Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000163.1 Hibiscus syriacus cultivar Beakdansim tig00000287_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 301105
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:474 original size:24 final size:24
Alignment explanation
Indices: 445--498 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
435 CTAAAACATC
445 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
469 TTCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
493 ATCAAA
1 ATCAAA
499 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:643 original size:12 final size:12
Alignment explanation
Indices: 622--655 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
612 AATTATGGAT
*
622 TTTGAGATTGTG
1 TTTGATATTGTG
634 TTTGATATTGTG
1 TTTGATATTGTG
*
646 TTTGGTATTG
1 TTTGATATTG
656 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1448 original size:20 final size:20
Alignment explanation
Indices: 1423--1618 Score: 110
Period size: 20 Copynumber: 9.5 Consensus size: 20
1413 ATTAAAAGCT
1423 GAGTTGCGAAATTTAAATTC
1 GAGTTGCGAAATTTAAATTC
* * *
1443 GTGTTGCG-AATTCGAAGAATC
1 GAGTTGCGAAATT-TAA-ATTC
***
1464 GAGTTGCGAAAACGAAATTC
1 GAGTTGCGAAATTTAAATTC
* * **
1484 GTGTTGCCAAATTTAAACCC
1 GAGTTGCGAAATTTAAATTC
* * *
1504 GCGTTGCG-AATTGAAAAAATC
1 GAGTTGCGAAATT--TAAATTC
** ***
1525 TTGTTGCGAAAAGGAAATTC
1 GAGTTGCGAAATTTAAATTC
* *
1545 GTGTTGCG-AATTTAAAAATC
1 GAGTTGCGAAATTT-AAATTC
1565 GAGTTGCGAAATTGTAAAATTC
1 GAGTTGCGAAATT-T-AAATTC
1587 GAGTTGCGAAATTGTAAAATTC
1 GAGTTGCGAAATT-T-AAATTC
1609 GAGTTGCGAA
1 GAGTTGCGAA
1619 TTCGATTTAT
Statistics
Matches: 135, Mismatches: 32, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
19 10 0.07
20 55 0.41
21 27 0.20
22 43 0.32
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (20 bp):
GAGTTGCGAAATTTAAATTC
Found at i:1531 original size:61 final size:61
Alignment explanation
Indices: 1425--1597 Score: 172
Period size: 61 Copynumber: 2.8 Consensus size: 61
1415 TAAAAGCTGA
* ** * *
1425 GTTGCGAAATTTAAATTCGTGTTGCGAATTCGAAGAATCGAGTTGCGAAAACGAAATTCGT
1 GTTGCCAAATTTAAACCCGCGTTGCGAATTCGAAAAATCGAGTTGCGAAAACGAAATTCGT
** *
1486 GTTGCCAAATTTAAACCCGCGTTGCGAATT-GAAAAAATCTTGTTGCGAAAAGGAAATTCGT
1 GTTGCCAAATTTAAACCCGCGTTGCGAATTCG-AAAAATCGAGTTGCGAAAACGAAATTCGT
* ** * *
1547 GTTG-CGAATTTAAAAATCGAGTTGCGAAATT-GTAAAATTCGAGTTGCGAAA
1 GTTGCCAAATTT-AAACCCGCGTTGCG-AATTCG-AAAAATCGAGTTGCGAAA
1598 TTGTAAAATT
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
60 7 0.08
61 66 0.71
62 20 0.22
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (61 bp):
GTTGCCAAATTTAAACCCGCGTTGCGAATTCGAAAAATCGAGTTGCGAAAACGAAATTCGT
Found at i:2321 original size:36 final size:36
Alignment explanation
Indices: 2281--2357 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
2271 TTTAGGTGTC
2281 CATGTCGTAACTGTCATTAAATTTTCCATTAAATGA
1 CATGTCGTAACTGTCATTAAATTTTCCATTAAATGA
*
2317 CATGTCGTAACTGTCCTTAAATTTTCCATTAAATGA
1 CATGTCGTAACTGTCATTAAATTTTCCATTAAATGA
*
2353 TATGT
1 CATGT
2358 GTCACATTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (36 bp):
CATGTCGTAACTGTCATTAAATTTTCCATTAAATGA
Found at i:4059 original size:19 final size:21
Alignment explanation
Indices: 4037--4083 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
4027 GTTAAGGCAG
4037 AAAAATGA-GA-AAATTAAAT
1 AAAAATGACGATAAATTAAAT
*
4056 AAAAATGACGATTTAATTAAAT
1 AAAAATGACGA-TAAATTAAAT
4078 AAAAAT
1 AAAAAT
4084 AAAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 2 0.08
22 14 0.58
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.26
Consensus pattern (21 bp):
AAAAATGACGATAAATTAAAT
Found at i:4625 original size:2 final size:2
Alignment explanation
Indices: 4620--4651 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4610 GATAACACAC
4620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4652 GATTATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4762 original size:2 final size:2
Alignment explanation
Indices: 4755--4824 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
4745 TTAATAACAG
4755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4797 TA TA TA TA TA TA TA TA GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4825 ATAAAGATTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:12970 original size:14 final size:14
Alignment explanation
Indices: 12953--13000 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
12943 ATATATCTCA
12953 TATCATATAACATG
1 TATCATATAACATG
*
12967 TATCATATAGA-TTCG
1 TATCATATA-ACAT-G
*
12982 TATCATGTAACATG
1 TATCATATAACATG
12996 TATCA
1 TATCA
13001 CATGTGCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (14 bp):
TATCATATAACATG
Found at i:16484 original size:109 final size:109
Alignment explanation
Indices: 16326--16535 Score: 305
Period size: 109 Copynumber: 1.9 Consensus size: 109
16316 TTACAAAAGG
* ** *
16326 GTCACCTGTAGGGACCGAGCTTGCTATTTACCCATTTTTATGCATGTTATATATTTTTTGGGTTA
1 GTCACCTGTAGGGACCGAACTTGCTATTTAAACATTTTTATGCATGTTATATATTTTTAGGGTTA
* *
16391 TTTGCTATTTAGTC-CCCTATAGTTTAGTGTGTTTTTGCATGTTA
66 TTTACTATTTAGTCTCCCTAT-GTTTAGCGTGTTTTTGCATGTTA
** *
16435 GTCACCTGTAGGGACCGAACTTGCTATTTAAATGTTTTTATTCATGTTATATATTTTTAGGGTTA
1 GTCACCTGTAGGGACCGAACTTGCTATTTAAACATTTTTATGCATGTTATATATTTTTAGGGTTA
* *
16500 TTTATTATTTAGTCTCTCTATGTTTAGCGTGTTTTT
66 TTTACTATTTAGTCTCCCTATGTTTAGCGTGTTTTT
16536 ATATTTTTGT
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 84 0.94
110 5 0.06
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.49
Consensus pattern (109 bp):
GTCACCTGTAGGGACCGAACTTGCTATTTAAACATTTTTATGCATGTTATATATTTTTAGGGTTA
TTTACTATTTAGTCTCCCTATGTTTAGCGTGTTTTTGCATGTTA
Found at i:18146 original size:19 final size:19
Alignment explanation
Indices: 18102--18153 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
18092 AATTAATTGA
18102 ACATCGAATGCA-T-TCCAT
1 ACATCG-ATGCACTCTCCAT
*
18120 ACACCGATGCACTCTCCAT
1 ACATCGATGCACTCTCCAT
*
18139 GCATCGATGCACTCT
1 ACATCGATGCACTCT
18154 GAATTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 5 0.17
18 6 0.21
19 18 0.62
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.25
Consensus pattern (19 bp):
ACATCGATGCACTCTCCAT
Found at i:18257 original size:64 final size:65
Alignment explanation
Indices: 18101--18261 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
18091 GAATTAATTG
* * * *** * *
18101 AACATCGAATGCATTCCATACACCGATGCACTCTCCATGCATCGATGCACTCTGAATTTTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATTTTCTCAA
* **
18166 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTCTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAAT-TTTCTCA
18229 A
65 A
18230 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
18262 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATTTTCTCAA
Found at i:24080 original size:20 final size:21
Alignment explanation
Indices: 24051--24106 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
24041 TTTGCGCTTC
*
24051 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
24071 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
24093 ATGCATCGATGCAT
1 ATGCATCGATGCAT
24107 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:25584 original size:19 final size:19
Alignment explanation
Indices: 25560--25598 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25550 TCGAATGCAT
25560 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
25579 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
25598 T
1 T
25599 GAATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:25702 original size:64 final size:65
Alignment explanation
Indices: 25545--25706 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
25535 TGAATTAATT
* * *** * *
25545 AAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATTTTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATTTTCTCA
* **
25610 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTCTC
1 AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAAT-TTTCTC
25674 -
65 A
25674 AAACATCGAATGCATTTCATGCATCGATGCACA
1 AAACATCGAATGCATTTCATGCATCGATGCACA
25707 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATTTTCTCA
Found at i:25721 original size:64 final size:64
Alignment explanation
Indices: 25545--25726 Score: 213
Period size: 64 Copynumber: 2.8 Consensus size: 64
25535 TGAATTAATT
* * * * *
25545 AAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATTTTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATTTTCTCA
* ** **
25610 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTCTC-
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAAT-TTTCTCA
*** *
25674 AAACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
25727 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 50 0.51
65 49 0.49
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (64 bp):
AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATTTTCTCA
Found at i:27939 original size:22 final size:18
Alignment explanation
Indices: 27903--27965 Score: 81
Period size: 18 Copynumber: 3.3 Consensus size: 18
27893 TTCATCTCGT
27903 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
27921 AGGACCACTGTATATGTCCCGT
1 AGGACCAC----TATGTCCCGA
27943 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
27961 AGGAC
1 AGGAC
27966 TACTCCTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 22 0.56
22 17 0.44
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:29611 original size:64 final size:63
Alignment explanation
Indices: 29473--29614 Score: 155
Period size: 64 Copynumber: 2.2 Consensus size: 63
29463 TAATGAAGGT
* * * *
29473 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTGATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* * *
29537 ATGCAGCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTGATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
29599 G
63 G
29600 AGTGCATCGATGCAT
1 A-TGCATCGATGCAT
29615 TACCAATACA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
63 3 0.05
64 56 0.85
65 7 0.11
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTGATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:31785 original size:130 final size:131
Alignment explanation
Indices: 31528--31890 Score: 505
Period size: 130 Copynumber: 2.8 Consensus size: 131
31518 TCAATATTGA
* * * * * *
31528 AAATAGTAATATATTTTCATTTCGGTTAGAGTAATAAATGACTTCTTTAAGGCATAAGAGGTCAT
1 AAATAGTGATATCTCTTCATTTCGATTAGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCAT
* * * * * *
31593 TTATTCTTGATTGAAAAGAATTAGATATTATCGTTTTCTCTCGAATCAATATTGATTTTTAAGA-
66 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCGCTCGAATCAATATTGAATCTTAAGAC
31657 G
131 G
* * * *
31658 AGAATAGTGATATC-CTTCCTTTCGATTGGAGTAATAAATGACTGCTTTAAGCCATGACAGGTCA
1 A-AATAGTGATATCTCTTCATTTCGATTAGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
* * *
31722 TATATTCTCGATTGGAAATCATTAGATACTATCGTTTTCGCTCGAATCAATATTGAATCTTAAGA
65 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCGCTCGAATCAATATTGAATCTTAAGA
31787 CG
130 CG
31789 AAATAGTGATATCTCTTCATTTCGATTAGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCAT
1 AAATAGTGATATCTCTTCATTTCGATTAGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCAT
* * *
31854 TTATTCTCGATCGGAAATAATTATATATTATCATTTT
66 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTT
31891 TTCTCTTAGA
Statistics
Matches: 201, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
130 111 0.55
131 90 0.45
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (131 bp):
AAATAGTGATATCTCTTCATTTCGATTAGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCAT
TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCGCTCGAATCAATATTGAATCTTAAGAC
G
Found at i:35288 original size:2 final size:2
Alignment explanation
Indices: 35281--35327 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
35271 AACAAAGTAA
35281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
35323 TT AT A
1 AT AT A
35328 AGCAGGATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:35539 original size:2 final size:2
Alignment explanation
Indices: 35488--35521 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
35478 ATATGACTAA
35488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35522 TTGAATAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37242 original size:22 final size:22
Alignment explanation
Indices: 37173--37244 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
37163 GTGGGAAAAG
* * *
37173 GAAGAAGAAGAAGTAACTCGGA
1 GAAGAAGAAAAAGTAAATTGGA
*
37195 AAAGAAGAATAAA-T-AATATGGA
1 GAAGAAGAA-AAAGTAAAT-TGGA
*
37217 GAAGAAGAAAAAGTAAATTGGT
1 GAAGAAGAAAAAGTAAATTGGA
37239 GAAGAA
1 GAAGAA
37245 TAAGGGGTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 5 0.12
22 30 0.75
23 5 0.12
ACGTcount: A:0.57, C:0.03, G:0.26, T:0.14
Consensus pattern (22 bp):
GAAGAAGAAAAAGTAAATTGGA
Found at i:37602 original size:39 final size:39
Alignment explanation
Indices: 37543--37663 Score: 156
Period size: 39 Copynumber: 3.1 Consensus size: 39
37533 TATAAAAAAT
* *
37543 TCGGGGTTGGATCGGGTTTTTTTAAGTGTGATATTCAGG
1 TCGGGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGG
* *
37582 TCGGGGTCGGGTC-GGATTTTTTAAGTGTGATATT-TGG
1 TCGGGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGG
* * *
37619 CTCGTGTTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGG
1 -TCGGGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGG
37659 TCGGG
1 TCGGG
37664 TTTGGGTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 2 0.03
38 31 0.44
39 35 0.50
40 2 0.03
ACGTcount: A:0.12, C:0.10, G:0.37, T:0.40
Consensus pattern (39 bp):
TCGGGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGG
Found at i:38041 original size:16 final size:18
Alignment explanation
Indices: 38020--38067 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
38010 GTTTCACATT
38020 CAGATTCCAATTCC-T-A
1 CAGATTCCAATTCCTTCA
*
38036 CAGATTTCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
38054 CAGATTCCAATTCC
1 CAGATTCCAATTCC
38068 CTCAAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 13 0.46
17 1 0.04
18 14 0.50
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.33
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:38850 original size:15 final size:16
Alignment explanation
Indices: 38830--38860 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38820 AAAATACAAC
38830 ATTCTC-AGTAATCTT
1 ATTCTCTAGTAATCTT
38845 ATTCTCTAGTAATCTT
1 ATTCTCTAGTAATCTT
38861 TTATTCCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTCTCTAGTAATCTT
Found at i:47656 original size:2 final size:2
Alignment explanation
Indices: 47651--47698 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
47641 AAAATATGCA
47651 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47693 AT AT AT
1 AT AT AT
47699 GATCATAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51573 original size:21 final size:21
Alignment explanation
Indices: 51544--51660 Score: 98
Period size: 21 Copynumber: 5.8 Consensus size: 21
51534 ATTTACATAT
*
51544 TCGCATTGCGATAGTCCAAGA
1 TCGCGTTGCGATAGTCCAAGA
* *
51565 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGA
**
51586 TCGCGTTGCGATTTTCCAA-A
1 TCGCGTTGCGATAGTCCAAGA
* * *
51606 T-TCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGA
* **
51626 TTGCGTTGCGATTTTCCAA-A
1 TCGCGTTGCGATAGTCCAAGA
*
51646 T-TCGTTGCGATAGTC
1 TCGCGTTGCGATAGTC
51661 TGGTCGTGGT
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
19 24 0.32
20 3 0.04
21 47 0.64
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGA
Found at i:51613 original size:19 final size:19
Alignment explanation
Indices: 51589--51656 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
51579 TCGAAGTTCG
51589 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
** * *
51608 CGTTGCGATAGTCGAAGTTT
1 CGTTGCGATTTTCCAA-ATT
51628 GCGTTGCGATTTTCCAAATT
1 -CGTTGCGATTTTCCAAATT
51648 CGTTGCGAT
1 CGTTGCGAT
51657 AGTCTGGTCG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 22 0.56
20 4 0.10
21 13 0.33
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:51623 original size:40 final size:40
Alignment explanation
Indices: 51568--51660 Score: 177
Period size: 40 Copynumber: 2.3 Consensus size: 40
51558 TCCAAGATCG
51568 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
*
51608 CGTTGCGATAGTCGAAGTTTGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
51648 CGTTGCGATAGTC
1 CGTTGCGATAGTC
51661 TGGTCGTGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:51792 original size:23 final size:23
Alignment explanation
Indices: 51766--51892 Score: 89
Period size: 19 Copynumber: 6.0 Consensus size: 23
51756 ACCAGTCGTT
*
51766 GCGAATTTGGAATAAATTGCAAC
1 GCGAATTTGGAATAAATCGCAAC
* *
51789 GCGAACTTGGACT--ATCGCAA-
1 GCGAATTTGGAATAAATCGCAAC
51809 -CGAATTTGGAATAAATCGCAAC
1 GCGAATTTGGAATAAATCGCAAC
* * *
51831 GCGAACTTCGACT--ATCGCAA-
1 GCGAATTTGGAATAAATCGCAAC
* *
51851 -CGAACTTGGACT--ATCGCAA-
1 GCGAATTTGGAATAAATCGCAAC
*
51870 -CAAATTTGGAATAAATCGCAAC
1 GCGAATTTGGAATAAATCGCAAC
51892 G
1 G
51893 AACTTGGACT
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
19 37 0.44
21 27 0.32
23 20 0.24
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (23 bp):
GCGAATTTGGAATAAATCGCAAC
Found at i:51810 original size:21 final size:20
Alignment explanation
Indices: 51784--51997 Score: 186
Period size: 21 Copynumber: 10.4 Consensus size: 20
51774 GGAATAAATT
51784 GCAACGCGAACTTGGACTATC
1 GCAA-GCGAACTTGGACTATC
* *
51805 GCAA-CGAATTTGGAATAAATC
1 GCAAGCGAACTTGGACT--ATC
*
51826 GCAACGCGAACTTCGACTATC
1 GCAA-GCGAACTTGGACTATC
51847 GCAA-CGAACTTGGACTATC
1 GCAAGCGAACTTGGACTATC
* * *
51866 GCAA-CAAATTTGGAATAAATC
1 GCAAGCGAACTTGGACT--ATC
51887 GCAA-CGAACTTGGACTATC
1 GCAAGCGAACTTGGACTATC
* * * **
51906 GTAA-CGAATTTAGAAAATC
1 GCAAGCGAACTTGGACTATC
*
51925 GCAACGCGAACTTCGACTATC
1 GCAA-GCGAACTTGGACTATC
*
51946 GCAACGCGAACTTCGACTATC
1 GCAA-GCGAACTTGGACTATC
51967 GCAACGCGAACTTGGACTATC
1 GCAA-GCGAACTTGGACTATC
51988 GCAATGCGAA
1 GCAA-GCGAA
51998 TATGTAAATC
Statistics
Matches: 161, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
19 57 0.35
21 95 0.59
23 9 0.06
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (20 bp):
GCAAGCGAACTTGGACTATC
Found at i:51830 original size:42 final size:42
Alignment explanation
Indices: 51767--51860 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
51757 CCAGTCGTTG
* *
51767 CGAATTTGGAATAAATTGCAACGCGAACTTGGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
51809 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
*
51851 CGAACTTGGA
1 CGAATTTGGA
51861 CTATCGCAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (42 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
Found at i:51865 original size:61 final size:61
Alignment explanation
Indices: 51790--51991 Score: 250
Period size: 61 Copynumber: 3.3 Consensus size: 61
51780 AATTGCAACG
51790 CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
* * *
51851 CGAACTTGGACTATCGCAACAAATTTGGAATAAATCGCAA--CGAACTTGGACTATCGTAA
1 CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
* * ** * * *
51910 CGAATTTAGAAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTCGACTATCGCAA
1 CGAACTTGGACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
51971 CGCGAACTTGGACTATCGCAA
1 --CGAACTTGGACTATCGCAA
51992 TGCGAATATG
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
59 39 0.33
61 64 0.54
63 15 0.13
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (61 bp):
CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
Found at i:51888 original size:40 final size:38
Alignment explanation
Indices: 51844--51991 Score: 143
Period size: 40 Copynumber: 3.7 Consensus size: 38
51834 AACTTCGACT
*
51844 ATCGCAACGAACTTGGACTATCGCAACAAATTTGGAATAA
1 ATCGCAACGAACTTGGACTATCGCAACAAATTTAG-A-AA
* *
51884 ATCGCAACGAACTTGGACTATCGTAACGAATTTAGAAA
1 ATCGCAACGAACTTGGACTATCGCAACAAATTTAGAAA
* * * * **
51922 ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAACTTGGACTATCGCAA--CAAATTTAGAAA
51964 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAA--CGAACTTGGACTATCGCAA
51992 TGCGAATATG
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
38 9 0.10
39 1 0.01
40 49 0.52
42 35 0.37
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (38 bp):
ATCGCAACGAACTTGGACTATCGCAACAAATTTAGAAA
Found at i:52036 original size:21 final size:21
Alignment explanation
Indices: 52012--52079 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
52002 TAAATCGCAA
52012 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
* *
52033 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCGAAGTTCGCGT
52054 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
52075 TGCGA
1 TGCGA
52080 ATCTGAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCGT
Found at i:53763 original size:20 final size:20
Alignment explanation
Indices: 53735--53804 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
53725 CTAGAAAAGA
*
53735 AGTAACGATAATGTTCTTAT
1 AGTATCGATAATGTTCTTAT
* **
53755 AGTATCGATACCAT-AT-GAAT
1 AGTATCGATA--ATGTTCTTAT
*
53775 AGTATCGATATTGTTCTTAT
1 AGTATCGATAATGTTCTTAT
*
53795 AATATCGATA
1 AGTATCGATA
53805 CTCTCATGAC
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 32 0.86
21 1 0.03
22 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (20 bp):
AGTATCGATAATGTTCTTAT
Found at i:53819 original size:40 final size:40
Alignment explanation
Indices: 53735--53827 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
53725 CTAGAAAAGA
* * * *
53735 AGTAACGATAATGTTCTTATAGTATCGATACCATATGAAT
1 AGTATCGATATTGTTCTTATAATATCGATACCATATGAAC
53775 AGTATCGATATTGTTCTTATAATATCGATACTC-TCATG-AC
1 AGTATCGATATTGTTCTTATAATATCGATAC-CAT-ATGAAC
*
53815 AGTATCGTTATTG
1 AGTATCGATATTG
53828 CCTATTTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (40 bp):
AGTATCGATATTGTTCTTATAATATCGATACCATATGAAC
Found at i:57811 original size:33 final size:33
Alignment explanation
Indices: 57757--57822 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
57747 TAAATGTAAG
*
57757 TATATATATAAAGTGTAAACTATAAAGTATATA
1 TATATATATAAAGTATAAACTATAAAGTATATA
* * *
57790 TATATATATACA-TATATAACTATTAGGTATATA
1 TATATATATAAAGTATA-AACTATAAAGTATATA
57823 CTTTAAAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (33 bp):
TATATATATAAAGTATAAACTATAAAGTATATA
Found at i:58276 original size:11 final size:11
Alignment explanation
Indices: 58222--58397 Score: 70
Period size: 11 Copynumber: 16.5 Consensus size: 11
58212 ATAAATAAAC
*
58222 TATATAGTTTA
1 TATATAGTATA
* *
58233 TAT-TAATAAA
1 TATATAGTATA
58243 CTATATAGTATA
1 -TATATAGTATA
*
58255 TACATA--ATA
1 TATATAGTATA
*
58264 TATATAGTTTA
1 TATATAGTATA
58275 TATATAGTATA
1 TATATAGTATA
58286 TA-ATA--ATA
1 TATATAGTATA
* *
58294 TAAATA-TAAA
1 TATATAGTATA
*
58304 CTATATAGTTTA
1 -TATATAGTATA
*
58316 TATACA-TATAA
1 TATATAGTAT-A
*
58327 TATATA-TACTT
1 TATATAGTA-TA
*
58338 TATATA-TACA
1 TATATAGTATA
*
58348 CTATATAGTTTA
1 -TATATAGTATA
* *
58360 TAT-TAATAAA
1 TATATAGTATA
58370 CTATATAGTATA
1 -TATATAGTATA
*
58382 TA-ATAATATA
1 TATATAGTATA
*
58392 AATATA
1 TATATA
58398 AATTATATAG
Statistics
Matches: 122, Mismatches: 28, Indels: 30
0.68 0.16 0.17
Matches are distributed among these distances:
8 5 0.04
9 11 0.09
10 23 0.19
11 68 0.56
12 15 0.12
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (11 bp):
TATATAGTATA
Found at i:58440 original size:2 final size:2
Alignment explanation
Indices: 57549--58429 Score: 148
Period size: 2 Copynumber: 445.0 Consensus size: 2
57539 TTAGAACAAT
57549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57591 TA TA TA TA TA TA TA TA TA TA TA TA T- TGA -A TGA TA TGA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA T-A TA TA
* * * * * * *
57631 TA TGA TG CA TG TA TA TA TA -A TG TA CA T- TA TA CT- TA TG CA TA
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
57672 GA T- TA -A TA CA T- TA -A TA CA T- TA TA -A GTA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * * * *
57709 TA TA TA CA CT- TA TT TA AA TA TA CA TA TA TA -A AA AA GTA TA AA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
57751 TG TA -A GTA TA TA TA TA AA GTG TA AA CTA TA AA GTA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA
* ** * *
57794 TA TA TA CA TA TA TA -A CTA T- TA GG TA TA TA CTT TA AA GTA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * * * *
57835 AA GTA CA CA CA TA TA TA TA TA CTA TA AA GTA TA TA TA CTT TA TA
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA
* *
57879 T- TA -A AA CTT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
57920 TA AA GTA T- TA T- TA TA AA GA CTA AA GTA TA -A AA GCA TA TA -A
1 TA TA -TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA -TA TA TA TA
* * **
57960 TA TA AA GTA TA TA -A GTA TA TA -A TA TA -A AA TA TA TA CG TA TA
1 TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
58001 TA -A TA TA -A AA TA TA TA TA TA TA TG TA TA TA -A TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
58039 AA GTA TA TA AA GTA TA -A T- TA TA AA GA CTA -A TA TA TA TA -A
1 TA -TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * * * *
58078 GTA TA TA TA TA TA CA CA CA CTT TA TA TT TA AA CTA TA TA AA CTA
1 -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA
* * * *
58122 TA TA -A TT TA TA CA TA -A TA TA TA -A TT TA TA -A T- TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
58159 TA -A TA TA TA AA TA TA -A GA TG TA TA TA TT TA AA TA TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
58197 TCA TA TA TA -A TT TA TA TA AA TA AA CTA TA TA GTT TA TA T- TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* * *
58238 -A TA AA CTA TA TA GTA TA TA CA TA -A TA TA TA TA GTT TA TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
58279 TA GTA TA TA -A TA -A TA TA AA TA TA AA CTA TA TA GTT TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
58320 CA TA TA -A TA TA TA TA CTT TA TA TA TA CA CTA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA
* * *
58362 T- TA -A TA AA CTA TA TA GTA TA TA -A TA -A TA TA AA TA TA AA T-
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
58401 TA TA TA GT- TT TT TA TA TA TA -A TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
58430 CTTCATATAT
Statistics
Matches: 622, Mismatches: 152, Indels: 210
0.63 0.15 0.21
Matches are distributed among these distances:
1 57 0.09
2 515 0.83
3 50 0.08
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (2 bp):
TA
Found at i:64541 original size:20 final size:20
Alignment explanation
Indices: 64516--64589 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
64506 TTTTCCCAAT
*
64516 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
64536 TCGCAACGCGAATTGGGAAA
1 TCGCAACGCGAATAAGTAAA
*
64556 TTCGCAATGCGAATAAGTAAA
1 -TCGCAACGCGAATAAGTAAA
64577 TCGCAACGCGAAT
1 TCGCAACGCGAAT
64590 TGGGAAAATC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:64558 original size:41 final size:41
Alignment explanation
Indices: 64513--64610 Score: 180
Period size: 41 Copynumber: 2.4 Consensus size: 41
64503 CGATTTTCCC
64513 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
64554 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
64595 AAATCGCAATGC-AATA
1 AATTCGCAATGCGAATA
64611 CTGACTATCG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
40 4 0.07
41 52 0.93
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:64562 original size:21 final size:20
Alignment explanation
Indices: 64516--64603 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
64506 TTTTCCCAAT
* *
64516 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGGAAA
**
64536 TCGCAACGCGAATTGGGAAA
1 TCGCAACGCGAATAAGGAAA
* *
64556 TTCGCAATGCGAATAAGTAAA
1 -TCGCAACGCGAATAAGGAAA
**
64577 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAATAAGG-AAA
64598 TCGCAA
1 TCGCAA
64604 TGCAATACTG
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
20 29 0.54
21 25 0.46
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAATAAGGAAA
Found at i:64639 original size:41 final size:41
Alignment explanation
Indices: 64594--64671 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
64584 GCGAATTGGG
* *
64594 AAAATCGCAATGCA-ATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACG-AGATACTGACTATCGCAACGCGATAATAA
* *
64635 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
64672 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.03
41 31 0.97
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:64664 original size:20 final size:20
Alignment explanation
Indices: 64639--64691 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
64629 TAATAAAAAA
* *
64639 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
64659 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
64679 TCGCAACGCGATA
1 TCGCAACGCGATA
64692 ATACATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:64907 original size:22 final size:22
Alignment explanation
Indices: 64879--64922 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
64869 CACTCTCTCA
64879 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
64901 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
64923 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:65193 original size:20 final size:20
Alignment explanation
Indices: 65168--65205 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65158 CGATTCTCTC
65168 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
65188 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
65206 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:66547 original size:18 final size:18
Alignment explanation
Indices: 66526--66570 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
66516 TCCACTTCGG
*
66526 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
66544 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
66562 GAGCCATCA
1 GAGCCATCA
66571 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:67097 original size:19 final size:20
Alignment explanation
Indices: 67043--67109 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
67033 TAGTTTACTT
* *
67043 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
67063 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
67083 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
67102 TCGCAACG
1 TCGCAACG
67110 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:67117 original size:14 final size:14
Alignment explanation
Indices: 67098--67155 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
67088 ATGCGAAATG
67098 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
67112 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
67128 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
67144 AAAATCGCAACG
1 AAAATCGCAACG
67156 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:67140 original size:32 final size:33
Alignment explanation
Indices: 67082--67160 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
67072 GGAAATGGCT
*
67082 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
67115 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
67147 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
67161 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:67189 original size:19 final size:19
Alignment explanation
Indices: 67167--67320 Score: 105
Period size: 19 Copynumber: 8.6 Consensus size: 19
67157 GAAACACAAA
*
67167 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
67186 TCGCGTTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
67202 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
67218 TCGCGTTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
67234 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* * ***
67251 TCACATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
**
67270 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
67290 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
67310 TCGTGTTGCGA
1 TCGCGTTGCGA
67321 AAGTAAACTA
Statistics
Matches: 108, Mismatches: 16, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
14 19 0.18
15 3 0.03
16 6 0.06
17 2 0.02
18 14 0.13
19 36 0.33
20 28 0.26
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:67208 original size:14 final size:14
Alignment explanation
Indices: 67189--67246 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
67179 TTTCATTTCG
67189 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
67203 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
67219 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
67235 CGTTGCGATTTT
1 CGTTGCGATTTT
67247 CATTTCACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:67260 original size:33 final size:33
Alignment explanation
Indices: 67172--67262 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
67162 ACAAATCGCA
67172 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
67205 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
* *
67237 TTGCGATTTTCATTTCACATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
67263 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 32 0.58
33 23 0.42
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:67281 original size:20 final size:19
Alignment explanation
Indices: 67256--67301 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
67246 TCATTTCACA
67256 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTT-CGCG
*
67276 TTGCGATAGTCATTTCGCG
1 TTGCGATAGCCATTTCGCG
67295 TTGCGAT
1 TTGCGAT
67302 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (19 bp):
TTGCGATAGCCATTTCGCG
Found at i:69192 original size:14 final size:14
Alignment explanation
Indices: 69173--69208 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
69163 ATTGTTTAAT
69173 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
69187 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
69201 TGATTTGT
1 TGATTTGT
69209 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:69334 original size:14 final size:15
Alignment explanation
Indices: 69315--69391 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
69305 CGAAATGGCT
69315 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
69329 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
69347 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
69366 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
69380 ATCGCAATGCGA
1 ATCGCAA-GCGA
69392 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:69347 original size:19 final size:19
Alignment explanation
Indices: 69325--69391 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
69315 ATCGCAACGA
69325 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
69344 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
69362 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
69376 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
69392 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:69467 original size:20 final size:20
Alignment explanation
Indices: 69417--69467 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
69407 GCGATATTCT
* *
69417 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
69437 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
69457 CGTTGCGATAG
1 CGTTGCGATAG
69468 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:69853 original size:14 final size:14
Alignment explanation
Indices: 69834--69869 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
69824 ATTGTTTAAT
69834 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
69848 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
69862 TGATTTGT
1 TGATTTGT
69870 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:69995 original size:14 final size:15
Alignment explanation
Indices: 69976--70052 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
69966 CGAAATGTCT
69976 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
69990 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
70008 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
70027 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
70041 ATCGCAATGCGA
1 ATCGCAA-GCGA
70053 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:70008 original size:19 final size:19
Alignment explanation
Indices: 69986--70052 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
69976 ATCGCAACGA
69986 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
70005 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
70023 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
70037 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
70053 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:70128 original size:20 final size:20
Alignment explanation
Indices: 70078--70128 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
70068 GCGATATTCT
* **
70078 CGTTGCGATAACCATTTTTG
1 CGTTGCGATAGCCATTTTCA
70098 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
70118 CGTTGCGATAG
1 CGTTGCGATAG
70129 TCAAATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:70182 original size:661 final size:661
Alignment explanation
Indices: 68922--70316 Score: 2745
Period size: 661 Copynumber: 2.1 Consensus size: 661
68912 TGGTAAGTCA
68922 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
*
68987 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTCTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
69052 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
69117 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTAGTTTTTGATTGTTTAATTGATTTGTA
196 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTAGTTTTTGATTGTTTAATTGATTTGTA
69182 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
261 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
69247 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
326 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
69312 GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAG
391 GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAG
69377 AAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATAACCATTTTCGCGTTG
456 AAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATAACCATTTTCGCGTTG
69442 CGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGAT
521 CGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGAT
69507 CATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT
586 CATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT
69572 AAAATACACAT
651 AAAATACACAT
69583 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
69648 TCAATAATTTGCTGTCTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTCTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
69713 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
*
69778 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
196 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTAGTTTTTGATTGTTTAATTGATTTGTA
69843 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
261 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
69908 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
326 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
*
69973 TCTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAG
391 GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAG
*
70038 AAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATAACCATTTTTGCGTTG
456 AAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATAACCATTTTCGCGTTG
70103 CGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGAT
521 CGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGAT
70168 CATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT
586 CATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT
70233 AAAATACACAT
651 AAAATACACAT
*
70244 AATGCAAGTTTTGTTAACATATATACTCCTTTTGTTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
70309 TCAATAAT
66 TCAATAAT
70317 AATTGTTAAA
Statistics
Matches: 729, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
661 729 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (661 bp):
AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
TCAATAATTTGCTGTCTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTAGTTTTTGATTGTTTAATTGATTTGTA
AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAG
AAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATAACCATTTTCGCGTTG
CGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGAT
CATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT
AAAATACACAT
Found at i:71241 original size:24 final size:24
Alignment explanation
Indices: 71185--71243 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
71175 AGTCAGTATT
* *
71185 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
71209 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
71233 CGAATTTTGAT
1 CGAAATTTGAT
71244 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:73758 original size:19 final size:19
Alignment explanation
Indices: 73736--73833 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
73726 GGAAATTACT
73736 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
73755 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
73769 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
73788 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
73802 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
73821 ATCGCAACGCGAA
1 ATCGCAATGCGAA
73834 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:73778 original size:33 final size:33
Alignment explanation
Indices: 73736--73829 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
73726 GGAAATTACT
73736 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
73769 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
73802 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
73830 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:73851 original size:19 final size:20
Alignment explanation
Indices: 73829--73871 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
73819 AAATCGCAAC
73829 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
73848 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
73868 GCGA
1 GCGA
73872 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:73856 original size:14 final size:14
Alignment explanation
Indices: 73857--73890 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
73847 TGCGATTTTC
73857 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
73871 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
73885 ATTTTC
1 ATTTTC
73891 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:74031 original size:14 final size:14
Alignment explanation
Indices: 74012--74048 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
74002 CATCAATTAA
*
74012 ACAAATGAACTTTT
1 ACAAATCAACTTTT
*
74026 ACAAATCACCTTTT
1 ACAAATCAACTTTT
74040 ACAAATCAA
1 ACAAATCAA
74049 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:75468 original size:21 final size:21
Alignment explanation
Indices: 75402--75468 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
75392 GTGAATCGGG
*
75402 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
75422 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
75444 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
75465 CTCT
1 CTCT
75469 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:75487 original size:42 final size:41
Alignment explanation
Indices: 75402--75524 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
75392 GTGAATCGGG
* * * * *
75402 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
75444 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
75486 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
75525 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:77606 original size:33 final size:33
Alignment explanation
Indices: 77549--77647 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
77539 ACGAGATAAT
*
77549 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
77583 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
77616 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
77648 GCGAAATGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:77641 original size:19 final size:19
Alignment explanation
Indices: 77524--77707 Score: 174
Period size: 20 Copynumber: 10.1 Consensus size: 19
77514 TCTTTTGGTT
*
77524 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
77543 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
77563 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
77581 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
77597 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
77615 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
77630 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
77650 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
77669 GAAATG-AAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
77687 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
77706 GA
1 GA
77708 TTTTGGTTTC
Statistics
Matches: 138, Mismatches: 13, Indels: 28
0.77 0.07 0.16
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 22 0.16
19 43 0.31
20 46 0.33
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:77728 original size:19 final size:19
Alignment explanation
Indices: 77706--77742 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77696 ATCGCAATGC
*
77706 GATTTTGGTTTCGCGTTGT
1 GATTTTGATTTCGCGTTGT
*
77725 GATTTTTATTTCGCGTTG
1 GATTTTGATTTCGCGTTG
77743 CGATAGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.11, G:0.27, T:0.54
Consensus pattern (19 bp):
GATTTTGATTTCGCGTTGT
Found at i:77772 original size:20 final size:19
Alignment explanation
Indices: 77714--77773 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
77704 GCGATTTTGG
* * *
77714 TTTCGCGTTGTGATTTTTA
1 TTTCGCGTTGCGATTCTCA
**
77733 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTCTCA
77752 TTTCCGCGTTGCGATTCTCA
1 TTT-CGCGTTGCGATTCTCA
77772 TT
1 TT
77774 CTCGAAACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TTTCGCGTTGCGATTCTCA
Found at i:78372 original size:20 final size:20
Alignment explanation
Indices: 78287--78380 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
78277 CGCTAAGTAA
*
78287 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
78307 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
78327 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
78348 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
78368 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
78381 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:78399 original size:41 final size:41
Alignment explanation
Indices: 78369--78464 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
78359 ATAGTCAGTA
* * *
78369 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
78410 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
78451 TCGCATTGCGAATT
1 TCGCATTGCGAATT
78465 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:78413 original size:20 final size:20
Alignment explanation
Indices: 78369--78461 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
78359 ATAGTCAGTA
* **
78369 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
78390 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
78410 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
78431 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
78451 TCGCATTGCGA
1 TCGCATTGCGA
78462 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:84263 original size:44 final size:42
Alignment explanation
Indices: 84213--84437 Score: 195
Period size: 44 Copynumber: 5.2 Consensus size: 42
84203 TGAGAACCAA
* * *
84213 AAACGCCACAATAGGTCAAGATCTATAGCGACATTTTTTGGAAC
1 AAACGCCGCAAAAGGTC-ATATCTATAGCG-CATTTTTTGGAAC
* * * *
84257 AAACGCCGCAAAATGTTGATATTTATAGCG-GTGTTTTTGGAAC
1 AAACGCCGCAAAA-GGTCATATCTATAGCGCAT-TTTTTGGAAC
** * * * *
84300 AAATACCACAAAAGGTTGATATCTATAGAGC-GTTTTTGGAAC
1 AAACGCCGCAAAAGG-TCATATCTATAGCGCATTTTTTGGAAC
* * *
84342 AAACACCGCAAAAAGTCATATCTATAGCTGCATTTTTTTGGAAT
1 AAACGCCGCAAAAGGTCATATCTATAGC-GCA-TTTTTTGGAAC
*
84386 AAACGCCGCAAAAGGTCATATCTATAGCGGCGTTTTTT-GATAC
1 AAACGCCGCAAAAGGTCATATCTATAGC-GCATTTTTTGGA-AC
84429 AAACGCCGC
1 AAACGCCGC
84438 TAATTTCCTT
Statistics
Matches: 147, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
41 11 0.07
42 28 0.19
43 48 0.33
44 58 0.39
45 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCATATCTATAGCGCATTTTTTGGAAC
Found at i:84312 original size:43 final size:42
Alignment explanation
Indices: 84247--84437 Score: 161
Period size: 43 Copynumber: 4.5 Consensus size: 42
84237 ATAGCGACAT
* * * * *
84247 TTTTTGGAACAAACGCCGCAAAATGTTGATATTTATAGCGGTG
1 TTTTTGGAACAAACACCGCAAAAGGTTGATATCTATAG-AGCG
* *
84290 TTTTTGGAACAAATACCACAAAAGGTTGATATCTATAGAGCG
1 TTTTTGGAACAAACACCGCAAAAGGTTGATATCTATAGAGCG
* * * *
84332 TTTTTGGAACAAACACCGCAAAAAG-TCATATCTATAGCTGCATT
1 TTTTTGGAACAAACACCGCAAAAGGTTGATATCTATAG-AGC--G
* * * *
84376 TTTTTGGAATAAACGCCGCAAAAGG-TCATATCTATAGCGGCG
1 TTTTTGGAACAAACACCGCAAAAGGTTGATATCTATAG-AGCG
* *
84418 TTTTTTGATACAAACGCCGC
1 TTTTTGGA-ACAAACACCGC
84438 TAATTTCCTT
Statistics
Matches: 124, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
41 11 0.09
42 33 0.27
43 43 0.35
44 37 0.30
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (42 bp):
TTTTTGGAACAAACACCGCAAAAGGTTGATATCTATAGAGCG
Found at i:84345 original size:85 final size:86
Alignment explanation
Indices: 84247--84437 Score: 217
Period size: 85 Copynumber: 2.2 Consensus size: 86
84237 ATAGCGACAT
* * * * *
84247 TTTTTGGAACAAACGCCGCAAAATGTTGATATTTATAGC-G-GTGTTTTTGGAACAAATACCACA
1 TTTTTGGAACAAACGCCGCAAAAAG-TCATATCTATAGCTGCATGTTTTTGGAACAAACACCACA
*
84310 AAAGGTTGATATCTATAG-AGCG
65 AAAGG-TCATATCTATAGCAGCG
* * * * *
84332 TTTTTGGAACAAACACCGCAAAAAGTCATATCTATAGCTGCATTTTTTTGGAATAAACGCCGCAA
1 TTTTTGGAACAAACGCCGCAAAAAGTCATATCTATAGCTGCATGTTTTTGGAACAAACACCACAA
*
84397 AAGGTCATATCTATAGCGGCG
66 AAGGTCATATCTATAGCAGCG
*
84418 TTTTTTGATACAAACGCCGC
1 TTTTTGGA-ACAAACGCCGC
84438 TAATTTCCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
84 11 0.12
85 35 0.40
86 32 0.36
87 10 0.11
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (86 bp):
TTTTTGGAACAAACGCCGCAAAAAGTCATATCTATAGCTGCATGTTTTTGGAACAAACACCACAA
AAGGTCATATCTATAGCAGCG
Found at i:85448 original size:21 final size:22
Alignment explanation
Indices: 85406--85449 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
85396 TTTTGTTTAC
* *
85406 AAACACAAAAATAATGATGAAT
1 AAACACAAAAACAATCATGAAT
*
85428 AAACTCAAAAACAATCA-GAAT
1 AAACACAAAAACAATCATGAAT
85449 A
1 A
85450 CCAGGTATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.16
Consensus pattern (22 bp):
AAACACAAAAACAATCATGAAT
Found at i:89102 original size:41 final size:41
Alignment explanation
Indices: 89032--89244 Score: 216
Period size: 41 Copynumber: 5.2 Consensus size: 41
89022 TTGTAAATTT
* * *
89032 GCGGCGTTTGTAAAACAAACGCCACTAAAGCACGAGTCTATA
1 GCGGCGTTAGTATAA-AAACGCCACTAAAGTACGAGTCTATA
* *
89074 GCGGTGTTAGTATAAAAACGCCACTAAAGTACGAGTCTCTA
1 GCGGCGTTAGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * *
89115 GCGGCGTTTGAATAGAAACGCCACTAAAGTACGAGTCTTTA
1 GCGGCGTTAGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * * *
89156 GCGGCATTTGTAT-AAAACCCCACT-AAGATATGAGTCAATA
1 GCGGCGTTAGTATAAAAACGCCACTAAAG-TACGAGTCTATA
* * * *
89196 GCGGCGTTTA-TAAAAAAACTCCACCAAAATACGAGTCTATA
1 GCGGCG-TTAGTATAAAAACGCCACTAAAGTACGAGTCTATA
89237 GCGGCGTT
1 GCGGCGTT
89245 TGTTCTAAAA
Statistics
Matches: 142, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.02
40 27 0.19
41 98 0.69
42 14 0.10
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGTTAGTATAAAAACGCCACTAAAGTACGAGTCTATA
Found at i:89229 original size:81 final size:82
Alignment explanation
Indices: 89032--89247 Score: 249
Period size: 81 Copynumber: 2.6 Consensus size: 82
89022 TTGTAAATTT
* * * * *
89032 GCGGCGTTTGTAAAACAAACGCCACTAAAGCACGAGTCTATAGCGGTGTTAGTATAAAAACGCCA
1 GCGGCGTTTATAAAA-AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACCCCA
**
89097 CTAAAGTACGAGTCTCTA
65 CTAAAGTACGAGTCAATA
* * * *
89115 GCGGCGTTTGA-ATAGAAACGCCACTAAAGTACGAGTCTTTAGCGGCATTTGTAT-AAAACCCCA
1 GCGGCGTTT-ATAAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACCCCA
*
89178 CT-AAGATATGAGTCAATA
65 CTAAAG-TACGAGTCAATA
* * *
89196 GCGGCGTTTATAAAAAAACTCCACCAAAATACGAGTCTATAGCGGCGTTTGT
1 GCGGCGTTTATAAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGT
89248 TCTAAAAATA
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
80 4 0.04
81 62 0.56
82 34 0.31
83 11 0.10
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (82 bp):
GCGGCGTTTATAAAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACCCCAC
TAAAGTACGAGTCAATA
Found at i:100523 original size:2 final size:2
Alignment explanation
Indices: 100516--100540 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100506 ACGTTTAAAT
100516 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 T
100541 TGAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115582 original size:31 final size:31
Alignment explanation
Indices: 115534--115658 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
115524 CCCGAAGGAC
* * *
115534 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
115565 CAGTCAATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
115596 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
115627 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
115658 C
1 C
115659 CCTCGACCAT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:128781 original size:12 final size:11
Alignment explanation
Indices: 128751--128832 Score: 50
Period size: 10 Copynumber: 7.8 Consensus size: 11
128741 TAATCCCTTT
128751 TTATAT-TAAA
1 TTATATATAAA
128761 TTATATATAAA
1 TTATATATAAA
*
128772 TTATTCTATAAA
1 TTA-TATATAAA
*
128784 -AATTATATAAA
1 TTA-TATATAAA
* *
128795 TGATATCT-AA
1 TTATATATAAA
* *
128805 TTATATCT-GA
1 TTATATATAAA
128815 TTATATAT-AA
1 TTATATATAAA
128825 -TATATATA
1 TTATATATA
128833 TTTTTTAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
9 7 0.12
10 24 0.41
11 20 0.34
12 8 0.14
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (11 bp):
TTATATATAAA
Found at i:128846 original size:21 final size:21
Alignment explanation
Indices: 128822--128862 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
128812 TGATTATATA
*
128822 TAATATATATATTTTTTAATT
1 TAATATATATATTTTATAATT
*
128843 TAATATATTTATTTTATAAT
1 TAATATATATATTTTATAAT
128863 ATCTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TAATATATATATTTTATAATT
Found at i:132302 original size:21 final size:22
Alignment explanation
Indices: 132278--132318 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
132268 ATTCCTTTCC
132278 TTTCATGTTTC-AA-TTCAAAAT
1 TTTCAT-TTTCGAATTTCAAAAT
132299 TTTCATTTTCGAATTTCAAA
1 TTTCATTTTCGAATTTCAAA
132319 CCATAAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.49
Consensus pattern (22 bp):
TTTCATTTTCGAATTTCAAAAT
Found at i:134319 original size:41 final size:40
Alignment explanation
Indices: 134242--134325 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
134232 TGGCCTGGCC
* * *
134242 TATTTAATAAAAAGGTCAGGTCAGGCCTTTTTAAAAG-CT
1 TATTTAATAAAAAGGCCAGGTCAGGCCTATTAAAAAGCCT
* *
134281 TATTTAATTAAACAGGCCAGGCTTAGGCCTATTAAAAAGCCT
1 TATTTAA-TAAAAAGGCCAGG-TCAGGCCTATTAAAAAGCCT
134323 TAT
1 TAT
134326 AAGCCTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 7 0.19
40 11 0.30
41 14 0.38
42 5 0.14
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (40 bp):
TATTTAATAAAAAGGCCAGGTCAGGCCTATTAAAAAGCCT
Found at i:134476 original size:17 final size:17
Alignment explanation
Indices: 134454--134486 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
134444 TGTTAAACAG
*
134454 GCTTTTAAACATGCCAA
1 GCTTTTAAACAGGCCAA
134471 GCTTTTAAACAGGCCA
1 GCTTTTAAACAGGCCA
134487 GGCCTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (17 bp):
GCTTTTAAACAGGCCAA
Found at i:137354 original size:135 final size:135
Alignment explanation
Indices: 137106--137365 Score: 412
Period size: 135 Copynumber: 1.9 Consensus size: 135
137096 TCTCATGCTA
* * * * *
137106 TAGTCCTTTAATTTAGGAAGTAATTTGATTTGTCTCTCGCATTAACATGCTCGAGGGACCATTTC
1 TAGTACTTTAATTTAGGAAGTAATTTGATTTGGCTCTCACATTAACATGCCCGAGGGACCATCTC
* * *
137171 GATTATTCGACTTAATAATTAGTTAAAATAAATTAGGATTAATATTAGAGCCTTCATTTTAATTT
66 AATTATTCGACTCAATAATTAGTTAAAATAAATTAGGATTAATATTAGAGCCTCCATTTTAATTT
137236 CATTT
131 CATTT
* *
137241 TAGTACTTTAATTTAGGGAGTAATTTGATTTGGCTCTTACATTAACATGCCCGAGGGACCATCTC
1 TAGTACTTTAATTTAGGAAGTAATTTGATTTGGCTCTCACATTAACATGCCCGAGGGACCATCTC
* *
137306 AATTATTCGACTCAATAATTGGTTAAAATAAATTAGGATTAATTTTAGAGCCTCCATTTT
66 AATTATTCGACTCAATAATTAGTTAAAATAAATTAGGATTAATATTAGAGCCTCCATTTT
137366 TAGATTTAGT
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 113 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (135 bp):
TAGTACTTTAATTTAGGAAGTAATTTGATTTGGCTCTCACATTAACATGCCCGAGGGACCATCTC
AATTATTCGACTCAATAATTAGTTAAAATAAATTAGGATTAATATTAGAGCCTCCATTTTAATTT
CATTT
Found at i:144193 original size:36 final size:36
Alignment explanation
Indices: 144136--144250 Score: 160
Period size: 36 Copynumber: 3.2 Consensus size: 36
144126 CAAGATTTTG
* *
144136 TCACTTGAGA-TTTTTTCCTTAAAATAGATTTTATC
1 TCACTTGAGATTTTTTTCCTTAAAACAAATTTTATC
*
144171 TCACTTGAGATTTTTTTTCTTAAAACAAATTTTATC
1 TCACTTGAGATTTTTTTCCTTAAAACAAATTTTATC
* ** *
144207 TCACTTAAGATTGATTTCCTTTAAACAAATTTTATC
1 TCACTTGAGATTTTTTTCCTTAAAACAAATTTTATC
144243 TCACTTGA
1 TCACTTGA
144251 AAGTGTTTCT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 10 0.14
36 60 0.86
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (36 bp):
TCACTTGAGATTTTTTTCCTTAAAACAAATTTTATC
Found at i:144281 original size:72 final size:70
Alignment explanation
Indices: 144131--144281 Score: 167
Period size: 72 Copynumber: 2.1 Consensus size: 70
144121 TCACTCAAGA
* * * * * * * * *
144131 TTTTGTCACTTGAGATTTTTTCCTTAAAATAGATTTTATCTCACTTGAGATTTTTTTTCTTAAAA
1 TTTTCTCACTTAAGATTATTTCCTTAAAACAAATTTTATCTCACTTGAAAGTGTTTCTCTTAAAA
144196 CAAAT
66 CAAAT
* *
144201 TTTATCTCACTTAAGATTGATTTCCTTTAAACAAATTTTATCTCACTTGAAAGTGTTTCTCTTGA
1 TTT-TCTCACTTAAGATT-ATTTCCTTAAAACAAATTTTATCTCACTTGAAAGTGTTTCTCTTAA
*
144266 AGCAAAAT
64 AAC-AAAT
144274 TTTTCTCA
1 TTTTCTCA
144282 TTCAAGGTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
70 3 0.05
71 12 0.18
72 44 0.67
73 7 0.11
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (70 bp):
TTTTCTCACTTAAGATTATTTCCTTAAAACAAATTTTATCTCACTTGAAAGTGTTTCTCTTAAAA
CAAAT
Found at i:146215 original size:24 final size:24
Alignment explanation
Indices: 146196--146265 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
146186 AATATGTTTT
*
146196 TTTATGTTTGTTCATTTATGTTCG
1 TTTATGTTCGTTCATTTATGTTCG
*
146220 TTTATCTTCGTTCATTTATGTTCG
1 TTTATGTTCGTTCATTTATGTTCG
* *
146244 TTTATGTGCGTTTATTTATGTT
1 TTTATGTTCGTTCATTTATGTT
146266 TAGCTTAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.13, C:0.10, G:0.16, T:0.61
Consensus pattern (24 bp):
TTTATGTTCGTTCATTTATGTTCG
Found at i:147902 original size:34 final size:37
Alignment explanation
Indices: 147858--147959 Score: 158
Period size: 34 Copynumber: 2.8 Consensus size: 37
147848 TTTCGTCCTA
*
147858 CTAGGATTCAAACTCCTAAAAATATGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
147893 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
147928 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
147960 GTTCTACTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.46
35 3 0.05
37 28 0.46
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:147943 original size:37 final size:35
Alignment explanation
Indices: 147858--147993 Score: 159
Period size: 37 Copynumber: 3.8 Consensus size: 35
147848 TTTCGTCCTA
*
147858 CTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
147893 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
147928 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
147965 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
147994 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
33 1 0.01
34 28 0.32
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:148147 original size:12 final size:11
Alignment explanation
Indices: 148127--148156 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
148117 AGGTAGCATC
148127 TTTTTTTTATT
1 TTTTTTTTATT
148138 TTTATTTTTATT
1 TTT-TTTTTATT
148150 TTTTTTT
1 TTTTTTT
148157 GCATGTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:148688 original size:76 final size:75
Alignment explanation
Indices: 148563--148712 Score: 173
Period size: 75 Copynumber: 2.0 Consensus size: 75
148553 TCTATTTACG
* *
148563 TATATTACCTTTTATCATTATTATATATATTATATTTATTGCTTCATTTTCTTTATGCGTAT-TT
1 TATATTACCTTTTATCATTATTATATATATTATATTTATTACTTCATTTT-TCTATGC-TATATT
148627 TATTTATTTATA
64 TATTTATTTATA
* * * *
148639 TATATTACCTTTT-TTATT-TTATATTTA-TACTATTTATTTACTATTATTTTTCTATGCTTTAT
1 TATATTACCTTTTATCATTATTATATATATTA-TATTTA-TTACT-TCATTTTTCTATGCTATAT
148701 TTATTTATTTAT
63 TTATTTATTTAT
148713 TATTTTATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
73 2 0.03
74 16 0.25
75 27 0.42
76 19 0.30
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.63
Consensus pattern (75 bp):
TATATTACCTTTTATCATTATTATATATATTATATTTATTACTTCATTTTTCTATGCTATATTTA
TTTATTTATA
Found at i:156137 original size:11 final size:11
Alignment explanation
Indices: 156120--156149 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
156110 TAAGTCGGAA
156120 AAAAAAAACAAC
1 AAAAAAAA-AAC
156132 AAAAAAAAAAC
1 AAAAAAAAAAC
156143 AAAAAAA
1 AAAAAAA
156150 GAGAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:156137 original size:14 final size:13
Alignment explanation
Indices: 156118--156149 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
156108 CCTAAGTCGG
156118 AAAAAAAAAACAA
1 AAAAAAAAAACAA
156131 CAAAAAAAAAACAA
1 -AAAAAAAAAACAA
156145 AAAAA
1 AAAAA
156150 GAGAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:156236 original size:19 final size:20
Alignment explanation
Indices: 156212--156250 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
156202 GAGAAAAATT
*
156212 GAAAAAGAGAAA-AACAAAA
1 GAAAAAGAAAAAGAACAAAA
156231 GAAAAAGAAAAAGAACAAAA
1 GAAAAAGAAAAAGAACAAAA
156251 AGGTGGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (20 bp):
GAAAAAGAAAAAGAACAAAA
Found at i:157265 original size:106 final size:106
Alignment explanation
Indices: 157080--157628 Score: 799
Period size: 106 Copynumber: 5.2 Consensus size: 106
157070 AGCCGATATT
157080 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
* *
157145 TGGTTGTCAACAAACAACCTCCCAATTTCAGATCCAATTTC
66 TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
* *
157186 AACTTCATATCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
* * *
157251 TGGTTATCAACAAACAACTTCCCAATTTCGGAGCCAATTTT
66 TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
* * *
157292 AATTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGT
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
*
157357 TGGTTGTCAAC-AACAACTTCCCAATCTCAGAGCCAATTTC
66 TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
*
157397 AACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGC
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
* * **
157462 TGCTTGTCAAC-AA-AA-TT-TC-A-TTCAGATTCAATTTC
66 TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
* * * *
157497 AACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGA-CGA
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-
* ** *
157561 CTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTC
65 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
* *
157603 AACTTCACGACGGAGGATATTGGACT
1 AACTTCACAACGAAGGATATTGGACT
157629 TGGAACAATG
Statistics
Matches: 398, Mismatches: 38, Indels: 14
0.88 0.08 0.03
Matches are distributed among these distances:
99 2 0.01
100 79 0.20
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 99 0.25
106 205 0.52
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (106 bp):
AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
Found at i:157622 original size:311 final size:316
Alignment explanation
Indices: 157061--157628 Score: 853
Period size: 311 Copynumber: 1.8 Consensus size: 316
157051 TTGTCAACAA
* *
157061 CAATCTCGGAGCCGATATTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATCTCAGAGCCAATATTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
157126 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACCTCCCAATTTCAGATCCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGCTTGTCAACAAACAA-CTCCCAATTTCAGATCCAATTTCAACTT
* * * * *
157191 CATATCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
130 CACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGAGACCGCTGGTT
* * * *
157256 ATCAACAAACAACTTCCCAATTTCGGAGCCAATTTTAATTTCACAACGAAGGATATTGGACTCCA
195 ATCAACAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
157321 AACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAACAACTTCC
260 AACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAACAACTTCC
*
157378 CAATCTCAGAGCCAAT-TTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAA
1 CAATCTCAGAGCCAATATT-AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
** *
157442 CTTCACGACGAAGGGACCGCTGCTTGTCAAC-AA-AA-TTTC-A-TTCAGATTCAATTTCAACTT
65 CTTCACGACGAAGGGACCGCTGCTTGTCAACAAACAACTCCCAATTTCAGATCCAATTTCAACTT
*
157502 CACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGA-CGACTGGT
130 CACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGAGACCG-CTGGT
* * ** * *
157566 TGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
194 TATCAACAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
157629 TGGAACAATG
Statistics
Matches: 226, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
310 2 0.01
311 127 0.56
312 1 0.00
313 2 0.01
315 2 0.01
316 4 0.02
317 88 0.39
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (316 bp):
CAATCTCAGAGCCAATATTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCGCTGCTTGTCAACAAACAACTCCCAATTTCAGATCCAATTTCAACTTC
ACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGAGACCGCTGGTTA
TCAACAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAA
ACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAACAACTTCC
Found at i:158188 original size:34 final size:37
Alignment explanation
Indices: 158144--158245 Score: 149
Period size: 34 Copynumber: 2.8 Consensus size: 37
158134 TTTCGTCCTA
*
158144 CTAGGATTCAAACTCCTAAAATTAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
*
158179 -TAGGATTCAAACTCCTAAAAACAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
158214 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
158246 GTTCTACTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
33 1 0.02
34 27 0.46
35 3 0.05
37 27 0.46
38 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:158269 original size:37 final size:37
Alignment explanation
Indices: 158141--158271 Score: 153
Period size: 37 Copynumber: 3.6 Consensus size: 37
158131 ATTTTTCGTC
*
158141 CTACTAGGATTCAAACTCCTAAAATTAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
*
158178 -T--TAGGATTCAAACTCCTAAAAACAGGATA-ACATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGA-ATT
* * *
158212 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
158249 CTACTAAGATTTAAATTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
158272 GATATGATCC
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.36
35 1 0.01
36 1 0.01
37 47 0.59
38 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:158951 original size:23 final size:23
Alignment explanation
Indices: 158899--158951 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
158889 TTATGCGTAT
*
158899 TTTATTTATTTATATATATTACC
1 TTTATTTATTTATATATATTAAC
158922 TTT-TTTATTT-TATAT-TTATAC
1 TTTATTTATTTATATATATTA-AC
158943 TATTATTTA
1 T-TTATTTA
158952 CTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.12
21 7 0.27
22 9 0.35
23 7 0.27
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATTTATTTATATATATTAAC
Found at i:158999 original size:5 final size:5
Alignment explanation
Indices: 158989--159059 Score: 69
Period size: 5 Copynumber: 14.8 Consensus size: 5
158979 TATTTATTTA
** * *
158989 TTATT TTATT TTATT TTATT TCT-TT TTATT TTGGT TGAAT TTA-T TTA-T
1 TTATT TTATT TTATT TTATT T-TATT TTATT TTATT TTATT TTATT TTATT
159037 TTATT TTATT TTATT TT-TT TTAT
1 TTATT TTATT TTATT TTATT TTAT
159060 ATCTAACATG
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
4 13 0.23
5 42 0.75
6 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:159854 original size:29 final size:29
Alignment explanation
Indices: 159781--159890 Score: 107
Period size: 30 Copynumber: 3.7 Consensus size: 29
159771 TATGTATTAT
* *
159781 TTTTAACTTATTAAATATATTTTATTTTTA
1 TTTTAACTTA-AAAATATATTTTATTCTTA
* * * *
159811 TTTTTATTTAAAAAATACATTTTAATCTTA
1 TTTTAACTT-AAAAATATATTTTATTCTTA
159841 TTTTAACTTAAAAA-ATATTTT-TTCTTA
1 TTTTAACTTAAAAATATATTTTATTCTTA
*
159868 TATTAACCTTTAAAAATATATTT
1 TTTTAA-C-TTAAAAATATATTT
159891 CATAAGTTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 10 0.15
28 7 0.11
29 12 0.18
30 35 0.54
31 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTTAACTTAAAAATATATTTTATTCTTA
Found at i:159891 original size:27 final size:27
Alignment explanation
Indices: 159836--159891 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
159826 TACATTTTAA
* *
159836 TCTTATTTTAACTTAAAAAATATTTTT
1 TCTTATATTAACTTAAAAAATATTATT
*
159863 TCTTATATTAACCTTTAAAAATA-TATT
1 TCTTATATTAA-CTTAAAAAATATTATT
159890 TC
1 TC
159892 ATAAGTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.52
Consensus pattern (27 bp):
TCTTATATTAACTTAAAAAATATTATT
Found at i:161268 original size:2 final size:2
Alignment explanation
Indices: 161261--161291 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
161251 CTTTCTATCA
161261 AT 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 AT A
161292 GTTGAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:169964 original size:54 final size:54
Alignment explanation
Indices: 169895--169997 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
169885 TGTCTGTTTG
169895 CCTCAATCACATTTGAACTAAAGAAAATGCCCGATTTATCAAAGTTAATGTTCA
1 CCTCAATCACATTTGAACTAAAGAAAATGCCCGATTTATCAAAGTTAATGTTCA
* *
169949 CCTCAATCACGTTTGAACTAAAGAAAATGTCCGATTTATCAAAGTTAAT
1 CCTCAATCACATTTGAACTAAAGAAAATGCCCGATTTATCAAAGTTAAT
169998 TAACTAACCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (54 bp):
CCTCAATCACATTTGAACTAAAGAAAATGCCCGATTTATCAAAGTTAATGTTCA
Found at i:175081 original size:15 final size:15
Alignment explanation
Indices: 175058--175087 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
175048 TAATTTACCC
*
175058 TAAATTTAAATTATT
1 TAAAATTAAATTATT
175073 TAAAATTAAATTATT
1 TAAAATTAAATTATT
175088 AATTTAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAAATTAAATTATT
Found at i:175094 original size:19 final size:20
Alignment explanation
Indices: 175070--175107 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
175060 AATTTAAATT
*
175070 ATTTAAAATTAA-ATTATTA
1 ATTTAAAACTAATATTATTA
175089 ATTTAAAACTAATATTATT
1 ATTTAAAACTAATATTATT
175108 TTAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAAAACTAATATTATTA
Found at i:175198 original size:22 final size:21
Alignment explanation
Indices: 175142--175218 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 21
175132 AGAAATAAAT
175142 AAATATTTTTATAATATTATA
1 AAATATTTTTATAATATTATA
175163 AATATACTTTTTATAATTATT-TCA
1 AA-ATA-TTTTTATAA-TATTAT-A
* * *
175187 TAATATTTTTATAAAAATATA
1 AAATATTTTTATAATATTATA
175208 AAA-ATTATTTA
1 AAATATT-TTTA
175219 ATTATTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 13 0.28
23 13 0.28
24 6 0.13
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATATTTTTATAATATTATA
Found at i:177856 original size:23 final size:23
Alignment explanation
Indices: 177822--177889 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
177812 GTTGAGGGTT
*
177822 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTTGGGACAAAC
* *
177845 CTATGTGTTCCTTTGGGACAAGC
1 CTATGTGGTCCTTTGGGACAAAC
*
177868 CTATCTGGTCCTTTGGGACAAA
1 CTATGTGGTCCTTTGGGACAAA
177890 TATGTGACAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCCTTTGGGACAAAC
Found at i:179909 original size:21 final size:21
Alignment explanation
Indices: 179877--179929 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
179867 TAATGAATTA
*
179877 TTATTATTTATT-TGTTTTTG
1 TTATTATATATTATGTTTTTG
179897 TTATATATATATTATGTTTTAT-
1 TTAT-TATATATTATGTTTT-TG
*
179919 TAATTATATAT
1 TTATTATATAT
179930 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 14 0.50
22 9 0.32
23 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (21 bp):
TTATTATATATTATGTTTTTG
Found at i:179930 original size:2 final size:2
Alignment explanation
Indices: 179923--179978 Score: 55
Period size: 2 Copynumber: 28.5 Consensus size: 2
179913 TTTTATTAAT
*
179923 TA TA TA TA TA TA TA TA TA TT TA TCA T- TA GTA T- TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA
*
179964 TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA T
179979 TTCCTATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
1 3 0.07
2 38 0.84
3 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:179991 original size:33 final size:31
Alignment explanation
Indices: 179898--180062 Score: 86
Period size: 33 Copynumber: 5.0 Consensus size: 31
179888 TTGTTTTTGT
*
179898 TATATATATA-TTATGTTTTATTAATTATATATA
1 TATATATATATTTATATTTTATT--TTAT-TATA
*
179931 TATATATATATTTATCA--TTAGTATTATTATA
1 TATATATATATTTAT-ATTTTA-TTTTATTATA
179962 TATATATATATTTATATTTCCTATTTTATTTCCTATA
1 TATATATATATTTATATTT--TATTTTA--T--TATA
* ** * * *
179999 TGTATATATACATATATTTTACCTTTGATTTTC
1 TATATATATATTTATATTTTA--TTTTATTATA
*
180032 TATTATATTTATTT-TATTTTATTATTATTAT
1 TA-TATATATATTTATATTTTATT-TTATTAT
180063 TTTACTTATA
Statistics
Matches: 102, Mismatches: 15, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
30 1 0.01
31 21 0.21
32 10 0.10
33 27 0.26
34 15 0.15
35 4 0.04
37 24 0.24
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.59
Consensus pattern (31 bp):
TATATATATATTTATATTTTATTTTATTATA
Done.