Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 23 of 356
Found at i:7960985 original size:21 final size:21
Alignment explanation
Indices: 7960929--7961002 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
7960919 ATATTATTAA
* * *
7960929 TTTTAAAAAATTTATAATATA
1 TTTTTAAAATTTTATAATATT
*
7960950 TATTTAAAATGTTTTATAATATT
1 TTTTTAAAA--TTTTATAATATT
*
7960973 TTTTTAAAATTTTA-ATTATT
1 TTTTTAAAATTTTATAATATT
7960993 ATTTTTAAAA
1 -TTTTTAAAA
7961003 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.11
21 21 0.48
23 18 0.41
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTATAATATT
Found at i:7961003 original size:22 final size:23
Alignment explanation
Indices: 7960916--7961004 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
7960906 GCTTATTTAA
* *
7960916 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAAAT
* * *
7960939 TTTATAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAA-AT
*
7960962 TTTATAATATT-TTTTT-AAAAT
1 TTTATATTATTATTTTTAAAAAT
7960983 TTTA-ATTATTATTTTTAAAAAT
1 TTTATATTATTATTTTTAAAAAT
7961005 ATTTTTTAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.09
21 10 0.19
22 17 0.31
23 21 0.39
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAAAT
Found at i:7961012 original size:34 final size:36
Alignment explanation
Indices: 7960967--7961066 Score: 95
Period size: 37 Copynumber: 2.9 Consensus size: 36
7960957 AATGTTTTAT
*
7960967 AATATTTTTTTAAAATTTTAAT-TAT-TATTTTTAAA
1 AATA-TTTTTTAAAATTTTAATATATATATTTGTAAA
*
7961002 AATATTTTTT--AACTTT-ATATATATATTTGTAAA
1 AATATTTTTTAAAATTTTAATATATATATTTGTAAA
* *
7961035 ATTAATTTTTTATAAATTTTAA-AAATATATTT
1 AAT-ATTTTTTA-AAATTTTAATATATATATTT
7961067 TTCAAATTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
31 2 0.04
32 8 0.15
33 11 0.21
34 13 0.25
35 4 0.08
37 14 0.26
38 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
AATATTTTTTAAAATTTTAATATATATATTTGTAAA
Found at i:7961053 original size:24 final size:24
Alignment explanation
Indices: 7961021--7961068 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7961011 TAACTTTATA
* *
7961021 TATATATTTGTAAAATTA-ATTTTT
1 TATAAATTT-TAAAAATATATTTTT
7961045 TATAAATTTTAAAAATATATTTTT
1 TATAAATTTTAAAAATATATTTTT
7961069 CAAATTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TATAAATTTTAAAAATATATTTTT
Found at i:7961290 original size:18 final size:18
Alignment explanation
Indices: 7961267--7961313 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
7961257 GTGATTATTA
7961267 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
7961285 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
7961301 ATATA-TTAAATAT
1 ATAAATTTAAATAT
7961314 TATTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 1 0.04
18 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:7961511 original size:27 final size:26
Alignment explanation
Indices: 7961481--7961549 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
7961471 AAATTTTAAA
*
7961481 TATAATTTTTAAATACATTTAAAAAAT
1 TATAATTTTTAAATA-ATATAAAAAAT
* *
7961508 TATAATTTTTTAATAATATAAGAAAT
1 TATAATTTTTAAATAATATAAAAAAT
*
7961534 CATAATATTTTAAATA
1 TATAAT-TTTTAAATA
7961550 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (26 bp):
TATAATTTTTAAATAATATAAAAAAT
Found at i:7961533 original size:26 final size:27
Alignment explanation
Indices: 7961481--7961546 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
7961471 AAATTTTAAA
* *
7961481 TATAATTTTTAAATACATTTAAAAAAT
1 TATAATTTTTTAATACATATAAAAAAT
*
7961508 TATAATTTTTTAATA-ATATAAGAAAT
1 TATAATTTTTTAATACATATAAAAAAT
* *
7961534 CATAATATTTTAA
1 TATAATTTTTTAA
7961547 ATATTTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
TATAATTTTTTAATACATATAAAAAAT
Found at i:7961597 original size:35 final size:35
Alignment explanation
Indices: 7961551--7961617 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
7961541 TTTTAAATAT
* *
7961551 TTTTTTAAAATTTTGTCTTTTTTCCTTTTTTTTAC
1 TTTTTTAAAATTTTATCTTTTTTCCTTATTTTTAC
* * *
7961586 TTTTTTGAAATTTTATGTTTTTTTCTTATTTT
1 TTTTTTAAAATTTTATCTTTTTTCCTTATTTT
7961618 ATTTTGTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.73
Consensus pattern (35 bp):
TTTTTTAAAATTTTATCTTTTTTCCTTATTTTTAC
Found at i:7961687 original size:21 final size:21
Alignment explanation
Indices: 7961645--7961690 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
7961635 TATTATTAAT
*
7961645 TTTAAAAATTTTGTAATGTATA
1 TTTAAAAATTTTATAA-GTATA
7961667 TTTAAAATATTTTATAA-TATA
1 TTTAAAA-ATTTTATAAGTATA
7961688 TTT
1 TTT
7961691 TTTACAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAAAAATTTTATAAGTATA
Found at i:7961706 original size:21 final size:21
Alignment explanation
Indices: 7961675--7961721 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
7961665 TATTTAAAAT
7961675 ATTTTATAATA-TATTTTTTACA
1 ATTTTATAATATTA-TTTTTA-A
7961697 ATTTTA-AATATTATTTTTAA
1 ATTTTATAATATTATTTTTAA
7961717 ATTTT
1 ATTTT
7961722 TTTTAACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.25
21 10 0.42
22 8 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATAATATTATTTTTAA
Found at i:7961722 original size:21 final size:22
Alignment explanation
Indices: 7961644--7961722 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 22
7961634 TTATTATTAA
* * * *
7961644 TTTTAAAAATTTTGTAATGTAT
1 TTTTTAAATTTTTATAATATAT
* *
7961666 ATTTAAAATATTTTATAATATAT
1 TTTTTAAAT-TTTTATAATATAT
7961689 TTTTTACAA-TTTTA-AATAT-T
1 TTTTTA-AATTTTTATAATATAT
7961709 ATTTTTAAATTTTT
1 -TTTTTAAATTTTT
7961723 TTTAACATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 3 0.06
21 15 0.32
22 12 0.26
23 15 0.32
24 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (22 bp):
TTTTTAAATTTTTATAATATAT
Found at i:7961850 original size:18 final size:18
Alignment explanation
Indices: 7961827--7961876 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
7961817 GTGACTATTA
7961827 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
7961845 ATAAATTTTAAA-ATATAT
1 ATAAA-TTTAAATATAAAT
*
7961863 ATTAA-TTAAATATA
1 ATAAATTTAAATATA
7961877 TTTTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 5 0.18
17 3 0.11
18 14 0.50
19 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:7963829 original size:20 final size:20
Alignment explanation
Indices: 7963751--7963840 Score: 62
Period size: 20 Copynumber: 4.5 Consensus size: 20
7963741 ATATATTTTC
*
7963751 AAATTATTTTTTAA-ATATTA
1 AAATGATTTTTTAATAT-TTA
*
7963771 AATAT-ATATTTTAATATTATA
1 AA-ATGATTTTTTAATATT-TA
* **
7963792 AAA-CA-TTTAAAATGATTTA
1 AAATGATTTTTTAAT-ATTTA
*
7963811 AAATGATTTTTTAATATTTT
1 AAATGATTTTTTAATATTTA
7963831 AAATGATTTT
1 AAATGATTTT
7963841 AAATATTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
19 10 0.18
20 31 0.56
21 14 0.25
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATGATTTTTTAATATTTA
Found at i:7963850 original size:20 final size:21
Alignment explanation
Indices: 7963811--7963855 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
7963801 AAATGATTTA
*
7963811 AAATGATTTTTTAATA-TTTT
1 AAATGATTTTTAAATATTTTT
7963831 AAATGA-TTTTAAATATTTTTT
1 AAATGATTTTTAAATA-TTTTT
7963852 AAAT
1 AAAT
7963856 TTTACATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
AAATGATTTTTAAATATTTTT
Found at i:7963877 original size:29 final size:29
Alignment explanation
Indices: 7963796--7963859 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
7963786 ATTATAAAAC
* *
7963796 ATTTAAAATGATTTAAAATGATTTTTTAAT
1 ATTTTAAATGATTTTAAAT-ATTTTTTAAT
7963826 ATTTTAAATGATTTTAAATATTTTTTAA-
1 ATTTTAAATGATTTTAAATATTTTTTAAT
7963854 ATTTTA
1 ATTTTA
7963860 CATAGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 6 0.19
29 9 0.28
30 17 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (29 bp):
ATTTTAAATGATTTTAAATATTTTTTAAT
Found at i:7964633 original size:22 final size:24
Alignment explanation
Indices: 7964605--7964691 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 24
7964595 TAAAAAATAT
7964605 TTTTAAAAATAATAAT-TAAAA-A
1 TTTTAAAAATAATAATATAAAACA
*
7964627 TTTT-AAAA-AATATTATAAAACA
1 TTTTAAAAATAATAATATAAAACA
* **
7964649 TTTTAAATAT-AT-AT-TACAAATT
1 TTTTAAAAATAATAATATA-AAACA
*
7964671 TTTTAAAATTAATAATATAAA
1 TTTTAAAAATAATAATATAAA
7964692 TTAAATAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
20 5 0.10
21 11 0.22
22 21 0.42
23 7 0.14
24 4 0.08
25 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTTAAAAATAATAATATAAAACA
Found at i:7964635 original size:23 final size:22
Alignment explanation
Indices: 7964598--7964655 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
7964588 ATAAAGTTAA
* *
7964598 AAAATATTTTTAAAAATAATAATT
1 AAAACATTTTAAAAAAT-ATAA-T
*
7964622 AAAA-ATTTTAAAAAATATTAT
1 AAAACATTTTAAAAAATATAAT
7964643 AAAACATTTTAAA
1 AAAACATTTTAAA
7964656 TATATATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 11 0.35
23 11 0.35
24 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAACATTTTAAAAAATATAAT
Found at i:7964640 original size:35 final size:35
Alignment explanation
Indices: 7964519--7964637 Score: 113
Period size: 35 Copynumber: 3.4 Consensus size: 35
7964509 TTATTTTTTT
* *
7964519 AAAATTTTAAAAAATTAATTTGAAAAATACAT-TTT
1 AAAATTTTAAAAAATTAATTTTAAAAATA-ATATTA
*
7964554 AAAATTTTATAAATAATTAATTTTACAAAT-ATA-TA
1 AAAATTTTA-AAA-AATTAATTTTAAAAATAATATTA
* * *
7964589 TAAA-GTTAAAAAA-TATTTTTAAAAATAATAATTA
1 AAAATTTTAAAAAATTAATTTTAAAAATAAT-ATTA
7964623 AAAATTTTAAAAAAT
1 AAAATTTTAAAAAAT
7964638 ATTATAAAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
31 11 0.16
32 4 0.06
33 4 0.06
34 8 0.12
35 23 0.34
36 3 0.04
37 14 0.21
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (35 bp):
AAAATTTTAAAAAATTAATTTTAAAAATAATATTA
Found at i:7964692 original size:23 final size:22
Alignment explanation
Indices: 7964603--7964693 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
7964593 GTTAAAAAAT
*
7964603 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
** *
7964624 AAATTTTAAAA-AATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
7964646 ACATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
7964668 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
7964691 ATT
1 ATT
7964694 AAATAAGTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 5 0.09
21 12 0.22
22 16 0.30
23 19 0.35
24 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:7964726 original size:18 final size:18
Alignment explanation
Indices: 7964676--7964727 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
7964666 AAATTTTTTA
*
7964676 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
7964694 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
7964712 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
7964728 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:7964783 original size:9 final size:9
Alignment explanation
Indices: 7964763--7964802 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
7964753 AAAATATAAG
7964763 AAAAAAGT-
1 AAAAAAGTA
7964771 AAAAAAGTA
1 AAAAAAGTA
7964780 AAAAAAGTAA
1 AAAAAAGT-A
7964790 AAAAAAGTA
1 AAAAAAGTA
7964799 AAAA
1 AAAA
7964803 TAAAATAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.27
9 13 0.43
10 9 0.30
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAAGTA
Found at i:7964802 original size:8 final size:8
Alignment explanation
Indices: 7964763--7964793 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
7964753 AAAATATAAG
7964763 AAAAAAGT
1 AAAAAAGT
7964771 AAAAAAGT
1 AAAAAAGT
7964779 AAAAAAAGT
1 -AAAAAAGT
7964788 AAAAAA
1 AAAAAA
7964794 AAGTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:7966213 original size:74 final size:74
Alignment explanation
Indices: 7966077--7966216 Score: 183
Period size: 74 Copynumber: 1.9 Consensus size: 74
7966067 AATAAACAAC
* * * ** * * *
7966077 AAAATCTCACGAGAAAATATTATGACAATTAAAAAGGACAAAGATGATAAACTCCCATTAAAGCA
1 AAAATCCCACAAGAAAATATTATCACAACAAAAAAAGACAAAGATGATAAACTCCAAATAAAGCA
7966142 CGCAATGAT
66 CGCAATGAT
*
7966151 AAAATCCCACAAGAAAATATTATCACAACAAAAAAAGACAAAGATG-TCAATCTCCAAATAAAGC
1 AAAATCCCACAAGAAAATATTATCACAACAAAAAAAGACAAAGATGAT-AAACTCCAAATAAAGC
7966215 AC
65 AC
7966217 ACACCCTGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 1 0.02
74 55 0.98
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.18
Consensus pattern (74 bp):
AAAATCCCACAAGAAAATATTATCACAACAAAAAAAGACAAAGATGATAAACTCCAAATAAAGCA
CGCAATGAT
Found at i:7973902 original size:18 final size:18
Alignment explanation
Indices: 7973875--7973910 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7973865 ACTAAAGTTT
* *
7973875 TATTTTAATAATTTTATA
1 TATTTCAATAATATTATA
7973893 TATTTCAATAATATTATA
1 TATTTCAATAATATTATA
7973911 CAAATATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTCAATAATATTATA
Found at i:7976588 original size:36 final size:37
Alignment explanation
Indices: 7976516--7976589 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
7976506 ATTTTTTCAT
* *
7976516 ATTTCTATATAATTTTGATCAATTATTTATTTAATAAA
1 ATTTATATATAATTTTGATCAATTA-TTATTAAATAAA
*
7976554 ATTTATATATAATTTT-ATCACTTCA-TATTAAATAAA
1 ATTTATATATAATTTTGATCAATT-ATTATTAAATAAA
7976590 TTTTCAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 10 0.31
37 6 0.19
38 16 0.50
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (37 bp):
ATTTATATATAATTTTGATCAATTATTATTAAATAAA
Found at i:7982930 original size:15 final size:15
Alignment explanation
Indices: 7982910--7982940 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7982900 TTGAAGGTAA
7982910 TTTGATTTTTGAATT
1 TTTGATTTTTGAATT
7982925 TTTGATTTTTGAATT
1 TTTGATTTTTGAATT
7982940 T
1 T
7982941 GATTGGGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (15 bp):
TTTGATTTTTGAATT
Found at i:7992225 original size:54 final size:54
Alignment explanation
Indices: 7992144--7992266 Score: 212
Period size: 54 Copynumber: 2.3 Consensus size: 54
7992134 TGAGGTGTAA
* *
7992144 GTCCATGCA-AACTTTTCGTTACCACAATCCTGGCATGATTCTTTCACAATATT
1 GTCCATGCAGGACTTGTCGTTACCACAATCCTGGCATGATTCTTTCACAATATT
*
7992197 GTCCATGCAGGACTTGTCGTTACCACAATCCTGGCATGATTCTTTCACGATATT
1 GTCCATGCAGGACTTGTCGTTACCACAATCCTGGCATGATTCTTTCACAATATT
7992251 GTCCATGCAGGACTTG
1 GTCCATGCAGGACTTG
7992267 ACATGACCCA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 9 0.14
54 57 0.86
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (54 bp):
GTCCATGCAGGACTTGTCGTTACCACAATCCTGGCATGATTCTTTCACAATATT
Found at i:7996896 original size:15 final size:16
Alignment explanation
Indices: 7996868--7996901 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7996858 GAACTGTTAG
*
7996868 TTTTTTCTATTAATTC
1 TTTTTTCTAATAATTC
7996884 TTTTTT-TAATAATTC
1 TTTTTTCTAATAATTC
7996899 TTT
1 TTT
7996902 GATTTGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTCTAATAATTC
Found at i:8001441 original size:19 final size:19
Alignment explanation
Indices: 8001417--8001483 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
8001407 TGTACTGATA
*
8001417 ATTTTTTATAACAATTAAT
1 ATTTTTTATAAAAATTAAT
8001436 ATTTTTAAACTATAAAAATTAAT
1 ATTTTT----TATAAAAATTAAT
**
8001459 ATTTTTTATAGTAATTAAT
1 ATTTTTTATAAAAATTAAT
8001478 ATTTTT
1 ATTTTT
8001484 AATTTAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 23 0.56
23 18 0.44
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (19 bp):
ATTTTTTATAAAAATTAAT
Found at i:8007373 original size:10 final size:9
Alignment explanation
Indices: 8007343--8007372 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8007333 TGTTTTCTTG
*
8007343 TTTCTTGTT
1 TTTCTTTTT
8007352 TTTCTTTTT
1 TTTCTTTTT
8007361 TTTCTTTTT
1 TTTCTTTTT
8007370 TTT
1 TTT
8007373 TACTGAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:8034504 original size:18 final size:20
Alignment explanation
Indices: 8034468--8034504 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
8034458 TAATTTTATC
8034468 TAAAACTATCTATAATAATG
1 TAAAACTATCTATAATAATG
*
8034488 TAAAA-TAT-TATATTAAT
1 TAAAACTATCTATAATAAT
8034505 AAAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAACTATCTATAATAATG
Found at i:8034900 original size:22 final size:24
Alignment explanation
Indices: 8034873--8034919 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8034863 AATTTATACT
8034873 TTTTGGT-C-GCACTTTATAATCA
1 TTTTGGTACAGCACTTTATAATCA
**
8034895 TTTTGGTACATTACTTTATAATCA
1 TTTTGGTACAGCACTTTATAATCA
8034919 T
1 T
8034920 ACATTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.49
Consensus pattern (24 bp):
TTTTGGTACAGCACTTTATAATCA
Found at i:8035328 original size:3 final size:3
Alignment explanation
Indices: 8035320--8035344 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8035310 CTAAACCCAC
8035320 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
8035345 TAAAAAGGAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8048633 original size:112 final size:112
Alignment explanation
Indices: 8048431--8048646 Score: 371
Period size: 112 Copynumber: 1.9 Consensus size: 112
8048421 CATACAATTC
* * * *
8048431 ATTATTATGAATATTTTTTATTATTGGATTAATAGAAGTTTCTTCATTAATTATTCAAAATAAAA
1 ATTAATATGAATATCTTTTATCATTGGATTAATAGAAGTTTCTTCATTAATTATTCAAAACAAAA
8048496 GTAAATAATGAGCTAAGCTAACTTGGCATTAAATAAAAACACGATTT
66 GTAAATAATGAGCTAAGCTAACTTGGCATTAAATAAAAACACGATTT
8048543 ATTAATATGAATATCTTTTATCATTGGATTAAT-GAGAGTTTCTTCATTAATTATTCAAAACAAA
1 ATTAATATGAATATCTTTTATCATTGGATTAATAGA-AGTTTCTTCATTAATTATTCAAAACAAA
*
8048607 AGTAAATAATGGGCTAAGCTAACTTGGCATTAAATAAAAA
65 AGTAAATAATGAGCTAAGCTAACTTGGCATTAAATAAAAA
8048647 TGAGCATCAC
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 2 0.02
112 96 0.98
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.38
Consensus pattern (112 bp):
ATTAATATGAATATCTTTTATCATTGGATTAATAGAAGTTTCTTCATTAATTATTCAAAACAAAA
GTAAATAATGAGCTAAGCTAACTTGGCATTAAATAAAAACACGATTT
Found at i:8050016 original size:24 final size:23
Alignment explanation
Indices: 8049977--8050042 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
8049967 GTCTAAAAAA
8049977 TTAATAATTTTT---TTATATTTC
1 TTAATAATTTTTAAATTAT-TTTC
*
8049998 TTAATAATTTTTAAATTATTTTT
1 TTAATAATTTTTAAATTATTTTC
* *
8050021 TTTATAAATTTTATAATTATTT
1 TTAATAATTTTTA-AATTATTT
8050043 AAGAAACCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 12 0.32
23 14 0.37
24 12 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTAATAATTTTTAAATTATTTTC
Found at i:8053809 original size:20 final size:20
Alignment explanation
Indices: 8053746--8053819 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
8053736 CGTGTGGTTC
8053746 AACTCATTCGAGCTCAAGTT
1 AACTCATTCGAGCTCAAGTT
* * * *
8053766 AGCTCATTCGTGCTTAAGTC
1 AACTCATTCGAGCTCAAGTT
* *
8053786 AACTCATTCAAGCTCAATTT
1 AACTCATTCGAGCTCAAGTT
*
8053806 AACTCGTT-GAGCTC
1 AACTCATTCGAGCTC
8053820 GTTATTAGCT
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 5 0.12
20 37 0.88
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (20 bp):
AACTCATTCGAGCTCAAGTT
Found at i:8054139 original size:45 final size:45
Alignment explanation
Indices: 8054089--8054397 Score: 537
Period size: 45 Copynumber: 6.9 Consensus size: 45
8054079 AAGAGGTGGA
8054089 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
8054134 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
**
8054179 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTTAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
8054224 CAACATCATTCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
8054269 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
8054314 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
* * * *
8054359 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
8054398 CCATGGCCGA
Statistics
Matches: 250, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 250 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
Found at i:8055668 original size:21 final size:21
Alignment explanation
Indices: 8055642--8055683 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8055632 AGTTGTTGTG
*
8055642 AGATTA-ATTATTATAGTGGTA
1 AGATTAGA-TATTATAGCGGTA
8055663 AGATTAGATATTATAGCGGTA
1 AGATTAGATATTATAGCGGTA
8055684 GAAATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (21 bp):
AGATTAGATATTATAGCGGTA
Found at i:8055691 original size:21 final size:21
Alignment explanation
Indices: 8055650--8055691 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8055640 TGAGATTAAT
* *
8055650 TATTATAGTGGTAAGATTAGA
1 TATTATAGCGGTAAGAATAGA
8055671 TATTATAGCGGT-AGAAATAGA
1 TATTATAGCGGTAAG-AATAGA
8055692 AATAGCGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.33
Consensus pattern (21 bp):
TATTATAGCGGTAAGAATAGA
Found at i:8057078 original size:24 final size:22
Alignment explanation
Indices: 8057049--8057100 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
8057039 AAAATTATTT
8057049 TATATTAAATAACAATTAAACTTA
1 TATATT-AATAACAA-TAAACTTA
* * *
8057073 TATATTTATGACAATAAATTTA
1 TATATTAATAACAATAAACTTA
8057095 TATATT
1 TATATT
8057101 TATTAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.52
23 6 0.24
24 6 0.24
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATTAATAACAATAAACTTA
Found at i:8057090 original size:22 final size:23
Alignment explanation
Indices: 8057060--8057103 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
8057050 ATATTAAATA
8057060 ACAATTAAACTTATATATTTATG
1 ACAATTAAACTTATATATTTATG
*
8057083 ACAA-TAAATTTATATATTTAT
1 ACAATTAAACTTATATATTTAT
8057104 TAAATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (23 bp):
ACAATTAAACTTATATATTTATG
Found at i:8060143 original size:22 final size:22
Alignment explanation
Indices: 8060115--8060182 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
8060105 CCTATTGTTG
8060115 TTTTGTTATTATTTTTTCATTA
1 TTTTGTTATTATTTTTTCATTA
* *
8060137 TTTTGTTATCA-TTTTGCAATTA
1 TTTTGTTATTATTTTTTC-ATTA
* *
8060159 TATTGCTATTATTATTTT-ATTA
1 TTTTGTTATTATT-TTTTCATTA
8060181 TT
1 TT
8060183 ATTTAGGTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
21 5 0.14
22 27 0.75
23 1 0.03
24 3 0.08
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (22 bp):
TTTTGTTATTATTTTTTCATTA
Found at i:8060150 original size:11 final size:11
Alignment explanation
Indices: 8060115--8060182 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
8060105 CCTATTGTTG
8060115 TTTTGTTATTA
1 TTTTGTTATTA
8060126 TTTT-TTCATTA
1 TTTTGTT-ATTA
*
8060137 TTTTGTTATCA
1 TTTTGTTATTA
**
8060148 TTTTGCAATTA
1 TTTTGTTATTA
* *
8060159 TATTGCTATTA
1 TTTTGTTATTA
8060170 TTATT-TTATTA
1 TT-TTGTTATTA
8060181 TT
1 TT
8060183 ATTTAGGTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
10 2 0.04
11 40 0.87
12 4 0.09
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:8066202 original size:9 final size:9
Alignment explanation
Indices: 8066140--8066212 Score: 58
Period size: 11 Copynumber: 7.6 Consensus size: 9
8066130 CAAAAATTAA
*
8066140 AAAAAAATT
1 AAAAAATTT
8066149 AAAATAATTTT
1 AAAA-AA-TTT
*
8066160 CAAAAATTT
1 AAAAAATTT
*
8066169 AAAATTTATTT
1 AAAA--AATTT
8066180 AAAAAATATAT
1 AAAAAAT-T-T
8066191 AAAAAATTT
1 AAAAAATTT
8066200 -AAAAATTT
1 AAAAAATTT
8066208 AAAAA
1 AAAAA
8066213 TTTTCTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
8 8 0.15
9 17 0.33
10 6 0.12
11 21 0.40
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAAATTT
Found at i:8066534 original size:12 final size:12
Alignment explanation
Indices: 8066517--8066541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8066507 AATCAAACGC
8066517 TCACCACTAATA
1 TCACCACTAATA
8066529 TCACCACTAATA
1 TCACCACTAATA
8066541 T
1 T
8066542 AAAGTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (12 bp):
TCACCACTAATA
Found at i:8073412 original size:23 final size:22
Alignment explanation
Indices: 8073343--8073418 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
8073333 TCCTGATCAG
** *
8073343 AATACGACACATAAAGTGCCTA
1 AATACGACACACGAGGTGCCTA
* *
8073365 AA-ACGACACACGAGTTGTCT-
1 AATACGACACACGAGGTGCCTA
*
8073385 GATACGACACACGAGGTGCCTAA
1 AATACGACACACGAGGTGCCT-A
8073408 AATACGACACA
1 AATACGACACA
8073419 TAAAGTGTCT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.02
21 29 0.69
22 2 0.05
23 10 0.24
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (22 bp):
AATACGACACACGAGGTGCCTA
Found at i:8075284 original size:13 final size:13
Alignment explanation
Indices: 8075268--8075305 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
8075258 ATGATGGTTT
8075268 ATAATTATATATA
1 ATAATTATATATA
8075281 ATAA-T-TATATA
1 ATAATTATATATA
*
8075292 ATATTTATATATA
1 ATAATTATATATA
8075305 A
1 A
8075306 CCTAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATTATATATA
Found at i:8086885 original size:23 final size:23
Alignment explanation
Indices: 8086859--8086904 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8086849 AGGAATGCAA
**
8086859 TGCTTTCCTTTTAATTTTTATTT
1 TGCTTTCCTTTTAAGGTTTATTT
*
8086882 TGCTTTGCTTTTAAGGTTTATTT
1 TGCTTTCCTTTTAAGGTTTATTT
8086905 GTTTATCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.65
Consensus pattern (23 bp):
TGCTTTCCTTTTAAGGTTTATTT
Found at i:8088373 original size:20 final size:18
Alignment explanation
Indices: 8088348--8088384 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
8088338 ATTGCTAAGT
8088348 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
8088368 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
8088385 TATGAGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:8088993 original size:46 final size:45
Alignment explanation
Indices: 8088941--8089116 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
8088931 TGGTTGAGCA
8088941 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
8088987 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
8089032 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
8089080 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8089117 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:8089097 original size:93 final size:93
Alignment explanation
Indices: 8088938--8089108 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
8088928 GGATGGTTGA
* * **
8088938 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
8089003 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
* *
8089031 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
8089096 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
8089109 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:8090631 original size:46 final size:46
Alignment explanation
Indices: 8090488--8090699 Score: 180
Period size: 46 Copynumber: 4.6 Consensus size: 46
8090478 AGATTTGTGT
* * * * *
8090488 GCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
* * * * *
8090536 GCTAGTGGAAGACATGTTTGGGACATGCATCAGCCAC-AGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-ATGAGA
* **
8090582 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
* * * * * *
8090628 GCCAATGTCAGACATGTCTAGGACATGCGTCGG-TTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
*
8090672 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
8090700 GTCAGCACGG
Statistics
Matches: 134, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
44 24 0.18
45 3 0.02
46 82 0.61
47 15 0.11
48 10 0.07
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:8093539 original size:11 final size:11
Alignment explanation
Indices: 8093525--8093549 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8093515 ATCAATAAAA
8093525 AAGATAATATT
1 AAGATAATATT
8093536 AAGATAATATT
1 AAGATAATATT
8093547 AAG
1 AAG
8093550 TTTTAAACCT
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:0.12, T:0.32
Consensus pattern (11 bp):
AAGATAATATT
Found at i:8093634 original size:27 final size:26
Alignment explanation
Indices: 8093595--8093648 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
8093585 ACATGTGGTG
8093595 AAAAATGATAAAAAATA-AAAATCAAT
1 AAAAATGATAAAAAATATAAAAT-AAT
*
8093621 AAAAATTATAAAAAAATATAAAATAAT
1 AAAAATGAT-AAAAAATATAAAATAAT
8093648 A
1 A
8093649 TGATGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 8 0.32
27 12 0.48
28 5 0.20
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (26 bp):
AAAAATGATAAAAAATATAAAATAAT
Found at i:8093673 original size:27 final size:27
Alignment explanation
Indices: 8093643--8093704 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
8093633 AAAATATAAA
8093643 ATAATATGATGA-TT-TTTATATATTTTT
1 ATAATATGAT-ATTTCTTTATAT-TTTTT
* *
8093670 ATAAATTTTATATTTCTTTATATTTTTT
1 AT-AATATGATATTTCTTTATATTTTTT
8093698 ATAATAT
1 ATAATAT
8093705 TCTTACGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
27 7 0.24
28 15 0.52
29 7 0.24
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (27 bp):
ATAATATGATATTTCTTTATATTTTTT
Found at i:8093680 original size:19 final size:19
Alignment explanation
Indices: 8093656--8093773 Score: 70
Period size: 19 Copynumber: 6.3 Consensus size: 19
8093646 ATATGATGAT
8093656 TTTTATATATTTTTATAAA
1 TTTTATATATTTTTATAAA
**
8093675 TTTTATAT-TTCTTTATATT
1 TTTTATATATT-TTTATAAA
* **
8093694 TTTTATAATATTCTTA-CGA
1 TTTTAT-ATATTTTTATAAA
* *
8093713 CTTTATA-ATTTTT-TATA
1 TTTTATATATTTTTATAAA
8093730 TTTCTATATA-TTTTATAAA
1 TTT-TATATATTTTTATAAA
8093749 TTTTCATGA-A-TTTTATAAAA
1 TTTT-AT-ATATTTTTAT-AAA
8093769 TTTTA
1 TTTTA
8093774 CAAATTTTAC
Statistics
Matches: 77, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
17 8 0.10
18 12 0.16
19 42 0.55
20 13 0.17
21 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTATATATTTTTATAAA
Found at i:8093770 original size:10 final size:9
Alignment explanation
Indices: 8093656--8093790 Score: 67
Period size: 9 Copynumber: 14.4 Consensus size: 9
8093646 ATATGATGAT
*
8093656 TTTTATATAT
1 TTTTATA-AA
8093666 TTTTATAAA
1 TTTTATAAA
**
8093675 TTTTATATT
1 TTTTATAAA
**
8093684 TCTTTATATT
1 T-TTTATAAA
8093694 TTTTATAATA
1 TTTTATAA-A
**
8093704 TTCTTA-CGA
1 TT-TTATAAA
*
8093713 CTTTAT-AA
1 TTTTATAAA
* *
8093721 TTTTTTATA
1 TTTTATAAA
*
8093730 TTTCTATATA
1 TTT-TATAAA
8093740 TTTTATAAA
1 TTTTATAAA
*
8093749 TTTTCATGAA
1 TTTT-ATAAA
8093759 TTTTATAAAA
1 TTTTAT-AAA
*
8093769 TTTTACAAA
1 TTTTATAAA
*
8093778 TTTTACAAA
1 TTTTATAAA
8093787 TTTT
1 TTTT
8093791 TAATAATTTT
Statistics
Matches: 100, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
8 8 0.08
9 48 0.48
10 41 0.41
11 3 0.03
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTTATAAA
Found at i:8093773 original size:46 final size:47
Alignment explanation
Indices: 8093666--8093773 Score: 116
Period size: 46 Copynumber: 2.3 Consensus size: 47
8093656 TTTTATATAT
*
8093666 TTTTAT-AAATTTTATATTTCTTTATATTTTTTATAATATTCTTACGA
1 TTTTATAAAATTTTATATTTC-TTATATATTTTATAATATTCTTACGA
* ** *
8093713 CTTTATAATTTTTTATATTTC-TATATATTTTATAA-ATT-TTCATGAA
1 TTTTATAAAATTTTATATTTCTTATATATTTTATAATATTCTT-ACG-A
8093759 TTTTATAAAATTTTA
1 TTTTATAAAATTTTA
8093774 CAAATTTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
44 2 0.04
45 5 0.10
46 26 0.52
47 5 0.10
48 12 0.24
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (47 bp):
TTTTATAAAATTTTATATTTCTTATATATTTTATAATATTCTTACGA
Found at i:8093798 original size:19 final size:18
Alignment explanation
Indices: 8093717--8093800 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
8093707 TTACGACTTT
* *
8093717 ATAATTTTTTATATTTCT-
1 ATAATTTTATAAATTT-TA
*
8093735 ATATATTTTATAAATTTTC
1 ATA-ATTTTATAAATTTTA
8093754 ATGAATTTTATAAAATTTTA
1 AT-AATTTTAT-AAATTTTA
*
8093774 CA-AATTTTACAAATTTTTA
1 -ATAATTTTATAAA-TTTTA
8093793 ATAATTTT
1 ATAATTTT
8093801 TGTTTCTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
18 8 0.15
19 38 0.69
20 8 0.15
21 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (18 bp):
ATAATTTTATAAATTTTA
Found at i:8093851 original size:29 final size:29
Alignment explanation
Indices: 8093819--8093877 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
8093809 ATTTATAATA
* *
8093819 AAATTTAAGT-ATTTTTTATATTTTTATTT
1 AAATTTAA-TAATTTTTAAAATTTTTATTT
8093848 AAATTTAATAATTTTTAAAATTTTTATTT
1 AAATTTAATAATTTTTAAAATTTTTATTT
8093877 A
1 A
8093878 TTTTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
AAATTTAATAATTTTTAAAATTTTTATTT
Found at i:8103969 original size:17 final size:17
Alignment explanation
Indices: 8103947--8103981 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8103937 TCATCGCCTA
8103947 ATATTGTTATTGCTCTT
1 ATATTGTTATTGCTCTT
8103964 ATATTGTTATTGCTCTT
1 ATATTGTTATTGCTCTT
8103981 A
1 A
8103982 GTTAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (17 bp):
ATATTGTTATTGCTCTT
Found at i:8106664 original size:11 final size:11
Alignment explanation
Indices: 8106648--8106678 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8106638 AACATTAAGT
8106648 TCTGAATATCA
1 TCTGAATATCA
8106659 TCTGAATATCA
1 TCTGAATATCA
*
8106670 TTTGAATAT
1 TCTGAATAT
8106679 TGCTCCAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (11 bp):
TCTGAATATCA
Found at i:8108088 original size:19 final size:19
Alignment explanation
Indices: 8108052--8108089 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8108042 TTTTTATAAG
*
8108052 GGTGTTTTTGTTTTTTGTT
1 GGTGTTTTTGTTTGTTGTT
8108071 GGTGTTTTATG-TTGTTGTT
1 GGTGTTTT-TGTTTGTTGTT
8108090 TTGATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (19 bp):
GGTGTTTTTGTTTGTTGTT
Found at i:8109304 original size:28 final size:28
Alignment explanation
Indices: 8109266--8109324 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
8109256 TGCAAAGCCT
8109266 TTTATGTTCTTTTAGATATGTAATGTCC
1 TTTATGTTCTTTTAGATATGTAATGTCC
8109294 TTTATGTTCTTTTAGATATGTAATGTCC
1 TTTATGTTCTTTTAGATATGTAATGTCC
8109322 TTT
1 TTT
8109325 CTCTTGTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.56
Consensus pattern (28 bp):
TTTATGTTCTTTTAGATATGTAATGTCC
Found at i:8113159 original size:14 final size:15
Alignment explanation
Indices: 8113140--8113169 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8113130 TTTTATAATT
8113140 AAAAAAT-ATTTTAA
1 AAAAAATCATTTTAA
8113154 AAAAAATCATTTTAA
1 AAAAAATCATTTTAA
8113169 A
1 A
8113170 TAACTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAATCATTTTAA
Found at i:8119132 original size:19 final size:19
Alignment explanation
Indices: 8119108--8119146 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8119098 CCCAATCTGA
8119108 ATGGTTCCTCCAAAACGAT
1 ATGGTTCCTCCAAAACGAT
8119127 ATGGTTCCTCCAAAACGAT
1 ATGGTTCCTCCAAAACGAT
8119146 A
1 A
8119147 GTTAGCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (19 bp):
ATGGTTCCTCCAAAACGAT
Found at i:8119951 original size:19 final size:19
Alignment explanation
Indices: 8119929--8119967 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8119919 TGCAAATGAC
*
8119929 ATTAAAAAACACCAACTCG
1 ATTAAAAAACACCAAATCG
8119948 ATTAAAAAACACCAAATCG
1 ATTAAAAAACACCAAATCG
8119967 A
1 A
8119968 GTCACACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.23, G:0.05, T:0.15
Consensus pattern (19 bp):
ATTAAAAAACACCAAATCG
Found at i:8127080 original size:30 final size:30
Alignment explanation
Indices: 8127044--8127109 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
8127034 GGTTTCCAGT
* * *
8127044 TTTTAAGGGTCC-AAATTTTTTTTTACCAAC
1 TTTTAAGGGACCTAAAATTTTTTCT-CCAAC
*
8127074 TTTTAAGGGACCTAAAATTTTTTCTCTAAC
1 TTTTAAGGGACCTAAAATTTTTTCTCCAAC
8127104 TTTTAA
1 TTTTAA
8127110 AAAATCTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (30 bp):
TTTTAAGGGACCTAAAATTTTTTCTCCAAC
Found at i:8129677 original size:17 final size:17
Alignment explanation
Indices: 8129641--8129678 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8129631 TAAGAAGATA
*
8129641 TTTAAATTTCTAAATTT
1 TTTAAATTTCTAAATAT
8129658 TTTAAATTT-TATAATAT
1 TTTAAATTTCTA-AATAT
8129675 TTTA
1 TTTA
8129679 TTTTGACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAAATTTCTAAATAT
Found at i:8129711 original size:30 final size:31
Alignment explanation
Indices: 8129656--8129726 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
8129646 ATTTCTAAAT
* *
8129656 TTTTTAAATTTTATAATATTTTATTTT-GAC
1 TTTTTAAAATTTATAATATTTTATTTTAGAA
8129686 TTTTTAAAATTTA-AA-ATTATATATTTTAGAA
1 TTTTTAAAATTTATAATATT-T-TATTTTAGAA
8129717 TTTTATAAAA
1 TTTT-TAAAA
8129727 AAATATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.09
29 3 0.09
30 18 0.51
31 6 0.17
32 5 0.14
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTTTAAAATTTATAATATTTTATTTTAGAA
Found at i:8129745 original size:23 final size:23
Alignment explanation
Indices: 8129686--8129746 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
8129676 TTATTTTGAC
**
8129686 TTTTTAAA-ATT-TAAAATTATA
1 TTTTTAAATATTATAAAAAAATA
*
8129707 TATTTTAGAATTTTATAAAAAAATA
1 T-TTTTA-AATATTATAAAAAAATA
8129732 TTTTTAAATATTATA
1 TTTTTAAATATTATA
8129747 CATGATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.03
22 5 0.16
23 10 0.31
24 7 0.22
25 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTTAAATATTATAAAAAAATA
Found at i:8129951 original size:20 final size:19
Alignment explanation
Indices: 8129918--8129974 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
8129908 ATCAAAAGTG
8129918 TTTTTTAATATTTAATATTTAA
1 TTTTTT-AT-TTTAA-ATTTAA
*
8129940 TTTTTTATTTTAAATTTAG
1 TTTTTTATTTTAAATTTAA
8129959 TATTTTTATTTTAAAT
1 T-TTTTTATTTTAAAT
8129975 AAACTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 6 0.18
20 19 0.58
21 2 0.06
22 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTATTTTAAATTTAA
Found at i:8131204 original size:3 final size:3
Alignment explanation
Indices: 8131196--8131230 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8131186 CCAGCACTTT
* *
8131196 CAA CAA CAA CAA CAA CAA CAC CAG CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
8131231 GCATCAGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.60, C:0.37, G:0.03, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:8131225 original size:18 final size:18
Alignment explanation
Indices: 8131202--8131242 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8131192 CTTTCAACAA
8131202 CAACAACAACAACACCAG
1 CAACAACAACAACACCAG
* *
8131220 CAACAACAACAGCATCAG
1 CAACAACAACAACACCAG
8131238 CAACA
1 CAACA
8131243 GCTGTGGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.37, G:0.07, T:0.02
Consensus pattern (18 bp):
CAACAACAACAACACCAG
Found at i:8131232 original size:12 final size:12
Alignment explanation
Indices: 8131196--8131244 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
8131186 CCAGCACTTT
*
8131196 CAACAACAACAA
1 CAACAACAACAG
*
8131208 CAACAACACCAG
1 CAACAACAACAG
8131220 CAACAACAACAG
1 CAACAACAACAG
* *
8131232 CATCAGCAACAG
1 CAACAACAACAG
8131244 C
1 C
8131245 TGTGGCTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.53, C:0.37, G:0.08, T:0.02
Consensus pattern (12 bp):
CAACAACAACAG
Found at i:8140693 original size:19 final size:17
Alignment explanation
Indices: 8140658--8140696 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
8140648 AAAACGTCGC
8140658 TTTGTTGTTTTTATTGT
1 TTTGTTGTTTTTATTGT
*
8140675 TTTGTTGCTATTTTCTTGT
1 TTTGTTG-T-TTTTATTGT
8140694 TTT
1 TTT
8140697 TTTCAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.05, C:0.05, G:0.15, T:0.74
Consensus pattern (17 bp):
TTTGTTGTTTTTATTGT
Found at i:8142910 original size:16 final size:17
Alignment explanation
Indices: 8142876--8142908 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8142866 CACAATTAAT
8142876 GGAGAAGAAGAAAGAAA
1 GGAGAAGAAGAAAGAAA
8142893 GGAG-AGAAGAATAGAA
1 GGAGAAGAAGAA-AGAA
8142909 GGGGGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (17 bp):
GGAGAAGAAGAAAGAAA
Found at i:8144435 original size:17 final size:16
Alignment explanation
Indices: 8144413--8144463 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
8144403 TAATAAAACA
8144413 AATAAAGTAAATAAAAG
1 AATAAAG-AAATAAAAG
*
8144430 AATAAAGAAACAAAAAG
1 AATAAAGAAA-TAAAAG
*
8144447 AA-AAAGAAATAACAG
1 AATAAAGAAATAAAAG
8144462 AA
1 AA
8144464 GGTTGAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.20
16 10 0.33
17 14 0.47
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.10
Consensus pattern (16 bp):
AATAAAGAAATAAAAG
Found at i:8145991 original size:21 final size:20
Alignment explanation
Indices: 8145924--8145992 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
8145914 TATAATGATT
*
8145924 ATTATAATGGTTTTATATTAA
1 ATTATTATGGTTTTATATT-A
**
8145945 ATTATTATAATTATTA-ATTA
1 ATTATTATGGTT-TTATATTA
*
8145965 A-CATTATGGTTTTATATTA
1 ATTATTATGGTTTTATATTA
8145984 GATTATTAT
1 -ATTATTAT
8145993 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.30
20 3 0.08
21 17 0.46
22 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTATTATGGTTTTATATTA
Found at i:8146005 original size:15 final size:14
Alignment explanation
Indices: 8145979--8146009 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
8145969 TATGGTTTTA
8145979 TATTAGATTATTAT
1 TATTAGATTATTAT
8145993 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
8146008 TA
1 TA
8146010 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:8146405 original size:12 final size:12
Alignment explanation
Indices: 8146388--8146418 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8146378 GAAGCAGGGG
8146388 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
8146400 AGAAAAAGGGAA
1 AGAAAAAGAGAA
8146412 AGAAAAA
1 AGAAAAA
8146419 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:8150306 original size:19 final size:21
Alignment explanation
Indices: 8150265--8150306 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8150255 AATTATGACC
*
8150265 TATAATTATTTCTTTACAATT
1 TATAATTATTTCTCTACAATT
8150286 TATAATTATTT-TCTA-AATT
1 TATAATTATTTCTCTACAATT
8150305 TA
1 TA
8150307 GAACAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 3 0.15
21 11 0.55
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TATAATTATTTCTCTACAATT
Found at i:8151037 original size:23 final size:23
Alignment explanation
Indices: 8151011--8151108 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
8151001 ATAAGTGCCA
8151011 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8151034 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
8151057 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
8151079 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8151102 CACTGAT
1 CACTGAT
8151109 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:8151076 original size:45 final size:45
Alignment explanation
Indices: 8151018--8151106 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
8151008 CCACACTGAT
* *
8151018 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
8151063 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
8151107 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:8151343 original size:75 final size:75
Alignment explanation
Indices: 8151257--8151404 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
8151247 CTATTCCTAA
8151257 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
8151322 CAACTTTCAT
66 CAACTTTCAT
8151332 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
8151397 CAACTTTC
66 CAACTTTC
8151405 CTTCCACATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (75 bp):
GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
CAACTTTCAT
Found at i:8160056 original size:20 final size:20
Alignment explanation
Indices: 8160033--8160078 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
8160023 TCTAAAACTT
8160033 TTTATTATTTATAAAAATGA
1 TTTATTATTTATAAAAATGA
8160053 TTTATTATTTATAAAAATGA
1 TTTATTATTTATAAAAATGA
8160073 TTTATT
1 TTTATT
8160079 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTATTATTTATAAAAATGA
Found at i:8160085 original size:16 final size:19
Alignment explanation
Indices: 8160034--8160086 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
8160024 CTAAAACTTT
8160034 TTATTATTTATAAAAATGA
1 TTATTATTTATAAAAATGA
8160053 TTTATTATTTATAAAAATGA
1 -TTATTATTTATAAAAATGA
8160073 -T-TTATTT-TAAAAAT
1 TTATTATTTATAAAAAT
8160087 TATGTAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
18 1 0.03
20 19 0.58
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
TTATTATTTATAAAAATGA
Found at i:8161767 original size:12 final size:12
Alignment explanation
Indices: 8161735--8161760 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8161725 TGAAAAATTT
8161735 TAAAAATATAAA
1 TAAAAATATAAA
8161747 TAAAAATATAAA
1 TAAAAATATAAA
8161759 TA
1 TA
8161761 CATATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAAATATAAA
Found at i:8161792 original size:17 final size:17
Alignment explanation
Indices: 8161770--8161815 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
8161760 ACATATATTT
8161770 TTAAAAAA-ATCAAGAAA
1 TTAAAAAATAT-AAGAAA
*
8161787 TTAAAAATATATAATAAA
1 TTAAAAA-ATATAAGAAA
8161805 TTAAAAAATAT
1 TTAAAAAATAT
8161816 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 11 0.42
18 13 0.50
19 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
TTAAAAAATATAAGAAA
Found at i:8162019 original size:65 final size:64
Alignment explanation
Indices: 8161944--8162064 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 64
8161934 TTAAATCGTT
* * *
8161944 AAAATAATTAAACATTTTA-AATTTTATAAAT-TATATATTTTAGAAAAAAATAAAAATAAAAAT
1 AAAATAATTAAACATTTTAGAAATTTAAAAATATATAAATTTT---AAAAAATAAAAATAAAAAT
8162007 AA
63 AA
8162009 AAAATAATTAAACATTTTAGAAATTTAAAAATATATAAATTTTAAAAAATAAAAAT
1 AAAATAATTAAACATTTTAGAAATTTAAAAATATATAAATTTTAAAAAATAAAAAT
8162065 TATAAAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
64 13 0.25
65 19 0.37
66 10 0.20
67 9 0.18
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (64 bp):
AAAATAATTAAACATTTTAGAAATTTAAAAATATATAAATTTTAAAAAATAAAAATAAAAATAA
Found at i:8162052 original size:17 final size:16
Alignment explanation
Indices: 8162032--8162075 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
8162022 ATTTTAGAAA
*
8162032 TTTAAAAATATATAAAT
1 TTTAAAAA-ATAAAAAT
8162049 TTTAAAAAATAAAAAT
1 TTTAAAAAATAAAAAT
*
8162065 TATAAAAAATA
1 TTTAAAAAATA
8162076 GTTAATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTAAAAAATAAAAAT
Found at i:8175756 original size:44 final size:45
Alignment explanation
Indices: 8175699--8176372 Score: 705
Period size: 44 Copynumber: 15.3 Consensus size: 45
8175689 ATAGATTGAA
* * * *
8175699 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * * *
8175743 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* *
8175787 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * *
8175831 CAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * *
8175876 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * * *
8175920 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* *
8175964 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * *
8176008 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * * *
8176052 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
*
8176096 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* *
8176140 GAAGAT-GCCGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * *
8176184 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * * * *
8176228 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGACC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
** * * * *
8176272 GGCGAT-GCAGATTTTGTCTTCCCATACTGG-GAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTG-GTGAAGTAGATC
* * *
8176315 GAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGTGAAGAAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
*
8176359 GAAGAAAGCAGATC
1 GAAGATAGCAGATC
8176373 GACGATGGTG
Statistics
Matches: 527, Mismatches: 89, Indels: 27
0.82 0.14 0.04
Matches are distributed among these distances:
43 123 0.23
44 287 0.54
45 117 0.22
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
Found at i:8176160 original size:176 final size:176
Alignment explanation
Indices: 8175733--8176372 Score: 917
Period size: 176 Copynumber: 3.6 Consensus size: 176
8175723 GTATTGGCGT
*
8175733 GAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
* ***
8175798 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCCAAGAAAGCAGATCTTGTCTTCCCATATTGGT
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-
* * * * * * * * *
8175863 GGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CG
130 CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG
*
8175909 TGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAG
1 -GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAG
8175974 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
8176039 CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG
130 CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG
* * * * * *
8176086 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGATGCCG
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAG
*
8176150 ATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
8176215 CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG
130 CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG
* * ** ** * * * *
8176262 GAAGTGGACCGGCGAT-GCAGATTTTGTCTTCCCATACTGGGAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
* * *
8176326 TCTTGTCTTCCCATACTGGTGGTGAAGAAGATCGAAGAAAGCAGATC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATC
8176373 GACGATGGTG
Statistics
Matches: 428, Mismatches: 33, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
175 87 0.20
176 215 0.50
177 126 0.29
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (176 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG
Found at i:8179429 original size:18 final size:18
Alignment explanation
Indices: 8179393--8179428 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
8179383 AAATGCTCGA
8179393 TAAACTTTTAATTTATTT
1 TAAACTTTTAATTTATTT
8179411 TAAA-TTTTAATTTATTT
1 TAAACTTTTAATTTATTT
8179428 T
1 T
8179429 TGAATGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TAAACTTTTAATTTATTT
Found at i:8180929 original size:3 final size:3
Alignment explanation
Indices: 8180921--8180948 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8180911 AGGGGGCACT
8180921 CCA CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA C
8180949 TAAGCTCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:8184323 original size:16 final size:15
Alignment explanation
Indices: 8184304--8184357 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
8184294 ATAAAAATAT
8184304 ATATAATTATTATTTA
1 ATATAA-TATTATTTA
*
8184320 ATAT-ATA-TAATTA
1 ATATAATATTATTTA
*
8184333 ATATAATATTTTTATA
1 ATATAATATTATT-TA
8184349 ATATAATAT
1 ATATAATAT
8184358 ATTCGGATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 9 0.28
14 5 0.16
15 3 0.09
16 15 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATAATATTATTTA
Found at i:8201845 original size:17 final size:18
Alignment explanation
Indices: 8201813--8201846 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8201803 TGATTTTTTT
*
8201813 AAATATATAAAGTTTAAA
1 AAATATATAAAATTTAAA
8201831 AAATAT-TAAAATTTAA
1 AAATATATAAAATTTAA
8201847 TTTTCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATATATAAAATTTAAA
Found at i:8202324 original size:17 final size:19
Alignment explanation
Indices: 8202304--8202338 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8202294 TTTTAAATAG
8202304 ACTTT-TTTAA-ATTTTAA
1 ACTTTATTTAATATTTTAA
8202321 ACTTTATTTAATATTTTA
1 ACTTTATTTAATATTTTA
8202339 TAAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (19 bp):
ACTTTATTTAATATTTTAA
Found at i:8202349 original size:17 final size:19
Alignment explanation
Indices: 8202329--8202381 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
8202319 AAACTTTATT
*
8202329 TAATATTTTATAAATTTTAA
1 TAATA-TTTAAAAATTTTAA
8202349 TAATATTTAAAAATTTATAA
1 TAATATTTAAAAATTT-TAA
*
8202369 -AAAATTTAAAAAT
1 TAATATTTAAAAAT
8202382 AATTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATATTTAAAAATTTTAA
Found at i:8202369 original size:10 final size:9
Alignment explanation
Indices: 8202333--8202381 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
8202323 TTTATTTAAT
*
8202333 ATTTTATAA
1 ATTTTAAAA
*
8202342 ATTTTAATA
1 ATTTTAAAA
8202351 ATATTTAAAA
1 AT-TTTAAAA
8202361 ATTTATAAAA
1 ATTT-TAAAA
*
8202371 AATTTAAAA
1 ATTTTAAAA
8202380 AT
1 AT
8202382 AATTTTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 17 0.52
10 16 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:8216916 original size:28 final size:28
Alignment explanation
Indices: 8216885--8216939 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
8216875 TTGAAAAATA
8216885 AAATA-AATATATATATTTTTAAAAATTT
1 AAATATAATATATAT-TTTTTAAAAATTT
8216913 AAATATTAATATATATTTTTTAAAAAT
1 AAATA-TAATATATATTTTTTAAAAAT
8216940 AACAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 5 0.20
29 11 0.44
30 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATATAATATATATTTTTTAAAAATTT
Found at i:8217597 original size:11 final size:10
Alignment explanation
Indices: 8217569--8217603 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
8217559 TTATTATTTC
*
8217569 ATTTTTTAACA
1 ATTTTTTTA-A
8217580 ATTTTTTTAA
1 ATTTTTTTAA
8217590 ATTTTTTTAA
1 ATTTTTTTAA
8217600 ATTT
1 ATTT
8217604 ATTCTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:8218552 original size:12 final size:12
Alignment explanation
Indices: 8218535--8218590 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
8218525 ATTAAATTAG
8218535 TATATTTTTGTA
1 TATATTTTTGTA
* *
8218547 TATATTTTTATG
1 TATATTTTTGTA
* *
8218559 TATATATTT-CA
1 TATATTTTTGTA
* *
8218570 TTTAATTTTGTA
1 TATATTTTTGTA
8218582 TATATTTTT
1 TATATTTTT
8218591 ATGTCTTGTT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
11 6 0.19
12 26 0.81
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (12 bp):
TATATTTTTGTA
Found at i:8218562 original size:14 final size:13
Alignment explanation
Indices: 8218535--8218567 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8218525 ATTAAATTAG
8218535 TATA-TTTTTGTA
1 TATATTTTTTGTA
8218547 TATATTTTTATGTA
1 TATATTTTT-TGTA
8218561 TATATTT
1 TATATTT
8218568 CATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 4 0.21
14 11 0.58
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (13 bp):
TATATTTTTTGTA
Found at i:8220133 original size:18 final size:17
Alignment explanation
Indices: 8220116--8220181 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 17
8220106 AATTAATTTA
8220116 TATATTTTTTAA-TTTT
1 TATATTTTTTAATTTTT
8220132 TAT-TTTTTATATATTTTT
1 TATATTTTT-TA-ATTTTT
8220150 TA-A-TTTTTAATTTTT
1 TATATTTTTTAATTTTT
8220165 TATATATTTTTAATTTT
1 TATAT-TTTTTAATTTT
8220182 AAAATAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
15 13 0.30
16 8 0.19
17 5 0.12
18 17 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TATATTTTTTAATTTTT
Found at i:8220157 original size:26 final size:26
Alignment explanation
Indices: 8220112--8220181 Score: 126
Period size: 25 Copynumber: 2.8 Consensus size: 26
8220102 TATAAATTAA
8220112 TTTATATATTTTTTAATTTTT-ATTT
1 TTTATATATTTTTTAATTTTTAATTT
8220137 TTTATATATTTTTTAATTTTTAATTT
1 TTTATATATTTTTTAATTTTTAATTT
8220163 TTTATATA-TTTTTAATTTT
1 TTTATATATTTTTTAATTTT
8220182 AAAATAATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
25 32 0.73
26 12 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTATATATTTTTTAATTTTTAATTT
Found at i:8220192 original size:25 final size:26
Alignment explanation
Indices: 8220104--8220195 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 26
8220094 GCATTATATA
*
8220104 TAAATTAATTTATATATTTTTTAATTT
1 TAAAATAA-TTATATATTTTTTAATTT
* * **
8220131 T-TATTTTTTATATATTTTTTAATTT
1 TAAAATAATTATATATTTTTTAATTT
* * **
8220156 TTAATTTTTTATATA-TTTTTAATTT
1 TAAAATAATTATATATTTTTTAATTT
8220181 TAAAATAATTATATA
1 TAAAATAATTATATA
8220196 AATAACCTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
25 40 0.71
26 15 0.27
27 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
TAAAATAATTATATATTTTTTAATTT
Found at i:8220535 original size:29 final size:31
Alignment explanation
Indices: 8220476--8220546 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 31
8220466 AGTGCAGTGT
* *
8220476 TACCAACTTAGGTGACAGAATACAAGTTTAGG
1 TACCAAC-TAGGTCACAGAATAAAAGTTTAGG
8220508 TACCAACTAGGTCA-AGAA-AAAAGTTTAGG
1 TACCAACTAGGTCACAGAATAAAAGTTTAGG
*
8220537 TACGAACTAG
1 TACCAACTAG
8220547 ATAATTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.53
30 4 0.11
31 6 0.17
32 7 0.19
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
TACCAACTAGGTCACAGAATAAAAGTTTAGG
Found at i:8222288 original size:20 final size:20
Alignment explanation
Indices: 8222263--8222308 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
8222253 ATGCTCAAGT
*
8222263 CCGTGTTCTTTGGGACACGC
1 CCGTGTGCTTTGGGACACGC
8222283 CCGTGTGCTTTGGGACACGC
1 CCGTGTGCTTTGGGACACGC
*
8222303 TCGTGT
1 CCGTGT
8222309 CCCCTACCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.28, G:0.33, T:0.30
Consensus pattern (20 bp):
CCGTGTGCTTTGGGACACGC
Found at i:8238913 original size:27 final size:27
Alignment explanation
Indices: 8238883--8239023 Score: 191
Period size: 27 Copynumber: 5.2 Consensus size: 27
8238873 GTGATGAAGT
8238883 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
8238910 CACCAGA-ACAGATATGTGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
8238937 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8238964 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
8238991 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8239018 CACCAG
1 CACCAG
8239024 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.10
27 88 0.86
28 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:8238958 original size:54 final size:54
Alignment explanation
Indices: 8238883--8239023 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
8238873 GTGATGAAGT
* *
8238883 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATGTGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
8238937 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
8238991 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
8239024 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:8240676 original size:26 final size:26
Alignment explanation
Indices: 8240645--8240752 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8240635 TGAAATGCCC
*
8240645 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8240671 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8240697 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8240723 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8240749 ATCA
1 ATCA
8240753 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8245832 original size:26 final size:27
Alignment explanation
Indices: 8245794--8245858 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
8245784 CCCAATTCCG
* * * *
8245794 AACTCAAATCTTAAATTTTGAATC-TA
1 AACTCAAACCTTAAATCTTAAATCACA
8245820 AACTCAAACCTTAAATCTTAAATCACA
1 AACTCAAACCTTAAATCTTAAATCACA
*
8245847 AACCCAAACCTT
1 AACTCAAACCTT
8245859 GAACCTCAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.29
Consensus pattern (27 bp):
AACTCAAACCTTAAATCTTAAATCACA
Found at i:8246792 original size:21 final size:22
Alignment explanation
Indices: 8246768--8246821 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
8246758 GATTTAGATG
8246768 AAATTAAATAGTT-AAAAATAA
1 AAATTAAATAGTTGAAAAATAA
* * *
8246789 AAATATAAAT-TTTGAATATTAA
1 AAAT-TAAATAGTTGAAAAATAA
8246811 AAATTAAATAG
1 AAATTAAATAG
8246822 AGCCGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (22 bp):
AAATTAAATAGTTGAAAAATAA
Found at i:8249367 original size:49 final size:49
Alignment explanation
Indices: 8249310--8249554 Score: 258
Period size: 49 Copynumber: 4.9 Consensus size: 49
8249300 TAGCCATAGC
* * * * *
8249310 TATCTGGTACGCATAGTAACCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
8249359 TATCTGGTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
** * *
8249408 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * *
8249458 CATCTGATACACGTAGTAGCCTGCACTTAGTGCTACACATGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* * * * * *
8249509 TTTCGGGTA-AGCATAGTAACTTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACA-CGTAGTAGCCTGCACTTAGTACTACACATGTGACC
8249555 TCAAAATAGA
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 86 0.52
50 42 0.26
51 35 0.21
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:8249494 original size:99 final size:98
Alignment explanation
Indices: 8249323--8249554 Score: 259
Period size: 99 Copynumber: 2.3 Consensus size: 98
8249313 CTGGTACGCA
* ** *
8249323 TAGTAACCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAACCTGCACATAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCCTGCACTTA
8249388 ATACTACACACGTGACCAATTATCCAGTACACG
66 ATACTACACACGTGACCAATTATCCAGTACACG
* * *
8249421 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAACCTGCACATAGTACTACACACGCGACC-AACCATCTGATACACGTAGTAGCCTGCACTT
* * * * * ** *
8249486 AGTGCTACACATGTGATCACAGTTTTCGGGTA-AGCA
65 AATACTACACACGTGA-C-CAATTATCCAGTACA-CG
* * *
8249522 TAGTAACTTGCACTTAGTACTACACATGCGACC
1 TAGTAACCTGCACATAGTACTACACACGCGACC
8249555 TCAAAATAGA
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
98 29 0.26
99 41 0.37
100 2 0.02
101 39 0.35
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (98 bp):
TAGTAACCTGCACATAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCCTGCACTTA
ATACTACACACGTGACCAATTATCCAGTACACG
Found at i:8251303 original size:17 final size:15
Alignment explanation
Indices: 8251281--8251316 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
8251271 AATCTCTAAG
8251281 CCCAATACACCCAATAA
1 CCCAATAC-CCCAA-AA
8251298 CCCAATACCCCAAAA
1 CCCAATACCCCAAAA
8251313 CCCA
1 CCCA
8251317 CCTAAACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.08
Consensus pattern (15 bp):
CCCAATACCCCAAAA
Found at i:8252246 original size:15 final size:15
Alignment explanation
Indices: 8252226--8252259 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8252216 AAATTAATTG
*
8252226 TTTTTAGTATTATTA
1 TTTTTAGTATTACTA
*
8252241 TTTTTATTATTACTA
1 TTTTTAGTATTACTA
8252256 TTTT
1 TTTT
8252260 ATTATACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTTTAGTATTACTA
Found at i:8256845 original size:9 final size:10
Alignment explanation
Indices: 8256807--8256847 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
8256797 AGATAAATAT
*
8256807 TTAAAAATTA
1 TTAAGAATTA
8256817 TTAAGAATTA
1 TTAAGAATTA
8256827 -TAAGAGATTA
1 TTAAGA-ATTA
8256837 TTAA-AATTA
1 TTAAGAATTA
8256846 TT
1 TT
8256848 TTAAATTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 11 0.39
10 14 0.50
11 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTAAGAATTA
Found at i:8259675 original size:13 final size:13
Alignment explanation
Indices: 8259659--8259686 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8259649 ATTTACATAA
8259659 ATTTTAATTTAGT
1 ATTTTAATTTAGT
8259672 ATTTTAATTTAGT
1 ATTTTAATTTAGT
8259685 AT
1 AT
8259687 AATTATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
ATTTTAATTTAGT
Done.