Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 59 of 74
Found at i:11719596 original size:24 final size:24
Alignment explanation
Indices: 11719568--11719643 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
11719558 TTAAATATAT
11719568 ATTAAATCTATCTATCTATATTAA
1 ATTAAATCTATCTATCTATATTAA
*
11719592 ATTAAATCTATCTAT-TAAATTAA
1 ATTAAATCTATCTATCTATATTAA
* *
11719615 ATCTATATCTA--TATCTATATAAA
1 AT-TAAATCTATCTATCTATATTAA
*
11719638 AATAAA
1 ATTAAA
11719644 AAATTATATG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 6 0.14
23 16 0.36
24 22 0.50
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTAAATCTATCTATCTATATTAA
Found at i:11719609 original size:18 final size:18
Alignment explanation
Indices: 11719586--11719620 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11719576 TATCTATCTA
11719586 TATTAAATTAAATCTATC
1 TATTAAATTAAATCTATC
11719604 TATTAAATTAAATCTAT
1 TATTAAATTAAATCTAT
11719621 ATCTATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAAATTAAATCTATC
Found at i:11719803 original size:21 final size:21
Alignment explanation
Indices: 11719779--11719825 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11719769 TAGAATAGAC
* *
11719779 TAATAGAATAAAGATAACATA
1 TAATAGAATAAAAATAAAATA
11719800 TAATAGAATAAAAATAAAATA
1 TAATAGAATAAAAATAAAATA
*
11719821 AAATA
1 TAATA
11719826 TATAATATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (21 bp):
TAATAGAATAAAAATAAAATA
Found at i:11719928 original size:14 final size:14
Alignment explanation
Indices: 11719874--11719944 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
11719864 ATAAATATAT
11719874 TTATAAT-TTATT-
1 TTATAATATTATTA
* *
11719886 TTATAATTTTTATAA
1 TTATAA-TATTATTA
**
11719901 TTATAATAAAATTA
1 TTATAATATTATTA
11719915 TTATAATATTATTA
1 TTATAATATTATTA
*
11719929 TAATTTAATATTATTA
1 T--TATAATATTATTA
11719945 AACATAATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
12 6 0.13
13 1 0.02
14 21 0.46
15 6 0.13
16 12 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATAATATTATTA
Found at i:11719933 original size:20 final size:19
Alignment explanation
Indices: 11719849--11719933 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 19
11719839 TAAATAATAA
*
11719849 ATAATTATTA-AAATTA-T
1 ATAATTATTATAATTTATT
11719866 A-AATATATTTATAATTTATTTT
1 ATAAT-TA-TTATAATTTA--TT
* *
11719888 ATAATTTTTATAATTATAAT
1 ATAATTATTATAATT-TATT
*
11719908 AAAATTATTATAATATTATT
1 ATAATTATTATAAT-TTATT
11719928 ATAATT
1 ATAATT
11719934 TAATATTATT
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
18 3 0.06
19 5 0.10
20 21 0.40
21 9 0.17
22 5 0.10
23 3 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATTATTATAATTTATT
Found at i:11719939 original size:16 final size:15
Alignment explanation
Indices: 11719918--11719979 Score: 70
Period size: 16 Copynumber: 4.0 Consensus size: 15
11719908 AAAATTATTA
11719918 TAATATTATTATAATT
1 TAATATTATTA-AATT
**
11719934 TAATATTATTAAACA
1 TAATATTATTAAATT
*
11719949 TAATGTTATTAAATAT
1 TAATATTATTAAAT-T
*
11719965 TAATATGATTAAATT
1 TAATATTATTAAATT
11719980 AAAATATCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.39
16 23 0.61
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (15 bp):
TAATATTATTAAATT
Found at i:11719952 original size:31 final size:31
Alignment explanation
Indices: 11719917--11719977 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
11719907 TAAAATTATT
*
11719917 ATAATATTATTATAAT-TTAATATTATTAAAC
1 ATAATATTATTA-AATATTAATATGATTAAAC
*
11719948 ATAATGTTATTAAATATTAATATGATTAAA
1 ATAATATTATTAAATATTAATATGATTAAA
11719978 TTAAAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (31 bp):
ATAATATTATTAAATATTAATATGATTAAAC
Found at i:11720029 original size:24 final size:24
Alignment explanation
Indices: 11719997--11720046 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11719987 CATTTTTAAT
11719997 ATGATTAAAATATAATCAAATAGA
1 ATGATTAAAATATAATCAAATAGA
11720021 ATGATTAAAATATAATCAAATAGA
1 ATGATTAAAATATAATCAAATAGA
11720045 AT
1 AT
11720047 TATATTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (24 bp):
ATGATTAAAATATAATCAAATAGA
Found at i:11720098 original size:12 final size:12
Alignment explanation
Indices: 11720081--11720107 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11720071 ATATTCTATC
11720081 AATATTAGATTG
1 AATATTAGATTG
11720093 AATATTAGATTG
1 AATATTAGATTG
11720105 AAT
1 AAT
11720108 CTACCATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (12 bp):
AATATTAGATTG
Found at i:11720128 original size:10 final size:10
Alignment explanation
Indices: 11720113--11720152 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
11720103 TGAATCTACC
11720113 ATTATTATAT
1 ATTATTATAT
11720123 ATTATTATAT
1 ATTATTATAT
11720133 ATTATTATAT
1 ATTATTATAT
*
11720143 ATCATTATAT
1 ATTATTATAT
11720153 TAAATATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTATTATAT
Found at i:11720175 original size:15 final size:15
Alignment explanation
Indices: 11720135--11720175 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
11720125 TATTATATAT
* *
11720135 TATTATATATCATTA
1 TATTAAATATGATTA
11720150 TATTAAATATGATTA
1 TATTAAATATGATTA
11720165 TATTAAATATG
1 TATTAAATATG
11720176 GCATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (15 bp):
TATTAAATATGATTA
Found at i:11720652 original size:7 final size:7
Alignment explanation
Indices: 11720642--11720727 Score: 58
Period size: 7 Copynumber: 12.4 Consensus size: 7
11720632 TTGGTTTAAT
*
11720642 TTTTAGA
1 TTTTATA
11720649 TTTTA-A
1 TTTTATA
11720655 TTTTTATA
1 -TTTTATA
11720663 TTTTATA
1 TTTTATA
11720670 -TTTA-A
1 TTTTATA
*
11720675 -TATATA
1 TTTTATA
11720681 TTTTATA
1 TTTTATA
11720688 TTTAATATA
1 TTT--TATA
11720697 TTTATATA
1 TTT-TATA
*
11720705 TTATATA
1 TTTTATA
11720712 TATTT-TA
1 T-TTTATA
11720719 TTTTA-A
1 TTTTATA
11720725 TTT
1 TTT
11720728 CTATTTTTTG
Statistics
Matches: 67, Mismatches: 4, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
5 4 0.06
6 13 0.19
7 33 0.49
8 10 0.15
9 7 0.10
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (7 bp):
TTTTATA
Found at i:11720653 original size:14 final size:14
Alignment explanation
Indices: 11720636--11720672 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11720626 CTTTTTTTGG
11720636 TTTAATTTTTAGAT
1 TTTAATTTTTAGAT
*
11720650 TTTAATTTTTATAT
1 TTTAATTTTTAGAT
11720664 TTTATATTT
1 TTTA-ATTT
11720673 AATATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAATTTTTAGAT
Found at i:11720682 original size:18 final size:18
Alignment explanation
Indices: 11720659--11720725 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
11720649 TTTTAATTTT
11720659 TATATTTTATATTTAATA
1 TATATTTTATATTTAATA
11720677 TATATTTTATATTTAATA
1 TATATTTTATATTTAATA
*
11720695 TAT-TTATATA-TT-ATA
1 TATATTTTATATTTAATA
11720710 TATATTTTAT-TTTAAT
1 TATATTTTATATTTAAT
11720726 TTCTATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.14
16 9 0.20
17 8 0.18
18 21 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATATTTTATATTTAATA
Found at i:11720687 original size:9 final size:9
Alignment explanation
Indices: 11720654--11720719 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
11720644 TTAGATTTTA
11720654 ATTTT-TAT
1 ATTTTATAT
11720662 A-TTT-TAT
1 ATTTTATAT
*
11720669 ATTTAATAT
1 ATTTTATAT
11720678 ATATTT-TAT
1 AT-TTTATAT
*
11720687 ATTTAATAT
1 ATTTTATAT
11720696 A-TTTATAT
1 ATTTTATAT
*
11720704 ATTATATAT
1 ATTTTATAT
11720713 ATTTTAT
1 ATTTTAT
11720720 TTTAATTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
7 7 0.15
8 12 0.26
9 26 0.55
10 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTATAT
Found at i:11720719 original size:11 final size:11
Alignment explanation
Indices: 11720666--11720719 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
11720656 TTTTATATTT
*
11720666 TATATTTAATA
1 TATATTTTATA
11720677 TATATTTTATA
1 TATATTTTATA
* * * *
11720688 TTTAATATATT
1 TATATTTTATA
*
11720699 TATATATTATA
1 TATATTTTATA
11720710 TATATTTTAT
1 TATATTTTAT
11720720 TTTAATTTCT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTTTATA
Found at i:11720759 original size:16 final size:16
Alignment explanation
Indices: 11720738--11720771 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
11720728 CTATTTTTTG
11720738 TATACATTATATACAA
1 TATACATTATATACAA
11720754 TATACATTATATACAA
1 TATACATTATATACAA
11720770 TA
1 TA
11720772 CAAAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
TATACATTATATACAA
Found at i:11724028 original size:16 final size:16
Alignment explanation
Indices: 11724007--11724041 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11723997 AAGAAAGAGC
11724007 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
11724023 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
11724039 AAA
1 AAA
11724042 ATAGGCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:11728621 original size:10 final size:10
Alignment explanation
Indices: 11728584--11728634 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
11728574 AATTCAAATG
11728584 ATTATCAATT
1 ATTATCAATT
11728594 A--ATCAA--
1 ATTATCAATT
11728600 ATTA-CAAGTT
1 ATTATCAA-TT
11728610 ATTATCAATT
1 ATTATCAATT
11728620 ATTATCAATT
1 ATTATCAATT
11728630 ATTAT
1 ATTAT
11728635 TAAGTTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
6 1 0.03
7 3 0.09
8 6 0.17
10 22 0.63
11 3 0.09
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (10 bp):
ATTATCAATT
Found at i:11728709 original size:23 final size:23
Alignment explanation
Indices: 11728683--11728808 Score: 64
Period size: 23 Copynumber: 5.3 Consensus size: 23
11728673 TTAATATTCA
*
11728683 TTTATATTTTTATATTATTATAT
1 TTTATATTTTTATATTATTTTAT
* * * *
11728706 TTTAAAATTTAAAATT-TATTTAT
1 TTTATATTTTTATATTAT-TTTAT
*
11728729 TTTGTTATATTTTAT-TTATTTTAT
1 TTT-ATAT-TTTTATATTATTTTAT
11728753 TTGT-TATATTTTAT-TTATTTTAAT
1 TT-TATAT-TTTTATATTATTTT-AT
* *
11728777 ATTATA-TTTTATTATTATATCTAT
1 TTTATATTTTTA-TATTAT-TTTAT
11728801 TATTATAT
1 T-TTATAT
11728809 ATTAGTATTT
Statistics
Matches: 78, Mismatches: 13, Indels: 21
0.70 0.12 0.19
Matches are distributed among these distances:
22 6 0.08
23 38 0.49
24 21 0.27
25 13 0.17
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTATATTTTTATATTATTTTAT
Found at i:11728742 original size:19 final size:19
Alignment explanation
Indices: 11728720--11728773 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 19
11728710 AAATTTAAAA
11728720 TTTATTTATTTTGTTATAT
1 TTTATTTATTTTGTTATAT
11728739 TTTATTTATTTTATTTGTTATAT
1 TTTATTTA---T-TTTGTTATAT
11728762 TTTATTTATTTT
1 TTTATTTATTTT
11728774 AATATTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 11 0.35
20 1 0.03
22 1 0.03
23 18 0.58
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTATTTATTTTGTTATAT
Found at i:11728750 original size:9 final size:9
Alignment explanation
Indices: 11728720--11728774 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
11728710 AAATTTAAAA
11728720 TTTATTTAT
1 TTTATTTAT
*
11728729 TTTGTTATAT
1 TTTATT-TAT
11728739 TTTATTTAT
1 TTTATTTAT
11728748 TTTA-TT-T
1 TTTATTTAT
*
11728755 GTTA--TAT
1 TTTATTTAT
11728762 TTTATTTAT
1 TTTATTTAT
11728771 TTTA
1 TTTA
11728775 ATATTATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 1 0.03
7 8 0.21
8 2 0.05
9 19 0.50
10 8 0.21
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (9 bp):
TTTATTTAT
Found at i:11728751 original size:5 final size:5
Alignment explanation
Indices: 11728720--11728794 Score: 50
Period size: 5 Copynumber: 15.0 Consensus size: 5
11728710 AAATTTAAAA
* * * *
11728720 TTTA- TTTAT TTTGT TATAT TTTA- TTTAT TTTA- TTTGT TATAT TTTA-
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
11728766 TTTAT TTTAAT ATTATAT TTTAT TATTAT
1 TTTAT TTT-AT -TT-TAT TTTAT T-TTAT
11728795 ATCTATTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
4 15 0.27
5 27 0.49
6 8 0.15
7 4 0.07
8 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:11728787 original size:18 final size:18
Alignment explanation
Indices: 11728741--11728789 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
11728731 TGTTATATTT
*
11728741 TATTTATTTTATTTGTTA
1 TATTTATTTTATTTGTAA
11728759 TATTT-TATTTATTT-TAA
1 TATTTAT-TTTATTTGTAA
11728776 TATTATATTTTATT
1 TATT-TATTTTATT
11728790 ATTATATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 7 0.26
18 19 0.70
19 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TATTTATTTTATTTGTAA
Found at i:11728801 original size:22 final size:23
Alignment explanation
Indices: 11728733--11728803 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
11728723 ATTTATTTTG
* *
11728733 TTATATTTTATTTATTTTATTTG
1 TTATATTTTATTTATTTTATATA
11728756 TTATATTTTATTTATTTTA-ATA
1 TTATATTTTATTTATTTTATATA
* *
11728778 TTATATTTTA-TTATTATATCTA
1 TTATATTTTATTTATTTTATATA
11728800 TTAT
1 TTAT
11728804 TATATATTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 7 0.16
22 17 0.40
23 19 0.44
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (23 bp):
TTATATTTTATTTATTTTATATA
Found at i:11728804 original size:25 final size:24
Alignment explanation
Indices: 11728756--11728822 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
11728746 ATTTTATTTG
*
11728756 TTATATTTTAT-TTAT-TTTAATA
1 TTATATTTTATATTATATCTAATA
*
11728778 TTATATTTTATTATTATATCTATTA
1 TTATATTTTA-TATTATATCTAATA
*
11728803 TTATATATTAGTATTTATAT
1 TTATATTTTA-TA-TTATAT
11728823 ATTTAGTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.27
23 1 0.03
24 4 0.11
25 16 0.43
26 6 0.16
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (24 bp):
TTATATTTTATATTATATCTAATA
Found at i:11728827 original size:8 final size:8
Alignment explanation
Indices: 11728682--11728877 Score: 62
Period size: 8 Copynumber: 25.2 Consensus size: 8
11728672 ATTAATATTC
11728682 ATTTATAT
1 ATTTATAT
*
11728690 TTTTATAT
1 ATTTATAT
11728698 -TATTATAT
1 AT-TTATAT
*
11728706 -TTTA-AA
1 ATTTATAT
*
11728712 ATTTA-AA
1 ATTTATAT
*
11728719 ATTTATTT
1 ATTTATAT
*
11728727 ATTTTGTTAT
1 A-TTT-ATAT
*
11728737 ATTTTATTT
1 A-TTTATAT
11728746 ATTT-TAT
1 ATTTATAT
*
11728753 TTGTTATAT
1 AT-TTATAT
*
11728762 -TTTATTT
1 ATTTATAT
11728769 ATTT-TA-
1 ATTTATAT
11728775 ATATTATAT
1 AT-TTATAT
11728784 -TTTAT-T
1 ATTTATAT
11728790 A-TTATAT
1 ATTTATAT
*
11728797 CTATTATTAT
1 AT-TTA-TAT
*
11728807 ATATTA-GT
1 AT-TTATAT
11728815 ATTTATAT
1 ATTTATAT
*
11728823 ATTTA-GT
1 ATTTATAT
11728830 ATTTATAT
1 ATTTATAT
*
11728838 ATTTA-GT
1 ATTTATAT
*
11728845 ATTCATAT
1 ATTTATAT
*
11728853 ATTTA-GT
1 ATTTATAT
*
11728860 ATTCATAT
1 ATTTATAT
*
11728868 ATATATAT
1 ATTTATAT
11728876 AT
1 AT
11728878 ATAATTATAT
Statistics
Matches: 141, Mismatches: 27, Indels: 40
0.68 0.13 0.19
Matches are distributed among these distances:
6 8 0.06
7 50 0.35
8 56 0.40
9 12 0.09
10 15 0.11
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (8 bp):
ATTTATAT
Found at i:11728830 original size:15 final size:15
Alignment explanation
Indices: 11728803--11728869 Score: 109
Period size: 15 Copynumber: 4.5 Consensus size: 15
11728793 ATATCTATTA
11728803 TTATATA-TTAGTAT
1 TTATATATTTAGTAT
11728817 TTATATATTTAGTAT
1 TTATATATTTAGTAT
11728832 TTATATATTTAGTAT
1 TTATATATTTAGTAT
*
11728847 TCATATATTTAGTAT
1 TTATATATTTAGTAT
*
11728862 TCATATAT
1 TTATATAT
11728870 ATATATATAT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
14 7 0.14
15 44 0.86
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TTATATATTTAGTAT
Found at i:11728936 original size:19 final size:19
Alignment explanation
Indices: 11728900--11728949 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
11728890 AAATTATTAA
11728900 ATTATTCATTT-T-TAAAAT
1 ATTATT-ATTTATATAAAAT
11728918 ATTATTATTTATATAAAAT
1 ATTATTATTTATATAAAAT
11728937 ATTATTATTTATA
1 ATTATTATTTATA
11728950 AAATTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 19 0.63
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATTATTTATATAAAAT
Found at i:11728989 original size:28 final size:27
Alignment explanation
Indices: 11728919--11728990 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 27
11728909 TTTTAAAATA
11728919 TTAT-TATTT-ATATAAAATATTATTAT
1 TTATATATTTAATA-AAAATATTATTAT
* *
11728945 TTATAAAATTAAT--AAATATTATTAT
1 TTATATATTTAATAAAAATATTATTAT
*
11728970 TATTTATATTTAATAAAAATA
1 T-TATATATTTAATAAAAATA
11728991 AATAAGATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
25 13 0.36
26 13 0.36
27 3 0.08
28 7 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTATATATTTAATAAAAATATTATTAT
Found at i:11729036 original size:32 final size:32
Alignment explanation
Indices: 11728999--11729071 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
11728989 TAAATAAGAT
*
11728999 ATTTAA-TAAATAAGTATAATAATTTATATTTA
1 ATTTAAGTAAATAA-TATAAGAATTTATATTTA
** *
11729031 ATTTAAGTATTTAATTTAAGAATTTATATTTA
1 ATTTAAGTAAATAATATAAGAATTTATATTTA
11729063 ATTTAAGTA
1 ATTTAAGTA
11729072 TTTAATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 31 0.86
33 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
ATTTAAGTAAATAATATAAGAATTTATATTTA
Found at i:11729043 original size:13 final size:13
Alignment explanation
Indices: 11729025--11729085 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
11729015 TAATAATTTA
11729025 TATTTAATTTAAG
1 TATTTAATTTAAG
11729038 TATTTAATTTAAG
1 TATTTAATTTAAG
11729051 -----AATTT-A-
1 TATTTAATTTAAG
11729057 TATTTAATTTAAG
1 TATTTAATTTAAG
11729070 TATTTAATTTAAG
1 TATTTAATTTAAG
11729083 TAT
1 TAT
11729086 AATAATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
11 5 0.12
12 1 0.02
13 29 0.71
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (13 bp):
TATTTAATTTAAG
Found at i:11729060 original size:19 final size:19
Alignment explanation
Indices: 11729038--11729081 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11729028 TTAATTTAAG
11729038 TATTTAATTTAAGAATTTA
1 TATTTAATTTAAGAATTTA
*
11729057 TATTTAATTTAAGTATTTA
1 TATTTAATTTAAGAATTTA
11729076 -ATTTAA
1 TATTTAA
11729082 GTATAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TATTTAATTTAAGAATTTA
Found at i:11729072 original size:32 final size:32
Alignment explanation
Indices: 11729019--11729082 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
11729009 TAAGTATAAT
11729019 AATTTATATTTAATTTAAGTATTTAATTTAAG
1 AATTTATATTTAATTTAAGTATTTAATTTAAG
11729051 AATTTATATTTAATTTAAGTATTTAATTTAAG
1 AATTTATATTTAATTTAAGTATTTAATTTAAG
11729083 TATAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (32 bp):
AATTTATATTTAATTTAAGTATTTAATTTAAG
Found at i:11729107 original size:8 final size:8
Alignment explanation
Indices: 11729091--11729138 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
11729081 AGTATAATAA
11729091 TAATAATT
1 TAATAATT
*
11729099 TATTAATT
1 TAATAATT
11729107 TAATTAATT
1 TAA-TAATT
*
11729116 GAAT-ATT
1 TAATAATT
11729123 TAATAATT
1 TAATAATT
11729131 T-ATAATT
1 TAATAATT
11729138 T
1 T
11729139 CATTTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
7 13 0.38
8 14 0.41
9 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (8 bp):
TAATAATT
Found at i:11742271 original size:21 final size:21
Alignment explanation
Indices: 11742196--11742271 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 21
11742186 ACACATTGGA
**
11742196 TTATATATTTTTAT-TAATATT
1 TTATATAAATTTATATAAT-TT
11742217 TTATAT--ATTT-TA-AATTT
1 TTATATAAATTTATATAATTT
** *
11742234 TTATA-AAATAAAAATAATTT
1 TTATATAAATTTATATAATTT
11742254 TTATATAAATTTATATAA
1 TTATATAAATTTATATAA
11742272 ATATATTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
17 7 0.17
18 6 0.14
19 4 0.10
20 10 0.24
21 15 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATAAATTTATATAATTT
Found at i:11742303 original size:13 final size:13
Alignment explanation
Indices: 11742271--11742310 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11742261 AATTTATATA
11742271 AATATATTAAAAAT
1 AATATA-TAAAAAT
11742285 --TATATAAAAAT
1 AATATATAAAAAT
11742296 AATATATAAAAAT
1 AATATATAAAAAT
11742309 AA
1 AA
11742311 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.29
12 4 0.17
13 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:11742925 original size:18 final size:18
Alignment explanation
Indices: 11742902--11742980 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 18
11742892 CATCTACCAT
*
11742902 TTAAAATATTAAAAAAAA
1 TTAAAATATTAATAAAAA
* * * *
11742920 TTAAAAAATTGATATAAT
1 TTAAAATATTAATAAAAA
*
11742938 TTAAAATTTTAATAAAAA
1 TTAAAATATTAATAAAAA
* *
11742956 TTATATATATTTAAT-CAAA
1 TTA-AAATA-TTAATAAAAA
11742975 TTAAAA
1 TTAAAA
11742981 ATATATTTTA
Statistics
Matches: 45, Mismatches: 14, Indels: 4
0.71 0.22 0.06
Matches are distributed among these distances:
18 31 0.69
19 9 0.20
20 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (18 bp):
TTAAAATATTAATAAAAA
Found at i:11742984 original size:19 final size:20
Alignment explanation
Indices: 11742904--11742984 Score: 57
Period size: 19 Copynumber: 4.3 Consensus size: 20
11742894 TCTACCATTT
*
11742904 AAAATA-TTAAAAAAAATTA
1 AAAATATTTAATAAAAATTA
* * *
11742923 AAAA-A-TTGAT-ATAATTT
1 AAAATATTTAATAAAAATTA
11742940 AAAAT-TTTAATAAAAATTA
1 AAAATATTTAATAAAAATTA
* * *
11742959 TATATATTTAAT-CAAATTA
1 AAAATATTTAATAAAAATTA
11742978 AAAATAT
1 AAAATAT
11742985 ATTTTATAAT
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
17 9 0.20
18 8 0.17
19 23 0.50
20 6 0.13
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAATATTTAATAAAAATTA
Found at i:11743320 original size:15 final size:14
Alignment explanation
Indices: 11743303--11743349 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
11743293 AAAACTTTTT
*
11743303 AATATATTTAAAAA
1 AATATAATTAAAAA
11743317 TAAT-TAATTAATAAA
1 -AATATAATTAA-AAA
*
11743332 AAAATAATTAAAAA
1 AATATAATTAAAAA
11743346 AATA
1 AATA
11743350 CTCCTAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATATAATTAAAAA
Found at i:11746486 original size:1 final size:1
Alignment explanation
Indices: 11746480--11746517 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
11746470 CATGATACAT
11746480 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11746518 CCATGTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11748053 original size:2 final size:2
Alignment explanation
Indices: 11748036--11748081 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
11748026 AGTTATTAAT
* *
11748036 TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
11748078 TA TA
1 TA TA
11748082 AAAGTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11748222 original size:2 final size:2
Alignment explanation
Indices: 11748215--11748242 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11748205 AAGTAAATTA
11748215 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
11748243 TACTTGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11752912 original size:41 final size:42
Alignment explanation
Indices: 11752857--11752957 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 42
11752847 ATATCATATT
* * * *
11752857 TAATAATTTAAAATAAATTAT-TAT-AAATTATATATTTAAAA
1 TAATTATTAAAAATAAATTATAAATAAAATT-TAAATTTAAAA
11752898 TAATT-TTAATAAAT-AATTATAAATAAAATTTAAATTTAAAA
1 TAATTATTAA-AAATAAATTATAAATAAAATTTAAATTTAAAA
**
11752939 TTTTTATTAAAAATAAATT
1 TAATTATTAAAAATAAATT
11752958 TTAATTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
40 9 0.18
41 27 0.55
42 13 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (42 bp):
TAATTATTAAAAATAAATTATAAATAAAATTTAAATTTAAAA
Found at i:11752918 original size:28 final size:28
Alignment explanation
Indices: 11752857--11752914 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
11752847 ATATCATATT
11752857 TAATA-ATTTAAAATAAATTATTATAAA
1 TAATATATTTAAAATAAATTATTATAAA
*
11752884 TTATATATTTAAAAT-AATT-TTAATAAA
1 TAATATATTTAAAATAAATTATT-ATAAA
11752911 TAAT
1 TAAT
11752915 TATAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 2 0.07
27 16 0.59
28 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TAATATATTTAAAATAAATTATTATAAA
Found at i:11752920 original size:24 final size:24
Alignment explanation
Indices: 11752858--11752924 Score: 59
Period size: 27 Copynumber: 2.7 Consensus size: 24
11752848 TATCATATTT
11752858 AATAATTTAAAATAAATTATTATAA
1 AATAATTTAAAATAAATTATTAT-A
11752883 ATTATATATTTAAAAT-AATT-TTAATA
1 A--ATA-ATTTAAAATAAATTATT-ATA
11752909 AATAA-TTATAAATAAA
1 AATAATTTA-AAATAAA
11752925 ATTTAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
22 3 0.08
23 5 0.14
24 5 0.14
25 1 0.03
26 4 0.11
27 9 0.25
28 9 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATAATTTAAAATAAATTATTATA
Found at i:11754448 original size:21 final size:21
Alignment explanation
Indices: 11754424--11754464 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11754414 ATTTTGAAAG
*
11754424 AAAATTGTT-TCTGGACATCCC
1 AAAATT-TTCTCTAGACATCCC
11754445 AAAATTTTCTCTAGACATCC
1 AAAATTTTCTCTAGACATCC
11754465 TTTTCATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (21 bp):
AAAATTTTCTCTAGACATCCC
Found at i:11758813 original size:18 final size:18
Alignment explanation
Indices: 11758786--11758821 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11758776 TAAAGGAATC
11758786 TTTTACATAATATATTAAT
1 TTTTACATAATAT-TTAAT
11758805 TTTTA-ATAATATTTAAT
1 TTTTACATAATATTTAAT
11758822 AAATTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTACATAATATTTAAT
Found at i:11759132 original size:19 final size:21
Alignment explanation
Indices: 11759088--11759132 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
11759078 ACAACTATTG
*
11759088 AAATTTATATACATACATTTA
1 AAATTTATATACATACAATTA
*
11759109 TAATTTATA-A-ATACAATTA
1 AAATTTATATACATACAATTA
11759128 AAATT
1 AAATT
11759133 ATCCCCAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTATATACATACAATTA
Found at i:11765649 original size:34 final size:33
Alignment explanation
Indices: 11765611--11765695 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 33
11765601 TTTAAAATCC
*
11765611 AATTTTGAAAATATAAC-ATATTTTTCAAAAATAG
1 AATTTTGAAAAAATAACTATA-TTTTCAAAAAT-G
* * *
11765645 AATTTTCAAAAAATATGCTATATTTTCGAAAATG
1 AATTTTGAAAAAATA-ACTATATTTTCAAAAATG
*
11765679 AATTTTCGAAAACATAA
1 AATTTT-GAAAAAATAA
11765696 AAATTATAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
34 20 0.49
35 18 0.44
36 3 0.07
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (33 bp):
AATTTTGAAAAAATAACTATATTTTCAAAAATG
Found at i:11768057 original size:17 final size:17
Alignment explanation
Indices: 11768037--11768079 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
11768027 ATAAAATATT
11768037 TTTAAAAAAATTA-AAAA
1 TTTAAAAAAA-TACAAAA
11768054 TTT-AAAAAATACAAAA
1 TTTAAAAAAATACAAAA
11768070 TTTAAAAAAA
1 TTTAAAAAAA
11768080 AATCTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.08
16 13 0.54
17 9 0.38
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
TTTAAAAAAATACAAAA
Found at i:11768064 original size:35 final size:34
Alignment explanation
Indices: 11768023--11768110 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
11768013 TCTCAATATT
*
11768023 AAAAATAAAATATTTTTAAAAAAAT-TAAAAATTTA
1 AAAAATAAAA-ATTTTTAAAAAAATCTAAAAA-GTA
**
11768058 AAAAATACAAAATTTAAAAAAAAATCTAAAAAGTA
1 AAAAATA-AAAATTTTTAAAAAAATCTAAAAAGTA
* *
11768093 AAAGATTAAAATTTTTAA
1 AAAAATAAAAATTTTTAA
11768111 TTAAATAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
34 9 0.20
35 26 0.59
36 9 0.20
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (34 bp):
AAAAATAAAAATTTTTAAAAAAATCTAAAAAGTA
Found at i:11768388 original size:19 final size:20
Alignment explanation
Indices: 11768348--11768393 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
11768338 AACTAAATTT
*
11768348 AATATTTTTAAAATAATAAA
1 AATATTTCTAAAATAATAAA
* *
11768368 AA-ATTTCTAAAATATTCAA
1 AATATTTCTAAAATAATAAA
11768387 AATATTT
1 AATATTT
11768394 TTTATATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATTTCTAAAATAATAAA
Found at i:11770135 original size:109 final size:105
Alignment explanation
Indices: 11769934--11770325 Score: 313
Period size: 105 Copynumber: 3.7 Consensus size: 105
11769924 AATGCAGTTG
* * * * **
11769934 TTGACAAATAATCAAAATATTATATTTAACAAGCACGGTGTTTTTCATTTTATAAATGT-TGTAA
1 TTGACAAATCATCAAAACATTATATTTAACAAGCATGATG-TTTTGGTTTTATAAATGTCT-TAA
* * * ** * *
11769998 TATTAAATAGGCACGATGTTTTGCTAATTATAAATGCAGCCT
64 TATTAAACAAGCACAACATTTTGATAATTATAAATGCAACCT
* * *
11770040 TTGTTTAACAAATCATCAAAACGTTATATTTAACAAGTATGATGTTTTGGTTTTATAAACGTCTT
1 TTG----ACAAATCATCAAAACATTATATTTAACAAGCATGATGTTTTGGTTTTATAAATGTCTT
* *
11770105 AATATTAAACAAGCACAACATTTTGATAATTATAAATGTAATCT
62 AATATTAAACAAGCACAACATTTTGATAATTATAAATGCAACCT
* * * * * *
11770149 TTGACATATCATCAAAACTTTATCTTTAAAAAGCATGACGTTTTGGTTTTATAAATGTCATAATA
1 TTGACAAATCATCAAAACATTATATTTAACAAGCATGATGTTTTGGTTTTATAAATGTCTTAATA
** * * * * ***
11770214 TTAAACAAGCATGACGTTTAG-TCATTATAAATGTAGTAT
66 TTAAACAAGCACAACATTTTGATAATTATAAATGCAACCT
* * * * * * * *
11770253 TTAATAAATCAACAAAACCTTATATTTAAAAATCACT-ATGTTTTTGGTTTTATAAATGCCATAA
1 TTGACAAATCATCAAAACATTATATTTAACAAGCA-TGATG-TTTTGGTTTTATAAATGTCTTAA
*
11770317 TGTTAAACA
64 TATTAAACA
11770326 TGATGTTTTG
Statistics
Matches: 236, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
104 45 0.19
105 102 0.43
106 3 0.01
109 54 0.23
110 32 0.14
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (105 bp):
TTGACAAATCATCAAAACATTATATTTAACAAGCATGATGTTTTGGTTTTATAAATGTCTTAATA
TTAAACAAGCACAACATTTTGATAATTATAAATGCAACCT
Found at i:11770213 original size:105 final size:104
Alignment explanation
Indices: 11770043--11770325 Score: 334
Period size: 105 Copynumber: 2.7 Consensus size: 104
11770033 GCAGCCTTTG
* * * * *
11770043 TTTAACAAATCATCAAAACGTTATATTTAACAAGTATGATGTTTTGGTTTTATAAACGTCTTAAT
1 TTTAACAAATCATCAAAACCTTATATTTAAAAAGCATGATGTTTTGGTTTTATAAATGTCATAAT
* *
11770108 ATTAAACAAGCACAACATTTTGATAATTATAAATGTAATC
66 ATTAAACAAGCACAACATTTAG-TAATTATAAATGTAATA
* * * * *
11770148 TTTGACATATCATCAAAACTTTATCTTTAAAAAGCATGACGTTTTGGTTTTATAAATGTCATAAT
1 TTTAACAAATCATCAAAACCTTATATTTAAAAAGCATGATGTTTTGGTTTTATAAATGTCATAAT
** * * *
11770213 ATTAAACAAGCATGACGTTTAGTCATTATAAATGTAGTA
66 ATTAAACAAGCACAACATTTAGTAATTATAAATGTAATA
* * * *
11770252 TTTAATAAATCAACAAAACCTTATATTTAAAAATCACT-ATGTTTTTGGTTTTATAAATGCCATA
1 TTTAACAAATCATCAAAACCTTATATTTAAAAAGCA-TGATG-TTTTGGTTTTATAAATGTCATA
*
11770316 ATGTTAAACA
64 ATATTAAACA
11770326 TGATGTTTTG
Statistics
Matches: 150, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
104 45 0.30
105 105 0.70
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.39
Consensus pattern (104 bp):
TTTAACAAATCATCAAAACCTTATATTTAAAAAGCATGATGTTTTGGTTTTATAAATGTCATAAT
ATTAAACAAGCACAACATTTAGTAATTATAAATGTAATA
Found at i:11773365 original size:30 final size:30
Alignment explanation
Indices: 11773325--11773388 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
11773315 ATATTGATGT
* *
11773325 AAATTAAACATATAATTTTTAT-CTAAGTCC
1 AAATTAAACATATAAATATTATAC-AAGTCC
*
11773355 AAATTCAACATATAAATATTATACAAGTCC
1 AAATTAAACATATAAATATTATACAAGTCC
11773385 AAAT
1 AAAT
11773389 ATTTTCTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATTAAACATATAAATATTATACAAGTCC
Found at i:11773629 original size:42 final size:42
Alignment explanation
Indices: 11773556--11773639 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
11773546 TGAAATATAA
* * * **
11773556 CTTGATAAAGATGACGTTTTGATGTTAAAAACATGATTTTTG
1 CTTGACAAAGATGACATTTTGATATTAAAAACACAATTTTTG
* * *
11773598 CTTGACAAAGGTGACATTTTTATATTTAAAACACAATTTTTG
1 CTTGACAAAGATGACATTTTGATATTAAAAACACAATTTTTG
11773640 ACATTTTATC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (42 bp):
CTTGACAAAGATGACATTTTGATATTAAAAACACAATTTTTG
Found at i:11773958 original size:132 final size:129
Alignment explanation
Indices: 11773553--11774113 Score: 447
Period size: 132 Copynumber: 4.3 Consensus size: 129
11773543 CTATGAAATA
* * * * * * *
11773553 TAACTTGATAAAGATGACGTTTTGATGTTAAAAACATG-A-TTTTTGCTTGACAAAGGTGACATT
1 TAACTTGATAAATATGACGTTTTTATGTTAAAAA-ACGCAGTCTTTGCTTAACAAAGATAACATT
* * * * * ** * *
11773616 TTTATATTTAAAACACAATTTTTGACAT-TTTATCAGATTTAAAATTTTAAAATTGTCAAATTTT
65 TTGAT-GTTAAAAAATAATCTTT-ATTTGTTTATCAAATTTAAAATTGT--AATTGTCAAATTTT
11773680 ATGA-
126 AT-AT
* * * * *
11773684 TAACTTGATAAAGT-TGATGTTTTTATGTTAAAAAACACAATCTTTGCTTGACAAAGATAATGA-
1 TAACTTGATAAA-TATGACGTTTTTATGTTAAAAAACGCAGTCTTTGCTTAACAAAGATAA-CAT
* * * *
11773747 TTTGATGTTAAAAAATACAGTCTTTATTAGTTTATTATATTTAAAATTGTATTTGTCAAATTTTA
64 TTTGATGTTAAAAAATA-A-TCTTTATTTGTTTATCAAATTTAAAATTGTAATTGTCAAATTTTA
*
11773812 TGT
127 TAT
* * * * *
11773815 TAACTTAATAAATATGACGTTTTTATATTAAAGAACGCAGTGTTTGCTTCACAAAGATAACATTT
1 TAACTTGATAAATATGACGTTTTTATGTTAAAAAACGCAGTCTTTGCTTAACAAAGATAACATTT
* * *
11773880 TGATGTTAATAAAACGTAATTTTTGTTTGTTTATCAAATTTAAAATTGTAATTGTCAAAATTTAT
66 TGATGTTAA-AAAA--TAATCTTTATTTGTTTATCAAATTTAAAATTGTAATTGTCAAATTTTAT
11773945 AT
128 AT
* * * * * * *
11773947 TAACTTGATAAAAATTACATTTTTATGTTAAAAAATGTC-GTCTTTACTTAACAAAGTTGACATT
1 TAACTTGATAAATATGACGTTTTTATGTTAAAAAACG-CAGTCTTTGCTTAACAAAGATAACATT
* * *
11774011 TTGATGTTAAAAAAATAGTCTTTATCAT-TTTATCAAATTTAAAATTG-AATTTTATCAAATTTT
65 TTGATGTT-AAAAAATAATCTTTAT-TTGTTTATCAAATTTAAAATTGTAA--TTGTCAAATTTT
*
11774074 ATGT
126 ATAT
* ** *
11774078 TAATTTGATAAATACAACATTTTTTATGTTAAAAAA
1 TAACTTGATAAATATGAC-GTTTTTATGTTAAAAAA
11774114 AAAAACACAA
Statistics
Matches: 348, Mismatches: 63, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
129 2 0.01
130 29 0.08
131 143 0.41
132 146 0.42
133 26 0.07
134 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (129 bp):
TAACTTGATAAATATGACGTTTTTATGTTAAAAAACGCAGTCTTTGCTTAACAAAGATAACATTT
TGATGTTAAAAAATAATCTTTATTTGTTTATCAAATTTAAAATTGTAATTGTCAAATTTTATAT
Found at i:11774252 original size:23 final size:22
Alignment explanation
Indices: 11774226--11774271 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11774216 TAATATTTTT
11774226 TAAATTGAAAAAAAATAATTATA
1 TAAATT-AAAAAAAATAATTATA
* * *
11774249 TAAATTTAAAGAAGTAATTATA
1 TAAATTAAAAAAAATAATTATA
11774271 T
1 T
11774272 CATTCCAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
TAAATTAAAAAAAATAATTATA
Found at i:11775663 original size:11 final size:11
Alignment explanation
Indices: 11775633--11775669 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
11775623 ATACTCAATA
11775633 ATAAAACAAAT
1 ATAAAACAAAT
*
11775644 AGGAAAACAAAT
1 A-TAAAACAAAT
11775656 ATAAAACAAAT
1 ATAAAACAAAT
11775667 ATA
1 ATA
11775670 GAAAGCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.16
Consensus pattern (11 bp):
ATAAAACAAAT
Found at i:11777237 original size:56 final size:56
Alignment explanation
Indices: 11777172--11777295 Score: 153
Period size: 56 Copynumber: 2.2 Consensus size: 56
11777162 TTAATGTGCG
* * * * *
11777172 TTTG-GTAGATCAAGATCTAAGTCACATCTAACAAATAACAACTAGCAAAAAAACA
1 TTTGAGTAGATCAAAATCTAAGCCAAATCGAACAAATAACAAATAGCAAAAAAACA
* * *
11777227 TTTGAGTAGATCAAAATCTAAGCCAAATCGAACAAATAACAAATAGTAAGAATACA
1 TTTGAGTAGATCAAAATCTAAGCCAAATCGAACAAATAACAAATAGCAAAAAAACA
*
11777283 TATGA-TAGATCAA
1 TTTGAGTAGATCAA
11777296 TAACTTTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 12 0.20
56 47 0.80
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (56 bp):
TTTGAGTAGATCAAAATCTAAGCCAAATCGAACAAATAACAAATAGCAAAAAAACA
Found at i:11777666 original size:7 final size:7
Alignment explanation
Indices: 11777639--11777672 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
11777629 ATCACATAAA
11777639 TATTTATT
1 TATTT-TT
11777647 TATTTTAT
1 TATTTT-T
11777655 TATTTTT
1 TATTTTT
11777662 TATTTTT
1 TATTTTT
11777669 TATT
1 TATT
11777673 ATCAACTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 13 0.52
8 12 0.48
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TATTTTT
Found at i:11779834 original size:11 final size:11
Alignment explanation
Indices: 11779804--11779858 Score: 83
Period size: 11 Copynumber: 4.9 Consensus size: 11
11779794 GTTTGATGAT
*
11779804 TTTAGAGTTAAG
1 TTTAGA-TTAAA
*
11779816 TTTGGATTAAA
1 TTTAGATTAAA
11779827 TTTAGATTAAA
1 TTTAGATTAAA
11779838 TTTAGATTAAA
1 TTTAGATTAAA
11779849 TTTAGATTAA
1 TTTAGATTAA
11779859 GAGTGAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
11 35 0.88
12 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (11 bp):
TTTAGATTAAA
Found at i:11788068 original size:24 final size:23
Alignment explanation
Indices: 11788020--11788081 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
11788010 AAAAATAATT
11788020 TCTTTTCTTTAAAAAAAATCAACA
1 TCTTTT-TTTAAAAAAAATCAACA
11788044 TGCTTTTTTTAAAAAAAA-CATACA
1 T-CTTTTTTTAAAAAAAATCA-ACA
* *
11788068 TCTATATTTAAAAA
1 TCTTTTTTTAAAAA
11788082 TTTTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 13 0.38
24 16 0.47
25 5 0.15
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (23 bp):
TCTTTTTTTAAAAAAAATCAACA
Found at i:11789579 original size:20 final size:21
Alignment explanation
Indices: 11789551--11789599 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
11789541 TTTCACAGAC
* *
11789551 TTTTATTTATTTTTTGAT-TT
1 TTTTATTTAATTTTTCATATT
*
11789571 TTTTCTTTAATTTTTCATATT
1 TTTTATTTAATTTTTCATATT
11789592 TTTTATTT
1 TTTTATTT
11789600 TGTTAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTATTTAATTTTTCATATT
Found at i:11790096 original size:7 final size:7
Alignment explanation
Indices: 11790084--11790112 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11790074 TTTTGTTTTC
11790084 TTTTGTT
1 TTTTGTT
11790091 TTTTGTT
1 TTTTGTT
11790098 TTTTGTT
1 TTTTGTT
11790105 TTTT-TT
1 TTTTGTT
11790111 TT
1 TT
11790113 GCTTCCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (7 bp):
TTTTGTT
Found at i:11790096 original size:17 final size:18
Alignment explanation
Indices: 11790074--11790113 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11790064 CTTTGTTCTA
11790074 TTTTGTTTTCT-TTTGTT
1 TTTTGTTTTCTGTTTGTT
* *
11790091 TTTTGTTTTTTGTTTTTT
1 TTTTGTTTTCTGTTTGTT
11790109 TTTTG
1 TTTTG
11790114 CTTCCTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (18 bp):
TTTTGTTTTCTGTTTGTT
Found at i:11790103 original size:14 final size:13
Alignment explanation
Indices: 11790074--11790112 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
11790064 CTTTGTTCTA
11790074 TTTTGTTTTCTTTTG
1 TTTT-TTTT-TTTTG
11790089 TTTTTTGTTTTTTG
1 TTTTTT-TTTTTTG
11790103 TTTTTTTTTT
1 TTTTTTTTTT
11790113 GCTTCCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.17
14 13 0.57
15 6 0.26
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:11790204 original size:46 final size:46
Alignment explanation
Indices: 11790138--11790336 Score: 161
Period size: 46 Copynumber: 4.3 Consensus size: 46
11790128 GCTCGACAAG
* * *
11790138 TTTAAACATCGAACTAAAAGGCTCTTCTCAGTAAAGGCTTAATAAC
1 TTTAAAAATCAAACTAAAAGGCTCTTCTCAGTAAAGGCTTGATAAC
* * * * * *
11790184 TTTAAAAATCAAACTGAAAGGTTCCCTTCT--TTAGAGGTTTGACAAC
1 TTTAAAAATCAAACTAAAAGG--CTCTTCTCAGTAAAGGCTTGATAAC
* * * * * *
11790230 TTTAAAAATTAAATTAAAAGGCTCTTTTCAGTATATGCATGATAAC
1 TTTAAAAATCAAACTAAAAGGCTCTTCTCAGTAAAGGCTTGATAAC
* * * * * *
11790276 TTTAAAAATCAAAATAAAATGCTTCTT-TCATTAAAGACTCGATTAC
1 TTTAAAAATCAAACTAAAAGGC-TCTTCTCAGTAAAGGCTTGATAAC
11790322 TTTAAAAATCAAACT
1 TTTAAAAATCAAACT
11790337 GAAGGGTTTT
Statistics
Matches: 117, Mismatches: 31, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
44 5 0.04
46 102 0.87
47 4 0.03
48 6 0.05
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (46 bp):
TTTAAAAATCAAACTAAAAGGCTCTTCTCAGTAAAGGCTTGATAAC
Found at i:11790627 original size:49 final size:47
Alignment explanation
Indices: 11790541--11790707 Score: 165
Period size: 49 Copynumber: 3.4 Consensus size: 47
11790531 CATAGGCTAA
*
11790541 GAAACTTTAAAAATCTCATT-AAGAAAATATTCTTCTAATTAGAGGCAAT
1 GAAACTTTAAAAATCTCATTGAA-AAAA-A-TCATCTAATTAGAGGCAAT
*
11790590 GAAACTTTAAAAATCTTATCTGAAAAAAACTCATCTAATTAGAGGCAAT
1 GAAACTTTAAAAATCTCAT-TGAAAAAAA-TCATCTAATTAGAGGCAAT
* * * * * * * *
11790639 AAAATTTTAAAAATCTCATAGGGAAAAATATAATCTAATTAAAGACATT
1 GAAACTTTAAAAATCTCAT--TGAAAAAAATCATCTAATTAGAGGCAAT
*
11790688 GAAATTTTAAAAATCTCATT
1 GAAACTTTAAAAATCTCATT
11790708 TTGTGCCAAC
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
49 86 0.86
50 12 0.12
51 2 0.02
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (47 bp):
GAAACTTTAAAAATCTCATTGAAAAAAATCATCTAATTAGAGGCAAT
Found at i:11791377 original size:44 final size:45
Alignment explanation
Indices: 11791309--11791456 Score: 149
Period size: 44 Copynumber: 3.3 Consensus size: 45
11791299 TCATTTGAAA
* *
11791309 AGATTCACAT-CAAAAAATCA-AATATTCTTATTTGAAAAATTTAG
1 AGATTCACATATAAAAAAT-AGAATATTCTCATTTGAAAAATTTAG
* * * * *
11791353 AGATTTACATAT-AAAAATAGAATATTCTCACTTAAAAAATTCAA
1 AGATTCACATATAAAAAATAGAATATTCTCATTTGAAAAATTTAG
* * *
11791397 ATATTCACATATAAAAAATCGAAGATTCTCATTTGAAAAAATTTAG
1 AGATTCACATATAAAAAATAGAATATTCTCATTTG-AAAAATTTAG
* *
11791443 ATATTCATATATAA
1 AGATTCACATATAA
11791457 TTTGAAAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.01
44 44 0.52
45 18 0.21
46 21 0.25
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (45 bp):
AGATTCACATATAAAAAATAGAATATTCTCATTTGAAAAATTTAG
Found at i:11791390 original size:22 final size:21
Alignment explanation
Indices: 11791365--11791438 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 21
11791355 ATTTACATAT
11791365 AAAAATAGAATATTCTCACTTA
1 AAAAATAGAATATTCTCA-TTA
*
11791387 AAAAATTCA-AATATTCACATATA
1 AAAAA-T-AGAATATTCTCAT-TA
* *
11791410 AAAAATCGAAGATTCTCATTTGA
1 AAAAATAGAATATTCTCA-TT-A
11791433 AAAAAT
1 AAAAAT
11791439 TTAGATATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
22 16 0.38
23 25 0.60
24 1 0.02
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAATAGAATATTCTCATTA
Found at i:11791536 original size:21 final size:21
Alignment explanation
Indices: 11791512--11791765 Score: 113
Period size: 21 Copynumber: 12.5 Consensus size: 21
11791502 TTTGAAGAAT
11791512 TCAAAGATTCACATCTAAAAA
1 TCAAAGATTCACATCTAAAAA
* * *
11791533 TCAAATATTCGCGTCTGAAAAA
1 TCAAAGATTCACATCT-AAAAA
*
11791555 TTCAAAGATTCACATTTAAAAA
1 -TCAAAGATTCACATCTAAAAA
* * * *
11791577 TCTAAGATTCTCATTTGAAAA
1 TCAAAGATTCACATCTAAAAA
*
11791598 T------TTCATATCTAAAAA
1 TCAAAGATTCACATCTAAAAA
* ** * *
11791613 TGAAAGATTCTTATTTGAAAA
1 TCAAAGATTCACATCTAAAAA
11791634 T------TTCACATCTAAA-A
1 TCAAAGATTCACATCTAAAAA
* * * *
11791648 TCAAATATTCATATTTGAAAACT
1 TCAAAGATTCACATCT-AAAA-A
*
11791671 TCAAAGATTCACATTTAAAAA
1 TCAAAGATTCACATCTAAAAA
* * *
11791692 TCAAATATTCTCATTTGAAAAA
1 TCAAAGATTCACATCT-AAAAA
* *
11791714 TTATAGATTCACA-CATAAAAA
1 TCAAAGATTCACATC-TAAAAA
* *
11791735 TCAAAGATTCTCATCTAGAAA
1 TCAAAGATTCACATCTAAAAA
*
11791756 TCAAATATTC
1 TCAAAGATTC
11791766 TCATTTTGAG
Statistics
Matches: 174, Mismatches: 39, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
14 2 0.01
15 19 0.11
20 7 0.04
21 90 0.52
22 30 0.17
23 26 0.15
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (21 bp):
TCAAAGATTCACATCTAAAAA
Found at i:11791596 original size:44 final size:44
Alignment explanation
Indices: 11791456--11791748 Score: 223
Period size: 44 Copynumber: 7.0 Consensus size: 44
11791446 TTCATATATA
* * * * *
11791456 ATTTGAAAAAACTCAGAGATTCATATCTAAAAAAT-GAAGATTTTC
1 ATTTG-AAAAATTCAAAGATTCACATCT-AAAAATCAAAGATTCTC
* * *
11791501 ATTTGAAGAATTCAAAGATTCACATCTAAAAATCAAATATTCGC
1 ATTTGAAAAATTCAAAGATTCACATCTAAAAATCAAAGATTCTC
* * * *
11791545 GTCTGAAAAATTCAAAGATTCACATTTAAAAATCTAAGATTCTC
1 ATTTGAAAAATTCAAAGATTCACATCTAAAAATCAAAGATTCTC
* * *
11791589 ATTTG-AAAA-T------TTCATATCTAAAAATGAAAGATTCTT
1 ATTTGAAAAATTCAAAGATTCACATCTAAAAATCAAAGATTCTC
*
11791625 ATTTG-AAAA-T------TTCACATCT-AAAATCAAATATTCAT-
1 ATTTGAAAAATTCAAAGATTCACATCTAAAAATCAAAGATTC-TC
* * *
11791660 ATTTGAAAACTTCAAAGATTCACATTTAAAAATCAAATATTCTC
1 ATTTGAAAAATTCAAAGATTCACATCTAAAAATCAAAGATTCTC
*
11791704 ATTTGAAAAATT-ATAGATTCACA-CATAAAAATCAAAGATTCTC
1 ATTTGAAAAATTCAAAGATTCACATC-TAAAAATCAAAGATTCTC
11791747 AT
1 AT
11791749 CTAGAAATCA
Statistics
Matches: 204, Mismatches: 31, Indels: 28
0.78 0.12 0.11
Matches are distributed among these distances:
35 17 0.08
36 43 0.21
37 1 0.00
42 1 0.00
43 48 0.24
44 89 0.44
45 5 0.02
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.33
Consensus pattern (44 bp):
ATTTGAAAAATTCAAAGATTCACATCTAAAAATCAAAGATTCTC
Found at i:11791663 original size:35 final size:35
Alignment explanation
Indices: 11791563--11791673 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 35
11791553 AATTCAAAGA
* *
11791563 TTCACATTTAAAAATCTAAGATTCTCATTTGAAAAT
1 TTCACATCTAAAAATCAAAGATTCT-ATTTGAAAAT
* *
11791599 TTCATATCTAAAAATGAAAGATTCTTATTTGAAAAT
1 TTCACATCTAAAAATCAAAGATTC-TATTTGAAAAT
* *
11791635 TTCACATCT-AAAATCAAATATTCATATTTGAAAAC
1 TTCACATCTAAAAATCAAAGATTC-TATTTGAAAAT
11791670 TTCA
1 TTCA
11791674 AAGATTCACA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
35 26 0.40
36 38 0.58
37 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (35 bp):
TTCACATCTAAAAATCAAAGATTCTATTTGAAAAT
Found at i:11791674 original size:23 final size:22
Alignment explanation
Indices: 11791644--11791714 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
11791634 TTTCACATCT
11791644 AAAATCAAATATTCATATTTGA
1 AAAATCAAATATTCATATTTGA
* * *
11791666 AAACTTCAAAGATTCACATTT-A
1 AAA-ATCAAATATTCATATTTGA
11791688 AAAATCAAATATTC-TCATTTGA
1 AAAATCAAATATTCAT-ATTTGA
11791710 AAAAT
1 AAAAT
11791715 TATAGATTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 13 0.32
22 13 0.32
23 14 0.35
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (22 bp):
AAAATCAAATATTCATATTTGA
Found at i:11791722 original size:43 final size:44
Alignment explanation
Indices: 11791635--11791748 Score: 144
Period size: 43 Copynumber: 2.6 Consensus size: 44
11791625 ATTTGAAAAT
* *
11791635 TTCACATCT-AAAATCAAATATTCAT-ATTTGAAAACTTCAAAGA
1 TTCACATATAAAAATCAAATATTC-TCATTTGAAAAATTCAAAGA
* *
11791678 TTCACATTTAAAAATCAAATATTCTCATTTGAAAAATT-ATAGA
1 TTCACATATAAAAATCAAATATTCTCATTTGAAAAATTCAAAGA
* *
11791721 TTCACACATAAAAATCAAAGATTCTCAT
1 TTCACATATAAAAATCAAATATTCTCAT
11791749 CTAGAAATCA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
43 38 0.60
44 25 0.40
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.33
Consensus pattern (44 bp):
TTCACATATAAAAATCAAATATTCTCATTTGAAAAATTCAAAGA
Found at i:11797241 original size:21 final size:22
Alignment explanation
Indices: 11797217--11797258 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11797207 TGTCTCATTT
11797217 TATTT-ACTTTTTTTCAAAAAC
1 TATTTGACTTTTTTTCAAAAAC
* *
11797238 TATTTGTCTTTTTTTTAAAAA
1 TATTTGACTTTTTTTCAAAAA
11797259 AAATTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTGACTTTTTTTCAAAAAC
Found at i:11797264 original size:22 final size:22
Alignment explanation
Indices: 11797223--11797266 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11797213 ATTTTATTTA
**
11797223 CTTTTTTTCAAAAACTATTTGT
1 CTTTTTTTCAAAAAAAATTTGT
*
11797245 CTTTTTTTTAAAAAAAATTTGT
1 CTTTTTTTCAAAAAAAATTTGT
11797267 TTATTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (22 bp):
CTTTTTTTCAAAAAAAATTTGT
Found at i:11801879 original size:21 final size:22
Alignment explanation
Indices: 11801848--11801900 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
11801838 ATATATATTT
11801848 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
11801870 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
11801892 ATATTTTAT
1 ATATTTTAT
11801901 TAATTTCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:11802948 original size:2 final size:2
Alignment explanation
Indices: 11802937--11802969 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11802927 AATGTTCACT
11802937 TA TA -A 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
11802970 AACTGTCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11803999 original size:2 final size:2
Alignment explanation
Indices: 11803992--11804023 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11803982 TGTTGAAAAC
11803992 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
11804024 AGTTCTAGGC
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):
TA
Found at i:11806606 original size:22 final size:22
Alignment explanation
Indices: 11806578--11806620 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11806568 TATAATTTTT
*
11806578 ATTATAATTAAATAA-TTATAAA
1 ATTATAA-TAAAAAATTTATAAA
11806600 ATTATAATAAAAAATTTATAA
1 ATTATAATAAAAAATTTATAA
11806621 GTGAAATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTATAATAAAAAATTTATAAA
Found at i:11807555 original size:16 final size:17
Alignment explanation
Indices: 11807529--11807560 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11807519 TTTTATATAT
11807529 ATTTATATATTTATTTA
1 ATTTATATATTTATTTA
11807546 ATTT-TATATTTATTT
1 ATTTATATATTTATTT
11807561 TAAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTATATATTTATTTA
Found at i:11809032 original size:8 final size:8
Alignment explanation
Indices: 11809019--11809051 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
11809009 ATTTGCCTTA
11809019 AATCTCAT
1 AATCTCAT
11809027 AATCTCAT
1 AATCTCAT
11809035 AATCTCAT
1 AATCTCAT
11809043 AATCTCAT
1 AATCTCAT
11809051 A
1 A
11809052 TCAAAAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.36
Consensus pattern (8 bp):
AATCTCAT
Found at i:11815786 original size:19 final size:18
Alignment explanation
Indices: 11815762--11815831 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 18
11815752 TCACTAATGG
11815762 ATGAAAAATGAGAAAAAAA
1 ATGAAAAATG-GAAAAAAA
11815781 ATGAAAAATGAGAAGAAAAAA
1 ATGAAAAATG-G-A-AAAAAA
11815802 ATGAAAAAT-GAAAAAAA
1 ATGAAAAATGGAAAAAAA
11815819 A-GAAAAATGGAAA
1 ATGAAAAATGGAAA
11815832 GGAAAGAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.15
17 11 0.23
18 1 0.02
19 13 0.27
20 1 0.02
21 15 0.31
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (18 bp):
ATGAAAAATGGAAAAAAA
Found at i:11815801 original size:21 final size:20
Alignment explanation
Indices: 11815762--11815819 Score: 93
Period size: 19 Copynumber: 3.0 Consensus size: 20
11815752 TCACTAATGG
11815762 ATGAAAAATGAG-AAAAAAA
1 ATGAAAAATGAGAAAAAAAA
11815781 ATGAAAAATGAGAAGAAAAAA
1 ATGAAAAATGAGAA-AAAAAA
11815802 ATGAAAAATGA-AAAAAAA
1 ATGAAAAATGAGAAAAAAA
11815820 GAAAAATGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.46
20 3 0.08
21 17 0.46
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (20 bp):
ATGAAAAATGAGAAAAAAAA
Found at i:11815815 original size:6 final size:7
Alignment explanation
Indices: 11815762--11815816 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
11815752 TCACTAATGG
11815762 ATGAAAA
1 ATGAAAA
*
11815769 ATGAGAA
1 ATGAAAA
11815776 A--AAAA
1 ATGAAAA
11815781 ATGAAAA
1 ATGAAAA
11815788 ATGAGAAGA
1 ATGA-AA-A
11815797 A--AAAA
1 ATGAAAA
11815802 ATGAAAA
1 ATGAAAA
11815809 ATGAAAA
1 ATGAAAA
11815816 A
1 A
11815817 AAAGAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
5 6 0.15
6 2 0.05
7 28 0.70
8 2 0.05
9 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (7 bp):
ATGAAAA
Found at i:11815816 original size:16 final size:16
Alignment explanation
Indices: 11815795--11815841 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
11815785 AAAATGAGAA
*
11815795 GAAAAAAATGAAAAAT
1 GAAAAAAAAGAAAAAT
11815811 GAAAAAAAAGAAAAAT
1 GAAAAAAAAGAAAAAT
**
11815827 GGAAAGGAAAGAAAA
1 -GAAAAAAAAGAAAA
11815842 GAAAAACTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
GAAAAAAAAGAAAAAT
Found at i:11816791 original size:79 final size:79
Alignment explanation
Indices: 11816621--11816798 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 79
11816611 TTGGAATGGC
* * * * *
11816621 TAGTGCTGA-AAAGTCTATCAATGGTGATCAAGTGATTAACATAATATGGATTAGAAGACAGAAT
1 TAGTGCTGAGAAA-CCTATGAATGGTGATCAAATGATTAAAATAATATGGATCAGAAGACAGAAT
*
11816685 TTGTTCTAGAATGGT
65 TTGTTCTAGAATGAT
* * * *
11816700 TATTGCTAAGAAACCTATGAATGGTGAT-AGAATGATTAAAATAATGTGGATCAGAAGATAGAAT
1 TAGTGCTGAGAAACCTATGAATGGTGATCA-AATGATTAAAATAATATGGATCAGAAGACAGAAT
*
11816764 TTGTT-TTGAAATGAT
65 TTGTTCTAG-AATGAT
*
11816779 TAGTGCTGAGAAACTTATGA
1 TAGTGCTGAGAAACCTATGA
11816799 GTTGTGATTA
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 3 0.04
79 76 0.93
80 3 0.04
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.32
Consensus pattern (79 bp):
TAGTGCTGAGAAACCTATGAATGGTGATCAAATGATTAAAATAATATGGATCAGAAGACAGAATT
TGTTCTAGAATGAT
Found at i:11817337 original size:46 final size:46
Alignment explanation
Indices: 11817286--11817557 Score: 263
Period size: 46 Copynumber: 6.0 Consensus size: 46
11817276 GAATCCTATT
*
11817286 TTTAAGAAATTTTCAAATAAAAATCTTTGAGTCTTAAATAAGAATA
1 TTTAAGAAATTCTCAAATAAAAATCTTTGAGTCTTAAATAAGAATA
* * ** *
11817332 TTTAAGAAATCCTCAAATAAAAATCTTTGAGACTTAAATGGGAATC
1 TTTAAGAAATTCTCAAATAAAAATCTTTGAGTCTTAAATAAGAATA
* * *
11817378 TTTAAGAAATTCTCAAATGAGAATCTTTGAGTCTTAAATGAA-AATC
1 TTTAAGAAATTCTCAAATAAAAATCTTTGAGTCTTAAAT-AAGAATA
* * * * *
11817424 TTTAAGAAA-TCTTTAAATGAGAATCTTTAAGTCTTAAATGAGAATA
1 TTTAAGAAATTC-TCAAATAAAAATCTTTGAGTCTTAAATAAGAATA
* * * *
11817470 TTTAAGAAATTCTCAAATGAGAATCTTTGAGT-TTCAAATGAGAATT
1 TTTAAGAAATTCTCAAATAAAAATCTTTGAGTCTT-AAATAAGAATA
* *
11817516 TTTAAG----TCTTCAAATAAAAATCTTTAAGT-TTCAAACAAGAAT
1 TTTAAGAAATTC-TCAAATAAAAATCTTTGAGTCTT-AAATAAGAAT
11817558 CTTTGAGTCT
Statistics
Matches: 196, Mismatches: 24, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
42 2 0.01
43 28 0.14
45 5 0.03
46 159 0.81
47 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (46 bp):
TTTAAGAAATTCTCAAATAAAAATCTTTGAGTCTTAAATAAGAATA
Found at i:11817449 original size:92 final size:92
Alignment explanation
Indices: 11817286--11817543 Score: 328
Period size: 92 Copynumber: 2.8 Consensus size: 92
11817276 GAATCCTATT
* * *
11817286 TTTAAGAAATTTTCAAATAAAAATCTTTGAGTCTTAAAT-AAGAATATTTAAGAAATCCTCAAAT
1 TTTAAGAAATTCTCAAATGAGAATCTTTGAGTCTTAAATGAA-AATATTTAAGAAATCCTCAAAT
* * *
11817350 AAAAATCTTTGAGACTTAAATGGGAATC
65 AAAAATCTTTAAGACTTAAATGAGAATA
* * * *
11817378 TTTAAGAAATTCTCAAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAAGAAATCTTTAAATG
1 TTTAAGAAATTCTCAAATGAGAATCTTTGAGTCTTAAATGAAAATATTTAAGAAATCCTCAAATA
* *
11817443 AGAATCTTTAAGTCTTAAATGAGAATA
66 AAAATCTTTAAGACTTAAATGAGAATA
* * *
11817470 TTTAAGAAATTCTCAAATGAGAATCTTTGAGT-TTCAAATGAGAATTTTTAAG---TCTTCAAAT
1 TTTAAGAAATTCTCAAATGAGAATCTTTGAGTCTT-AAATGAAAATATTTAAGAAATCCTCAAAT
11817531 AAAAATCTTTAAG
65 AAAAATCTTTAAG
11817544 TTTCAAACAA
Statistics
Matches: 147, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
89 19 0.13
91 2 0.01
92 124 0.84
93 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (92 bp):
TTTAAGAAATTCTCAAATGAGAATCTTTGAGTCTTAAATGAAAATATTTAAGAAATCCTCAAATA
AAAATCTTTAAGACTTAAATGAGAATA
Found at i:11817450 original size:14 final size:13
Alignment explanation
Indices: 11817411--11817453 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
11817401 TCTTTGAGTC
11817411 TTAAATGAAAATCT
1 TTAAATG-AAATCT
11817425 TT-AA-GAAATCT
1 TTAAATGAAATCT
11817436 TTAAATGAGAATCT
1 TTAAATGA-AATCT
11817450 TTAA
1 TTAA
11817454 GTCTTAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.31
12 3 0.12
13 4 0.15
14 11 0.42
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (13 bp):
TTAAATGAAATCT
Found at i:11817530 original size:22 final size:22
Alignment explanation
Indices: 11817297--11817759 Score: 257
Period size: 21 Copynumber: 20.8 Consensus size: 22
11817287 TTAAGAAATT
* * *
11817297 TTCAAATAAAAATCTTTGAGTC
1 TTCAAATGAGAATCTTTAAGTC
* *
11817319 TT-AAATAAGAATATTTAAGAAATC
1 TTCAAATGAGAATCTTTAAG---TC
* * * * *
11817343 CTCAAATAAAAATCTTTGAGAC
1 TTCAAATGAGAATCTTTAAGTC
*
11817365 TT-AAATGGGAATCTTTAAGAAAT-
1 TTCAAATGAGAATCTTTAAG---TC
*
11817388 TCTCAAATGAGAATCTTTGAGTC
1 T-TCAAATGAGAATCTTTAAGTC
*
11817411 TT-AAATGAAAATCTTTAAGAAATC
1 TTCAAATGAGAATCTTTAAG---TC
*
11817435 TTTAAATGAGAATCTTTAAGTC
1 TTCAAATGAGAATCTTTAAGTC
*
11817457 TT-AAATGAGAATATTTAAGAAAT-
1 TTCAAATGAGAATCTTTAAG---TC
*
11817480 TCTCAAATGAGAATCTTTGAGT-
1 T-TCAAATGAGAATCTTTAAGTC
*
11817502 TTCAAATGAGAATTTTTAAGTC
1 TTCAAATGAGAATCTTTAAGTC
* *
11817524 TTCAAATAAAAATCTTTAAGT-
1 TTCAAATGAGAATCTTTAAGTC
** *
11817545 TTCAAACAAGAATCTTTGAGTC
1 TTCAAATGAGAATCTTTAAGTC
** * *
11817567 TT-AAACAAAAATCTTTAAAAAATC
1 TTCAAATGAGAATCTTT---AAGTC
* * * *
11817591 CTCAAATGAAAATCTTTGAGTT
1 TTCAAATGAGAATCTTTAAGTC
* * *
11817613 TTCAAATAAGAATATTTAAATC
1 TTCAAATGAGAATCTTTAAGTC
* *
11817635 TTCAAATAAGAATATTTGAA-TC
1 TTCAAATGAGAATCTTT-AAGTC
* *
11817657 TTCAAATGAGAATTTTTTAGT-
1 TTCAAATGAGAATCTTTAAGTC
* *
11817678 TTCAAATGAGAATCTTTGAGTT
1 TTCAAATGAGAATCTTTAAGTC
* * * *
11817700 TTCAAATAAGAATATTTGAGTT
1 TTCAAATGAGAATCTTTAAGTC
* *
11817722 TTCAAATAAGAATCTTTGAGT-
1 TTCAAATGAGAATCTTTAAGTC
* *
11817743 TTTAAATAAGAATCTTT
1 TTCAAATGAGAATCTTT
11817760 GAGATGTGAA
Statistics
Matches: 358, Mismatches: 55, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
21 143 0.40
22 124 0.35
23 5 0.01
24 14 0.04
25 72 0.20
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (22 bp):
TTCAAATGAGAATCTTTAAGTC
Found at i:11817690 original size:65 final size:65
Alignment explanation
Indices: 11817390--11817755 Score: 224
Period size: 65 Copynumber: 5.5 Consensus size: 65
11817380 TAAGAAATTC
* * * *
11817390 TCAAATGAGAATCTTTGAGTCTT-AAATGAA-AATCTTTAAGAAATCTTTAAATGAGAATCTTT-
1 TCAAATGAGAATCTTTGAGT-TTCAAAT-AAGAATATTT---AAATCTTCAAATAAGAATATTTG
11817452 AAGTCT
61 AA-TCT
* * * * * * * *
11817458 T-AAATGAGAATATTTAAGAAATTCTCAAATGAGAATCTTTGAGT-TTCAAATGAGAAT-TTTTA
1 TCAAATGAGAATCTTT--G-AGTT-TCAAATAAGAATATTTAAATCTTCAAATAAGAATATTTGA
11817520 AGTCT
62 A-TCT
* * * * * * * * * * *
11817525 TCAAATAAAAATCTTTAAGTTTCAAACAAGAATCTTTGAGTCTT-AAACAAAAATCTTTAAAAAA
1 TCAAATGAGAATCTTTGAGTTTCAAATAAGAATATTTAAATCTTCAAATAAGAATATTT---GAA
*
11817589 TCC
63 TCT
*
11817592 TCAAATGAAAATCTTTGAGTTTTCAAATAAGAATATTTAAATCTTCAAATAAGAATATTTGAATC
1 TCAAATGAGAATCTTTGAG-TTTCAAATAAGAATATTTAAATCTTCAAATAAGAATATTTGAATC
11817657 T
65 T
* * * * * * * * *
11817658 TCAAATGAGAATTTTTTAGTTTCAAATGAGAATCTTTGAGTTTTCAAATAAGAATATTTGAGTTT
1 TCAAATGAGAATCTTTGAGTTTCAAATAAGAATATTTAAATCTTCAAATAAGAATATTTGAATCT
* *
11817723 TCAAATAAGAATCTTTGAGTTTTAAATAAGAAT
1 TCAAATGAGAATCTTTGAGTTTCAAATAAGAAT
11817756 CTTTGAGATG
Statistics
Matches: 239, Mismatches: 44, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
64 25 0.10
65 75 0.31
66 23 0.10
67 51 0.21
68 37 0.15
69 13 0.05
70 4 0.02
71 11 0.05
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (65 bp):
TCAAATGAGAATCTTTGAGTTTCAAATAAGAATATTTAAATCTTCAAATAAGAATATTTGAATCT
Found at i:11817762 original size:43 final size:42
Alignment explanation
Indices: 11817435--11817759 Score: 231
Period size: 43 Copynumber: 7.4 Consensus size: 42
11817425 TTAAGAAATC
* * * *
11817435 TTTAAATGAGAATCTTTAAGTCTT-AAATGAGAATATTTAAGAAAT
1 TTTAAATAAGAATCTTTAAGT-TTCAAATAAGAATCTTT--G-AGT
* * * * * *
11817480 TCTCAAATGAGAATCTTTGAGTTTCAAATGAGAATTTTTAAGT
1 T-TTAAATAAGAATCTTTAAGTTTCAAATAAGAATCTTTGAGT
* * *
11817523 CTTCAAATAAAAATCTTTAAGTTTCAAACAAGAATCTTTGAGT
1 -TTTAAATAAGAATCTTTAAGTTTCAAATAAGAATCTTTGAGT
* * * * *
11817566 CTTAAACAAAAATCTTTAAAAAATCCTCAAATGAA-AATCTTTGAGT
1 TTTAAATAAGAATCTTT---AAGT-TTCAAAT-AAGAATCTTTGAGT
* * * *
11817612 TTTCAAATAAGAATATTTAAATCTTCAAATAAGAATATTTGAAT
1 TTT-AAATAAGAATCTTTAAGT-TTCAAATAAGAATCTTTGAGT
* * * * *
11817656 CTTCAAATGAGAATTTTTTAGTTTCAAATGAGAATCTTTGAGT
1 -TTTAAATAAGAATCTTTAAGTTTCAAATAAGAATCTTTGAGT
* *
11817699 TTTCAAATAAGAATATTTGAGTTTTCAAATAAGAATCTTTGAGT
1 TTT-AAATAAGAATCTTTAAG-TTTCAAATAAGAATCTTTGAGT
11817743 TTTAAATAAGAATCTTT
1 TTTAAATAAGAATCTTT
11817760 GAGATGTGAA
Statistics
Matches: 228, Mismatches: 39, Indels: 28
0.77 0.13 0.09
Matches are distributed among these distances:
42 16 0.07
43 83 0.36
44 59 0.26
45 8 0.04
46 49 0.21
47 13 0.06
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (42 bp):
TTTAAATAAGAATCTTTAAGTTTCAAATAAGAATCTTTGAGT
Found at i:11819327 original size:23 final size:23
Alignment explanation
Indices: 11819299--11819342 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
11819289 AAGCCATTCC
11819299 ATATTTTGTGTTTATTTATTTAT
1 ATATTTTGTGTTTATTTATTTAT
11819322 ATATTTTGTGTTTATTTATTT
1 ATATTTTGTGTTTATTTATTT
11819343 TTAGGAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (23 bp):
ATATTTTGTGTTTATTTATTTAT
Found at i:11821676 original size:2 final size:2
Alignment explanation
Indices: 11821671--11821695 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11821661 TTCTATTTAG
11821671 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11821696 ATGTAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11822315 original size:233 final size:231
Alignment explanation
Indices: 11821844--11822707 Score: 880
Period size: 234 Copynumber: 3.7 Consensus size: 231
11821834 TTACAATAAT
* * * * *
11821844 TAAAGTATTTAATTTGTGAAAAAAAATTCATAACATCACCTAAAATCTATTAGAAAACA--TGTC
1 TAAAGTATTCAATTTATG-ACAAAAATTAATAACATCACCTAAAATCTATTAGAAAAAATTTGTC
* * * * * *
11821907 ACAGATAAAATTTTAAATTGGTCACAAAATTATAACATTACTTAAAATTAAAAAAAAATCATTAC
65 ATAGATAAAATTTTAAATTAGTGACAAAATTATAAC-GTACCTAAAA-T--AAAAATATCA--A-
* * * * * ** *
11821972 AAAATATTTTTTTCACCAAATAAATTCGATGGTAAAAATTCATGACATTTATGTTATCGTTATAT
123 AAAA-A-ATTTTTCACCAAATAAATTTGGTGATAAAAGTTTGTGACATTTATGTTATTGTTATAT
* * * *
11822037 AATACCATTTATTAACGTGAAAAAATTGCAACATT-ATTAATAGTTAAT
186 AATACCATATATTAACGTGACAAAATTG---TATTAATTAATAGTTAAC
* * *
11822085 TAAAGTGTTCAATTTGTGATAAAAATTAATAACATCACCTAAAATCTATTA-AAAAAATTTGTCA
1 TAAAGTATTCAATTTATGACAAAAATTAATAACATCACCTAAAATCTATTAGAAAAAATTTGTCA
* * * * *
11822149 TAGATAAAATTTTAAATTGGTGACAAAATTATAATGTCCCCTAAAATAAAAATGTCACAAAAAAT
66 TAGATAAAATTTTAAATTAGTGACAAAATTATAACGT-ACCTAAAATAAAAATATCAAAAAAAAT
* * * *
11822214 TTTTCATCAAATAAATTTGGTGATAGAAGTTTGTGACATTTATGTTATTGTCATAGAATACCATA
130 TTTTCACCAAATAAATTTGGTGATAAAAGTTTGTGACATTTATGTTATTGTTATATAATACCATA
* * * **
11822279 CATTGATGTGACGCAATTGTATTGACATTAATAGTTAAC
195 TATTAACGTGACAAAATTGTATT-A-ATTAATAGTTAAC
* * * *
11822318 TAAAATATTCAATTTATAACAAAAATTAATAACATCACTTAAAATCTATTAGAAAAAATTTGTTA
1 TAAAGTATTCAATTTATGACAAAAATTAATAACATCACCTAAAATCTATTAGAAAAAATTTGTCA
* * *
11822383 TAGATAAAATTTTAAATTAGTGACAAAATTATAACGTAACCTAAAATAAAAAAATTAAAAAAAAA
66 TAGATAAAATTTTAAATTAGTGACAAAATTATAACGT-ACCTAAAATAAAAATATCAAAAAAAAT
* * * * * *
11822448 TGTTCACCAAATAAATTTAGT-AGTAAAAGTTTGAGAAATTTATATTATTGTTATATAACACCAT
130 TTTTCACCAAATAAATTTGGTGA-TAAAAGTTTGTGACATTTATGTTATTGTTATATAATACCAT
* *
11822512 ATATTAACATGACAAAATTACGATATT-ATTAATAATTAAC
194 ATATTAACGTGACAAAATT--G-TATTAATTAATAGTTAAC
* * *
11822552 TAAAGTGTTCAATTTATGACAAAAATTAATAACGTCACTTAAAATCTATTAGAAAAAATTTGTCA
1 TAAAGTATTCAATTTATGACAAAAATTAATAACATCACCTAAAATCTATTAGAAAAAATTTGTCA
* * * *
11822617 TAGATAAAATTTTAAATTAGTGACAAAATTACAACTTAAC-AAAATAAAAATTGTCATAAAAAAA
66 TAGATAAAATTTTAAATTAGTGACAAAATTATAACGTACCTAAAATAAAAA-TATCA-AAAAAAA
* * *
11822681 TTTTT-ATCAAATAAATTTAGAGATAAA
129 TTTTTCACCAAATAAATTTGGTGATAAA
11822708 TTTGGTGACA
Statistics
Matches: 526, Mismatches: 83, Indels: 36
0.82 0.13 0.06
Matches are distributed among these distances:
230 3 0.01
232 10 0.02
233 147 0.28
234 252 0.48
235 4 0.01
236 1 0.00
237 4 0.01
238 8 0.02
239 5 0.01
240 33 0.06
241 59 0.11
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (231 bp):
TAAAGTATTCAATTTATGACAAAAATTAATAACATCACCTAAAATCTATTAGAAAAAATTTGTCA
TAGATAAAATTTTAAATTAGTGACAAAATTATAACGTACCTAAAATAAAAATATCAAAAAAAATT
TTTCACCAAATAAATTTGGTGATAAAAGTTTGTGACATTTATGTTATTGTTATATAATACCATAT
ATTAACGTGACAAAATTGTATTAATTAATAGTTAAC
Found at i:11823604 original size:30 final size:30
Alignment explanation
Indices: 11823529--11823614 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 30
11823519 TTATTATAAT
* * * *
11823529 CAATTGAAATTTCAAATAATTATTTTCATT
1 CAATTGAATTTTTAAATATTTATTTTCATC
**
11823559 CAATTGAATCCTTAAATATTTATTTTCATC
1 CAATTGAATTTTTAAATATTTATTTTCATC
* *
11823589 CAATTGAATTTTTAAACATATATTTT
1 CAATTGAATTTTTAAATATTTATTTT
11823615 TACTTAATTA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (30 bp):
CAATTGAATTTTTAAATATTTATTTTCATC
Found at i:11824620 original size:23 final size:23
Alignment explanation
Indices: 11824594--11824658 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
11824584 ATACTTAGAC
11824594 GAAATTCTTTATGTGAAATTAGT
1 GAAATTCTTTATGTGAAATTAGT
* * *
11824617 GAAATTCATTATAT-AAAGTTCGT
1 GAAATTCTTTATGTGAAA-TTAGT
*
11824640 GAAATTCTTTATGAGAAAT
1 GAAATTCTTTATGTGAAAT
11824659 GATTAAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (23 bp):
GAAATTCTTTATGTGAAATTAGT
Found at i:11825273 original size:271 final size:272
Alignment explanation
Indices: 11824768--11825276 Score: 684
Period size: 271 Copynumber: 1.9 Consensus size: 272
11824758 ATAACTTTCG
* * * **
11824768 ATATATATACTTTTAGATGATATTTTTAATAAAAATGTCGATAAAATTTTTACCGTTAAATGAGT
1 ATATATATACTTTTAGATGACATTTTTAATAAAAATATCGACAAAATTTTTACCGTTAAAAAAGT
*
11824833 ATATATCAAATTTAAATTACAAATAATAGTTTTTAATAATCTTTTTGACATATTATTGATCTTCA
66 ATAGATCAAATTTAAATTACAAATAATAGTTTTTAATAATCTTTTTGACATATTATTGA---TCA
* * * *
11824898 TATTAAATTCTATCAATCTATCAATTTGTATTTTTTATTAAAGTATTTATTAAATCATTTTTAAG
128 CATTAAATTCTATCAATCTATCAATTTGTATTTTTTATTAAAATATTTATTAAATCATTTTAAAA
* ** *
11824963 AAGGAACTTCACAAGCTTCACCTAAAGAATTTTATATAAGTTTTGCCCATAGATGAAGTATGCAA
193 AAGAAACTTCACAAAATTCACCTAAAGAATTTCATATAAGTTTTGCCCATAGATGAAGTATGCAA
11825028 AATTTAAAAAAAATT
258 AATTTAAAAAAAATT
* * *
11825043 ATATATATATTTTTAGATGAACATTTTTAGTAAAAATATTGACAAAATTTTTACCGTTAAAAAAG
1 ATATATATACTTTTAGATG-ACATTTTTAATAAAAATATCGACAAAATTTTTACCGTTAAAAAAG
* * * * *
11825108 TATCGATCAAATTTGAATTATAAATAATATTTTTTAATAAT-TTTTTTACATATTATTGA-CACA
65 TATAGATCAAATTTAAATTACAAATAATAGTTTTTAATAATCTTTTTGACATATTATTGATCACA
* * *
11825171 TTAAACTT-TATCAATCTATTAGTTTAG-ATTTTTTATTAAAATTTTTATTAAATCATTTTAAAA
130 TTAAA-TTCTATCAATCTATCAATTT-GTATTTTTTATTAAAATATTTATTAAATCATTTTAAAA
* * *
11825234 AAGAAATTTCGCAAAATTTACCTAAAGAATTTCATATAAGTTT
193 AAGAAACTTCACAAAATTCACCTAAAGAATTTCATATAAGTTT
11825277 GGATTTTTTA
Statistics
Matches: 203, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
271 91 0.45
272 3 0.01
275 35 0.17
276 74 0.36
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (272 bp):
ATATATATACTTTTAGATGACATTTTTAATAAAAATATCGACAAAATTTTTACCGTTAAAAAAGT
ATAGATCAAATTTAAATTACAAATAATAGTTTTTAATAATCTTTTTGACATATTATTGATCACAT
TAAATTCTATCAATCTATCAATTTGTATTTTTTATTAAAATATTTATTAAATCATTTTAAAAAAG
AAACTTCACAAAATTCACCTAAAGAATTTCATATAAGTTTTGCCCATAGATGAAGTATGCAAAAT
TTAAAAAAAATT
Found at i:11827226 original size:24 final size:24
Alignment explanation
Indices: 11827199--11827279 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 24
11827189 TCATACAAAC
*
11827199 TTTGTTCCCCATCATCATATACTA
1 TTTGGTCCCCATCATCATATACTA
* * **
11827223 TTTGGTCCCCA-C-TCCTTTTTTA
1 TTTGGTCCCCATCATCATATACTA
*
11827245 TTTGTTCCCCATCATCATATACTA
1 TTTGGTCCCCATCATCATATACTA
11827269 TTTGGTCCCCA
1 TTTGGTCCCCA
11827280 CTCCTTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
22 16 0.36
23 2 0.05
24 26 0.59
ACGTcount: A:0.19, C:0.31, G:0.07, T:0.43
Consensus pattern (24 bp):
TTTGGTCCCCATCATCATATACTA
Found at i:11827253 original size:22 final size:22
Alignment explanation
Indices: 11827221--11827293 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
11827211 CATCATATAC
11827221 TATTTGGTCCCCACTCCTTTTT
1 TATTTGGTCCCCACTCCTTTTT
* * * **
11827243 TATTTGTTCCCCATCATCATATAC
1 TATTTGGTCCCCA-C-TCCTTTTT
11827267 TATTTGGTCCCCACTCCTTTTT
1 TATTTGGTCCCCACTCCTTTTT
11827289 TATTT
1 TATTT
11827294 CATCATGCAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
22 21 0.54
23 2 0.05
24 16 0.41
ACGTcount: A:0.15, C:0.29, G:0.07, T:0.49
Consensus pattern (22 bp):
TATTTGGTCCCCACTCCTTTTT
Found at i:11827266 original size:46 final size:46
Alignment explanation
Indices: 11827199--11827293 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
11827189 TCATACAAAC
11827199 TTTGTTCCCCATCATCATATACTATTTGGTCCCCACTCCTTTTTTA
1 TTTGTTCCCCATCATCATATACTATTTGGTCCCCACTCCTTTTTTA
11827245 TTTGTTCCCCATCATCATATACTATTTGGTCCCCACTCCTTTTTTA
1 TTTGTTCCCCATCATCATATACTATTTGGTCCCCACTCCTTTTTTA
11827291 TTT
1 TTT
11827294 CATCATGCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.17, C:0.29, G:0.06, T:0.47
Consensus pattern (46 bp):
TTTGTTCCCCATCATCATATACTATTTGGTCCCCACTCCTTTTTTA
Found at i:11831177 original size:19 final size:19
Alignment explanation
Indices: 11831153--11831206 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
11831143 AATATGATTC
*
11831153 TTTTTTCTTTTATTTTGAT
1 TTTTTTCTTTTATTTTCAT
*
11831172 TTTTTTCTCTTA-TTTCAT
1 TTTTTTCTTTTATTTTCAT
*
11831190 TTTTTCCTATTTATTTT
1 TTTTTTCT-TTTATTTT
11831207 TCTTAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 12 0.41
19 14 0.48
20 3 0.10
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTCTTTTATTTTCAT
Found at i:11832499 original size:23 final size:21
Alignment explanation
Indices: 11832443--11832499 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 21
11832433 TTATAGTTTT
11832443 TTATATATTAATAAAATTGTTA
1 TTATA-ATTAATAAAATTGTTA
11832465 TTATAAATTTAATAAAAATAT-TATA
1 TTAT-AA-TTAAT-AAAAT-TGT-TA
11832490 TTATAATTAA
1 TTATAATTAA
11832500 AATATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
22 5 0.17
23 10 0.33
24 8 0.27
25 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATAATTAATAAAATTGTTA
Found at i:11832501 original size:19 final size:19
Alignment explanation
Indices: 11832466--11832553 Score: 77
Period size: 17 Copynumber: 5.1 Consensus size: 19
11832456 AAATTGTTAT
*
11832466 TATAA-ATT-TAATAAAAA
1 TATAATATTATAATTAAAA
*
11832483 TATTATATTATAATTAAAA
1 TATAATATTATAATTAAAA
11832502 TATAAT-TTATAA-TAAAA
1 TATAATATTATAATTAAAA
11832519 -ATAATATT-T--TTATAAA
1 TATAATATTATAATTA-AAA
*
11832535 TATGATATTA-AATTAAAA
1 TATAATATTATAATTAAAA
11832553 T
1 T
11832554 TATTAAATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
15 2 0.03
16 9 0.16
17 18 0.31
18 13 0.22
19 16 0.28
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
TATAATATTATAATTAAAA
Found at i:11832513 original size:18 final size:19
Alignment explanation
Indices: 11832466--11832521 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
11832456 AAATTGTTAT
11832466 TATAA-ATT-TAATAAAAA
1 TATAATATTATAATAAAAA
* *
11832483 TATTATATTATAATTAAAA
1 TATAATATTATAATAAAAA
11832502 TATAAT-TTATAATAAAAA
1 TATAATATTATAATAAAAA
11832520 TA
1 TA
11832522 ATATTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.12
18 16 0.48
19 13 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAATATTATAATAAAAA
Found at i:11832536 original size:21 final size:19
Alignment explanation
Indices: 11832474--11832533 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
11832464 ATTATAAATT
* *
11832474 TAATAAAAATATTATATTA
1 TAATAAAAATAATATTTTA
* *
11832493 TAATTAAAAT-ATAATTTA
1 TAATAAAAATAATATTTTA
11832511 TAATAAAAATAATATTTTTA
1 TAATAAAAATAATA-TTTTA
11832531 TAA
1 TAA
11832534 ATATGATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 14 0.42
19 12 0.36
20 7 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATAAAAATAATATTTTA
Found at i:11834003 original size:264 final size:264
Alignment explanation
Indices: 11833533--11834025 Score: 959
Period size: 264 Copynumber: 1.9 Consensus size: 264
11833523 GAACATTTAG
11833533 GATCTTTGCATTTCTTTATTTTATTGGTGTTTGCTGCTATGCAACTTCCCGTTGCTTTATGTTAA
1 GATCTTTGCATTTCTTTATTTTATTGGTGTTTGCTGCTATGCAACTTCCCGTTGCTTTATGTTAA
*
11833598 AGTGGTGTTATCCACGTCGGTTAAGTATTGAGTTTCGGTATTAGAGTCCAAGTTCTATTCTTATG
66 AGTGGTGTTATCCACGTCGGTTAAGTATTGAGTTTCGGTATTAGAGTCCAACTTCTATTCTTATG
*
11833663 TTCTTGCATGTTACACTGCCTTTTATACCTTCTTAATTGTCACATGTTAGGCTTCTGTCTCCGCT
131 TTCTTGCATGTTACACTGCCTTTTATACCTTCTAAATTGTCACATGTTAGGCTTCTGTCTCCGCT
11833728 TACACCTGATGGAACATGTTAAAGTGATGTTATCCACGTCGGTTAAGTATTGAGTTTCGGTATTA
196 TACACCTGATGGAACATGTTAAAGTGATGTTATCCACGTCGGTTAAGTATTGAGTTTCGGTATTA
11833793 AAGT
261 AAGT
11833797 GATCTTTGCATTTCTTTATTTTATTGGTGTTTGCTGCTATGCAACTTCCCGTTGCTTTATGTTAA
1 GATCTTTGCATTTCTTTATTTTATTGGTGTTTGCTGCTATGCAACTTCCCGTTGCTTTATGTTAA
11833862 AGTGGTGTTATCCACGTCGGTTAAGTATTGAGTTTCGGTATTAGAGTCCAACTTCTATTCTTATG
66 AGTGGTGTTATCCACGTCGGTTAAGTATTGAGTTTCGGTATTAGAGTCCAACTTCTATTCTTATG
*
11833927 TTCTTGCATGTTACTCTGCCTTTTATACCTTCTAAATTGTCACATGTTAGGCTTCTGTCTCCGCT
131 TTCTTGCATGTTACACTGCCTTTTATACCTTCTAAATTGTCACATGTTAGGCTTCTGTCTCCGCT
11833992 TACACCTGATGGAACATGTTAAAGTGATGTTATC
196 TACACCTGATGGAACATGTTAAAGTGATGTTATC
11834026 ATATATCTGT
Statistics
Matches: 226, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
264 226 1.00
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (264 bp):
GATCTTTGCATTTCTTTATTTTATTGGTGTTTGCTGCTATGCAACTTCCCGTTGCTTTATGTTAA
AGTGGTGTTATCCACGTCGGTTAAGTATTGAGTTTCGGTATTAGAGTCCAACTTCTATTCTTATG
TTCTTGCATGTTACACTGCCTTTTATACCTTCTAAATTGTCACATGTTAGGCTTCTGTCTCCGCT
TACACCTGATGGAACATGTTAAAGTGATGTTATCCACGTCGGTTAAGTATTGAGTTTCGGTATTA
AAGT
Found at i:11834153 original size:66 final size:66
Alignment explanation
Indices: 11834047--11834180 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
11834037 AAGTATCGAG
*
11834047 TTTCCTATGGTCTTATACTCAAATTAGGTCTCTCCACCTATTGCGAATTGGTTTTTTGTTGGATA
1 TTTCCTATGGTCTTATACTCAAATTAGGTCTCTCCACCTATTGCAAATTGGTTTTTTGTTGGATA
11834112 C
66 C
* *
11834113 TTTCCTATGGTCTTATATTCAAATTCGGTCTCTCCACCTATTGCAAATTGGTTTTTTGTTGGATA
1 TTTCCTATGGTCTTATACTCAAATTAGGTCTCTCCACCTATTGCAAATTGGTTTTTTGTTGGATA
11834178 C
66 C
11834179 TT
1 TT
11834181 AAAAGTTCCC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (66 bp):
TTTCCTATGGTCTTATACTCAAATTAGGTCTCTCCACCTATTGCAAATTGGTTTTTTGTTGGATA
C
Found at i:11834220 original size:2 final size:2
Alignment explanation
Indices: 11834215--11834262 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
11834205 TCAGTGGCTA
* *
11834215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11834257 AT AT AT
1 AT AT AT
11834263 GTCTTTGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11840588 original size:16 final size:16
Alignment explanation
Indices: 11840566--11840607 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11840556 CAATATGATC
*
11840566 ATTTTGGTTTTGCATT
1 ATTTTGGATTTGCATT
* *
11840582 GTTTTGGATTTGGATT
1 ATTTTGGATTTGCATT
11840598 ATTTTGGATT
1 ATTTTGGATT
11840608 CATATCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.02, G:0.24, T:0.60
Consensus pattern (16 bp):
ATTTTGGATTTGCATT
Found at i:11843454 original size:118 final size:118
Alignment explanation
Indices: 11843259--11843493 Score: 292
Period size: 118 Copynumber: 2.0 Consensus size: 118
11843249 AGGCCTGGCA
* * * *
11843259 TAAACCTACCGAACCTGAACACCTTCAATGAGCCTTTAGAGTCTTGATTACTACCCACACCATTG
1 TAAACCTACCAAACCTGAACACCTTCAATAAGCCTCTAGAGTCTTGATCACTACCCACACCATTG
*** * *
11843324 TTCTAGACTGGTTCCTTGTGACCTAGACCTCCAATGCGCCTTAGGGCCTAGTT
66 TTCTAGACTGGTTCCCCATGACCTAGACCTCCAATGCACCTTAGGACCTAGTT
* * * * * *
11843377 TAAACCTATCAAACTTGAACACCTT-ACATAAGCCTCTAGAGTTTTGATCATTGCCCACATCATT
1 TAAACCTACCAAACCTGAACACCTTCA-ATAAGCCTCTAGAGTCTTGATCACTACCCACACCATT
* * *
11843441 GTTCTAGATTGGTTCCCCATGACCTAGACCTCTAGTGCACCTTAGGACCTAGT
65 GTTCTAGACTGGTTCCCCATGACCTAGACCTCCAATGCACCTTAGGACCTAGT
11843494 CCCCTTGACT
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
117 1 0.01
118 97 0.99
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (118 bp):
TAAACCTACCAAACCTGAACACCTTCAATAAGCCTCTAGAGTCTTGATCACTACCCACACCATTG
TTCTAGACTGGTTCCCCATGACCTAGACCTCCAATGCACCTTAGGACCTAGTT
Found at i:11847455 original size:3 final size:3
Alignment explanation
Indices: 11847425--11847474 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
11847415 AACATAGTAC
*
11847425 ATT A-T ATT ATAT ATAT ACT ATAT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T AT-T ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
11847472 ATT
1 ATT
11847475 TACATTTATG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.74
4 9 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:11848284 original size:17 final size:18
Alignment explanation
Indices: 11848248--11848293 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
11848238 AGGTTTTTCC
* *
11848248 TTTTCTATTTTCTTTTTA
1 TTTTATATTTTCTATTTA
*
11848266 TTTTTTATTTT-TATTTA
1 TTTTATATTTTCTATTTA
11848283 TTTTATATTTT
1 TTTTATATTTT
11848294 AATTGATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATATTTTCTATTTA
Found at i:11848418 original size:24 final size:24
Alignment explanation
Indices: 11848391--11848445 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
11848381 CTATTTTTTT
* * *
11848391 AAAAAAATAGTAA-TAATAATAATG
1 AAAAAAATAATAAGTAAAAATAA-A
11848415 AAAAAAATAATAAGTAAAAATAAA
1 AAAAAAATAATAAGTAAAAATAAA
11848439 AAAAAAA
1 AAAAAAA
11848446 CCTTTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (24 bp):
AAAAAAATAATAAGTAAAAATAAA
Found at i:11848439 original size:21 final size:22
Alignment explanation
Indices: 11848392--11848443 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
11848382 TATTTTTTTA
*
11848392 AAAAAATAGTAATAATAATAATG
1 AAAAAA-AGTAATAATAAAAATG
*
11848415 AAAAAAA-TAATAAGTAAAAATA
1 AAAAAAAGTAATAA-TAAAAATG
11848437 AAAAAAA
1 AAAAAAA
11848444 AACCTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 14 0.54
23 6 0.23
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAAAAAGTAATAATAAAAATG
Found at i:11848445 original size:25 final size:24
Alignment explanation
Indices: 11848391--11848445 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
11848381 CTATTTTTTT
* * **
11848391 AAAAAAATAGTAATAATAATAATG
1 AAAAAAATAATAATAAAAATAAAA
11848415 AAAAAAATAATAAGTAAAAATAAAA
1 AAAAAAATAATAA-TAAAAATAAAA
11848440 AAAAAA
1 AAAAAA
11848446 CCTTTTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (24 bp):
AAAAAAATAATAATAAAAATAAAA
Done.