Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007891.1 Hibiscus syriacus cultivar Beakdansim tig00110273_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: 893409
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:1327 original size:55 final size:55
Alignment explanation
Indices: 1231--1762 Score: 746
Period size: 55 Copynumber: 9.7 Consensus size: 55
1221 CTACCAATAT
* * * * ** * * *
1231 GGAAATTTATACACTTAGTATAAATTTCCTAGGTTTGCACATATATTGCCCATAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
* * *
1286 AGAAATTCATCAACTTATTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
*
1341 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTAAACATATA--GCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
* * *
1394 GGAAATTCATCCACTTAATATGAATTTCTTAATTTTAAACATATAGCGCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
* *
1449 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTTCCCATAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
*
1504 GAAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
* * * *
1559 AGAAATTCATTCACTTAGTATGAATTTCTTAAATTTACACATATAGTTCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
* * *
1614 GGAAAATCATCCACTTAGTATAAATTTCTTAAGTTTTACGCATATAGTGCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAA-TTTTACACATATAGTGCCCATAC
* *
1670 GAAAATTCATCCACTTAGTATGAATTTCTTAATTTTTACACATATAGTGCCTATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAA-TTTTACACATATAGTGCCCATAC
*
1726 GGAAATTCATCCACTTCA-TATGAATTTCCTAAGTTTT
1 GGAAATTCATCCACTT-AGTATGAATTTCTTAA-TTTT
1763 TGCACAGTTA
Statistics
Matches: 427, Mismatches: 46, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
53 52 0.12
55 272 0.64
56 102 0.24
57 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (55 bp):
GGAAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAC
Found at i:2160 original size:19 final size:20
Alignment explanation
Indices: 2117--2171 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
2107 TACGCCTACC
2117 ATGGTATCGATACTACCATACT
1 ATGGTATCGATAC--CCATACT
*
2139 ATGGTATCGATACCCA-ATT
1 ATGGTATCGATACCCATACT
*
2158 ATGGTATTGATACC
1 ATGGTATCGATACC
2172 ATTTTTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 15 0.48
20 3 0.10
22 13 0.42
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGGTATCGATACCCATACT
Found at i:4520 original size:51 final size:50
Alignment explanation
Indices: 4417--4526 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 50
4407 TTTATTTTAA
* *
4417 TTTAGTCACTATTAATTTCTGATTTAGCTACTATTATTTTAATTTTTGCAT
1 TTTAGTCACTATTAATTTCTGATTTAACTACTA-TATTTTAATTTTTACAT
* * * *
4468 TTTGGTCACTATTTATTTCTTATTTAACTACTA-ACTTTTATTTTCTTACAT
1 TTTAGTCACTATTAATTTCTGATTTAACTACTATA-TTTTAATTT-TTACAT
4519 TTTAGTCA
1 TTTAGTCA
4527 TTACTATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 1 0.02
50 8 0.16
51 41 0.82
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.55
Consensus pattern (50 bp):
TTTAGTCACTATTAATTTCTGATTTAACTACTATATTTTAATTTTTACAT
Found at i:7065 original size:13 final size:13
Alignment explanation
Indices: 7048--7079 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7038 TTGCATCTCA
7048 CATTTTGCACACC
1 CATTTTGCACACC
*
7061 TATTTTGCACACC
1 CATTTTGCACACC
7074 CATTTT
1 CATTTT
7080 TCATTTGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.41
Consensus pattern (13 bp):
CATTTTGCACACC
Found at i:8397 original size:17 final size:18
Alignment explanation
Indices: 8359--8410 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
8349 AAAAATATAT
*
8359 AAAAGAAATAAA-AAAGAG
1 AAAAGAAAGAAAGAAA-AG
*
8377 AAAAGAGA-AAAGAAAAG
1 AAAAGAAAGAAAGAAAAG
8394 AAAAGAAAGAAAGAAAA
1 AAAAGAAAGAAAGAAAA
8411 CGGGTCAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (18 bp):
AAAAGAAAGAAAGAAAAG
Found at i:8406 original size:25 final size:25
Alignment explanation
Indices: 8359--8407 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8349 AAAAATATAT
*
8359 AAAAGAAATAAAAAAGAGAAAAGAG
1 AAAAGAAATAAAAAAGAAAAAAGAG
*
8384 AAAAGAAA-AGAAAAGAAAGAAAGA
1 AAAAGAAATAAAAAAGAAA-AAAGA
8408 AAACGGGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (25 bp):
AAAAGAAATAAAAAAGAAAAAAGAG
Found at i:10532 original size:102 final size:103
Alignment explanation
Indices: 10305--10663 Score: 399
Period size: 102 Copynumber: 3.4 Consensus size: 103
10295 CCCAAACAAC
* * *
10305 ATGATGATTTCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTAGGGGGTTTCTTGATTTTTT
1 ATGATGATTTCCAATGAATTTTTAAAA-AAACTAAGCCTAA-TTT-----GTTTCTTGATGTTTT
* * *
10370 CAAATGAGTCTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTG
59 CAAATGAGTTTTTAGAAACTAAGACTGATTTTTAGGGGTTTCTTG
*
10415 ATGATGATTTCCAATGAATTTTTAAAAGAAGCTAAGCCTAA-TT-TTTCTTGATGTTTTCAAATG
1 ATGATGATTTCCAATGAATTTTTAAAA-AAACTAAGCCTAATTTGTTTCTTGATGTTTTCAAATG
* * *
10478 AGTTTTTAGAAACTAAGGCAGATTTTTAGGGGTTTGTTG
65 AGTTTTTAGAAACTAAGACTGATTTTTAGGGGTTTCTTG
10517 ATGATGATTTCCAATG-A--TTTAAAAAAACTAAGCCTAATTTTTAAGGGTTTCTTGATGTTTTC
1 ATGATGATTTCCAATGAATTTTTAAAAAAACTAAGCCTAA--TTT----GTTTCTTGATGTTTTC
*
10579 AAATGAGTTTTTAGAAACTAAGACTGATCTTTA-GGGTTTCTTG
60 AAATGAGTTTTTAGAAACTAAGACTGATTTTTAGGGGTTTCTTG
* * * *
10622 ATGATTATTTCCAAAGACA-TTTTAAATAAATTAAGCCTAATT
1 ATGATGATTTCCAATGA-ATTTTTAAAAAAACTAAGCCTAATT
10664 CTTAGGGGTT
Statistics
Matches: 222, Mismatches: 16, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
98 12 0.05
99 7 0.03
101 3 0.01
102 69 0.31
105 23 0.10
106 47 0.21
107 1 0.00
108 20 0.09
110 40 0.18
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (103 bp):
ATGATGATTTCCAATGAATTTTTAAAAAAACTAAGCCTAATTTGTTTCTTGATGTTTTCAAATGA
GTTTTTAGAAACTAAGACTGATTTTTAGGGGTTTCTTG
Found at i:10557 original size:54 final size:54
Alignment explanation
Indices: 10325--10684 Score: 227
Period size: 52 Copynumber: 6.8 Consensus size: 54
10315 CAAATGAATT
* * *
10325 TTTAAAAGAAGCTAAGCCTAA-TTTTAGGGGGTTTCTTGAT--TTTTTCAAATGAG
1 TTTAAAA-AAACTAAGCCTAATTTTTA-GGGGTTTCTTGATGATATTTCCAATGAG
* * * * *
10378 TCTT-TAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTCCAATGAATT
1 T-TTAAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGAT-ATTTCCAATG-A-G
* *
10435 TTTAAAAGAAGCTAAGCCTAA---TT-----TTTCTTGATG-T-TTTCAAATGAG
1 TTTAAAA-AAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATATTTCCAATGAG
** * * *
10480 TTTTTAGAAACTAAGGC-AGATTTTTAGGGGTTTGTTGATGATGATTTCCAATGA-
1 TTTAAAAAAACTAAGCCTA-ATTTTTAGGGGTTTCTTGATGAT-ATTTCCAATGAG
* *
10534 TTTAAAAAAACTAAGCCTAATTTTTAAGGGTTTCTTGATG-T-TTTCAAATGAG
1 TTTAAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATATTTCCAATGAG
** * * * * * *
10586 TTTTTAGAAACTAAGACTGATCTTTA-GGGTTTCTTGATGATTATTTCCAAAGACAT
1 TTTAAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGA-TATTTCCAATG--AG
* * *
10642 TTTAAATAAATTAAGCCTAATTCTTAGGGGTTTCTTGATGATA
1 TTTAAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATA
10685 ATTGAAAATG
Statistics
Matches: 232, Mismatches: 46, Indels: 55
0.70 0.14 0.17
Matches are distributed among these distances:
43 1 0.00
44 9 0.04
45 4 0.02
46 1 0.00
47 10 0.04
49 1 0.00
50 10 0.04
51 22 0.09
52 53 0.23
53 9 0.04
54 42 0.18
55 19 0.08
56 24 0.10
57 16 0.07
58 11 0.05
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.41
Consensus pattern (54 bp):
TTTAAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATATTTCCAATGAG
Found at i:11117 original size:38 final size:39
Alignment explanation
Indices: 10989--11348 Score: 521
Period size: 39 Copynumber: 9.3 Consensus size: 39
10979 GAAAGATCAG
10989 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGA-TTT
*
11029 TATCTCGCTTGAGATAGTTTCACTCGAAATATAAGATTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
*
11068 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
*
11106 TATCTCGCTTGAGATAGTTTCACTCGAAATAAAAGA-TT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
* *
11144 TATCTCGCTTGAGATAGTTTCACTTGAAACAGAAGATTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
*
11183 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
* * *
11222 TATCTCACGTGAGATAGTTTCACTCAAAATAGAAGA-TT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
* * *
11260 TATATCGCCTGAGATAGTTTCACTTGAAATAGAAGATTT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
* * * * *
11299 TATCTTGCTTAAGATTGTTTTACTCGAAACAGAAGA-TT
1 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
*
11337 TATCTCACTTGA
1 TATCTCGCTTGA
11349 TATTTTTTTC
Statistics
Matches: 289, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
38 115 0.40
39 139 0.48
40 35 0.12
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (39 bp):
TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
Found at i:11142 original size:77 final size:77
Alignment explanation
Indices: 10989--11348 Score: 533
Period size: 77 Copynumber: 4.6 Consensus size: 77
10979 GAAAGATCAG
*
10989 TATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTTTTATCTCGCTTGAGATAGTTTCACTC
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA--TTTATCTCGCTTGAGATAGTTTCACTC
*
11054 GAAATATAAGATTT
64 GAAATAGAAGATTT
11068 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
*
11133 AATAAAAGA-TT
66 AATAGAAGATTT
*
11144 TATCTCGCTTGAGATAGTTTCACTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCG
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTATCTCGCTTGAGATAGTTTCACTCG
*
11209 AAACAGAAGATTT
65 AAATAGAAGATTT
* * * * * * *
11222 TATCTCACGTGAGATAGTTTCACTCAAAATAGAAGATTTATATCGCCTGAGATAGTTTCACTTGA
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
11287 AATAGAAGATTT
66 AATAGAAGATTT
* * * * *
11299 TATCTTGCTTAAGATTGTTTTACTCGAAACAGAAGATTTATCTCACTTGA
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCGCTTGA
11349 TATTTTTTTC
Statistics
Matches: 254, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
76 37 0.15
77 149 0.59
78 33 0.13
79 35 0.14
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (77 bp):
TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
AATAGAAGATTT
Found at i:11973 original size:96 final size:96
Alignment explanation
Indices: 11865--12057 Score: 325
Period size: 96 Copynumber: 2.0 Consensus size: 96
11855 CCTTACAAAA
*
11865 TAAGACCCAAAAAACTCGAACCAAATGCCTAAACACCAAAACTTGGGCAACCCCAAACCAGACCA
1 TAAGACCCAAAAAACTCGAACCAAATGCCTAAACACCAAAACTTAGGCAACCCCAAACCAGACCA
*
11930 AACCCA-TAGCCACCCAAACACCCCAATCAGT
66 AACCCATTA-CCACCCAAACACCCAAATCAGT
* * *
11961 TAAGACCCAAAAAACTCGAACCAAATGCCTAAATACCAAAACTTAGGTAACCCCAAACCAGACCC
1 TAAGACCCAAAAAACTCGAACCAAATGCCTAAACACCAAAACTTAGGCAACCCCAAACCAGACCA
12026 AACCCATTACCACCCAAACACCCAAATCAGT
66 AACCCATTACCACCCAAACACCCAAATCAGT
12057 T
1 T
12058 CGCAACTTGA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
96 89 0.98
97 2 0.02
ACGTcount: A:0.44, C:0.36, G:0.08, T:0.11
Consensus pattern (96 bp):
TAAGACCCAAAAAACTCGAACCAAATGCCTAAACACCAAAACTTAGGCAACCCCAAACCAGACCA
AACCCATTACCACCCAAACACCCAAATCAGT
Found at i:13624 original size:110 final size:110
Alignment explanation
Indices: 13387--13604 Score: 296
Period size: 110 Copynumber: 2.0 Consensus size: 110
13377 TTAAGTCCCT
* * *
13387 AAAC-TTTCCGTGTTTTTACAAAATGGTCACTGGAAGGGATCGTTTTTATAATTTTCCCATTTAC
1 AAACTTTTCCGTGTTTTTGCAAAATAGTCACTGGAAGGGATCGTTTTCATAATTTTCCCATTTAC
* *
13451 ATGTATGACTTGTATTTTTTTTGTAAAATATCATTCCAGGACCCC
66 ATGTATGACTTGTATATTTTTGGTAAAATATCATTCCAGGACCCC
* ** * *
13496 AAACTTTTCCGTGTTTTTGCAAAATAGTCATTGTCAGTGATTGTTTTCATAATTTTCCCATTTAC
1 AAACTTTTCCGTGTTTTTGCAAAATAGTCACTGGAAGGGATCGTTTTCATAATTTTCCCATTTAC
** * *
13561 ATGTATGTTTTGTA-ATTTTTGGTAAAATCTCATTCCAGGTCCCC
66 ATGTATGACTTGTATATTTTTGGTAAAATATCATTCCAGGACCCC
13605 CTACGTTTGT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 30 0.32
110 64 0.68
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.43
Consensus pattern (110 bp):
AAACTTTTCCGTGTTTTTGCAAAATAGTCACTGGAAGGGATCGTTTTCATAATTTTCCCATTTAC
ATGTATGACTTGTATATTTTTGGTAAAATATCATTCCAGGACCCC
Found at i:20813 original size:16 final size:17
Alignment explanation
Indices: 20792--20825 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20782 GAGGTGTCAC
*
20792 ATTTACTT-TTCAAAAT
1 ATTTACTTGTACAAAAT
20808 ATTTACTTGTACAAAAT
1 ATTTACTTGTACAAAAT
20825 A
1 A
20826 GTGAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTTACTTGTACAAAAT
Found at i:21550 original size:31 final size:31
Alignment explanation
Indices: 21512--21665 Score: 236
Period size: 31 Copynumber: 5.0 Consensus size: 31
21502 CCCCAAGAAC
* *
21512 CAGTCCATATGTTCTAAAGAACATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAAT
* *
21543 CAGTCCATATATCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAAT
*
21574 CAATCCATATGTCCCAAAGAACATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAAT
* *
21605 TAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAAT
*
21636 CTGTCCATATGTCCCAAAGAACATAGGTAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAA
21666 CCCTCGACTC
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (31 bp):
CAGTCCATATGTCCCAAAGAACATAGGTAAT
Found at i:22995 original size:30 final size:31
Alignment explanation
Indices: 22933--23001 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
22923 CAACCATTCA
*
22933 TAACTTTTCCAAAATTACTGAATTGGTCCCC
1 TAACTTTTCAAAAATTACTGAATTGGTCCCC
22964 TAACTTTTCAAAATATTA-TAGAA-TGGT-CCC
1 TAACTTTTCAAAA-ATTACT-GAATTGGTCCCC
*
22994 TAAATTTT
1 TAACTTTT
23002 ATAAGGCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 10 0.29
31 17 0.50
32 7 0.21
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (31 bp):
TAACTTTTCAAAAATTACTGAATTGGTCCCC
Found at i:24704 original size:8 final size:8
Alignment explanation
Indices: 24691--24757 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 8
24681 CTCTCATCTT
24691 TTTTTTCA
1 TTTTTTCA
24699 TTTTTTTTCA
1 --TTTTTTCA
24709 TTTTTTCA
1 TTTTTTCA
24717 ----TTCA
1 TTTTTTCA
24721 TTTTTTTCA
1 -TTTTTTCA
24730 TTTTTT-A
1 TTTTTTCA
24737 TTTTTTTCA
1 -TTTTTTCA
24746 -TTTTTCA
1 TTTTTTCA
24753 TTTTT
1 TTTTT
24758 CTTCTTCTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
4 4 0.08
7 8 0.16
8 24 0.49
9 5 0.10
10 8 0.16
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:24704 original size:9 final size:9
Alignment explanation
Indices: 24690--24750 Score: 72
Period size: 10 Copynumber: 6.6 Consensus size: 9
24680 TCTCTCATCT
24690 TTTTTTTCA
1 TTTTTTTCA
24699 TTTTTTTTCA
1 -TTTTTTTCA
24709 TTTTTTCATTCA
1 -TTTTT--TTCA
24721 TTTTTTTCA
1 TTTTTTTCA
24730 -TTTTTT-A
1 TTTTTTTCA
24737 TTTTTTTCA
1 TTTTTTTCA
24746 TTTTT
1 TTTTT
24751 CATTTTTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
7 1 0.02
8 12 0.26
9 10 0.21
10 15 0.32
11 5 0.11
12 4 0.09
ACGTcount: A:0.11, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:24709 original size:22 final size:21
Alignment explanation
Indices: 24695--24735 Score: 73
Period size: 21 Copynumber: 1.9 Consensus size: 21
24685 CATCTTTTTT
24695 TTCATTTTTTTTCATTTTTTCA
1 TTCA-TTTTTTTCATTTTTTCA
24717 TTCATTTTTTTCATTTTTT
1 TTCATTTTTTTCATTTTTT
24736 ATTTTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCATTTTTTTCATTTTTTCA
Found at i:24858 original size:141 final size:138
Alignment explanation
Indices: 24709--24987 Score: 411
Period size: 140 Copynumber: 2.0 Consensus size: 138
24699 TTTTTTTTCA
* *
24709 TTTTTTCA-TTCA-TTTTTTTCATTTTTTATTTTTTTCATTTTTCATTTTTCTTCTTCTTCTTT-
1 TTTTTTCATTTCATTTTTTTTC-TTTTTT-CTTTTTTC-TTTTTC-TTTTTCTTCTACTT-TTTC
* *
24771 TTCTTTCTTCTTTCTCGTTTTTTAGTTCGTATGCCTTCTGCAGAGATAACATGACCAAGAAAAAC
61 TTCTTTCTTCTTTCTCATTTTTTA-ATCGTATGCCTTCTGCAGAGATAACATGACCAAGAAAAAC
*
24836 AACTTCTGACAGTT
125 AAATTCTGACAGTT
*
24850 TTTTTTCATTTTTCATTTTTTTTCTTTTTTCTTTTTTCTTTTTCTTTTTTTTCTACTTTTTCTTC
1 TTTTTTCA--TTTCATTTTTTTTCTTTTTTCTTTTTTCTTTTTCTTTTTCTTCTACTTTTTCTTC
24915 TTTCTTCTTTCTCATTTTTTAATCGTATGCCTTCTGCAGAGATAACATGACCAAGAAAAACAAAT
64 TTTCTTCTTTCTCATTTTTTAATCGTATGCCTTCTGCAGAGATAACATGACCAAGAAAAACAAAT
24980 TCTGACAG
129 TCTGACAG
24988 CCAAAACTCG
Statistics
Matches: 127, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
140 53 0.42
141 43 0.34
142 6 0.05
143 7 0.06
144 10 0.08
145 8 0.06
ACGTcount: A:0.19, C:0.18, G:0.07, T:0.56
Consensus pattern (138 bp):
TTTTTTCATTTCATTTTTTTTCTTTTTTCTTTTTTCTTTTTCTTTTTCTTCTACTTTTTCTTCTT
TCTTCTTTCTCATTTTTTAATCGTATGCCTTCTGCAGAGATAACATGACCAAGAAAAACAAATTC
TGACAGTT
Found at i:24877 original size:7 final size:7
Alignment explanation
Indices: 24867--24926 Score: 66
Period size: 7 Copynumber: 8.1 Consensus size: 7
24857 ATTTTTCATT
24867 TTTTTTC
1 TTTTTTC
24874 TTTTTTC
1 TTTTTTC
24881 TTTTTTC
1 TTTTTTC
*
24888 TTTTTCTT
1 TTTTT-TC
24896 TTTTTTC
1 TTTTTTC
24903 TACTTTTTC
1 T--TTTTTC
*
24912 TTCTTTC
1 TTTTTTC
*
24919 TTCTTTC
1 TTTTTTC
24926 T
1 T
24927 CATTTTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
7 34 0.72
8 6 0.13
9 7 0.15
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:24877 original size:24 final size:23
Alignment explanation
Indices: 24853--24933 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 23
24843 GACAGTTTTT
*
24853 TTTCATTTTTCATTTTTTTTCTTT
1 TTTCATTTTTC-TTTTTCTTCTTT
*
24877 TTTCTTTTTTCTTTTTCTT-TTT
1 TTTCATTTTTCTTTTTCTTCTTT
24899 TTTCTACTTTTTCTTCTTTCTTC-TT
1 TTTC-A-TTTTTCTT-TTTCTTCTTT
*
24924 TCTCATTTTT
1 TTTCATTTTT
24934 TAATCGTATG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.14
23 12 0.24
24 19 0.39
25 11 0.22
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCATTTTTCTTTTTCTTCTTT
Found at i:25026 original size:140 final size:143
Alignment explanation
Indices: 24738--25026 Score: 311
Period size: 140 Copynumber: 2.0 Consensus size: 143
24728 CATTTTTTAT
* * *
24738 TTTTTTCATTTTTCATTTTTCTTCTTCTTCTTTTTCTTTCTTCTTTCTCGTTTTTTAGTTCGTAT
1 TTTTTTCATTTTTCATTTTTCTTCTACTTCTTTTTCTTTCTTCTTTCTCATTTTTTAGATCGTAT
* ***** ** * *
24803 GCCTTCTGCAGAGATAACATGACCAAGAAAAACAACTTCTGACAGTTTTTTTTCATTTTTCATTT
66 GCCTTCTGCAGAGATAACATGACCAAGAAAAACAAATTCTGACAGAAAACTCGCATCTTTCATGT
** * * **
24868 TTTTTCTTTTTTC
131 TTGGTCATATAAC
*
24881 TTTTTTC-TTTTTC-TTTTTTTTCTACTT-TTTCTTCTTTCTTCTTTCTCATTTTTTA-ATCGTA
1 TTTTTTCATTTTTCATTTTTCTTCTACTTCTTT-TTCTTTCTTCTTTCTCATTTTTTAGATCGTA
*
24942 TGCCTTCTGCAGAGATAACATGACCAAGAAAAACAAATTCTGACAGCCAAAACTCGCA-CTTTGA
65 TGCCTTCTGCAGAGATAACATGACCAAGAAAAACAAATTCTGACAG--AAAACTCGCATCTTTCA
25006 TAGTTTGGT-ATATAAC
128 T-GTTTGGTCATATAAC
25022 TTTTT
1 TTTTT
25027 ACCCTTAAGT
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
140 53 0.44
141 48 0.40
142 13 0.11
143 7 0.06
ACGTcount: A:0.20, C:0.19, G:0.09, T:0.52
Consensus pattern (143 bp):
TTTTTTCATTTTTCATTTTTCTTCTACTTCTTTTTCTTTCTTCTTTCTCATTTTTTAGATCGTAT
GCCTTCTGCAGAGATAACATGACCAAGAAAAACAAATTCTGACAGAAAACTCGCATCTTTCATGT
TTGGTCATATAAC
Found at i:27896 original size:31 final size:31
Alignment explanation
Indices: 27855--28070 Score: 344
Period size: 31 Copynumber: 7.0 Consensus size: 31
27845 CCCGAAAGAC
* *
27855 CAGTCCATATGTCCCAAATAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
*
27886 CAGTCTATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
*
27917 CAGTCCATATGTCCCAAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
27948 CAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
* *
27979 TAGTCTATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
28010 CAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
* *
28041 -ATGTCCATATGTCCCAAACAACATAGGTAA
1 CA-GTCCATATGTCCCGAAGAACATAGGTAA
28071 CCCTTGACTC
Statistics
Matches: 172, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
30 1 0.01
31 171 0.99
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAT
Found at i:29336 original size:31 final size:31
Alignment explanation
Indices: 29301--29485 Score: 266
Period size: 31 Copynumber: 6.0 Consensus size: 31
29291 CCCCAAGAAC
29301 CAGTCCATATGTCCCAAAGAACATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAAT
* *
29332 CAGTCCATATATCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAAT
* * * *
29363 CAGTTCATATATCCCGAAGAACATAGGTAAC
1 CAGTCCATATGTCCCAAAGAACATAGGTAAT
29394 CAGTCCATATGTCCCGAAA-AACATAGGTAAT
1 CAGTCCATATGTCCC-AAAGAACATAGGTAAT
* *
29425 CAATCCATATGTCCCAGAGAACATAGGTAAT
1 CAGTCCATATGTCCCAAAGAACATAGGTAAT
29456 -ATGTCCATATGTCCCAAAGAACATAGGTAA
1 CA-GTCCATATGTCCCAAAGAACATAGGTAA
29486 CCCTCGACTT
Statistics
Matches: 139, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
30 3 0.02
31 134 0.96
32 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (31 bp):
CAGTCCATATGTCCCAAAGAACATAGGTAAT
Found at i:30380 original size:2 final size:2
Alignment explanation
Indices: 30373--30398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30363 TTTCATAACG
30373 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
30399 GTTAGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32166 original size:2 final size:2
Alignment explanation
Indices: 32159--32219 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
32149 TAGATTTTAT
32159 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
32201 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
32220 TATTTAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32370 original size:22 final size:23
Alignment explanation
Indices: 32335--32389 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
32325 TATTATATAT
32335 ATATATATATATATATTAGTTAAA
1 ATAT-TATATATATATTAGTTAAA
*
32359 ATATTATA-ATATCTTAGTTAAA
1 ATATTATATATATATTAGTTAAA
32381 ATATTATAT
1 ATATTATAT
32390 GTATCAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 21 0.72
23 4 0.14
24 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATTATATATATATTAGTTAAA
Found at i:39743 original size:23 final size:21
Alignment explanation
Indices: 39712--39767 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
39702 ATGAAAGTAC
*
39712 ATAAATAAAAAAAGGAAAAATAA
1 ATAAGTAAAAAAA-GAAAAA-AA
* *
39735 ATAAGTAAAATAAGATAAAAA
1 ATAAGTAAAAAAAGAAAAAAA
39756 ATAAAGTAAAAA
1 AT-AAGTAAAAA
39768 TAAAAAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.14
22 13 0.46
23 11 0.39
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (21 bp):
ATAAGTAAAAAAAGAAAAAAA
Found at i:39744 original size:22 final size:21
Alignment explanation
Indices: 39719--39861 Score: 55
Period size: 22 Copynumber: 6.6 Consensus size: 21
39709 TACATAAATA
39719 AAAAAAGGAAAAATAAAT-AAGT
1 AAAAAA-GAAAAA-AAATAAAGT
*
39741 AAAATAAGATAAAAAATAAAGT
1 AAAA-AAGAAAAAAAATAAAGT
* *
39763 AAAAATA-AAAAATTAATAAAAT
1 AAAAA-AGAAAAA-AAATAAAGT
* * * *
39785 AAATAA-AATAAAGAT-AAGA
1 AAAAAAGAAAAAAAATAAAGT
* *
39804 AATAAAAGAAATAAAAGTAAAAAT
1 AA-AAAAGAAA-AAAAAT-AAAGT
39828 AAACAAAGAAAACAAAA-AAA-T
1 AAA-AAAGAAAA-AAAATAAAGT
*
39849 AAAGAAATAAAAA
1 AAA-AAAGAAAAA
39862 CAAAAAAAAA
Statistics
Matches: 91, Mismatches: 19, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
19 4 0.04
20 6 0.07
21 27 0.30
22 36 0.40
23 4 0.04
24 14 0.15
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (21 bp):
AAAAAAGAAAAAAAATAAAGT
Found at i:39793 original size:36 final size:36
Alignment explanation
Indices: 39712--39830 Score: 111
Period size: 36 Copynumber: 3.2 Consensus size: 36
39702 ATGAAAGTAC
* *
39712 ATAAATAAAA-AAAGGAAAAATAAATAAGTAAAATA
1 ATAAATAAAATAAAGTAAAAATAAAAAAGTAAAATA
* *
39747 AGATAA-AAAATAAAGTAAAAATAAAAAATTAATAA-A
1 ATA-AATAAAATAAAGTAAAAATAAAAAAGTAA-AATA
*
39783 ATAAATAAAATAAAGATAAGAAATAAAAGAAATAAAAGTA
1 ATAAATAAAATAAAG-TAA-AAATAAAA-AAGTAAAA-TA
39823 A-AAATAAA
1 ATAAATAAA
39831 CAAAGAAAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
35 8 0.12
36 32 0.46
37 5 0.07
38 10 0.14
39 12 0.17
40 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.18
Consensus pattern (36 bp):
ATAAATAAAATAAAGTAAAAATAAAAAAGTAAAATA
Found at i:39796 original size:9 final size:9
Alignment explanation
Indices: 39729--39851 Score: 65
Period size: 9 Copynumber: 13.3 Consensus size: 9
39719 AAAAAAGGAA
39729 AAAT-AAAT
1 AAATAAAAT
*
39737 AAGTAAAAT
1 AAATAAAAT
39746 AAGATAAAAAAT
1 AA-AT--AAAAT
39758 AAAGTAAAA-
1 AAA-TAAAAT
39767 ATAA-AAAAT
1 A-AATAAAAT
*
39776 TAATAAAAT
1 AAATAAAAT
39785 AAATAAAAT
1 AAATAAAAT
* * *
39794 AAAGATAAG
1 AAATAAAAT
*
39803 AAATAAAAG
1 AAATAAAAT
39812 AAATAAAAGT
1 AAATAAAA-T
* *
39822 AAAAATAAAC
1 AAATA-AAAT
* *
39832 AAAGAAAAC
1 AAATAAAAT
39841 AAA-AAAAT
1 AAATAAAAT
39849 AAA
1 AAA
39852 GAAATAAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
8 16 0.18
9 48 0.53
10 15 0.16
11 4 0.04
12 8 0.09
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (9 bp):
AAATAAAAT
Found at i:39816 original size:31 final size:31
Alignment explanation
Indices: 39754--39868 Score: 85
Period size: 31 Copynumber: 3.7 Consensus size: 31
39744 ATAAGATAAA
* *
39754 AAATAAAGTAAAAATAAAAAATTAATAAAAT
1 AAATAAAATAAAAATAAAAAATTAAAAAAAT
* *
39785 AAATAAAATAAAGATAAGAAA-TAAAAGAAAT
1 AAATAAAATAAAAATAAAAAATTAAAA-AAAT
* *
39816 AAAAGTAAAAATAAACAA-AGAAAA-CAAAAAAAT
1 -AAA-T-AAAATAAA-AATAAAAAATTAAAAAAAT
* *
39849 AAA-GAAATAAAAACAAAAAA
1 AAATAAAATAAAAATAAAAAA
39869 AAATCATAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.03
29 12 0.18
30 4 0.06
31 22 0.32
32 6 0.09
33 5 0.07
34 16 0.24
35 1 0.01
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (31 bp):
AAATAAAATAAAAATAAAAAATTAAAAAAAT
Found at i:39862 original size:22 final size:21
Alignment explanation
Indices: 39822--39869 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
39812 AAATAAAAGT
*
39822 AAAAATAAACAAAGAAAACAA
1 AAAAATAAACAAAAAAAACAA
*
39843 AAAAATAAAGAAATAAAAACAA
1 AAAAATAAACAAA-AAAAACAA
39865 AAAAA
1 AAAAA
39870 AATCATAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.83, C:0.06, G:0.04, T:0.06
Consensus pattern (21 bp):
AAAAATAAACAAAAAAAACAA
Found at i:39866 original size:21 final size:21
Alignment explanation
Indices: 39780--39868 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 21
39770 AAAAATTAAT
* * *
39780 AAAATAAATAAAATAAAGATAA
1 AAAATAAA-GAAATAAAAACAA
* **
39802 GAAATAAAAGAAAT-AAAAGTA
1 AAAAT-AAAGAAATAAAAACAA
* *
39823 AAAATAAACAAA-GAAAACAAA
1 AAAATAAAGAAATAAAAAC-AA
39844 AAAATAAAGAAATAAAAACAA
1 AAAATAAAGAAATAAAAACAA
39865 AAAA
1 AAAA
39869 AAATCATAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
20 10 0.19
21 26 0.50
22 13 0.25
23 3 0.06
ACGTcount: A:0.79, C:0.03, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAATAAAGAAATAAAAACAA
Found at i:40196 original size:18 final size:18
Alignment explanation
Indices: 40173--40213 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
40163 TTAGTAAAGT
* *
40173 AAAAATAATAATAAGAAG
1 AAAAATAACAAGAAGAAG
*
40191 AAAAATGACAAGAAGAAG
1 AAAAATAACAAGAAGAAG
40209 AAAAA
1 AAAAA
40214 AAGAGGTATA
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:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (18 bp):
AAAAATAACAAGAAGAAG
Found at i:40292 original size:3 final size:3
Alignment explanation
Indices: 40284--40374 Score: 53
Period size: 3 Copynumber: 29.3 Consensus size: 3
40274 AAATATATAT
* * * *
40284 ATA ATA ATA ATA AGA GCTAA ATA A-A AAA ATAA ATA CATA TATA AAA
1 ATA ATA ATA ATA ATA -AT-A ATA ATA ATA AT-A ATA -ATA -ATA ATA
* *
40330 ATA ATA ATA A-A CATA AAA ATA ATA ATA ATG ATA ATA A-A ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
40374 A
1 A
40375 AAGGATTAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
2 5 0.07
3 51 0.75
4 11 0.16
5 1 0.01
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:40345 original size:18 final size:18
Alignment explanation
Indices: 40324--40375 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
40314 AAATACATAT
40324 ATAAAAATAATAATAAAC
1 ATAAAAATAATAATAAAC
**
40342 ATAAAAATAATAATAATG
1 ATAAAAATAATAATAAAC
*
40360 ATAATAA-AATAATAAA
1 ATAAAAATAATAATAAA
40376 AGGATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAAAAATAATAATAAAC
Found at i:40354 original size:64 final size:65
Alignment explanation
Indices: 40236--40358 Score: 153
Period size: 64 Copynumber: 1.9 Consensus size: 65
40226 ATAATATAAA
* * * *
40236 TAAATAAAAACAAAAAAATATATAGGAAAAATATAATTAAATATATATATAATAATAATAAGAGC
1 TAAATAAAAACAAAAAAACATATAGGAAAAATATAATTAAACATAAAAATAATAATAATAAGAGC
* *
40301 TAAATAAAAA-AATAAATACATATA-TAAAAATAATAA-TAAACATAAAAATAATAATAAT
1 TAAATAAAAACAA-AAAAACATATAGGAAAAAT-ATAATTAAACATAAAAATAATAATAAT
40359 GATAATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
64 27 0.54
65 23 0.46
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (65 bp):
TAAATAAAAACAAAAAAACATATAGGAAAAATATAATTAAACATAAAAATAATAATAATAAGAGC
Found at i:41449 original size:14 final size:14
Alignment explanation
Indices: 41430--41460 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
41420 ATAAGTATCC
41430 ATATAATTAATATA
1 ATATAATTAATATA
*
41444 ATATAATTAATGTA
1 ATATAATTAATATA
41458 ATA
1 ATA
41461 CATATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
ATATAATTAATATA
Found at i:42198 original size:110 final size:116
Alignment explanation
Indices: 42052--42343 Score: 337
Period size: 123 Copynumber: 2.5 Consensus size: 116
42042 AAACTAGGAA
* * * * *
42052 GCCCCTTTGCTGTGAAGTTGAGCTTTGAGTTGGATATCCTTCGTTGTGAAATTGAAATCCAATCT
1 GCCCCTTCGTTGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCT
** *
42117 -AG-A-G-T-T-GGCACGATATCCTTTGTCATGAAGTTGAAATCGTGGATG
66 AAGAATGTTGTGGGCACGATATCCTTCATCATGAAGTTGAAATCATGGATG
* *
42162 GCCCCTTCGTTGTGAAGTTGAGCATTGAATTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCT
1 GCCCCTTCGTTGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCT
42227 GAAGATAAATGTTGTTGTGGGCACGATATCCTTCATCATGAAGTTGAAATCATGGATG
66 -AAG---AA---TGTTGTGGGCACGATATCCTTCATCATGAAGTTGAAATCATGGATG
* * **
42285 GCCCCCTCGTTGTGAAGTTGAGCCTTGAATTAAATATCCTTC-TTCGTGAAGTTGAAATC
1 GCCCCTTCGTTGTGAAGTTGAGCATTGAATTGGATATCCTTCGTT-GTGAAGTTGAAATC
42344 GTGGATGACC
Statistics
Matches: 152, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
110 58 0.38
112 2 0.01
116 1 0.01
120 1 0.01
121 1 0.01
122 2 0.01
123 87 0.57
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (116 bp):
GCCCCTTCGTTGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCT
AAGAATGTTGTGGGCACGATATCCTTCATCATGAAGTTGAAATCATGGATG
Found at i:42338 original size:66 final size:66
Alignment explanation
Indices: 42252--42409 Score: 235
Period size: 66 Copynumber: 2.4 Consensus size: 66
42242 TGTGGGCACG
* *
42252 ATATCCTTCATCATGAAGTTGAAATCATGGATGGCCCCCTCGTTGTGAAGTTGAGCCTTGAATTA
1 ATATCCTTCATCGTGAAGTTGAAATCATGGATGACCCCCTCGTTGTGAAGTTGAGCCTTGAATTA
42317 A
66 A
* * * * *
42318 ATATCCTTCTTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGTCTTGAATTG
1 ATATCCTTCATCGTGAAGTTGAAATCATGGATGACCCCCTCGTTGTGAAGTTGAGCCTTGAATTA
*
42383 G
66 A
*
42384 ATATCCTTCGTCGTGAAGTTGAAATC
1 ATATCCTTCATCGTGAAGTTGAAATC
42410 CAAGTATTGT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 83 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (66 bp):
ATATCCTTCATCGTGAAGTTGAAATCATGGATGACCCCCTCGTTGTGAAGTTGAGCCTTGAATTA
A
Found at i:42875 original size:138 final size:136
Alignment explanation
Indices: 42504--42878 Score: 432
Period size: 143 Copynumber: 2.7 Consensus size: 136
42494 TCGAGTTCAA
* * * *
42504 TATCCTTCGTTGTGAAGTTGAAATTGATTCTGAATGAAATTGAAAAAGTTTTTTGTTGGCAATCG
1 TATCCTTCGCTGTGAAGTTGAAATTGA-TCT-AATGAAACTG--AAAGTTTTTTGTTGACAGTCG
* * *
42569 CCCCTTCGCTGTAAAGTTGAGCTTTGAATTAGATATCATTCGTTGTGAAGTTGAAATCCAATCTT
62 CCCCTTCGCTGTGAAGTTGAGCTTTGAATTAGATATCATTCGTCGTGAAGTTAAAATCCAATCTT
42634 GTATAGTTTC
127 GTATAGTTTC
* * *
42644 AAGTCCAATATCAATCGCTGTGAAGTTAAAATTGA-CT-ATGAAACTAGAAAGTTGTTTGTTGAC
1 TA-TCC----T---TCGCTGTGAAGTTGAAATTGATCTAATGAAACT-GAAAGTTTTTTGTTGAC
* * * *
42707 AGTCGCCCCTTCGCTATGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTAAAATCTA
57 AGTCGCCCCTTCGCTGTGAAGTTGAGCTTTGAATTAGATATCATTCGTCGTGAAGTTAAAATCCA
*
42772 ATCTTGTGTAGTTT-
122 ATCTTGTATAGTTTC
*
42786 TATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATGAAACGTGAAAGTTTTTTGTTAACAGTCGC
1 TATCCTTCGCTGTGAAGTTGAAATTGA-TCT-AATGAAAC-TGAAAGTTTTTTGTTGACAGTCGC
*
42851 CCCTTCGTTGTGAAGTTGAGCTTTGAAT
63 CCCTTCGCTGTGAAGTTGAGCTTTGAAT
42879 CTAAAAGCTG
Statistics
Matches: 200, Mismatches: 21, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
134 20 0.10
136 2 0.01
137 1 0.00
138 54 0.27
139 1 0.00
140 1 0.00
141 6 0.03
142 1 0.00
143 84 0.42
144 7 0.04
145 2 0.01
146 2 0.01
148 19 0.09
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (136 bp):
TATCCTTCGCTGTGAAGTTGAAATTGATCTAATGAAACTGAAAGTTTTTTGTTGACAGTCGCCCC
TTCGCTGTGAAGTTGAGCTTTGAATTAGATATCATTCGTCGTGAAGTTAAAATCCAATCTTGTAT
AGTTTC
Found at i:43999 original size:101 final size:99
Alignment explanation
Indices: 43817--44029 Score: 279
Period size: 101 Copynumber: 2.1 Consensus size: 99
43807 AAGGGACAGC
* * * *
43817 TAAATA-TATAAAT-ACCTTTATCAGGTTAGTTTAATCTTATCCATAAAGTCGGGGCGTTTAACC
1 TAAATATTAT-AATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACC
*
43880 AATTACCTTAGAGGGACAGCTCAAGCTTTATTGTA
65 AATTACCTTAGAGCGACAGCTCAAGCTTTATTGTA
* *
43915 TATATATATTATAATCACCTTTATCAGGCTAGCTGAATTTTATCCATAATGCCGGGGCGTTTAAC
1 TA-A-ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAAC
* * *
43980 CAATT-GCTCTAGAGCGACAGTTCAAGCTTTATTGTG
64 CAATTACCT-TAGAGCGACAGCTCAAGCTTTATTGTA
44016 TAAATATTATAATC
1 TAAATATTATAATC
44030 TGGGTATACG
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
98 2 0.02
99 12 0.12
100 9 0.09
101 77 0.77
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (99 bp):
TAAATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCA
ATTACCTTAGAGCGACAGCTCAAGCTTTATTGTA
Found at i:47771 original size:36 final size:36
Alignment explanation
Indices: 47731--47807 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
47721 ATGAAAATAC
47731 ATAAATAAAAAAAGCAAA-A-AAAATAAGTAAAATGAG
1 ATAAA-AAAAAAAGCAAAGATAAAA-AAGTAAAATGAG
* * *
47767 ATAAAAAATAAAGTAAAGATAAAAAAGTAAAAT-AA
1 ATAAAAAAAAAAGCAAAGATAAAAAAGTAAAATGAG
47802 ATAAAA
1 ATAAAA
47808 TAAAGATAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 17 0.47
36 15 0.42
37 4 0.11
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.16
Consensus pattern (36 bp):
ATAAAAAAAAAAGCAAAGATAAAAAAGTAAAATGAG
Found at i:47788 original size:18 final size:19
Alignment explanation
Indices: 47750--47802 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
47740 AAAAGCAAAA
*
47750 AAAATAAGTAAAAT-GAGAT
1 AAAA-AAGTAAAATAAAGAT
*
47769 AAAAAA-TAAAGTAAAGAT
1 AAAAAAGTAAAATAAAGAT
47787 AAAAAAGTAAAATAAA
1 AAAAAAGTAAAATAAA
47803 TAAAATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 5 0.17
18 12 0.41
19 12 0.41
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (19 bp):
AAAAAAGTAAAATAAAGAT
Found at i:47795 original size:14 final size:14
Alignment explanation
Indices: 47776--47833 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
47766 GATAAAAAAT
47776 AAAGTAAAGATAAA
1 AAAGTAAAGATAAA
47790 AAAGTAAA-ATAAA
1 AAAGTAAAGATAAA
*
47803 TAAAATAAAGATAAGA
1 -AAAGTAAAGATAA-A
*
47819 AAATTAAAG-TAAA
1 AAAGTAAAGATAAA
47832 AA
1 AA
47834 TAAATAAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 8 0.21
14 18 0.46
15 12 0.31
16 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (14 bp):
AAAGTAAAGATAAA
Found at i:47804 original size:49 final size:47
Alignment explanation
Indices: 47746--47855 Score: 138
Period size: 48 Copynumber: 2.4 Consensus size: 47
47736 TAAAAAAAGC
* * *
47746 AAAA-AAAATAAGTAAAAT-GAGATAA-AAAA-TAAAGTAAAGATAA
1 AAAAGAAAATAAATAAAATAAAGATAAGAAAATTAAAGTAAAAATAA
47789 AAAAGTAAAATAAATAAAATAAAGATAAGAAAATTAAAGTAAAAATAA
1 AAAAG-AAAATAAATAAAATAAAGATAAGAAAATTAAAGTAAAAATAA
*
47837 ATAAAGAAAATAAAGAAAA
1 A-AAAGAAAATAAATAAAA
47856 ATAATCATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
43 4 0.07
45 13 0.23
46 6 0.11
47 4 0.07
48 26 0.46
49 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (47 bp):
AAAAGAAAATAAATAAAATAAAGATAAGAAAATTAAAGTAAAAATAA
Found at i:48146 original size:16 final size:16
Alignment explanation
Indices: 48125--48181 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
48115 TATAATAACT
48125 ATAATAATAAAGAAAA
1 ATAATAATAAAGAAAA
* *
48141 ATAATAATGAAGAACA
1 ATAATAATAAAGAAAA
* *
48157 AT-TTAGTAAAGTAAAA
1 ATAATAATAAAG-AAAA
48173 A-AATAATAA
1 ATAATAATAA
48182 TAATAAGGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
15 6 0.19
16 25 0.81
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
ATAATAATAAAGAAAA
Found at i:48277 original size:3 final size:3
Alignment explanation
Indices: 48269--48363 Score: 54
Period size: 3 Copynumber: 31.3 Consensus size: 3
48259 ATATATATAT
** * *
48269 ATA ATA ATA ATA AGG ATT A-A ATA A-A ATA ATA A-A AAA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * *
48312 CATA TATA ACA A-A ATAA ATA ATA AAA CATA AAA ATA ATA ATA ATA ATA
1 -ATA -ATA ATA ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
48360 ATA A
1 ATA A
48364 AAGGATTAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
2 7 0.10
3 51 0.71
4 14 0.19
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:48300 original size:28 final size:28
Alignment explanation
Indices: 48269--48374 Score: 69
Period size: 28 Copynumber: 3.8 Consensus size: 28
48259 ATATATATAT
48269 ATAATAATAATAAGGATTAAATAA-AATA
1 ATAATAATAA-AAGGATTAAATAACAATA
* * *
48297 ATAAAAAAATAAATA-CA-TATATAACAA-A
1 AT--AATAATAAA-AGGATTAAATAACAATA
* * *
48325 ATAAATAATAAAA-CATAAAAATAATAATA
1 AT-AATAATAAAAGGAT-TAAATAACAATA
48354 ATAATAATAAAAGGATTAAAT
1 ATAATAATAAAAGGATTAAAT
48375 TGAAATAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
26 3 0.05
27 9 0.15
28 32 0.52
29 9 0.15
30 8 0.13
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (28 bp):
ATAATAATAAAAGGATTAAATAACAATA
Found at i:48306 original size:16 final size:17
Alignment explanation
Indices: 48287--48351 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 17
48277 AATAAGGATT
48287 AAAT-AAAATAATAAAA
1 AAATAAAAATAATAAAA
*
48303 AAATAAATACATATATAACA
1 AAATAAA-A-ATA-ATAAAA
48323 AAAT--AAATAAT-AAA
1 AAATAAAAATAATAAAA
*
48337 ACATAAAAATAATAA
1 AAATAAAAATAATAA
48352 TAATAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
14 5 0.13
15 2 0.05
16 14 0.36
17 4 0.10
18 2 0.05
19 3 0.08
20 9 0.23
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAAAAATAATAAAA
Found at i:48318 original size:48 final size:44
Alignment explanation
Indices: 48255--48374 Score: 112
Period size: 48 Copynumber: 2.8 Consensus size: 44
48245 AAATATAATT
*
48255 AAATATATATATATATAATAATAATAAGGATTAAATAAAATAATAAAA
1 AAATAAATA-ATATATAATAATAATAAGGATTAAATAAAA-AAT--AA
* *
48303 AAATAAATACATATATAACAA-AATAA--A-T-AATAAAACATAA
1 AAATAAATA-ATATATAATAATAATAAGGATTAAATAAAAAATAA
48343 AAAT-AATAATA-ATAATAATAA-AAGGATTAAAT
1 AAATAAATAATATATAATAATAATAAGGATTAAAT
48375 TGAAATAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
37 8 0.13
38 5 0.08
39 5 0.08
40 7 0.11
41 3 0.05
42 2 0.03
43 7 0.11
44 1 0.02
45 1 0.02
47 5 0.08
48 18 0.29
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (44 bp):
AAATAAATAATATATAATAATAATAAGGATTAAATAAAAAATAA
Found at i:48978 original size:22 final size:23
Alignment explanation
Indices: 48942--48986 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
48932 TTTTTTTTCA
*
48942 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
48965 TTTGTTTTA-ATATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
48987 ATTATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTGTTTTATATATTATTATTAT
Found at i:48997 original size:19 final size:19
Alignment explanation
Indices: 48949--49023 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 19
48939 TCATTTGTTT
*
48949 TATT-TATTATTATTATTT
1 TATTATATTATTATTATTA
* * *
48967 TGTTTTAATATTATTATTA
1 TATTATATTATTATTATTA
*
48986 TATTATATTATTATTAAATA
1 TATTATATTATTATT-ATTA
* *
49006 AATAAT-TTATTATTATTA
1 TATTATATTATTATTATTA
49024 CAGGCCCAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
18 6 0.13
19 32 0.71
20 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TATTATATTATTATTATTA
Found at i:49000 original size:22 final size:22
Alignment explanation
Indices: 48952--49001 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
48942 TTTGTTTTAT
* * *
48952 TTATTATTATTATTTTGTTTTA
1 TTATTATTATTATATTATATTA
*
48974 ATATTATTATTATATTATATTA
1 TTATTATTATTATATTATATTA
48996 TTATTA
1 TTATTA
49002 AATAAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTATTATTATTATATTATATTA
Found at i:49021 original size:3 final size:3
Alignment explanation
Indices: 48952--49001 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
48942 TTTGTTTTAT
* *
48952 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48996 TTA TTA
1 TTA TTA
49002 AATAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 8 0.20
3 33 0.80
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:50393 original size:20 final size:20
Alignment explanation
Indices: 50364--50403 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50354 TTATTAAAAT
*
50364 CTTATTTAATTAT-TTTTAA
1 CTTATTTAATCATGTTTTAA
50383 CTTATTTTAATCATGTTTTAA
1 CTTA-TTTAATCATGTTTTAA
50404 TATTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (20 bp):
CTTATTTAATCATGTTTTAA
Found at i:50690 original size:16 final size:16
Alignment explanation
Indices: 50581--50692 Score: 52
Period size: 16 Copynumber: 6.8 Consensus size: 16
50571 GTCATTTTCT
50581 TATATTTCTAAA-TAAA
1 TATATTT-TAAATTAAA
**
50597 TAAATATTTTATTTATAAA
1 T--ATATTTTAAAT-TAAA
*
50616 TATA-TATAAATTAATA
1 TATATTTTAAATTAA-A
** *
50632 TATATTTTTCA-TAAT
1 TATATTTTAAATTAAA
*
50647 TATAATTTTAAAAT-AA
1 TAT-ATTTTAAATTAAA
* *
50663 TAAGATTATAAATTAAA
1 T-ATATTTTAAATTAAA
50680 TATATTTTAAATT
1 TATATTTTAAATT
50693 TTTAATTGCT
Statistics
Matches: 69, Mismatches: 17, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
15 6 0.09
16 39 0.57
17 13 0.19
18 6 0.09
19 5 0.07
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (16 bp):
TATATTTTAAATTAAA
Found at i:57834 original size:114 final size:113
Alignment explanation
Indices: 57671--57891 Score: 325
Period size: 114 Copynumber: 1.9 Consensus size: 113
57661 CACATTCTCG
* * * * *
57671 TAGTAAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTTG
1 TAGTAAAATAAGGAGACCCAATAGCATCTTCTAGAAATATTCTTTGAGTTATCTGATCTGATTCG
* * *
57736 GTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GTAGGAACCCCAAAACCAATCATTGGAATAGAAAGATGAATTTGCTCA
* *
57784 TAGTAGAAATAAGGAGACCCAATAGCATCTTTTAGAAATATTCTTTGAGTTATCTGATCTGGTTC
1 TAGTA-AAATAAGGAGACCCAATAGCATCTTCTAGAAATATTCTTTGAGTTATCTGATCTGATTC
* *
57849 GGTAGGAACCCCAGAACCAATCATTGGAATAGGAAGATGAATT
65 GGTAGGAACCCCAAAACCAATCATTGGAATAGAAAGATGAATT
57892 GCATGATCGT
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 5 0.05
114 90 0.95
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (113 bp):
TAGTAAAATAAGGAGACCCAATAGCATCTTCTAGAAATATTCTTTGAGTTATCTGATCTGATTCG
GTAGGAACCCCAAAACCAATCATTGGAATAGAAAGATGAATTTGCTCA
Found at i:58109 original size:31 final size:31
Alignment explanation
Indices: 58071--58129 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
58061 ATATAAAATC
*
58071 TGTCAACTCTGTAATTGATGAATTCAGAATA
1 TGTCAACTCTGCAATTGATGAATTCAGAATA
58102 TGTCAACTCTGCAATTGATGAATTCAGA
1 TGTCAACTCTGCAATTGATGAATTCAGA
58130 CCACATCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (31 bp):
TGTCAACTCTGCAATTGATGAATTCAGAATA
Found at i:60488 original size:22 final size:22
Alignment explanation
Indices: 60457--60511 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
60447 ATCTACACTC
*
60457 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
60479 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
60501 TTCAAAGATGA
1 TTCAAAGATGA
60512 AAACTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:62911 original size:113 final size:113
Alignment explanation
Indices: 60943--62896 Score: 3398
Period size: 113 Copynumber: 17.3 Consensus size: 113
60933 AACATTTCTG
*
60943 GAAG-AGTTCATAATGAGAAGAACTTGTTCAACTTTTCTCTTGAATTCATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
*
61007 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
61055 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
61120 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
61168 TAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
61233 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAA-G--
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
61278 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
*
61343 CATTACCAGGTCGAATTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
61391 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
* *
61456 CATTACTAGGTCGAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
61504 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
*
61569 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCAACTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
** * *
61617 GAAGAAAATCATAATGAGAAGAACTCGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
* *
61682 TATTACCAGATCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
61730 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCTCTTGAATTTATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
61795 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
61843 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
61908 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
61956 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
*
62021 CATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
62069 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
*
62134 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCAACTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
62182 GAAGAAGTTCATAATGAGAAGAAATTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
* *
62247 CATTAGCAGATCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
62295 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCTCTTGAATTTATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
62360 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
62408 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
*
62473 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
62521 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTG-ATTCATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
* *
62585 CATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
62633 GAAGAAGTTCATAATGAGAAAAACTTGTTCAACTTTTCGCTTGAATTTATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
* * *
62698 CATTGCCAGGGCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAA
66 CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * * * * *
62746 CAAGAAGTTCTTAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
* * *
62811 CTTTTCCA-GTGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTACCAGGT-CGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
62859 TAAGAAGTTCATAATGAGAAGAACTTGTGCAATCTTTT
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT
62897 GCATGATTCT
Statistics
Matches: 1756, Mismatches: 79, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
110 106 0.06
111 1 0.00
112 113 0.06
113 1531 0.87
114 5 0.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (113 bp):
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
CATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
Found at i:63275 original size:22 final size:23
Alignment explanation
Indices: 63239--63283 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
63229 TTTTTTTTCA
*
63239 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
63262 TTTGTTTTA-ATATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
63284 ATTATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTGTTTTATATATTATTATTAT
Found at i:63294 original size:19 final size:19
Alignment explanation
Indices: 63246--63322 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 19
63236 TCATTTGTTT
*
63246 TATT-TATTATTATTATTT
1 TATTATATTATTATTATTA
* * *
63264 TGTTTTAATATTATTATTA
1 TATTATATTATTATTATTA
*
63283 TATTATATTATTATTAAATA
1 TATTATATTATTATT-ATTA
* *
63303 AATAAT-TTATTATTATTA
1 TATTATATTATTATTATTA
63321 TA
1 TA
63323 GGCCCAATTA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 7 0.15
19 32 0.70
20 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TATTATATTATTATTATTA
Found at i:63297 original size:22 final size:22
Alignment explanation
Indices: 63249--63298 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
63239 TTTGTTTTAT
* * *
63249 TTATTATTATTATTTTGTTTTA
1 TTATTATTATTATATTATATTA
*
63271 ATATTATTATTATATTATATTA
1 TTATTATTATTATATTATATTA
63293 TTATTA
1 TTATTA
63299 AATAAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTATTATTATTATATTATATTA
Found at i:63318 original size:3 final size:3
Alignment explanation
Indices: 63249--63298 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
63239 TTTGTTTTAT
* *
63249 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63293 TTA TTA
1 TTA TTA
63299 AATAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 8 0.20
3 33 0.80
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:63762 original size:7 final size:7
Alignment explanation
Indices: 63750--63774 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63740 AGATAGAGAG
63750 AACCCAA
1 AACCCAA
63757 AACCCAA
1 AACCCAA
63764 AACCCAA
1 AACCCAA
63771 AACC
1 AACC
63775 ATCAAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCCAA
Found at i:64684 original size:20 final size:22
Alignment explanation
Indices: 64659--64705 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
64649 TTATTATTAT
*
64659 TATTTAT-CCATAAAT-ATATA
1 TATTTATACAATAAATAATATA
*
64679 TATTTATACAATAAATAATATT
1 TATTTATACAATAAATAATATA
64701 TATTT
1 TATTT
64706 TATTTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTATACAATAAATAATATA
Found at i:64870 original size:20 final size:20
Alignment explanation
Indices: 64847--64891 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
64837 TAAATATCCT
64847 ATTTTATAAATTATATATTA
1 ATTTTATAAATTATATATTA
* * * *
64867 ATTTTTTTAATTATTTATTT
1 ATTTTATAAATTATATATTA
64887 ATTTT
1 ATTTT
64892 TTAATATCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTATAAATTATATATTA
Found at i:64892 original size:20 final size:20
Alignment explanation
Indices: 64855--64893 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64845 CTATTTTATA
64855 AATTATATATTAATTTTTTT
1 AATTATATATTAATTTTTTT
* *
64875 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
64894 AATATCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
AATTATATATTAATTTTTTT
Found at i:64944 original size:120 final size:116
Alignment explanation
Indices: 64753--64987 Score: 285
Period size: 120 Copynumber: 2.0 Consensus size: 116
64743 TTTAATCCTG
* * * * *
64753 TTTTAATATTTATTTATTTTTCAATATTAAGAAAGGGCAGTCTTAAAATAACTGGATGTCCATTT
1 TTTTAATATTTATTTATTTTTCAATATAAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCCATTT
* *
64818 TCTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAATTT
66 TCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAA-TATATATAAATTT
* * *
64871 TTTTAATTATTTATTTATTTTTTAATATCAAAGAAAAGAGCTA-TCTTAAGACACCTAGAAGTCC
1 TTTTAA-TATTTATTTATTTTTCAATAT-AAAG-AAAGAGC-AGTCTTAAAACAACTAGAAGTCC
* **
64935 -TTTTTTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATT
62 ATTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAATT
64988 AATATATATT
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
118 17 0.17
119 28 0.28
120 32 0.32
121 22 0.22
122 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.47
Consensus pattern (116 bp):
TTTTAATATTTATTTATTTTTCAATATAAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCCATTT
TCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATAAATTT
Found at i:68125 original size:17 final size:17
Alignment explanation
Indices: 68103--68137 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
68093 TTTAAATATG
68103 AAAAATTAAATTA-AATT
1 AAAAA-TAAATTATAATT
68120 AAAAATAAATTATAATT
1 AAAAATAAATTATAATT
68137 A
1 A
68138 TATTTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATAAATTATAATT
Found at i:77612 original size:22 final size:22
Alignment explanation
Indices: 77593--77663 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
77583 TGTAGTTTTG
*
77593 AAACTCCACATGCATGGTTTCA
1 AAACCCCACATGCATGGTTTCA
77615 AAACCCCACATGCATGGTTTCA
1 AAACCCCACATGCATGGTTTCA
* *
77637 AAA--CCACTTACATGGTTTCA
1 AAACCCCACATGCATGGTTTCA
77657 AAACCCC
1 AAACCCC
77664 TTACATGGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 18 0.41
22 26 0.59
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.24
Consensus pattern (22 bp):
AAACCCCACATGCATGGTTTCA
Found at i:77682 original size:20 final size:20
Alignment explanation
Indices: 77605--77685 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
77595 ACTCCACATG
* *
77605 CATGGTTTCAAAACCCCACATG
1 CATGGTTTCAAAA-CCC-CTTA
*
77627 CATGGTTTCAAAACCACTTA
1 CATGGTTTCAAAACCCCTTA
77647 CATGGTTTCAAAACCCCTTA
1 CATGGTTTCAAAACCCCTTA
*
77667 CATGGTTTTAAAACCCCTT
1 CATGGTTTCAAAACCCCTT
77686 GCCTAGTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 39 0.72
21 2 0.04
22 13 0.24
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (20 bp):
CATGGTTTCAAAACCCCTTA
Found at i:77694 original size:20 final size:20
Alignment explanation
Indices: 77631--77701 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
77621 CACATGCATG
* * *
77631 GTTTCAAAACCACTTACATG
1 GTTTTAAAACCCCTTACATA
* *
77651 GTTTCAAAACCCCTTACATG
1 GTTTTAAAACCCCTTACATA
* *
77671 GTTTTAAAACCCCTTGCCTA
1 GTTTTAAAACCCCTTACATA
*
77691 GTTTTGAAACC
1 GTTTTAAAACC
77702 TTTAAACTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (20 bp):
GTTTTAAAACCCCTTACATA
Found at i:86244 original size:2 final size:2
Alignment explanation
Indices: 86239--86273 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
86229 TTTTTTAGGC
86239 AT AT 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 AT AT A
86274 CCTTAAGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:86929 original size:30 final size:30
Alignment explanation
Indices: 86892--86965 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
86882 TGAGTCAACT
* * * *
86892 CGTTGACTTTGACCGAGTCAATATGTTGAT
1 CGTTGACTTTGACCGAATCAACACGTTGAC
* *
86922 TGTTGACTTTAACCGAATCAACACGTTGAC
1 CGTTGACTTTGACCGAATCAACACGTTGAC
86952 CGTTGACTTTGACC
1 CGTTGACTTTGACC
86966 AAAAATGCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (30 bp):
CGTTGACTTTGACCGAATCAACACGTTGAC
Found at i:93938 original size:23 final size:23
Alignment explanation
Indices: 93907--93967 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
93897 TCATTGACCA
93907 TTGACTTTGACCGAATCAACCTG
1 TTGACTTTGACCGAATCAACCTG
*
93930 TTGAATTTGACCGAATCAACCTG
1 TTGACTTTGACCGAATCAACCTG
*
93953 TTGACGTTGACCGAA
1 TTGACTTTGACCGAA
93968 AAAGTCAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (23 bp):
TTGACTTTGACCGAATCAACCTG
Found at i:95623 original size:58 final size:59
Alignment explanation
Indices: 95548--95660 Score: 192
Period size: 59 Copynumber: 1.9 Consensus size: 59
95538 TGGATAGAGC
*
95548 CATATTATCGAGTTTGCC-TTTCATTGCGACTAGGAGGGTTCGATAGGACACTTAGATT
1 CATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGGAAACTTAGATT
* *
95606 CATATTATTGAGTTTGCCTTTTCATTGTGACTAGGAGGGTTCGATAGGAAACTTA
1 CATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGGAAACTTA
95661 TCCATCTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 17 0.33
59 34 0.67
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (59 bp):
CATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGGAAACTTAGATT
Found at i:96030 original size:9 final size:9
Alignment explanation
Indices: 96018--96044 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
96008 CAAAAAATAC
96018 AAAAAAATT
1 AAAAAAATT
96027 AAAAAAATT
1 AAAAAAATT
96036 AAAAAAATT
1 AAAAAAATT
96045 GAAATGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAAAATT
Found at i:99509 original size:58 final size:59
Alignment explanation
Indices: 99424--99542 Score: 161
Period size: 58 Copynumber: 2.0 Consensus size: 59
99414 GAGGGTTGGA
*
99424 TAGAGTCATATTATCAAGTTTACCTTTTCATCGA-GACTAGGAGGGTTCAATAGGACACT
1 TAGAGCCATATTATCAAGTTTACCTTTTCAT-GACGACTAGGAGGGTTCAATAGGACACT
* ** * *
99483 TAGAGCCATA-TATCGAGTTTGTCTTTTCATTACGACTAGGAGGGTTCGATAGGACACT
1 TAGAGCCATATTATCAAGTTTACCTTTTCATGACGACTAGGAGGGTTCAATAGGACACT
99541 TA
1 TA
99543 TCCAACTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
57 1 0.02
58 43 0.81
59 9 0.17
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (59 bp):
TAGAGCCATATTATCAAGTTTACCTTTTCATGACGACTAGGAGGGTTCAATAGGACACT
Found at i:101054 original size:32 final size:31
Alignment explanation
Indices: 100981--101066 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
100971 AGTTTTAGAA
*
100981 ATTACAAAATAATCATTAAACTTCTTAATTG
1 ATTACAAAATAATCATTAAAATTCTTAATTG
*
101012 GTTACAAAATAATCATTAAAATT-TATCATATT-
1 ATTACAAAATAATCATTAAAATTCT-T-A-ATTG
* *
101044 ATTACAAAATATTCATTGAAATT
1 ATTACAAAATAATCATTAAAATT
101067 ATTATCACTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.02
31 22 0.47
32 21 0.45
33 3 0.06
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (31 bp):
ATTACAAAATAATCATTAAAATTCTTAATTG
Found at i:102908 original size:21 final size:21
Alignment explanation
Indices: 102873--102934 Score: 106
Period size: 21 Copynumber: 2.9 Consensus size: 21
102863 TTAAAAAATA
*
102873 TAAAGGAAATACCGATACTCAT
1 TAAAGG-AGTACCGATACTCAT
102895 TAAAGGAGTACCGATACTCAT
1 TAAAGGAGTACCGATACTCAT
102916 TAAAGGAGTACCGATACTC
1 TAAAGGAGTACCGATACTC
102935 CCTGTCCTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 33 0.85
22 6 0.15
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (21 bp):
TAAAGGAGTACCGATACTCAT
Found at i:105971 original size:16 final size:15
Alignment explanation
Indices: 105950--105990 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
105940 TAATTTTGAG
105950 AATTTTTATTTAAAAT
1 AATTTTT-TTTAAAAT
*
105966 AATTTTTTTTAAAAC
1 AATTTTTTTTAAAAT
105981 ATATTTTTTT
1 A-ATTTTTTT
105991 CAAACCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
AATTTTTTTTAAAAT
Found at i:108565 original size:20 final size:20
Alignment explanation
Indices: 108540--108583 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
108530 AACTGCTAAG
108540 TGTTGTATCTCATATCTATT
1 TGTTGTATCTCATATCTATT
108560 TGTTGTATCTCATATCTATT
1 TGTTGTATCTCATATCTATT
108580 TGTT
1 TGTT
108584 ATTGAGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (20 bp):
TGTTGTATCTCATATCTATT
Found at i:111380 original size:17 final size:17
Alignment explanation
Indices: 111355--111402 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
111345 CAATGTTTTA
*
111355 ATTTTATTAATTAGATT
1 ATTTAATTAATTAGATT
* *
111372 ATTTAATTATTTAAATT
1 ATTTAATTAATTAGATT
* *
111389 ATATATTTAATTAG
1 ATTTAATTAATTAG
111403 GGGATTTCAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
ATTTAATTAATTAGATT
Found at i:112333 original size:51 final size:52
Alignment explanation
Indices: 112277--112387 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 52
112267 AAGATTAGAT
* * *
112277 TTATTATTTTATT-AGGAATTAAAATAGAGTCAAAATATTATCTTTAA-TTAA
1 TTATTATTTTATTGA-AAATTAAAATAAAATCAAAATATTATCTTTAATTTAA
*
112328 TTATTATTTTATTGAAAATTAAGATAAAATCAAAATATTATCTTTAATTTAA
1 TTATTATTTTATTGAAAATTAAAATAAAATCAAAATATTATCTTTAATTTAA
112380 TTATTATT
1 TTATTATT
112388 AAATTCATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
51 41 0.76
52 13 0.24
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (52 bp):
TTATTATTTTATTGAAAATTAAAATAAAATCAAAATATTATCTTTAATTTAA
Found at i:112614 original size:2 final size:2
Alignment explanation
Indices: 112607--112636 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
112597 CATCTCTTTC
112607 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
112637 CTTTTTAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113116 original size:22 final size:22
Alignment explanation
Indices: 113078--113133 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 22
113068 ATTCAATTTT
*
113078 AATAA-TATGTATGAAATTACAA
1 AATAATTATTTATGAAA-TACAA
*
113100 AATAATTATTTAT-AAATATAA
1 AATAATTATTTATGAAATACAA
* *
113121 AACAATTTTTTAT
1 AATAATTATTTAT
113134 TATAAATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 15 0.52
22 8 0.28
23 6 0.21
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (22 bp):
AATAATTATTTATGAAATACAA
Found at i:113209 original size:63 final size:63
Alignment explanation
Indices: 113139--113261 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
113129 TTTATTATAA
* *
113139 ATCAAATAAAA-AATTTAATTTGATTCAAATAAACACAATTTTTAAACTTATATTCCATAAATC
1 ATCAAATAAAATAATTCAATTCGATTCAAATAAACA-AATTTTTAAACTTATATTCCATAAATC
* * *
113202 ATCAAATAAAATACTTCAATTCGATTCAAATAAACATATTTTTAAACTTGTATTCCATAA
1 ATCAAATAAAATAATTCAATTCGATTCAAATAAACAAATTTTTAAACTTATATTCCATAA
113262 TTCGTCCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 33 0.61
64 21 0.39
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (63 bp):
ATCAAATAAAATAATTCAATTCGATTCAAATAAACAAATTTTTAAACTTATATTCCATAAATC
Found at i:123639 original size:20 final size:20
Alignment explanation
Indices: 123602--123640 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
123592 AGATTGAGTG
* * *
123602 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
123622 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
123641 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:123868 original size:20 final size:21
Alignment explanation
Indices: 123815--123876 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
123805 TTCCTCTGTG
123815 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGG-ATCGGTT-CCC-TCAAA
* *
123839 GGGGGAATCGGTTCCCTC-AT
1 GGGGGGATCGGTTCCCTCAAA
*
123859 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
123877 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:129288 original size:18 final size:19
Alignment explanation
Indices: 129252--129289 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
129242 CGTTATACAA
129252 GGGGGGAATCGGTACTCCCT
1 GGGGGGAATCGGTA-TCCCT
129272 GGGGGGAATCGGT-TCCCT
1 GGGGGGAATCGGTATCCCT
129290 CTGAGCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.24, G:0.42, T:0.21
Consensus pattern (19 bp):
GGGGGGAATCGGTATCCCT
Found at i:129987 original size:20 final size:19
Alignment explanation
Indices: 129960--130020 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
129950 CATTTTGGTG
129960 CAGAGGGAATCGATACCCC
1 CAGAGGGAATCGATACCCC
* *
129979 CATGAGGGAACCGATTCCCCC
1 CA-GAGGGAATCGA-TACCCC
*
130000 CACAGGGGAATCGATACCCC
1 CAGA-GGGAATCGATACCCC
130020 C
1 C
130021 CTGGGGTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.06
20 17 0.50
21 15 0.44
ACGTcount: A:0.28, C:0.36, G:0.25, T:0.11
Consensus pattern (19 bp):
CAGAGGGAATCGATACCCC
Found at i:135608 original size:29 final size:29
Alignment explanation
Indices: 135576--135693 Score: 148
Period size: 29 Copynumber: 4.0 Consensus size: 29
135566 CAATAATATT
*
135576 TATTTTATTCTTATCTTAACTTAAAAGTA
1 TATTTTATTCTTATCTTAACTTAAAAATA
* *
135605 TATTTTATTTTTATTTTAACTTAAAAATA
1 TATTTTATTCTTATCTTAACTTAAAAATA
*
135634 TATTTTATTCTTATCTTAATTTCTAAAAATA
1 TATTTTATTCTTATCTTAA-CT-TAAAAATA
* * *
135665 TATTTTATT-TTGTCTTAATTTAAATATA
1 TATTTTATTCTTATCTTAACTTAAAAATA
135693 T
1 T
135694 TCGAAATATA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
28 8 0.10
29 45 0.57
30 9 0.11
31 17 0.22
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (29 bp):
TATTTTATTCTTATCTTAACTTAAAAATA
Found at i:135752 original size:70 final size:72
Alignment explanation
Indices: 135631--135766 Score: 179
Period size: 70 Copynumber: 1.9 Consensus size: 72
135621 TAACTTAAAA
* * * **
135631 ATATATTTTATTCTTATCTTAATTTCTAAAAATATATTTTATTTTGTCTTAA-T-TTAAATATAT
1 ATATATTTTATTCTTATATTAACTTATAAAAATATATTTTATTTTACCTTAACTATTAAATATAT
135694 TCGAAAT
66 TCGAAAT
*
135701 ATATATTTTATTCTTATATTAACTTAT-TAAATATATTTTATTCTTACCTTAACTTATTAAATAT
1 ATATATTTTATTCTTATATTAACTTATAAAAATATATTTTATT-TTACCTTAAC-TATTAAATAT
135765 AT
64 AT
135767 GTTAAAAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
69 14 0.25
70 31 0.55
72 1 0.02
73 10 0.18
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.54
Consensus pattern (72 bp):
ATATATTTTATTCTTATATTAACTTATAAAAATATATTTTATTTTACCTTAACTATTAAATATAT
TCGAAAT
Found at i:135801 original size:28 final size:29
Alignment explanation
Indices: 135769--135994 Score: 159
Period size: 30 Copynumber: 7.6 Consensus size: 29
135759 AAATATATGT
* *
135769 TAAAA-ATATTTTTAATTTAAGATAAAAA
1 TAAAATATATTTTTAAGTTAAAATAAAAA
* * *
135797 TAAAATATTTTTTTTTTGAAGTTAAGATTAAAA
1 TAAAATA---TATTTTT-AAGTTAAAATAAAAA
* *
135830 TAAAATATGCAATTTTAAGTTAAAATAAGAA
1 TAAAATAT--ATTTTTAAGTTAAAATAAAAA
* *
135861 TAAAATATATTTTTTATGTTAAGATAAAAA
1 TAAAATATA-TTTTTAAGTTAAAATAAAAA
** * * *
135891 TAATGTATATTTTGTAAGCTAAAATAAGAT
1 TAAAATATATTTT-TAAGTTAAAATAAAAA
* *
135921 TAAAATAT-TTTTTAAGTTAATATATAAA
1 TAAAATATATTTTTAAGTTAAAATAAAAA
* * *
135949 TAAAATATATTTAATAATTTAAAATAAGAA
1 TAAAATATATTT-TTAAGTTAAAATAAAAA
* * *
135979 CACAATACATTTTTAA
1 TAAAATATATTTTTAA
135995 AATTTAAAAT
Statistics
Matches: 152, Mismatches: 35, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
28 24 0.16
29 16 0.11
30 62 0.41
31 20 0.13
32 10 0.07
33 20 0.13
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (29 bp):
TAAAATATATTTTTAAGTTAAAATAAAAA
Found at i:135940 original size:58 final size:59
Alignment explanation
Indices: 135769--135992 Score: 184
Period size: 58 Copynumber: 3.7 Consensus size: 59
135759 AAATATATGT
** * * * *
135769 TAAAA-ATATTTTTAATTTAAGATAAAAATAAAATATTTTTTTTTTGAAGTTAAGATTAAAA
1 TAAAATATATTTTTAAGCTAAAATAAGAATAAAATA--TATTTTTT-AAGTTAAGATAAAAA
* * *
135830 TAAAATATGCAATTTTAAGTTAAAATAAGAATAAAATATATTTTTTATGTTAAGATAAAAA
1 TAAAATAT--ATTTTTAAGCTAAAATAAGAATAAAATATATTTTTTAAGTTAAGATAAAAA
** * * *
135891 TAATGTATATTTTGTAAGCTAAAATAAG-ATTAAA-ATATTTTTTAAGTTAATATATAAA
1 TAAAATATATTTT-TAAGCTAAAATAAGAATAAAATATATTTTTTAAGTTAAGATAAAAA
* ** * * *
135949 TAAAATATATTTAATAATTTAAAATAAGAACACAATACATTTTT
1 TAAAATATATTT-TTAAGCTAAAATAAGAATAAAATATATTTTT
135993 AAAATTTAAA
Statistics
Matches: 132, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
58 43 0.33
59 12 0.09
60 20 0.15
61 24 0.18
62 9 0.07
64 24 0.18
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (59 bp):
TAAAATATATTTTTAAGCTAAAATAAGAATAAAATATATTTTTTAAGTTAAGATAAAAA
Found at i:136790 original size:109 final size:102
Alignment explanation
Indices: 136608--137061 Score: 524
Period size: 109 Copynumber: 4.3 Consensus size: 102
136598 AGTGATCCGA
* *
136608 TAAGTTTAGTGTAAATTTTATTGTTTCATTTTTAATTTTTATTTTAAATATAAATTAATTATATT
1 TAAGTTTAGTTTAAATTTTATTGTTTCA--TTT--TTTTTATTTTAAATATAAA-TAATTA-ACT
* * *
136673 ATTTATTTTGATTTTACAGATTAAACTGTATTCAAGTGGATTGG
60 ATTTATTTTGATTTTACATATTAAA-TGTATTCGAGTGGTTTGG
* *
136717 TAAGTTTATTTTAAATTTTATTGTTT-ATTTTTTTTATTTTACATA-ATAATAATTATACTATTT
1 TAAGTTTAGTTTAAATTTTATTGTTTCATTTTTTTTATTTTAAATATA-AATAATTA-ACTATTT
* *
136780 ATTTTGATTTTACATATTAAATTGTATTTGAGTGGTTTGA
64 ATTTTGATTTTACATATTAAA-TGTATTCGAGTGGTTTGG
* * *
136820 TAAGTTTAGTGTAAACTTTATTGTTTCACTTATTGTTTTTATTTTAAATATAAATTAATTAAATT
1 TAAGTTTAGTTTAAATTTTATTGTTTCA--T-TT-TTTTTATTTTAAATATAAA-TAATT-AACT
*
136885 ATTTATTTTGATTTTACATATTAAAATGTATTCGAGTGGTATGG
60 ATTTATTTTGATTTTACATATT-AAATGTATTCGAGTGGTTTGG
* ** *
136929 TAAGTTTAGTTTAGATTTTAAAGTTT-A---TTTTTATTTTAAATATAAATCATTAGACTATTTA
1 TAAGTTTAGTTTAAATTTTATTGTTTCATTTTTTTTATTTTAAATATAAATAATTA-ACTATTTA
* *
136990 TTTTGATTTTACATATTAAATCATATTTGAGTGGTTTGG
65 TTTTGATTTTACATATTAAAT-GTATTCGAGTGGTTTGG
137029 TAAGTTTAGTTTAAATTTTATTGTTTCATTTTT
1 TAAGTTTAGTTTAAATTTTATTGTTTCATTTTT
137062 AAATATAAAT
Statistics
Matches: 298, Mismatches: 31, Indels: 37
0.81 0.08 0.10
Matches are distributed among these distances:
99 5 0.02
100 65 0.22
101 20 0.07
103 71 0.24
104 19 0.06
106 4 0.01
107 2 0.01
108 18 0.06
109 90 0.30
110 4 0.01
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (102 bp):
TAAGTTTAGTTTAAATTTTATTGTTTCATTTTTTTTATTTTAAATATAAATAATTAACTATTTAT
TTTGATTTTACATATTAAATGTATTCGAGTGGTTTGG
Found at i:136954 original size:19 final size:18
Alignment explanation
Indices: 136930--136968 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
136920 GTGGTATGGT
136930 AAGTTTAGTTTAGATTTTA
1 AAGTTTA-TTTAGATTTTA
**
136949 AAGTTTATTTTTATTTTA
1 AAGTTTATTTAGATTTTA
136967 AA
1 AA
136969 TATAAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
AAGTTTATTTAGATTTTA
Found at i:137030 original size:100 final size:96
Alignment explanation
Indices: 136849--137096 Score: 322
Period size: 100 Copynumber: 2.5 Consensus size: 96
136839 ATTGTTTCAC
* * *
136849 TTATTGTTTTTATTTTAAATATAAATTAATTAAATTATTTATTTTGATTTTACATATTAAAATGT
1 TTATT-TTTTTATTTTAAATATAAATTAATTAGACTATTTATTTTGATTTTACATATTAAAATAT
*
136914 ATTCGAGTGGTATGGTAAGTTTAGTTTAGATT
65 ATTCGAGTGGTATGGTAAGTTTAGTTTAAATT
*
136946 TTAAAGTTTATTTTTATTTTAAATATAAA-TCATTAGACTATTTATTTTGATTTTACATATT-AA
1 TT--A--TT-TTTTTATTTTAAATATAAATTAATTAGACTATTTATTTTGATTTTACATATTAAA
* *
137009 ATCATATTTGAGTGGTTTGGTAAGTTTAGTTTAAATT
61 AT-ATATTCGAGTGGTATGGTAAGTTTAGTTTAAATT
* *
137046 TTATTGTTTCATTTTTAAATATAAATTAATTAGACTATTTATTTTG-TTTTA
1 TTATTTTTTTA-TTTTAAATATAAATTAATTAGACTATTTATTTTGATTTTA
137097 ACATTTTTTG
Statistics
Matches: 133, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
95 4 0.03
96 20 0.15
97 21 0.16
98 1 0.01
99 5 0.04
100 61 0.46
101 21 0.16
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (96 bp):
TTATTTTTTTATTTTAAATATAAATTAATTAGACTATTTATTTTGATTTTACATATTAAAATATA
TTCGAGTGGTATGGTAAGTTTAGTTTAAATT
Found at i:139514 original size:27 final size:27
Alignment explanation
Indices: 139484--139613 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
139474 AGTTCAACAA
* *
139484 ATATTCATCACATCCATTCAAATATAG
1 ATATTCATCACATTCATTCAAATATGG
139511 ATA-TCTATCACATTCATTCAAATATGG
1 ATATTC-ATCACATTCATTCAAATATGG
* * **
139538 CTATCCATTGCATTCATTCAAATATGG
1 ATATTCATCACATTCATTCAAATATGG
* *
139565 ATATTAATCACATTTATTCAAATATGG
1 ATATTCATCACATTCATTCAAATATGG
* * *
139592 TTATCCATCACATTCCTTCAAA
1 ATATTCATCACATTCATTCAAA
139614 AAATAAATAG
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.02
27 81 0.96
28 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (27 bp):
ATATTCATCACATTCATTCAAATATGG
Found at i:139557 original size:54 final size:54
Alignment explanation
Indices: 139489--139613 Score: 171
Period size: 54 Copynumber: 2.3 Consensus size: 54
139479 AACAAATATT
*
139489 CATCACATCCATTCAAATATAGATATCT-ATCACATTCATTCAAATATGGCTATC
1 CATCACATTCATTCAAATATAGATAT-TAATCACATTCATTCAAATATGGCTATC
** * * *
139543 CATTGCATTCATTCAAATATGGATATTAATCACATTTATTCAAATATGGTTATC
1 CATCACATTCATTCAAATATAGATATTAATCACATTCATTCAAATATGGCTATC
*
139597 CATCACATTCCTTCAAA
1 CATCACATTCATTCAAA
139614 AAATAAATAG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 60 0.98
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (54 bp):
CATCACATTCATTCAAATATAGATATTAATCACATTCATTCAAATATGGCTATC
Found at i:142099 original size:2 final size:2
Alignment explanation
Indices: 142092--142127 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
142082 TAATGATACA
142092 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
142128 TGTCTATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:142112 original size:15 final size:15
Alignment explanation
Indices: 142092--142120 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
142082 TAATGATACA
142092 ATATATATATATATT
1 ATATATATATATATT
142107 ATATATATATATAT
1 ATATATATATATAT
142121 ATAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATATATATATT
Found at i:142114 original size:17 final size:17
Alignment explanation
Indices: 142092--142127 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
142082 TAATGATACA
*
142092 ATATATATATATATTAT
1 ATATATATATATATAAT
142109 ATATATATATATATAAT
1 ATATATATATATATAAT
142126 AT
1 AT
142128 TGTCTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATATATATAAT
Found at i:142658 original size:29 final size:28
Alignment explanation
Indices: 142609--142677 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
142599 TTATTTTTAA
142609 AAATTATAATAATAACCTAAACTTTATAT
1 AAATTATAATAATAACCTAAA-TTTATAT
* *
142638 AAATTATAATAA-AATCTTAAATTTGTAT
1 AAATTATAATAATAA-CCTAAATTTATAT
142666 AATCATTATAAT
1 AA--ATTATAAT
142678 TTTATCCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 10 0.29
29 17 0.49
30 8 0.23
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (28 bp):
AAATTATAATAATAACCTAAATTTATAT
Found at i:144228 original size:22 final size:22
Alignment explanation
Indices: 144203--144244 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
144193 CAACTCATTT
144203 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
144225 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
144245 CTAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:144577 original size:11 final size:11
Alignment explanation
Indices: 144561--144586 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
144551 ATTTTTTTTC
144561 AAAAAAACAAA
1 AAAAAAACAAA
144572 AAAAAAACAAA
1 AAAAAAACAAA
144583 AAAA
1 AAAA
144587 GGGCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:146176 original size:22 final size:22
Alignment explanation
Indices: 146151--146192 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
146141 CAACTCATTT
146151 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
146173 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
146193 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:146736 original size:45 final size:45
Alignment explanation
Indices: 146685--146776 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
146675 TACATCATTC
146685 AAGTTTCATCGGCAGATTCGATTTAGAATCTTGTCGAATTTTTTG
1 AAGTTTCATCGGCAGATTCGATTTAGAATCTTGTCGAATTTTTTG
146730 AAGTTTCATCGGCAGATTCGATTTAGAATCTTGTCGAATTTTTTG
1 AAGTTTCATCGGCAGATTCGATTTAGAATCTTGTCGAATTTTTTG
146775 AA
1 AA
146777 TATTTTACAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (45 bp):
AAGTTTCATCGGCAGATTCGATTTAGAATCTTGTCGAATTTTTTG
Found at i:150804 original size:11 final size:11
Alignment explanation
Indices: 150790--150834 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
150780 TTGCAATTCA
150790 TTTATCTT-TT
1 TTTATCTTATT
*
150800 CTTTATCTTGTT
1 -TTTATCTTATT
*
150812 TTAATCTTATT
1 TTTATCTTATT
150823 TTTATCTTATT
1 TTTATCTTATT
150834 T
1 T
150835 CCAGCACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 28 0.93
12 2 0.07
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTATCTTATT
Found at i:152054 original size:24 final size:22
Alignment explanation
Indices: 152022--152079 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
152012 TACCCCATAG
*
152022 GGTACCGATACCCATATGCAAAGA
1 GGTACCGATACCC-TATCCAAA-A
*
152046 GGTACCGATA-CCTATCCCAAA
1 GGTACCGATACCCTATCCAAAA
152067 GGTACCGATACCC
1 GGTACCGATACCC
152080 CTTATGTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 11 0.35
22 8 0.26
23 2 0.06
24 10 0.32
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (22 bp):
GGTACCGATACCCTATCCAAAA
Found at i:158350 original size:20 final size:19
Alignment explanation
Indices: 158308--158350 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
158298 TTAAAAAATG
*
158308 TTTTTCATTTAAATTGTTG
1 TTTTTCATTTAAATTGTTA
* *
158327 TTTTTTATTTAATTATGTTA
1 TTTTTCATTTAAAT-TGTTA
158347 TTTT
1 TTTT
158351 CATGAAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTCATTTAAATTGTTA
Found at i:160379 original size:24 final size:23
Alignment explanation
Indices: 160345--160404 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 23
160335 TACCCCATAG
*
160345 GGTACCGATACCCCTATGCAAAGA
1 GGTACCGATACCCCTATCCAAA-A
* *
160369 GGTACCTATA--CCTATCCCAAA
1 GGTACCGATACCCCTATCCAAAA
160390 GGTACCGATACCCCT
1 GGTACCGATACCCCT
160405 TATGTTGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 10 0.33
22 8 0.27
23 3 0.10
24 9 0.30
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (23 bp):
GGTACCGATACCCCTATCCAAAA
Found at i:160469 original size:19 final size:19
Alignment explanation
Indices: 160445--160495 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
160435 ATGCCAAATG
*
160445 GGTACCGATACCCCTGAGA
1 GGTACCGATACCCCTAAGA
*
160464 GGTACCAATACCCCTAAGA
1 GGTACCGATACCCCTAAGA
*
160483 GGTATCGATACCC
1 GGTACCGATACCC
160496 TTGGTCTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (19 bp):
GGTACCGATACCCCTAAGA
Found at i:163629 original size:32 final size:32
Alignment explanation
Indices: 163592--163656 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
163582 TCATGAAGAA
*
163592 ATACTTTTAGCCATCATGACCTTTATCAAAGT
1 ATACTTTTAGCCATCATGACCTTCATCAAAGT
163624 ATACTTTTAGCCATCATGACCTTCATCAAAGT
1 ATACTTTTAGCCATCATGACCTTCATCAAAGT
163656 A
1 A
163657 ACTGTTCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (32 bp):
ATACTTTTAGCCATCATGACCTTCATCAAAGT
Found at i:174927 original size:503 final size:502
Alignment explanation
Indices: 173981--174993 Score: 1891
Period size: 503 Copynumber: 2.0 Consensus size: 502
173971 AAATTAGATA
*
173981 AAATATTCATAAAAGTAGGGAACACACTAGAGTTTCCAGATATTATTTAGAGATACAAGATAATC
1 AAATATTCATAAAAGTAGGGAACACACTAGAGTTTCCAGATATTATTTAGAGATACAAGATAATA
174046 TTATCGGCAGAGAAACACAAATCTTCAGTTTACCAATAGAATGCCAGAAATTAGAATCACTATTA
66 TTATCGGCAGAGAAACACAAATCTTCAGTTTACCAATAGAATGCCAGAAATTAGAATCACTATTA
174111 AAAGAGTTTGTTAACTGACAAAAATCATCAGTTATTCAAAATATACTTATCATGATCATCTTTTT
131 AAAGAGTTTGTTAACTGACAAAAATCATCAGTTATTCAAAATATACTTATCATGATCATCTTTTT
174176 CGGACATTTATCGGAAGCTCTACGTAATCAGAAGGGTATTCAAAATCCTTTACATATGAGTTACT
196 CGGACATTTATCGGAAGCTCTACGTAATCAGAAGGGTATTCAAAATCCTTTACATATGAGTTACT
*
174241 TATGTTTTCATACATAACCAGAGTGATTTGAGCTGATAAGGAATAACGAAGATTCAGGACCTTTA
261 TATGTTTTCATACATAACCAGAGTGATTTGAGCTGATAAGGAATAACGAAGATTCAGGACCTCTA
174306 CAATCTATGTCGATTGATCAGATTATCGAACAACTCCAGATGAATAACTCCCAGAACTAATACTT
326 CAATCTATGTCGATTGATCAGATTATCGAACAACTCCAGATGAATAACTCCCAGAACTAATACTT
* *
174371 GTCAACTTATCAAATTCATTAACCTTCCAGTGTATTTACTCTTTAATACCAAATATTCTTATCCA
391 GTCAACTTATCAAATTCATTAACCATCCAGGGTATTTACTCTTTAATACCAAATATTCTTATCCA
*
174436 TAGATCACCTTCTGAGTCATCACTGAATAGAACTTAAGGAGACAAAC
456 TAGATCACCTTCTGAGTCATCACTGAACAGAACTTAAGGAGACAAAC
174483 AAATATTCATAAAAGTAGGGAACACACTAGAGTTTCCAGATATTATTTAGAGATACAAGATAATA
1 AAATATTCATAAAAGTAGGGAACACACTAGAGTTTCCAGATATTATTTAGAGATACAAGATAATA
*
174548 TTATTGGGCAGAGAAACACAAATCTTCAGTTTACCAATAGAATGCCAGAAATTAGAATCACTATT
66 TTA-TCGGCAGAGAAACACAAATCTTCAGTTTACCAATAGAATGCCAGAAATTAGAATCACTATT
* *
174613 AAAAGAGTTTGTTAACTGGCAAAAATCATCAGTTATTCATAATATACTTATCATGATCATCTTTT
130 AAAAGAGTTTGTTAACTGACAAAAATCATCAGTTATTCAAAATATACTTATCATGATCATCTTTT
174678 TCGGACATTTATCGGAAGCTCTACGTAATCAGAAGGGTATTCAAAATCCTTTACATATGAGTTAC
195 TCGGACATTTATCGGAAGCTCTACGTAATCAGAAGGGTATTCAAAATCCTTTACATATGAGTTAC
* * *
174743 TTATGTTTTCATACATGACTAGAGTTATTTGAGCTGATAAGGAATAACGAAGATTCAGGACCTCT
260 TTATGTTTTCATACATAACCAGAGTGATTTGAGCTGATAAGGAATAACGAAGATTCAGGACCTCT
*
174808 ACAATCTATGTCGATTGATCAGATTATCGAACAACTCCAGATGAATAGCTCCCAGAACTAATACT
325 ACAATCTATGTCGATTGATCAGATTATCGAACAACTCCAGATGAATAACTCCCAGAACTAATACT
174873 TGTCAACTTATCAAATTCATTAACCATCCAGGGTATTTACTCTTTAATACCAAATATTCTTATCC
390 TGTCAACTTATCAAATTCATTAACCATCCAGGGTATTTACTCTTTAATACCAAATATTCTTATCC
* *
174938 ATAGATCACCTTCTGAGTCATCACTGAACAGAACTTAAGGAGACGAGC
455 ATAGATCACCTTCTGAGTCATCACTGAACAGAACTTAAGGAGACAAAC
174986 AAATATTC
1 AAATATTC
174994 TAATGGTCTT
Statistics
Matches: 496, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
502 67 0.14
503 429 0.86
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (502 bp):
AAATATTCATAAAAGTAGGGAACACACTAGAGTTTCCAGATATTATTTAGAGATACAAGATAATA
TTATCGGCAGAGAAACACAAATCTTCAGTTTACCAATAGAATGCCAGAAATTAGAATCACTATTA
AAAGAGTTTGTTAACTGACAAAAATCATCAGTTATTCAAAATATACTTATCATGATCATCTTTTT
CGGACATTTATCGGAAGCTCTACGTAATCAGAAGGGTATTCAAAATCCTTTACATATGAGTTACT
TATGTTTTCATACATAACCAGAGTGATTTGAGCTGATAAGGAATAACGAAGATTCAGGACCTCTA
CAATCTATGTCGATTGATCAGATTATCGAACAACTCCAGATGAATAACTCCCAGAACTAATACTT
GTCAACTTATCAAATTCATTAACCATCCAGGGTATTTACTCTTTAATACCAAATATTCTTATCCA
TAGATCACCTTCTGAGTCATCACTGAACAGAACTTAAGGAGACAAAC
Found at i:181248 original size:17 final size:17
Alignment explanation
Indices: 181226--181312 Score: 72
Period size: 17 Copynumber: 5.1 Consensus size: 17
181216 ACCGCACTCG
181226 AAAAAAGAAAAAAA-AGA
1 AAAAAAGAAAAAAAGA-A
*
181243 AAAAAAGAAAAGAAGAA
1 AAAAAAGAAAAAAAGAA
181260 AAAAAAGAAAGAAAATG--
1 AAAAAAGAAA-AAAA-GAA
* *
181277 AAGAAAGAAGAAAAGAA
1 AAAAAAGAAAAAAAGAA
** *
181294 AAAAGTGAAAGAAAGAA
1 AAAAAAGAAAAAAAGAA
181311 AA
1 AA
181313 GATATATAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
15 1 0.02
16 4 0.07
17 46 0.82
18 4 0.07
19 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAAAAGAA
Found at i:181264 original size:25 final size:27
Alignment explanation
Indices: 181225--181295 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 27
181215 TACCGCACTC
181225 GAAAA-AAGAAAAAAAAGAAA-AAAA-
1 GAAAAGAAGAAAAAAAAGAAAGAAAAT
181249 GAAAAGAAGAAAAAAAAGAAAGAAAAT
1 GAAAAGAAGAAAAAAAAGAAAGAAAAT
181276 GAAGAAAGAAGAAAAGAAAA
1 G-A-AAAGAAGAAAA-AAAA
181296 AAGTGAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
24 5 0.12
25 15 0.37
26 4 0.10
27 1 0.02
28 1 0.02
29 11 0.27
30 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (27 bp):
GAAAAGAAGAAAAAAAAGAAAGAAAAT
Done.