Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 51 of 325
Found at i:18595895 original size:19 final size:20
Alignment explanation
Indices: 18595859--18595899 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18595849 GTATATTAGG
*
18595859 AAAAAAATAAATTTAAATGA
1 AAAAAAATAAATTGAAATGA
*
18595879 AAAAAAATTAA-TGAAATGA
1 AAAAAAATAAATTGAAATGA
18595898 AA
1 AA
18595900 TGTTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAAAATAAATTGAAATGA
Found at i:18596014 original size:15 final size:15
Alignment explanation
Indices: 18595974--18596031 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
18595964 AATAAATTAT
18595974 AAATTGAAATGAAAACAA
1 AAATTGAAATG--AA-AA
*
18595992 AAACTGAAATGAAAA
1 AAATTGAAATGAAAA
18596007 AAATTGAAATGAGAAA
1 AAATTGAAATGA-AAA
*
18596023 TAATT-AAAT
1 AAATTGAAAT
18596032 TTAAATGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 17 0.47
16 9 0.25
18 10 0.28
ACGTcount: A:0.64, C:0.03, G:0.12, T:0.21
Consensus pattern (15 bp):
AAATTGAAATGAAAA
Found at i:18596066 original size:25 final size:24
Alignment explanation
Indices: 18596020--18596067 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
18596010 TTGAAATGAG
** *
18596020 AAATAATTAAATTTAAATGGAAAA
1 AAATAATTAAATGAAAAAGGAAAA
18596044 AAATAATTTAAATGAAAAAGGAAA
1 AAATAA-TTAAATGAAAAAGGAAA
18596068 TGTAAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (24 bp):
AAATAATTAAATGAAAAAGGAAAA
Found at i:18599998 original size:17 final size:17
Alignment explanation
Indices: 18599976--18600014 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18599966 TAAACCCCAA
18599976 TTTCTCCCTTTT-CTTTC
1 TTTCT-CCTTTTCCTTTC
*
18599993 TTTCTCGTTTTCCTTTC
1 TTTCTCCTTTTCCTTTC
18600010 TTTCT
1 TTTCT
18600015 TTCTTCCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTCTCCTTTTCCTTTC
Found at i:18600013 original size:25 final size:26
Alignment explanation
Indices: 18599985--18600044 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
18599975 ATTTCTCCCT
*
18599985 TTTCTTTCTTTCTC-GTTTTCCTTTC-
1 TTTCTTTCTTTCCCTGTTTT-CTTTCA
18600010 TTTCTTTC-TTCCCTGTTTTCTTTCA
1 TTTCTTTCTTTCCCTGTTTTCTTTCA
18600035 TTTCTATTCT
1 TTTCT-TTCT
18600045 GTTATTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 9 0.30
25 18 0.60
26 3 0.10
ACGTcount: A:0.03, C:0.27, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTCTTTCTTTCCCTGTTTTCTTTCA
Found at i:18607668 original size:39 final size:39
Alignment explanation
Indices: 18607620--18607821 Score: 325
Period size: 39 Copynumber: 5.2 Consensus size: 39
18607610 GCTCTGATGA
*
18607620 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
18607659 GCTTTAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
18607698 GCTTCAGTTAGCCTTCAGGCTTCCATTTAGCAATTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
18607737 GCTTCAGTTAGCC-TCTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATGT
*
18607776 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
18607815 GCTTCAG
1 GCTTCAG
18607822 CTAGATTTCG
Statistics
Matches: 149, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
38 2 0.01
39 145 0.97
40 2 0.01
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:18610801 original size:12 final size:11
Alignment explanation
Indices: 18610784--18610823 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
18610774 GAAAAGCAGG
18610784 GAAAGAAAGAAA
1 GAAAGAAAG-AA
*
18610796 GAAAGAAAGGA
1 GAAAGAAAGAA
18610807 GAAAAGAAAGAA
1 G-AAAGAAAGAA
18610819 GAAAG
1 GAAAG
18610824 GGAAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
GAAAGAAAGAA
Found at i:18610814 original size:20 final size:18
Alignment explanation
Indices: 18610789--18610829 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
18610779 GCAGGGAAAG
18610789 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAG-AAGAAAGG-GA
18610809 AAAGAAAGAAGAAAGGGA
1 AAAGAAAGAAGAAAGGGA
18610827 AAA
1 AAA
18610830 TTGAATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGAAAGGGA
Found at i:18612379 original size:12 final size:12
Alignment explanation
Indices: 18612362--18612386 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18612352 ACTGTTATTG
18612362 GTTACTGTTACC
1 GTTACTGTTACC
18612374 GTTACTGTTACC
1 GTTACTGTTACC
18612386 G
1 G
18612387 ATTTGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:18612492 original size:53 final size:53
Alignment explanation
Indices: 18612425--18612542 Score: 191
Period size: 53 Copynumber: 2.2 Consensus size: 53
18612415 TACTGTTACC
*
18612425 GTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAAT
1 GTTACTGTTACTGTTTCAGATCTGTTCCGATGAGGTACTCTGTGTACCGTAAT
** *
18612478 GTTACTGTTACTGTTTTGGATCTGTTCCGATGAGGTACTCTGTGTACCGTACT
1 GTTACTGTTACTGTTTCAGATCTGTTCCGATGAGGTACTCTGTGTACCGTAAT
*
18612531 GCTACTGTTACT
1 GTTACTGTTACT
18612543 ATTACTGTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (53 bp):
GTTACTGTTACTGTTTCAGATCTGTTCCGATGAGGTACTCTGTGTACCGTAAT
Found at i:18612492 original size:59 final size:58
Alignment explanation
Indices: 18612418--18612551 Score: 170
Period size: 53 Copynumber: 2.4 Consensus size: 58
18612408 ATATTGTTAC
* *
18612418 TGTTACCGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
1 TGTTACTGTTACTGTTACTGTTT-AGATCTGTTCCGATGAGGTACTCTGTGTACCGTAA
* *
18612477 TGTTACTGTTACTG----T-TTTGGATCTGTTCCGATGAGGTACTCTGTGTACCGTAC
1 TGTTACTGTTACTGTTACTGTTTAGATCTGTTCCGATGAGGTACTCTGTGTACCGTAA
* *
18612530 TGCTACTGTTACTATTACTGTT
1 TGTTACTGTTACTGTTACTGTT
18612552 CCGGCTTCGG
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
53 44 0.69
54 3 0.05
55 1 0.02
57 1 0.02
58 2 0.03
59 13 0.20
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.43
Consensus pattern (58 bp):
TGTTACTGTTACTGTTACTGTTTAGATCTGTTCCGATGAGGTACTCTGTGTACCGTAA
Found at i:18612714 original size:18 final size:18
Alignment explanation
Indices: 18612673--18612707 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18612663 GATTATTTCT
18612673 GAATAAATGACTGTTACC
1 GAATAAATGACTGTTACC
*
18612691 GAATAATTGACTGTTAC
1 GAATAAATGACTGTTAC
18612708 TGGATAACCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (18 bp):
GAATAAATGACTGTTACC
Found at i:18612774 original size:18 final size:18
Alignment explanation
Indices: 18612753--18612793 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
18612743 GGTTATTATT
* *
18612753 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
18612771 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
18612789 GAATA
1 GAATA
18612794 GATAATTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:18614853 original size:21 final size:21
Alignment explanation
Indices: 18614812--18614853 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18614802 CACTACAATA
* *
18614812 TTTCCTATCACTTCCTTTTAT
1 TTTCCTATCACTTCATATTAT
18614833 TTTCCT-TCACTATCATATTAT
1 TTTCCTATCACT-TCATATTAT
18614854 GAACATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTCCTATCACTTCATATTAT
Found at i:18616629 original size:17 final size:17
Alignment explanation
Indices: 18616607--18616645 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18616597 TAAACCCCAA
18616607 TTTCTCCCTTTT-CTTTC
1 TTTCT-CCTTTTCCTTTC
*
18616624 TTTCTCTTTTTCCTTTC
1 TTTCTCCTTTTCCTTTC
18616641 TTTCT
1 TTTCT
18616646 TTCTCCCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTCCTTTTCCTTTC
Found at i:18616659 original size:25 final size:20
Alignment explanation
Indices: 18616616--18616696 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 20
18616606 ATTTCTCCCT
18616616 TTTCTTTCTTTCTCTTTTTCC
1 TTTCTTTCTTTCTCTTTTT-C
18616637 TTTCTTTCTTTCTCCCCTGTTTTC
1 TTTCTTTCTTTCT---CT-TTTTC
* *
18616661 TTTCATTTCTATTCTGTTATTC
1 TTTC-TTTCT-TTCTCTTTTTC
*
18616683 TTTTTTTTCTTTCT
1 -TTTCTTTCTTTCT
18616697 TATGTTTCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
21 17 0.34
22 9 0.18
23 4 0.08
24 7 0.14
25 9 0.18
26 4 0.08
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTCTTTCTTTCTCTTTTTC
Found at i:18619406 original size:21 final size:21
Alignment explanation
Indices: 18619374--18619437 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
18619364 ATTATATTAT
* *
18619374 AATAAAACAAAATAAATAAAG
1 AATAAAACAAAAGAAAGAAAG
18619395 AATAAATA-AAAAGAAAGAAAG
1 AATAAA-ACAAAAGAAAGAAAG
18619416 -ATAGAAACGAAACAGAAAGAAA
1 AATA-AAAC-AAA-AGAAAGAAA
18619438 AAGAAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 4 0.11
21 19 0.53
22 4 0.11
23 9 0.25
ACGTcount: A:0.73, C:0.05, G:0.12, T:0.09
Consensus pattern (21 bp):
AATAAAACAAAAGAAAGAAAG
Found at i:18619411 original size:4 final size:4
Alignment explanation
Indices: 18619404--18619472 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
18619394 GAATAAATAA
*
18619404 AAAG AAAG AAAG ATAG AAACG AAACAG AAAG -AA- AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
*
18619453 AAAAG AAA- AAGG AAAG AAAG
1 -AAAG AAAG AAAG AAAG AAAG
18619473 GAAGGAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
3 6 0.11
4 37 0.69
5 7 0.13
6 3 0.06
7 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:18619444 original size:33 final size:34
Alignment explanation
Indices: 18619402--18619471 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
18619392 AAGAATAAAT
* * *
18619402 AAAAAGAAAGAAAGATAGAAACGAAACA-GAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
18619435 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
18619469 AAA
1 AAA
18619472 GGAAGGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.01
Consensus pattern (34 bp):
AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
Found at i:18619463 original size:29 final size:28
Alignment explanation
Indices: 18619391--18619472 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
18619381 CAAAATAAAT
* *
18619391 AAAGAATAAATAAAAAGAAAGAAAGATAG
1 AAAGAA-AAAGAAAAAGAAAGAAAGAAAG
*
18619420 AAACGAAACAGAAAGAA-AAAGAAAGAAAG
1 AAA-GAAAAAGAAA-AAGAAAGAAAGAAAG
18619449 AAAG-AAAAGAAAAAGGAAAGAAAG
1 AAAGAAAAAGAAAAA-GAAAGAAAG
18619473 GAAGGAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
26 2 0.04
27 7 0.16
28 9 0.20
29 22 0.49
30 5 0.11
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (28 bp):
AAAGAAAAAGAAAAAGAAAGAAAGAAAG
Found at i:18619483 original size:20 final size:20
Alignment explanation
Indices: 18619404--18619483 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
18619394 GAATAAATAA
* *
18619404 AAAGAAAGAAAGATAGAAACGA
1 AAAGAAAGAAA-AGAGAAA-GG
18619426 AACAGAAAGAAAA-AGAAA-G
1 AA-AGAAAGAAAAGAGAAAGG
*
18619445 AAAGAAAGAAAAGAAAAAGG
1 AAAGAAAGAAAAGAGAAAGG
* *
18619465 AAAGAAAGGAAGGAGAAAG
1 AAAGAAAGAAAAGAGAAAG
18619484 CCACTGCCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 10 0.20
19 6 0.12
20 17 0.34
21 5 0.10
22 3 0.06
23 9 0.18
ACGTcount: A:0.70, C:0.03, G:0.26, T:0.01
Consensus pattern (20 bp):
AAAGAAAGAAAAGAGAAAGG
Found at i:18620649 original size:23 final size:25
Alignment explanation
Indices: 18620623--18620669 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18620613 TATCATTCAT
*
18620623 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
18620646 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
18620670 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:18621026 original size:46 final size:44
Alignment explanation
Indices: 18620976--18621317 Score: 360
Period size: 46 Copynumber: 8.0 Consensus size: 44
18620966 TTTCATTTCA
* *
18620976 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATAC-TTTCAT-TCAGGT
* *
18621022 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATAC-TTTCAT-TCAGGT
* *
18621068 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATAC-TTTCAT-TCAGGT
*
18621114 TGCCATGGTATCTTTCAACCATGGTC-T-TAC--ACA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACTTTCATTCAGGT
*
18621152 TGCCATGGTATCTTTCAACCATGGT-TT-TAC--ACA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACTTTCATTCAGGT
*
18621190 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATAC-TTTCAT-TCAGGT
*
18621236 TGCCATGGTATCTTTCAACCATGGTC-T-TAC--ACA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACTTTCATTCAGGT
* *
18621274 TGCCATGGTATCTTCCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTATAC-TTTCAT-TCAG
18621318 AGAGCACACT
Statistics
Matches: 264, Mismatches: 15, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
38 97 0.37
39 3 0.01
40 4 0.02
41 4 0.02
43 4 0.02
44 4 0.02
45 2 0.01
46 146 0.55
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (44 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATACTTTCATTCAGGT
Found at i:18621160 original size:38 final size:38
Alignment explanation
Indices: 18621109--18621306 Score: 306
Period size: 38 Copynumber: 5.0 Consensus size: 38
18621099 CATCTCATAT
18621109 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
18621147 CAGGTTGCCATGGTATCTTTCAACCATGGTTTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18621185 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
18621230 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
18621269 CAGGTTGCCATGGTATCTTCCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18621307 TTTCATATCA
Statistics
Matches: 149, Mismatches: 3, Indels: 16
0.89 0.02 0.10
Matches are distributed among these distances:
38 106 0.71
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 1 0.01
46 33 0.22
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:18621211 original size:122 final size:122
Alignment explanation
Indices: 18621066--18621306 Score: 455
Period size: 122 Copynumber: 2.0 Consensus size: 122
18621056 TTCATGTCAC
18621066 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
* *
18621131 ACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTTTTACACACAG
66 ACCATGGTCTTACACACAGGTTGCCATGGTATCTTCCAACCATGGTCTTACACACAG
*
18621188 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
18621253 ACCATGGTCTTACACACAGGTTGCCATGGTATCTTCCAACCATGGTCTTACACA
66 ACCATGGTCTTACACACAGGTTGCCATGGTATCTTCCAACCATGGTCTTACACA
18621307 TTTCATATCA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 116 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (122 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAGGTTGCCATGGTATCTTCCAACCATGGTCTTACACACAG
Found at i:18621235 original size:84 final size:84
Alignment explanation
Indices: 18621147--18621317 Score: 324
Period size: 84 Copynumber: 2.0 Consensus size: 84
18621137 GTCTTACACA
* *
18621147 CAGGTTGCCATGGTATCTTTCAACCATGGTTTTACACACAGGTTGCCATGGTATCTTTCAACCAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTCCAACCAT
18621212 GGTCTTACACATTTCATAT
66 GGTCTTACACATTTCATAT
18621231 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTCCAACCAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTCCAACCAT
18621296 GGTCTTACACATTTCATAT
66 GGTCTTACACATTTCATAT
18621315 CAG
1 CAG
18621318 AGAGCACACT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTCCAACCAT
GGTCTTACACATTTCATAT
Found at i:18634129 original size:23 final size:25
Alignment explanation
Indices: 18634103--18634149 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18634093 TATCATTCAT
*
18634103 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
18634126 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
18634150 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:18634461 original size:46 final size:47
Alignment explanation
Indices: 18634410--18634705 Score: 294
Period size: 46 Copynumber: 6.8 Consensus size: 47
18634400 TTTGACGTGA
* * * * *
18634410 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TTTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* *
18634456 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* * *
18634502 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
18634548 TGCCATGGTATCTTTCAACCATGGTCTTA--CA----C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* *
18634586 TGCCATGGTATCTTTCAACCATGGT-TT--T-A----CACA-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* *
18634624 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
18634670 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
18634706 CATTTCAGAA
Statistics
Matches: 223, Mismatches: 13, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
36 2 0.01
37 2 0.01
38 61 0.27
39 3 0.01
41 1 0.00
42 1 0.00
44 2 0.01
45 8 0.04
46 141 0.63
47 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
Found at i:18634594 original size:38 final size:38
Alignment explanation
Indices: 18634543--18634702 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
18634533 CATCTCATAT
18634543 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
18634581 CAGGTTGCCATGGTATCTTTCAACCATGGTTTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18634619 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
18634664 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18634703 TTTCATTTCA
Statistics
Matches: 112, Mismatches: 2, Indels: 15
0.87 0.02 0.12
Matches are distributed among these distances:
38 69 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:18636449 original size:11 final size:11
Alignment explanation
Indices: 18636433--18636480 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
18636423 CTTTATATGC
18636433 TAATAAAATAA
1 TAATAAAATAA
*
18636444 TAATAAAATATCT
1 TAATAAAATA--A
* *
18636457 TATTAAAATAT
1 TAATAAAATAA
18636468 TAATAAAATAA
1 TAATAAAATAA
18636479 TA
1 TA
18636481 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:18640067 original size:39 final size:39
Alignment explanation
Indices: 18640000--18640295 Score: 486
Period size: 39 Copynumber: 7.5 Consensus size: 39
18639990 ACAAAGCATG
* * *
18640000 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
18640040 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTG
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
18640080 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
18640119 CGGGACTTAGTCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
18640158 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
18640197 CGGGACTTAGCCCGGATATAACACCAGCACGAATACCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
18640236 CGGGACTCAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
18640275 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
18640296 TTCTCCATTA
Statistics
Matches: 244, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 222 0.91
40 22 0.09
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:18642242 original size:6 final size:6
Alignment explanation
Indices: 18642231--18642269 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
18642221 AGTCCATCTA
* *
18642231 TTTTAT TTTTAT TTTTAT TTTTAT CTTTAT TTTCAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
18642270 GTCTTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:18652779 original size:53 final size:53
Alignment explanation
Indices: 18652638--18652803 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
18652628 GACGAAAAAT
* * **
18652638 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGATGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
18652690 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
18652743 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
18652797 TATGTGA
1 -ATGTGA
18652804 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 80 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:18658964 original size:32 final size:32
Alignment explanation
Indices: 18658923--18658987 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
18658913 CAAAAAAATG
18658923 TAAGACATTTAAGTTCATATATTTGTTGTGCT
1 TAAGACATTTAAGTTCATATATTTGTTGTGCT
18658955 TAAGACATTTAAGTTCATATATTTGTTGTGCT
1 TAAGACATTTAAGTTCATATATTTGTTGTGCT
18658987 T
1 T
18658988 TCGGCAGCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (32 bp):
TAAGACATTTAAGTTCATATATTTGTTGTGCT
Found at i:18665181 original size:30 final size:30
Alignment explanation
Indices: 18665133--18665191 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18665123 AACTTTTTAT
*
18665133 TTTCCCCCAAAATTTTTACTT-CTTCCCAC
1 TTTCCCCCAAAATATTTACTTCCTTCCCAC
18665162 TTTCCCCCTAAAATATTTACTTCCTTCCCA
1 TTTCCCCC-AAAATATTTACTTCCTTCCCA
18665192 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 12 0.44
31 7 0.26
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTCCCCCAAAATATTTACTTCCTTCCCAC
Found at i:18669026 original size:13 final size:13
Alignment explanation
Indices: 18669008--18669039 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18668998 GTGATTTGGT
18669008 GCCACACGGCCTG
1 GCCACACGGCCTG
*
18669021 GCCACACGGCTTG
1 GCCACACGGCCTG
18669034 GCCACA
1 GCCACA
18669040 TGATTATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.44, G:0.28, T:0.09
Consensus pattern (13 bp):
GCCACACGGCCTG
Found at i:18671069 original size:23 final size:23
Alignment explanation
Indices: 18671016--18671070 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
18671006 ATGCATACAT
18671016 ACATATATCACTCATACTCATATC
1 ACATATAT-ACTCATACTCATATC
*
18671040 ACA-ATATACTTCATTCTCATA-C
1 ACATATATAC-TCATACTCATATC
*
18671062 CCATATATA
1 ACATATATA
18671071 AGTTGGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 19 0.70
24 3 0.11
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (23 bp):
ACATATATACTCATACTCATATC
Found at i:18671615 original size:21 final size:21
Alignment explanation
Indices: 18671542--18671655 Score: 117
Period size: 21 Copynumber: 5.5 Consensus size: 21
18671532 CCTCCCAATT
18671542 GAGC-GAACAGAAGCTCG-AA
1 GAGCTGAACAGAAGCTCGTAA
* *
18671561 -AGCTAAATAGAAGCTCGTAAA
1 GAGCTGAACAGAAGCTCGT-AA
* * *
18671582 GAGCTAAACAGAAACTCATAA
1 GAGCTGAACAGAAGCTCGTAA
* * *
18671603 GAGTTGAATAGAAGCTTGTAA
1 GAGCTGAACAGAAGCTCGTAA
18671624 GAGCTGAACAGAAGCTCGTAA
1 GAGCTGAACAGAAGCTCGTAA
*
18671645 GAGCTAAACAG
1 GAGCTGAACAG
18671656 CAAGTAAAAC
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
18 3 0.04
19 11 0.14
21 47 0.62
22 15 0.20
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGCTGAACAGAAGCTCGTAA
Found at i:18674060 original size:17 final size:17
Alignment explanation
Indices: 18674038--18674074 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18674028 ACTGGAATAA
18674038 AATGTGACGATTTAGCC
1 AATGTGACGATTTAGCC
*
18674055 AATGTGTCGATTTAGCC
1 AATGTGACGATTTAGCC
18674072 AAT
1 AAT
18674075 CTGTCAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (17 bp):
AATGTGACGATTTAGCC
Found at i:18674079 original size:17 final size:17
Alignment explanation
Indices: 18674045--18674079 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18674035 TAAAATGTGA
*
18674045 CGATTTAGCCAATGTGT
1 CGATTTAGCCAATCTGT
18674062 CGATTTAGCCAATCTGT
1 CGATTTAGCCAATCTGT
18674079 C
1 C
18674080 AACAATCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (17 bp):
CGATTTAGCCAATCTGT
Found at i:18674496 original size:14 final size:15
Alignment explanation
Indices: 18674477--18674506 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18674467 TCTTTTTGTC
18674477 TTTATTTATT-TTAT
1 TTTATTTATTATTAT
18674491 TTTATTTATTATTAT
1 TTTATTTATTATTAT
18674506 T
1 T
18674507 AATTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTATTATTAT
Found at i:18674535 original size:22 final size:24
Alignment explanation
Indices: 18674510--18674565 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
18674500 TATTATTAAT
*
18674510 TTTAAAAT-TTTTGA-AATATATA
1 TTTAAAATATTTTAATAATATATA
18674532 TTTAAAATATTTTAATAATATATA
1 TTTAAAATATTTTAATAATATATA
*
18674556 TTTTAAATAT
1 TTTAAAATAT
18674566 ATATTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 8 0.27
23 5 0.17
24 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAATATTTTAATAATATATA
Found at i:18674572 original size:13 final size:13
Alignment explanation
Indices: 18674518--18674590 Score: 64
Period size: 13 Copynumber: 5.6 Consensus size: 13
18674508 ATTTTAAAAT
18674518 TTTTGAAATATATA
1 TTTT-AAATATATA
18674532 -TTTAAA-ATAT-
1 TTTTAAATATATA
*
18674542 TTTAATAATATATA
1 TTTTA-AATATATA
18674556 TTTTAAATATATA
1 TTTTAAATATATA
*
18674569 TTTTGAAAT-TACTT
1 TTTT-AAATATA-TA
18674583 TTTTAAAT
1 TTTTAAAT
18674591 TTTAAATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
11 7 0.14
12 5 0.10
13 25 0.50
14 13 0.26
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (13 bp):
TTTTAAATATATA
Found at i:18674606 original size:13 final size:12
Alignment explanation
Indices: 18674509--18674590 Score: 55
Period size: 13 Copynumber: 6.7 Consensus size: 12
18674499 TTATTATTAA
18674509 TTTTAAA-AT-T
1 TTTTAAATATAT
*
18674519 TTTGAAATATAT
1 TTTTAAATATAT
*
18674531 ATTTAAA-ATAT
1 TTTTAAATATAT
*
18674542 TTTAATAATATAT
1 TTTTA-AATATAT
18674555 ATTTTAAATATAT
1 -TTTTAAATATAT
18674568 ATTTTGAAAT-TACTT
1 -TTTT-AAATATA--T
18674583 TTTTAAAT
1 TTTTAAAT
18674591 TTTAAATATT
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
10 6 0.10
11 9 0.16
12 8 0.14
13 22 0.38
14 12 0.21
15 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (12 bp):
TTTTAAATATAT
Found at i:18674606 original size:22 final size:21
Alignment explanation
Indices: 18674568--18674622 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
18674558 TTAAATATAT
*
18674568 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTACTTTTTT-A
*
18674589 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTACTTTTTTA
18674610 ATATTTAAATATT
1 AT-TTTAAATATT
18674623 TTAAACTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTTA
Found at i:18674733 original size:11 final size:14
Alignment explanation
Indices: 18674688--18674726 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
18674678 TTTTATAATA
18674688 TTTTAAATTATGAT
1 TTTTAAATTATGAT
18674702 TTTTAAATTATGAT
1 TTTTAAATTATGAT
18674716 TTTTAAATTAT
1 TTTTAAATTAT
18674727 TTTTAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
TTTTAAATTATGAT
Found at i:18675033 original size:18 final size:19
Alignment explanation
Indices: 18675010--18675052 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
18675000 AAATAAAAAA
18675010 TATTTGTTAAAAAAT-ATT
1 TATTTGTTAAAAAATAATT
18675028 TATTTGTTAAAAAATGAATT
1 TATTTGTTAAAAAAT-AATT
18675048 TATTT
1 TATTT
18675053 AAAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 15 0.65
20 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
TATTTGTTAAAAAATAATT
Found at i:18675107 original size:20 final size:19
Alignment explanation
Indices: 18675070--18675109 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18675060 ATATATATTA
*
18675070 AAAAGTAAAAATTTAAATT
1 AAAAGTAAAAATTAAAATT
*
18675089 AAAAGTTAAAAGTTAAAATT
1 AAAAG-TAAAAATTAAAATT
18675109 A
1 A
18675110 TATATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAAGTAAAAATTAAAATT
Found at i:18675585 original size:20 final size:20
Alignment explanation
Indices: 18675560--18675626 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
18675550 TTATAGTTTT
18675560 TAAATTTTAGTACACATTTA
1 TAAATTTTAGTACACATTTA
* *
18675580 TAAATTTATA-TATTA-ATTTT
1 TAAATTT-TAGTA-CACATTTA
* *
18675600 TTAATTTTAGTACACATTCA
1 TAAATTTTAGTACACATTTA
18675620 TAAATTT
1 TAAATTT
18675627 ATGTACTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
19 3 0.08
20 30 0.83
21 3 0.08
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (20 bp):
TAAATTTTAGTACACATTTA
Found at i:18675611 original size:40 final size:41
Alignment explanation
Indices: 18675556--18675637 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
18675546 TTGGTTATAG
*
18675556 TTTTTAAATTTTAGTACACATTTATAAATTTATATA-TTAA
1 TTTTTAAATTTTAGTACACATTCATAAATTTATATACTTAA
* *
18675596 TTTTTTAATTTTAGTACACATTCATAAATTTATGTACTTAA
1 TTTTTAAATTTTAGTACACATTCATAAATTTATATACTTAA
18675637 T
1 T
18675638 ATATATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 33 0.87
41 5 0.13
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (41 bp):
TTTTTAAATTTTAGTACACATTCATAAATTTATATACTTAA
Found at i:18675648 original size:40 final size:40
Alignment explanation
Indices: 18675562--18675648 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
18675552 ATAGTTTTTA
* * *
18675562 AATTTTAGTACACATTTATAAATTTATATATTAATTTTTT
1 AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
*
18675602 AATTTTAGTACACATTCATAAATTTATGTACTTAA-TATAT
1 AATTTTAGTACACATTCATAAATTTATATA-TTAATTATAT
*
18675642 ATTTTTA
1 AATTTTA
18675649 ATAGATAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (40 bp):
AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
Found at i:18675772 original size:19 final size:19
Alignment explanation
Indices: 18675748--18675788 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18675738 GAATTTTAAA
* * *
18675748 ATTTTAATATATTTAATAT
1 ATTTTAAAAAATTAAATAT
18675767 ATTTTAAAAAATTAAATAT
1 ATTTTAAAAAATTAAATAT
18675786 ATT
1 ATT
18675789 AAAAATGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTAAAAAATTAAATAT
Found at i:18675784 original size:69 final size:70
Alignment explanation
Indices: 18675700--18675840 Score: 203
Period size: 69 Copynumber: 2.0 Consensus size: 70
18675690 GTTTAAAAAC
* * * * * *
18675700 TTAAAGAAATTAAATATATTAAAAACGTTATGTATAGCGAATTTTAAAATTTTAATATATTTAAT
1 TTAAAGAAATTAAATATATTAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
18675765 ATATT
66 ATATT
*
18675770 TTAAA-AAATTAAATATATTAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
1 TTAAAGAAATTAAATATATTAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
*
18675834 TTATT
66 ATATT
18675839 TT
1 TT
18675841 TTAAAATATA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
69 58 0.92
70 5 0.08
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.43
Consensus pattern (70 bp):
TTAAAGAAATTAAATATATTAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
ATATT
Found at i:18675790 original size:17 final size:18
Alignment explanation
Indices: 18675760--18675793 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18675750 TTTAATATAT
*
18675760 TTAATATATTTTAAAAAA
1 TTAATATATATTAAAAAA
18675778 TTAA-ATATATTAAAAA
1 TTAATATATATTAAAAA
18675794 TGTTAAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAATATATATTAAAAAA
Found at i:18678011 original size:30 final size:30
Alignment explanation
Indices: 18677975--18678078 Score: 127
Period size: 30 Copynumber: 3.5 Consensus size: 30
18677965 GTCGCAGAGC
* * *
18677975 AGTTCATATCACTCGGACATTGCCGGTTCA
1 AGTTCATATCACCCGGACATAGGCGGTTCA
* *
18678005 AGTTCATATCACCCGGGCATAGGCAGTTCA
1 AGTTCATATCACCCGGACATAGGCGGTTCA
* * *
18678035 AGTTCGTATCACCCAGACATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGCGGTTCA
*
18678065 AGTTCATTTCACCC
1 AGTTCATATCACCC
18678079 AGAGCAACCA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGCGGTTCA
Found at i:18681965 original size:28 final size:28
Alignment explanation
Indices: 18681931--18682005 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
18681921 TTTGAATATC
*
18681931 TTTAAAATTAAATTTAAATTT--AATAA
1 TTTAAAATTAAATTTAAATTTAAAAAAA
* *
18681957 TTTATAAAATATATTTAAAATTTAAAAAAA
1 TTTA-AAATTAAATTT-AAATTTAAAAAAA
18681987 TTTAAAATATAAATTTAAA
1 TTTAAAAT-TAAATTTAAA
18682006 ATATTATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 4 0.10
27 9 0.23
28 6 0.15
29 6 0.15
30 14 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTAAAATTAAATTTAAATTTAAAAAAA
Found at i:18681991 original size:17 final size:17
Alignment explanation
Indices: 18681946--18681999 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 17
18681936 AATTAAATTT
18681946 AAATTTAATAATTTATAAA
1 AAATTTAA-AATTTA-AAA
18681965 ATATATTTAAAATTTAAAA
1 A-A-ATTTAAAATTTAAAA
*
18681984 AAATTTAAAATATAAA
1 AAATTTAAAATTTAAA
18682000 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 13 0.41
18 1 0.03
19 5 0.16
20 7 0.22
21 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTAAAATTTAAAA
Found at i:18682002 original size:13 final size:13
Alignment explanation
Indices: 18681984--18682009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18681974 AAATTTAAAA
18681984 AAATTTAAAATAT
1 AAATTTAAAATAT
18681997 AAATTTAAAATAT
1 AAATTTAAAATAT
18682010 TATAAAACAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:18682086 original size:23 final size:23
Alignment explanation
Indices: 18682044--18682144 Score: 93
Period size: 24 Copynumber: 4.3 Consensus size: 23
18682034 ATGTCATATC
* * *
18682044 TTTAAAATAATATATTTTAAATTA
1 TTTAAAATCATA-ATTTAAAATAA
18682068 TTTCAAAATCATAATTTAAAATAA
1 TTT-AAAATCATAATTTAAAATAA
18682092 TTTAAAATCATAA-TTAAAA-AA
1 TTTAAAATCATAATTTAAAATAA
*
18682113 TTATAAAA-CA-AATTAAAATATACA
1 TT-TAAAATCATAATTTAAA-ATA-A
18682137 TTTAAAAT
1 TTTAAAAT
18682145 ATTATAAAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
20 2 0.03
21 10 0.15
22 12 0.18
23 16 0.24
24 18 0.27
25 8 0.12
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
TTTAAAATCATAATTTAAAATAA
Found at i:18682104 original size:13 final size:13
Alignment explanation
Indices: 18682067--18682110 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
18682057 ATTTTAAATT
18682067 ATTTCAAAATCATA
1 ATTT-AAAATCATA
18682081 ATTT-AAA--ATA
1 ATTTAAAATCATA
18682091 ATTTAAAATCATA
1 ATTTAAAATCATA
18682104 A-TTAAAA
1 ATTTAAAA
18682111 AATTATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 9 0.33
13 4 0.15
14 4 0.15
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTTAAAATCATA
Found at i:18682214 original size:10 final size:9
Alignment explanation
Indices: 18682175--18682249 Score: 50
Period size: 9 Copynumber: 8.1 Consensus size: 9
18682165 TTAAAAGGTC
18682175 ATATCTTTAA
1 ATAT-TTTAA
18682185 A-ATATTTAA
1 ATAT-TTTAA
18682194 ATATTTT--
1 ATATTTTAA
18682201 ATATTATTAA
1 ATATT-TTAA
*
18682211 ATATTTTTA
1 ATATTTTAA
*
18682220 ATATTTAAAA
1 ATATTT-TAA
18682230 ATAATATTTAA
1 AT-AT-TTTAA
18682241 AT-TTTTAA
1 ATATTTTAA
18682249 A
1 A
18682250 CAATGATTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
7 5 0.09
8 8 0.15
9 21 0.40
10 11 0.21
11 6 0.11
12 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (9 bp):
ATATTTTAA
Found at i:18682227 original size:17 final size:18
Alignment explanation
Indices: 18682175--18682228 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
18682165 TTAAAAGGTC
*
18682175 ATATCTTTAAAATATTTAA
1 ATAT-TTTATAATATTTAA
*
18682194 ATATTTTATATTA-TTAA
1 ATATTTTATAATATTTAA
18682211 ATATTTT-TAATATTTAA
1 ATATTTTATAATATTTAA
18682228 A
1 A
18682229 AATAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 4 0.13
17 16 0.52
18 7 0.23
19 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTTTATAATATTTAA
Found at i:18682262 original size:33 final size:33
Alignment explanation
Indices: 18682222--18682325 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 33
18682212 TATTTTTAAT
* * *
18682222 ATTTAAAAATAATATTTAAATTTTTA-AACAATG
1 ATTTAAAAATAATATTTAAA-ATTTAGAAAAATA
*
18682255 ATTTAAAAGTAATATTTAAAATTTAGAAAAATA
1 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
* *
18682288 ATTTTAAATATATATATTTAAAACTTA-AAAAAT-
1 A-TTTAAAAATA-ATATTTAAAATTTAGAAAAATA
18682321 ATTTA
1 ATTTA
18682326 TTATAAAACA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
32 8 0.13
33 26 0.43
34 14 0.23
35 13 0.21
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTAGAAAAATA
Found at i:18682405 original size:24 final size:24
Alignment explanation
Indices: 18682361--18682429 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
18682351 TCAAGTTTTT
*
18682361 TAAAATTAATAATAAGAAAATAAA-A
1 TAAAA-TAAAAATAA-AAAATAAAGA
18682386 TAAAATAAAAATAAATAAATAAAGA
1 TAAAATAAAAATAAA-AAATAAAGA
*
18682411 TAAAGAAAAAAATAAAAAA
1 TAAA-ATAAAAATAAAAAA
18682430 ATGTCAGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 1 0.03
24 15 0.38
25 13 0.33
26 10 0.26
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (24 bp):
TAAAATAAAAATAAAAAATAAAGA
Found at i:18682407 original size:8 final size:8
Alignment explanation
Indices: 18682371--18682431 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
18682361 TAAAATTAAT
*
18682371 AATAAGAA
1 AATAAAAA
18682379 AATAAAATA
1 AATAAAA-A
*
18682388 AA-ATAAA
1 AATAAAAA
*
18682395 AATAAATA
1 AATAAAAA
18682403 AATAAAGATA
1 AATAAA-A-A
*
18682413 AAGAAAAA
1 AATAAAAA
18682421 AATAAAAA
1 AATAAAAA
18682429 AAT
1 AAT
18682432 GTCAGAGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
7 3 0.07
8 29 0.69
9 4 0.10
10 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (8 bp):
AATAAAAA
Found at i:18682429 original size:10 final size:10
Alignment explanation
Indices: 18682377--18682430 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
18682367 TAATAATAAG
*
18682377 AAAATAAAAT
1 AAAATAAAAA
18682387 AAAATAAAAA
1 AAAATAAAAA
* *
18682397 TAAATAAATA
1 AAAATAAAAA
*
18682407 AAGATAAAGAAA
1 AAAAT-AA-AAA
18682419 AAAATAAAAA
1 AAAATAAAAA
18682429 AA
1 AA
18682431 TGTCAGAGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
10 25 0.71
11 4 0.11
12 6 0.17
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:18682517 original size:20 final size:20
Alignment explanation
Indices: 18682464--18682528 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
18682454 AAAAAAAGTA
*
18682464 AAAAAATTAAAAATATATATT
1 AAAAATTTAAAAATA-ATATT
* **
18682485 TAATGTTTAAAAAATAATATT
1 AAAAATTT-AAAAATAATATT
18682506 AAAAATTTAAAAATAAT-TT
1 AAAAATTTAAAAATAATATT
18682525 AAAA
1 AAAA
18682529 TAATATTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 6 0.17
20 9 0.25
21 14 0.39
22 7 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTTAAAAATAATATT
Found at i:18682754 original size:20 final size:21
Alignment explanation
Indices: 18682716--18682776 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
18682706 CATGGTGTGA
* *
18682716 TTTTATAATATATAGTTTTAAC
1 TTTT-TAATATAAATTTTTAAC
*
18682738 -TTTTAATTTAAATTTTT-AC
1 TTTTTAATATAAATTTTTAAC
*
18682757 TTTTTAATATATATTTTTAA
1 TTTTTAATATAAATTTTTAA
18682777 ATAAATTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 26 0.81
21 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTAATATAAATTTTTAAC
Found at i:18682810 original size:19 final size:20
Alignment explanation
Indices: 18682775--18682817 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
18682765 ATATATTTTT
*
18682775 AAATAAATTTATTTTTTAAC
1 AAATAAATCTATTTTTTAAC
18682795 AAATAAATCT-TTTTTTAAC
1 AAATAAATCTATTTTTTAAC
18682814 AAAT
1 AAAT
18682818 CTTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAAATCTATTTTTTAAC
Found at i:18683266 original size:20 final size:22
Alignment explanation
Indices: 18683232--18683273 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
18683222 TTTAAAAAGT
*
18683232 AATTTCAAAATATATAT-TTAA
1 AATTTCAAAAAATATATATTAA
18683253 AATTT-AAAAAATATATATTAA
1 AATTTCAAAAAATATATATTAA
18683274 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTCAAAAAATATATATTAA
Found at i:18683286 original size:34 final size:32
Alignment explanation
Indices: 18683196--18683287 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 32
18683186 AAAATATTTA
*
18683196 AATATTAAAAAAATAATATTTAAAATTTTAAAAAGT
1 AATATT-AAAAAAT-AT-TTTAAAA-TTTAAAAAAT
*
18683232 AAT-TTCAAAATATATATTTAAAATTTAAAAAAT
1 AATATT-AAAAAATAT-TTTAAAATTTAAAAAAT
18683265 ATATATTAATAAAATATTTTAAA
1 A-ATATTAA-AAAATATTTTAAA
18683288 TATATATTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
33 10 0.20
34 20 0.41
35 16 0.33
36 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (32 bp):
AATATTAAAAAATATTTTAAAATTTAAAAAAT
Found at i:18683302 original size:24 final size:23
Alignment explanation
Indices: 18683232--18683324 Score: 77
Period size: 24 Copynumber: 4.0 Consensus size: 23
18683222 TTTAAAAAGT
*
18683232 AATTTCAAAATATATATT--TAA
1 AATTTTAAAATATATATTAATAA
*
18683253 AATTTAAAAAATATATATTAATAA
1 AATTT-TAAAATATATATTAATAA
* *
18683277 AATATTTTAAATATATATTTCA-AA
1 AAT-TTTAAAATATATA-TTAATAA
*
18683301 AATTTTAAAAT-TAATAATAATAA
1 AATTTTAAAATAT-ATATTAATAA
18683324 A
1 A
18683325 TAAAATAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
21 5 0.09
22 15 0.26
23 13 0.22
24 20 0.34
25 5 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTTTAAAATATATATTAATAA
Found at i:18683305 original size:22 final size:21
Alignment explanation
Indices: 18683239--18683309 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 21
18683229 AGTAATTTCA
*
18683239 AAATATATATTT-AAAATTTAAA
1 AAATATATATTTAAAAATTT--T
18683261 AAATATATATTAATAAAATATTTT
1 AAATATATATT--TAAAA-ATTTT
18683285 AAATATATATTTCAAAAATTTT
1 AAATATATATTT-AAAAATTTT
18683307 AAA
1 AAA
18683310 ATTAATAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
22 20 0.47
23 4 0.09
24 12 0.28
25 3 0.07
26 4 0.09
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATATATTTAAAAATTTT
Found at i:18683308 original size:56 final size:53
Alignment explanation
Indices: 18683186--18683323 Score: 138
Period size: 56 Copynumber: 2.5 Consensus size: 53
18683176 TTGAAAGTTT
18683186 AAAATATTTAAATATTAAAAAAATAATATTTAAAATTTTAAAAAGTAATTTCAA
1 AAAATATTTAAA-ATTAAAAAAATAATATTTAAAATTTTAAAAAGTAATTTCAA
* *
18683240 AATATATATTTAAAATTTAAAAAATATATATTAATAAAATATTTTAAATA-TATATTTC-A
1 AA-A-ATATTTAAAATTAAAAAAATA-ATATT--T-AAA-ATTTTAAAAAGTA-ATTTCAA
*
18683299 AAAAT-TTTAAAATTAATAATAATAA
1 AAAATATTTAAAATTAA-AAAAATAA
18683324 ATAAAATAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
54 2 0.03
55 12 0.17
56 25 0.35
57 8 0.11
58 2 0.03
59 8 0.11
60 14 0.20
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (53 bp):
AAAATATTTAAAATTAAAAAAATAATATTTAAAATTTTAAAAAGTAATTTCAA
Found at i:18683334 original size:46 final size:46
Alignment explanation
Indices: 18683239--18683335 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 46
18683229 AGTAATTTCA
* ***
18683239 AAATATATATTTAAAATTTAAAAAATATATATTAATAAAATATTTT
1 AAATATATATTTAAAATTTAAAAAATATATAATAATAAAATAAAAT
* *
18683285 AAATATATATTTCAAAAATTTTAAAATTA-ATAATAAT-AAATAAAAT
1 AAATATATATTT--AAAATTTAAAAAATATATAATAATAAAATAAAAT
18683331 AAATA
1 AAATA
18683336 AATAAAGACA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
46 23 0.53
47 7 0.16
48 13 0.30
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (46 bp):
AAATATATATTTAAAATTTAAAAAATATATAATAATAAAATAAAAT
Found at i:18686559 original size:38 final size:38
Alignment explanation
Indices: 18686465--18686639 Score: 215
Period size: 38 Copynumber: 4.6 Consensus size: 38
18686455 CGAGGTATAA
* * *
18686465 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTACGGGA-TTT
* * * *
18686504 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
*
18686543 AACCCAGATATAATACCAGCACGAAGCCTACAGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
* * *
18686581 AACCCGGATATATTACCAGCACAAAGCCTACGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
* *
18686619 AACCCGGATATAATTCCAGCA
1 AACCCAGATATAATACCAGCA
18686640 TATAGCCTGC
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
38 86 0.74
39 3 0.03
40 28 0.24
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
Found at i:18686647 original size:38 final size:38
Alignment explanation
Indices: 18686474--18686668 Score: 212
Period size: 38 Copynumber: 5.0 Consensus size: 38
18686464 AAACCCAAAC
* * * *
18686474 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACTAAGCCTACGGGA-TTT-AACCCGGAT
* * *
18686514 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCAGAT
1 ATAATACCAGCACTAAGCCTACGGGATTTAACCCGGAT
* *
18686552 ATAATACCAGCACGAAGCCTACAGGATTTAACCCGGAT
1 ATAATACCAGCACTAAGCCTACGGGATTTAACCCGGAT
* *
18686590 ATATTACCAGCACAAAGCCTACGGGATTTAACCCGGAT
1 ATAATACCAGCACTAAGCCTACGGGATTTAACCCGGAT
* * *
18686628 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACTA-AGCCTACGGG-ATTTAA-CCCGGAT
18686668 A
1 A
18686669 CACATCAAAT
Statistics
Matches: 134, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 95 0.71
39 8 0.06
40 30 0.22
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACTAAGCCTACGGGATTTAACCCGGAT
Found at i:18692654 original size:46 final size:46
Alignment explanation
Indices: 18692604--18692732 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
18692594 TGATTGAGCA
*
18692604 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
18692650 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
18692696 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18692733 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 2 0.03
46 74 0.97
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:18694860 original size:15 final size:16
Alignment explanation
Indices: 18694842--18694874 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18694832 TGGATTTTTA
18694842 TTTTGTTATTTT-GTT
1 TTTTGTTATTTTGGTT
*
18694857 TTTTTTTATTTTGGTT
1 TTTTGTTATTTTGGTT
18694873 TT
1 TT
18694875 GGTATGAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (16 bp):
TTTTGTTATTTTGGTT
Found at i:18697991 original size:21 final size:21
Alignment explanation
Indices: 18697953--18698083 Score: 124
Period size: 21 Copynumber: 6.3 Consensus size: 21
18697943 GGCATGAGCC
*
18697953 AACAGAAGCTCG--AAAGCTG
1 AACAGAAGCTCGTAAAAGCTA
*
18697972 AACAGAAGCTTGTAAAAGCTA
1 AACAGAAGCTCGTAAAAGCTA
* * * * *
18697993 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAAAGCTA
*
18698014 AACAGAAGCTC-AAAAGAGCTA
1 AACAGAAGCTCGTAAA-AGCTA
* *
18698035 AACAAAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAAAGCTA
* *
18698056 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAAAGCTA
18698077 AACAGAA
1 AACAGAA
18698084 AGTAAAACAC
Statistics
Matches: 89, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
19 11 0.12
20 2 0.02
21 74 0.83
22 2 0.02
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAAAGCTA
Found at i:18698056 original size:63 final size:61
Alignment explanation
Indices: 18697953--18698083 Score: 154
Period size: 63 Copynumber: 2.1 Consensus size: 61
18697943 GGCATGAGCC
* * * * * *
18697953 AACAGAAGCTCGAAAGCTGAACAGAAGCTTGTAAAAGCTAAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCAAAAGCTAAACAAAAGCTCGTAAAAGCTAAACAGAAACTCATAAGAGCTA
* * * *
18698014 AACAGAAGCTCAAAAGAGCTAAACAAAAGCTCGTAAGAGCTAAATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTC-AAA-AGCTAAACAAAAGCTCGTAAAAGCTAAACAGAAACTCATAAGAGCTA
18698077 AACAGAA
1 AACAGAA
18698084 AGTAAAACAC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 11 0.19
62 2 0.03
63 45 0.78
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.15
Consensus pattern (61 bp):
AACAGAAGCTCAAAAGCTAAACAAAAGCTCGTAAAAGCTAAACAGAAACTCATAAGAGCTA
Found at i:18698512 original size:76 final size:76
Alignment explanation
Indices: 18698386--18698539 Score: 245
Period size: 76 Copynumber: 2.0 Consensus size: 76
18698376 TTTTTCCTTT
* *
18698386 TTCACGAGTTTCTACGGGATCTTAATTTAAAATATAAAATTATTCTTTCATCAGCATATATTTCA
1 TTCACGAGTTTCTACAGGATCTTAATTTAAAATATAAAATTATTCATTCATCAGCATATATTTCA
18698451 CTTATAATTCA
66 CTTATAATTCA
* * * * *
18698462 TTCACGAGTTTCTCCAGGATTTTGATTTAAAATTTAAAATTATTCATTCATTAGCATATATTTCA
1 TTCACGAGTTTCTACAGGATCTTAATTTAAAATATAAAATTATTCATTCATCAGCATATATTTCA
18698527 CTTATAATTCA
66 CTTATAATTCA
18698538 TT
1 TT
18698540 TCACAATTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (76 bp):
TTCACGAGTTTCTACAGGATCTTAATTTAAAATATAAAATTATTCATTCATCAGCATATATTTCA
CTTATAATTCA
Found at i:18701657 original size:45 final size:45
Alignment explanation
Indices: 18701594--18701680 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
18701584 AGGACATAAA
18701594 TTATTTATAACTATACCACTGATTAATTGACCCCTTTTTATTATT
1 TTATTTATAACTATACCACTGATTAATTGACCCCTTTTTATTATT
18701639 TTATTTATAACTATACCACTGATTAATTGACCCCTTTTTATT
1 TTATTTATAACTATACCACTGATTAATTGACCCCTTTTTATT
18701681 GTAAATCCAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (45 bp):
TTATTTATAACTATACCACTGATTAATTGACCCCTTTTTATTATT
Found at i:18715626 original size:25 final size:27
Alignment explanation
Indices: 18715573--18715632 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
18715563 TTATGTTTTA
* *
18715573 TTTATATTTTTTTATTATACATTCA-T
1 TTTATATTTTTTAATTATACATGCATT
18715599 TTTATATTTTTTAATT-TACATGCATT
1 TTTATATTTTTTAATTATACATGCATT
18715625 TTTATATT
1 TTTATATT
18715633 CGTTCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 24 0.77
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTATATTTTTTAATTATACATGCATT
Found at i:18715641 original size:26 final size:25
Alignment explanation
Indices: 18715590--18715641 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
18715580 TTTTTTATTA
* **
18715590 TACATTCATTTTATATTTTTTAATT
1 TACATGCATTTTATATTCGTTAATT
*
18715615 TACATGCATTTTTATATTCGTTCATT
1 TACATGCA-TTTTATATTCGTTAATT
18715641 T
1 T
18715642 TGTTTTATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.60
Consensus pattern (25 bp):
TACATGCATTTTATATTCGTTAATT
Found at i:18715902 original size:3 final size:3
Alignment explanation
Indices: 18715756--18715883 Score: 86
Period size: 3 Copynumber: 42.3 Consensus size: 3
18715746 GTAAATTTAA
* * *
18715756 TAT TAT CTAT TAT TAT TAT TAT TAT CAT T-T ATAT TCAT CAT CAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT TAT TAT
* * * * *
18715803 TGT TAT TAC TAT TAT TAT TAT T-T T-T TAC CAC TAT TAT T-T ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
18715846 TCAC TAT T-T CTAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 T-AT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18715884 TTAAATCACT
Statistics
Matches: 101, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
2 7 0.07
3 84 0.83
4 10 0.10
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:18716272 original size:12 final size:12
Alignment explanation
Indices: 18716231--18716287 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
18716221 TTTAAAATAT
18716231 TTATTACTTA-TA
1 TTATTA-TTATTA
*
18716243 TTATTACTATTA
1 TTATTATTATTA
**
18716255 AAATTATTATTA
1 TTATTATTATTA
*
18716267 TTATTATCATTA
1 TTATTATTATTA
*
18716279 TTATCATTA
1 TTATTATTA
18716288 CTGTACTATC
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 2 0.06
12 33 0.94
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:18716278 original size:9 final size:9
Alignment explanation
Indices: 18716257--18716287 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18716247 TACTATTAAA
*
18716257 ATTATTATT
1 ATTATTATC
18716266 ATTATTATC
1 ATTATTATC
18716275 ATTATTATC
1 ATTATTATC
18716284 ATTA
1 ATTA
18716288 CTGTACTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATTATC
Found at i:18716406 original size:18 final size:17
Alignment explanation
Indices: 18716358--18716400 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
18716348 TAATTCTAAA
18716358 TATTTCTTAGTTTATTCAT
1 TATTTCTT--TTTATTCAT
18716377 TATTTCCTTTTTATTCATT
1 TATTT-CTTTTTATTCA-T
18716396 TATTT
1 TATTT
18716401 TATTTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTCTTTTTATTCAT
Found at i:18716406 original size:19 final size:18
Alignment explanation
Indices: 18716368--18716431 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
18716358 TATTTCTTAG
*
18716368 TTTATTCATTATTTCCTT
1 TTTATTCATTATTTCATT
*
18716386 TTTATTCATTTATTTTATT
1 TTTATTCA-TTATTTCATT
* *
18716405 TTTGTTC-TTATCATCATT
1 TTTATTCATTAT-TTCATT
*
18716423 ATTATTCAT
1 TTTATTCAT
18716432 ATTCATCTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
17 4 0.11
18 17 0.47
19 15 0.42
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTATTCATTATTTCATT
Found at i:18726280 original size:16 final size:16
Alignment explanation
Indices: 18726259--18726291 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18726249 TTCAAGTCAT
18726259 CGCAACTCTTTTGTCC
1 CGCAACTCTTTTGTCC
18726275 CGCAACTCTTTTGTCC
1 CGCAACTCTTTTGTCC
18726291 C
1 C
18726292 CACTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.39, G:0.12, T:0.36
Consensus pattern (16 bp):
CGCAACTCTTTTGTCC
Found at i:18730265 original size:23 final size:23
Alignment explanation
Indices: 18730199--18730265 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
18730189 TATAAGAAAA
*
18730199 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
18730219 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
18730242 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
18730265 A
1 A
18730266 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:18730280 original size:44 final size:44
Alignment explanation
Indices: 18730226--18730312 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
18730216 ATTAGTATAT
18730226 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
18730270 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
18730313 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:18730297 original size:15 final size:14
Alignment explanation
Indices: 18730224--18730352 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
18730214 ATATTAGTAT
*
18730224 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
18730237 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
18730253 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
18730267 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
18730282 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
18730297 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
18730311 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
18730326 ATAAATATAAATAG
1 ATAAATAAAAATAG
18730340 A-AACATAAAAATA
1 ATAA-ATAAAAATA
18730353 ATAGCAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:18730302 original size:29 final size:28
Alignment explanation
Indices: 18730245--18730352 Score: 73
Period size: 29 Copynumber: 3.8 Consensus size: 28
18730235 TAAAAATATA
* * *
18730245 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
18730274 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
18730303 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
18730332 ATAAATAGAAACATAAAAATA
1 ATAAATAGAAACATAAAAATA
18730353 ATAGCAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:18735032 original size:46 final size:46
Alignment explanation
Indices: 18734980--18735108 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
18734970 TGTAACCCGC
* *
18734980 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
18735026 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
18735072 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
18735109 TGCCCAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:18736774 original size:9 final size:9
Alignment explanation
Indices: 18736760--18736809 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
18736750 TTTATACAAA
18736760 TAATTCGGT
1 TAATTCGGT
18736769 TAATTCGGT
1 TAATTCGGT
* *
18736778 TAATTTGGG
1 TAATTCGGT
*
18736787 TAATTCGGG
1 TAATTCGGT
*
18736796 TAAGTCGGT
1 TAATTCGGT
18736805 TAATT
1 TAATT
18736810 TTATACTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:18743314 original size:43 final size:43
Alignment explanation
Indices: 18743251--18743391 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
18743241 TTAAAAAAAT
*
18743251 GCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
18743294 GTCGCTAGAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
18743337 GCCGCTAAAGATCTTTACCTTTAGCGGCGCTTTTCCCGCACAC
1 GCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
18743380 GCCGCTAAAGGT
1 GCCGCTAAAGGT
18743392 AATGAAATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:18744680 original size:138 final size:138
Alignment explanation
Indices: 18744432--18744683 Score: 459
Period size: 138 Copynumber: 1.8 Consensus size: 138
18744422 TTTTAAAATT
18744432 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* *
18744497 TTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAATCACTCCTAAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAATCACTCCTAAAAGCA
18744562 TCCAGACG
131 TCCAGACG
* *
18744570 TTAAATCAAATAAGTTGCATAATAACATCACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
*
18744635 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAACA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACA
18744684 GGGACTCCAC
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 109 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAATCACTCCTAAAAGCA
TCCAGACG
Found at i:18747045 original size:7 final size:7
Alignment explanation
Indices: 18747033--18747058 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18747023 TCATACACTT
18747033 TAAACCC
1 TAAACCC
18747040 TAAACCC
1 TAAACCC
18747047 TAAACCC
1 TAAACCC
18747054 TAAAC
1 TAAAC
18747059 TATAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:18747540 original size:41 final size:40
Alignment explanation
Indices: 18747463--18747549 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
18747453 TCAAATACAT
18747463 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATA
* * * **
18747504 TTAAAACAATTATTAAAACAATAGACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
18747544 ATAAAA
1 TTAAAA
18747550 AGTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 8 0.20
41 32 0.80
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:18747835 original size:41 final size:41
Alignment explanation
Indices: 18747771--18747989 Score: 316
Period size: 41 Copynumber: 5.4 Consensus size: 41
18747761 ATTATATGAC
* * *
18747771 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTACTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
18747812 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCAGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
18747853 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
18747894 TTTTAACGACGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
18747934 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
*
18747975 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
18747990 TGGTAAAACG
Statistics
Matches: 162, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 15 0.09
41 147 0.91
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:18748002 original size:81 final size:81
Alignment explanation
Indices: 18747771--18748018 Score: 311
Period size: 82 Copynumber: 3.0 Consensus size: 81
18747761 ATTATATGAC
* * *
18747771 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTACTGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
* *
18747836 ACCGCTAATGCTCAGGT
66 GCCGCTAATGCTC-CGT
* * *
18747853 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAACGACGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
*
18747918 GCCGCTAATGCTCTGT
66 GCCGCTAATGCTCCGT
* * * ***
18747934 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCT-GTTTTTAGCGGCATTTTTGGTAAAA
1 TTTTAGCGGCGTTTTAAC-AAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGC-GTTTTACCAAAA
*
18747998 -CGCCGCTATTGCTCCGT
64 GCGCCGCTAATGCTCCGT
18748015 TTTT
1 TTTT
18748019 TATAATTTTT
Statistics
Matches: 146, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
81 48 0.33
82 98 0.67
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
GCCGCTAATGCTCCGT
Found at i:18748004 original size:122 final size:123
Alignment explanation
Indices: 18747771--18748020 Score: 308
Period size: 123 Copynumber: 2.0 Consensus size: 123
18747761 ATTATATGAC
* * * * * * *
18747771 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTACTGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAACGACGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAAC
*
18747836 ACCGCTAATGCTCAGGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
66 ACCGCTAATGCTCAGGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
18747894 TTTTAACGACGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTTTAACAAAAAA
1 TTTTAACGACGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTT-ACAAAAAA
* * * * *** * *
18747958 CGCCGCTATTGCTC-TGTTTTTAGCGGCATTTTTGGTAAAA-CGCCGCTATTGCTCCGTT
65 CACCGCTAATGCTCAGGTTTTTAGCGGC-GTTTTACCAAAAGCGCCGCTAATGCTCCGGT
18748016 TTTTA
1 TTTTA
18748021 TAATTTTTGT
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
122 49 0.45
123 59 0.55
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (123 bp):
TTTTAACGACGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAAC
ACCGCTAATGCTCAGGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
Found at i:18748936 original size:13 final size:14
Alignment explanation
Indices: 18748920--18748955 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
18748910 CAATCTCATA
18748920 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
18748933 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
18748946 TCTC-ATTTCA
1 TCTCAATTTCA
18748956 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:18748945 original size:18 final size:19
Alignment explanation
Indices: 18748907--18748947 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
18748897 TGGTTCATGT
18748907 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
18748926 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
18748944 TTTC
1 TTTC
18748948 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:18749137 original size:39 final size:40
Alignment explanation
Indices: 18749094--18749205 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
18749084 TCGGATAGTT
* *
18749094 CGAAGCAATATTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
* * ** ** * *
18749133 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
*
18749172 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTGTCTCATCGA
18749206 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.33
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:18749470 original size:18 final size:19
Alignment explanation
Indices: 18749444--18749482 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
18749434 TTTCAATTCA
18749444 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
18749463 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
18749481 AT
1 AT
18749483 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:18750808 original size:5 final size:5
Alignment explanation
Indices: 18750798--18750843 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
18750788 TTACTTATTT
*
18750798 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATA
18750844 ATTTAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 25 0.69
6 7 0.19
7 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:18750863 original size:14 final size:14
Alignment explanation
Indices: 18750797--18750857 Score: 74
Period size: 14 Copynumber: 4.4 Consensus size: 14
18750787 TTTACTTATT
18750797 TATATAATAT-A-A
1 TATATAATATAATA
18750809 TATATAATATAATA
1 TATATAATATAATA
18750823 TACTATAATATAATA
1 TA-TATAATATAATA
*
18750838 -ATAATAATTTAATA
1 TAT-ATAATATAATA
18750852 TATATA
1 TATATA
18750858 TTTTAACACA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
12 10 0.23
13 2 0.05
14 17 0.40
15 14 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATAATATAATA
Found at i:18750870 original size:29 final size:29
Alignment explanation
Indices: 18750799--18750857 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
18750789 TACTTATTTA
*
18750799 TATAATATAA-TAT-ATAATATAATATAC
1 TATAATATAACAATAATAATATAATATAC
* *
18750826 TATAATATAATAATAATAATTTAATATA-
1 TATAATATAACAATAATAATATAATATAC
18750854 TATA
1 TATA
18750858 TTTTAACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 6 0.21
29 12 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
TATAATATAACAATAATAATATAATATAC
Found at i:18752763 original size:25 final size:26
Alignment explanation
Indices: 18752699--18752779 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
18752689 TGATACAAAT
*
18752699 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18752725 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18752751 TGA-AATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18752776 TGAT
1 TGAT
18752780 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 25 0.47
26 28 0.53
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18757425 original size:20 final size:19
Alignment explanation
Indices: 18757395--18757436 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
18757385 ATATACACAC
* *
18757395 ATAATATATACCCGCAATT
1 ATAATATATACACACAATT
18757414 ATAATAATATACACACAATT
1 ATAAT-ATATACACACAATT
18757434 ATA
1 ATA
18757437 TTCATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAATATATACACACAATT
Found at i:18759180 original size:13 final size:13
Alignment explanation
Indices: 18759162--18759187 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18759152 GCAGGGGAGA
18759162 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
18759175 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
18759188 GGGGAAAAGG
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:18763041 original size:64 final size:65
Alignment explanation
Indices: 18762962--18763140 Score: 186
Period size: 67 Copynumber: 2.8 Consensus size: 65
18762952 GACATTATGT
* * *
18762962 TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAAAGCTACGGGATATA-
1 TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAAAGCTACGAGATAAAC
* * * * * *
18763026 TGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 TGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAAAGCTACGAGATA
18763091 AAC
63 AAC
* * *
18763094 TG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGA
1 TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGA
18763141 GAGCCAAAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 15 0.16
64 24 0.26
66 21 0.23
67 30 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (65 bp):
TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAAAGCTACGAGATAAAC
Found at i:18764606 original size:8 final size:8
Alignment explanation
Indices: 18764593--18764617 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18764583 TGACTCCGTA
18764593 CGCTCCAG
1 CGCTCCAG
18764601 CGCTCCAG
1 CGCTCCAG
18764609 CGCTCCAG
1 CGCTCCAG
18764617 C
1 C
18764618 AGTCACGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.24, T:0.12
Consensus pattern (8 bp):
CGCTCCAG
Found at i:18766953 original size:131 final size:131
Alignment explanation
Indices: 18766714--18766959 Score: 357
Period size: 131 Copynumber: 1.9 Consensus size: 131
18766704 TTTAAAATTC
* * * * *
18766714 TTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTG
1 TTTAAAACAAAGGCAATATTCGATATTTGGAAATTCGCGGAATAGTGCCCTATCGTGCTGGGTTG
* *
18766779 CAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCACGTCTTTAAAAACT
66 CAATTTCACGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCACGTCTTTAAAAACT
18766844 A
131 A
* * * *
18766845 TTTAAAGCAAAGGCAATATTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTT
1 TTTAAAACAAAGGCAATATTCGATATTTGGAAATTCGCGGAATAGTGCCCTATCGTGCTGGGTTG
** * *
18766910 TGATTTCACGTTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTC
66 CAATTTCACGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTC
18766960 GTGTTTTCTA
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
131 100 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (131 bp):
TTTAAAACAAAGGCAATATTCGATATTTGGAAATTCGCGGAATAGTGCCCTATCGTGCTGGGTTG
CAATTTCACGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCACGTCTTTAAAAACT
A
Found at i:18768098 original size:24 final size:23
Alignment explanation
Indices: 18768064--18768146 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 23
18768054 AAAAATATTA
18768064 TATTAATTATATAAGTTTAATAAT
1 TATT-ATTATATAAGTTTAATAAT
*
18768088 TATTATATATATATA-TTT-ATATTT
1 TATTAT-TATATA-AGTTTAATA-AT
*
18768112 TCGTTATTATATAAGTTTAATAAT
1 T-ATTATTATATAAGTTTAATAAT
18768136 TA-TATT-TATAA
1 TATTATTATATAA
18768147 TTTCATTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
21 5 0.10
22 4 0.08
23 6 0.12
24 26 0.53
25 8 0.16
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTATTATATAAGTTTAATAAT
Found at i:18768793 original size:18 final size:17
Alignment explanation
Indices: 18768770--18768803 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18768760 AAGGTTTTAC
18768770 TAATTTAAAATAAAACTG
1 TAATTT-AAATAAAACTG
*
18768788 TAATTTTAATAAAACT
1 TAATTTAAATAAAACT
18768804 TTAAGCGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATTTAAATAAAACTG
Found at i:18780697 original size:12 final size:12
Alignment explanation
Indices: 18780680--18780704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18780670 TCTTCCACCA
18780680 AAAAAAAAAAAG
1 AAAAAAAAAAAG
18780692 AAAAAAAAAAAG
1 AAAAAAAAAAAG
18780704 A
1 A
18780705 CAGTGGTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Done.