Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold34
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: 1758877
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
File 1 of 12
Found at i:2606 original size:2 final size:2
Alignment explanation
Indices: 2599--2627 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2589 AAAATAGACA
2599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2628 ACAATTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10444 original size:54 final size:54
Alignment explanation
Indices: 10362--10471 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 54
10352 TTAGGTCAAA
10362 TAAAAAAATATTAATCAGTGCACTAATTAAAGTGTCAAAAATAAAA-AAAATTAT
1 TAAAAAAATATTAATCAGTGCACTAATTAAAGTGTCAAAAATAAAATAAAA-TAT
*
10416 TAAAAAAATATTAATCGGTGCACTAATTAAAGTGTCAAAAATAAAATAAAATAT
1 TAAAAAAATATTAATCAGTGCACTAATTAAAGTGTCAAAAATAAAATAAAATAT
10470 TA
1 TA
10472 TTATATTATT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 50 0.93
55 4 0.07
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.28
Consensus pattern (54 bp):
TAAAAAAATATTAATCAGTGCACTAATTAAAGTGTCAAAAATAAAATAAAATAT
Found at i:12699 original size:35 final size:35
Alignment explanation
Indices: 12652--12722 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
12642 AAAAAAATGA
* *
12652 AGGTAGAGAAAATGAGTGGTTCCAAGCAATGCTTG
1 AGGTAGAGAAAATGAATGGTTCCAAGCAAAGCTTG
*
12687 AGGTAGATAAAATGAATGGTTCCAAGCAAAGCTTG
1 AGGTAGAGAAAATGAATGGTTCCAAGCAAAGCTTG
12722 A
1 A
12723 TGAATGTGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (35 bp):
AGGTAGAGAAAATGAATGGTTCCAAGCAAAGCTTG
Found at i:13740 original size:2 final size:2
Alignment explanation
Indices: 13728--13767 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
13718 TTAAAAATTT
13728 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13768 TGGGATAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:18759 original size:51 final size:51
Alignment explanation
Indices: 18665--18764 Score: 139
Period size: 52 Copynumber: 2.0 Consensus size: 51
18655 TATGTATGGA
* **
18665 TACATTGAAAATGTATTGATACATTTGGGTCAAAAACTCAGAATGTATCAG
1 TACAATGAAAATGTATCAATACATTTGGGTCAAAAACTCAGAATGTATCAG
* *
18716 TACAATGAAGAATGTATCAATACATTTGGGTCAAAACCT-AGAATTTATC
1 TACAATGAA-AATGTATCAATACATTTGGGTCAAAAACTCAGAATGTATC
18765 GATACATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 17 0.40
52 26 0.60
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (51 bp):
TACAATGAAAATGTATCAATACATTTGGGTCAAAAACTCAGAATGTATCAG
Found at i:23928 original size:14 final size:13
Alignment explanation
Indices: 23909--24010 Score: 55
Period size: 13 Copynumber: 7.4 Consensus size: 13
23899 ACCATATCAT
23909 AATTTAAAATTTAA
1 AATTTAAAATTT-A
23923 AATTT-AAATTTA
1 AATTTAAAATTTA
*
23935 GATTCTAAAATTTTTGA
1 AATT-TAAAA--TTT-A
* *
23952 TAGAATTAGA-TTTA
1 -A-ATTTAAAATTTA
23966 AATTTAAAATTTA
1 AATTTAAAATTTA
* *
23979 AATTTTAAATGATA
1 AATTTAAAAT-TTA
**
23993 CTTTTAAAATTTA
1 AATTTAAAATTTA
24006 AATTT
1 AATTT
24011 GATGACTGAT
Statistics
Matches: 65, Mismatches: 14, Indels: 19
0.66 0.14 0.19
Matches are distributed among these distances:
12 9 0.14
13 26 0.40
14 18 0.28
15 3 0.05
16 3 0.05
17 1 0.02
18 3 0.05
19 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (13 bp):
AATTTAAAATTTA
Found at i:34268 original size:18 final size:18
Alignment explanation
Indices: 34222--34268 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
34212 GAAGCACTTA
*
34222 TAAAATATATTT-ATTTTT
1 TAAAAT-TATTTAAATTTT
*
34240 TAAGATT-TTTAAATTTT
1 TAAAATTATTTAAATTTT
34257 TAAAATTATTTA
1 TAAAATTATTTA
34269 TTAATGAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TAAAATTATTTAAATTTT
Found at i:35206 original size:29 final size:29
Alignment explanation
Indices: 35151--35214 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
35141 ATTTTGATAC
* * *
35151 AAATCAAAAGATAAAGATCTATTTAAA-A
1 AAATAAAAAGATAAAAATCTATCTAAATA
* *
35179 ATAATAAAAATATAAAAATTTATCTAAATA
1 A-AATAAAAAGATAAAAATCTATCTAAATA
35209 AAATAA
1 AAATAA
35215 TAAAATTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.03
29 26 0.90
30 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (29 bp):
AAATAAAAAGATAAAAATCTATCTAAATA
Found at i:37078 original size:2 final size:2
Alignment explanation
Indices: 37071--37103 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
37061 GATTGAGATT
*
37071 GA GA GA GA GA GA GA GA GA GA GA GA GA GT GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
37104 TTGAGGCAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.52, T:0.03
Consensus pattern (2 bp):
GA
Found at i:44808 original size:32 final size:32
Alignment explanation
Indices: 44772--44835 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
44762 TCTGAGGTTC
*
44772 GCTATTGCACTGAGTTACTCAT-TGAAGCATCT
1 GCTATTGCACTAAGTTACTCATCTG-AGCATCT
44804 GCTATTGCACTAAGTTACTCATCTGAGCATCT
1 GCTATTGCACTAAGTTACTCATCTGAGCATCT
44836 ACTAAGTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.93
33 2 0.07
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (32 bp):
GCTATTGCACTAAGTTACTCATCTGAGCATCT
Found at i:50993 original size:2 final size:2
Alignment explanation
Indices: 50988--51025 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
50978 ATAGTGTGTG
* *
50988 TA TA TA TA TA TA TA TG TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51026 ATTGGTAGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51275 original size:18 final size:18
Alignment explanation
Indices: 51252--51288 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
51242 ACATAATTAT
51252 TTAATATTTAAATATGAG
1 TTAATATTTAAATATGAG
*
51270 TTAATATTTTAATATGAG
1 TTAATATTTAAATATGAG
51288 T
1 T
51289 GCATGTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TTAATATTTAAATATGAG
Found at i:51503 original size:22 final size:22
Alignment explanation
Indices: 51469--51512 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
51459 AAAAATCTAA
*
51469 ATTTCTAAAATTAACTTAAGTTT
1 ATTTCTAAAATT-ACATAAGTTT
*
51492 ATTT-TAATATTACATAAGTTT
1 ATTTCTAAAATTACATAAGTTT
51513 TGGAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTTCTAAAATTACATAAGTTT
Found at i:52623 original size:9 final size:9
Alignment explanation
Indices: 52578--52603 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
52568 GAGTTTTACT
52578 ATTAAAAAA
1 ATTAAAAAA
52587 ATTAAAAAA
1 ATTAAAAAA
52596 ATTAAAAA
1 ATTAAAAA
52604 TTAAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:52968 original size:28 final size:28
Alignment explanation
Indices: 52934--52990 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
52924 AATAATTATA
*
52934 TAATTTAAATA-TAAAAAATAAATAAAAT
1 TAATTTAAAAACTAAAAAA-AAATAAAAT
*
52962 TAATTTAAAAACTACAAAAAAATAAAAT
1 TAATTTAAAAACTAAAAAAAAATAAAAT
52990 T
1 T
52991 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (28 bp):
TAATTTAAAAACTAAAAAAAAATAAAAT
Found at i:54520 original size:16 final size:16
Alignment explanation
Indices: 54462--54528 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
54452 TGACTACGTT
54462 TTTC-CTTCTTTCTTTC
1 TTTCTCTTCTTTC-TTC
* *
54478 TTTCCTCTTCAATTCTTG
1 TTT-CTCTTC-TTTCTTC
54496 TTTCT-TTCTCTTCTT-
1 TTTCTCTTCT-TTCTTC
*
54511 TTTCTCTTCTTTCCTC
1 TTTCTCTTCTTTCTTC
54527 TT
1 TT
54529 CCTTTCTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 9 0.22
16 17 0.41
17 3 0.07
18 9 0.22
19 3 0.07
ACGTcount: A:0.03, C:0.30, G:0.01, T:0.66
Consensus pattern (16 bp):
TTTCTCTTCTTTCTTC
Found at i:54522 original size:20 final size:23
Alignment explanation
Indices: 54497--54539 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
54487 CAATTCTTGT
54497 TTCTTT-CTCTT-CTTT-TTCTC
1 TTCTTTCCTCTTCCTTTCTTCTC
54517 TTCTTTCCTCTTCCTTTCTTCTC
1 TTCTTTCCTCTTCCTTTCTTCTC
54540 GGATTCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 5 0.25
22 4 0.20
23 5 0.25
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (23 bp):
TTCTTTCCTCTTCCTTTCTTCTC
Found at i:54527 original size:21 final size:20
Alignment explanation
Indices: 54470--54529 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
54460 TTTTTCCTTC
54470 TTTCTTTCTTTCCTCTTCAATT
1 TTTCTTTCTTTCCTCTTC--TT
* *
54492 CTTGTTTCTTT-CTCTTCTT
1 TTTCTTTCTTTCCTCTTCTT
54511 TTTCTCTTCTTTCCTCTTC
1 TTTCT-TTCTTTCCTCTTC
54530 CTTTCTTCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 12 0.38
22 9 0.28
ACGTcount: A:0.03, C:0.30, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTCTTTCTTTCCTCTTCTT
Found at i:55555 original size:23 final size:23
Alignment explanation
Indices: 55510--55557 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
55500 ATTATATCTA
*
55510 TTTAAATTATAAAAATTTTAAAT
1 TTTAAATTATAAAAATTTAAAAT
*
55533 TTTAAATTGTAAATAA-TTAAAAT
1 TTTAAATTATAAA-AATTTAAAAT
55556 TT
1 TT
55558 GGTAAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAATTATAAAAATTTAAAAT
Found at i:55622 original size:16 final size:17
Alignment explanation
Indices: 55598--55635 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
55588 TTAATTTAAT
* *
55598 TAATATGATTTG-TTTA
1 TAATTTGATTTGATTGA
55614 TAATTTGATTTGATTGA
1 TAATTTGATTTGATTGA
55631 TAATT
1 TAATT
55636 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (17 bp):
TAATTTGATTTGATTGA
Found at i:55829 original size:24 final size:24
Alignment explanation
Indices: 55782--55829 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55772 CTGCAATGTT
* *
55782 TGAAAGTTGGGAGGAAAGGGAAAC
1 TGAAAGTTGAGAGGAAAGGCAAAC
55806 TGAAAG-TGAGAGGAAAGAGCAAAC
1 TGAAAGTTGAGAGGAAAG-GCAAAC
55830 AATTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.46, C:0.06, G:0.38, T:0.10
Consensus pattern (24 bp):
TGAAAGTTGAGAGGAAAGGCAAAC
Found at i:55975 original size:12 final size:12
Alignment explanation
Indices: 55926--55977 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
55916 TATTATATAA
55926 ATTTTTATATATTT
1 ATTTTT-TATA-TT
*
55940 ATTTATTTATGTT
1 ATTT-TTTATATT
*
55953 A-TGTTTATATT
1 ATTTTTTATATT
55964 ATTTTTTATATT
1 ATTTTTTATATT
55976 AT
1 AT
55978 ATCATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 8 0.25
12 12 0.38
13 3 0.09
14 7 0.22
15 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (12 bp):
ATTTTTTATATT
Found at i:55977 original size:17 final size:17
Alignment explanation
Indices: 55884--55979 Score: 58
Period size: 17 Copynumber: 5.5 Consensus size: 17
55874 GTGCTGAATA
55884 ATATTATA-TATTTTTAT
1 ATATTATATTATTTTT-T
* *
55901 AAATTATA-TA--ATTT
1 ATATTATATTATTTTTT
*
55915 ATATTATATAAATTTTTAT
1 ATATTATAT-TATTTTT-T
55934 ATATT-TATTTATTTATGTT
1 ATATTATA-TTATTT-T-TT
*
55953 ATGTTTATATTATTTTTT
1 AT-ATTATATTATTTTTT
55971 ATATTATAT
1 ATATTATAT
55980 CATATTTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 8 0.13
15 2 0.03
16 1 0.02
17 15 0.25
18 12 0.20
19 12 0.20
20 9 0.15
21 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATTATATTATTTTTT
Found at i:56872 original size:14 final size:14
Alignment explanation
Indices: 56855--56896 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
56845 TTTTGCTCCC
56855 TTTTTTTTTTACAT
1 TTTTTTTTTTACAT
*
56869 TTTTTAATTTTA-AT
1 TTTTT-TTTTTACAT
56883 TTCTTTTTTTTACA
1 TT-TTTTTTTTACA
56897 ACAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTTTTTACAT
Found at i:59728 original size:28 final size:28
Alignment explanation
Indices: 59696--59758 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
59686 AAGCCAGGAC
*
59696 TGGAGTATTCCCTCA-GAAATAATGGGGT
1 TGGAGTATTCCC-CATGAAATAACGGGGT
*
59724 TGGAGTA-TCCCGATGAAATAACGGGGT
1 TGGAGTATTCCCCATGAAATAACGGGGT
59751 TGGAGTAT
1 TGGAGTAT
59759 CCTCGATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 1 0.03
27 23 0.74
28 7 0.23
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.27
Consensus pattern (28 bp):
TGGAGTATTCCCCATGAAATAACGGGGT
Found at i:59741 original size:27 final size:28
Alignment explanation
Indices: 59711--59765 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
59701 TATTCCCTCA
*
59711 GAAATAATGGGGTTGGAGTATCC-CGAT
1 GAAATAACGGGGTTGGAGTATCCTCGAT
59738 GAAATAACGGGGTTGGAGTATCCTCGAT
1 GAAATAACGGGGTTGGAGTATCCTCGAT
59766 TGTGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (28 bp):
GAAATAACGGGGTTGGAGTATCCTCGAT
Found at i:59811 original size:51 final size:51
Alignment explanation
Indices: 59749--59864 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
59739 AAATAACGGG
*
59749 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* * * * * *
59800 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
59851 GTTGGAGTATCCTC
1 GTTGGAGTATCCTC
59865 TCAAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
Found at i:59884 original size:79 final size:79
Alignment explanation
Indices: 59800--60097 Score: 377
Period size: 79 Copynumber: 3.8 Consensus size: 79
59790 TAAAATCGGA
* * * * *
59800 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCTC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
* **
59865 TCAAAAATAACAAG
66 TCGAAAATAACGGG
* * *
59879 ATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
59944 TCGAAAATAACGGG
66 TCGAAAATAACGGG
* *
59958 GTTGGAGTATCCCCGA---TGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
*
60020 TCGAAAATAATGGG
66 TCGAAAATAACGGG
* ** ** * * *
60034 GTTGGAGTATCCCCGATTGTGAAAAGTCAATAATTTGGAAATAAAATCGGAGTTAGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
60098 TAATTACAGA
Statistics
Matches: 190, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
76 72 0.38
79 118 0.62
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
TCGAAAATAACGGG
Found at i:60013 original size:76 final size:76
Alignment explanation
Indices: 59824--60050 Score: 337
Period size: 76 Copynumber: 2.9 Consensus size: 76
59814 GATTGTGGAG
* * * ** *
59824 AATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAATAACAAGATTGGAGTAT
1 AATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
59889 CCCCGATTATGAAA
66 CCCCG---ATGAAA
*
59903 AATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
59968 CCCCGATGAAA
66 CCCCGATGAAA
* * *
59979 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGAAAATAATGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
60044 CCCCGAT
66 CCCCGAT
60051 TGTGAAAAGT
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
76 74 0.54
79 63 0.46
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (76 bp):
AATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
CCCCGATGAAA
Found at i:60127 original size:52 final size:51
Alignment explanation
Indices: 60071--60178 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 51
60061 CAATAATTTG
* *
60071 GAAATAAAATCGGAGTTAGAGTATCCCTAATTACAGAAAAATGGGTGTTTTA
1 GAAATAAAATCGGAGTTAGAGTATCCCCAATTA-AGAAAAATGGATGTTTTA
* * * *
60123 GAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTG
1 GAAATAAAATCGGAGTTAGAGTATCCCCAATTAAGAAAAATGGATGTTTTA
60174 GAAAT
1 GAAAT
60179 GAAACCGGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 20 0.40
52 30 0.60
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (51 bp):
GAAATAAAATCGGAGTTAGAGTATCCCCAATTAAGAAAAATGGATGTTTTA
Found at i:60193 original size:51 final size:51
Alignment explanation
Indices: 60034--60199 Score: 172
Period size: 51 Copynumber: 3.2 Consensus size: 51
60024 AAATAATGGG
** * * **
60034 GTTGGAGTATCCCCGATTGTGAAAAGTCAATAATTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATCGATGTTTTGGAAATAAAATCGGA
* ** * * *
60085 GTTAGAGTATCCCTAATTACAGAAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTA-AGAAAAATCGATGTTTTGGAAATAAAATCGGA
* * *
60137 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTAAGAAAAATCGATGTTTTGGAAATAAAATCGGA
60187 GATTGGAGTATCC
1 G-TTGGAGTATCC
60200 TCGAGATGAA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
50 1 0.01
51 52 0.56
52 40 0.43
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAGAAAAATCGATGTTTTGGAAATAAAATCGGA
Found at i:62566 original size:33 final size:33
Alignment explanation
Indices: 62520--62617 Score: 169
Period size: 33 Copynumber: 3.0 Consensus size: 33
62510 TACATTGTAA
*
62520 AATGTATCAATACAATGAGCCATGTATCGATAC
1 AATGTATCGATACAATGAGCCATGTATCGATAC
* *
62553 AATGTAACGATACAATGAGCCATGTATCAATAC
1 AATGTATCGATACAATGAGCCATGTATCGATAC
62586 AATGTATCGATACAATGAGCCATGTATCGATA
1 AATGTATCGATACAATGAGCCATGTATCGATA
62618 TAATACAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCCATGTATCGATAC
Found at i:62612 original size:20 final size:20
Alignment explanation
Indices: 62521--62617 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 20
62511 ACATTGTAAA
*
62521 ATGTATCAATACAATGAGCC
1 ATGTATCGATACAATGAGCC
62541 ATGTATCGATAC----A---
1 ATGTATCGATACAATGAGCC
*
62554 ATGTAACGATACAATGAGCC
1 ATGTATCGATACAATGAGCC
*
62574 ATG--T--AT-CAAT-A-CA
1 ATGTATCGATACAATGAGCC
62587 ATGTATCGATACAATGAGCC
1 ATGTATCGATACAATGAGCC
62607 ATGTATCGATA
1 ATGTATCGATA
62618 TAATACAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 28
0.64 0.05 0.31
Matches are distributed among these distances:
13 15 0.26
14 1 0.02
15 5 0.09
16 3 0.05
17 3 0.05
18 4 0.07
19 1 0.02
20 26 0.45
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAATGAGCC
Found at i:62689 original size:20 final size:20
Alignment explanation
Indices: 62664--62718 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
62654 GAATGTACCA
62664 GATGTATCGATACAATGAAC
1 GATGTATCGATACAATGAAC
*
62684 GATGTATTGATACAATGAAC
1 GATGTATCGATACAATGAAC
*
62704 AATGTATCGATACAA
1 GATGTATCGATACAA
62719 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (20 bp):
GATGTATCGATACAATGAAC
Found at i:63358 original size:40 final size:41
Alignment explanation
Indices: 63314--63413 Score: 132
Period size: 41 Copynumber: 2.4 Consensus size: 41
63304 GTCCCACTTT
* *
63314 TTGAGGACAAAGGAAAAGAG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAA-AGTGTCTTGCTCC
* *
63354 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCTTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCTTGCTCC
63395 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
63414 GAGTACGTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
40 21 0.40
41 26 0.49
42 6 0.11
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCTTGCTCC
Found at i:63495 original size:42 final size:43
Alignment explanation
Indices: 63420--63700 Score: 259
Period size: 42 Copynumber: 6.5 Consensus size: 43
63410 AAAAGAGTAC
* * *
63420 GTCCTGCT-TTTCGAGGATAAAAGAAAAAAGGAAAACAAAATGT
1 GTCCTGCTCTTT-GAGGACAAAAGAAAAAAGGAAAATAAAGTGT
* *
63463 GTCCTGCTCTTTGAGGACAAAAG-AAAGAGGAAAATAAAGTAT
1 GTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAATAAAGTGT
* * * *
63505 ATCCTGCTCTTTAAGGACAAAAGAGAAAATAAGG-GAATGAAGTGT
1 GTCCTGCTCTTTGAGGAC-AAA-AGAAAA-AAGGAAAATAAAGTGT
* * *
63550 GTCCTGCTCTTTGAGGACAAAAG-AGAGAGGAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAATAAAGTGT
* * * *
63592 ATCTTGCTCTTTGAGGACAAAAAAGAAAATAAGG-GAATGAAGTGT
1 GTCCTGCTCTTTGAGGAC--AAAAGAAAA-AAGGAAAATAAAGTGT
* * * * *
63637 GTCCTGTTCTTTGAGGAC-AAAGGAGAGAGGAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAATAAAGTGT
*
63679 ATCCTGCTCTTTGAGGACAAAA
1 GTCCTGCTCTTTGAGGACAAAA
63701 AGTGCCACCA
Statistics
Matches: 190, Mismatches: 36, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
41 6 0.03
42 87 0.46
43 26 0.14
44 13 0.07
45 52 0.27
46 6 0.03
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (43 bp):
GTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAATAAAGTGT
Found at i:63554 original size:87 final size:87
Alignment explanation
Indices: 63460--63701 Score: 412
Period size: 87 Copynumber: 2.8 Consensus size: 87
63450 GAAAACAAAA
* ** *
63460 TGTGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTATATCCTGCTCTTTAAGGACAA
1 TGTGTCCTGCTCTTTGAGGACAAAAGAGAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
*
63525 AAGAGAAAATAAGGGAATGAAG
66 AAAAGAAAATAAGGGAATGAAG
*
63547 TGTGTCCTGCTCTTTGAGGACAAAAGAGAGAGGAAAATAAAGTGCATCTTGCTCTTTGAGGACAA
1 TGTGTCCTGCTCTTTGAGGACAAAAGAGAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
63612 AAAAGAAAATAAGGGAATGAAG
66 AAAAGAAAATAAGGGAATGAAG
* *
63634 TGTGTCCTGTTCTTTGAGGACAAAGGAGAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
1 TGTGTCCTGCTCTTTGAGGACAAAAGAGAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
63699 AAA
66 AAA
63702 GTGCCACCAA
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 146 1.00
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (87 bp):
TGTGTCCTGCTCTTTGAGGACAAAAGAGAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
AAAAGAAAATAAGGGAATGAAG
Found at i:63811 original size:61 final size:61
Alignment explanation
Indices: 63677--64171 Score: 453
Period size: 61 Copynumber: 7.9 Consensus size: 61
63667 AAAATAAAGT
** * * *
63677 GCATCCTGCTCTTTGAGGAC-AAAAAGTGCCACCAACTCGTGTAGGCTTTGAAAA-AGAAAG
1 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAAA
* * *
63737 GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGATTTGCAAAGAAAAA
1 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * * * * *
63798 GAATCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA
* * *
63860 GCGTCCTAG-TCTTTGAGGACTAGAAAAGTGCCACCAGGTGCCACCAACTTGTGTGGGCTTTGTA
1 GCATCCT-GCTCTTTGAGGACT------G-G--A--AAGTGCCACCAACTTGTGTGGGCTTTGAA
63924 AAGAAAAA
54 AAGAAAAA
* * * * *
63932 GCATCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGATTTGAAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA
** * * * *
63994 GTGTCCTACTTTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTT--AAAGAAAAA
1 GCATCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * * *
64054 ACATCCTGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTTGAAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA
* * * * *
64116 GCGTCCTACTTTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTT-AAAAG
1 GCATCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
64172 GCTTCCTGCT
Statistics
Matches: 352, Mismatches: 61, Indels: 43
0.77 0.13 0.09
Matches are distributed among these distances:
59 25 0.07
60 41 0.12
61 111 0.32
62 71 0.20
63 51 0.14
65 1 0.00
69 1 0.00
71 1 0.00
72 23 0.07
73 27 0.08
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (61 bp):
GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
Found at i:63846 original size:122 final size:123
Alignment explanation
Indices: 63679--64171 Score: 604
Period size: 122 Copynumber: 3.9 Consensus size: 123
63669 AATAAAGTGC
* * *
63679 ATCCTGCTCTTTGAGGAC-A-AAAAGTGCCACCAACTCGTGTAGGCTTTGAAAAAG-AAAGGCAT
1 ATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCGT
* * * *
63741 CCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGATTTGCAAAGAAAAAGA
65 CCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGAAAAAGA
*
63800 ATCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAAGGAAAAGGCGT
1 ATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAA-GAAAAGGCGT
*
63864 CCTAGTCTTTGAGGACTAGAAAAGTGCCACCAGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAA
65 CCTACTCTTTGAGGACTAG--AA-----A--A-GTGCCACCAACTTGTGTGGGCTTTG-AAAGAA
*
63929 AAAGC
119 AAAGA
* * * *
63934 ATCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGATTTGAAAAGGAAAAGGTGTC
1 ATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCGTC
* *
63999 CTACTTTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTT-AAAGAAAAA-A
66 CTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGA
* * *
64055 CATCCTGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGT
1 -ATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCGT
* * *
64120 CCTACTTTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAG
65 CCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
64172 GCTTCCTGCT
Statistics
Matches: 329, Mismatches: 25, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
121 22 0.07
122 138 0.42
123 30 0.09
124 24 0.07
125 1 0.00
126 1 0.00
127 1 0.00
131 1 0.00
132 2 0.01
134 105 0.32
135 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (123 bp):
ATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCGTC
CTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGA
Found at i:64001 original size:134 final size:134
Alignment explanation
Indices: 63761--64149 Score: 577
Period size: 134 Copynumber: 3.0 Consensus size: 134
63751 GAGGACTGGA
* * * *
63761 AGGTGCCACCAACTTGTGTGGGATTTGCAAAGAAAAAGAATCATGCTCTTTGAGGACTAGAAAAT
1 AGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAAT
* * *
63826 GCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTAGTCTTTGAGGACTAGAAAAGTGC
66 GCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTTTTTGAGGACTAGAAAAGTGC
63891 CACC
131 CACC
*
63895 AGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAAGCATCCTACTCTTTGAGGACTAGAAAAT
1 AGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAAT
* *
63960 GCCACCAACTTGTGTGGGATTTGAAAAGGAAAAGGTGTCCTACTTTTTGAGGACTAGAAAAGTGC
66 GCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTTTTTGAGGACTAGAAAAGTGC
64025 CA-C
131 CACC
* *
64028 ---T------AACTTGTGTGGGC-TT-TAAAGAAAAAACATCCTGCTCTTTGAGGACTGGAAAAT
1 AGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAAT
*
64082 GTCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTTTTTGAGGACTAGAAAAGTGC
66 GCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTTTTTGAGGACTAGAAAAGTGC
64147 CAC
131 CAC
64150 TAACTTGTGT
Statistics
Matches: 238, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
122 99 0.42
123 2 0.01
124 13 0.05
130 1 0.00
133 1 0.00
134 122 0.51
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (134 bp):
AGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAAT
GCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTTTTTGAGGACTAGAAAAGTGC
CACC
Found at i:64016 original size:62 final size:63
Alignment explanation
Indices: 63897--64172 Score: 368
Period size: 62 Copynumber: 4.5 Consensus size: 63
63887 GTGCCACCAG
*
63897 GTGCCACCAACTTGTGTGGGCTTTGTAAA-GAAAAAGCATCCTACTCTTTGAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAGAAAA
* * ** *
63959 -TGCCACCAACTTGTGTGGGATTTGAAAAGGAAAAGGTGTCCTACTTTTTGAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAGAAAA
* * * *
64021 GTGCCACTAACTTGTGTGGGCTTT--AAA-GAAAAAACATCCTGCTCTTTGAGGACTGGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAGAAAA
* * * *
64081 -TGTCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTTTTTGAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAGAAAA
*
64143 GTGCCACTAACTTGTGTGGGCTTT-AAAAGG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGG
64173 CTTCCTGCTC
Statistics
Matches: 183, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
59 21 0.11
60 26 0.14
61 32 0.17
62 62 0.34
63 42 0.23
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (63 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAGAAAA
Found at i:64051 original size:256 final size:254
Alignment explanation
Indices: 63677--64149 Score: 700
Period size: 256 Copynumber: 1.9 Consensus size: 254
63667 AAAATAAAGT
* *
63677 GCATCCTGCTCTTTGAGGACAAAAAGTGCCACCAACTCGTGTAGGCTTTGAAAAAGAAAGGCATC
1 GCATCCTACTCTTTGAGGACAAAAAGTGCCACCAACTCGTGTAGGATTTGAAAAAGAAAGGCATC
* * *
63742 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGATTTGCAAAGAAAAAGA-ATCATG
66 CTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGATTT-CAAAGAAAAA-ACATCATG
*
63806 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTAGTC
129 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTACTC
63871 TTTGAGGACTAGAAAAGTGCCACCAGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAA
194 TTTGAGGACTAGAAAAGTGCCACCAGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAA
* * * *
63932 GCATCCTACTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGATTTGAAAAGGAAAAGGT
1 GCATCCTACTCTTTGAGGAC-A-AAAAGTGCCACCAACTCGTGTAGGATTTGAAAAAG-AAAGGC
* * * * *
63996 GTCCTACTTTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTT-AAAGAAAAAACATCC
63 ATCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGATTTCAAAGAAAAAACATCA
* * *
64060 TGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTAC
127 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTAC
*
64125 TTTTTGAGGACTAGAAAAGTGCCAC
192 TCTTTGAGGACTAGAAAAGTGCCAC
64150 TAACTTGTGT
Statistics
Matches: 194, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
255 20 0.10
256 124 0.64
257 25 0.13
258 25 0.13
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (254 bp):
GCATCCTACTCTTTGAGGACAAAAAGTGCCACCAACTCGTGTAGGATTTGAAAAAGAAAGGCATC
CTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGATTTCAAAGAAAAAACATCATGCT
CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCGTCCTACTCTT
TGAGGACTAGAAAAGTGCCACCAGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAA
Found at i:64310 original size:150 final size:151
Alignment explanation
Indices: 64055--64497 Score: 417
Period size: 150 Copynumber: 2.8 Consensus size: 151
64045 AAAGAAAAAA
*
64055 CATCCTGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGT
1 CATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----A--AAAAGGCGT
* * * *
64120 CCTACTTTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCTTCCTGCTCCT
60 CCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCCT
64185 TAAGGACTAAAGGGCGAAAGGAGAGAG
125 TAAGGACTAAAGGGCGAAAGGAGAGAG
*
64212 CATCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTACT
1 CATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTACT
* * * *
64276 CTTTGAGGACTA-AAAGAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGA
66 CTTTGAGGACTAGAAA-AATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCCTTAAGG
* *** * *
64340 ACTGAAAAATGCCACCGACTTGTGTGGGCTTTGAAAGG
130 ACT---AAA-G-----GGC--G-AAAGG---AGAGA-G
* * ** * * *
64378 CGTCCTACTCTTTGAGGACTAAAAAAATGCCACCAAATTGTGTGGGCTTT-GAAAGGCGTCCTGC
1 CATCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTAC
* *
64442 TCTTTGAGGACT-GAAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
65 TCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
64498 TTTTGAGGAC
Statistics
Matches: 242, Mismatches: 25, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
149 3 0.01
150 70 0.29
153 3 0.01
154 1 0.00
157 47 0.19
159 2 0.01
161 1 0.00
162 2 0.01
165 3 0.01
166 58 0.24
167 52 0.21
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (151 bp):
CATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTACT
CTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCCTTAAGGA
CTAAAGGGCGAAAGGAGAGAG
Found at i:64372 original size:55 final size:55
Alignment explanation
Indices: 64214--64604 Score: 539
Period size: 55 Copynumber: 7.0 Consensus size: 55
64204 GGAGAGAGCA
** *
64214 TCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
64269 TCCTACTCTTTGAGGACTAAAAGAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-AATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
64325 TCCTGCTCTTTGAGAACTGAAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
64380 TCCTACTCTTTGAGGACTAAAAAAATGCCACCAAATTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
64436 TCCTGCTCTTTGAGGACTGAAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* ** *
64491 TCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCACAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG---AAAG---GCG
* * * *
64552 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
64605 AGAAAGCGTC
Statistics
Matches: 300, Mismatches: 28, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
55 145 0.48
56 102 0.34
58 8 0.03
61 45 0.15
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:64408 original size:111 final size:111
Alignment explanation
Indices: 64214--64604 Score: 559
Period size: 111 Copynumber: 3.5 Consensus size: 111
64204 GGAGAGAGCA
**
64214 TCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
*
64279 TGAGGACTAAAAGAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
66 TGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
64325 TCCTGCTCTTTGAGAACTGAAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
*
64390 TGAGGACTAAAAAAATGCCACCAAATTGTGTGGGCTTTGAAAGGCG
66 TGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
64436 TCCTGCTCTTTGAGGACTGAAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
* ** *
64501 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGCACAAAGAAAGCA
66 TGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTG---AAAG---GCG
* * *
64552 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
64605 AGAAAGCGTC
Statistics
Matches: 254, Mismatches: 20, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
110 26 0.10
111 174 0.69
113 4 0.02
116 50 0.20
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (111 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
TGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:64595 original size:61 final size:60
Alignment explanation
Indices: 64205--64662 Score: 263
Period size: 55 Copynumber: 8.0 Consensus size: 60
64195 AGGGCGAAAG
* * *
64205 GAGAGAGCATCCTGCTCTTTGAGGACTGGGAAA--TGCCACCAACTTGTGTGGGCTTT-AAA
1 GAGAAAGCATCATACTCTTTGAGGACT--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * *
64264 -AG---GCGTCCTACTCTTTGAGGACTAAAAGAATGCCACCAACTTGTGTGGGCTTT----
1 GAGAAAGCATCATACTCTTTGAGGACTGAAAG-GTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * * ** *
64317 GA-AAGGCGTCCTGCTCTTTGAGAACTGAAAAATGCCACCGACTTGTGTGGGCTTT----
1 GAGAAAGCATCATACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * ** *
64372 GA-AAGGCGTCCTACTCTTTGAGGACTAAAAAAATGCCACCAAATTGTGTGGGCTTT----
1 GAGAAAGCATCATACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * ** *
64428 GA-AAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCGACTTGTGTGGGCTTT----
1 GAGAAAGCATCATACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * * *
64483 GA-AAGGCGTCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCACAA
1 GAGAAAGCATCATACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAA
* * *
64544 -AGAAAGCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAA
1 GAGAAAGCATCATACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* ** *
64603 GGAGAAAGCGTCATGTTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTAGGGCTTTAAA
1 -GAGAAAGCATCATACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGGCTTTAAA
64663 GAAAGTTGCT
Statistics
Matches: 346, Mismatches: 35, Indels: 34
0.83 0.08 0.08
Matches are distributed among these distances:
53 3 0.01
54 1 0.00
55 143 0.41
56 96 0.28
58 2 0.01
59 3 0.01
60 18 0.05
61 80 0.23
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (60 bp):
GAGAAAGCATCATACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
Found at i:71006 original size:107 final size:107
Alignment explanation
Indices: 70806--71014 Score: 257
Period size: 107 Copynumber: 2.0 Consensus size: 107
70796 CTTTGGAGAT
*
70806 AATAACGGGGTTGAAGTATCTCCTCGAAAATAACGGTGTTGGAGTATCCCCGATTGTGAAAAATT
1 AATAACAGGGTTGAAGTATCTCCTCGAAAATAACGGTGTTGGAGTATCCCCGATTGTGAAAAATT
* * * * *
70871 GATGTTTTGGAAATGAAGCCGGGATTGGAGTATCCCCTCAAA
66 GATATTTTGAAAATAAAACCGGGATTGGAATATCCCCTCAAA
* *
70913 AATAACAGGGTTGGAGTATCTCCAAT-G-AAATAACAGG-GTTGGAGTATCCCTGATTGTGAAAA
1 AATAACAGGGTTGAAGTATCTCC--TCGAAAATAAC-GGTGTTGGAGTATCCCCGATTGTGAAAA
*
70975 ATT-AGTATTTTGAAAATAAAATC-GGAGTTGGAATATCCCC
63 ATTGA-TATTTTGAAAATAAAACCGGGA-TTGGAATATCCCC
71015 GATTGTGGAG
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
106 4 0.05
107 80 0.91
108 3 0.03
109 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (107 bp):
AATAACAGGGTTGAAGTATCTCCTCGAAAATAACGGTGTTGGAGTATCCCCGATTGTGAAAAATT
GATATTTTGAAAATAAAACCGGGATTGGAATATCCCCTCAAA
Found at i:71012 original size:51 final size:51
Alignment explanation
Indices: 70950--71065 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
70940 AAATAACAGG
* *
70950 GTTGGAGTATCCCTGATTGTGAAAAATTAGTATTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAG-AAATAAAATCAGA
* * * * *
71001 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCAGA
*
71052 GTTTGAGTATCCCC
1 GTTGGAGTATCCCC
71066 TCAAAAATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCAGA
Found at i:71084 original size:79 final size:78
Alignment explanation
Indices: 71001--71259 Score: 310
Period size: 79 Copynumber: 3.3 Consensus size: 78
70991 TAAAATCGGA
* * * * * *
71001 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCAGAGTTTGAGTATCCCC
1 GTTGGAATATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
* * *
71066 TCAAAAATAATGAG
65 TCGAAAATAACGGG
* *
71080 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
1 GTTGGAATATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
71145 TCGAAAATAACGGG
65 TCGAAAATAACGGG
* * * *
71159 GTT-AAAGTATCCTCGA---TGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTGTCCC
1 GTTGGAA-TATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAAC-GGGGTTAGAGTATCCC
71220 CTCGAAAATAACGGG
64 CTCGAAAATAACGGG
*
71235 GTTGGAGTATCCCCGATTGTGAAAA
1 GTTGGAATATCCCCGATTGTGAAAA
71260 GTCGATAATT
Statistics
Matches: 154, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
75 1 0.01
76 67 0.44
77 1 0.01
78 1 0.01
79 84 0.55
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (78 bp):
GTTGGAATATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACGGGGTTAGAGTATCCCCT
CGAAAATAACGGG
Found at i:71208 original size:76 final size:76
Alignment explanation
Indices: 71025--71251 Score: 294
Period size: 76 Copynumber: 2.9 Consensus size: 76
71015 GATTGTGGAG
* * * * * * *
71025 AATTGGTGTTTTAGAAATAAAA-TCAGAGTTTGAGTATCCCCTCAAAAATAATGAGGTTGGAGTA
1 AATTGATGTTTTAGAAATAAAACT-GGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTA
71089 TCCCCGATTATGAAA
65 TCCCCG---ATGAAA
* **
71104 AATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTAAAGTAT
1 AATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
*
71169 CCTCGATGAAA
66 CCCCGATGAAA
* *
71180 AATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
71245 CCCCGAT
66 CCCCGAT
71252 TGTGAAAAGT
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
76 72 0.55
79 58 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (76 bp):
AATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
CCCCGATGAAA
Found at i:71378 original size:51 final size:51
Alignment explanation
Indices: 71239--71378 Score: 156
Period size: 51 Copynumber: 2.7 Consensus size: 51
71229 AACGGGGTTG
* * * * * *
71239 GAGTATCCCCGATTGTGAAAAGTCGATAATTTGAAAATAAAATTGGAGTTG
1 GAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAATCGGAGTTA
* * *
71290 GAGTAT-CCCGATTATGAAAAAATGGGTATTTTAGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATG-AAAAATCGATATTTTGGAAATAAAATCGGAGTTA
* * *
71341 GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 GAGTATCCCCGATTATGAAAAATCGATATTTTGGAAAT
71379 GAAACCGGGA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
50 9 0.12
51 55 0.75
52 9 0.12
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAATCGGAGTTA
Found at i:73760 original size:13 final size:13
Alignment explanation
Indices: 73742--73771 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
73732 ACAATGAGCC
73742 ATGTATCGATACA
1 ATGTATCGATACA
73755 ATGTATCGATACA
1 ATGTATCGATACA
73768 ATGT
1 ATGT
73772 GCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:73767 original size:33 final size:33
Alignment explanation
Indices: 73721--73785 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
73711 TACATTGTAA
73721 AATGTATCAATACAATGAGCCATGTATCGATAC
1 AATGTATCAATACAATGAGCCATGTATCGATAC
* *
73754 AATGTATCGATACAATGTGCCATGTATCGATA
1 AATGTATCAATACAATGAGCCATGTATCGATA
73786 TAATACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCAATACAATGAGCCATGTATCGATAC
Found at i:73780 original size:20 final size:20
Alignment explanation
Indices: 73702--73785 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
73692 AAATGCCTGA
* ***
73702 ATGTATCGATACATTGTAAA
1 ATGTATCGATACAATGTGCC
* *
73722 ATGTATCAATACAATGAGCC
1 ATGTATCGATACAATGTGCC
73742 ATGTATCGATAC-A------
1 ATGTATCGATACAATGTGCC
73755 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
73775 ATGTATCGATA
1 ATGTATCGATA
73786 TAATACAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
13 12 0.24
14 1 0.02
19 1 0.02
20 36 0.72
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:76305 original size:20 final size:21
Alignment explanation
Indices: 76259--76305 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
76249 TAACAAATAA
76259 TTTCTTGTTGAAAAAGTTAAT
1 TTTCTTGTTGAAAAAGTTAAT
* * *
76280 TATCTTTTTGAAAAA-TTATT
1 TTTCTTGTTGAAAAAGTTAAT
76300 TTTCTT
1 TTTCTT
76306 ACAAGATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTCTTGTTGAAAAAGTTAAT
Found at i:76570 original size:20 final size:19
Alignment explanation
Indices: 76533--76569 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
76523 TTAATATTTA
*
76533 TAAAAAAATTCTATTTTTC
1 TAAAAAAAATCTATTTTTC
76552 TAAAAAAAATCTATTTTT
1 TAAAAAAAATCTATTTTT
76570 TTGAAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAAAAAAATCTATTTTTC
Found at i:81446 original size:14 final size:16
Alignment explanation
Indices: 81431--81500 Score: 67
Period size: 15 Copynumber: 4.6 Consensus size: 16
81421 CTCTTTGTCT
*
81431 TTCTTTTCTCTCC-TT
1 TTCTTTTCTCTCCATC
*
81446 TTCCTTTCT-TCCATC
1 TTCTTTTCTCTCCATC
81461 TTC-TTTCTCT-CATC
1 TTCTTTTCTCTCCATC
* *
81475 TTCTTTTCTCTTCTTC
1 TTCTTTTCTCTCCATC
81491 TTCTTCTTCT
1 TTCTT-TTCT
81501 TCTTCTCTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
14 15 0.32
15 20 0.43
16 8 0.17
17 4 0.09
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (16 bp):
TTCTTTTCTCTCCATC
Found at i:81508 original size:84 final size:80
Alignment explanation
Indices: 81410--81600 Score: 215
Period size: 84 Copynumber: 2.3 Consensus size: 80
81400 CATTGCTAGT
* *
81410 TTCTTCTTCATCTCTTTGTCTTTCTTTTCTCTCCTTTTCCTTTCTTCC-ATCTT-CTTTCTCTCA
1 TTCTTCTTC-TCTCTTTGTCTTTCTTTTCTCTCCTTTTCCTCTCTTCCGCT-TTCCTTT-TCTCA
*
81473 TCTTCTTTTCTCTTCTTCTTC
63 -CTT-TCTTCTCTT-TTCTTC
* * * *
81494 TTCTTCTTCTTCTCTTTTTCTTTGTCTTCTCTTCTTTTCCTCTCTTCCGCTTTCCTTTTCTCACT
1 TTCTTCTTC-TCTCTTTGTCTTTCTTTTCTCTCCTTTTCCTCTCTTCCGCTTTCCTTTTCTCACT
81559 TTCTTCTCTTTTCTTC
65 TTCTTCTCTTTTCTTC
* *
81575 GTCTTCTTCTCTTCTTTGGCTTTCTT
1 TTCTTCTTCTC-TCTTTGTCTTTCTT
81601 CTCTTTCTGC
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
80 2 0.02
81 24 0.26
82 8 0.09
83 3 0.03
84 49 0.54
85 5 0.05
ACGTcount: A:0.02, C:0.32, G:0.03, T:0.62
Consensus pattern (80 bp):
TTCTTCTTCTCTCTTTGTCTTTCTTTTCTCTCCTTTTCCTCTCTTCCGCTTTCCTTTTCTCACTT
TCTTCTCTTTTCTTC
Found at i:81509 original size:17 final size:18
Alignment explanation
Indices: 81459--81529 Score: 62
Period size: 17 Copynumber: 4.1 Consensus size: 18
81449 CTTTCTTCCA
81459 TCTTCTTTCTCTCATCTTCT
1 TCTTC-TTCT-TCATCTTCT
*
81479 T-TTC-TCTTCTTCTTCT
1 TCTTCTTCTTCATCTTCT
*
81495 TCTTCTTCTTC-TCTTTT
1 TCTTCTTCTTCATCTTCT
81512 TCTT-TGTCTTC-TCTTCT
1 TCTTCT-TCTTCATCTTCT
81529 T
1 T
81530 TTCCTCTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
16 10 0.22
17 26 0.58
18 5 0.11
19 3 0.07
20 1 0.02
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.66
Consensus pattern (18 bp):
TCTTCTTCTTCATCTTCT
Found at i:81602 original size:3 final size:3
Alignment explanation
Indices: 81459--81590 Score: 63
Period size: 3 Copynumber: 46.3 Consensus size: 3
81449 CTTTCTTCCA
*
81459 TCT TCTT TCT CTCA TCT TCT T-T TC- TCT TCT TCT TCT TCT TCT TCT
1 TCT TC-T TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
81504 TC- TCT TTT TCT T-T GTCT TC- TCT TCT T-T TCC TC- TCT TCC GCT
1 TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
81545 T-T CCT T-T TCT CACTT TCT TC- TCT T-T TCT TCG TCT TCT TC- TCT
1 TCT TCT TCT TCT -TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
81587 TCT T
1 TCT T
81591 TGGCTTTCTT
Statistics
Matches: 97, Mismatches: 15, Indels: 34
0.66 0.10 0.23
Matches are distributed among these distances:
2 22 0.23
3 66 0.68
4 8 0.08
5 1 0.01
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:81608 original size:9 final size:9
Alignment explanation
Indices: 81473--81614 Score: 56
Period size: 9 Copynumber: 16.0 Consensus size: 9
81463 CTTTCTCTCA
*
81473 TCTTCTTTT
1 TCTTCTCTT
81482 CTCTTCT-TCT
1 -TCTTCTCT-T
81492 TCTTCT-TCT
1 TCTTCTCT-T
81501 TCTTCTCTT
1 TCTTCTCTT
81510 T-TTCT-TT
1 TCTTCTCTT
81517 GTCTTCTC-T
1 -TCTTCTCTT
* *
81526 TCTTTTCCTC
1 TCTTCT-CTT
*
81536 TCTTCCGCTT
1 TCTT-CTCTT
81546 TC--CT-TT
1 TCTTCTCTT
*
81552 TC-TCACTT
1 TCTTCTCTT
81560 TCTTCTCTTT
1 TCTTCTC-TT
81570 TCTTCGTC-T
1 TCTTC-TCTT
81579 TCTTCTC-T
1 TCTTCTCTT
81587 TCTT-TGGCTT
1 TCTTCT--CTT
81597 TCTTCTCTT
1 TCTTCTCTT
*
81606 TCTGCTCTT
1 TCTTCTCTT
81615 GTTTCTTCAT
Statistics
Matches: 106, Mismatches: 9, Indels: 35
0.71 0.06 0.23
Matches are distributed among these distances:
6 4 0.04
7 5 0.05
8 21 0.20
9 45 0.42
10 28 0.26
11 3 0.03
ACGTcount: A:0.01, C:0.32, G:0.04, T:0.63
Consensus pattern (9 bp):
TCTTCTCTT
Found at i:82037 original size:21 final size:20
Alignment explanation
Indices: 82013--82073 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 20
82003 TTTTAAAAAT
*
82013 TATTTTATATTAATATTTATA
1 TATTTTATATT-ATATTTAAA
82034 TATTTTATAATTATATTTAAA
1 TATTTTAT-ATTATATTTAAA
82055 TATTTT-TATT-TA-TTAAA
1 TATTTTATATTATATTTAAA
82072 TA
1 TA
82074 ATAATTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
17 7 0.18
18 2 0.05
19 3 0.08
20 1 0.03
21 22 0.58
22 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTATATTATATTTAAA
Found at i:82059 original size:29 final size:28
Alignment explanation
Indices: 82017--82084 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
82007 AAAAATTATT
82017 TTATA-TT-AATATTTATATATT-TTATAA
1 TTATATTTAAATATTTATAT-TTATTA-AA
*
82044 TTATATTTAAATATTTTTATTTATTAAA
1 TTATATTTAAATATTTATATTTATTAAA
*
82072 TAATAATTTAAAT
1 TTAT-ATTTAAAT
82085 TAAATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.14
28 9 0.26
29 21 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTATATTTAAATATTTATATTTATTAAA
Found at i:82086 original size:17 final size:17
Alignment explanation
Indices: 82066--82142 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 17
82056 ATTTTTATTT
82066 ATTAAATAATAATTTAA
1 ATTAAATAATAATTTAA
* *
82083 ATTAAATAAAAAATTAA
1 ATTAAATAATAATTTAA
* * *
82100 ATTTAA-AATATTTTAT
1 ATTAAATAATAATTTAA
* * *
82116 TTTAAAT-TTAATCTAA
1 ATTAAATAATAATTTAA
*
82132 TTTAAATAATA
1 ATTAAATAATA
82143 CAGGTAAATA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
16 22 0.50
17 22 0.50
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAAATAATAATTTAA
Found at i:82135 original size:21 final size:21
Alignment explanation
Indices: 82096--82135 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
82086 AAATAAAAAA
*
82096 TTAAATTTAAAATATTTTATT
1 TTAAATTTAAAATAATTTATT
**
82117 TTAAATTTAATCTAATTTA
1 TTAAATTTAAAATAATTTA
82136 AATAATACAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAATTTAAAATAATTTATT
Found at i:85007 original size:20 final size:18
Alignment explanation
Indices: 84982--85021 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
84972 AATATATTTT
84982 ATTAATATAAATATTAAAAA
1 ATTAATAT--ATATTAAAAA
*
85002 ATTAATATTTATTAAAAA
1 ATTAATATATATTAAAAA
85020 AT
1 AT
85022 ATTAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAATATATATTAAAAA
Found at i:85024 original size:45 final size:45
Alignment explanation
Indices: 84932--85024 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
84922 GAAAGACTTA
* * * *
84932 ATTTTATTTATATTAATATTTAAAATAATAATATTAGTACAATAT
1 ATTTTATTAATATAAATATTTAAAATAATAATATTAGTAAAAAAT
*
84977 ATTTTATTAATATAAATA-TTAAAA-AATTAATATTTATTAAAAAAT
1 ATTTTATTAATATAAATATTTAAAATAA-TAATA-TTAGTAAAAAAT
85022 ATT
1 ATT
85025 AAATATTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.05
44 11 0.27
45 28 0.68
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (45 bp):
ATTTTATTAATATAAATATTTAAAATAATAATATTAGTAAAAAAT
Found at i:85430 original size:22 final size:21
Alignment explanation
Indices: 85405--85446 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
85395 TTCTTTAAAA
85405 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
85425 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
85446 A
1 A
85447 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:88224 original size:16 final size:16
Alignment explanation
Indices: 88155--88236 Score: 56
Period size: 16 Copynumber: 5.1 Consensus size: 16
88145 GGTAATTAGG
* *
88155 CGGGTTCAGGCACGTT
1 CGGGTTCAGGCTCATT
* *
88171 CGGGTTCGGGTTCATT
1 CGGGTTCAGGCTCATT
* * *
88187 CGAGTTCAAGCTTATT
1 CGGGTTCAGGCTCATT
** * *
88203 TAGGTTCGGGCTCGTT
1 CGGGTTCAGGCTCATT
*
88219 CGGGTTCAGGCTCTTT
1 CGGGTTCAGGCTCATT
88235 CG
1 CG
88237 AATTCGAGCT
Statistics
Matches: 46, Mismatches: 20, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.34
Consensus pattern (16 bp):
CGGGTTCAGGCTCATT
Found at i:88225 original size:48 final size:48
Alignment explanation
Indices: 88157--88278 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
88147 TAATTAGGCG
* * * *
88157 GGTTCAGGCACGTTCGGGTTCGGGTTCATTCGAGTTCAAGCTTATTTA
1 GGTTCGGGCTCGTTCGGGTTCGGGTTCATTCGAATTCAAGCTTATTCA
* * * *
88205 GGTTCGGGCTCGTTCGGGTTCAGGCTCTTTCGAATTCGAGCTTATTCA
1 GGTTCGGGCTCGTTCGGGTTCGGGTTCATTCGAATTCAAGCTTATTCA
* **
88253 AGTTCGGGCTTATTCGGGTTCGGGTT
1 GGTTCGGGCTCGTTCGGGTTCGGGTT
88279 TAGGCCCGAG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.13, C:0.20, G:0.31, T:0.36
Consensus pattern (48 bp):
GGTTCGGGCTCGTTCGGGTTCGGGTTCATTCGAATTCAAGCTTATTCA
Found at i:88273 original size:16 final size:16
Alignment explanation
Indices: 88169--88276 Score: 67
Period size: 16 Copynumber: 6.8 Consensus size: 16
88159 TTCAGGCACG
88169 TTCGGGTTCGGG-TTCA
1 TTCGGGTTCGGGCTT-A
* **
88185 TTCGAGTTCAAGCTTA
1 TTCGGGTTCGGGCTTA
** **
88201 TTTAGGTTCGGGCTCG
1 TTCGGGTTCGGGCTTA
*
88217 TTCGGGTTCAGGCTCT-
1 TTCGGGTTCGGGCT-TA
** *
88233 TTCGAATTCGAGCTTA
1 TTCGGGTTCGGGCTTA
**
88249 TTCAAGTTCGGGCTTA
1 TTCGGGTTCGGGCTTA
88265 TTCGGGTTCGGG
1 TTCGGGTTCGGG
88277 TTTAGGCCCG
Statistics
Matches: 66, Mismatches: 23, Indels: 6
0.69 0.24 0.06
Matches are distributed among these distances:
15 1 0.02
16 63 0.95
17 2 0.03
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (16 bp):
TTCGGGTTCGGGCTTA
Found at i:88517 original size:18 final size:18
Alignment explanation
Indices: 88480--88517 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88470 ATTTATATAC
*
88480 AAAATTAATTTGTTATAT
1 AAAATTAATTTGTTAAAT
88498 AAAATTAATTT-TTCAAAT
1 AAAATTAATTTGTT-AAAT
88516 AA
1 AA
88518 TTTATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
AAAATTAATTTGTTAAAT
Found at i:88795 original size:15 final size:14
Alignment explanation
Indices: 88762--88789 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88752 AAACTCAATT
88762 AAAATAAAAAAAGC
1 AAAATAAAAAAAGC
88776 AAAATAAAAAAAGC
1 AAAATAAAAAAAGC
88790 TTAAATCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAATAAAAAAAGC
Found at i:89316 original size:34 final size:34
Alignment explanation
Indices: 89246--89308 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
89236 GTGTTTGTGA
*
89246 AAAGAATAAGCACAAAGGAATACAATGAGCTTTG
1 AAAGAATAAGCACAAAGGAATACAATAAGCTTTG
89280 AAAGAATAA-CAACAAA-GAATACAA-AAGCT
1 AAAGAATAAGC-ACAAAGGAATACAATAAGCT
89309 CTTTGAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 4 0.15
33 9 0.33
34 14 0.52
ACGTcount: A:0.57, C:0.13, G:0.16, T:0.14
Consensus pattern (34 bp):
AAAGAATAAGCACAAAGGAATACAATAAGCTTTG
Found at i:89524 original size:20 final size:20
Alignment explanation
Indices: 89499--89553 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
89489 TCACGCTCCT
89499 ATGTATCGATACAAT-TTATA
1 ATGTATCGATACAATCTT-TA
* *
89519 ATGTATCGATATAATCTTTC
1 ATGTATCGATACAATCTTTA
*
89539 ATGCATCGATACAAT
1 ATGTATCGATACAAT
89554 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATCTTTA
Found at i:89561 original size:13 final size:13
Alignment explanation
Indices: 89543--89568 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89533 TCTTTCATGC
89543 ATCGATACAATGT
1 ATCGATACAATGT
89556 ATCGATACAATGT
1 ATCGATACAATGT
89569 GAGTTTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATCGATACAATGT
Found at i:89636 original size:19 final size:20
Alignment explanation
Indices: 89612--89663 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
89602 ATATTTTAGT
*
89612 ATGTATCGATACAATG-AAC
1 ATGTATCGATACAAAGCAAC
*
89631 ATGTATCGATACAAAGCAAT
1 ATGTATCGATACAAAGCAAC
89651 ATGTATCGATACA
1 ATGTATCGATACA
89664 TCTAAGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAAAGCAAC
Found at i:90340 original size:20 final size:20
Alignment explanation
Indices: 90301--90341 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
90291 CCATATATAA
90301 CTCCCCTTAATAAAATTTTT
1 CTCCCCTTAATAAAATTTTT
90321 CTCCTCCTTAATAAAATTTTT
1 CTCC-CCTTAATAAAATTTTT
90342 AATGCTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (20 bp):
CTCCCCTTAATAAAATTTTT
Found at i:92923 original size:40 final size:40
Alignment explanation
Indices: 92868--92943 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
92858 CTCTTTTTTG
*
92868 TACATGATCTCTAATGAAGTGATGTTTAATTTCTATGTGC
1 TACATGATCTCTAATGAAGTGATATTTAATTTCTATGTGC
92908 TACATGATCTCTAATGAAGTGATATTTAATTTCTAT
1 TACATGATCTCTAATGAAGTGATATTTAATTTCTAT
92944 ATGTTTAGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (40 bp):
TACATGATCTCTAATGAAGTGATATTTAATTTCTATGTGC
Found at i:96656 original size:31 final size:31
Alignment explanation
Indices: 96618--96694 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
96608 AACATTGAAA
96618 AATGTATCGATACATCTAGGTAAAAAGACAG
1 AATGTATCGATACATCTAGGTAAAAAGACAG
96649 AATGTATCGATACATCTAGGTAAAAAGACAG
1 AATGTATCGATACATCTAGGTAAAAAGACAG
96680 AATGTATCGATACAT
1 AATGTATCGATACAT
96695 TAAAGAATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (31 bp):
AATGTATCGATACATCTAGGTAAAAAGACAG
Found at i:96703 original size:20 final size:20
Alignment explanation
Indices: 96680--96754 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
96670 AAAAAGACAG
96680 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTCAAA
*
96699 GAATGTATCGATACATTCATA
1 -AATGTATCGATACATTCAAA
* *
96720 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
96740 AATGTATCGATACAT
1 AATGTATCGATACAT
96755 CTGGGTACTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 47 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:97741 original size:28 final size:28
Alignment explanation
Indices: 97622--98491 Score: 986
Period size: 28 Copynumber: 30.5 Consensus size: 28
97612 CACTAACTTG
*
97622 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAG-G-TGCCACTGAC-T
* *
97653 GTGTGGGCTTTGAAAAGAGTTACTACT-AGCT
1 -TGTGGGCTTTGAAAAG-G-TGCCACTGA-CT
*
97684 TGTAGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* *
97713 TGTAGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
97741 TGTAGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
97769 TGTGGGCTTTGAAAAGAGTGCCCCCTAACT
1 TGTGGGCTTTGAAAAG-GTG-CCACTGACT
*
97799 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
97827 TGCGTGGGCTTTG-AAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAAGG-TGCCACTGACT
* *
97857 TGTGGGCTTTG-AAAGGATGCCAATAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
97885 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
97913 TGTAGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* *
97942 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
97970 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* *
97999 TGTGGGCTTTG-AAAGGATGCCATTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
98027 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* *
98056 TGTGGGCTTTGAAAGGGTGCTACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
**
98084 TGTGGGCTTTGAAAAGAGTATCACTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
*
98113 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
98141 TGCGTGGGCTTTGAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAAGGTGCCACTGACT
* * *
98171 TGTGAGCTTTG-AAAGGATGCCCCTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
98199 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * *
98228 TATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
98256 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
98284 TGTGGGCTTTGAAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
98312 TGTAGGCTTTGAAAGGGTGCCATTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
98340 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
98368 TGTGGGCTTTGAAAGGGTGCCACTAAC-
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
98395 TATGGACTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
98423 TATGGGTTTTG-AAAGGATGCTACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
98451 TGTGGGCTTT-AAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
98479 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
98492 GAGATGAACG
Statistics
Matches: 736, Mismatches: 74, Indels: 59
0.85 0.09 0.07
Matches are distributed among these distances:
27 40 0.05
28 400 0.54
29 176 0.24
30 94 0.13
31 2 0.00
32 24 0.03
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:97753 original size:57 final size:57
Alignment explanation
Indices: 97609--98491 Score: 1011
Period size: 57 Copynumber: 15.4 Consensus size: 57
97599 TAAAAAAAAA
*
97609 TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGAG
1 TGCCACTAAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAAG-G
* * * * *
97672 TTACTACTAGCTTGTAGGCTTTGAAAAGAGTGCCACTGACTTGTAGGCTTTGAAAAGG
1 -TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
97730 TGCCACTAACTTGTAGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-G
* *
97787 TGCCCCCTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGCGTGGGCTTTG-AAAGG
1 TG-CCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAAGG
* * * * *
97845 ATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCAATAACTTGTGGGCTTTGAAAGGG
1 -TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
97902 TGCCACTGATTTGTAGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
97959 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
98015 ATGCCATTAACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGG
1 -TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * ** *
98073 TGCTACTGACTTGTGGGCTTTGAAAAGAGTATCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
98130 TGCCACTGACTTGCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGAGCTTTG-AAAGG
1 TGCCACTAACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
98187 ATGCCCCTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGG
1 -TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* *
98245 TGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAATGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * *
98301 TGCCACTGACTTGTAGGCTTTG-AAAGGGTGCCATTAACTTGTGGGCTTTG-AAAGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * * *
98356 ATGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAAC-TATGGACTTTGAAAAGA
1 -TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * *
98412 TGCCACTGACTTATGGGTTTTGAAAGGA-TGCTACTGACTTGTGGGCTTT-AAAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA-GG
* *
98468 TGCCATTGACTTGTGGGCTTTGAA
1 TGCCACTAACTTGTGGGCTTTGAA
98492 GAGATGAACG
Statistics
Matches: 716, Mismatches: 82, Indels: 50
0.84 0.10 0.06
Matches are distributed among these distances:
55 45 0.06
56 223 0.31
57 268 0.37
58 101 0.14
59 34 0.05
60 11 0.02
61 9 0.01
62 17 0.02
63 1 0.00
64 7 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (57 bp):
TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG
Found at i:99727 original size:9 final size:9
Alignment explanation
Indices: 99713--99790 Score: 79
Period size: 9 Copynumber: 8.6 Consensus size: 9
99703 TTTGAACCCC
99713 TTTTTGTTT
1 TTTTTGTTT
99722 TTTTTGTTAT
1 TTTTTGTT-T
*
99732 TTTTTG-CT
1 TTTTTGTTT
**
99740 TGGTT-TTT
1 TTTTTGTTT
99748 TTTTTGTTT
1 TTTTTGTTT
99757 TTTTTGTTTT
1 TTTTTG-TTT
99767 TTTTTGGTTT
1 TTTTT-GTTT
*
99777 TTTTGGTTT
1 TTTTTGTTT
99786 TTTTT
1 TTTTT
99791 TGTATGAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
8 8 0.14
9 25 0.45
10 22 0.39
11 1 0.02
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.83
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:99736 original size:11 final size:10
Alignment explanation
Indices: 99713--99793 Score: 76
Period size: 10 Copynumber: 7.7 Consensus size: 10
99703 TTTGAACCCC
99713 TTTTTG-TTT
1 TTTTTGTTTT
99722 TTTTTGTTATTT
1 TTTTTG-T-TTT
99734 TTTGCTTGGTTTT
1 TTT--TT-GTTTT
99747 TTTTT-TGTTT
1 TTTTTGT-TTT
99757 TTTTTGTTTT
1 TTTTTGTTTT
*
99767 TTTTTGGTTT
1 TTTTTGTTTT
*
99777 TTTTGGTTTT
1 TTTTTGTTTT
99787 TTTTTGT
1 TTTTTGT
99794 ATGAAGGATG
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
9 7 0.12
10 34 0.57
11 3 0.05
12 6 0.10
13 6 0.10
14 3 0.05
15 1 0.02
ACGTcount: A:0.01, C:0.01, G:0.15, T:0.83
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:99765 original size:20 final size:20
Alignment explanation
Indices: 99713--99791 Score: 95
Period size: 20 Copynumber: 3.8 Consensus size: 20
99703 TTTGAACCCC
*
99713 TTTTTGTTTTTTTTGTTATTT
1 TTTTTGTTTTTTTT-TTGTTT
99734 TTTGCTTGGTTTTTTTTTTGTTT
1 TTT--TT-GTTTTTTTTTTGTTT
*
99757 TTTTTGTTTTTTTTTGGTTT
1 TTTTTGTTTTTTTTTTGTTT
*
99777 TTTTGGTTTTTTTTT
1 TTTTTGTTTTTTTTT
99792 GTATGAAGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
20 28 0.54
21 5 0.10
23 10 0.19
24 9 0.17
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.84
Consensus pattern (20 bp):
TTTTTGTTTTTTTTTTGTTT
Found at i:99787 original size:35 final size:34
Alignment explanation
Indices: 99713--99780 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 34
99703 TTTGAACCCC
99713 TTTTTGTTTTTTTTGTTATTTTTTGCTTGGTTTTT
1 TTTTTGTTTTTTTTGTTATTTTTTGCTT-GTTTTT
* *
99748 TTTTTGTTTTTTTTGTTTTTTTTTGGTT-TTTTT
1 TTTTTGTTTTTTTTGTTATTTTTTGCTTGTTTTT
99781 GGTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 5 0.16
35 26 0.84
ACGTcount: A:0.01, C:0.01, G:0.13, T:0.84
Consensus pattern (34 bp):
TTTTTGTTTTTTTTGTTATTTTTTGCTTGTTTTT
Found at i:106274 original size:26 final size:27
Alignment explanation
Indices: 106245--106295 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
106235 TTTCTTGATT
106245 GAAA-AACGGGGTTGGAGTATCCCCTC
1 GAAAGAACGGGGTTGGAGTATCCCCTC
*
106271 GAAAGAATGGGGTTGGAGTATCCCC
1 GAAAGAACGGGGTTGGAGTATCCCC
106296 GATGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (27 bp):
GAAAGAACGGGGTTGGAGTATCCCCTC
Found at i:107691 original size:22 final size:23
Alignment explanation
Indices: 107645--107700 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
107635 TGGACATGTT
107645 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
107668 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
107690 AAAAATGCATG
1 AAAAATGCATG
107701 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:108658 original size:20 final size:20
Alignment explanation
Indices: 108611--108685 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
108601 AAAAAGACAT
*
108611 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
108630 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
108651 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
108671 AATGTAGCGATACAT
1 AATGTATCGATACAT
108686 CAAGGTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:108682 original size:40 final size:39
Alignment explanation
Indices: 108608--108685 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
108598 GGGAAAAAGA
* * *
108608 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATAGCGATACATT
* *
108647 CATACATGTATCGATATATTGAAAAATGTAGCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATAGCGATACAT
108686 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATAGCGATACATT
Found at i:118871 original size:15 final size:14
Alignment explanation
Indices: 118824--118871 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
118814 CCTTTTCTAG
*
118824 TTTAACTATTTTTT
1 TTTAACAATTTTTT
* *
118838 TTTAAGAATTTCATT
1 TTTAACAATTT-TTT
118853 TTTAACAATTTTTT
1 TTTAACAATTTTTT
118867 ATTTA
1 -TTTA
118872 TTATTTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTAACAATTTTTT
Found at i:119297 original size:3 final size:3
Alignment explanation
Indices: 119289--119330 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
119279 CGTGTCAACT
* *
119289 TCA TCA TCA TTA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
119331 CCTTTGATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:121424 original size:10 final size:10
Alignment explanation
Indices: 121397--121425 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
121387 TTTTACCTTC
121397 ACTATAACTT
1 ACTATAACTT
121407 ACTA-AACTT
1 ACTATAACTT
121416 ACTATAACTT
1 ACTATAACTT
121426 TTTTATCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (10 bp):
ACTATAACTT
Found at i:121537 original size:16 final size:15
Alignment explanation
Indices: 121511--121540 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
121501 ATGTTAACTT
121511 TATATTATATTCTAC
1 TATATTATATTCTAC
121526 TATATTACTATTCTA
1 TATATTA-TATTCTA
121541 AGTGTAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTATATTCTAC
Found at i:126078 original size:18 final size:17
Alignment explanation
Indices: 126037--126081 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
126027 ATTTAGGTTC
* *
126037 TCTCGGGTTTGAGTTCT
1 TCTCGGGTTCGAGTCCT
126054 T-TCGGGTTCGAGTCCTT
1 TCTCGGGTTCGAGTCC-T
126071 TCTCGGGTTCG
1 TCTCGGGTTCG
126082 GGCTTTTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 12 0.50
17 3 0.12
18 9 0.38
ACGTcount: A:0.04, C:0.22, G:0.31, T:0.42
Consensus pattern (17 bp):
TCTCGGGTTCGAGTCCT
Found at i:126934 original size:29 final size:27
Alignment explanation
Indices: 126875--126935 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
126865 AGGTCAAAAT
*
126875 TTAAAAATAAAATAAAGAAAATAGAAA
1 TTAAAAATAAAATAAACAAAATAGAAA
*
126902 -TAAAAATAATAAATAAACTAAATAGAAA
1 TTAAAAAT-A-AAATAAACAAAATAGAAA
126930 TTAAAA
1 TTAAAA
126936 TCAGAGGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.24
27 1 0.03
28 16 0.55
29 5 0.17
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (27 bp):
TTAAAAATAAAATAAACAAAATAGAAA
Found at i:128268 original size:19 final size:19
Alignment explanation
Indices: 128244--128280 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
128234 TGTATCGATA
*
128244 CATTGTATCGATATATGAT
1 CATTGTATCGATACATGAT
128263 CATTGTATCGATACATGA
1 CATTGTATCGATACATGA
128281 AACTGGCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:137087 original size:13 final size:13
Alignment explanation
Indices: 137069--137096 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
137059 ACATTATGCT
137069 TTGTATCGATACA
1 TTGTATCGATACA
137082 TTGTATCGATACA
1 TTGTATCGATACA
137095 TT
1 TT
137097 ATATAGATAT
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:137117 original size:19 final size:19
Alignment explanation
Indices: 137093--137148 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
137083 TGTATCGATA
*
137093 CATTATATAGATATATGCT
1 CATTATATCGATATATGCT
* *
137112 CATTATATCGATACATACT
1 CATTATATCGATATATGCT
*
137131 CAATTGTATCGATATATG
1 C-ATTATATCGATATATG
137149 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
CATTATATCGATATATGCT
Found at i:139501 original size:20 final size:20
Alignment explanation
Indices: 139476--139528 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
139466 GTGACAAGCT
139476 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
139496 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
139516 ATGTATCGATACA
1 ATGTATCGATACA
139529 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:139603 original size:19 final size:19
Alignment explanation
Indices: 139558--139614 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
139548 CTACCAGTTT
**
139558 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
139579 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
139598 CATGTATCGATACAATG
1 CATGTATCGATACAATG
139615 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:139617 original size:13 final size:13
Alignment explanation
Indices: 139599--139625 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
139589 TACAATGAAC
139599 ATGTATCGATACA
1 ATGTATCGATACA
139612 ATGTATCGATACA
1 ATGTATCGATACA
139625 A
1 A
139626 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:139640 original size:33 final size:32
Alignment explanation
Indices: 139580--139644 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
139570 CAATTTGTCC
*
139580 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
139612 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
139645 TTTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:140193 original size:19 final size:19
Alignment explanation
Indices: 140171--140232 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
140161 TTTCTCCCTT
140171 TTAAAAAAAATTCTCCCCC
1 TTAAAAAAAATTCTCCCCC
** * **
140190 TT-AAACGATTATCTCCTTC
1 TTAAAAAAAAT-TCTCCCCC
*
140209 TTAAAAAAAAATCTCCCCC
1 TTAAAAAAAATTCTCCCCC
140228 TTAAA
1 TTAAA
140233 TAATTATTTT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
18 5 0.17
19 21 0.70
20 4 0.13
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (19 bp):
TTAAAAAAAATTCTCCCCC
Found at i:140239 original size:38 final size:37
Alignment explanation
Indices: 140167--140239 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
140157 CGTTTTTCTC
* *
140167 CCTTTTAAAAAAAATTCTCCCCCTTAAACGATTATCT
1 CCTTTTAAAAAAAAATCTCCCCCTTAAACAATTATCT
*
140204 CCTTCTTAAAAAAAAATCTCCCCCTTAAATAATTAT
1 CCTT-TTAAAAAAAAATCTCCCCCTTAAACAATTAT
140240 TTTCATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 4 0.12
38 28 0.88
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.34
Consensus pattern (37 bp):
CCTTTTAAAAAAAAATCTCCCCCTTAAACAATTATCT
Found at i:148183 original size:11 final size:11
Alignment explanation
Indices: 148167--148196 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
148157 GCCGTTATAA
148167 GCTTGTTTGGT
1 GCTTGTTTGGT
148178 GCTTGTTTGGT
1 GCTTGTTTGGT
148189 GCTTGTTT
1 GCTTGTTT
148197 TCATGCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.33, T:0.57
Consensus pattern (11 bp):
GCTTGTTTGGT
Found at i:148312 original size:20 final size:20
Alignment explanation
Indices: 148287--148339 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
148277 GTTACAAGCT
148287 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
148307 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
148327 ATGTATCGATACA
1 ATGTATCGATACA
148340 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:148399 original size:21 final size:20
Alignment explanation
Indices: 148373--148424 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
148363 CAGTTTCATT
**
148373 TATCGATACAATTTGTCCATG
1 TATCGATACAA-TTGAACATG
148394 TATCGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
148413 TATCGATACAAT
1 TATCGATACAAT
148425 GTATCGATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 17 0.61
21 11 0.39
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:148428 original size:13 final size:13
Alignment explanation
Indices: 148410--148436 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
148400 TACAATGAAC
148410 ATGTATCGATACA
1 ATGTATCGATACA
148423 ATGTATCGATACA
1 ATGTATCGATACA
148436 A
1 A
148437 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:148451 original size:33 final size:32
Alignment explanation
Indices: 148391--148455 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
148381 CAATTTGTCC
*
148391 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
148423 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
148456 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:150180 original size:24 final size:25
Alignment explanation
Indices: 150152--150206 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
150142 TATATATATA
*
150152 CTTTTTGTTAATTATTATTATTATT
1 CTTTTTATTAATTATTATTATTATT
* * *
150177 -TTTTTATTATTTTTTATTTTTATT
1 CTTTTTATTAATTATTATTATTATT
150201 CTTTTT
1 CTTTTT
150207 TACTCAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (25 bp):
CTTTTTATTAATTATTATTATTATT
Found at i:150665 original size:24 final size:26
Alignment explanation
Indices: 150624--150682 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 26
150614 TAAATTTTTT
150624 AAAATAATA-AAAATTATTTAA-AT-A
1 AAAATAATATAAAATTA-TTAACATCA
*
150648 AAAATAATATAATA-TATTAACATCA
1 AAAATAATATAAAATTATTAACATCA
*
150673 AAATTAATAT
1 AAAATAATAT
150683 TTATAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 13 0.43
25 13 0.43
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATAATATAAAATTATTAACATCA
Found at i:152093 original size:6 final size:6
Alignment explanation
Indices: 152082--152186 Score: 50
Period size: 5 Copynumber: 18.7 Consensus size: 6
152072 TCTTTTTTTC
*
152082 TCTTCT TCTTCT TCTTCT TC-TCT TTTTCT T-TGTCT TC-TCT TCTT-T
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCT-TCT TCTTCT TCTTCT
* * * * * *
152127 TCCTC- TCTTCC GCTT-T CCTT-T TCTCACTT TCTTC- TCTT-T TCTTCG
1 TCTTCT TCTTCT TCTTCT TCTTCT TCT-TC-T TCTTCT TCTTCT TCTTCT
152172 TCTTCT TC-TCT TCTT
1 TCTTCT TCTTCT TCTT
152187 TGGCTTTCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
5 37 0.49
6 34 0.45
7 1 0.01
8 4 0.05
ACGTcount: A:0.01, C:0.33, G:0.03, T:0.63
Consensus pattern (6 bp):
TCTTCT
Found at i:152097 original size:81 final size:80
Alignment explanation
Indices: 152009--152196 Score: 211
Period size: 81 Copynumber: 2.3 Consensus size: 80
151999 TACTGCTAGT
*
152009 TTCTTCTTCGTCTCTTTGTCTTTCTTTTCCCTCCTTTTCCTCTCTTCC-ATCTT-CTTTCTCTCA
1 TTCTTCTTC-TCTCTTTGTCTTTCTTTTCCCTCCTTTTCCTCTCTTCCGCT-TTCCTTT-TCTCA
*
152072 TCTTT-TTTTCTCTTCTTC
63 -CTTTCTTCTCTCTTCTTC
* * * * *
152090 TTCTTCTTCTTCTCTTTTTCTTTGTCTTCTCTTCTTTTCCTCTCTTCCGCTTTCCTTTTCTCACT
1 TTCTTCTTC-TCTCTTTGTCTTTCTTTTCCCTCCTTTTCCTCTCTTCCGCTTTCCTTTTCTCACT
*
152155 TTCTTCTCTTTTCTTC
65 TTCTTCTCTCTTCTTC
* *
152171 GTCTTCTTCTCTTCTTTGGCTTTCTT
1 TTCTTCTTCTC-TCTTTGTCTTTCTT
152197 CTCTTTCTGC
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
80 6 0.07
81 78 0.88
82 5 0.06
ACGTcount: A:0.02, C:0.33, G:0.04, T:0.62
Consensus pattern (80 bp):
TTCTTCTTCTCTCTTTGTCTTTCTTTTCCCTCCTTTTCCTCTCTTCCGCTTTCCTTTTCTCACTT
TCTTCTCTCTTCTTC
Found at i:152105 original size:17 final size:17
Alignment explanation
Indices: 152085--152125 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
152075 TTTTTTCTCT
152085 TCTTCTTCTTCT-TCTTC
1 TCTTCTTCTT-TGTCTTC
*
152102 TCTTTTTCTTTGTCTTC
1 TCTTCTTCTTTGTCTTC
152119 TCTTCTT
1 TCTTCTT
152126 TTCCTCTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.68
Consensus pattern (17 bp):
TCTTCTTCTTTGTCTTC
Found at i:152198 original size:3 final size:3
Alignment explanation
Indices: 152082--152186 Score: 50
Period size: 3 Copynumber: 37.3 Consensus size: 3
152072 TCTTTTTTTC
*
152082 TCT TCT TCT TCT TCT TCT TC- TCT TTT TCT T-T GTCT TC- TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT
* * * * *
152125 T-T TCC TC- TCT TCC GCT T-T CCT T-T TCT CACTT TCT TC- TCT T-T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TC-T TCT TCT TCT TCT
*
152166 TCT TCG TCT TCT TC- TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT T
152187 TGGCTTTCTT
Statistics
Matches: 76, Mismatches: 13, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
2 18 0.24
3 54 0.71
4 3 0.04
5 1 0.01
ACGTcount: A:0.01, C:0.33, G:0.03, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:152204 original size:9 final size:9
Alignment explanation
Indices: 152087--152210 Score: 54
Period size: 9 Copynumber: 14.1 Consensus size: 9
152077 TTTTCTCTTC
152087 TTCTTCT-T
1 TTCTTCTCT
152095 CTTCTTCTCT
1 -TTCTTCTCT
152105 TT-TTCT-T
1 TTCTTCTCT
152112 TGTCTTCTC-
1 T-TCTTCTCT
*
152121 TTCTTTTCCT
1 TTCTTCT-CT
* *
152131 CTCTTCCGCT
1 TTCTT-CTCT
152141 TTC--CT-T
1 TTCTTCTCT
*
152147 TTC-TCACT
1 TTCTTCTCT
152155 TTCTTCTCTT
1 TTCTTCTC-T
152165 TTCTTCGTC-
1 TTCTTC-TCT
152174 TTCTTCTC-
1 TTCTTCTCT
152182 TTCTT-TGGCT
1 TTCTTCT--CT
152192 TTCTTCTCT
1 TTCTTCTCT
*
152201 TTCTGCTCT
1 TTCTTCTCT
152210 T
1 T
152211 GTTTCTTCAT
Statistics
Matches: 90, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.04
7 5 0.06
8 21 0.23
9 36 0.40
10 21 0.23
11 3 0.03
ACGTcount: A:0.01, C:0.32, G:0.05, T:0.62
Consensus pattern (9 bp):
TTCTTCTCT
Found at i:152591 original size:21 final size:21
Alignment explanation
Indices: 152567--152616 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
152557 TATTAAAAAA
*
152567 TATTTTATATTTATATTT-AT
1 TATTTTATAATTATATTTAAT
*
152587 CTATTTTACAATTATATTTAAT
1 -TATTTTATAATTATATTTAAT
152609 TATTTTAT
1 TATTTTAT
152617 TTATTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTATAATTATATTTAAT
Found at i:154090 original size:15 final size:14
Alignment explanation
Indices: 154059--154127 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 14
154049 TTAAAATATT
* *
154059 TTTATATTTATTTA
1 TTTATATTTAATAA
154073 TTTGATATTTAATAA
1 TTT-ATATTTAATAA
154088 TTTTATATATTAAT-A
1 -TTTATAT-TTAATAA
154103 TTTATAATTTTAA-AA
1 TTTAT-A-TTTAATAA
154118 TTTATATTTA
1 TTTATATTTA
154128 CATATATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
13 4 0.09
14 9 0.19
15 25 0.53
16 9 0.19
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (14 bp):
TTTATATTTAATAA
Done.