Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold181
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: 968729
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 6 of 7
Found at i:717919 original size:18 final size:18
Alignment explanation
Indices: 717863--717901 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
717853 TAACAATCTT
*
717863 AAATATCCAAAAATAAAA
1 AAATATCTAAAAATAAAA
717881 AAATATCTAAAAATAAAA
1 AAATATCTAAAAATAAAA
717899 AAA
1 AAA
717902 AATATCTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATATCTAAAAATAAAA
Found at i:718295 original size:29 final size:30
Alignment explanation
Indices: 718222--718304 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
718212 TTTTATTTGG
*
718222 TATAAAAATTTATTTGAATAGAAATCAAAA
1 TATAAAAATTTATTTGAATAGAAATAAAAA
* ** * * * *
718252 GATGCAAACTCATTTAAATA-TAATAAAAA
1 TATAAAAATTTATTTGAATAGAAATAAAAA
718281 TATAAAAATTTATTTGAATA-AAAT
1 TATAAAAATTTATTTGAATAGAAAT
718305 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 15, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (30 bp):
TATAAAAATTTATTTGAATAGAAATAAAAA
Found at i:720519 original size:64 final size:64
Alignment explanation
Indices: 720418--720547 Score: 233
Period size: 64 Copynumber: 2.0 Consensus size: 64
720408 TTACCGTGGC
* *
720418 TAAGTGTGAATCAACTGAAGCATTGTTGGATTCTCCTATTAAATATTAGATGAATAATTGTCCT
1 TAAGTGTGAATCAACTGAAGCATTGTTGGATTCTCCTATTAAAGATTAGATGAATAAGTGTCCT
*
720482 TAAGTGTGAATCAACTGAAGCATTGTTGGATTCTCCTATTAAAGATTAGATGAGTAAGTGTCCT
1 TAAGTGTGAATCAACTGAAGCATTGTTGGATTCTCCTATTAAAGATTAGATGAATAAGTGTCCT
720546 TA
1 TA
720548 TTGCCTGGCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (64 bp):
TAAGTGTGAATCAACTGAAGCATTGTTGGATTCTCCTATTAAAGATTAGATGAATAAGTGTCCT
Found at i:723020 original size:13 final size:14
Alignment explanation
Indices: 723002--723032 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
722992 GCAGGCTTCC
723002 TTTTTTTTTTCTT-
1 TTTTTTTTTTCTTG
723015 TTTTTTTTTTCTTG
1 TTTTTTTTTTCTTG
723029 TTTT
1 TTTT
723033 ATATGTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTCTTG
Found at i:734768 original size:18 final size:19
Alignment explanation
Indices: 734745--734790 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
734735 TTATAAAAAG
734745 ATGTATTG-GGATGAAATA
1 ATGTATTGTGGATGAAATA
734763 ATGTATTGATTGGATGAAATA
1 ATGTATTG--TGGATGAAATA
734784 ATGTATT
1 ATGTATT
734791 TTTTGGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.32
21 17 0.68
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (19 bp):
ATGTATTGTGGATGAAATA
Found at i:734779 original size:21 final size:21
Alignment explanation
Indices: 734753--734802 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
734743 AGATGTATTG
734753 GGATGAAATAATGTATTGATT
1 GGATGAAATAATGTATTGATT
**
734774 GGATGAAATAATGTATTTTTT
1 GGATGAAATAATGTATTGATT
734795 GGATGAAA
1 GGATGAAA
734803 AATACAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (21 bp):
GGATGAAATAATGTATTGATT
Found at i:738586 original size:12 final size:10
Alignment explanation
Indices: 738563--738611 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
738553 AATATATTAA
738563 AAAAATAAAT
1 AAAAATAAAT
738573 -AAAATAAGAT
1 AAAAATAA-AT
738583 ATAAAATATAAT
1 A-AAAATA-AAT
738595 AAAAATAAAAT
1 AAAAAT-AAAT
738606 AAAAAT
1 AAAAAT
738612 TATTAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 7 0.21
10 2 0.06
11 14 0.41
12 10 0.29
13 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:738593 original size:23 final size:22
Alignment explanation
Indices: 738563--738619 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
738553 AATATATTAA
*
738563 AAAAATA-AAT-AAAATAAGAT
1 AAAAATATAATAAAAATAAAAT
738583 ATAAAATATAATAAAAATAAAAT
1 A-AAAATATAATAAAAATAAAAT
*
738606 AAAAAT-TATTAAAA
1 AAAAATATAATAAAA
738620 TTTATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 8 0.25
23 10 0.31
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAATATAATAAAAATAAAAT
Found at i:738601 original size:11 final size:11
Alignment explanation
Indices: 738552--738611 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
738542 ACTTGTCCAT
*
738552 AAATATATTAA
1 AAATATAATAA
*
738563 AAAAATAA-ATA
1 AAATATAATA-A
738574 AAATA-AGATATA
1 AAATATA-ATA-A
738586 AAATATAATAA
1 AAATATAATAA
*
738597 AAATAAAATAA
1 AAATATAATAA
738608 AAAT
1 AAAT
738612 TATTAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 2 0.05
11 27 0.66
12 11 0.27
13 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (11 bp):
AAATATAATAA
Found at i:738654 original size:24 final size:24
Alignment explanation
Indices: 738599--738678 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
738589 TATAATAAAA
**
738599 ATAAAATAAAAATTATTAAAATTT
1 ATAAAATATTAATTATTAAAATTT
* *
738623 ATATAATATTAATTATTATATATTT
1 ATAAAATATTAATTATTA-AAATTT
*
738648 -TAAAATATATAATATCTTAAAAGTATT
1 ATAAAATAT-TAAT-TATTAAAA-T-TT
738675 ATAA
1 ATAA
738679 TATAAAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
24 22 0.51
25 11 0.26
26 5 0.12
27 2 0.05
28 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (24 bp):
ATAAAATATTAATTATTAAAATTT
Found at i:738667 original size:17 final size:19
Alignment explanation
Indices: 738636--738681 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
738626 TAATATTAAT
*
738636 TATTAT-ATATTTTAAAA-
1 TATTATAATATCTTAAAAG
738653 TA-TATAATATCTTAAAAG
1 TATTATAATATCTTAAAAG
738671 TATTATAATAT
1 TATTATAATAT
738682 AAAAAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 12 0.48
18 2 0.08
19 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTATAATATCTTAAAAG
Found at i:746506 original size:15 final size:15
Alignment explanation
Indices: 746469--746506 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
746459 TATTAAAAAT
*
746469 TTTAATATATTTATA
1 TTTAATATATTCATA
746484 -TTATATATATTCATA
1 TTTA-ATATATTCATA
746499 TTTAATAT
1 TTTAATAT
746507 TCTCATTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 3 0.15
15 14 0.70
16 3 0.15
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATATATTCATA
Found at i:748560 original size:15 final size:15
Alignment explanation
Indices: 748540--748569 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
748530 GTAACATGCA
748540 ATTGTGCCTCAAGCT
1 ATTGTGCCTCAAGCT
748555 ATTGTGCCTCAAGCT
1 ATTGTGCCTCAAGCT
748570 TGGTGCTTGG
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:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (15 bp):
ATTGTGCCTCAAGCT
Found at i:750375 original size:20 final size:19
Alignment explanation
Indices: 750344--750381 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
750334 TTGTACCTTT
*
750344 TTTCTTTTCCCTGTTTCTG
1 TTTCTTTTCCCTATTTCTG
750363 TTTCTTCTTCCCTATTTCT
1 TTTCTT-TTCCCTATTTCT
750382 AGGCATTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.03, C:0.29, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTCTTTTCCCTATTTCTG
Found at i:753780 original size:2 final size:2
Alignment explanation
Indices: 753773--753799 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
753763 GTGGATCCTC
753773 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
753800 GGTATAATAA
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:764031 original size:3 final size:3
Alignment explanation
Indices: 764023--764047 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
764013 TTCCTTTTGC
764023 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
764048 TCTTGGGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:765888 original size:16 final size:16
Alignment explanation
Indices: 765867--765900 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
765857 AATCCTCAAA
*
765867 ATATACATATATATAT
1 ATATACATATAAATAT
765883 ATATACATATAAATAT
1 ATATACATATAAATAT
765899 AT
1 AT
765901 GTAAGTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATACATATAAATAT
Found at i:766121 original size:2 final size:2
Alignment explanation
Indices: 766108--766144 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
766098 TTTAGTGAGA
* *
766108 AT AT AT AC AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
766145 AGAAAGAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:766525 original size:33 final size:33
Alignment explanation
Indices: 766482--766558 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
766472 TGTAATATAA
766482 AAAT-AATATAAA-GATGTAAATATATTAAAATTT
1 AAATAAATATAAATGAT-T-AATATATTAAAATTT
* * *
766515 ATA-AAATATAAATTATTAATATATTAATATTT
1 AAATAAATATAAATGATTAATATATTAAAATTT
766547 AAATAAATATAA
1 AAATAAATATAA
766559 TTATAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
32 16 0.43
33 19 0.51
34 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (33 bp):
AAATAAATATAAATGATTAATATATTAAAATTT
Found at i:766539 original size:32 final size:32
Alignment explanation
Indices: 766500--766562 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
766490 TAAAGATGTA
*
766500 AATATATTAAAATTTATA-AAATATAAATTATT
1 AATATATTAAAATTTAAATAAATAT-AATTATT
*
766532 AATATATTAATATTTAAATAAATATAATTAT
1 AATATATTAAAATTTAAATAAATATAATTAT
766563 AAAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
AATATATTAAAATTTAAATAAATATAATTATT
Found at i:766564 original size:12 final size:13
Alignment explanation
Indices: 766514--766582 Score: 61
Period size: 12 Copynumber: 5.3 Consensus size: 13
766504 TATTAAAATT
*
766514 TATAAAATATAAA
1 TATAATATATAAA
*
766527 TTATTAATATATTAA
1 -TA-TAATATATAAA
* *
766542 TAT-TTAAATAAA
1 TATAATATATAAA
766554 TATAAT-TATAAA
1 TATAATATATAAA
*
766566 AATAATATATAAA
1 TATAATATATAAA
766579 TATA
1 TATA
766583 TATTTTAATG
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
12 19 0.44
13 11 0.26
14 4 0.09
15 9 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATATATAAA
Found at i:766577 original size:19 final size:18
Alignment explanation
Indices: 766547--766582 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
766537 ATTAATATTT
*
766547 AAATAAATATAATTATAA
1 AAATAAATATAAATATAA
766565 AAATAATATATAAATATA
1 AAATAA-ATATAAATATA
766583 TATTTTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATATAAATATAA
Found at i:766584 original size:8 final size:8
Alignment explanation
Indices: 766475--766584 Score: 70
Period size: 8 Copynumber: 14.0 Consensus size: 8
766465 AATATAATGT
*
766475 AATATAAA
1 AATATATA
766483 AATAATATA
1 AAT-ATATA
* *
766492 AAGATGTA
1 AATATATA
766500 AATATATTAA
1 AATATA-T-A
*
766510 AATTTATA
1 AATATATA
766518 AA-ATATA
1 AATATATA
*
766525 AAT-TATT
1 AATATATA
*
766532 AATATATT
1 AATATATA
*
766540 AATATTTA
1 AATATATA
*
766548 AATAAATA
1 AATATATA
766556 TAAT-TATA
1 -AATATATA
766564 AA-A-AT-
1 AATATATA
766569 AATATATA
1 AATATATA
766577 AATATATA
1 AATATATA
766585 TTTTAATGTT
Statistics
Matches: 79, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
7 16 0.20
8 41 0.52
9 11 0.14
10 6 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
AATATATA
Found at i:769052 original size:3 final size:3
Alignment explanation
Indices: 769044--769076 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
769034 TGGGCCTATC
769044 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
769077 CCAGGATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:769502 original size:13 final size:15
Alignment explanation
Indices: 769479--769563 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 15
769469 CAAATATAAC
*
769479 TTAAT-TAAAA-AAA
1 TTAATATAAAATATA
769492 TTAATATAAAATATA
1 TTAATATAAAATATA
*
769507 TTAATAT-AAATATT
1 TTAATATAAAATATA
769521 TTAAAATTATATAAATATA
1 TT--AA-TATA-AAATATA
*
769540 TT-ATAT-ATATATA
1 TTAATATAAAATATA
*
769553 TAAATATAAAA
1 TTAATATAAAA
769564 ACATTTTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
13 12 0.21
14 17 0.30
15 14 0.25
16 3 0.05
17 3 0.05
19 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAATATAAAATATA
Found at i:769534 original size:19 final size:21
Alignment explanation
Indices: 769510--769560 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
769500 AAATATATTA
*
769510 ATATAAATATTTTA-AAAT-T
1 ATATAAATATATTATAAATAT
*
769529 ATATAAATATATTATATATAT
1 ATATAAATATATTATAAATAT
769550 ATATAAATATA
1 ATATAAATATA
769561 AAAACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
20 3 0.11
21 12 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATAAATATATTATAAATAT
Found at i:769535 original size:10 final size:11
Alignment explanation
Indices: 769504--769559 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 11
769494 AATATAAAAT
769504 ATATTAATATAA
1 ATATT-ATATAA
769516 ATATT-T-TAA
1 ATATTATATAA
769525 A-ATTATATAA
1 ATATTATATAA
*
769535 ATA-TAT-TAT
1 ATATTATATAA
769544 ATATATATATAA
1 ATAT-TATATAA
769556 ATAT
1 ATAT
769560 AAAAACATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
8 3 0.08
9 10 0.28
10 8 0.22
11 4 0.11
12 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATTATATAA
Found at i:770876 original size:21 final size:21
Alignment explanation
Indices: 770850--770897 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
770840 AGGTTCTCTC
**
770850 TTGATGCAGGGAGGATGTCAT
1 TTGATGCAGCAAGGATGTCAT
*
770871 TTGATGCCGCAAGGATGTCAT
1 TTGATGCAGCAAGGATGTCAT
*
770892 TAGATG
1 TTGATG
770898 ACCCAAGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.29
Consensus pattern (21 bp):
TTGATGCAGCAAGGATGTCAT
Found at i:770904 original size:21 final size:21
Alignment explanation
Indices: 770861--770905 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
770851 TGATGCAGGG
*
770861 AGGATGTCATTTGATGCCGCA
1 AGGATGTCATTAGATGCCGCA
770882 AGGATGTCATTAGATGACC-CA
1 AGGATGTCATTAGATG-CCGCA
770903 AGG
1 AGG
770906 TATTCTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (21 bp):
AGGATGTCATTAGATGCCGCA
Found at i:782125 original size:22 final size:20
Alignment explanation
Indices: 782071--782125 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
782061 AACTCTTTTA
782071 TTTGGAAAATCTTACCTTATT
1 TTTGG-AAATCTTACCTTATT
* *
782092 TAATAGAAATCTTACCTTATT
1 T-TTGGAAATCTTACCTTATT
782113 GCTTTGGAAATCT
1 --TTTGGAAATCT
782126 CTTTTATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 16 0.59
22 10 0.37
23 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (20 bp):
TTTGGAAATCTTACCTTATT
Found at i:783056 original size:20 final size:21
Alignment explanation
Indices: 783033--783075 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
783023 ATTGTGAGAG
783033 TTTT-TTTAATACATT-AATTT
1 TTTTATTTAATA-ATTAAATTT
*
783053 TTTTATTTTATAATTAAATTT
1 TTTTATTTAATAATTAAATTT
783074 TT
1 TT
783076 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATTTAATAATTAAATTT
Found at i:784748 original size:2 final size:2
Alignment explanation
Indices: 784741--784771 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
784731 GAGATTTTAA
*
784741 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
784772 AACATCAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:789868 original size:16 final size:16
Alignment explanation
Indices: 789847--789879 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
789837 GCCAAGAACC
789847 AAAAAGAAAAAAAAGG
1 AAAAAGAAAAAAAAGG
789863 AAAAAGAAAAAAAAGG
1 AAAAAGAAAAAAAAGG
789879 A
1 A
789880 GTTAGAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAGG
Found at i:792293 original size:12 final size:12
Alignment explanation
Indices: 792253--792294 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
792243 CACATTCTTC
792253 AAAATAATAAT-
1 AAAATAATAATG
792264 AATAATAATAATG
1 AA-AATAATAATG
*
792277 TAAAATATTAATG
1 -AAAATAATAATG
792290 AAAAT
1 AAAAT
792295 TGTAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 2 0.07
12 14 0.52
13 9 0.33
14 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (12 bp):
AAAATAATAATG
Found at i:798775 original size:3 final size:3
Alignment explanation
Indices: 798767--798810 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
798757 ATACTCTATG
798767 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
798811 TTATTAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:799120 original size:37 final size:37
Alignment explanation
Indices: 799079--799157 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
799069 CAATAATATG
* *
799079 TAGAAGGGACTCATTTCCAAATTCAACAATCATAAAT
1 TAGAAAGGACTCATTTCCAAATTCAACAATCATAAAA
* *
799116 TAGAAAGGACTCATTTCCAATTTCTACAATCATAAAA
1 TAGAAAGGACTCATTTCCAAATTCAACAATCATAAAA
799153 TAGAA
1 TAGAA
799158 TTTGGAAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (37 bp):
TAGAAAGGACTCATTTCCAAATTCAACAATCATAAAA
Found at i:805283 original size:2 final size:2
Alignment explanation
Indices: 805276--805319 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
805266 CTAAGAGGGT
805276 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
805318 TA
1 TA
805320 AAATTTAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:807874 original size:2 final size:2
Alignment explanation
Indices: 807863--807892 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
807853 TGACTTAAAG
807863 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
807893 TAACATCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:812625 original size:2 final size:2
Alignment explanation
Indices: 812613--812651 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
812603 AGGTGCTACT
* *
812613 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
812652 TCCTAAGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:813048 original size:28 final size:27
Alignment explanation
Indices: 812987--813075 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 27
812977 CTAAAATAAT
812987 ATTTAT-TATAAAAAATGTAATATAACATTTA
1 ATTTATAT-TAAAAAA--TAATAT-A-ATTTA
*
813018 ATTTTTATTAAAATAATAATATAATTTA
1 ATTTATATTAAAA-AATAATATAATTTA
*
813046 A-TTATATTAAAAAATTATATTAATATTA
1 ATTTATATTAAAAAATAATA-TAAT-TTA
813074 AT
1 AT
813076 AATATGTATC
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
26 6 0.12
27 14 0.28
28 10 0.20
29 1 0.02
30 6 0.12
31 10 0.20
32 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
ATTTATATTAAAAAATAATATAATTTA
Found at i:825995 original size:2 final size:2
Alignment explanation
Indices: 825988--826017 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
825978 GGGCTTCTTT
825988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
826018 AATGAGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:830470 original size:2 final size:2
Alignment explanation
Indices: 830463--830494 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
830453 TTTTAGTGAT
830463 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
830495 GTATAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:834121 original size:24 final size:24
Alignment explanation
Indices: 834093--834138 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
834083 GAGAATATGG
834093 CTTATTAAAATAATCCAATATCGC
1 CTTATTAAAATAATCCAATATCGC
*
834117 CTTATTAAAATAATTCAATATC
1 CTTATTAAAATAATCCAATATC
834139 TAAACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (24 bp):
CTTATTAAAATAATCCAATATCGC
Found at i:849243 original size:24 final size:25
Alignment explanation
Indices: 849190--849245 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
849180 ATTTATATGC
* *
849190 AAAT-AAATATTTTAAATATTTATT
1 AAATAAAATATTTTAAATATTAAAT
**
849214 GTATAAAAT-TTTTAAATATTAAAT
1 AAATAAAATATTTTAAATATTAAAT
849238 AAATAAAA
1 AAATAAAA
849246 AATAAAAGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AAATAAAATATTTTAAATATTAAAT
Found at i:849729 original size:3 final size:3
Alignment explanation
Indices: 849721--849747 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
849711 CTCTGTTTAT
849721 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
849748 TAAAAGTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:850402 original size:2 final size:2
Alignment explanation
Indices: 850395--850426 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
850385 CTTCAACACA
850395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
850427 GCTGCTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:852234 original size:2 final size:2
Alignment explanation
Indices: 852227--852262 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
852217 TTACACATAC
852227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
852263 GAAAGGTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:852503 original size:24 final size:24
Alignment explanation
Indices: 852452--852503 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
852442 AGTTTTGGTT
*
852452 TTATATTTTTATTATATAAAGTTT
1 TTATATTTTTATTATATAAAGTTA
852476 TTATATTTTTAATTAT-TGAAA-TTA
1 TTATATTTTT-ATTATAT-AAAGTTA
852500 TTAT
1 TTAT
852504 CAGTTACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTATATTTTTATTATATAAAGTTA
Found at i:852670 original size:2 final size:2
Alignment explanation
Indices: 852663--852689 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
852653 ATTTCTTTGC
852663 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
852690 AGGTAAGTTA
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:853861 original size:17 final size:18
Alignment explanation
Indices: 853839--853875 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
853829 TATTGTTGTA
853839 TTTATATTGTATT-TATT
1 TTTATATTGTATTATATT
853856 TTTATATTGTATTATATT
1 TTTATATTGTATTATATT
853874 TT
1 TT
853876 AATTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATATTGTATTATATT
Found at i:854269 original size:17 final size:18
Alignment explanation
Indices: 854243--854289 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
854233 ACGACCATAA
*
854243 TTTATTAATTAT-ATATT
1 TTTATAAATTATGATATT
*
854260 TTTATAAATTTTGATATT
1 TTTATAAATTATGATATT
* *
854278 TTAATAATTTAT
1 TTTATAAATTAT
854290 TTTATATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTATAAATTATGATATT
Found at i:854291 original size:31 final size:32
Alignment explanation
Indices: 854247--854308 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
854237 CCATAATTTA
* * *
854247 TTAATTATATATTTT-TATAAATTTTGATATT
1 TTAATAATATATTTTATATAAAATTTAATATT
*
854278 TTAATAATTTATTTTATATAAAATTTAATAT
1 TTAATAATATATTTTATATAAAATTTAATAT
854309 ATATACCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (32 bp):
TTAATAATATATTTTATATAAAATTTAATATT
Found at i:854512 original size:26 final size:25
Alignment explanation
Indices: 854492--854543 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
854482 TTTTATTATT
854492 TTGATAAAATAATATTATTTAATTTA
1 TTGATAAAATAA-ATTATTTAATTTA
* *
854518 TTGATAAATTAAATTA-TTAATATA
1 TTGATAAAATAAATTATTTAATTTA
854542 TT
1 TT
854544 AAATATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 4 0.17
26 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
TTGATAAAATAAATTATTTAATTTA
Found at i:861757 original size:2 final size:2
Alignment explanation
Indices: 861752--861786 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
861742 AATTGTCTGT
861752 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
861787 TACTTTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:876012 original size:2 final size:2
Alignment explanation
Indices: 876005--876034 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
875995 ATGACACCCA
876005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
876035 GTAAAAGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:877992 original size:2 final size:2
Alignment explanation
Indices: 877985--878011 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
877975 GATCAGTTTC
877985 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
878012 CAATGGAGAA
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:878181 original size:2 final size:2
Alignment explanation
Indices: 878174--878198 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
878164 AGAAGTCAAA
878174 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
878199 TTGCTTTAAC
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:880466 original size:1 final size:1
Alignment explanation
Indices: 880462--880488 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
880452 CTTTTTCACG
880462 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
880489 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:882199 original size:30 final size:29
Alignment explanation
Indices: 882127--882209 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
882117 AAACTTATAT
*
882127 AAATAATATATTTATTTTTTTAAGATTTAA
1 AAATAATATATTTA-TTTTTTAAAATTTAA
* *
882157 AAATTATTTATTTATTTTTTAAAATTTAA
1 AAATAATATATTTATTTTTTAAAATTTAA
* *
882186 TCAAA-AATATATTTACTATTTAAA
1 --AAATAATATATTTATTTTTTAAA
882210 TTATTATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 14 0.32
30 27 0.61
31 3 0.07
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (29 bp):
AAATAATATATTTATTTTTTAAAATTTAA
Found at i:882533 original size:8 final size:8
Alignment explanation
Indices: 882520--882560 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
882510 GAAATTAGTT
882520 AAAAAATA
1 AAAAAATA
882528 AAAAAATA
1 AAAAAATA
882536 AAAAAATTA
1 AAAAAA-TA
* *
882545 AACATATA
1 AAAAAATA
882553 AAAAAATA
1 AAAAAATA
882561 TTTTATCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAAATA
Found at i:882546 original size:17 final size:17
Alignment explanation
Indices: 882520--882559 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
882510 GAAATTAGTT
882520 AAAAAA-TAAAAAAATA
1 AAAAAATTAAAAAAATA
* *
882536 AAAAAATTAAACATATA
1 AAAAAATTAAAAAAATA
882553 AAAAAAT
1 AAAAAAT
882560 ATTTTATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAATTAAAAAAATA
Found at i:882741 original size:11 final size:11
Alignment explanation
Indices: 882727--882751 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
882717 TAAAAATAAC
882727 ATAATATATTA
1 ATAATATATTA
882738 ATAATATATTA
1 ATAATATATTA
882749 ATA
1 ATA
882752 TCAAAGTTAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATATATTA
Found at i:882975 original size:18 final size:18
Alignment explanation
Indices: 882938--882974 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
882928 ATGAAAATTT
*
882938 AATTAAAAATAATTTTAA
1 AATTAAAAATAATTTAAA
882956 AATTAAAAAT-ATTTAAA
1 AATTAAAAATAATTTAAA
882973 AA
1 AA
882975 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTAAAAATAATTTAAA
Found at i:883299 original size:12 final size:12
Alignment explanation
Indices: 883275--883307 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
883265 TCAAAATATT
883275 ATTATTT-TTAA
1 ATTATTTATTAA
883286 ATTATTTATTAA
1 ATTATTTATTAA
883298 ATTA-TTATTA
1 ATTATTTATTA
883308 TTTTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATTTATTAA
Found at i:884035 original size:89 final size:89
Alignment explanation
Indices: 883880--884059 Score: 342
Period size: 89 Copynumber: 2.0 Consensus size: 89
883870 GTAAATATGC
*
883880 AACCCAAATAGAACTAGATTGAAAATAGACGAATAATGATATTGGCCGACATGCACTGAAAATTA
1 AACCCAAATAGAACTAGATTGAAAATAGACGAATAATGATACTGGCCGACATGCACTGAAAATTA
883945 TACAGTAAAATTATCACAATGTTG
66 TACAGTAAAATTATCACAATGTTG
*
883969 AACCCAAATAGAACTAGATTGAAAATAGACGAATAATGATACTGGCCGACATGCACTGAAAGTTA
1 AACCCAAATAGAACTAGATTGAAAATAGACGAATAATGATACTGGCCGACATGCACTGAAAATTA
884034 TACAGTAAAATTATCACAATGTTG
66 TACAGTAAAATTATCACAATGTTG
884058 AA
1 AA
884060 TGTGGATTGT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (89 bp):
AACCCAAATAGAACTAGATTGAAAATAGACGAATAATGATACTGGCCGACATGCACTGAAAATTA
TACAGTAAAATTATCACAATGTTG
Found at i:885229 original size:2 final size:2
Alignment explanation
Indices: 885224--885259 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
885214 TCTAATGCTC
*
885224 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
885260 TTATTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:885401 original size:2 final size:2
Alignment explanation
Indices: 885394--885432 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
885384 CTTCTTAATT
885394 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
885433 TCACTTTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:886559 original size:33 final size:32
Alignment explanation
Indices: 886522--886606 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 32
886512 AGCAAGCAGG
*
886522 GAGAAGAAGGTCGAGGAGATGACAAGTAGCAA
1 GAGAAGAAGGTCGAGGAGATGACAACTAGCAA
* *
886554 -AG-AGAAGGTCGAAGACATGACAACTAGCAAA
1 GAGAAGAAGGTCGAGGAGATGACAACTAGC-AA
* * *
886585 GAGAATAAGGTTGAGGTGATGA
1 GAGAAGAAGGTCGAGGAGATGA
886607 AGGAAAGTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
30 23 0.55
31 4 0.10
32 2 0.05
33 13 0.31
ACGTcount: A:0.44, C:0.09, G:0.34, T:0.13
Consensus pattern (32 bp):
GAGAAGAAGGTCGAGGAGATGACAACTAGCAA
Found at i:886560 original size:30 final size:30
Alignment explanation
Indices: 886526--886589 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
886516 AGCAGGGAGA
* * *
886526 AGAAGGTCGAGGAGATGACAAGTAGCAAAG
1 AGAAGGTCGAAGACATGACAACTAGCAAAG
886556 AGAAGGTCGAAGACATGACAACTAGCAAAG
1 AGAAGGTCGAAGACATGACAACTAGCAAAG
886586 AGAA
1 AGAA
886590 TAAGGTTGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.47, C:0.12, G:0.31, T:0.09
Consensus pattern (30 bp):
AGAAGGTCGAAGACATGACAACTAGCAAAG
Found at i:889251 original size:23 final size:23
Alignment explanation
Indices: 889212--889282 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
889202 GCTTTGTAAT
* *
889212 TTAATTTAATTTA-TTATGATTTC
1 TTAA-TTATTTTATTTATGATTTA
*
889235 TTAATTATTTTATTTATTATTTA
1 TTAATTATTTTATTTATGATTTA
*
889258 TTATATATTTTTTATTT-T-ATTTA
1 TTA-AT-TATTTTATTTATGATTTA
889281 TT
1 TT
889283 TTATTGTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 7 0.17
23 22 0.54
24 3 0.07
25 9 0.22
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (23 bp):
TTAATTATTTTATTTATGATTTA
Found at i:889282 original size:9 final size:9
Alignment explanation
Indices: 889239--889287 Score: 55
Period size: 9 Copynumber: 5.1 Consensus size: 9
889229 GATTTCTTAA
889239 TTATTTTAT
1 TTATTTTAT
889248 TTATTATTTAT
1 TTA-T-TTTAT
889259 TATATATTT-T
1 T-TAT-TTTAT
889269 TTATTTTAT
1 TTATTTTAT
889278 TTATTTTAT
1 TTATTTTAT
889287 T
1 T
889288 GTGTATTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 3 0.08
9 17 0.47
10 3 0.08
11 11 0.31
12 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTAT
Found at i:889284 original size:14 final size:14
Alignment explanation
Indices: 889239--889287 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
889229 GATTTCTTAA
889239 TTATTTTATTTATTAT
1 TTATTTTATTTA-T-T
*
889255 TTATTATATATT-TT
1 TTATTTTAT-TTATT
889269 TTATTTTATTTATT
1 TTATTTTATTTATT
889283 TTATT
1 TTATT
889288 GTGTATTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 2 0.07
14 16 0.55
15 1 0.03
16 8 0.28
17 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTTATTTATT
Found at i:889347 original size:45 final size:44
Alignment explanation
Indices: 889260--889347 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 44
889250 ATTATTTATT
* * *
889260 ATATATTTTTTATTTTATTTATTTTATTGTGTATTAAGATTGTA
1 ATATATTTTTTATTTTATTTATATTATTATGTATTAAAATTGTA
889304 ATATATTTATTTATTTTATTTTTATATTATTAT-TA-TAAAATTGT
1 ATATATTT-TTTATTTTA--TTTATATTATTATGTATTAAAATTGT
889348 TTTTCATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
44 8 0.21
45 17 0.45
46 2 0.05
47 11 0.29
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (44 bp):
ATATATTTTTTATTTTATTTATATTATTATGTATTAAAATTGTA
Found at i:901459 original size:84 final size:84
Alignment explanation
Indices: 901158--901459 Score: 305
Period size: 85 Copynumber: 3.6 Consensus size: 84
901148 GAAACCTTGG
*
901158 TGGAGGAGTTTTTACAAATTTTAAAGTTG-ATGCCTTAGTA-AATGAGTTTTCTTGTTTGGAAAA
1 TGGAGGAGTTTTTACAAATTTTAAAGTTGAAT-CCTCAGTAGAA-GAGTTTTCTTGTTTGGAAAA
* **
901221 TATTTAAATTTGAAGCCTCGA
64 TATTTAAAGTTGAAGTTTCGA
* * * ***
901242 TGGGGGGAGTTTTTACAAATTTTAAAGTTGAAGCCTC-GATAGAAGAGTTTT-TATTTTTCTTCA
1 T-GGAGGAGTTTTTACAAATTTTAAAGTTGAATCCTCAG-TAGAAGAGTTTTCT-TGTTT-GGAA
* * *
901305 AATTTTTAATGTTGAAGTCTT-GG
62 AATATTTAAAGTTGAAGT-TTCGA
* * *
901328 TGAAGGAGTTTTTACAAATTTTAAAGTTGATAT-CTCAATAGAGGAGTTTTCTTGTTTGGAAAAT
1 TGGAGGAGTTTTTACAAATTTTAAAGTTGA-ATCCTCAGTAGAAGAGTTTTCTTGTTTGGAAAAT
901392 ATTTAAAGTTGAAGTTTCGA
65 ATTTAAAGTTGAAGTTTCGA
*
901412 TGGAGAAGTTTTTA-AAACTTTTAAAGTTGAATCCTCAGT-GAAAGAGTT
1 TGGAGGAGTTTTTACAAA-TTTTAAAGTTGAATCCTCAGTAG-AAGAGTT
901460 ATTTCAAAAG
Statistics
Matches: 175, Mismatches: 29, Indels: 28
0.75 0.12 0.12
Matches are distributed among these distances:
83 8 0.05
84 56 0.32
85 88 0.50
86 22 0.13
87 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (84 bp):
TGGAGGAGTTTTTACAAATTTTAAAGTTGAATCCTCAGTAGAAGAGTTTTCTTGTTTGGAAAATA
TTTAAAGTTGAAGTTTCGA
Found at i:901470 original size:32 final size:32
Alignment explanation
Indices: 901434--901503 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
901424 TAAAACTTTT
* *
901434 AAAGTTGAATCCTCAGTGAAAGAGTTATTTCA
1 AAAGTTGAAGCCTCAGTGAAAGAGTTATTACA
** * *
901466 AAAGTTGAAGCCTTGGTGGAGGAGTTATTACA
1 AAAGTTGAAGCCTCAGTGAAAGAGTTATTACA
901498 AAAGTT
1 AAAGTT
901504 AAAACCTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (32 bp):
AAAGTTGAAGCCTCAGTGAAAGAGTTATTACA
Found at i:924251 original size:2 final size:2
Alignment explanation
Indices: 924244--924272 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
924234 TGAATTCCAT
924244 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
924273 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:924451 original size:2 final size:2
Alignment explanation
Indices: 924444--924487 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
924434 GCAGAAAACC
924444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
924486 AT
1 AT
924488 GTCTGGATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:926607 original size:20 final size:20
Alignment explanation
Indices: 926582--926620 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
926572 TCACATCGTT
926582 AGAAAACAACTAATGTGGTA
1 AGAAAACAACTAATGTGGTA
926602 AGAAAACAACTAATGTGGT
1 AGAAAACAACTAATGTGGT
926621 CCTATAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.21
Consensus pattern (20 bp):
AGAAAACAACTAATGTGGTA
Found at i:932326 original size:34 final size:33
Alignment explanation
Indices: 932257--932475 Score: 240
Period size: 34 Copynumber: 6.5 Consensus size: 33
932247 TACTATCGGC
*
932257 TGTTGATTAAATGGTGATTTGGTAGTTTATCAT
1 TGTTGATTAAATGGTGATTTGGTAGTTTACCAT
* * * *
932290 TGTTGATTAAATGAGTGTTTTGGTGGTTTGCTAT
1 TGTTGATTAAATG-GTGATTTGGTAGTTTACCAT
* * *
932324 TGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
**
932358 TGTTGATTAAATGAGAAATTTGGTAGTTTACCAT
1 TGTTGATTAAATG-GTGATTTGGTAGTTTACCAT
* * *
932392 TATTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
* * *
932426 TGTTGACTAAATGGTAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGT-GATTTGGTAGTTTACCAT
*
932460 TATTGATTAAATGGTG
1 TGTTGATTAAATGGTG
932476 GTTTTTACCA
Statistics
Matches: 154, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
33 18 0.12
34 134 0.87
35 2 0.01
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.42
Consensus pattern (33 bp):
TGTTGATTAAATGGTGATTTGGTAGTTTACCAT
Found at i:932365 original size:68 final size:68
Alignment explanation
Indices: 932259--932473 Score: 274
Period size: 68 Copynumber: 3.2 Consensus size: 68
932249 CTATCGGCTG
* * * *
932259 TTGATTAAAT-GGTGATTTGGTAGTTTATCATTGTTGATTAAATGAGTGTTTTGGTGGTTTGCTA
1 TTGATTAAATGGGTGATTTGGTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTGCCA
*
932323 TTG
66 TTA
* * ** * *
932326 TTGACTAAATGGGAGATTTGGTAGCTTACCATTGTTGATTAAATGAGAAATTTGGTAGTTTACCA
1 TTGATTAAATGGGTGATTTGGTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTGCCA
932391 TTA
66 TTA
* *
932394 TTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATG-GTAGATTTGGTAGG-TTGC
1 TTGATTAAATGGGTGATTTGGTAGCTTACCATTGTTGATTAAATGAGT-GATTTGGT-GGTTTGC
932457 CATTA
64 CATTA
932462 TTGATTAAATGG
1 TTGATTAAATGG
932474 TGGTTTTTAC
Statistics
Matches: 126, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
67 10 0.08
68 115 0.91
69 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.42
Consensus pattern (68 bp):
TTGATTAAATGGGTGATTTGGTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTGCCA
TTA
Found at i:932387 original size:102 final size:101
Alignment explanation
Indices: 932257--932473 Score: 308
Period size: 102 Copynumber: 2.1 Consensus size: 101
932247 TACTATCGGC
** * * * * * *
932257 TGTTGATTAAATGGTGATTTGGTAGTTTATCATTGTTGATTAAATGAGTGTTTTGGTGGTTTGCT
1 TGTTGATTAAATGGAAATTTGGTAGTTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTACC
932322 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
*
932358 TGTTGATTAAATGAGAAATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATG-GAAATTTGGTAGTTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTAC
* * *
932423 CATTGTTGACTAAATGGTAGATTTGGTAGGTTGCCAT
65 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
*
932460 TATTGATTAAATGG
1 TGTTGATTAAATGG
932474 TGGTTTTTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 14 0.14
102 88 0.86
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.42
Consensus pattern (101 bp):
TGTTGATTAAATGGAAATTTGGTAGTTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTACC
ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:936927 original size:34 final size:34
Alignment explanation
Indices: 936865--937083 Score: 289
Period size: 34 Copynumber: 6.5 Consensus size: 34
936855 AAGTGGGAGA
*
936865 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
936898 ATTGTTGATTAAATGGGTGTTTTGGTAGTTTTCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
936932 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
936966 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
937000 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
937034 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
937068 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
937084 TGGTTTTTAC
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
33 17 0.10
34 144 0.89
35 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:937040 original size:102 final size:101
Alignment explanation
Indices: 936865--937083 Score: 330
Period size: 102 Copynumber: 2.2 Consensus size: 101
936855 AAGTGGGAGA
** * * * * *
936865 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGTTTTGGTAGTTTT
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTAGCTTA
936930 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
*
936966 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTAGCTT
* * *
937031 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
937068 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
937084 TGGTTTTTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 16 0.15
102 90 0.85
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.42
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTAGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:938624 original size:21 final size:21
Alignment explanation
Indices: 938598--938649 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
938588 AAAAATGTAT
938598 TTGGATGAAATG-ATGCATTGA
1 TTGGATGAAA-GAATGCATTGA
**
938619 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAGAATGCATTGA
938640 TTGGATGAAA
1 TTGGATGAAA
938650 AGATATAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (21 bp):
TTGGATGAAAGAATGCATTGA
Found at i:944039 original size:60 final size:60
Alignment explanation
Indices: 943818--944281 Score: 577
Period size: 61 Copynumber: 7.5 Consensus size: 60
943808 CTCTTTTAGC
* * *
943818 CCTTCTAGTCCTTAAAGAGCAGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
943879 CCCTTTCGTCTTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
943940 CTTTTCTAGTCTTCAAAGAGCATGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 C-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
944002 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
944062 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAACCCACACGAGTTAGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
944123 CCTTTAGTCCTTAAAGAGCAGGACGATTTTTTCTTTTTCTTTTTAAAGCTCACACAAGTTTGTGA
1 CCTTTAGTCCTCAAAGAGCAGGACG-------CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
944188 CA
59 CA
* * * *
944190 CTTTTAGTCCTCAAAGAGTATGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
944250 CCTCCTAGTCCTCAAAGAGCAGGACGCACTTT
1 CCT-TTAGTCCTCAAAGAGCAGGACGC-CTTT
944282 ATTCCCCTTT
Statistics
Matches: 350, Mismatches: 40, Indels: 24
0.85 0.10 0.06
Matches are distributed among these distances:
60 108 0.31
61 133 0.38
62 60 0.17
67 49 0.14
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:944374 original size:298 final size:284
Alignment explanation
Indices: 944029--944596 Score: 707
Period size: 298 Copynumber: 1.9 Consensus size: 284
944019 GCAGGACGCC
*
944029 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCT
* * * *
944094 CCTTTTAAAACCCACACGAGTTAGTGGCACCTT-TAGTCCTTAAAGAGCAGGACGATTTTTTCTT
66 CC-TTCAAAACCCACACGAGTTAGTGGCACCTTGCAATCCTCAAAGAGCAGGACG-------C--
* * * * **
944158 TTTCTTTTTAAAGCTCACACAAGTTTGTGACA-CTTTTAGTCCTCAAAGAGTATGACGCCTTTTC
121 ---C-TTTTAAAGCGCACACAAGTTGGTGACACCTTTTAGTCCTCAAAGAGCAGGACAAC--TT-
*
944222 CTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCACT-T-TATT
179 -TTT-AAAGCCCACACAAATTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCACTCTCT-TT
944285 C-CCCTTT-GTCCTCAAAGAGCAAGACGCACTTCATTTCCTTAT
241 CGCCCTTTAGTCCTCAAAGAGCAAGACGCACTTCATTTCCTTAT
* *
944327 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTCT
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCT
* * *
944392 CCTTCAAAGCCCACACGAGTTAGTGGCATCTTGCAATCCTCGAAGAGCAGGACGCCTTTTAAAGC
66 CCTTCAAAACCCACACGAGTTAGTGGCACCTTGCAATCCTCAAAGAGCAGGACGCCTTTTAAAGC
*
944457 GCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACAACTTTTTAAAGCCCACACAAA
131 GCACACAAGTTGGTGACACCTTTTAGTCCTCAAAGAGCAGGACAACTTTTTAAAGCCCACACAAA
* * *
944522 TTGGTGGTACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCCTTTAGTCCTCAAAG
196 TTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCACTCT-CTTTCGCCCTTTAGTCCTCAAAG
*
944587 AGCAGGACGC
260 AGCAAGACGC
944597 CTTTTAAAGC
Statistics
Matches: 241, Mismatches: 22, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
281 49 0.20
282 4 0.02
283 3 0.01
284 9 0.04
285 43 0.18
286 24 0.10
291 1 0.00
297 27 0.11
298 81 0.34
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (284 bp):
TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCT
CCTTCAAAACCCACACGAGTTAGTGGCACCTTGCAATCCTCAAAGAGCAGGACGCCTTTTAAAGC
GCACACAAGTTGGTGACACCTTTTAGTCCTCAAAGAGCAGGACAACTTTTTAAAGCCCACACAAA
TTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCACTCTCTTTCGCCCTTTAGTCCTCAAAGA
GCAAGACGCACTTCATTTCCTTAT
Found at i:944540 original size:56 final size:55
Alignment explanation
Indices: 944331--944555 Score: 247
Period size: 56 Copynumber: 4.0 Consensus size: 55
944321 CCTTATTTTT
* *
944331 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC-A
* * * * * *
944387 CTTCTCCTTCAAAGCCCACACGAGTTAGTGGCATCTTGC-AATCCTCGAAGAGCAGGACG
1 CTT-T--TT-AAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACA
* * *
944446 CCTTTTAAAGCGCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACAA
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC-A
* *
944502 CTTTTTAAAGCCCACACAAATTGGTGGTA-CTTCCTAGTCCTCAAAGAGCAGGAC
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGAC
944556 GCTCTCTCCT
Statistics
Matches: 140, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
55 43 0.31
56 50 0.36
57 1 0.01
58 1 0.01
59 4 0.03
60 41 0.29
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (55 bp):
CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACA
Found at i:944663 original size:95 final size:95
Alignment explanation
Indices: 944478--944649 Score: 283
Period size: 95 Copynumber: 1.8 Consensus size: 95
944468 GGTGGCACCT
* *
944478 TTTAGTCCTCAAAGAGCAGGACAACTTTTTAAAGCCCACACAAATTGGTGGTACTTCCTAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACAACCTTTTAAAGCCCACACAAATTGGTGGCACTTCCTAGTCCT
944543 CAAAGAGCAGGACGCTCTCTCCTTTCGCCC
66 CAAAGAGCAGGACGCTCTCTCCTTTCGCCC
* * *
944573 TTTAGTCCTCAAAGAGCAGGAC-GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCC
1 TTTAGTCCTCAAAGAGCAGGACAACCTTTTAAAGCCCACACAAATTGGTGGCAC-TTCCTAGTCC
944637 TCAAAGAGCAGGA
65 TCAAAGAGCAGGA
944650 TGCCTTTTTC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
94 27 0.38
95 44 0.62
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (95 bp):
TTTAGTCCTCAAAGAGCAGGACAACCTTTTAAAGCCCACACAAATTGGTGGCACTTCCTAGTCCT
CAAAGAGCAGGACGCTCTCTCCTTTCGCCC
Found at i:944717 original size:150 final size:145
Alignment explanation
Indices: 944428--944719 Score: 370
Period size: 150 Copynumber: 1.9 Consensus size: 145
944418 CATCTTGCAA
* *
944428 TCCTCGAAGAGCAGGACGCCTTTTAAAGCGCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA
*
944493 GCAGGACAACTTTTTAAAGCCCACACAAATTGGTGGTACTTCCTAGTCCTCAAAGAGCAGGACGC
66 GCAGGACAACTTTTTAAAGCCCACACAAATTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG-
944558 TCTCTCCTTTCGCCCTTTAG
130 ---C-CCTTTCGCCCTTTAG
*
944578 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAG
*** * **
944643 AGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTCAGTCCTCAAAGAGC
65 AGCAGGA---CAACTT-TTT-AAAGCCCACACAAATTGGTGGCACTTCCT-AGTCCTCAAAGAGC
*
944707 AGGACGCCTTTTC
124 AGGACGCCCTTTC
944720 CTTGCAAAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
150 49 0.40
151 24 0.19
152 1 0.01
154 3 0.02
155 6 0.05
156 41 0.33
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (145 bp):
TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA
GCAGGACAACTTTTTAAAGCCCACACAAATTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGC
CCTTTCGCCCTTTAG
Found at i:944728 original size:61 final size:61
Alignment explanation
Indices: 944576--945144 Score: 560
Period size: 61 Copynumber: 9.5 Consensus size: 61
944566 TTCGCCCTTT
* *
944576 AGTCCTCAAAGAGCAGGACGCC--TT--TT--AAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
* *
944631 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 -AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
* *
944693 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTGCAAAGCCCACATAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * * * * *
944754 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTCCGAAGCTCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
* ** * * *
944815 AGTTCTCAAAGAGCAGGATGTTTTTTCTTTGCAAAGCCCACACGAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * * * *
944876 AATCCTCAAAGAGCAGGACG-C--AT--TT-CAAAGCCCACACGAGTTGGTGACATTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * ** * * ** **
944931 TAGTCCTTAAAGAGCAGAATG-CTTTCTCCTTTTAAAGACCACTCGTGTTGGTGGCA-CCTTC
1 -AGTCCTCAAAGAGCAGGATGCCTTT-TCCTTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * * **
944992 TAGTCCTCAAAGAGCATGATG-C-TTTCACTTTGCAAAGCCCACACAAATTGGTTGCACCTTTC
1 -AGTCCTCAAAGAGCAGGATGCCTTTTC-C-TTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * * * *
945054 AGTCCTCAAAGAGCAGGATGTCTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACTTTTT-
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA-TTTTTC
*
945115 AGTCTTCAAAGAGCAGGATGCCTTTTCCTT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTT
945145 TTCTCATTTG
Statistics
Matches: 429, Mismatches: 65, Indels: 33
0.81 0.12 0.06
Matches are distributed among these distances:
55 28 0.07
56 40 0.09
58 3 0.01
59 3 0.01
60 5 0.01
61 291 0.68
62 55 0.13
63 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCATTTTTC
Found at i:945126 original size:300 final size:300
Alignment explanation
Indices: 944578--945134 Score: 732
Period size: 300 Copynumber: 1.9 Consensus size: 300
944568 CGCCCTTTAG
* * *
944578 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1 TCCTCAAAGAGCAGGACGCATTTCAAAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTCAAAG
* * * * *
944643 AGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCA
66 AGCAGAATGCCTTTTCCTTTCAAAGACCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCA
* * **
944708 GGACGCCTTTTCCTTGCAAAGCCCACATAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGAC
131 GGACGCCTTTTCCTTGCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
* * *
944773 GCCTTTTTCTTCCGAAGCTCACACAAGTTGGTGGCATTTTCCAGTTCTCAAAGAGCAGGATGTTT
196 GCCTTTTTCTTCCAAAGCCCACACAAGTTGATGGCATTTTCCAGTTCTCAAAGAGCAGGATGTTT
944838 TTTCTTTGCAAAGCCCACACGAGTTGGTGGCATTTTCCAA
261 TTTCTTTGCAAAGCCCACACGAGTTGGTGGCATTTTCCAA
* * *
944878 TCCTCAAAGAGCAGGACGCATTTCAAAGCCCACACGAGTTGGTGACATTTTTCTAGTCCTTAAAG
1 TCCTCAAAGAGCAGGACGCATTTCAAAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTCAAAG
* * **
944943 AGCAGAATG-CTTTCTCCTTTTAAAGACCACTCGTGTTGGTGGCACCTTCT-AGTCCTCAAAGAG
66 AGCAGAATGCCTTT-TCCTTTCAAAGACCACACAAGTTGGTGGCA-CTTCTCAGTCCTCAAAGAG
* * *
945006 CATGATG-C-TTTCACTTTGCAAAGCCCACACAAATTGGTTGCACCTTTCAGTCCTCAAAGAGCA
129 CAGGACGCCTTTTC-C-TTGCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAGAGCA
* * * * *
945069 GGATGTC-TTTTCTTTTCAAAGCCCACACGAGTTGATGGCACTTTT-TAG-TCTTCAAAGAGCAG
192 GGACGCCTTTTTC-TTCCAAAGCCCACACAAGTTGATGGCA-TTTTCCAGTTC-TCAAAGAGCAG
945131 GATG
254 GATG
945135 CCTTTTCCTT
Statistics
Matches: 220, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
298 4 0.02
299 13 0.06
300 196 0.89
301 7 0.03
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (300 bp):
TCCTCAAAGAGCAGGACGCATTTCAAAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTCAAAG
AGCAGAATGCCTTTTCCTTTCAAAGACCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCA
GGACGCCTTTTCCTTGCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
GCCTTTTTCTTCCAAAGCCCACACAAGTTGATGGCATTTTCCAGTTCTCAAAGAGCAGGATGTTT
TTTCTTTGCAAAGCCCACACGAGTTGGTGGCATTTTCCAA
Found at i:945219 original size:45 final size:45
Alignment explanation
Indices: 945142--945280 Score: 130
Period size: 45 Copynumber: 3.2 Consensus size: 45
945132 ATGCCTTTTC
* * * *
945142 CTTTTCTCATTTGTCTTCAAAAAGC-GGCACACATTTCATTTCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGG-ACACATTTCATTTCCTT
945187 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTT-ATTTTCC-T
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACA-TTTCA-TTTCCTT
* * *
945232 C-TTT--CTTTTGTCCTCAAAGAGCAGGACGCATCTCGTTCTCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCATT-TCCTT
945275 -TTTTCC
1 CTTTTCC
945281 TTTATCCTTG
Statistics
Matches: 78, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
41 4 0.05
42 28 0.36
43 4 0.05
44 3 0.04
45 29 0.37
46 10 0.13
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.41
Consensus pattern (45 bp):
CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT
Found at i:945364 original size:41 final size:41
Alignment explanation
Indices: 945308--945573 Score: 193
Period size: 41 Copynumber: 6.5 Consensus size: 41
945298 GGAAGTACTT
*
945308 TTTTTCACTTTGTCCTCAAAGAGCAAGACACTTTCCTTCTC
1 TTTTTCACTTTGTCCTCAAGGAGCAAGACACTTTCCTTCTC
* * *
945349 TTTTTCACTTTGTCCTTAAGGAGCAGGACACTTTCCATTTCTT
1 TTTTTCACTTTGTCCTCAAGGAGCAAGACACTTTCC--TTCTC
* * ** **** * *** * *
945392 TTTTTC-TTTTTTCCTTTATCCTCGAA-AAACAAGACGTACTC
1 TTTTTCACTTTGTCCTCAAGGAGC-AAGACAC-TTTCCTTCTC
* *
945433 TTTTTCACTTTGTCCTCAAGGAGCAGGACACTTTCTTTCTC
1 TTTTTCACTTTGTCCTCAAGGAGCAAGACACTTTCCTTCTC
* ** * *
945474 TTTTTCACTTCGTCCTTGAGGAGCATGACACTTTCCTTTTC
1 TTTTTCACTTTGTCCTCAAGGAGCAAGACACTTTCCTTCTC
*
945515 TTTTTTC-CTTTGTCCTCAAGGAGCAAGAC-CTACTTCATTCT-
1 -TTTTTCACTTTGTCCTCAAGGAGCAAGACACT--TTCCTTCTC
945556 TTTTTC-CTTTGTCCTCAA
1 TTTTTCACTTTGTCCTCAA
945574 AAAGTGGGGC
Statistics
Matches: 170, Mismatches: 46, Indels: 19
0.72 0.20 0.08
Matches are distributed among these distances:
40 20 0.12
41 101 0.59
42 37 0.22
43 12 0.07
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.43
Consensus pattern (41 bp):
TTTTTCACTTTGTCCTCAAGGAGCAAGACACTTTCCTTCTC
Found at i:945419 original size:125 final size:125
Alignment explanation
Indices: 945270--945525 Score: 395
Period size: 125 Copynumber: 2.0 Consensus size: 125
945260 CATCTCGTTC
* * * *
945270 TCCTTTTTTCCTTTATCCTTGAAAAGCAGGAAGTACTTTTTTTCACTTTGTCCTCAAAGAGCAAG
1 TCCTTTTTTCCTTTATCCTCGAAAAACAAGAAGTACTCTTTTTCACTTTGTCCTCAAAGAGCAAG
*
945335 ACACTTTCCTTCTCTTTTTCACTTTGTCCTTAAGGAGCAGGACACTTTCCATTTCTTTTT
66 ACACTTTCCTTCTCTTTTTCACTTCGTCCTTAAGGAGCAGGACACTTTCCATTTCTTTTT
* * * *
945395 TTCTTTTTTCCTTTATCCTCGAAAAACAAGACGTACTCTTTTTCACTTTGTCCTCAAGGAGCAGG
1 TCCTTTTTTCCTTTATCCTCGAAAAACAAGAAGTACTCTTTTTCACTTTGTCCTCAAAGAGCAAG
* * * *
945460 ACACTTTCTTTCTCTTTTTCACTTCGTCCTTGAGGAGCATGACACTTTCCTTTTCTTTTT
66 ACACTTTCCTTCTCTTTTTCACTTCGTCCTTAAGGAGCAGGACACTTTCCATTTCTTTTT
945520 TCCTTT
1 TCCTTT
945526 GTCCTCAAGG
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 117 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (125 bp):
TCCTTTTTTCCTTTATCCTCGAAAAACAAGAAGTACTCTTTTTCACTTTGTCCTCAAAGAGCAAG
ACACTTTCCTTCTCTTTTTCACTTCGTCCTTAAGGAGCAGGACACTTTCCATTTCTTTTT
Found at i:946246 original size:20 final size:20
Alignment explanation
Indices: 946221--946294 Score: 98
Period size: 20 Copynumber: 3.7 Consensus size: 20
946211 TTTACGCAGA
946221 TGTATCGATACATTTTACAT
1 TGTATCGATACATTTTACAT
946241 TGTATCGATACATTGCTT--AT
1 TGTATCGATACATT--TTACAT
* *
946261 TGTATCAATACATTTTACAA
1 TGTATCGATACATTTTACAT
946281 TGTATCGATACATT
1 TGTATCGATACATT
946295 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.04
20 43 0.91
22 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTTACAT
Found at i:948790 original size:52 final size:51
Alignment explanation
Indices: 948674--948793 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 51
948664 TTATTTTCGA
*
948674 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCAACAATC
* * * * * * *
948725 GGGGATATTCCAA-CTCTGATTTTATTTCTAAAACACTAATTTTTTAATAATC
1 GGGGATACTCCAACCCCAG-TTTTATTTCTAAAACACCAA-TTCTCAACAATC
948777 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
948794 GTTATTTCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 3 0.05
51 31 0.55
52 20 0.36
53 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCAACAATC
Found at i:948814 original size:28 final size:27
Alignment explanation
Indices: 948774--948850 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
948764 TTTTTTAATA
948774 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
* **
948801 CATCGGGGATACTCTAACCCTATTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
*
948829 -TCGAGGGGATATTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
948851 GCTTTATTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.05
28 38 0.95
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:948898 original size:51 final size:51
Alignment explanation
Indices: 948834--948951 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
948824 TATTTTCGAG
* *
948834 GGGATA-TTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCA
1 GGGATACTT-CAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATCA
* *
948885 GGGATACTTCAACCCCGACCTTATTTCTAAAATATTGATTTCTCATAATTA
1 GGGATACTTCAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATCA
948936 GGGATAC-TCTAACCCC
1 GGGATACTTC-AACCCC
948952 ATTATTTTCA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 2 0.03
51 57 0.93
52 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGATACTTCAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATCA
Found at i:948961 original size:159 final size:159
Alignment explanation
Indices: 948643--948972 Score: 389
Period size: 159 Copynumber: 2.1 Consensus size: 159
948633 ATTTTTCATA
* *
948643 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAC
* * * ** *
948708 ACCAATTCTCCACAATCGGGGATATTCCAACTCTGATTTTATTTCTAAAACACTAATTTTTTAAT
66 ACCAATTCTCCACAATCAGGGATATTCCAACCCCGACCTTATTTCTAAAACACTAATTTTCTAAT
* *
948773 AATCGGGGATACTCCAACCCCGTTATTTC
131 AATCAGGGATACTCCAACCCCATTATTTC
* * * * *
948802 ATCGGGGATACTCTAACCCTATTATTTTCGAGGGGATATTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAC
*** * * * *
948867 ATTGATT-TCTCACAATCAGGGATACTT-CAACCCCGACCTTATTTCTAAAATATTGA-TTTCTC
66 ACCAATTCTC-CACAATCAGGGATA-TTCCAACCCCGACCTTATTTCTAAAACACTAATTTTCTA
* *
948929 ATAATTAGGGATACTCTAACCCCATTATTTTC
129 ATAATCAGGGATACTCCAACCCCATTA-TTTC
948961 A-CGGGGATACTC
1 ATCGGGGATACTC
948973 AAATCCTGAT
Statistics
Matches: 144, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
158 40 0.28
159 102 0.71
160 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (159 bp):
ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAC
ACCAATTCTCCACAATCAGGGATATTCCAACCCCGACCTTATTTCTAAAACACTAATTTTCTAAT
AATCAGGGATACTCCAACCCCATTATTTC
Found at i:949104 original size:28 final size:28
Alignment explanation
Indices: 949066--949119 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
949056 TTCACAATCA
*
949066 GGGATACTCCAACCCCGTTATTATCTAG
1 GGGATACTCCAACCCCGTCATTATCTAG
949094 GGGATACTCCAACCCCGTCATTATCT
1 GGGATACTCCAACCCCGTCATTATCT
949120 CCAAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTCATTATCTAG
Found at i:949137 original size:130 final size:129
Alignment explanation
Indices: 948806--949138 Score: 332
Period size: 130 Copynumber: 2.6 Consensus size: 129
948796 TATTTCATCG
* * * *
948806 GGGATACTCTAACCCTATTATTTTCGAGGGGATATTCCAACCCCGGCTTTATTTCTAAAATATTG
1 GGGATACTCTAACCCCATTATTTTC-AGGGGATACTCCAACCCCGTCTTTATTTCTAAAATATTA
* * * * *
948871 ATTTCTCACAATCAGGGATACTTCAACCCCGACCTTATTTCTAAAATATTGATTTCTCATAATTA
65 ATTTCTCACAACCAGGGACACTTCAACCCCGACCTTATTTCTAAAATATCGATTTCTCACAATCA
* * * * * *
948936 GGGATACTCTAACCCCATTATTTTCACGGGGATACTCAAATCCTGAT-TTTATTTTTGAAACATC
1 GGGATACTCTAACCCCATTATTTTCA-GGGGATACTCCAACCCCG-TCTTTATTTCTAAAATAT-
* * * * *
949000 TATTTTCT-ATAACCGGGGACACTTCAACCCTTG-CCTTATTTCT-AAATCATCGATTTTTCACA
63 TAATTTCTCACAACCAGGGACACTTCAACCC-CGACCTTATTTCTAAAAT-ATCGATTTCTCACA
949062 ATCA
126 ATCA
* * * * * *
949066 GGGATACTCCAACCCCGTTATTATCTAGGGGATACTCCAACCCCGTCATTATCTCCAAAATATTA
1 GGGATACTCTAACCCCATTATTTTC-AGGGGATACTCCAACCCCGTCTTTATTTCTAAAATATT-
949131 AATTTCTC
64 AATTTCTC
949139 GTCGAGAGAT
Statistics
Matches: 161, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
129 7 0.04
130 146 0.91
131 8 0.05
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (129 bp):
GGGATACTCTAACCCCATTATTTTCAGGGGATACTCCAACCCCGTCTTTATTTCTAAAATATTAA
TTTCTCACAACCAGGGACACTTCAACCCCGACCTTATTTCTAAAATATCGATTTCTCACAATCA
Found at i:950591 original size:2 final size:2
Alignment explanation
Indices: 950584--950619 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
950574 TATTGTCTTA
950584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
950620 GGTTAAGCGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:951260 original size:105 final size:105
Alignment explanation
Indices: 951137--951350 Score: 401
Period size: 105 Copynumber: 2.0 Consensus size: 105
951127 GTCTTAAATA
*
951137 AATCTAAATTAAACTAATTCAATTAAGTCTTCCACAAAATACTTTTTATTTATTTAAGTTATATT
1 AATCTAAATTAAACTAATTCAATTAAGTCCTCCACAAAATACTTTTTATTTATTTAAGTTATATT
**
951202 TAATTGAATTTTGATTTTAATCTAATAAATCTGTCTTATT
66 TAATTGAATTTCAATTTTAATCTAATAAATCTGTCTTATT
951242 AATCTAAATTAAACTAATTCAATTAAGTCCTCCACAAAATACTTTTTATTTATTTAAGTTATATT
1 AATCTAAATTAAACTAATTCAATTAAGTCCTCCACAAAATACTTTTTATTTATTTAAGTTATATT
951307 TAATTGAATTTCAATTTTAATCTAATAAATCTGTCTTATT
66 TAATTGAATTTCAATTTTAATCTAATAAATCTGTCTTATT
951347 AATC
1 AATC
951351 ATGCTAGTAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (105 bp):
AATCTAAATTAAACTAATTCAATTAAGTCCTCCACAAAATACTTTTTATTTATTTAAGTTATATT
TAATTGAATTTCAATTTTAATCTAATAAATCTGTCTTATT
Found at i:955427 original size:2 final size:2
Alignment explanation
Indices: 955420--955466 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
955410 AATCTATGGG
955420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
955462 A- AT AT
1 AT AT AT
955467 TTGAGCGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:958944 original size:29 final size:29
Alignment explanation
Indices: 958902--958959 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
958892 TTGGCTATAA
958902 AGTTAACTTACTTTTGGTCTAGGTTGTTT
1 AGTTAACTTACTTTTGGTCTAGGTTGTTT
958931 AGTTAACTTACTTTTGGTCTAGGTTGTTT
1 AGTTAACTTACTTTTGGTCTAGGTTGTTT
958960 TTTTCAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.10, G:0.21, T:0.52
Consensus pattern (29 bp):
AGTTAACTTACTTTTGGTCTAGGTTGTTT
Found at i:963181 original size:12 final size:14
Alignment explanation
Indices: 963150--963197 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
963140 TAAGGGTCAG
963150 GGGTT-AGGATTTA
1 GGGTTAAGGATTTA
*
963163 TGGTTAAGG-TTTA
1 GGGTTAAGGATTTA
*
963176 -GGTTAAGGATTAA
1 GGGTTAAGGATTTA
963189 GGGTTAAGG
1 GGGTTAAGG
963198 GCTTAGGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 8 0.27
13 11 0.37
14 11 0.37
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (14 bp):
GGGTTAAGGATTTA
Found at i:963902 original size:16 final size:16
Alignment explanation
Indices: 963810--964128 Score: 120
Period size: 16 Copynumber: 20.1 Consensus size: 16
963800 GGGTTTATAG
*
963810 TAGGGTTT-AAGGGTT
1 TAGGGTTTCTAGGGTT
*
963825 TAGGGTTT-AAGGGTT
1 TAGGGTTTCTAGGGTT
963840 TAGGG-TT-TAGGGTT
1 TAGGGTTTCTAGGGTT
* *
963854 TGGGGTTTAATACGGG-T
1 TAGGGTTT-CTA-GGGTT
*
963871 TAGGGATTTAC-CGGGTT
1 TAGGG-TTT-CTAGGGTT
963888 TAGGGTTTCTAGGGTT
1 TAGGGTTTCTAGGGTT
* *
963904 GAGGGTTTCTCGGGTT
1 TAGGGTTTCTAGGGTT
* *
963920 TCGGG-TT-TAGAGTT
1 TAGGGTTTCTAGGGTT
*
963934 TCAGGG--T-TAGGTTT
1 T-AGGGTTTCTAGGGTT
*
963948 CTCGGGTTT-TAGGGTT
1 -TAGGGTTTCTAGGGTT
* *
963964 GAACCGAAG-TT-TAGGGTT
1 -TA--G-GGTTTCTAGGGTT
*
963982 TGCGGGTTTC-AGGGTT
1 T-AGGGTTTCTAGGGTT
*
963998 TAGGGTTTCTCGGGTT
1 TAGGGTTTCTAGGGTT
***
964014 TAGGGTGGATAGGGTT
1 TAGGGTTTCTAGGGTT
* *
964030 GTCAGGG-TTATATGAGTT
1 -T-AGGGTTTCTA-GGGTT
*
964048 TAGGGTTTCAAGGGTT
1 TAGGGTTTCTAGGGTT
*
964064 TCGGGTTTCTTATAGGGTT
1 TAGGGTTTC---TAGGGTT
*
964083 TACGGGGTTC--GGGTT
1 TA-GGGTTTCTAGGGTT
*
964098 TAGGGTTTC-GGGGTT
1 TAGGGTTTCTAGGGTT
964113 TAGGGTTTC-AGGGTT
1 TAGGGTTTCTAGGGTT
964128 T
1 T
964129 CTTCCGGAGT
Statistics
Matches: 235, Mismatches: 42, Indels: 54
0.71 0.13 0.16
Matches are distributed among these distances:
14 33 0.14
15 64 0.27
16 78 0.33
17 21 0.09
18 25 0.11
19 8 0.03
20 6 0.03
ACGTcount: A:0.14, C:0.08, G:0.39, T:0.39
Consensus pattern (16 bp):
TAGGGTTTCTAGGGTT
Found at i:964199 original size:16 final size:16
Alignment explanation
Indices: 964178--964233 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
964168 TTAAGGGTTT
964178 AGGGTTTCGGTTTCAC
1 AGGGTTTCGGTTTCAC
964194 AGGGTTTCGGGTTT-ATC
1 AGGGTTTC-GGTTTCA-C
* *
964211 -GGGTTTAGGGTTTCAA
1 AGGGTTT-CGGTTTCAC
964227 AGGGTTT
1 AGGGTTT
964234 TCGGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.14, C:0.11, G:0.36, T:0.39
Consensus pattern (16 bp):
AGGGTTTCGGTTTCAC
Found at i:964263 original size:13 final size:13
Alignment explanation
Indices: 964245--964321 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
964235 CGGGGTTTTA
964245 GGTTTAGGGTTCG
1 GGTTTAGGGTTCG
*
964258 GGTTTAGGGTTTAG
1 GGTTTAGGG-TTCG
**
964272 GGTTT-GGGTTTA
1 GGTTTAGGGTTCG
**
964284 GGTTGCGGGTT-G
1 GGTTTAGGGTTCG
964296 CGGTTTAGGGTTTCG
1 -GGTTTAGGG-TTCG
*
964311 GGTTTCGGGTT
1 GGTTTAGGGTT
964322 TGGGATTTGG
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
12 6 0.12
13 26 0.51
14 18 0.35
15 1 0.02
ACGTcount: A:0.06, C:0.06, G:0.45, T:0.42
Consensus pattern (13 bp):
GGTTTAGGGTTCG
Found at i:964284 original size:39 final size:40
Alignment explanation
Indices: 964209--964322 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 40
964199 TTCGGGTTTA
*
964209 TCGGGTTTAGGGTTTCAAAGGGTTTTCGGGGTTTTAGGTTTAGGGT
1 TCGGGTTTAGGGTTT---AGGG-TTTC-GGG-TTTAGGTTGAGGGT
*
964255 TCGGGTTTAGGGTTTAGGGTTT-GGGTTTAGGTTGCGGGT
1 TCGGGTTTAGGGTTTAGGGTTTCGGGTTTAGGTTGAGGGT
*
964294 T-GCGGTTTAGGGTTTCGGGTTTCGGGTTT
1 TCG-GGTTTAGGGTTTAGGGTTTCGGGTTT
964323 GGGATTTGGG
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
38 1 0.02
39 31 0.49
40 9 0.14
42 3 0.05
43 4 0.06
46 15 0.24
ACGTcount: A:0.09, C:0.07, G:0.42, T:0.42
Consensus pattern (40 bp):
TCGGGTTTAGGGTTTAGGGTTTCGGGTTTAGGTTGAGGGT
Found at i:964352 original size:37 final size:36
Alignment explanation
Indices: 964303--964470 Score: 144
Period size: 37 Copynumber: 4.6 Consensus size: 36
964293 TTGCGGTTTA
* *
964303 GGGTTTCGGGTTTCGGGTTTGGGATTTGGGGGTTGG
1 GGGTTTGGGGTTTCGGGTTTGGGGTTTGGGGGTTGG
* * *
964339 GGGTTTTGGGGTTTGGGGTTTGGGGTTTGGGTGAT-G
1 GGG-TTTGGGGTTTCGGGTTTGGGGTTTGGGGGTTGG
* * *
964375 GGGTTGGGGGTTTGGGGGTGTTGGGGTTTGGGGATTTGG
1 GGGTTTGGGGTTT-CGGGT-TTGGGGTTTGGGG-GTTGG
* **
964414 GAGTTT-GGGTTTCGGGTTCTGGGGTTT-GGGGTTTC
1 GGGTTTGGGGTTTCGGGTT-TGGGGTTTGGGGGTTGG
*
964449 GGGTTCGCGGGTTTCGGAGTTT
1 GGGTTTG-GGGTTTCGG-GTTT
964471 CGGCGTTTCG
Statistics
Matches: 106, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
35 15 0.14
36 16 0.15
37 60 0.57
38 10 0.09
39 5 0.05
ACGTcount: A:0.03, C:0.05, G:0.53, T:0.39
Consensus pattern (36 bp):
GGGTTTGGGGTTTCGGGTTTGGGGTTTGGGGGTTGG
Found at i:964367 original size:44 final size:43
Alignment explanation
Indices: 964303--964453 Score: 171
Period size: 44 Copynumber: 3.4 Consensus size: 43
964293 TTGCGGTTTA
*
964303 GGGTTTCGGGTTTCGGGTTTGGGATTTGGGGGTTGGGGGTTTTG
1 GGGTTTGGGGTTTCGGGTTTGGGATTT-GGGGTTGGGGGTTTTG
* * *
964347 GGGTTTGGGGTTTGGGGTTTGGG-TGATGGGGTTGGGGGTTTGG
1 GGGTTTGGGGTTTCGGGTTTGGGAT-TTGGGGTTGGGGGTTTTG
* ** *
964390 GGGTGTTGGGGTTTGGGGATTTGGGAGTTT-GGGTTTCGGGTTCTG
1 GGGT-TTGGGGTTTCGGG-TTTGGGA-TTTGGGGTTGGGGGTTTTG
964435 GGGTTTGGGGTTTCGGGTT
1 GGGTTTGGGGTTTCGGGTT
964454 CGCGGGTTTC
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
43 22 0.24
44 47 0.51
45 21 0.23
46 1 0.01
47 1 0.01
ACGTcount: A:0.03, C:0.03, G:0.54, T:0.40
Consensus pattern (43 bp):
GGGTTTGGGGTTTCGGGTTTGGGATTTGGGGTTGGGGGTTTTG
Found at i:964389 original size:8 final size:8
Alignment explanation
Indices: 964317--964422 Score: 93
Period size: 8 Copynumber: 14.1 Consensus size: 8
964307 TTCGGGTTTC
964317 GGGTTT-G
1 GGGTTTGG
*
964324 GGATTTGG
1 GGGTTTGG
964332 GGG-TTGG
1 GGGTTTGG
*
964339 GGGTTTTG
1 GGGTTTGG
964347 GGGTTT-G
1 GGGTTTGG
964354 GGGTTT-G
1 GGGTTTGG
964361 GGGTTTGG
1 GGGTTTGG
* *
964369 GTG-AT-G
1 GGGTTTGG
964375 GGG-TTGG
1 GGGTTTGG
964382 GGGTTTGG
1 GGGTTTGG
964390 GGGTGTT-G
1 GGGT-TTGG
964398 GGGTTTGG
1 GGGTTTGG
*
964406 GGATTTGG
1 GGGTTTGG
*
964414 GAGTTTGG
1 GGGTTTGG
964422 G
1 G
964423 TTTCGGGTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
6 4 0.05
7 33 0.40
8 43 0.52
9 2 0.02
ACGTcount: A:0.04, C:0.00, G:0.58, T:0.38
Consensus pattern (8 bp):
GGGTTTGG
Found at i:964390 original size:51 final size:50
Alignment explanation
Indices: 964292--964423 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 50
964282 TAGGTTGCGG
* * * * *
964292 GTTGCGGTTTAGGGTTTCGGGTTTCGGGTTTGGGATTTGGGGGTTGGGGGT
1 GTTGGGGTTTGGGGTTTGGGGTTT-GGGTATGGGAGTTGGGGGTTGGGGGT
*
964343 TTTGGGGTTTGGGGTTTGGGGTTTGGGTGATGGG-GTTGGGGGTTTGGGGGT
1 GTTGGGGTTTGGGGTTTGGGGTTTGGGT-ATGGGAGTTGGGGG-TTGGGGGT
964394 GTTGGGGTTTGGGGATTTGGGAGTTTGGGT
1 GTTGGGGTTTGGGG-TTTGGG-GTTTGGGT
964424 TTCGGGTTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
50 11 0.16
51 45 0.64
52 6 0.09
53 8 0.11
ACGTcount: A:0.04, C:0.02, G:0.55, T:0.39
Consensus pattern (50 bp):
GTTGGGGTTTGGGGTTTGGGGTTTGGGTATGGGAGTTGGGGGTTGGGGGT
Found at i:964594 original size:74 final size:66
Alignment explanation
Indices: 964442--966897 Score: 1352
Period size: 65 Copynumber: 37.6 Consensus size: 66
964432 CTGGGGTTTG
* * *
964442 GGGTTTCGGGTTCGCGGGTTTCGGAGTTTCGGCGTTT-C-GGTTTCGGG-T-TCGGGTTTTGG-G
1 GGGTTTCGGGTT-TCGGGTTTCGG-GTTTCGG-GTTTCCGGGTTGCGGGTTCTCGGGTTTCGGTG
964502 TGTC
63 TGTC
* * * *
964506 GGGTTTCGGGTTTCGGAGTTTCTGGTTTCGGGTTTTCGGGTTTTCGGGTTTTCCGGGAATTATTC
1 GGGTTTCGGGTTTCGG-GTTTCGGGTTTCGGGTTTCCGGG-TTGCGGGTTCT-CGGG---T-TTC
964571 GAGTGTGTC
59 G-GTGTGTC
964580 GGGTTTCGGGTTTCGGGTTTCGGGTTTTCGGGTATTCCGGGTTGCGGGTTCTCGGGTTTCGGT-T
1 GGGTTTCGGGTTTCGGGTTTCGGG-TTTCGGGT-TTCCGGGTTGCGGGTTCTCGGGTTTCGGTGT
964644 GTTC
64 G-TC
* * *
964648 GGGTTTCGGG-TTAGGGTTTCGGGTTTCGGGTTT-C-GGTTTCGAGGTTC-CGGG-TTCGG-GTT
1 GGGTTTCGGGTTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCG-GGTTCTCGGGTTTCGGTGTG
964707 TC
65 TC
* *
964709 GGGTTTCGGGTTTCGGGTTTCGGGTTTTCCGGGTTT-GGTTTAGGTTTCGGGTT-TCGGGTTTCG
1 GGGTTTCGGGTTTCGGGTTTCGGG-TTT-CGGGTTTCCG----GGTTGCGGGTTCTCGGGTTTCG
*
964772 G-GT-TT
60 GTGTGTC
* * *
964777 GGGTTTCGGAGTTTTTCGGGTTTC-GGTTTCGGGTTT-AGGGTTTTTTACGGGTT-T-AGGTTTC
1 GGGTTTCGG-G--TTTCGGGTTTCGGGTTTCGGGTTTCCGGG----TTGCGGGTTCTCGGGTTTC
964838 GG-GT-TC
59 GGTGTGTC
* *
964844 GGGTTTCGGGTTTCGGGTTGTCGGGTTTCGGAGTTTCCGGGTTTCGGGTTATCGGGTTTCATCGG
1 GGGTTTCGGGTTTCGGGTT-TCGGGTTTCGG-GTTTCCGGGTTGCGGGTTCTCGGG-TT--TCGG
964909 T-T-TC
61 TGTGTC
* * * * *
964913 -GGTTTCGGGTTATCGGGTCTCGGGTGTCCGGGTTTCGGGGTTTCGGGTTATCGAGGTTTTCGGT
1 GGGTTTCGGGTT-TCGGGTTTCGGGT-TTCGGGTTTCCGGGTTGCGGGTTCTCG-GG-TTTCGGT
964977 -T-TC
62 GTGTC
* * *
964980 GGGTTTTCGGG-TTC-GGTTTCGGGTTGCGGG-TT-CGGGTTTCGGGTT-TCGGGTTTCGG-GTT
1 GGG-TTTCGGGTTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTTCGGTGTG
965039 TC
65 TC
* * *
965041 GGG-TTCGGGTTTTTC-GGTTTCGGGTTTCGGGTTT-AGGGTTTC-GG-T-TCGGAGTTT-GAGG
1 GGGTTTCGGG--TTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGG-GTTTCG-GT
*
965099 GTTTCC
62 GTGT-C
*
965105 GGGTATTCGGGTTTCGGGTTTCGGGTTT-GGGTTT-C-GGTT-CGGGTT-TCGGGTTTCGAGGGT
1 GGGT-TTCGGGTTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTTCG-GTGT
965165 -TC
64 GTC
* *
965167 GGGTTTCGGGTTTCGGGTTTCGAGG-TT-GAGGTTT-CGGTTTTTCGGGTT-TCGGGTTGTCGG-
1 GGGTTTCGGGTTTCGGGTTTCG-GGTTTCG-GGTTTCCGG-GTTGCGGGTTCTCGGGTT-TCGGT
*
965227 GTGGC
62 GTGTC
*
965232 GGGTTTTCGGGTTTTCGGGTTTCGGGTTTCGGGTTTTCGGTTCGGGGTGTGTCGGGTTGTCGGGT
1 GGG-TTTCGGG-TTTCGGGTTTCGGGTTTCGGG-TTTC----C-GGGT-TG-CGGGTTCTCGGGT
965297 GTTCGG-GT-TC
56 -TTCGGTGTGTC
* *
965307 GGGTGTAGGGTTTCGGGTTTCGGGTTTTCGGGTTT-CGGGTT-CGGGTT-TCCGGGTTTCGG-GT
1 GGGTTTCGGGTTTCGGGTTTCGGG-TTTCGGGTTTCCGGGTTGCGGGTTCT-CGGGTTTCGGTGT
*
965368 TTC
64 GTC
* * *
965371 -GGTTTCGGGTTGCGGGTTTCGGGGTTTCGGGTTT-TGTTCGGTTTCGGGTT-TCGGGTTATTCG
1 GGGTTTCGGGTTTCGGGTTTC-GGGTTTCGGGTTTCCG---GGTTGCGGGTTCTCGGG-T-TTCG
*
965433 CG-GTTTTCC
60 -GTG-TGT-C
* *
965442 GGGTTTCGGG-TTCGGGTTTCGGGTTTCGGGTTT-CGGTTTCCGGAGTT-TCGGGTTTCGGT-T-
1 GGGTTTCGGGTTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGG-GTTCTCGGGTTTCGGTGTG
965502 TC
65 TC
965504 GGGTTTCGGGTTTTACGGGTTTC-GGTTTCGGGTTT-CGGGTT-CGGGTT-TC-GGTTTCGG-GT
1 GGGTTTCGGG-TTT-CGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTTCGGTGT
965563 -TC
64 GTC
* * *
965565 GGGTTTCGGGTTTCGGAGTTTC--GTTTCGGGTTTCAGGGATTTCGGGTTTTTCGGGTTTCGGGG
1 GGGTTTCGGGTTTCGG-GTTTCGGGTTTCGGGTTTCCGGG-TTGCGGG-TTCTCGGGTTTC--GG
* *
965628 TTTTTC
61 TGTGTC
* * *
965634 GGGTTTCGGGTATCCGAGGTTTC-GGTGTTCGGG-TT-CGTGTTTCGGGTT-TCGGGTTTTCGG-
1 GGGTTTCGGGT-TTCG-GGTTTCGGGT-TTCGGGTTTCCGGGTTGCGGGTTCTCGGG-TTTCGGT
*
965694 GTTTC
62 GTGTC
* * * *
965699 CGGTTTCGGAG-TTCGGGTTTCGGGTTTCGGGTTTTCGGGTTTCGGGTTATCGGGTTTTCGGT-T
1 GGGTTTCGG-GTTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGG-TTTCGGTGT
965762 -TC
64 GTC
* * *
965764 GGGTTTCGGGTTTCGGGGTTTTTCGGG-GTCGGGTTT-CGGGTTTTAC-GG-T-GCGGGTTTCGG
1 GGGTTTCGGGTTTC-GGG--TTTCGGGTTTCGGGTTTCCGGG--TTGCGGGTTCTCGGGTTTCGG
*
965824 -GTTTC
61 TGTGTC
*
965829 GGGTTTCGGGTTTC-GGTTTCGGGTTTTCGGGTTT-C-GGTTTCGGGTT-TCGGGTTTCGG-GTT
1 GGGTTTCGGGTTTCGGGTTTCGGG-TTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTTCGGTG-T
*
965889 ATC
64 GTC
* * *
965892 GGGGTTGCGGGGTTTCGGGTTTCGGGTTTCGGGTTT-C-GGTTTCGGGTT-TCGGGTTTCGGGTT
1 -GGGTTTC-GGGTTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTTC-GGTG
*
965954 TTTC
63 TGTC
* * *
965958 GGGTTTAGGGTTTCCGGGGTTCGGGTTTCGGGTTT-CGGGTTTTTC-GGTT-TCGGGTTTCCGG-
1 GGGTTTCGGGTTT-CGGGTTTCGGGTTTCGGGTTTCCGGG--TTGCGGGTTCTCGGGTTT-CGGT
*
966019 GTTTTC
62 G-TGTC
* *
966025 GGGTCTTC-GGTTTCGGGTTTCGGGTTTC-GGTGTT-CTGGTTTCGGGTT-TCGGGTTTC-G-GT
1 GGGT-TTCGGGTTTCGGGTTTCGGGTTTCGGGT-TTCCGGGTTGCGGGTTCTCGGGTTTCGGTGT
966084 -TC
64 GTC
* * *
966086 GGGTTTCGGGTTTCAGGGTTTCTCGGG-GTCGGGGTT-CGGGTTTCGGGTT-TCGGGTTTGCGG-
1 GGGTTTCGGGTTTC-GGG-TT-TCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTT-CGGT
*
966147 GT-TT
62 GTGTC
* *
966151 GGGTTTC-GGTTTCGGGTTTTCGGGATTCGGGTTT-CGGGTTTCGAGGTT-TCGGGTTTCGG-GT
1 GGGTTTCGGGTTTCGGG-TTTCGGGTTTCGGGTTTCCGGGTTGCG-GGTTCTCGGGTTTCGGTGT
966212 -TC
64 GTC
* * * *
966214 GGGTTTCGGGTTTGCGGGTTTCGTGTGGTCCGGTTT-CGGGTTTTCGGGTT-TC-GGTTTCGG-G
1 GGGTTTCGGGTTT-CGGGTTTCGGGT-TTCGGGTTTCCGGG-TTGCGGGTTCTCGGGTTTCGGTG
*
966275 TTTC
63 TGTC
* * *
966279 -GG-TTCGGGTTGCGGGTTTTCGGGTTTCGGGCTTTTTC-GGTTTCGGGTT-TCGGGTTTCGGGT
1 GGGTTTCGGGTTTCGGG-TTTCGGGTTTCGGG--TTTCCGGGTTGCGGGTTCTCGGGTTTC-GG-
* *
966340 TTTTTC
61 TGTGTC
*
966346 GGGTTTTCGGGTTTCGGG-TTCGGG-TTCGGGTTT-CGGGTATTCGGGTT-TCGGGTTTTC--T-
1 GGG-TTTCGGGTTTCGGGTTTCGGGTTTCGGGTTTCCGGGT-TGCGGGTTCTCGGG-TTTCGGTG
**
966404 CCTC
63 TGTC
* * * * *
966408 GGGTTTCGGGTTTCACGTTTTCCGGGTTTTC---CTT-CGGGATTTTCGGGTTTTCGGGTTAATC
1 GGGTTTCGGGTTTC-GGGTTT-CGGG-TTTCGGGTTTCCGGG--TTGCGGGTTCTCGGGTT--TC
966469 GG-GT-TC
59 GGTGTGTC
* * *
966475 GGGTTCCGGG-TT-GGG-TTCGGGGTTTCCGGTTT-CGGGTT-CGGGTT-TCGGGTTTCGG-GTT
1 GGGTTTCGGGTTTCGGGTTTC-GGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTTCGGTGTG
966533 TC
65 TC
*
966535 GGGTTTTTCGGCTTTCGGGGTTTCGGGTTTCGGGTTT-C-GGTTGCGGGTT-TCAGGGTTTCGG-
1 GGG--TTTCGGGTTTC-GGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTC-GGGTTTCGGT
966596 GT-TC
62 GTGTC
* * * *
966600 GGGTTTCGGGTGTTTCGGGTTTCAGGTGTCGGGTTT-C-GGTTTCGGGTTTTTCGGGTTTCGGT-
1 GGGTTTC-GG-GTTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGG-TTCTCGGGTTTCGGTG
966662 T-TC
63 TGTC
* * *
966665 GGGTTTC-GGTTTCGGGTTTCGGGTTTTCCGGTTTTCGGGTTTTTCGGGTT-TCGGGTTTCAGG-
1 GGGTTTCGGGTTTCGGGTTTCGGG-TTTCGGGTTTCCGGG--TTGCGGGTTCTCGGGTTTC-GGT
*
966727 GTTTC
62 GTGTC
* * * *
966732 GGGTTGTAGGG-TGC-GGTTTCAGGGTTTCGGGTATT-CGGGTTTCGGGTT-TC-GGTTGCGG-G
1 GGGTT-TCGGGTTTCGGGTTTC-GGGTTTCGGGT-TTCCGGGTTGCGGGTTCTCGGGTTTCGGTG
*
966791 TTTC
63 TGTC
*
966795 GGGTTTCGGGTTTTC-GGTTTCCGGGATTCGGGTTT-CGGGTTGCGGGTT-TC-GG-TTCGGT-T
1 GGGTTTCGGG-TTTCGGGTTT-CGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTTCGGTGT
966854 -TC
64 GTC
966856 GGGTTTCGGGTTTCAGGGTTTCGGGGTTTTC-GGTTT-CGGGTT
1 GGGTTTCGGGTTTC-GGGTTTC-GGG-TTTCGGGTTTCCGGGTT
966898 TCTCTCGGGT
Statistics
Matches: 2037, Mismatches: 119, Indels: 474
0.77 0.05 0.18
Matches are distributed among these distances:
59 26 0.01
60 33 0.02
61 121 0.06
62 179 0.09
63 282 0.14
64 286 0.14
65 330 0.16
66 165 0.08
67 186 0.09
68 154 0.08
69 75 0.04
70 42 0.02
71 27 0.01
72 18 0.01
73 31 0.02
74 53 0.03
75 16 0.01
76 12 0.01
77 1 0.00
ACGTcount: A:0.02, C:0.15, G:0.41, T:0.42
Consensus pattern (66 bp):
GGGTTTCGGGTTTCGGGTTTCGGGTTTCGGGTTTCCGGGTTGCGGGTTCTCGGGTTTCGGTGTGT
C
Found at i:966486 original size:13 final size:14
Alignment explanation
Indices: 966448--967647 Score: 520
Period size: 15 Copynumber: 79.2 Consensus size: 14
966438 CCTTCGGGAT
966448 TTTCGGGTTTTCGGG
1 TTTCGGG-TTTCGGG
966463 TTAATCGGG-TTCGGG
1 TT--TCGGGTTTCGGG
*
966478 TTCCGGG-TT-GGG
1 TTTCGGGTTTCGGG
*
966490 -TTCGGGGTTTCCGG
1 TTTC-GGGTTTCGGG
966504 TTTCGGG-TTCGGG
1 TTTCGGGTTTCGGG
966517 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
*
966531 TTTCGGGTTTTTCGGC
1 TTTCGGG--TTTCGGG
966547 TTTCGGGGTTTCGGG
1 TTTC-GGGTTTCGGG
966562 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
*
966575 TTGCGGGTTTCAGGG
1 TTTCGGGTTTC-GGG
966590 TTTCGGG-TTCGGG
1 TTTCGGGTTTCGGG
966603 TTTCGGGTGTTTCGGG
1 TTTC-GG-GTTTCGGG
* *
966619 TTTCAGGTGTCGGG
1 TTTCGGGTTTCGGG
966633 TTTC-GGTTTCGGG
1 TTTCGGGTTTCGGG
966646 TTTTTCGGGTTTC-GG
1 --TTTCGGGTTTCGGG
966661 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
966674 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
*
966688 TTTTCCGGTTTTCGGG
1 -TTT-CGGGTTTCGGG
966704 TTTTTCGGGTTTCGGG
1 --TTTCGGGTTTCGGG
966720 TTTCAGGGTTTCGGG
1 TTTC-GGGTTTCGGG
* *
966735 TTGTAGGG-TGC-GG
1 TT-TCGGGTTTCGGG
966748 TTTCAGGGTTTCGGG
1 TTTC-GGGTTTCGGG
966763 TATTCGGGTTTCGGG
1 T-TTCGGGTTTCGGG
*
966778 TTTC-GGTTGCGGG
1 TTTCGGGTTTCGGG
966791 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
966805 TTTTC-GGTTTCCGGG
1 -TTTCGGGTTT-CGGG
*
966820 ATTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
*
966834 TTGCGGGTTTC-GG
1 TTTCGGGTTTCGGG
966847 -TTC-GGTTTCGGG
1 TTTCGGGTTTCGGG
966859 TTTCGGGTTTCAGGG
1 TTTCGGGTTTC-GGG
966874 TTTCGGGGTTTTC-GG
1 TTTC-GGG-TTTCGGG
966889 TTTCGGGTTTC---
1 TTTCGGGTTTCGGG
*
966900 TCTCGGG-TTCGGG
1 TTTCGGGTTTCGGG
966913 TTTCGGGGGTTCTTCGGGG
1 TTTC--GGG-T-TTC-GGG
*
966932 TTTTTCGGGTTACCGGG
1 --TTTCGGGTT-TCGGG
****
966949 TTTCCGGGTTTTATC
1 TTT-CGGGTTTCGGG
** * *
966964 TCACCGGGTGTC--C
1 T-TTCGGGTTTCGGG
*
966977 TCTCGGGATTTCGGG
1 TTTCGGG-TTTCGGG
*
966992 TTTCGGGTGTCGCCGGG
1 TTTCGGGT-T--TCGGG
967009 TTTCCGGGTTTCGGG
1 TTT-CGGGTTTCGGG
967024 TTTTCGGGTTTCCGGAAG
1 -TTTCGGGTTT-CGG--G
967042 TTTC-GGTTTCGGG
1 TTTCGGGTTTCGGG
*
967055 TGTCGGGTATTCGGG
1 TTTCGGGT-TTCGGG
967070 TTGCTCGGGTTTAGCTCGGG
1 TT--TCGGG-TT---TCGGG
967090 TTTCGCGGGTTTCGGG
1 TTT--CGGGTTTCGGG
967106 TTATC---TCTTCGGG
1 TT-TCGGGT-TTCGGG
* *
967119 TTGCAGGG-TTCGGC
1 TTTC-GGGTTTCGGG
967133 TTTACGGGGTTGCTTCGGCG
1 TTT-C-GGG-T--TTCGG-G
*
967153 TTCCGGGTTTCGGGCG
1 TTTCGGGTTTC-GG-G
967169 TTTCGCGGGTTTCGGG
1 TTT--CGGGTTTCGGG
*
967185 TTTTC--CTTTCGGG
1 -TTTCGGGTTTCGGG
967198 TTATCGGGTATGCTCGGGG
1 TT-TCGGGT-T--TC-GGG
*
967217 CTTATTCAGTCCGGTTT---T
1 --T-TTC-G---GGTTTCGGG
967235 TTTCCTGGGTTTCTCGGG
1 TTT-C-GGG-TT-TCGGG
*
967253 -TTC-GTTTTCGAGG
1 TTTCGGGTTTCG-GG
967266 TTTCCCCGGGTTTCGGG
1 TTT---CGGGTTTCGGG
*
967283 TTTAGGGTTTCGGG
1 TTTCGGGTTTCGGG
967297 TTTCGGGTATTTCGAGG
1 TTTCGGG--TTTCG-GG
*
967314 ATTCTTCCGGGTTTCCGG
1 --T-TT-CGGGTTTCGGG
*
967332 TTTCACGGTTTCACGGG
1 TTTC-GGGTTT--CGGG
967349 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
*
967363 TGTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
967377 TTTCGGGTTATCCGGG
1 TTTCGGGTT-T-CGGG
*
967393 TTTCTCGGGTATCTAGGG
1 -TT-TCGGGT-T-TCGGG
967411 TTTCGGGTTTGCGAGG
1 TTTCGGGTTT-CG-GG
967427 TTTACGGGTTTTTACGGTG
1 TTT-CGGG--TTT-CGG-G
**
967446 GATCGGGTTTTTCGGG
1 TTTCGGG--TTTCGGG
967462 TTAGTCGGG-TTCGGG
1 TT--TCGGGTTTCGGG
967477 TTTCGGGTTTTCCGGG
1 TTTCGGG-TTT-CGGG
967493 -TTCGGGATTTC-GG
1 TTTCGGG-TTTCGGG
*
967506 TTATCCAGGGTAATTTC--A
1 TT-T-C-GGG---TTTCGGG
* *
967524 CTTCGGGGTTCGGG
1 TTTCGGGTTTCGGG
967538 TTATTCGGGTTTTCGGG
1 -T-TTCGGG-TTTCGGG
967555 TTTCGGGTTTTCGGG
1 TTTCGGG-TTTCGGG
967570 TTTCGAGGTTTCGGGG
1 TTTCG-GGTTTC-GGG
**
967586 TTTTAGGTTTCGGG
1 TTTCGGGTTTCGGG
*
967600 TTGTCGGGGTTACGGG
1 TT-TC-GGGTTTCGGG
967616 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
*
967630 TTGCGGGTTTTCGGG
1 TTTCGGG-TTTCGGG
967645 TTT
1 TTT
967648 AATCGGGTTC
Statistics
Matches: 939, Mismatches: 89, Indels: 314
0.70 0.07 0.23
Matches are distributed among these distances:
10 3 0.00
11 14 0.01
12 25 0.03
13 141 0.15
14 173 0.18
15 225 0.24
16 147 0.16
17 83 0.09
18 59 0.06
19 36 0.04
20 15 0.02
21 11 0.01
22 3 0.00
24 1 0.00
25 3 0.00
ACGTcount: A:0.04, C:0.17, G:0.39, T:0.40
Consensus pattern (14 bp):
TTTCGGGTTTCGGG
Found at i:967106 original size:16 final size:16
Alignment explanation
Indices: 966988--967107 Score: 57
Period size: 16 Copynumber: 6.8 Consensus size: 16
966978 CTCGGGATTT
*
966988 CGGGTTTCGGGTGTCG
1 CGGGTTTCGGGTTTCG
967004 CCGGGTTTCCGGGTTTCG
1 -CGGGTTT-CGGGTTTCG
*
967022 -GGTTTTCGGGTTTC-
1 CGGGTTTCGGGTTTCG
967036 CGGAAGTTTC-GGTTTCGGGTG
1 CGG--GTTTCGGGTTTC----G
* *
967057 TCGGGTATTCGGGTTGCT
1 -CGGGT-TTCGGGTTTCG
967075 CGGGTTTAGCTCGGGTTTCG
1 CGGG-TT---TCGGGTTTCG
967095 CGGGTTTCGGGTT
1 CGGGTTTCGGGTT
967108 ATCTCTTCGG
Statistics
Matches: 80, Mismatches: 7, Indels: 33
0.67 0.06 0.28
Matches are distributed among these distances:
15 10 0.12
16 18 0.22
17 16 0.20
18 9 0.11
19 2 0.03
20 14 0.17
21 3 0.04
22 8 0.10
ACGTcount: A:0.03, C:0.18, G:0.42, T:0.37
Consensus pattern (16 bp):
CGGGTTTCGGGTTTCG
Found at i:967664 original size:8 final size:7
Alignment explanation
Indices: 963263--967647 Score: 2711
Period size: 7 Copynumber: 596.9 Consensus size: 7
963253 TTCAGGATTA
*
963263 GGGTTTT
1 GGGTTTC
963270 GGGTTTC
1 GGGTTTC
*
963277 AGGTTT-
1 GGGTTTC
963283 GAGG-TTC
1 G-GGTTTC
963290 GGG-TTC
1 GGGTTTC
*
963296 GGGGTTC
1 GGGTTTC
*
963303 GGGGTTC
1 GGGTTTC
*
963310 ACGG-TTC
1 -GGGTTTC
*
963317 AGGGTTTG
1 -GGGTTTC
*
963325 GGGTTTG
1 GGGTTTC
*
963332 GGGTTTA
1 GGGTTTC
*
963339 GGGTTTGG
1 GGGTTT-C
*
963347 GGGTTTGG
1 GGGTTT-C
*
963355 GGGTTTAA
1 GGGTTT-C
*
963363 GGGTTTG
1 GGGTTTC
963370 GGGTTT-
1 GGGTTTC
*
963376 GGGGTT-
1 GGGTTTC
* *
963382 GGGGTTG
1 GGGTTTC
*
963389 GGGGTT-
1 GGGTTTC
* *
963395 GGGGTTG
1 GGGTTTC
*
963402 GGGTTTG
1 GGGTTTC
*
963409 GGGTTTG
1 GGGTTTC
*
963416 GGGTTTG
1 GGGTTTC
*
963423 GGGTTTG
1 GGGTTTC
*
963430 GGGTTTG
1 GGGTTTC
*
963437 GGGTTTG
1 GGGTTTC
963444 GGGTTT-
1 GGGTTTC
* *
963450 GGGGTTG
1 GGGTTTC
*
963457 GGGTTTT
1 GGGTTTC
*
963464 GGGTTTA
1 GGGTTTC
**
963471 GGGTTAG
1 GGGTTTC
*
963478 GGGTTTAG
1 GGGTTT-C
*
963486 GGGTTTAG
1 GGGTTT-C
*
963494 GGGTTTAGG
1 GGGTTT--C
*
963503 GGGTTTAG
1 GGGTTT-C
*
963511 GGGTTTAGG
1 GGGTTT--C
*
963520 GGGTTTG
1 GGGTTTC
**
963527 GGGTTAG
1 GGGTTTC
*
963534 GGGGTTC
1 GGGTTTC
963541 GGG-TTC
1 GGGTTTC
*
963547 GGGGGTTC
1 -GGGTTTC
*
963555 GGGGTTC
1 GGGTTTC
*
963562 GGG-GTC
1 GGGTTTC
*
963568 GGGGTTC
1 GGGTTTC
*
963575 GGGGTTC
1 GGGTTTC
*
963582 GGGGTTC
1 GGGTTTC
*
963589 GGGGTTC
1 GGGTTTC
*
963596 GGGGTTC
1 GGGTTTC
*
963603 GGGGTTC
1 GGGTTTC
*
963610 GGGGTTC
1 GGGTTTC
*
963617 GGGGTTC
1 GGGTTTC
*
963624 GGGGTTC
1 GGGTTTC
*
963631 GGGGTTC
1 GGGTTTC
963638 GGGGTTTC
1 -GGGTTTC
963646 GGGTTTC
1 GGGTTTC
963653 GGG-TTC
1 GGGTTTC
963659 GGGTTTC
1 GGGTTTC
963666 GGGTTTC
1 GGGTTTC
963673 GGG-TTC
1 GGGTTTC
963679 GGGTTTC
1 GGGTTTC
963686 GGGTTTC
1 GGGTTTC
963693 GGGTTTC
1 GGGTTTC
963700 GGGTTTC
1 GGGTTTC
963707 GGGTTTC
1 GGGTTTC
963714 GGGTTTC
1 GGGTTTC
963721 GGGTTTC
1 GGGTTTC
963728 GGGTTTC
1 GGGTTTC
963735 GGGTTTC
1 GGGTTTC
963742 GGGTTTTC
1 GGG-TTTC
963750 GGGTTTC
1 GGGTTTC
963757 GGGTTTC
1 GGGTTTC
*
963764 TCGGTTTCC
1 -GGGTTT-C
*
963773 GGGTTAAATA
1 GGGTT---TC
* *
963783 TGGTTTA
1 GGGTTTC
*
963790 GGGTTATTAG
1 GGG-T-TT-C
*
963800 GGGTTTA
1 GGGTTTC
** *
963807 TAG--TA
1 GGGTTTC
*
963812 GGGTTTAA
1 GGGTTT-C
*
963820 GGGTTTA
1 GGGTTTC
*
963827 GGGTTTAA
1 GGGTTT-C
*
963835 GGGTTTA
1 GGGTTTC
*
963842 GGGTTTA
1 GGGTTTC
*
963849 GGGTTTG
1 GGGTTTC
963856 GGGTTTAATAC
1 GGG-TT--T-C
*
963867 GGG-TTA
1 GGGTTTC
963873 GGGATTTACC
1 GGG-TTT--C
*
963883 GGGTTTA
1 GGGTTTC
963890 GGGTTTC
1 GGGTTTC
**
963897 TAGGGTTGA
1 --GGGTTTC
963906 GGGTTTCTC
1 GGG-TT-TC
963915 GGGTTTC
1 GGGTTTC
*
963922 GGGTTTA
1 GGGTTTC
*
963929 GAGTTTC
1 GGGTTTC
*
963936 AGGG-TTA
1 -GGGTTTC
*
963943 GGTTTCTC
1 GGGTT-TC
*
963951 GGGTTTTA
1 GGG-TTTC
*
963959 GGGTTGAACC
1 GGGTT---TC
* *
963969 GAAGTTTA
1 G-GGTTTC
963977 GGGTTTGC
1 GGGTTT-C
963985 GGGTTTC
1 GGGTTTC
*
963992 AGGGTTTA
1 -GGGTTTC
964000 GGGTTTCTC
1 GGG-TT-TC
*
964009 GGGTTTA
1 GGGTTTC
* *
964016 GGGTGGATA
1 GGGT--TTC
964025 GGGTTGTC
1 GGGTT-TC
*
964033 AGGGTTATAT
1 -GGGTT-T-C
* *
964043 GAGTTTA
1 GGGTTTC
964050 GGGTTTC
1 GGGTTTC
964057 AAGGGTTTC
1 --GGGTTTC
964066 GGGTTTC
1 GGGTTTC
*
964073 ---TTATA
1 GGGTT-TC
964078 GGGTTTAC
1 GGGTTT-C
*
964086 GGGGTTC
1 GGGTTTC
*
964093 GGGTTTA
1 GGGTTTC
964100 GGGTTTC
1 GGGTTTC
*
964107 GGGGTTTA
1 -GGGTTTC
964115 GGGTTTC
1 GGGTTTC
964122 AGGGTTTC
1 -GGGTTTC
*
964130 ---TTCC
1 GGGTTTC
964134 GGAGTTATCC
1 GG-GTT-T-C
964144 GGGTTTC
1 GGGTTTC
*
964151 CGGTTTC
1 GGGTTTC
964158 GGGTTT-
1 GGGTTTC
* *
964164 AGGTTTAA
1 GGGTTT-C
*
964172 GGGTTTA
1 GGGTTTC
964179 GGGTTTC
1 GGGTTTC
964186 -GGTTTCAC
1 GGGTTT--C
964194 AGGGTTTC
1 -GGGTTTC
964202 GGGTTTATC
1 GGG-TT-TC
*
964211 GGGTTTA
1 GGGTTTC
964218 GGGTTTC
1 GGGTTTC
964225 AAAGGGTTTTC
1 ---GGG-TTTC
*
964236 GGGGTTTT
1 -GGGTTTC
* *
964244 AGGTTTA
1 GGGTTTC
964251 GGG-TTC
1 GGGTTTC
*
964257 GGGTTTA
1 GGGTTTC
*
964264 GGGTTTA
1 GGGTTTC
964271 GGGTTT-
1 GGGTTTC
964277 GGGTTT-
1 GGGTTTC
* *
964283 AGGTTGC
1 GGGTTTC
*
964290 GGGTTGC
1 GGGTTTC
*
964297 -GGTTTA
1 GGGTTTC
964303 GGGTTTC
1 GGGTTTC
964310 GGGTTTC
1 GGGTTTC
964317 GGGTTT-
1 GGGTTTC
*
964323 GGGATTTGG
1 GGG-TTT-C
**
964332 GGGTTGG
1 GGGTTTC
*
964339 GGGTTTTG
1 GGG-TTTC
*
964347 GGGTTTG
1 GGGTTTC
*
964354 GGGTTTG
1 GGGTTTC
964361 GGGTTT-
1 GGGTTTC
* *
964367 GGGTGATG
1 GGGT-TTC
**
964375 GGGTTGG
1 GGGTTTC
*
964382 GGGTTTGG
1 GGGTTT-C
*
964390 GGGTGTTG
1 GGGT-TTC
*
964398 GGGTTTG
1 GGGTTTC
*
964405 GGGATTTG
1 GGG-TTTC
964413 GGAGTTT-
1 GG-GTTTC
964420 GGGTTTC
1 GGGTTTC
*
964427 GGGTTCTG
1 GGGTT-TC
*
964435 GGGTTTG
1 GGGTTTC
964442 GGGTTTC
1 GGGTTTC
*
964449 GGGTTCGC
1 GGGTT-TC
964457 GGGTTTC
1 GGGTTTC
964464 GGAGTTTC
1 GG-GTTTC
964472 GGCGTTTC
1 GG-GTTTC
964480 -GGTTTC
1 GGGTTTC
964486 GGG-TTC
1 GGGTTTC
*
964492 GGGTTTT
1 GGGTTTC
*
964499 GGGTGTC
1 GGGTTTC
964506 GGGTTTC
1 GGGTTTC
964513 GGGTTTC
1 GGGTTTC
964520 GGAGTTTC
1 GG-GTTTC
*
964528 TGGTTTC
1 GGGTTTC
964535 GGGTTTTC
1 GGG-TTTC
964543 GGGTTTTC
1 GGG-TTTC
964551 GGGTTTTCC
1 GGG-TTT-C
964560 GGGAATTATTC
1 GGG---T-TTC
*
964571 GAGTGTGTC
1 G-G-GTTTC
964580 GGGTTTC
1 GGGTTTC
964587 GGGTTTC
1 GGGTTTC
964594 GGGTTTC
1 GGGTTTC
964601 GGGTTTTC
1 GGG-TTTC
964609 GGGTATTCC
1 GGGT-TT-C
*
964618 GGGTTGC
1 GGGTTTC
964625 GGGTTCTC
1 GGGTT-TC
964633 GGGTTTC
1 GGGTTTC
*
964640 GGTTGTTC
1 GGGT-TTC
964648 GGGTTTC
1 GGGTTTC
*
964655 GGG-TTA
1 GGGTTTC
964661 GGGTTTC
1 GGGTTTC
964668 GGGTTTC
1 GGGTTTC
964675 GGGTTTC
1 GGGTTTC
964682 -GGTTTC
1 GGGTTTC
*
964688 GAGGTTCC
1 G-GGTTTC
964696 GGG-TTC
1 GGGTTTC
964702 GGGTTTC
1 GGGTTTC
964709 GGGTTTC
1 GGGTTTC
964716 GGGTTTC
1 GGGTTTC
964723 GGGTTTC
1 GGGTTTC
964730 GGGTTTTCC
1 GGG-TTT-C
964739 GGGTTT-
1 GGGTTTC
964745 -GGTTT-
1 GGGTTTC
*
964750 AGGTTTC
1 GGGTTTC
964757 GGGTTTC
1 GGGTTTC
964764 GGGTTTC
1 GGGTTTC
964771 GGGTTT-
1 GGGTTTC
964777 GGGTTTC
1 GGGTTTC
964784 GGAGTTTTTC
1 GG-G--TTTC
964794 GGGTTTC
1 GGGTTTC
964801 -GGTTTC
1 GGGTTTC
*
964807 GGGTTTA
1 GGGTTTC
964814 GGGTTTTTTAC
1 GGG---TTT-C
964825 GGGTTT-
1 GGGTTTC
*
964831 AGGTTTC
1 GGGTTTC
964838 GGG-TTC
1 GGGTTTC
964844 GGGTTTC
1 GGGTTTC
964851 GGGTTTC
1 GGGTTTC
964858 GGGTTGTC
1 GGGTT-TC
964866 GGGTTTC
1 GGGTTTC
964873 GGAGTTTCC
1 GG-GTTT-C
964882 GGGTTTC
1 GGGTTTC
964889 GGGTTATC
1 GGGTT-TC
964897 GGGTTTC
1 GGGTTTC
*
964904 ATCGGTTTC
1 --GGGTTTC
964913 -GGTTTC
1 GGGTTTC
964919 GGGTTATC
1 GGGTT-TC
*
964927 GGGTCTC
1 GGGTTTC
*
964934 GGGTGTCC
1 GGGT-TTC
964942 GGGTTTC
1 GGGTTTC
964949 GGGGTTTC
1 -GGGTTTC
964957 GGGTTATC
1 GGGTT-TC
964965 GAGGTTTTC
1 G-GG-TTTC
964974 -GGTTTC
1 GGGTTTC
964980 GGGTTTTC
1 GGG-TTTC
964988 GGG-TTC
1 GGGTTTC
964994 -GGTTTC
1 GGGTTTC
*
965000 GGGTTGC
1 GGGTTTC
965007 GGG-TTC
1 GGGTTTC
965013 GGGTTTC
1 GGGTTTC
965020 GGGTTTC
1 GGGTTTC
965027 GGGTTTC
1 GGGTTTC
965034 GGGTTTC
1 GGGTTTC
965041 GGG-TTC
1 GGGTTTC
965047 GGGTTTTTC
1 GGG--TTTC
965056 -GGTTTC
1 GGGTTTC
965062 GGGTTTC
1 GGGTTTC
*
965069 GGGTTTA
1 GGGTTTC
965076 GGGTTTC
1 GGGTTTC
965083 -GG-TTC
1 GGGTTTC
*
965088 GGAGTTTGA
1 GG-GTTT-C
965097 GGGTTTCC
1 GGGTTT-C
965105 GGGTATTC
1 GGGT-TTC
965113 GGGTTTC
1 GGGTTTC
965120 GGGTTTC
1 GGGTTTC
965127 GGGTTT-
1 GGGTTTC
965133 GGGTTTC
1 GGGTTTC
965140 -GG-TTC
1 GGGTTTC
965145 GGGTTTC
1 GGGTTTC
965152 GGGTTTC
1 GGGTTTC
*
965159 GAGGGTTC
1 G-GGTTTC
965167 GGGTTTC
1 GGGTTTC
965174 GGGTTTC
1 GGGTTTC
965181 GGGTTTC
1 GGGTTTC
965188 GAGG-TT-
1 G-GGTTTC
965194 GAGGTTTC
1 G-GGTTTC
*
965202 GGTTTTTC
1 GG-GTTTC
965210 GGGTTTC
1 GGGTTTC
965217 GGGTTGTC
1 GGGTT-TC
**
965225 GGGTGGC
1 GGGTTTC
965232 GGGTTTTC
1 GGG-TTTC
965240 GGGTTTTC
1 GGG-TTTC
965248 GGGTTTC
1 GGGTTTC
965255 GGGTTTC
1 GGGTTTC
965262 GGGTTTTC
1 GGG-TTTC
965270 -GG-TTC
1 GGGTTTC
965275 GGGGTGTGTC
1 -GGGT-T-TC
965285 GGGTTGTC
1 GGGTT-TC
965293 GGGTGTTC
1 GGGT-TTC
965301 GGG-TTC
1 GGGTTTC
* *
965307 GGGTGTA
1 GGGTTTC
965314 GGGTTTC
1 GGGTTTC
965321 GGGTTTC
1 GGGTTTC
965328 GGGTTTTC
1 GGG-TTTC
965336 GGGTTTC
1 GGGTTTC
965343 GGG-TTC
1 GGGTTTC
965349 GGGTTTCC
1 GGGTTT-C
965357 GGGTTTC
1 GGGTTTC
965364 GGGTTTC
1 GGGTTTC
965371 -GGTTTC
1 GGGTTTC
*
965377 GGGTTGC
1 GGGTTTC
965384 GGGTTTC
1 GGGTTTC
965391 GGGGTTTC
1 -GGGTTTC
*
965399 GGGTTTT
1 GGGTTTC
965406 GTTCGGTTTC
1 G---GGTTTC
965416 GGGTTTC
1 GGGTTTC
965423 GGGTTATTC
1 GGG-T-TTC
965432 GCGGTTTTCC
1 G-GG-TTT-C
965442 GGGTTTC
1 GGGTTTC
965449 GGG-TTC
1 GGGTTTC
965455 GGGTTTC
1 GGGTTTC
965462 GGGTTTC
1 GGGTTTC
965469 GGGTTTC
1 GGGTTTC
965476 -GGTTTCC
1 GGGTTT-C
965483 GGAGTTTC
1 GG-GTTTC
965491 GGGTTTC
1 GGGTTTC
965498 -GGTTTC
1 GGGTTTC
965504 GGGTTTC
1 GGGTTTC
965511 GGGTTTTAC
1 GGG-TTT-C
965520 GGGTTTC
1 GGGTTTC
965527 -GGTTTC
1 GGGTTTC
965533 GGGTTTC
1 GGGTTTC
965540 GGG-TTC
1 GGGTTTC
965546 GGGTTTC
1 GGGTTTC
965553 -GGTTTC
1 GGGTTTC
965559 GGG-TTC
1 GGGTTTC
965565 GGGTTTC
1 GGGTTTC
965572 GGGTTTC
1 GGGTTTC
965579 GGAGTTTC
1 GG-GTTTC
965587 --GTTTC
1 GGGTTTC
965592 GGGTTTC
1 GGGTTTC
965599 AGGGATTTC
1 -GGG-TTTC
965608 GGGTTTTTC
1 GGG--TTTC
965617 GGGTTTC
1 GGGTTTC
965624 GGGGTTTTTC
1 -GGG--TTTC
965634 GGGTTTC
1 GGGTTTC
*
965641 GGGTATCC
1 GGGT-TTC
965649 GAGGTTTC
1 G-GGTTTC
965657 -GGTGTTC
1 GGGT-TTC
965664 GGG-TTC
1 GGGTTTC
*
965670 GTGTTTC
1 GGGTTTC
965677 GGGTTTC
1 GGGTTTC
965684 GGGTTTTC
1 GGG-TTTC
965692 GGGTTTC
1 GGGTTTC
*
965699 CGGTTTC
1 GGGTTTC
965706 GGAG-TTC
1 GG-GTTTC
965713 GGGTTTC
1 GGGTTTC
965720 GGGTTTC
1 GGGTTTC
965727 GGGTTTTC
1 GGG-TTTC
965735 GGGTTTC
1 GGGTTTC
965742 GGGTTATC
1 GGGTT-TC
965750 GGGTTTTC
1 GGG-TTTC
965758 -GGTTTC
1 GGGTTTC
965764 GGGTTTC
1 GGGTTTC
965771 GGGTTTC
1 GGGTTTC
965778 GGGGTTTTTC
1 -GGG--TTTC
*
965788 GGG-GTC
1 GGGTTTC
965794 GGGTTTC
1 GGGTTTC
965801 GGGTTTTAC
1 GGG-TTT-C
*
965810 -GG-TGC
1 GGGTTTC
965815 GGGTTTC
1 GGGTTTC
965822 GGGTTTC
1 GGGTTTC
965829 GGGTTTC
1 GGGTTTC
965836 GGGTTTC
1 GGGTTTC
965843 -GGTTTC
1 GGGTTTC
965849 GGGTTTTC
1 GGG-TTTC
965857 GGGTTTC
1 GGGTTTC
965864 -GGTTTC
1 GGGTTTC
965870 GGGTTTC
1 GGGTTTC
965877 GGGTTTC
1 GGGTTTC
965884 GGGTTATC
1 GGGTT-TC
*
965892 GGGGTTGC
1 -GGGTTTC
965900 GGGGTTTC
1 -GGGTTTC
965908 GGGTTTC
1 GGGTTTC
965915 GGGTTTC
1 GGGTTTC
965922 GGGTTTC
1 GGGTTTC
965929 -GGTTTC
1 GGGTTTC
965935 GGGTTTC
1 GGGTTTC
965942 GGGTTTC
1 GGGTTTC
965949 GGGTTTTTC
1 GGG--TTTC
*
965958 GGGTTTA
1 GGGTTTC
965965 GGGTTTCC
1 GGGTTT-C
*
965973 GGGGTTC
1 GGGTTTC
965980 GGGTTTC
1 GGGTTTC
965987 GGGTTTC
1 GGGTTTC
965994 GGGTTTTTC
1 GGG--TTTC
966003 -GGTTTC
1 GGGTTTC
966009 GGGTTTCC
1 GGGTTT-C
966017 GGGTTTTC
1 GGG-TTTC
966025 GGGTCTTC
1 GGGT-TTC
966033 -GGTTTC
1 GGGTTTC
966039 GGGTTTC
1 GGGTTTC
966046 GGGTTTC
1 GGGTTTC
966053 -GGTGTTC
1 GGGT-TTC
*
966060 TGGTTTC
1 GGGTTTC
966067 GGGTTTC
1 GGGTTTC
966074 GGGTTTC
1 GGGTTTC
966081 -GG-TTC
1 GGGTTTC
966086 GGGTTTC
1 GGGTTTC
966093 GGGTTTC
1 GGGTTTC
966100 AGGGTTTCTC
1 -GGG-TT-TC
*
966110 GGG-GTC
1 GGGTTTC
*
966116 GGGGTTC
1 GGGTTTC
966123 GGGTTTC
1 GGGTTTC
966130 GGGTTTC
1 GGGTTTC
966137 GGGTTTGC
1 GGGTTT-C
966145 GGGTTT-
1 GGGTTTC
966151 GGGTTTC
1 GGGTTTC
966158 -GGTTTC
1 GGGTTTC
966164 GGGTTTTC
1 GGG-TTTC
*
966172 GGGATTC
1 GGGTTTC
966179 GGGTTTC
1 GGGTTTC
966186 GGGTTTC
1 GGGTTTC
966193 GAGGTTTC
1 G-GGTTTC
966201 GGGTTTC
1 GGGTTTC
966208 GGG-TTC
1 GGGTTTC
966214 GGGTTTC
1 GGGTTTC
966221 GGGTTTGC
1 GGGTTT-C
966229 GGGTTTC
1 GGGTTTC
* *
966236 GTGTGGTC
1 GGGT-TTC
*
966244 CGGTTTC
1 GGGTTTC
966251 GGGTTTTC
1 GGG-TTTC
966259 GGGTTTC
1 GGGTTTC
966266 -GGTTTC
1 GGGTTTC
966272 GGGTTTC
1 GGGTTTC
966279 -GG-TTC
1 GGGTTTC
*
966284 GGGTTGC
1 GGGTTTC
966291 GGGTTTTC
1 GGG-TTTC
966299 GGGTTTC
1 GGGTTTC
966306 GGGCTTTTTC
1 GGG---TTTC
966316 -GGTTTC
1 GGGTTTC
966322 GGGTTTC
1 GGGTTTC
966329 GGGTTTC
1 GGGTTTC
966336 GGGTTTTTTC
1 GGG---TTTC
966346 GGGTTTTC
1 GGG-TTTC
966354 GGGTTTC
1 GGGTTTC
966361 GGG-TTC
1 GGGTTTC
966367 GGG-TTC
1 GGGTTTC
966373 GGGTTTC
1 GGGTTTC
966380 GGGTATTC
1 GGGT-TTC
966388 GGGTTTC
1 GGGTTTC
966395 GGGTTTTC
1 GGG-TTTC
*
966403 ---TCCTC
1 GGGT-TTC
966408 GGGTTTC
1 GGGTTTC
966415 GGGTTTC
1 GGGTTTC
* *
966422 ACGTTTTCC
1 -GGGTTT-C
966431 GGGTTTTC
1 GGG-TTTC
*
966439 ---CTTC
1 GGGTTTC
966443 GGGATTTTC
1 GGG--TTTC
966452 GGGTTTTC
1 GGG-TTTC
966460 GGGTTAATC
1 GGGTT--TC
966469 GGG-TTC
1 GGGTTTC
*
966475 GGGTTCC
1 GGGTTTC
966482 GGG-TT-
1 GGGTTTC
966487 GGG-TTC
1 GGGTTTC
966493 GGGGTTTC
1 -GGGTTTC
*
966501 CGGTTTC
1 GGGTTTC
966508 GGG-TTC
1 GGGTTTC
966514 GGGTTTC
1 GGGTTTC
966521 GGGTTTC
1 GGGTTTC
966528 GGGTTTC
1 GGGTTTC
966535 GGGTTTTTC
1 GGG--TTTC
*
966544 GGCTTTC
1 GGGTTTC
966551 GGGGTTTC
1 -GGGTTTC
966559 GGGTTTC
1 GGGTTTC
966566 GGGTTTC
1 GGGTTTC
*
966573 -GGTTGC
1 GGGTTTC
966579 GGGTTTC
1 GGGTTTC
966586 AGGGTTTC
1 -GGGTTTC
966594 GGG-TTC
1 GGGTTTC
966600 GGGTTTC
1 GGGTTTC
966607 GGGTGTTTC
1 -GG-GTTTC
966616 GGGTTTC
1 GGGTTTC
* *
966623 AGGTGTC
1 GGGTTTC
966630 GGGTTTC
1 GGGTTTC
966637 -GGTTTC
1 GGGTTTC
966643 GGGTTTTTC
1 GGG--TTTC
966652 GGGTTTC
1 GGGTTTC
966659 -GGTTTC
1 GGGTTTC
966665 GGGTTTC
1 GGGTTTC
966672 -GGTTTC
1 GGGTTTC
966678 GGGTTTC
1 GGGTTTC
966685 GGGTTTTCC
1 GGG-TTT-C
*
966694 GGTTTTC
1 GGGTTTC
966701 GGGTTTTTC
1 GGG--TTTC
966710 GGGTTTC
1 GGGTTTC
966717 GGGTTTC
1 GGGTTTC
966724 AGGGTTTC
1 -GGGTTTC
*
966732 GGGTTGTA
1 GGGTT-TC
*
966740 GGG-TGC
1 GGGTTTC
966746 -GGTTTC
1 GGGTTTC
966752 AGGGTTTC
1 -GGGTTTC
966760 GGGTATTC
1 GGGT-TTC
966768 GGGTTTC
1 GGGTTTC
966775 GGGTTTC
1 GGGTTTC
*
966782 -GGTTGC
1 GGGTTTC
966788 GGGTTTC
1 GGGTTTC
966795 GGGTTTC
1 GGGTTTC
966802 GGGTTTTC
1 GGG-TTTC
966810 -GGTTTCC
1 GGGTTT-C
*
966817 GGGATTC
1 GGGTTTC
966824 GGGTTTC
1 GGGTTTC
*
966831 GGGTTGC
1 GGGTTTC
966838 GGGTTTC
1 GGGTTTC
966845 -GG-TTC
1 GGGTTTC
966850 -GGTTTC
1 GGGTTTC
966856 GGGTTTC
1 GGGTTTC
966863 GGGTTTC
1 GGGTTTC
966870 AGGGTTTC
1 -GGGTTTC
966878 GGGGTTTTC
1 -GGG-TTTC
966887 -GGTTTC
1 GGGTTTC
966893 GGGTTTC
1 GGGTTTC
*
966900 ---TCTC
1 GGGTTTC
966904 GGG-TTC
1 GGGTTTC
966910 GGGTTTC
1 GGGTTTC
966917 GGGGGTTCTTC
1 --GGG-T-TTC
966928 GGGGTTTTTC
1 -GGG--TTTC
*
966938 GGGTTACC
1 GGGTT-TC
966946 GGGTTTCC
1 GGGTTT-C
*
966954 GGGTTTT
1 GGGTTTC
*** **
966961 ATCTCACC
1 GGGT-TTC
*
966969 GGGTGTC
1 GGGTTTC
* *
966976 --CTCTC
1 GGGTTTC
966981 GGGATTTC
1 GGG-TTTC
966989 GGGTTTC
1 GGGTTTC
*
966996 GGGTGTCGCC
1 GGGT-T--TC
967006 GGGTTTCC
1 GGGTTT-C
967014 GGGTTTC
1 GGGTTTC
967021 GGGTTTTC
1 GGG-TTTC
967029 GGGTTTCC
1 GGGTTT-C
967037 GGAAGTTTC
1 GG--GTTTC
967046 -GGTTTC
1 GGGTTTC
*
967052 GGGTGTC
1 GGGTTTC
967059 GGGTATTC
1 GGGT-TTC
967067 GGGTTGCTC
1 GGGTT--TC
967076 GGGTTTAGCTC
1 GGG-TT---TC
967087 GGGTTTCGC
1 GGGTTT--C
967096 GGGTTTC
1 GGGTTTC
967103 GGGTTATC
1 GGGTT-TC
967111 ---TCTTC
1 GGGT-TTC
*
967116 GGGTTGC
1 GGGTTTC
967123 AGGG-TTC
1 -GGGTTTC
*
967130 GGCTTTAC
1 GGGTTT-C
967138 GGGGTTGCTTC
1 -GGG-T--TTC
*
967149 GGCGTTCC
1 GG-GTTTC
967157 GGGTTTC
1 GGGTTTC
967164 GGGCGTTTCGC
1 -GG-GTTT--C
967175 GGGTTTC
1 GGGTTTC
967182 GGGTTTTC
1 GGG-TTTC
*
967190 --CTTTC
1 GGGTTTC
967195 GGGTTATC
1 GGGTT-TC
967203 GGGTATGCTC
1 GGGT-T--TC
967213 GGGGCTTATTC
1 -GGG--T-TTC
967224 AGTCCGGTTT-
1 -G---GGTTTC
*
967234 --TTTTCC
1 GGGTTT-C
967240 TGGGTTTCTC
1 -GGG-TT-TC
967250 GGG-TTC
1 GGGTTTC
*
967256 -GTTTTC
1 GGGTTTC
967262 GAGGTTTCCCC
1 G-GGTTT---C
967273 GGGTTTC
1 GGGTTTC
*
967280 GGGTTTA
1 GGGTTTC
967287 GGGTTTC
1 GGGTTTC
967294 GGGTTTC
1 GGGTTTC
967301 GGGTATTTC
1 GGG--TTTC
967310 GAGGATTCTTCC
1 G-GG--T-TT-C
967322 GGGTTTC
1 GGGTTTC
*
967329 CGGTTTC
1 GGGTTTC
*
967336 ACGGTTTCAC
1 -GGGTTT--C
967346 GGGTTTC
1 GGGTTTC
967353 GGGTTTC
1 GGGTTTC
*
967360 GGGTGTC
1 GGGTTTC
967367 GGGTTTC
1 GGGTTTC
967374 GGGTTTC
1 GGGTTTC
967381 GGGTTATCC
1 GGGTT-T-C
967390 GGGTTTCTC
1 GGG-TT-TC
*
967399 GGGTATCTA
1 GGGT-T-TC
967408 GGGTTTC
1 GGGTTTC
967415 GGGTTTGC
1 GGGTTT-C
967423 GAGGTTTAC
1 G-GGTTT-C
967432 GGGTTTTTAC
1 GGG--TTT-C
**
967442 GGTGGATC
1 GG-GTTTC
967450 GGGTTTTTC
1 GGG--TTTC
967459 GGGTTAGTC
1 GGGTT--TC
967468 GGG-TTC
1 GGGTTTC
967474 GGGTTTC
1 GGGTTTC
967481 GGGTTTTCC
1 GGG-TTT-C
967490 GGG-TTC
1 GGGTTTC
967496 GGGATTTC
1 GGG-TTTC
967504 -GGTTATCC
1 GGGTT-T-C
967512 AGGGTAATTTC
1 -GGG---TTTC
**
967523 --ACTTC
1 GGGTTTC
*
967528 GGGGTTC
1 GGGTTTC
967535 GGGTTATTC
1 GGG-T-TTC
967544 GGGTTTTC
1 GGG-TTTC
967552 GGGTTTC
1 GGGTTTC
967559 GGGTTTTC
1 GGG-TTTC
967567 GGGTTTC
1 GGGTTTC
967574 GAGGTTTC
1 G-GGTTTC
*
967582 GGGGTTTT
1 -GGGTTTC
*
967590 AGGTTTC
1 GGGTTTC
967597 GGGTTGTC
1 GGGTT-TC
*
967605 GGGGTTAC
1 -GGGTTTC
967613 GGGTTTC
1 GGGTTTC
967620 GGGTTTC
1 GGGTTTC
*
967627 GGGTTGC
1 GGGTTTC
967634 GGGTTTTC
1 GGG-TTTC
967642 GGGTTT
1 GGGTTT
967648 AATCGGGTTC
Statistics
Matches: 3629, Mismatches: 300, Indels: 898
0.75 0.06 0.19
Matches are distributed among these distances:
4 15 0.00
5 60 0.02
6 450 0.12
7 1783 0.49
8 804 0.22
9 327 0.09
10 123 0.03
11 50 0.01
12 9 0.00
13 6 0.00
14 2 0.00
ACGTcount: A:0.04, C:0.13, G:0.42, T:0.41
Consensus pattern (7 bp):
GGGTTTC
Found at i:967859 original size:14 final size:14
Alignment explanation
Indices: 967840--967866 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
967830 CCGGAGTTTC
967840 CGGGTTTCGGGTTG
1 CGGGTTTCGGGTTG
967854 CGGGTTTCGGGTT
1 CGGGTTTCGGGTT
967867 ATCAGGGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.48, T:0.37
Consensus pattern (14 bp):
CGGGTTTCGGGTTG
Found at i:967931 original size:7 final size:7
Alignment explanation
Indices: 967911--967986 Score: 77
Period size: 7 Copynumber: 10.6 Consensus size: 7
967901 TTTCGACGGA
967911 GTTTCGG
1 GTTTCGG
967918 G-TTCGG
1 GTTTCGG
967924 GTTTCGG
1 GTTTCGG
967931 GTTTCGG
1 GTTTCGG
967938 GTTCTCGG
1 GTT-TCGG
*
967946 AGTTTCAG
1 -GTTTCGG
967954 G-TTC-G
1 GTTTCGG
967959 GTTTCGG
1 GTTTCGG
967966 GATTTCAGG
1 G-TTTC-GG
967975 GTTTCGG
1 GTTTCGG
967982 AGTTT
1 -GTTT
967987 TATCAGGGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 15
0.79 0.01 0.20
Matches are distributed among these distances:
5 2 0.03
6 12 0.20
7 21 0.35
8 19 0.32
9 6 0.10
ACGTcount: A:0.07, C:0.14, G:0.38, T:0.41
Consensus pattern (7 bp):
GTTTCGG
Done.