTC
1 AAATTATTTTC
22803018 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:22803773 original size:22 final size:22
Alignment explanation
Indices: 22803748--22803789 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22803738 TAAATCAATT
22803748 AAAAAT-ATAATTTAAAAAAACG
1 AAAAATAATAA-TTAAAAAAACG
*
22803770 AAAATTAATAATTAAAAAAA
1 AAAAATAATAATTAAAAAAA
22803790 TTTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAATAATAATTAAAAAAACG
Found at i:22810629 original size:13 final size:15
Alignment explanation
Indices: 22810601--22810633 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
22810591 GAGAGTAGAT
22810601 AAAAAAAAGGAGAAG
1 AAAAAAAAGGAGAAG
22810616 AAAAAAAA-GA-AAG
1 AAAAAAAAGGAGAAG
22810629 AAAAA
1 AAAAA
22810634 TATAGCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 2 0.11
15 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGGAGAAG
Found at i:22819143 original size:64 final size:64
Alignment explanation
Indices: 22819042--22819169 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
22819032 TCCCAAGCTA
*
22819042 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
1 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTATCACTTTCTTCTC
* * *
22819106 CTTTGCATTCATCAGATGTCTCATCTCCTTTACAAACTTGTTTGGCTTCTATCACTTTTTTCTC
1 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTATCACTTTCTTCTC
22819170 AATCATCTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.16, C:0.29, G:0.10, T:0.45
Consensus pattern (64 bp):
CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTATCACTTTCTTCTC
Found at i:22820699 original size:12 final size:12
Alignment explanation
Indices: 22820682--22820707 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22820672 TGGTAACTTT
22820682 AGTCATTGCTTG
1 AGTCATTGCTTG
22820694 AGTCATTGCTTG
1 AGTCATTGCTTG
22820706 AG
1 AG
22820708 AAACTTTCAT
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:0.19, C:0.15, G:0.27, T:0.38
Consensus pattern (12 bp):
AGTCATTGCTTG
Found at i:22822696 original size:46 final size:44
Alignment explanation
Indices: 22822637--22822751 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
22822627 ACAGGACAGA
* *
22822637 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
22822683 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
22822727 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
22822752 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:22822732 original size:44 final size:45
Alignment explanation
Indices: 22822637--22822770 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
22822627 ACAGGACAGA
* *
22822637 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
22822683 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
22822727 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
22822771 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:22824810 original size:32 final size:32
Alignment explanation
Indices: 22824744--22824811 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
22824734 TTTTTGTTTA
* *
22824744 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTCTATGATATT
*
22824776 TGTTGGATTCTGAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATATT
22824808 TGTT
1 TGTT
22824812 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATATT
Found at i:22824837 original size:27 final size:27
Alignment explanation
Indices: 22824807--22824879 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
22824797 TGTCTTGATT
22824807 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
22824834 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
22824866 TTGTTGGATATTGA
1 TTGTTAGATATTGA
22824880 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:22824859 original size:32 final size:32
Alignment explanation
Indices: 22824820--22824880 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
22824810 TTAGATATTG
22824820 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
22824852 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
22824881 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:22825905 original size:22 final size:22
Alignment explanation
Indices: 22825875--22825919 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
22825865 ATTGTTGTTT
*
22825875 TCATGTGGTGTAATATTAGTTA
1 TCATATGGTGTAATATTAGTTA
22825897 TCATATGGTGTAATATTAGTTA
1 TCATATGGTGTAATATTAGTTA
22825919 T
1 T
22825920 GCACTTGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (22 bp):
TCATATGGTGTAATATTAGTTA
Found at i:22825979 original size:68 final size:68
Alignment explanation
Indices: 22825839--22825982 Score: 200
Period size: 68 Copynumber: 2.1 Consensus size: 68
22825829 TAATGTGGTG
* * * *
22825839 TAATATTAGTTATGCACTTGGACAATATTGTTGTTTTCATGTGGTGTAATATTAGTTATCATATG
1 TAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATCATATA
*
22825904 GTG
66 GTA
* * *
22825907 TAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATGCATTT
1 TAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-CATAT
22825972 AG-A
65 AGTA
22825975 TAATATTA
1 TAATATTA
22825983 TTAATTTCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 62 0.93
69 5 0.07
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (68 bp):
TAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATCATATA
GTA
Found at i:22826349 original size:14 final size:14
Alignment explanation
Indices: 22826330--22826388 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
22826320 CCAGAAAAGT
22826330 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
22826344 AAATCATTTTTCAAG
1 AAATCA-TTTTCCAG
* *
22826359 AAATTATTTTTCAG
1 AAATCATTTTCCAG
*
22826373 AAATTATTTTCC-G
1 AAATCATTTTCCAG
22826386 AAA
1 AAA
22826389 AATATTTTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
13 4 0.10
14 23 0.59
15 12 0.31
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:22826360 original size:15 final size:14
Alignment explanation
Indices: 22826330--22826382 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
22826320 CCAGAAAAGT
*
22826330 AAATCATTTTCCAG
1 AAATCATTTTTCAG
22826344 AAATCATTTTTCAAG
1 AAATCATTTTTC-AG
*
22826359 AAATTATTTTTCAG
1 AAATCATTTTTCAG
*
22826373 AAATTATTTT
1 AAATCATTTT
22826383 CCGAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:22826391 original size:29 final size:29
Alignment explanation
Indices: 22826330--22826396 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
22826320 CCAGAAAAGT
* *
22826330 AAATCATTTTCCAGAAATCATTTTTCAAG
1 AAATTATTTTCCAGAAATCATTTTCCAAG
* *
22826359 AAATTATTTTTCAGAAATTATTTTCCGAA-
1 AAATTATTTTCCAGAAATCATTTTCC-AAG
22826388 AAA-TATTTT
1 AAATTATTTT
22826397 ACCTGCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 6 0.18
29 25 0.76
30 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (29 bp):
AAATTATTTTCCAGAAATCATTTTCCAAG
Found at i:22829401 original size:42 final size:42
Alignment explanation
Indices: 22829335--22829418 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
22829325 AGGTAAACAA
*
22829335 AATTAGCCTTAACTTTACACATTTTATCAATTTAGTCTTACT
1 AATTAGCCTCAACTTTACACATTTTATCAATTTAGTCTTACT
* *
22829377 AATTAGCCTCAACTTTATATATTTTATCAATTTAGTCTTACT
1 AATTAGCCTCAACTTTACACATTTTATCAATTTAGTCTTACT
22829419 TCTTAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.46
Consensus pattern (42 bp):
AATTAGCCTCAACTTTACACATTTTATCAATTTAGTCTTACT
Found at i:22829447 original size:23 final size:23
Alignment explanation
Indices: 22829421--22829465 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22829411 GTCTTACTTC
*
22829421 TTAAAAATTATAAATTAAAAGTA
1 TTAAAAAATATAAATTAAAAGTA
* *
22829444 TTAAAAAATATGATTTAAAAGT
1 TTAAAAAATATAAATTAAAAGT
22829466 TTATTTCTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
TTAAAAAATATAAATTAAAAGTA
Found at i:22830240 original size:16 final size:17
Alignment explanation
Indices: 22830219--22830259 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
22830209 TATTTAAAAA
22830219 ATTTTTAAGTTGTTT-T
1 ATTTTTAAGTTGTTTGT
* *
22830235 ATTTTT-ATTTTTTTGT
1 ATTTTTAAGTTGTTTGT
22830251 ATTTTTAAG
1 ATTTTTAAG
22830260 AAGACAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 6 0.30
16 13 0.65
17 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (17 bp):
ATTTTTAAGTTGTTTGT
Found at i:22832805 original size:26 final size:28
Alignment explanation
Indices: 22832746--22832806 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
22832736 TAATTTTCGG
*
22832746 TTAAATTTAAATTAACTCGGTTAATTGA
1 TTAAATTTAAATTAACTCGGTTAATTAA
* * *
22832774 TCAAATTT-AATTAA-TTGGTTAGTTAA
1 TTAAATTTAAATTAACTCGGTTAATTAA
22832800 TTAAATT
1 TTAAATT
22832807 AATCGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 15 0.54
27 6 0.21
28 7 0.25
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (28 bp):
TTAAATTTAAATTAACTCGGTTAATTAA
Found at i:22835383 original size:6 final size:6
Alignment explanation
Indices: 22835372--22835402 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
22835362 CGCTATACGC
22835372 TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
22835403 ACATTTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
TCCCCT
Found at i:22838495 original size:35 final size:35
Alignment explanation
Indices: 22838455--22838524 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
22838445 ATAATATGTC
*
22838455 ATGATAATAATCTTCATATCATATAAATAACATTA
1 ATGATAATAATCATCATATCATATAAATAACATTA
22838490 ATGATAATAATCATCATATCATATAAATAACATTA
1 ATGATAATAATCATCATATCATATAAATAACATTA
22838525 TATTACTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (35 bp):
ATGATAATAATCATCATATCATATAAATAACATTA
Found at i:22838527 original size:19 final size:19
Alignment explanation
Indices: 22838470--22838527 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
22838460 AATAATCTTC
22838470 ATATCATATAAATAACATT
1 ATATCATATAAATAACATT
* *
22838489 A-AT--GAT-AATAATCATC
1 ATATCATATAAATAA-CATT
22838505 ATATCATATAAATAACATT
1 ATATCATATAAATAACATT
22838524 ATAT
1 ATAT
22838528 TACTTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
15 5 0.17
16 6 0.20
17 2 0.07
18 2 0.07
19 10 0.33
20 5 0.17
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATCATATAAATAACATT
Found at i:22841534 original size:37 final size:37
Alignment explanation
Indices: 22841484--22841560 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
22841474 GAATAGTATA
22841484 TATGCAGGAGTCAGCATAGAACTCACTTGATTCTCAC
1 TATGCAGGAGTCAGCATAGAACTCACTTGATTCTCAC
* *
22841521 TATGCATGAGTCAGCATAGAATTCACTTGATTCTCAC
1 TATGCAGGAGTCAGCATAGAACTCACTTGATTCTCAC
22841558 TAT
1 TAT
22841561 CGGTAGTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (37 bp):
TATGCAGGAGTCAGCATAGAACTCACTTGATTCTCAC
Found at i:22842804 original size:22 final size:24
Alignment explanation
Indices: 22842759--22842804 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
22842749 AGATATTAAA
*
22842759 TGTAATCTTTAGAAGATATGATTT
1 TGTAATCTTTAGAAGATATAATTT
*
22842783 TGTAATC-TTAG-AGATTTAATTT
1 TGTAATCTTTAGAAGATATAATTT
22842805 CTAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
24 7 0.35
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (24 bp):
TGTAATCTTTAGAAGATATAATTT
Found at i:22849126 original size:14 final size:14
Alignment explanation
Indices: 22849107--22849138 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
22849097 TTGTTGGCAA
22849107 GTTTTCCTAGCTGT
1 GTTTTCCTAGCTGT
22849121 GTTTTCCTAGCTGT
1 GTTTTCCTAGCTGT
22849135 GTTT
1 GTTT
22849139 GATTTCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.22, T:0.53
Consensus pattern (14 bp):
GTTTTCCTAGCTGT
Found at i:22857889 original size:5 final size:5
Alignment explanation
Indices: 22857879--22857920 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
22857869 TGCTGGCAAC
22857879 TGTTT TGTTT TGTTT TGTTT T-TCGTT TGTTT TGTTT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT TGT--TT TGTTT TGTTT TGTTT T
22857921 TCGACTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 1 0.03
5 29 0.85
6 3 0.09
7 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.19, T:0.79
Consensus pattern (5 bp):
TGTTT
Found at i:22857907 original size:21 final size:21
Alignment explanation
Indices: 22857882--22857923 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22857872 TGGCAACTGT
22857882 TTTGTTTTGTTTTGTTTTTCG
1 TTTGTTTTGTTTTGTTTTTCG
22857903 TTTGTTTTGTTTTGTTTTTCG
1 TTTGTTTTGTTTTGTTTTTCG
22857924 ACTTGAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.00, C:0.05, G:0.19, T:0.76
Consensus pattern (21 bp):
TTTGTTTTGTTTTGTTTTTCG
Found at i:22868813 original size:22 final size:22
Alignment explanation
Indices: 22868773--22868814 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22868763 TTAACGGTGT
* **
22868773 AAATAAATAATTTTTTTAATAA
1 AAATAAACAATTTACTTAATAA
22868795 AAATAAACAATTTACTTAAT
1 AAATAAACAATTTACTTAAT
22868815 TTTTAAATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAAACAATTTACTTAATAA
Found at i:22870970 original size:37 final size:37
Alignment explanation
Indices: 22870926--22871054 Score: 222
Period size: 37 Copynumber: 3.5 Consensus size: 37
22870916 CACTTGTCCC
22870926 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
22870963 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* * * *
22871000 TGATCAGATAAGTGTAGTCACTTATCACTTTGTCTAT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
22871037 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
22871055 TAAAGCTATC
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 87 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:22871086 original size:46 final size:46
Alignment explanation
Indices: 22871017--22871286 Score: 335
Period size: 46 Copynumber: 5.6 Consensus size: 46
22871007 ATAAGTGTAG
**
22871017 TCACTTATCACTTTGTCTA-TTGATCAGATAAGTGTAGCTAAAGCTA
1 TCACTTATCACTTTGTC-ACTTGATCAGATAAGTGTAGCCGAAGCTA
* *
22871063 TCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
22871109 TCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
1 TCACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
22871161 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
* **
22871207 TTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 TCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
22871259 CCACTTATCACTTTGTCACTTGATCAGA
1 TCACTTATCACTTTGTCACTTGATCAGA
22871287 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 26
0.84 0.05 0.11
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:22871137 original size:52 final size:52
Alignment explanation
Indices: 22871061--22871280 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
22871051 TAGCTAAAGC
* *
22871061 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
22871114 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
22871166 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
22871212 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
22871264 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
22871281 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:22871183 original size:98 final size:98
Alignment explanation
Indices: 22871017--22871286 Score: 452
Period size: 98 Copynumber: 2.7 Consensus size: 98
22871007 ATAAGTGTAG
* *
22871017 TCACTTATCACTTTGTCTA-TTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCT
1 TCACTTTTCAC-TTGTC-ACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCA
22871081 CTTGATCAGATAAGTATAGCCGAAGCTATCACTTA
64 CTTGATCAGATAAGTATAGCCGAAGCTATCACTTA
**
22871116 TCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACT
1 TCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
*
22871181 TGATCAGATAAGTATAGCCGAAGCTATTACTTA
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTA
* *
22871214 TCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 TCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
22871279 TGATCAGA
66 TGATCAGA
22871287 AGTACTCAAA
Statistics
Matches: 161, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 150 0.93
99 10 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
TCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTA
Found at i:22881070 original size:13 final size:13
Alignment explanation
Indices: 22881054--22881087 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
22881044 AATAAAATAA
22881054 TAAAATATCTTAT
1 TAAAATATCTTAT
22881067 TAAAATATCTTAT
1 TAAAATATCTTAT
22881080 TAAAATAT
1 TAAAATAT
22881088 TAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:22883297 original size:5 final size:5
Alignment explanation
Indices: 22883287--22883311 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22883277 TGACCTGTAG
22883287 CGGGT CGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT CGGGT CGGGT
22883312 TGCGTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
CGGGT
Found at i:22885118 original size:16 final size:17
Alignment explanation
Indices: 22885087--22885119 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22885077 TTCATAAGTA
22885087 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
22885104 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
22885120 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:22885562 original size:92 final size:92
Alignment explanation
Indices: 22885405--22885625 Score: 316
Period size: 92 Copynumber: 2.4 Consensus size: 92
22885395 TTTAACATGA
* * ** * *
22885405 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
** *
22885470 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTACACATTTCATATCACGC
* *
22885497 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATTTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
* *
22885562 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGC
*
22885589 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
22885626 ATATCAGAGA
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 114 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGC
Found at i:22885625 original size:46 final size:46
Alignment explanation
Indices: 22885405--22885632 Score: 287
Period size: 46 Copynumber: 5.0 Consensus size: 46
22885395 TTTAACATGA
* * ** *
22885405 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGT
* * *
22885451 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* ** *
22885497 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* * *
22885543 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
22885589 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
22885633 AGAGCACACT
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 158 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
Found at i:22889658 original size:46 final size:43
Alignment explanation
Indices: 22889552--22889658 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 43
22889542 TGTCTTTGAC
** * * *
22889552 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAT
*
22889595 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TAT-AT
*
22889641 ATGGATTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22889659 TTTCTGTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 33 0.61
45 2 0.04
46 19 0.35
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (43 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAT
Found at i:22896903 original size:46 final size:45
Alignment explanation
Indices: 22896796--22896904 Score: 146
Period size: 45 Copynumber: 2.4 Consensus size: 45
22896786 TGTCTTTGAC
** * * *
22896796 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATATAT
* *
22896841 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAT-AT
22896887 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22896905 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
45 36 0.64
46 20 0.36
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATATAT
Found at i:22899515 original size:28 final size:28
Alignment explanation
Indices: 22899461--22899522 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
22899451 AACATGCCAA
*
22899461 ATACTTATAAAAAATTAATCATCATAAC
1 ATACTTATAAAAAACTAATCATCATAAC
*
22899489 -TACTTATAACCAAACTAATTCA-CATAAC
1 ATACTTATAA-AAAACTAA-TCATCATAAC
22899517 ATACTT
1 ATACTT
22899523 GAAATATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 9 0.31
28 12 0.41
29 8 0.28
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (28 bp):
ATACTTATAAAAAACTAATCATCATAAC
Found at i:22899982 original size:38 final size:39
Alignment explanation
Indices: 22899926--22900012 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 39
22899916 TTACACCAGT
* *
22899926 ACAATGCCTGTTAGGCACAAAGCCCGAAT-ATCACCGGC
1 ACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGC
* * *
22899964 ACAAAGCCTGCTAGGCACATAGCCTGAATAATTACCGGC
1 ACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGC
*
22900003 ACACAGCCTG
1 ACAAAGCCTG
22900013 AATAATCACC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 25 0.60
39 17 0.40
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.16
Consensus pattern (39 bp):
ACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGC
Found at i:22900010 original size:23 final size:23
Alignment explanation
Indices: 22899977--22900028 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
22899967 AAGCCTGCTA
* *
22899977 GGCACATAGCCTGAATAATTACC
1 GGCACACAGCCTGAATAATCACC
22900000 GGCACACAGCCTGAATAATCACC
1 GGCACACAGCCTGAATAATCACC
*
22900023 GACACA
1 GGCACA
22900029 TAACATGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.15
Consensus pattern (23 bp):
GGCACACAGCCTGAATAATCACC
Found at i:22900056 original size:62 final size:61
Alignment explanation
Indices: 22899939--22900062 Score: 160
Period size: 62 Copynumber: 2.0 Consensus size: 61
22899929 ATGCCTGTTA
* * ** *
22899939 GGCACAAAGCCCGAATATCACCGGCACAAAGCCTGCTAGGCACATAGCCTGAATAATTACC
1 GGCACAAAGCCCGAATATCACCGACACAAAGCATGCTAGGCACATAGCCCAAATAATCACC
* *
22900000 GGCACACAGCCTGAATAATCACCGACACATAA-CATGCTAGGCACATAGCCCAAATAATCACC
1 GGCACAAAGCCCGAAT-ATCACCGACACA-AAGCATGCTAGGCACATAGCCCAAATAATCACC
22900062 G
1 G
22900063 ACACTTCTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 14 0.26
62 38 0.70
63 2 0.04
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.15
Consensus pattern (61 bp):
GGCACAAAGCCCGAATATCACCGACACAAAGCATGCTAGGCACATAGCCCAAATAATCACC
Found at i:22902824 original size:33 final size:33
Alignment explanation
Indices: 22902787--22902850 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
22902777 AAGACTATAT
* *
22902787 CTGGGATATGGCACCACGA-GTGTAAGACCATGG
1 CTGGGACATGGCAACAC-ACGTGTAAGACCATGG
* *
22902820 CTGGGCCATGGCAATACACGTGTAAGACCAT
1 CTGGGACATGGCAACACACGTGTAAGACCAT
22902851 AGTTGGACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (33 bp):
CTGGGACATGGCAACACACGTGTAAGACCATGG
Found at i:22903062 original size:46 final size:46
Alignment explanation
Indices: 22902973--22903092 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 46
22902963 TCAAATGTGA
* * * *
22902973 AAGACCATGGTTGAAAGATACAATGACAATATGACAAGGAATGAAT
1 AAGACCATGGTTGAAAGATACAATGGCAACACGACAAGAAATGAAT
* * *
22903019 AAGACTATGGTTGAAAGATACCATGGCAACACGAC-AGAAAATGAGT
1 AAGACCATGGTTGAAAGATACAATGGCAACACGACAAG-AAATGAAT
* * *
22903065 AAGACCATAGTTGAAAGACACTATGGCA
1 AAGACCATGGTTGAAAGATACAATGGCA
22903093 TCATGTTGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
45 2 0.03
46 60 0.97
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACAATGGCAACACGACAAGAAATGAAT
Found at i:22903221 original size:13 final size:13
Alignment explanation
Indices: 22903180--22903222 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
22903170 ATCGATGATG
*
22903180 AATGGTTATATGA
1 AATGGTTGTATGA
* **
22903193 ATTGGTTGTACAA
1 AATGGTTGTATGA
22903206 AATGGTTGTATGA
1 AATGGTTGTATGA
22903219 AATG
1 AATG
22903223 TTTACAAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (13 bp):
AATGGTTGTATGA
Found at i:22903237 original size:26 final size:26
Alignment explanation
Indices: 22903180--22903261 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
22903170 ATCGATGATG
*
22903180 AATGGTTATATGAATTGGTTGTACAA
1 AATGGTTATATGAAATGGTTGTACAA
*
22903206 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTATATGAAATGGTTGTACAA
* *
22903230 GAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTATAT-GAAATGGT-TGTACAA
22903259 AAT
1 AAT
22903262 AGTTGCATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.11
25 5 0.11
26 21 0.46
27 7 0.15
28 3 0.07
29 5 0.11
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (26 bp):
AATGGTTATATGAAATGGTTGTACAA
Found at i:22910722 original size:46 final size:46
Alignment explanation
Indices: 22910655--22910824 Score: 188
Period size: 46 Copynumber: 3.6 Consensus size: 46
22910645 TTTGTGTGCT
*
22910655 AGTGTAAGA-CATGTCTGGGACATGCATCGGCGTCGTA-ATGTAAATC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACG-AGATGTAAATC
22910701 AGTGTAAGA-CATGTCTGGGACATGCATCGGCAACGAGATGT--ATC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGAGATGTAAATC
* * * *
22910745 AGTGTAAGACCATGTTTGGGACGTGACATCGGCACGGAGACGTGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCAC-GAGATGT-AAA-TC
22910795 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
22910825 AACTTAATGG
Statistics
Matches: 107, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
44 12 0.11
45 16 0.15
46 50 0.47
49 1 0.01
50 27 0.25
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGTAAATC
Found at i:22913992 original size:3 final size:3
Alignment explanation
Indices: 22913986--22914020 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22913976 ATAATAATAA
22913986 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22914021 AGAGAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22915956 original size:22 final size:22
Alignment explanation
Indices: 22915917--22915962 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
22915907 TAATCATATA
*
22915917 ATAAATTATTAATATAATTAAT
1 ATAAATTATTAATATAATAAAT
* * *
22915939 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
22915961 AT
1 AT
22915963 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:22915995 original size:16 final size:16
Alignment explanation
Indices: 22915976--22916011 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22915966 AATTTTATTT
22915976 AATAATAAATTTAAAA
1 AATAATAAATTTAAAA
* *
22915992 AATAATAATTTTAAAT
1 AATAATAAATTTAAAA
22916008 AATA
1 AATA
22916012 TTCATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATAAATTTAAAA
Found at i:22916584 original size:20 final size:21
Alignment explanation
Indices: 22916559--22916609 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
22916549 CATCTAAACA
22916559 TAAAAAAATATTAATT-TTTT
1 TAAAAAAATATTAATTATTTT
22916579 TAAAAAAATA--AATTATTTT
1 TAAAAAAATATTAATTATTTT
* *
22916598 TCAAAAATTATT
1 TAAAAAAATATT
22916610 TTTAGTGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAAAATATTAATTATTTT
Found at i:22916592 original size:18 final size:20
Alignment explanation
Indices: 22916559--22916604 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
22916549 CATCTAAACA
22916559 TAAAAAAATATTAATT-TTTT
1 TAAAAAAATA-TAATTATTTT
22916579 TAAAAAAATA-AATTATTTT
1 TAAAAAAATATAATTATTTT
22916598 TCAAAAA
1 T-AAAAA
22916605 TTATTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 15 0.62
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAAAATATAATTATTTT
Found at i:22921570 original size:44 final size:44
Alignment explanation
Indices: 22921507--22921591 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
22921497 AACTCTAGTG
22921507 TTTATGCATTTAGATATACATGTACACACACAAATATATATTTT
1 TTTATGCATTTAGATATACATGTACACACACAAATATATATTTT
*
22921551 TTTATGCATTTATATATACATGTACACACACAAATATATAT
1 TTTATGCATTTAGATATACATGTACACACACAAATATATAT
22921592 ATATGTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (44 bp):
TTTATGCATTTAGATATACATGTACACACACAAATATATATTTT
Found at i:22922677 original size:5 final size:5
Alignment explanation
Indices: 22922669--22922698 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
22922659 ATCACCTGTT
*
22922669 TTTTT TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
22922699 GCTTTCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:22932048 original size:51 final size:51
Alignment explanation
Indices: 22931972--22932070 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
22931962 AAAAAAAATT
*
22931972 ATGTGAATTCAAATATTAGAATGCATTCTAAAATATATATAAATTTCAATC
1 ATGTGAATTCAAATATTAGAATGCATCCTAAAATATATATAAATTTCAATC
*
22932023 ATGTGAATTCAAATGTTAGAATGCATCCTAAAATATATATAAATTTCA
1 ATGTGAATTCAAATATTAGAATGCATCCTAAAATATATATAAATTTCA
22932071 GTCGGGAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.36
Consensus pattern (51 bp):
ATGTGAATTCAAATATTAGAATGCATCCTAAAATATATATAAATTTCAATC
Found at i:22933333 original size:21 final size:21
Alignment explanation
Indices: 22933292--22933333 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
22933282 GAAAGTGACT
**
22933292 TTATTTATTCTGTAAGTAATA
1 TTATTTATTCTGTAAAAAATA
22933313 TTATTTAATTC-GTAAAAAATA
1 TTATTT-ATTCTGTAAAAAATA
22933334 ATTTTAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (21 bp):
TTATTTATTCTGTAAAAAATA
Found at i:22953937 original size:14 final size:14
Alignment explanation
Indices: 22953915--22953952 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
22953905 CCCTAGTTTC
22953915 TCCTTTCTTTTTTT
1 TCCTTTCTTTTTTT
*
22953929 TCTTTTC-TTTTTT
1 TCCTTTCTTTTTTT
22953942 TCCTTTCTTTT
1 TCCTTTCTTTT
22953953 CCTCCCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TCCTTTCTTTTTTT
Found at i:22954070 original size:21 final size:22
Alignment explanation
Indices: 22954046--22954098 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
22954036 ATTGTAATAA
*
22954046 TAAATTTTTA-TATT-ATATACT
1 TAAATTTTAAGTATTCATATA-T
*
22954067 TAAATATTAAGTATTCATATAT
1 TAAATTTTAAGTATTCATATAT
22954089 TAATATTTTA
1 TAA-ATTTTA
22954099 TGCATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 8 0.31
22 8 0.31
23 10 0.38
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAATTTTAAGTATTCATATAT
Found at i:22956358 original size:222 final size:222
Alignment explanation
Indices: 22955972--22956410 Score: 851
Period size: 222 Copynumber: 2.0 Consensus size: 222
22955962 CATACGCCCG
*
22955972 TGTGGTGTCGACATATTCATTTTTTAGCTTTCACCGATTCTCGTTTTCTGTGTTTTCGAGTACAC
1 TGTGGTGTCGACATATTCATTTTTCAGCTTTCACCGATTCTCGTTTTCTGTGTTTTCGAGTACAC
22956037 ACCTGGAATTGTTAGAAGCTAATCTGAACTCCGAGCACTCATGAACCTAAATATTTATAAATTTA
66 ACCTGGAATTGTTAGAAGCTAATCTGAACTCCGAGCACTCATGAACCTAAATATTTATAAATTTA
22956102 TATTCGATTAATCGCTTAGAAACTGAATTCATCTAATCCCAAAACAAGGTAACTAGCTTTCGAGT
131 TATTCGATTAATCGCTTAGAAACTGAATTCATCTAATCCCAAAACAAGGTAACTAGCTTTCGAGT
22956167 GATAAGCTAGTACCTTCTATCGCTTTC
196 GATAAGCTAGTACCTTCTATCGCTTTC
*
22956194 TGTGGTGTCGACATATTCATTTTTCAGCTTTCACCGATTCTCGTTTTCTGTGTTTTCGGGTACAC
1 TGTGGTGTCGACATATTCATTTTTCAGCTTTCACCGATTCTCGTTTTCTGTGTTTTCGAGTACAC
22956259 ACCTGGAATTGTTAGAAGCTAATCTGAACTCCGAGCACTCATGAACCTAAATATTTATAAATTTA
66 ACCTGGAATTGTTAGAAGCTAATCTGAACTCCGAGCACTCATGAACCTAAATATTTATAAATTTA
*
22956324 TATTCGATTAATCGCTTAGAAACTGAATTCATCTAATCCTAAAACAAGGTAACTAGCTTTCGAGT
131 TATTCGATTAATCGCTTAGAAACTGAATTCATCTAATCCCAAAACAAGGTAACTAGCTTTCGAGT
22956389 GATAAGCTAGTACCTTCTATCG
196 GATAAGCTAGTACCTTCTATCG
22956411 ATTAGCAAAA
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 214 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (222 bp):
TGTGGTGTCGACATATTCATTTTTCAGCTTTCACCGATTCTCGTTTTCTGTGTTTTCGAGTACAC
ACCTGGAATTGTTAGAAGCTAATCTGAACTCCGAGCACTCATGAACCTAAATATTTATAAATTTA
TATTCGATTAATCGCTTAGAAACTGAATTCATCTAATCCCAAAACAAGGTAACTAGCTTTCGAGT
GATAAGCTAGTACCTTCTATCGCTTTC
Found at i:22959925 original size:21 final size:21
Alignment explanation
Indices: 22959886--22959925 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22959876 ATTATCTAAA
**
22959886 TTTAATTAATCATGTTTTAGT
1 TTTAATTAATCATAATTTAGT
*
22959907 TTTAATTAATCTTAATTTA
1 TTTAATTAATCATAATTTA
22959926 CTAAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTAATTAATCATAATTTAGT
Found at i:22967352 original size:11 final size:11
Alignment explanation
Indices: 22967338--22967362 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22967328 TTTACAATTT
22967338 TTTAAAATATA
1 TTTAAAATATA
22967349 TTTAAAATATA
1 TTTAAAATATA
22967360 TTT
1 TTT
22967363 TTTAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATATA
Found at i:22972102 original size:17 final size:18
Alignment explanation
Indices: 22972076--22972111 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
22972066 AGCCACAAAT
22972076 AAAAAAAAAAAGA-GAGC
1 AAAAAAAAAAAGATGAGC
*
22972093 AAAAACAAAAAGATGAGC
1 AAAAAAAAAAAGATGAGC
22972111 A
1 A
22972112 TGAAAGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.72, C:0.08, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAAGATGAGC
Found at i:22974217 original size:14 final size:14
Alignment explanation
Indices: 22974195--22974236 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
22974185 GTAAAACAAC
*
22974195 AATAA-AACAAGAA
1 AATAACAACAAAAA
*
22974208 CATAACAACAAAAA
1 AATAACAACAAAAA
*
22974222 AATAACAAGAAAAA
1 AATAACAACAAAAA
22974236 A
1 A
22974237 GTTTAGGCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (14 bp):
AATAACAACAAAAA
Found at i:22975819 original size:52 final size:52
Alignment explanation
Indices: 22975761--22975861 Score: 202
Period size: 52 Copynumber: 1.9 Consensus size: 52
22975751 AAATCATAAA
22975761 AAAATATAAAAGAAAGTCTTTAATTGAATCTTATAAGCAAAACAAAAAATAT
1 AAAATATAAAAGAAAGTCTTTAATTGAATCTTATAAGCAAAACAAAAAATAT
22975813 AAAATATAAAAGAAAGTCTTTAATTGAATCTTATAAGCAAAACAAAAAA
1 AAAATATAAAAGAAAGTCTTTAATTGAATCTTATAAGCAAAACAAAAAA
22975862 CATTCTCCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (52 bp):
AAAATATAAAAGAAAGTCTTTAATTGAATCTTATAAGCAAAACAAAAAATAT
Found at i:22979587 original size:16 final size:17
Alignment explanation
Indices: 22979556--22979588 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22979546 TTCATAAGTA
22979556 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
22979573 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
22979589 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:22979934 original size:46 final size:46
Alignment explanation
Indices: 22979874--22980193 Score: 405
Period size: 46 Copynumber: 7.0 Consensus size: 46
22979864 TTTGACATGA
* * * *
22979874 TGCCATAGTGTCTTTCAACTATGGTCTTATTAATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTAA-TTTCATGTCAGGT
* * *
22979920 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCATGTCAGGT
* * *
22979966 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCATGTCAGGT
* * *
22980012 TGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCATGTCAGGT
* *
22980058 TGCCATGGTATCTTTCAACCATGGTCTTA-CACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTA-ATTTCATGTCAGGT
* * *
22980104 TGCCATGCTATCTTTCAACCATGGTCTTA-CACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTA-ATTTCATGTCAGGT
*
22980150 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTATTA-ATTTCATGTCAG
22980194 AAAGCACACT
Statistics
Matches: 256, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 252 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCATGTCAGGT
Found at i:22980122 original size:138 final size:138
Alignment explanation
Indices: 22979874--22980193 Score: 453
Period size: 138 Copynumber: 2.3 Consensus size: 138
22979864 TTTGACATGA
* * * * * *
22979874 TGCCATAGTGTCTTTCAACTATGGTCTTATTAATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACAATGGTCTTATTCA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
** * * **
22979938 CCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
65 CCATGGTCTTACACATTTCATATCACGCTGCCATGCTATCTTTCAACCATGGTCTTACACATTTC
*
22980003 ATGTCACGC
130 ATATCACGC
22980012 TGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCATATCAGGTTGCCATGGTATCTTTCAAC
* *
22980077 CATGGTCTTACACATTTCATATCAGGTTGCCATGCTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCACGCTGCCATGCTATCTTTCAACCATGGTCTTACACATTTCA
* *
22980142 TATCAGGT
131 TATCACGC
* *
22980150 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAG
1 TGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCATATCAG
22980194 AAAGCACACT
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
137 4 0.02
138 158 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGCTGCCATGCTATCTTTCAACCATGGTCTTACACATTTCA
TATCACGC
Found at i:22980189 original size:92 final size:92
Alignment explanation
Indices: 22979874--22980193 Score: 455
Period size: 92 Copynumber: 3.5 Consensus size: 92
22979864 TTTGACATGA
* * * * *
22979874 TGCCATAGTGTCTTTCAACTATGGTCTTATTA-ATTTTC-TGTCATGTTGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TACA-TTTCATATCAGGTTGCCATGGTATCTTTCA
* * *
22979937 ACCATGGTCTTATTCATTTCATGTCACGC
64 ACCATGGTCTTATTCATTTCATATCAGGT
* * * *
22979966 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
22980031 AATGGTCTTATTCATTTCATATCAGGT
66 CATGGTCTTATTCATTTCATATCAGGT
* *
22980058 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGCTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
**
22980123 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTATTCATTTCATATCAGGT
22980150 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAG
22980194 AAAGCACACT
Statistics
Matches: 206, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
91 5 0.02
92 201 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCAGGT
Found at i:22983615 original size:36 final size:35
Alignment explanation
Indices: 22983549--22983616 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
22983539 AAATAGAAAA
* *
22983549 AAAATTGTAAATTTTTTATAAAAGTCATAAAATAT
1 AAAATTGTAAATTTTATATAAAAATCATAAAATAT
*
22983584 AAAATTGTAAAATTTTATA-AGAAAATTATAAAA
1 AAAATTGT-AAATTTTATATA-AAAATCATAAAA
22983617 AAATGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 9 0.32
36 19 0.68
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (35 bp):
AAAATTGTAAATTTTATATAAAAATCATAAAATAT
Found at i:22983638 original size:10 final size:10
Alignment explanation
Indices: 22983584--22983661 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 10
22983574 CATAAAATAT
*
22983584 AAAATTGTAA
1 AAAATTATAA
**
22983594 AATTTTATAA
1 AAAATTATAA
22983604 GAAAATTATAA
1 -AAAATTATAA
* *
22983615 AAAAATGTAA
1 AAAATTATAA
** *
22983625 AAAAAAATAT
1 AAAATTATAA
22983635 AAAATTCAT-A
1 AAAATT-ATAA
22983645 AAAATTAT-A
1 AAAATTATAA
22983654 AAAATTAT
1 AAAATTAT
22983662 CATACCAAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
9 11 0.21
10 32 0.60
11 10 0.19
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAATTATAA
Found at i:22983647 original size:76 final size:75
Alignment explanation
Indices: 22983515--22983656 Score: 162
Period size: 76 Copynumber: 1.9 Consensus size: 75
22983505 TAAAAATTAA
* * * * * *
22983515 TAAAATTTAATTAAAAATTTAAAAAAATAGAAAAAAAATTGTAAATTTTTTATAAAAGTCATAAA
1 TAAAATTTAATAAAAAATTTAAAAAAATAGAAAAAAAAATATAAA-TATTCATAAAAATCATAAA
22983580 ATATAAAATTG
65 ATATAAAATTG
* *
22983591 TAAAATTTTATAAGAAAATTATAAAAAAAT-GTAAAAAAAAATATAAA-ATTCATAAAAATTATA
1 TAAAATTTAATAA-AAAATT-TAAAAAAATAG-AAAAAAAAATATAAATATTCATAAAAATCATA
22983654 AAA
63 AAA
22983657 ATTATCATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
76 26 0.47
77 7 0.13
78 22 0.40
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (75 bp):
TAAAATTTAATAAAAAATTTAAAAAAATAGAAAAAAAAATATAAATATTCATAAAAATCATAAAA
TATAAAATTG
Found at i:22983862 original size:20 final size:19
Alignment explanation
Indices: 22983829--22983884 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
22983819 TTGAAAGGCC
22983829 TTTTTGATGCATTTTTATAAA
1 TTTTT-ATG-ATTTTTATAAA
22983850 TTTTTAATGATTTTTATAAA
1 TTTTT-ATGATTTTTATAAA
*
22983870 ATTTTATG-TTTTTAT
1 TTTTTATGATTTTTAT
22983885 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 7 0.21
19 3 0.09
20 15 0.45
21 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTATGATTTTTATAAA
Found at i:22983927 original size:30 final size:29
Alignment explanation
Indices: 22983884--22983944 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
22983874 TATGTTTTTA
*
22983884 TTTTTAATTTTTTTAATAAAATTTAAATAT
1 TTTTTAATATTTTTAATAAAATTT-AATAT
* *
22983914 TTTTTTATATTTTTATTAAAATTTAATAT
1 TTTTTAATATTTTTAATAAAATTTAATAT
22983943 TT
1 TT
22983945 GTTATAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTTAATATTTTTAATAAAATTTAATAT
Found at i:22983956 original size:29 final size:30
Alignment explanation
Indices: 22983894--22983960 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
22983884 TTTTTAATTT
* * *
22983894 TTTTAATAAAATTTAAATATTTTTTTATAT
1 TTTTATTAAAATTTAAATATTTTTATATAC
22983924 TTTTATTAAAATTT-AATATTTGTTATA-AC
1 TTTTATTAAAATTTAAATATTT-TTATATAC
22983953 TTTTATTA
1 TTTTATTA
22983961 TTTTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTTATTAAAATTTAAATATTTTTATATAC
Found at i:22985025 original size:3 final size:3
Alignment explanation
Indices: 22985017--22985089 Score: 73
Period size: 3 Copynumber: 25.7 Consensus size: 3
22985007 AAAATAGTAA
* * * *
22985017 AAG AAG AAG AAG AA- AAG AAG ATG AAA AAC AAG TAG AAG AAG AAG -AG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
22985063 AAG AAG AAG -AG AAA AAG AAG -AG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
22985090 ATGGAGATGC
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
2 8 0.14
3 49 0.86
ACGTcount: A:0.67, C:0.01, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:22985034 original size:14 final size:14
Alignment explanation
Indices: 22985015--22985083 Score: 77
Period size: 14 Copynumber: 4.9 Consensus size: 14
22985005 ACAAAATAGT
22985015 AAAAGAAGAAGAAG
1 AAAAGAAGAAGAAG
* *
22985029 AAAAGAAGATGAAA
1 AAAAGAAGAAGAAG
*
22985043 AACAAGTAGAAGAAG
1 AA-AAGAAGAAGAAG
*
22985058 AAGAGAAGAAGAAG
1 AAAAGAAGAAGAAG
22985072 AGAAA-AAGAAGA
1 A-AAAGAAGAAGA
22985084 GAAGAAATGG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 32 0.71
15 13 0.29
ACGTcount: A:0.68, C:0.01, G:0.28, T:0.03
Consensus pattern (14 bp):
AAAAGAAGAAGAAG
Found at i:22985036 original size:11 final size:11
Alignment explanation
Indices: 22985020--22985089 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
22985010 ATAGTAAAAG
22985020 AAGAAGAAGAA
1 AAGAAGAAGAA
*
22985031 AAGAAGATG-A
1 AAGAAGAAGAA
* *
22985041 AA-AACAAGTAG
1 AAGAAGAAG-AA
*
22985052 AAGAAGAAGAG
1 AAGAAGAAGAA
22985063 AAGAAGAAGAGA
1 AAGAAGAAGA-A
*
22985075 AA-AAGAAGAG
1 AAGAAGAAGAA
22985085 AAGAA
1 AAGAA
22985090 ATGGAGATGC
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 4 0.09
10 5 0.11
11 31 0.66
12 7 0.15
ACGTcount: A:0.67, C:0.01, G:0.29, T:0.03
Consensus pattern (11 bp):
AAGAAGAAGAA
Found at i:22985096 original size:22 final size:22
Alignment explanation
Indices: 22985017--22985089 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
22985007 AAAATAGTAA
22985017 AAGAAGAAGA-AGAAAAGAAGATG
1 AAGAAGAAGAGA-AAAAGAAGA-G
* * *
22985040 AAAAACAAGTAGAAGAAGAAGAG
1 AAGAAGAAG-AGAAAAAGAAGAG
22985063 AAGAAGAAGAGAAAAAGAAGAG
1 AAGAAGAAGAGAAAAAGAAGAG
22985085 AAGAA
1 AAGAA
22985090 ATGGAGATGC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
22 17 0.40
23 15 0.36
24 9 0.21
25 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.29, T:0.03
Consensus pattern (22 bp):
AAGAAGAAGAGAAAAAGAAGAG
Found at i:22986686 original size:19 final size:20
Alignment explanation
Indices: 22986662--22986699 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22986652 TACGTATATA
22986662 TATT-AAAATATATACATAG
1 TATTAAAAATATATACATAG
22986681 TATTAAAAATATATACATA
1 TATTAAAAATATATACATA
22986700 TTAGAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
TATTAAAAATATATACATAG
Found at i:22986711 original size:20 final size:20
Alignment explanation
Indices: 22986666--22986720 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
22986656 TATATATATT
* *
22986666 AAAATATATACATAGTATTA
1 AAAATATATACATATTATGA
22986686 AAAATATATACATATTA-GA
1 AAAATATATACATATTATGA
22986705 AATAATA-ATA-ATATTA
1 AA-AATATATACATATTA
22986721 AAAACAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.19
19 6 0.19
20 20 0.62
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATATATACATATTATGA
Found at i:22986720 original size:18 final size:17
Alignment explanation
Indices: 22986661--22986723 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 17
22986651 ATACGTATAT
22986661 ATATTAAAATATATACATA
1 ATATTAAAATA-ATA-ATA
*
22986680 GTATT-AAA-AATATATA
1 ATATTAAAATAATA-ATA
22986696 CATATTAGAAATAATAATA
1 -ATATTA-AAATAATAATA
22986715 ATATTAAAA
1 ATATTAAAA
22986724 ACAACTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
16 6 0.16
17 8 0.22
18 9 0.24
19 10 0.27
20 4 0.11
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATATTAAAATAATAATA
Found at i:22986774 original size:18 final size:20
Alignment explanation
Indices: 22986704--22986801 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 20
22986694 TACATATTAG
22986704 AAATA-ATAATAATATTAAA
1 AAATACATAATAATATTAAA
*
22986723 AACA-ACTATTAATAATACTACATA
1 AA-ATAC-A-TAATAATATTA-A-A
*
22986747 AATGTACAT-AT-ATATTAAA
1 AA-ATACATAATAATATTAAA
22986766 AAATACATAATAATATT-AA
1 AAATACATAATAATATTAAA
*
22986785 AAATACGTACATAATAT
1 AAATACATA-ATAATAT
22986802 ATATACATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
18 5 0.08
19 18 0.29
20 14 0.22
21 6 0.10
22 12 0.19
23 2 0.03
24 4 0.06
25 2 0.03
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATACATAATAATATTAAA
Found at i:22986899 original size:14 final size:15
Alignment explanation
Indices: 22986877--22986910 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22986867 TACACAATAT
*
22986877 ATATGGTATT-AAAA
1 ATATAGTATTAAAAA
22986891 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
22986906 ATATA
1 ATATA
22986911 CATATAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:22987372 original size:3 final size:3
Alignment explanation
Indices: 22987345--22987481 Score: 50
Period size: 3 Copynumber: 45.0 Consensus size: 3
22987335 GAATATATAC
* * * * * * *
22987345 ATA AT- ATA ATA TTA AGA AAA ATA ATA ATA ACA AAA AAA ACTA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * * * *
22987390 ATA ATA CTA TATA AT- ATA TATA AGTA TTA AGTA AAA ATA ATA CTA ATG
1 ATA ATA ATA -ATA ATA ATA -ATA A-TA ATA A-TA ATA ATA ATA ATA ATA
* *
22987438 CTA ATAA ATA ATA A-A TATA ATA ATA ATA GTA ATA A-A AT- ATA ATA
1 ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22987482 GTATACATAT
Statistics
Matches: 98, Mismatches: 24, Indels: 24
0.67 0.16 0.16
Matches are distributed among these distances:
2 9 0.09
3 74 0.76
4 15 0.15
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:22987458 original size:22 final size:22
Alignment explanation
Indices: 22987339--22987481 Score: 73
Period size: 22 Copynumber: 6.4 Consensus size: 22
22987329 TTAAAAGAAT
*
22987339 ATATACATAAT-ATAATATTAAGAA
1 ATATA-ATAATAATAA-A-TAATAA
* *
22987363 AAATAATAATAACAAA-AA-AA
1 ATATAATAATAATAAATAATAA
* * *
22987383 ACTATTAATAATACTATATAATAT
1 A-TA-TAATAATAATAAATAATAA
*
22987407 ATATAAGTATTAAGTAAA-AAT-A
1 ATATAA-TAATAA-TAAATAATAA
**
22987429 ATACTAATGCTAATAAATAATAA
1 ATA-TAATAATAATAAATAATAA
*
22987452 ATATAATAATAAT-AGTAATAAA
1 ATATAATAATAATAAATAAT-AA
22987474 ATATAATA
1 ATATAATA
22987482 GTATACATAT
Statistics
Matches: 92, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
20 3 0.03
21 12 0.13
22 41 0.45
23 24 0.26
24 12 0.13
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (22 bp):
ATATAATAATAATAAATAATAA
Done.