Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012676.1 Kokia drynarioides strain JFW-HI SEQ_127687, 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: 300401
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Warning! 110 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:903 original size:23 final size:22
Alignment explanation
Indices: 874--1049 Score: 108
Period size: 23 Copynumber: 7.6 Consensus size: 22
864 GAACACTAGC
874 GTGCTCTCTGTTTAGCACGTTT
1 GTGCTCTCTGTTTAGCACGTTT
*
896 CGTGCTCTCTGTTATTAGCACTGTGT
1 -GTGCTCTCTG-T-TTAGCAC-GTTT
* *
922 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGTTTAGCACGTT-T
** *
945 GTGCTCTCTAATTAGTAC-TTT
1 GTGCTCTCTGTTTAGCACGTTT
* *
966 GTATACTCTCTGTTTAGCACTGTGT
1 G--TGCTCTCTGTTTAGCAC-GTTT
*
991 GTGCTCTCTGTTGCCCAGCAC-TTAT
1 GTGCTCTCTGTT---TAGCACGTT-T
*
1016 GTGCTCTCTG-TTAGTAC-TTT
1 GTGCTCTCTGTTTAGCACGTTT
*
1036 GGTACTCTCTGTTT
1 -GTGCTCTCTGTTT
1050 GTTCCATATA
Statistics
Matches: 122, Mismatches: 17, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.01
21 17 0.14
22 5 0.04
23 57 0.47
24 3 0.02
25 31 0.25
26 8 0.07
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.44
Consensus pattern (22 bp):
GTGCTCTCTGTTTAGCACGTTT
Found at i:983 original size:46 final size:46
Alignment explanation
Indices: 877--999 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
867 CACTAGCGTG
* * * *
877 CTCTCTGTTTAGCACGTTTCGTGCT-CTCTGTTATTAGCACTGTGTGTG
1 CTCTCTGTTTAGCAC-TTT-GTG-TGCTCTCTAATTAGCACTGTGTATA
* * *
925 CTCTCTGATTAGCACTTTGTGTGCTCTCTAATTAGTACTTTGTATA
1 CTCTCTGTTTAGCACTTTGTGTGCTCTCTAATTAGCACTGTGTATA
*
971 CTCTCTGTTTAGCACTGTGTGTGCTCTCT
1 CTCTCTGTTTAGCACTTTGTGTGCTCTCT
1000 GTTGCCCAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 1 0.02
46 47 0.72
47 3 0.05
48 14 0.22
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (46 bp):
CTCTCTGTTTAGCACTTTGTGTGCTCTCTAATTAGCACTGTGTATA
Found at i:1042 original size:69 final size:67
Alignment explanation
Indices: 874--1049 Score: 194
Period size: 71 Copynumber: 2.5 Consensus size: 67
864 GAACACTAGC
* * *
874 GTGCTCTCTGTTTAGCACGTTTCGTGCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCA
1 GTGCTCTCTG-TTAGTAC-TTTGGTACTCTCTG-T-TTAGCACTGTGTGTGCTCTCTGATTAGCA
*
939 CTTTGT
62 CTTTAT
* *
945 GTGCTCTCTAATTAGTACTTTGTATACTCTCTGTTTAGCACTGTGTGTGCTCTCTG-TTGCCCAG
1 GTGCTCTCT-GTTAGTACTTTG-GTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGATT----AG
1009 CAC-TTAT
60 CACTTTAT
1016 GTGCTCTCTGTTAGTACTTTGGTACTCTCTGTTT
1 GTGCTCTCTGTTAGTACTTTGGTACTCTCTGTTT
1050 GTTCCATATA
Statistics
Matches: 91, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
68 2 0.02
69 34 0.37
70 15 0.16
71 35 0.38
72 5 0.05
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.44
Consensus pattern (67 bp):
GTGCTCTCTGTTAGTACTTTGGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGATTAGCACTTT
AT
Found at i:2366 original size:21 final size:21
Alignment explanation
Indices: 2323--2380 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
2313 TAAGAAAATG
* * * *
2323 AAAAATATATAAAATGATTAT
1 AAAAATAAATAATATTATCAT
2344 AAAAATAAATAATATTATCAT
1 AAAAATAAATAATATTATCAT
* *
2365 AAATATAAATATTATT
1 AAAAATAAATAATATT
2381 TAATTATCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAATAAATAATATTATCAT
Found at i:2388 original size:26 final size:26
Alignment explanation
Indices: 2357--2408 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2347 AATAAATAAT
*
2357 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
* *
2383 ATTATCATTAAGATAAATATTGTTTA
1 ATTATCATAAAGATAAATATTATTTA
2409 TTTTTACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTATCATAAAGATAAATATTATTTA
Found at i:9871 original size:11 final size:11
Alignment explanation
Indices: 9816--9872 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
9806 GTTTCCAATG
*
9816 TTTTGGTGTTA
1 TTTTGTTGTTA
*
9827 TTTTGTTGCTA
1 TTTTGTTGTTA
*
9838 TTTTGTTATTA
1 TTTTGTTGTTA
* ** *
9849 TATTACTATTA
1 TTTTGTTGTTA
9860 TTTTGTTGTTA
1 TTTTGTTGTTA
9871 TT
1 TT
9873 ATTTGAATAT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.67
Consensus pattern (11 bp):
TTTTGTTGTTA
Found at i:9884 original size:36 final size:33
Alignment explanation
Indices: 9824--9906 Score: 85
Period size: 36 Copynumber: 2.4 Consensus size: 33
9814 TGTTTTGGTG
* * * *
9824 TTATTTTGTTGCTATTTTGTTATTATATTACTA
1 TTATTTTGTTGTTATTTTGATATTACATAACTA
*
9857 TTATTTTGTTGTTATTATTTGAATATTACATAACTC
1 TTATTTTGTTGTTA-T-TTTG-ATATTACATAACTA
*
9893 TTGTTTTGTTGTTA
1 TTATTTTGTTGTTA
9907 ACATTGTTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 13 0.32
34 1 0.02
35 4 0.10
36 23 0.56
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (33 bp):
TTATTTTGTTGTTATTTTGATATTACATAACTA
Found at i:11611 original size:19 final size:19
Alignment explanation
Indices: 11586--11632 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
11576 TAAGGGTAAA
* *
11586 AAGAAGAATAAGAGAAATG
1 AAGAAGAAGAAAAGAAATG
* *
11605 GAGAAGAAGAAAAGAAGTG
1 AAGAAGAAGAAAAGAAATG
11624 AAGAAGAAG
1 AAGAAGAAG
11633 GGAAAATAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (19 bp):
AAGAAGAAGAAAAGAAATG
Found at i:12473 original size:21 final size:20
Alignment explanation
Indices: 12406--12474 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
12396 TGCTACAGAA
*
12406 TTCTACCGATAGAACTGAGAG
1 TTCTACCGATACAACT-AGAG
12427 TTCTACCGATACAGATCT-G-G
1 TTCTACCGATACA-A-CTAGAG
*
12447 TTCTACCGATACAACCTAGAC
1 TTCTACCGATACAA-CTAGAG
12468 TTCTACC
1 TTCTACC
12475 TGTATAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.07
20 15 0.37
21 20 0.49
22 1 0.02
23 2 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (20 bp):
TTCTACCGATACAACTAGAG
Found at i:18376 original size:13 final size:13
Alignment explanation
Indices: 18358--18386 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18348 TCATGAAATA
18358 ATTCCTTATAACC
1 ATTCCTTATAACC
18371 ATTCCTTATAACC
1 ATTCCTTATAACC
18384 ATT
1 ATT
18387 TCATTTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTCCTTATAACC
Found at i:27723 original size:17 final size:17
Alignment explanation
Indices: 27701--27733 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27691 TTCGAATTTT
27701 TGTTTTTGTGTTATATG
1 TGTTTTTGTGTTATATG
*
27718 TGTTTTTGTTTTATAT
1 TGTTTTTGTGTTATAT
27734 TTGTCATAAC
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:0.12, C:0.00, G:0.18, T:0.70
Consensus pattern (17 bp):
TGTTTTTGTGTTATATG
Found at i:54339 original size:2 final size:2
Alignment explanation
Indices: 54334--54367 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
54324 TCTCTCTCTC
54334 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
54368 CACACACATA
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):
TA
Found at i:54935 original size:29 final size:29
Alignment explanation
Indices: 54889--55107 Score: 196
Period size: 29 Copynumber: 7.6 Consensus size: 29
54879 CACTTTTTAC
* * * *
54889 ATAGATAGTCACAGAGGCGTCCTTGAATA
1 ATAGATAGCCACAAAGGCGTCCTTAAACA
* * * *
54918 ATAGATAGCCATAAAGGCATCCTTGAATA
1 ATAGATAGCCACAAAGGCGTCCTTAAACA
*
54947 AGAGATAGCCACAAAGGCGTCCTTAAACA
1 ATAGATAGCCACAAAGGCGTCCTTAAACA
* * * *
54976 ATAAATAACTACAAAGGCGTCCATAAGA-A
1 ATAGATAGCCACAAAGGCGTCCTTAA-ACA
*
55005 A-AGATAGCCATAAAGGCGTCCTTAAACA
1 ATAGATAGCCACAAAGGCGTCCTTAAACA
* *
55033 ATAGATAGCTACAAAGACGT-CTATAAGA-A
1 ATAGATAGCCACAAAGGCGTCCT-TAA-ACA
* ** *
55062 A-AGATAGCCATAAAGAAGTCCTCAAACA
1 ATAGATAGCCACAAAGGCGTCCTTAAACA
55090 ATAGATAGCCACAAAGGC
1 ATAGATAGCCACAAAGGC
55108 ATTTCTTTAA
Statistics
Matches: 153, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
27 2 0.01
28 42 0.27
29 107 0.70
30 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (29 bp):
ATAGATAGCCACAAAGGCGTCCTTAAACA
Found at i:55022 original size:57 final size:57
Alignment explanation
Indices: 54903--55107 Score: 248
Period size: 57 Copynumber: 3.6 Consensus size: 57
54893 ATAGTCACAG
* * * * * * * * *
54903 AGGCGTCCTTGAATAATAGATAGCCATAAAGGCATCCTTGAATAAGAGATAGCCACAA
1 AGGCGTCCTTAAACAATAGATAGCTACAAAGGCGTCCAT-AAGAAAAGATAGCCATAA
* *
54961 AGGCGTCCTTAAACAATAAATAACTACAAAGGCGTCCATAAGAAAAGATAGCCATAA
1 AGGCGTCCTTAAACAATAGATAGCTACAAAGGCGTCCATAAGAAAAGATAGCCATAA
* *
55018 AGGCGTCCTTAAACAATAGATAGCTACAAAGACGTCTATAAGAAAAGATAGCCATAA
1 AGGCGTCCTTAAACAATAGATAGCTACAAAGGCGTCCATAAGAAAAGATAGCCATAA
** * *
55075 AGAAGTCCTCAAACAATAGATAGCCACAAAGGC
1 AGGCGTCCTTAAACAATAGATAGCTACAAAGGC
55108 ATTTCTTTAA
Statistics
Matches: 127, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
57 96 0.76
58 31 0.24
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (57 bp):
AGGCGTCCTTAAACAATAGATAGCTACAAAGGCGTCCATAAGAAAAGATAGCCATAA
Found at i:55076 original size:28 final size:28
Alignment explanation
Indices: 54988--55077 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
54978 AAATAACTAC
* *
54988 AAAGGCGTCCATAAGAAAAGATAGCCAT
1 AAAGACGTCTATAAGAAAAGATAGCCAT
* * *
55016 AAAGGCGTCCT-TAA-ACAATAGATAGCTAC
1 AAAGACGT-CTATAAGA-AA-AGATAGCCAT
55045 AAAGACGTCTATAAGAAAAGATAGCCAT
1 AAAGACGTCTATAAGAAAAGATAGCCAT
55073 AAAGA
1 AAAGA
55078 AGTCCTCAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
27 1 0.02
28 28 0.55
29 21 0.41
30 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.17
Consensus pattern (28 bp):
AAAGACGTCTATAAGAAAAGATAGCCAT
Found at i:55196 original size:29 final size:29
Alignment explanation
Indices: 55147--55385 Score: 257
Period size: 29 Copynumber: 8.3 Consensus size: 29
55137 TTTAACATAT
55147 ACAAAGGCTC-CATATAATAGAATCAACC
1 ACAAAGGCTCTCATATAATAGAATCAACC
* *
55175 ACAAAGGCTCTTATATAATAGAATCAGCC
1 ACAAAGGCTCTCATATAATAGAATCAACC
*
55204 ACAAAGGCTCTCATATAACAGAATCAACC
1 ACAAAGGCTCTCATATAATAGAATCAACC
* * *
55233 ACAAAGGCTCTCATATAA-AAAAACAACA
1 ACAAAGGCTCTCATATAATAGAATCAACC
* * *
55261 AAAAATGCTCTCATATAATAGAAACAACC
1 ACAAAGGCTCTCATATAATAGAATCAACC
* * * * *
55290 ACAAAGGTTCTCATATAACAAAATTAGCC
1 ACAAAGGCTCTCATATAATAGAATCAACC
* * * *
55319 ACAAAGGCTCTCACATAACAGAATTAGCC
1 ACAAAGGCTCTCATATAATAGAATCAACC
* * * * *
55348 ATATAGACTCTTATGTAATAGAATCAACC
1 ACAAAGGCTCTCATATAATAGAATCAACC
55377 ACAAAGGCT
1 ACAAAGGCT
55386 TTTTTGAGTA
Statistics
Matches: 174, Mismatches: 35, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
28 33 0.19
29 141 0.81
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.21
Consensus pattern (29 bp):
ACAAAGGCTCTCATATAATAGAATCAACC
Found at i:55292 original size:86 final size:87
Alignment explanation
Indices: 55147--55336 Score: 249
Period size: 86 Copynumber: 2.2 Consensus size: 87
55137 TTTAACATAT
* * * * * * *
55147 ACAAAGGCTC-CATATAATAGAATCAACCACAAAGGCTCTTATATAATAGAATCAGCCACAAAGG
1 ACAAAGGCTCTCATATAATAAAAACAACAAAAAAGGCTCTCATATAATAGAAACAACCACAAAGG
*
55211 CTCTCATATAACAGAATCAACC
66 CTCTCATATAACAAAATCAACC
*
55233 ACAAAGGCTCTCATATAA-AAAAACAACAAAAAATGCTCTCATATAATAGAAACAACCACAAAGG
1 ACAAAGGCTCTCATATAATAAAAACAACAAAAAAGGCTCTCATATAATAGAAACAACCACAAAGG
* * *
55297 TTCTCATATAACAAAATTAGCC
66 CTCTCATATAACAAAATCAACC
*
55319 ACAAAGGCTCTCACATAA
1 ACAAAGGCTCTCATATAA
55337 CAGAATTAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 83 0.92
87 7 0.08
ACGTcount: A:0.47, C:0.23, G:0.10, T:0.19
Consensus pattern (87 bp):
ACAAAGGCTCTCATATAATAAAAACAACAAAAAAGGCTCTCATATAATAGAAACAACCACAAAGG
CTCTCATATAACAAAATCAACC
Found at i:55302 original size:57 final size:57
Alignment explanation
Indices: 55149--55312 Score: 213
Period size: 57 Copynumber: 2.9 Consensus size: 57
55139 TAACATATAC
* * * * * *
55149 AAAGGCTC-CATATAATAGAATCAACCACAAAGGCTCTTATATAATAGAATCAGCCAC
1 AAAGGCTCTCATATAATAGAATCAACCACAAAGGCTCTCATATAA-AAAAACAACAAA
*
55206 AAAGGCTCTCATATAACAGAATCAACCACAAAGGCTCTCATATAAAAAAACAACAAA
1 AAAGGCTCTCATATAATAGAATCAACCACAAAGGCTCTCATATAAAAAAACAACAAA
* * * *
55263 AAATGCTCTCATATAATAGAAACAACCACAAAGGTTCTCATATAACAAAA
1 AAAGGCTCTCATATAATAGAATCAACCACAAAGGCTCTCATATAAAAAAA
55313 TTAGCCACAA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 60 0.64
58 34 0.36
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.20
Consensus pattern (57 bp):
AAAGGCTCTCATATAATAGAATCAACCACAAAGGCTCTCATATAAAAAAACAACAAA
Found at i:62527 original size:10 final size:10
Alignment explanation
Indices: 62489--62529 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
62479 ATATATTTAT
62489 TTTCTTTTCTC
1 TTTCTTTT-TC
*
62500 TTTTCTTCTTC
1 -TTTCTTTTTC
62511 TTTCTTTTTC
1 TTTCTTTTTC
62521 TTTCTTTTT
1 TTTCTTTTT
62530 GTGATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 2 0.07
12 7 0.26
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:63132 original size:17 final size:17
Alignment explanation
Indices: 63112--63165 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
63102 ACTACAATGC
* *
63112 AAATGTAGTAACAACTA
1 AAATGTAATGACAACTA
* *
63129 AAATGCAATGACAATTAA
1 AAATGTAATGACAACT-A
63147 AAATGTAATGACAACTA
1 AAATGTAATGACAACTA
63164 AA
1 AA
63166 TGTTATGCGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (17 bp):
AAATGTAATGACAACTA
Found at i:63151 original size:18 final size:18
Alignment explanation
Indices: 63122--63165 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
63112 AAATGTAGTA
63122 ACAACT-AAAATGCAATG
1 ACAACTAAAAATGCAATG
* *
63139 ACAATTAAAAATGTAATG
1 ACAACTAAAAATGCAATG
63157 ACAACTAAA
1 ACAACTAAA
63166 TGTTATGCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (18 bp):
ACAACTAAAAATGCAATG
Found at i:64411 original size:6 final size:6
Alignment explanation
Indices: 64402--64428 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64392 CATCATCATC
64402 ATTCTT ATTCTT ATTCTT ATTCTT ATT
1 ATTCTT ATTCTT ATTCTT ATTCTT ATT
64429 TTTTAGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTCTT
Found at i:65047 original size:50 final size:50
Alignment explanation
Indices: 64983--65201 Score: 137
Period size: 50 Copynumber: 4.4 Consensus size: 50
64973 ATTTTAAAGA
*
64983 AAAAGTTTAAATTTTTAACAAAGTTTTAATTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTTAACAAAGTATTAATTTTTTTAACTATTTCGAAAT
** * * * *** *
65033 AAAAGTTTGGATTTTTAAGCAAAATAGTGATTTTCTTTAA--A--AAAAAAG
1 AAAAGTTTAAATTTTTAA-CAAAGTATTAATTTT-TTTAACTATTTCGAAAT
* ** * * *
65081 AGAAAGTTTAGATTTTTAA-AAA-TAAAAAATTATTTTTTAAATTATTT-TAAAGA
1 A-AAAGTTTAAATTTTTAACAAAGT-ATTAA-T-TTTTTT-AACTATTTCGAAA-T
* *
65134 AAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTTAACAAAGTATTAATTTTTTTAACTATTTCGAAAT
* *
65184 AAAATTTTGAATTTTTAA
1 AAAAGTTTAAATTTTTAA
65202 GTAAAATAGT
Statistics
Matches: 127, Mismatches: 27, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
46 1 0.01
47 5 0.04
48 8 0.06
49 21 0.17
50 40 0.31
51 21 0.17
52 25 0.20
53 5 0.04
54 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (50 bp):
AAAAGTTTAAATTTTTAACAAAGTATTAATTTTTTTAACTATTTCGAAAT
Found at i:65334 original size:148 final size:149
Alignment explanation
Indices: 64855--65513 Score: 794
Period size: 148 Copynumber: 4.4 Consensus size: 149
64845 AATGTTTTAG
* * * * * *
64855 TTTTTTTCAACAATTTTGAAATAAAAACTTTGATTTTTTTAAAGCAAAATAGTGATTTTCTTTAA
1 TTTTTTTTAACTATTTCGAAAT-AAAAGTTTGA-ATTTTT-AAGTAAAATAGTGA---T-TTT-A
* * *
64920 AAAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTGTCATTTTAAAGAAA
58 AAAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAA
64985 AAGTTTAAATTTTTAACAAAGTTTT-A
123 AAGTTTAAATTTTTAACAAAGTTTTGA
* * * **
65011 ATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTGATTTTCTTTAAAAA
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAAGTAAAATAGTGA-TTT-TAAAAAAA
* *
65076 AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAAAT-TATTTTTTAAATTATTTTAAAGAAAAAGT
64 AAAAGAGAAAGTTTAGATTTTTAAAAAT-AAAAATCTGTTTTTT-AGTTATTTTAAAGAAAAAGT
65140 TTAAATTTTTAACAAAGTTTTGA
127 TTAAATTTTTAACAAAGTTTTGA
*
65163 -TTTTTTTAACTATTTCGAAATAAAATTTTGAATTTTTAAGTAAAATAGTGATTTTAAAAAAAAA
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAAGTAAAATAGTGATTTTAAAAAAAAA
* * **
65227 AAGTGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAG-AAACTTTTAA
66 AAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAA
65291 ATTTTTAACAAAGTTTTGA
131 ATTTTTAACAAAGTTTTGA
* * ******
65310 TTTTTTTTAATTATTTCTAAATAAAAGTTT-AGATTTTTAAGTAAAATAGTGATTTT--TTTTTT
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTGA-ATTTTTAAGTAAAATAGTGATTTTAAAAAAAA
* ** *
65372 AAATAGAAAGTTTAGATTTAAAAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAAATT
65 AAAGAGAAAGTTTAGATTT-TTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAG-AAAAAGTT
*
65437 T-AATTTTTAACAAAATTTTGA
128 TAAATTTTTAACAAAGTTTTGA
* * *
65458 TTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAGTAGTAATTTT
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAAGTAAAATAGTGATTTT
65514 TGTTTAATCA
Statistics
Matches: 446, Mismatches: 46, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
146 16 0.04
147 62 0.14
148 137 0.31
149 45 0.10
150 45 0.10
151 95 0.21
152 1 0.00
153 14 0.03
154 5 0.01
155 8 0.02
156 18 0.04
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (149 bp):
TTTTTTTTAACTATTTCGAAATAAAAGTTTGAATTTTTAAGTAAAATAGTGATTTTAAAAAAAAA
AAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAA
ATTTTTAACAAAGTTTTGA
Found at i:65514 original size:148 final size:147
Alignment explanation
Indices: 64923--65548 Score: 803
Period size: 148 Copynumber: 4.2 Consensus size: 147
64913 TCTTTAAAAA
* * *
64923 AAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTGTCATTTTAAAGAAAAAG
1 AAAAAAA-AGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAG
*
64988 TTTAAATTTTTAACAAAGTTTT-AATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAG
65 TTTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAG
*
65052 CAAAATAGTGATTTTCTTT
130 TAAAATAGTGATTTT-TTT
* *
65071 AAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAAAT-TATTTTTTAAATTATTTTAAAGAA
1 --AAAAAAA-AGAAAGTTTAGATTTTTAAAAAT-AAAAATCTGTTTTTT-AGTTATTTTAAAGAA
* *
65135 AAAGTTTAAATTTTTAACAAAGTTTTGA-TTTTTTTAACTATTTCGAAATAAAATTTTGAATTTT
61 AAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTT
***
65199 TAAGTAAAATAGTGATTTTAAA
126 TAAGTAAAATAGTGATTTTTTT
* *
65221 AAAAAAAAGTGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAG-AAAC
1 AAAAAAAA--GAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAA
* * * *
65285 TTTTAAATTTTTAACAAAGTTTTGATTTTTTTTAATTATTTCTAAATAAAAGTTTAGATTTTTAA
64 GTTTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAA
65350 GTAAAATAGTGATTTTTTT
129 GTAAAATAGTGATTTTTTT
*** * **
65369 TTTAAATAGAAAGTTTAGATTTAAAAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAA
1 AAAAAAAAGAAAGTTTAGATTT-TTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAG-AAAAA
* *
65434 ATTT-AATTTTTAACAAAATTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAA
64 GTTTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAA
* *
65498 GTAAAGTAGTAATTTTTGTTT
129 GTAAAATAGTGA-TTTT-TTT
** * *
65519 AATCAAATGAAAACTTTAGATTTTTAAAAA
1 AAAAAAAAG-AAAGTTTAGATTTTTAAAAA
65549 AAGAAGAAGA
Statistics
Matches: 417, Mismatches: 46, Indels: 26
0.85 0.09 0.05
Matches are distributed among these distances:
146 13 0.03
147 62 0.15
148 145 0.35
149 38 0.09
150 50 0.12
151 108 0.26
152 1 0.00
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.44
Consensus pattern (147 bp):
AAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGT
TTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGT
AAAATAGTGATTTTTTT
Found at i:66913 original size:240 final size:239
Alignment explanation
Indices: 66542--67011 Score: 739
Period size: 240 Copynumber: 2.0 Consensus size: 239
66532 TCATAATAAT
* *
66542 GATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTATTTCATTAGTAACTTTTAG
1 GATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTATTTCAATAGTAACTTTTAG
* * *
66607 GCTTTTTTTTAGGATTCGAAAATAGAATTAATTTTAAGAATTGAAGGTACTTTACTAGAATTATT
66 GCGTTTTCTTAGGATTCGAAAATAGAATTAATTTTAAGAATTGAAAGTACTTTACTAGAATTATT
* *
66672 TAGATATCCTTTAGGGTTCTTATT-AGAAGTAAAAATCTCTAATTTAAGTTTTAATTTAGATAAG
131 TAGATATCCTTTAGGGTTCTTATTAAG-AGTAAAAATCTCTAATTTAAGTTTTAAATTACATAAG
* * *
66736 TTTAGTGAACATGTTTTAGTCAAGTTACAAGTAAATCGGACTAAC
195 TTTAGTGAACACGTCTTAGTCAAATTACAAGTAAATCGGACTAAC
*
66781 GATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTT-AATAGTAATTTTTT
1 GATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTT-ATTTCAATAGTAA--CTTT
* *
66845 TAGG-GTTTTCTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAATT
63 TAGGCGTTTTCTTAGGATTCGAAAATAGAATTAATTTTAAGAATTGAAAGTACTTTACTAGAATT
* *
66909 ATTTAGGTATCCTTTAGGGTTCTTATTAAGAGTAAAAATCTTTAATTTAAGTTTTAAATTACATA
128 ATTTAGATATCCTTTAGGGTTCTTATTAAGAGTAAAAATCTCTAATTTAAGTTTTAAATTACATA
*
66974 AGTTTGGTGAACACGTCTTAGTCAAATTACAAGTAAAT
193 AGTTTAGTGAACACGTCTTAGTCAAATTACAAGTAAAT
67012 TGGAGGCATT
Statistics
Matches: 211, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
239 51 0.24
240 151 0.72
241 9 0.04
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.41
Consensus pattern (239 bp):
GATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTATTTCAATAGTAACTTTTAG
GCGTTTTCTTAGGATTCGAAAATAGAATTAATTTTAAGAATTGAAAGTACTTTACTAGAATTATT
TAGATATCCTTTAGGGTTCTTATTAAGAGTAAAAATCTCTAATTTAAGTTTTAAATTACATAAGT
TTAGTGAACACGTCTTAGTCAAATTACAAGTAAATCGGACTAAC
Found at i:67773 original size:85 final size:85
Alignment explanation
Indices: 67609--67865 Score: 338
Period size: 85 Copynumber: 3.0 Consensus size: 85
67599 GAAAAATGTT
* *
67609 GCTAAAGAACATGATCTTTAGCGGTGCTTCTCCCACAAACGCTGCTAAAGAACATGGTCTTTAGC
1 GCTAAAGAACATGGTCTTTAGCGGTGCTT-TCCCACAAACGCCGCTAAAGAACATGGTCTTTAGC
* *
67674 GGCGC-TTTCCCACAAACGTC
65 GGCGCTTTTCTCACAAACGCC
* * *
67694 GCTAAAAAACATGGTCTTTAGCGGTGCTTTCCCACAAACGCCGCTGAAGAACATGGTCTTTAGCA
1 GCTAAAGAACATGGTCTTTAGCGGTGCTTTCCCACAAACGCCGCTAAAGAACATGGTCTTTAGCG
*
67759 GTGCTTTTCTCACAAACGCC
66 GCGCTTTTCTCACAAACGCC
* * * * * *
67779 TCTAAAGAACACGGTCTTTAGCAGCGT-TTTTCTCACAAACGTCGCTAAAGAACATGGTCTTTAA
1 GCTAAAGAACATGGTCTTTAGC-G-GTGCTTTCCCACAAACGCCGCTAAAGAACATGGTCTTTAG
*
67843 CGGCGCTTTTCTTACAAACGCC
64 CGGCGCTTTTCTCACAAACGCC
67865 G
1 G
67866 TTATCATTAA
Statistics
Matches: 149, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
84 36 0.24
85 59 0.40
86 52 0.35
87 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (85 bp):
GCTAAAGAACATGGTCTTTAGCGGTGCTTTCCCACAAACGCCGCTAAAGAACATGGTCTTTAGCG
GCGCTTTTCTCACAAACGCC
Found at i:67853 original size:43 final size:43
Alignment explanation
Indices: 67609--67865 Score: 320
Period size: 43 Copynumber: 6.0 Consensus size: 43
67599 GAAAAATGTT
* * * *
67609 GCTAAAGAACATGATCTTTAGCGGTGCTTCTCCCACAAACGCT
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
*
67652 GCTAAAGAACATGGTCTTTAGCGGCGC-TTTCCCACAAACGTC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
67694 GCTAAAAAACATGGTCTTTAGCGGTGC-TTTCCCACAAACGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * *
67736 GCTGAAGAACATGGTCTTTAGCAGTGCTTTTCTCACAAACGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * * * *
67779 TCTAAAGAACACGGTCTTTAGCAGCGTTTTTCTCACAAACGTC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* **
67822 GCTAAAGAACATGGTCTTTAACGGCGCTTTTCTTACAAACGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
67865 G
1 G
67866 TTATCATTAA
Statistics
Matches: 188, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 75 0.40
43 113 0.60
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:79211 original size:42 final size:42
Alignment explanation
Indices: 79152--79592 Score: 578
Period size: 42 Copynumber: 10.5 Consensus size: 42
79142 AAAGAAAACA
*
79152 TTCATTGCATTTAGAGGCCTAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
79194 TTCATTGCATTCAGAGGCCTAGGTGTGGAGGCCCACTTACGT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
79236 TTCATCGCATTTAGAGGCC-ATGGTTTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTA-GGTGTGGAGGTCCATTTACTT
* * * *
79278 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCTATTTATTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
*
79320 TTCATTGCATTCAGAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
79362 TTCAATACATTTAGAGGCTTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
79404 TTCATCGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
79446 TTCATTGCATTTATAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
79488 TTTATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTATTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* ** ** *
79530 TTCATTGTATTCGGAGAACTAGGTGTGGAGGTCCATGTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
79572 TTCATGGCAATTAGAGGCCTA
1 TTCATTGCATTTAGAGGCCTA
79593 AGCATAGAGG
Statistics
Matches: 342, Mismatches: 55, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
41 1 0.00
42 340 0.99
43 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
Found at i:80726 original size:149 final size:147
Alignment explanation
Indices: 80471--81267 Score: 945
Period size: 149 Copynumber: 5.4 Consensus size: 147
80461 AATGTTTTGG
* * * * * *
80471 TTTTTTTAAACAATTTCGAAATAAAAAGCTTT-TATTTTTTAAGAAAAATTGTGATTTTGTTTAA
1 TTTTTTT-AACTATTTCGAAAT-AAAAG-TTTGGA-TTTTTAAGCAAAATAGTAATTTTCTTTAA
* * *
80535 AAAAGAGAAAGTTTAGATTTTTAAAAAT-AAAATCTATATTTTAGTTATTTTAAAGAAAAAGTTT
62 AAAAGAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTT
80599 AAATTTTTAACAAAGTTTTAA
127 AAATTTTTAACAAAGTTTTAA
* * * * *
80620 TTTTTTTAACTATTTCAAAATAAAAGTATGGATTTTTAGGTAAAATAGAAATTTTCTTTAAAAAA
1 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTAATTTTCTTT--AAAA
* * *
80685 AAAAGAAATTTTATA-TTTTAAAAATAAAAATATGTTTTTTTAGTTATTTTAAAGAAAAAGTTTA
64 AAGAGAAAGTTTATATTTTTAAAAATAAAAATCTG-TTTTTTAGTTATTTTAAAGAAAAAGTTTA
* *
80749 AATTTTTAACAAAATTTTGA
128 AATTTTTAACAAAGTTTTAA
* * * *
80769 TTTCTTTAACTATTTCAAAATAAAAGTTTGGAATTTTAAGCAAAATAGTGATTTTCTTTAAAAAA
1 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTAATTTTCTTTAAAAAA
* *
80834 GAGAAAGTTTATATTTTTAAAAATAAAAATTTGTTTTTTAGTTCTTTTAAAGGAAAAAGTTTAAA
66 GAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAA-GAAAAAGTTTAAA
*
80899 TTTCTT-ACAAAGTTTTGAT
130 TTT-TTAACAAAGTTTT-AA
* * *
80918 TTTTTTTAACTATTTCGAATTAAAAGTTTAGATTTTTAAGGAAAATAGTAATTTTCTTTAAAAAA
1 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTAATTTTCTTTAAAAAA
80983 GAGAAAGTTTATATTTTTAAAAATAAAAATCTAGTTTTTTAGTTA---T------AAAGTTTAAA
66 GAGAAAGTTTATATTTTTAAAAATAAAAATCT-GTTTTTTAGTTATTTTAAAGAAAAAGTTTAAA
*
81039 TTTTTAACAAAATTTTAA
130 TTTTTAACAAAGTTTTAA
* * * * *
81057 TTTTTTCTAATTATTTTGAAATAAAAGTTTGGATTTTTAAACAAAATAGTGATTTTTTTTTAAAA
1 TTTTTT-TAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGT-AATTTTCTTT--AA
* *
81122 AAAAGAGAAAGTTTAGATTTCTAAAAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAG
62 AAAAGAGAAAGTTTATATTT-T--TAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAG
*
81187 TTTAAATTTTTAACAAAGTTTTGA
124 TTTAAATTTTTAACAAAGTTTTAA
* * * *
81211 TTTTTTTAAAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGATTTT
1 TTTTTTT--AACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTAATTTT
81268 TGTTTAATCA
Statistics
Matches: 556, Mismatches: 63, Indels: 53
0.83 0.09 0.08
Matches are distributed among these distances:
139 9 0.02
140 59 0.11
141 8 0.01
143 21 0.04
144 1 0.00
145 12 0.02
146 37 0.07
147 51 0.09
148 78 0.14
149 196 0.35
150 11 0.02
153 1 0.00
154 36 0.06
155 36 0.06
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.44
Consensus pattern (147 bp):
TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGCAAAATAGTAATTTTCTTTAAAAAA
GAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAAT
TTTTAACAAAGTTTTAA
Found at i:81239 original size:295 final size:288
Alignment explanation
Indices: 80507--81267 Score: 998
Period size: 295 Copynumber: 2.6 Consensus size: 288
80497 AGCTTTTATT
* *
80507 TTTTAAGA-AAAATTGTGATTTTGTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAAT-AAAATCT
1 TTTTAA-ACAAAATAGTGATTTTCTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCT
* * *
80570 ATATTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTAATTTTTTTAACTATTT
65 GTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTAACTATTT
* * * * *
80635 CAAAATAAAAGTATGGATTTTT-AGGTAAAATAGAAATTTTCTTTAAAAAAAAAAGAAATTTTAT
130 CGAAATAAAAGTTTAGATTTTTAAGG-AAAATAGTAATTTTCTTT-AAAAAAAAAGAAAGTTTAT
80699 ATTTTAAAAATAAAAATATGTTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAAT
193 ATTTTAAAAATAAAAATATGTTTTTTTAGTTA--TT-----AAAAGTTTAAATTTTTAACAAAAT
*
80764 TTTGATTTCTTTAACTATTTCAAAATAAAAGTTTGGAA
251 TTTAATTTCTTTAACTATTTCAAAATAAAAGTTTGGAA
* * *
80802 TTTTAAGCAAAATAGTGATTTTCTTTAAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATTTG
1 TTTTAAACAAAATAGTGATTTTCTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTG
*
80867 TTTTTTAGTTCTTTTAAAGGAAAAAGTTTAAATTTCTT-ACAAAGTTTTGATTTTTTTTAACTAT
66 TTTTTTAGTTATTTTAAA-GAAAAAGTTTAAATTT-TTAACAAAGTTTTGA-TTTTTTTAACTAT
* *
80931 TTCGAATTAAAAGTTTAGATTTTTAAGGAAAATAGTAATTTTCTTT-AAAAAAGAGAAAGTTTAT
128 TTCGAAATAAAAGTTTAGATTTTTAAGGAAAATAGTAATTTTCTTTAAAAAAAAAGAAAGTTTAT
*
80995 ATTTTTAAAAATAAAAATCTAG-TTTTTTAGTTA-T-AAAGTTTAAATTTTTAACAAAATTTTAA
193 A-TTTTAAAAATAAAAATAT-GTTTTTTTAGTTATTAAAAGTTTAAATTTTTAACAAAATTTTAA
* * ** *
81057 TTTTTTCTAATTATTTTGAAATAAAAGTTTGGAT
256 TTTCTT-TAACTATTTCAAAATAAAAGTTTGGAA
* *
81091 TTTTAAACAAAATAGTGATTTTTTTTTAAAAAAAAGAGAAAGTTTAGATTTCTAAAAAAAATAAA
1 TTTTAAACAAAATAGTGA-TTTTCTTT--AAAAAAGAGAAAGTTTAGATTT-T--TAAAAATAAA
81156 AATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTAAA
60 AATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTT--A
* * *
81221 ACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGATTTT
123 ACTATTTCGAAATAAAAGTTTAGATTTTTAAGGAAAATAGTAATTTT
81268 TGTTTAATCA
Statistics
Matches: 415, Mismatches: 33, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
288 32 0.08
289 40 0.10
290 7 0.02
292 21 0.05
293 10 0.02
294 29 0.07
295 126 0.30
296 39 0.09
297 55 0.13
298 53 0.13
299 3 0.01
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (288 bp):
TTTTAAACAAAATAGTGATTTTCTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTG
TTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTAACTATTTC
GAAATAAAAGTTTAGATTTTTAAGGAAAATAGTAATTTTCTTTAAAAAAAAAGAAAGTTTATATT
TTAAAAATAAAAATATGTTTTTTTAGTTATTAAAAGTTTAAATTTTTAACAAAATTTTAATTTCT
TTAACTATTTCAAAATAAAAGTTTGGAA
Found at i:83434 original size:43 final size:42
Alignment explanation
Indices: 83373--83526 Score: 218
Period size: 43 Copynumber: 3.6 Consensus size: 42
83363 TTTCCCATAA
* *
83373 AGCGGCGCTTCTCCCACAAACGCCGTAGAAGAACATGGTCTTT
1 AGCGGCGCTTTTCTCACAAACGCCGTA-AAGAACATGGTCTTT
*
83416 AGCGGCGCTTTTCTCACAAACGCCTCTAAAGAACATGGTCTTT
1 AGCGGCGCTTTTCTCACAAACGCC-GTAAAGAACATGGTCTTT
* * *
83459 AACGGTGCTTTTATCACAAACGCCGCTAAAGAACATGGTCTTT
1 AGCGGCGCTTTTCTCACAAACGCCG-TAAAGAACATGGTCTTT
*
83502 AGCGACGCTTTTCTCACAAACGCCG
1 AGCGGCGCTTTTCTCACAAACGCCG
83527 GTATCATTAA
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
43 96 0.98
44 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (42 bp):
AGCGGCGCTTTTCTCACAAACGCCGTAAAGAACATGGTCTTT
Found at i:86717 original size:20 final size:20
Alignment explanation
Indices: 86694--86735 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
86684 TAAGATTTAC
86694 AAGAAAAAAATAAGA-GTAAA
1 AAGAAAAAAATAA-ATGTAAA
* *
86714 AAGATAAAAGTAAATGTAAA
1 AAGAAAAAAATAAATGTAAA
86734 AA
1 AA
86736 TGCGTTGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (20 bp):
AAGAAAAAAATAAATGTAAA
Found at i:95860 original size:36 final size:36
Alignment explanation
Indices: 95820--95897 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
95810 AATGTAATCA
*
95820 GTCACATGGCATAAAGAACATACACACATATTCTCT
1 GTCACATGGCATAAAGAACATACACACATATTCACT
* * *
95856 GTCACATGGCATGAATAACATACCCACATATTCACT
1 GTCACATGGCATAAAGAACATACACACATATTCACT
*
95892 TTCACA
1 GTCACA
95898 ACAGTCATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.26
Consensus pattern (36 bp):
GTCACATGGCATAAAGAACATACACACATATTCACT
Found at i:96002 original size:23 final size:23
Alignment explanation
Indices: 95967--96623 Score: 864
Period size: 23 Copynumber: 28.6 Consensus size: 23
95957 ATCTTAATTC
*
95967 TTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
95990 TTTAATCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96013 TTTAATCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
*
96036 TTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
*
96059 TTTAAGCATAAACCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * * *
96082 TTTAAGCACAAACCATATTAATT
1 TTTAAGCATAAATCACATTAATA
*
96105 TTTAAGCATAAACCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96128 TTTAAGTATAAATCACATTAATT
1 TTTAAGCATAAATCACATTAATA
*
96151 TTTAAGCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
96174 TTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * * *
96197 CTTAAGCACAAATCACAGTGATA
1 TTTAAGCATAAATCACATTAATA
*
96220 TTTAAGCATAAATTACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * *
96243 TTTTAGTATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
** *
96266 TTTAAATACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * *
96289 TTTGAGCACAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
* * *
96312 TTTTAGCACAAATCTCATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96335 TTTGAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
*
96358 TTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96381 TTTGAGAATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
*
96404 CTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96427 CTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96450 TTTAATCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
*
96473 TTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96496 TTTGAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
96519 TTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96542 CTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
96565 TTTAATCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
96588 TTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
*
96611 TTTAAGCTTAAAT
1 TTTAAGCATAAAT
96624 ATAAGAACAC
Statistics
Matches: 560, Mismatches: 74, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 560 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (23 bp):
TTTAAGCATAAATCACATTAATA
Found at i:97927 original size:20 final size:22
Alignment explanation
Indices: 97902--97942 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
97892 CAATGACCAA
97902 GTTGACTTCG-CTCCA-AATGG
1 GTTGACTTCGACTCCATAATGG
97922 GTTGACTTCGACTCCATAATG
1 GTTGACTTCGACTCCATAATG
97943 TACGAGGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (22 bp):
GTTGACTTCGACTCCATAATGG
Found at i:100814 original size:26 final size:26
Alignment explanation
Indices: 100773--100996 Score: 168
Period size: 26 Copynumber: 8.7 Consensus size: 26
100763 AGAAAAGAAT
* *
100773 TGATTATATAGTAGGCCTT-GAGCCGA
1 TGATTATATAGCAGG-CTTCGAGCCGG
*
100799 TGATTATATAACAGGCTTCGAGCCGG
1 TGATTATATAGCAGGCTTCGAGCCGG
* * *
100825 TGATTTTATAGCAGACTTCGAGCTGG
1 TGATTATATAGCAGGCTTCGAGCCGG
* *
100851 TGATTATATAGCAAGCTTCGAGTCGG
1 TGATTATATAGCAGGCTTCGAGCCGG
* * * **
100877 TGATTAAATAGTA-ACTTCGAGCCTA
1 TGATTATATAGCAGGCTTCGAGCCGG
* * ** *
100902 TGATTAAATAGTAGGACTTTAAGCTGG
1 TGATTATATAGCAGG-CTTCGAGCCGG
* *
100929 TGATTATTTAGCAGGCTTTGAGCCGG
1 TGATTATATAGCAGGCTTCGAGCCGG
* * *
100955 TGATTAAATAGTAGGCCTT-GAGCTGG
1 TGATTATATAGCAGG-CTTCGAGCCGG
* *
100981 TGA-CATTTAGCAGGCT
1 TGATTATATAGCAGGCT
100997 GAGCTGGTGA
Statistics
Matches: 157, Mismatches: 37, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
24 2 0.01
25 31 0.20
26 103 0.66
27 21 0.13
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (26 bp):
TGATTATATAGCAGGCTTCGAGCCGG
Found at i:101766 original size:21 final size:21
Alignment explanation
Indices: 101740--101781 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
101730 ATATATGTCT
101740 GTTCATGTATTGAATTACTTA
1 GTTCATGTATTGAATTACTTA
101761 GTTCATGTATTGAATTACTTA
1 GTTCATGTATTGAATTACTTA
101782 CTGACTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
GTTCATGTATTGAATTACTTA
Found at i:104470 original size:13 final size:13
Alignment explanation
Indices: 104452--104476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104442 AAATTAAAAA
104452 ATGCTAAAAATGT
1 ATGCTAAAAATGT
104465 ATGCTAAAAATG
1 ATGCTAAAAATG
104477 ACCAAATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (13 bp):
ATGCTAAAAATGT
Found at i:108884 original size:26 final size:25
Alignment explanation
Indices: 108828--108893 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
108818 CCTTGAGCCC
* * *
108828 GTGATTATATAGTAGACTTCGAGTT
1 GTGATTATATAGCAGACTTCAACTT
*
108853 GATGATTATATAGCAGGCTTCTAACTT
1 G-TGATTATATAGCAGACTTC-AACTT
*
108880 GTGATTAAATAGCA
1 GTGATTATATAGCA
108894 AGCCTTGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.03
26 29 0.85
27 4 0.12
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (25 bp):
GTGATTATATAGCAGACTTCAACTT
Found at i:110403 original size:7 final size:7
Alignment explanation
Indices: 110391--110416 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
110381 TTGCTTATGA
110391 GTTTAGG
1 GTTTAGG
110398 GTTTAGG
1 GTTTAGG
110405 GTTTAGG
1 GTTTAGG
110412 GTTTA
1 GTTTA
110417 AAGTTTAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:110422 original size:14 final size:14
Alignment explanation
Indices: 110390--110424 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
110380 CTTGCTTATG
*
110390 AGTTTAGGGTTTAG
1 AGTTTAGGGTTTAA
*
110404 GGTTTAGGGTTTAA
1 AGTTTAGGGTTTAA
110418 AGTTTAG
1 AGTTTAG
110425 ACAAAATACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (14 bp):
AGTTTAGGGTTTAA
Found at i:118066 original size:30 final size:31
Alignment explanation
Indices: 118030--118107 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
118020 TTAATATAAT
*
118030 ATTTGGTATTTGAACTTGACAC-TTTTTTTA
1 ATTTGGTATTTAAACTTGACACTTTTTTTTA
* * **
118060 ATTTGGTATCTAAACATGATGCTTTTTTTTA
1 ATTTGGTATTTAAACTTGACACTTTTTTTTA
*
118091 AATTGGTATTTAAACTT
1 ATTTGGTATTTAAACTT
118108 TTTGGGATCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 17 0.44
31 22 0.56
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (31 bp):
ATTTGGTATTTAAACTTGACACTTTTTTTTA
Found at i:118447 original size:57 final size:55
Alignment explanation
Indices: 118329--118447 Score: 123
Period size: 57 Copynumber: 2.1 Consensus size: 55
118319 TAAAATTTTT
* * * *
118329 AAAAAAAATTAGATACCAGATTAAGAAAATGTCAAATTCAAGTATCAAATTAAGTCC
1 AAAAAAAATTAGATACCAAATTAAAAAAAGGTCAAATTCAAATATCAAATTAAG--C
* * * *
118386 AAAAACATTTAGATACCAAATTAAAAAAAGGTATAAAGTTCAAATATTAAATTAAG-
1 AAAAAAAATTAGATACCAAATTAAAAAAAGGT-CAAA-TTCAAATATCAAATTAAGC
118442 AAAAAA
1 AAAAAA
118448 TGTCGAATTC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
56 5 0.10
57 27 0.53
58 3 0.06
59 16 0.31
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.24
Consensus pattern (55 bp):
AAAAAAAATTAGATACCAAATTAAAAAAAGGTCAAATTCAAATATCAAATTAAGC
Found at i:120577 original size:24 final size:25
Alignment explanation
Indices: 120549--120597 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
120539 AAGTCACACT
* *
120549 AATTAGATCAATTAAA-AAAATTAA
1 AATTAGACCAATAAAATAAAATTAA
*
120573 AATTATACCAATAAAATAAAATTAA
1 AATTAGACCAATAAAATAAAATTAA
120598 GAATATCATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (25 bp):
AATTAGACCAATAAAATAAAATTAA
Found at i:124086 original size:5 final size:5
Alignment explanation
Indices: 124078--124104 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
124068 AAAAATTTTC
124078 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
124105 CGAATGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:125595 original size:2 final size:2
Alignment explanation
Indices: 125588--125615 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
125578 TATGAATGAT
125588 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
125616 CTACTAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127642 original size:20 final size:20
Alignment explanation
Indices: 127619--127657 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
127609 TCCACATTAT
127619 AGGTATCAATAATTTCTTAA
1 AGGTATCAATAATTTCTTAA
*
127639 AGGTATCGATAATTTCTTA
1 AGGTATCAATAATTTCTTA
127658 GAAGCATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (20 bp):
AGGTATCAATAATTTCTTAA
Found at i:127666 original size:20 final size:20
Alignment explanation
Indices: 127627--127669 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
127617 ATAGGTATCA
*
127627 ATAATTTCTTAAAGGTATCG
1 ATAATTTCTTAAAGGCATCG
127647 ATAATTTCTTAGAA-GCATCG
1 ATAATTTCTTA-AAGGCATCG
127667 ATA
1 ATA
127670 CTCTTGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (20 bp):
ATAATTTCTTAAAGGCATCG
Found at i:129680 original size:118 final size:116
Alignment explanation
Indices: 129393--129691 Score: 388
Period size: 115 Copynumber: 2.6 Consensus size: 116
129383 GAAAGAAAAC
* * * *
129393 AAAACAGATGCACAATATTGGTACATACAAAAAATCTAACATAAGAAAGAAAACAAAGTCTTGGT
1 AAAACA-ATACACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAGTCTTGGT
* * *
129458 ATACACAATATTAGAATTTAACATGCCCCTACAGTTCTTCCATTCGAACGTG
65 AAACACAATATTAGAATTTAACATGCCCCTACAATCCTTCCATTCGAACGTG
* * * * * *
129510 AGAAAGAA-A-ACAAAATAGATATATACCAAAAATCTGAAATAAGAAAGAAAACAAAATCTTGGT
1 A-AAACAATACACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAGTCTTGGT
*
129573 AAACACAATATTAGAATTTAACATG-CCCTACAATCCTTCCATTCTAACATGTG
65 AAACACAATATTAGAATTTAACATGCCCCTACAATCCTTCCATTCGAAC--GTG
* *
129626 AAAACATATACACAATGTTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAGTATTGGT
1 AAAACA-ATACACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAGTCTTGGT
129691 A
65 A
129692 TGAGAATTTA
Statistics
Matches: 154, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
114 20 0.13
115 74 0.48
116 5 0.03
117 3 0.02
118 52 0.34
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (116 bp):
AAAACAATACACAATATTGATATATACAAAAAATCTGACATAAGAAAGAAAACAAAGTCTTGGTA
AACACAATATTAGAATTTAACATGCCCCTACAATCCTTCCATTCGAACGTG
Found at i:130508 original size:24 final size:24
Alignment explanation
Indices: 130462--130508 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
130452 TATTTTTATA
* * *
130462 TCTTTTATAATTTTTTAACAATTT
1 TCTTTTATAAATTTTAAAAAATTT
*
130486 TCTTTTTTAAATTTTAAAAAATT
1 TCTTTTATAAATTTTAAAAAATT
130509 AATTATTGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (24 bp):
TCTTTTATAAATTTTAAAAAATTT
Found at i:137521 original size:18 final size:19
Alignment explanation
Indices: 137484--137522 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
137474 ATTGTCACCC
137484 ATCATAATCAAATTTGTTT
1 ATCATAATCAAATTTGTTT
*
137503 ATCATAATC-AATTTTTTT
1 ATCATAATCAAATTTGTTT
137521 AT
1 AT
137523 TAACTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (19 bp):
ATCATAATCAAATTTGTTT
Found at i:137795 original size:17 final size:17
Alignment explanation
Indices: 137753--137812 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
137743 AATTTAATTT
137753 TAATATAAATA-TTCAA
1 TAATATAAATAGTTCAA
137769 T-ATGATTAAATAGTTCAA
1 TAAT-A-TAAATAGTTCAA
*
137787 TAATATAAATAGTACAA
1 TAATATAAATAGTTCAA
*
137804 -AATGTAAAT
1 TAATATAAAT
137813 TTTAATTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 2 0.05
16 10 0.26
17 17 0.45
18 7 0.18
19 2 0.05
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (17 bp):
TAATATAAATAGTTCAA
Found at i:141455 original size:17 final size:20
Alignment explanation
Indices: 141433--141476 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
141423 AAAATCAAGC
141433 AATAATA-CAAC-T-ATAAT
1 AATAATATCAACATGATAAT
*
141450 AATAATATTAACATGATAAT
1 AATAATATCAACATGATAAT
141470 AATAATA
1 AATAATA
141477 ATTAATAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 7 0.30
18 3 0.13
19 1 0.04
20 12 0.52
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (20 bp):
AATAATATCAACATGATAAT
Found at i:141714 original size:13 final size:13
Alignment explanation
Indices: 141682--141742 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
141672 TGAGTACTAA
141682 AAAT-AAATAAAT
1 AAATAAAATAAAT
*
141694 AAACAAAATAAAT
1 AAATAAAATAAAT
*
141707 AAGTAAAA-AAAT
1 AAATAAAATAAAT
141719 GAAATAAAAATAAAT
1 -AAAT-AAAATAAAT
141734 AGAATAAAA
1 A-AATAAAA
141743 AAGTATGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
12 7 0.17
13 17 0.43
14 9 0.22
15 7 0.17
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:141739 original size:5 final size:4
Alignment explanation
Indices: 141682--141741 Score: 52
Period size: 4 Copynumber: 14.8 Consensus size: 4
141672 TGAGTACTAA
* * *
141682 AAAT AAAT AAAT AAACA AAAT AAAT AAGT AAAA AAAT GAAAT -AA- AAAT
1 AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
141730 AAAT AGAAT AAA
1 AAAT A-AAT AAA
141742 AAAGTATGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
3 4 0.09
4 30 0.67
5 11 0.24
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:141744 original size:17 final size:16
Alignment explanation
Indices: 141680--141726 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
141670 TATGAGTACT
141680 AAAAATAAATAAATAA
1 AAAAATAAATAAATAA
*
141696 ACAAAATAAATAAGTAA
1 A-AAAATAAATAAATAA
141713 AAAAATGAAATAAA
1 AAAAAT-AAATAAA
141727 AATAAATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (16 bp):
AAAAATAAATAAATAA
Found at i:146232 original size:60 final size:58
Alignment explanation
Indices: 146171--146311 Score: 180
Period size: 58 Copynumber: 2.4 Consensus size: 58
146161 TTTTGGCTTT
*
146171 AATTTAATCCTTTTAATGTTTTGTT-TCTTTT-AAAATTTCCCCTTTTATTCGATTTTTTTTA
1 AATTTAATCCTTTT-AT-TTTTATTCT-TTTTAAAAATTTCCCCTTTTATT--ATTTTTTTTA
* *
146232 AATTAAATCCTTTTATTTTTATTCTTTTTAAAAATTTCCCTTTTTATTATTTTTTTTA
1 AATTTAATCCTTTTATTTTTATTCTTTTTAAAAATTTCCCCTTTTATTATTTTTTTTA
*
146290 AATTTAATCCTTTT-TTATTATT
1 AATTTAATCCTTTTATTTTTATT
146312 TATATTTTGT
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
57 7 0.10
58 23 0.32
59 10 0.14
60 20 0.27
61 13 0.18
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.62
Consensus pattern (58 bp):
AATTTAATCCTTTTATTTTTATTCTTTTTAAAAATTTCCCCTTTTATTATTTTTTTTA
Found at i:146233 original size:29 final size:27
Alignment explanation
Indices: 146198--146291 Score: 73
Period size: 28 Copynumber: 3.3 Consensus size: 27
146188 GTTTTGTTTC
146198 TTTTAAAATTTCCCCTTTTATTCGATTTT
1 TTTTAAAATTTCCCCTTTTATT--ATTTT
** *
146227 TTTT-AAATTAAATCCTTTTATTTTTATTCTT
1 TTTTAAAATT---TCCCCTT-TTATTATT-TT
* *
146258 TTTAAAAATTTCCCTTTTTATTATTTT
1 TTTTAAAATTTCCCCTTTTATTATTTT
146285 TTTTAAA
1 TTTTAAA
146292 TTTAATCCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
27 8 0.15
28 12 0.23
29 10 0.19
30 3 0.06
31 10 0.19
32 9 0.17
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTAAAATTTCCCCTTTTATTATTTT
Found at i:146305 original size:29 final size:29
Alignment explanation
Indices: 146213--146312 Score: 105
Period size: 29 Copynumber: 3.4 Consensus size: 29
146203 AAATTTCCCC
*
146213 TTTTATTCGATTTTTTTTAAATTAAATCCTT
1 TTTTATT--ATTTTTTTTAAATTTAATCCTT
* * * *
146244 TTATTTTTATTCTTTTTAAAAATT--TCCCT
1 TT-TTATTATT-TTTTTTAAATTTAATCCTT
146273 TTTTATTATTTTTTTTAAATTTAATCCTT
1 TTTTATTATTTTTTTTAAATTTAATCCTT
146302 TTTTATTATTT
1 TTTTATTATTT
146313 ATATTTTGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
27 10 0.18
28 7 0.12
29 21 0.38
30 3 0.05
31 11 0.20
32 4 0.07
ACGTcount: A:0.24, C:0.09, G:0.01, T:0.66
Consensus pattern (29 bp):
TTTTATTATTTTTTTTAAATTTAATCCTT
Found at i:155963 original size:13 final size:13
Alignment explanation
Indices: 155945--155970 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
155935 GTTGGGTGTT
155945 AGTCTTAGAGGTC
1 AGTCTTAGAGGTC
155958 AGTCTTAGAGGTC
1 AGTCTTAGAGGTC
155971 CTATCGATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
AGTCTTAGAGGTC
Found at i:165615 original size:14 final size:14
Alignment explanation
Indices: 165591--165629 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
165581 CACATTTTAC
165591 ATTTCCTTTTATCT
1 ATTTCCTTTTATCT
*
165605 -TTTCACTTTTATTT
1 ATTTC-CTTTTATCT
165619 ATTTCCTTTTA
1 ATTTCCTTTTA
165630 AATTCTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTCCTTTTATCT
Found at i:167995 original size:18 final size:18
Alignment explanation
Indices: 167969--168040 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 18
167959 ATACATCCTA
*
167969 TTTAGTTGTCATTGCATT
1 TTTATTTGTCATTGCATT
*
167987 TTTATTTGTCACTGCA-T
1 TTTATTTGTCATTGCATT
* * *
168004 TTCATTTGTTAGTGCATT
1 TTTATTTGTCATTGCATT
*
168022 TGTA-TTGT-AGTTGCATT
1 TTTATTTGTCA-TTGCATT
168039 TT
1 TT
168041 CATTATTATA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 1 0.02
17 25 0.58
18 17 0.40
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (18 bp):
TTTATTTGTCATTGCATT
Found at i:171863 original size:6 final size:6
Alignment explanation
Indices: 171854--171879 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
171844 TTTGAAGTAC
171854 GAGTCA GAGTCA GAGTCA GAGTCA GA
1 GAGTCA GAGTCA GAGTCA GAGTCA GA
171880 TCGAGGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (6 bp):
GAGTCA
Found at i:184516 original size:23 final size:23
Alignment explanation
Indices: 184490--184537 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
184480 CCTTTCATTT
184490 AAGTTTTGTCTCCAATAAAATTC
1 AAGTTTTGTCTCCAATAAAATTC
184513 AAGTTTTGTCTCCAATAAAATTC
1 AAGTTTTGTCTCCAATAAAATTC
184536 AA
1 AA
184538 TCTTATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
AAGTTTTGTCTCCAATAAAATTC
Found at i:185255 original size:46 final size:46
Alignment explanation
Indices: 185204--185342 Score: 183
Period size: 46 Copynumber: 3.0 Consensus size: 46
185194 TAGATCACCA
*
185204 CATCCAATCTTATACCCCTAAATCCAGAGGGGCA-AGTTGAAGCCAC
1 CATCCAATCTTATACCCCTAAATCCAGAGGGGCAGA-TTAAAGCCAC
*
185250 CATCCAATCTTATACCCCTAAATCTAGAGGGGCAGATTAAAGCCAC
1 CATCCAATCTTATACCCCTAAATCCAGAGGGGCAGATTAAAGCCAC
* * ** * *
185296 CATCAAATCTTATACCCCT-AATTCAGAAAGGCAGATTGAAGCTAC
1 CATCCAATCTTATACCCCTAAATCCAGAGGGGCAGATTAAAGCCAC
185341 CA
1 CA
185343 GATCAAATCG
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
45 22 0.27
46 60 0.72
47 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (46 bp):
CATCCAATCTTATACCCCTAAATCCAGAGGGGCAGATTAAAGCCAC
Found at i:185382 original size:93 final size:92
Alignment explanation
Indices: 185204--185384 Score: 204
Period size: 93 Copynumber: 2.0 Consensus size: 92
185194 TAGATCACCA
* ** * *
185204 CATCCAATCTTATACCCCTAAATCCAGAGGGGCAAGTTGAAGCCACCATCCAATCTTATACCCCT
1 CATCAAATCTTATACCCCTAAATCCAGAAAGGCAAGTTGAAGCCACCATCAAATCGTATACCCCT
*
185269 AAATCTAGAGGGGCAGATTAAAGCCAC
66 AAATCTAGAGAGGCAGATTAAAGCCAC
* * *
185296 CATCAAATCTTATACCCCT-AATTCAGAAAGGC-AGATTGAAGCTACCAGATCAAATCGTATACT
1 CATCAAATCTTATACCCCTAAATCCAGAAAGGCAAG-TTGAAGCCACC--ATCAAATCGTATACC
* * * *
185359 CTTAAATTTGGAGAGGCCGATTAAAG
63 CCTAAATCTAGAGAGGCAGATTAAAG
185385 TCACAACACT
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
90 2 0.03
91 20 0.27
92 18 0.25
93 33 0.45
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (92 bp):
CATCAAATCTTATACCCCTAAATCCAGAAAGGCAAGTTGAAGCCACCATCAAATCGTATACCCCT
AAATCTAGAGAGGCAGATTAAAGCCAC
Found at i:188959 original size:90 final size:90
Alignment explanation
Indices: 188806--188980 Score: 314
Period size: 90 Copynumber: 1.9 Consensus size: 90
188796 GAGGGTTTGG
* *
188806 ACAAAAATATTAGGCTCGAAAATGGGTTTGGGAAAAAAATTAAGCTCATTTAAAATATGAATCAG
1 ACAAAAATATTAGGCTCAAAAATGGGTTTGGGAAAAAAATTAAGCTCATTTAAAATATAAATCAG
188871 GCTTGAGCTTGAATATTCAAGTTGA
66 GCTTGAGCTTGAATATTCAAGTTGA
* *
188896 ACAAAAATATTAGGCTCAAAAATGGGTTTGGGCAAAAAATTAAGCTCGTTTAAAATATAAATCAG
1 ACAAAAATATTAGGCTCAAAAATGGGTTTGGGAAAAAAATTAAGCTCATTTAAAATATAAATCAG
188961 GCTTGAGCTTGAATATTCAA
66 GCTTGAGCTTGAATATTCAA
188981 AGCCCCAAGC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.29
Consensus pattern (90 bp):
ACAAAAATATTAGGCTCAAAAATGGGTTTGGGAAAAAAATTAAGCTCATTTAAAATATAAATCAG
GCTTGAGCTTGAATATTCAAGTTGA
Found at i:192755 original size:53 final size:53
Alignment explanation
Indices: 192621--192914 Score: 283
Period size: 53 Copynumber: 5.6 Consensus size: 53
192611 TTGATAACAA
* * * ** * * * * *
192621 ACGATGACACAGAGTCATCGAACCTTTAATCTATGAT-GAATTCGTATATCTT
1 ACGATGACACATAATCATCGGACCTTTAATCCGTAATAGGATTCATATAACTC
* * *
192673 ACGATGACATA-AAGTTATCGGACCCTTAATCCGTAATAGGATTCATATAACTC
1 ACGATGACACATAA-TCATCGGACCTTTAATCCGTAATAGGATTCATATAACTC
* ** * * * ** *
192726 ACGATGACACATATTCATTAGAGCTTTAATCCGTGAT-GAATTTGTATATCTC
1 ACGATGACACATAATCATCGGACCTTTAATCCGTAATAGGATTCATATAACTC
* *
192778 ACGATGACACA-AAGTTATCGGA-CTCTTAATTCGTAATAGGATTCATATAACTC
1 ACGATGACACATAA-TCATCGGACCT-TTAATCCGTAATAGGATTCATATAACTC
* *
192831 ACGATGACACATAATCATCGGACCCTTAATCCATAATAGGATTCATATAACTC
1 ACGATGACACATAATCATCGGACCTTTAATCCGTAATAGGATTCATATAACTC
*
192884 ACGATGACACATAATCATTGGACCTTTAATC
1 ACGATGACACATAATCATCGGACCTTTAATC
192915 TTTGGCACAA
Statistics
Matches: 194, Mismatches: 40, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
51 4 0.02
52 64 0.33
53 122 0.63
54 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (53 bp):
ACGATGACACATAATCATCGGACCTTTAATCCGTAATAGGATTCATATAACTC
Found at i:192796 original size:105 final size:105
Alignment explanation
Indices: 192644--192894 Score: 349
Period size: 105 Copynumber: 2.4 Consensus size: 105
192634 GTCATCGAAC
* * *
192644 CTTTAATCTATGATGAATTCGTATATCTTACGATGACATAAAGTTATCGGACCCTTAATCCGTAA
1 CTTTAATCCATGATGAATTCGTATATCTCACGATGACACAAAGTTATCGGACCCTTAATCCGTAA
*
192709 TAGGATTCATATAACTCACGATGACACATATTCATTAGAG
66 TAGGATTCATATAACTCACGATGACACATAATCATTAGAG
* * * *
192749 CTTTAATCCGTGATGAATTTGTATATCTCACGATGACACAAAGTTATCGGACTCTTAATTCGTAA
1 CTTTAATCCATGATGAATTCGTATATCTCACGATGACACAAAGTTATCGGACCCTTAATCCGTAA
** *
192814 TAGGATTCATATAACTCACGATGACACATAATCATCGGAC
66 TAGGATTCATATAACTCACGATGACACATAATCATTAGAG
* * * * *
192854 CCTTAATCCATAATAGGATTCATATAACTCACGATGACACA
1 CTTTAATCCATGAT-GAATTCGTATATCTCACGATGACACA
192895 TAATCATTGG
Statistics
Matches: 127, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
105 105 0.83
106 22 0.17
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (105 bp):
CTTTAATCCATGATGAATTCGTATATCTCACGATGACACAAAGTTATCGGACCCTTAATCCGTAA
TAGGATTCATATAACTCACGATGACACATAATCATTAGAG
Found at i:199022 original size:21 final size:21
Alignment explanation
Indices: 198998--199049 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
198988 AGACCTCTAT
*
198998 CGATACAAGTGACACTTTTAC
1 CGATACAAGTAACACTTTTAC
* *
199019 CGATACAAGTAACTCTTTTAT
1 CGATACAAGTAACACTTTTAC
*
199040 CGAAACAAGT
1 CGATACAAGT
199050 CTTATTTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (21 bp):
CGATACAAGTAACACTTTTAC
Found at i:199304 original size:30 final size:30
Alignment explanation
Indices: 199269--199329 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
199259 TAGAATCATA
* *
199269 TTTTCAATCTTTGGCATAAGGCCAGGTACT
1 TTTTCAATATTTGGCACAAGGCCAGGTACT
* *
199299 TTTTCAATATTTGGCACAAGGTCGGGTACT
1 TTTTCAATATTTGGCACAAGGCCAGGTACT
199329 T
1 T
199330 CTTCTGTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (30 bp):
TTTTCAATATTTGGCACAAGGCCAGGTACT
Found at i:204175 original size:39 final size:39
Alignment explanation
Indices: 204130--204207 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
204120 GGAAAGAACA
*
204130 ATGTTTCAGTGAAGGAGGAGGTGAACGTGTCTAAAACTG
1 ATGTTTCAGTGAAGGAGGAGGTGAACGTGACTAAAACTG
*
204169 ATGTTTCAGTGAAGGAGGAGGTGAATGTGACTAAAACTG
1 ATGTTTCAGTGAAGGAGGAGGTGAACGTGACTAAAACTG
204208 CAAATAGAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.09, G:0.33, T:0.26
Consensus pattern (39 bp):
ATGTTTCAGTGAAGGAGGAGGTGAACGTGACTAAAACTG
Found at i:204814 original size:3 final size:3
Alignment explanation
Indices: 204806--204843 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
204796 AAAAATCAAA
204806 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
204844 AGTTATGATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:206757 original size:36 final size:35
Alignment explanation
Indices: 206658--207207 Score: 532
Period size: 35 Copynumber: 15.3 Consensus size: 35
206648 TCGACCTTTA
*
206658 AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACCTTTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC--TT
* * *** *
206696 AAAAAGATTGTGATAGACACATCTAAGACAACCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
* * * * *
206731 TAAAAGGTTGGGGTATACATTTTCTAAGGAAACCTTT
1 AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACC-TT
* *
206768 AAAAAAGGTTGAGG-TATACATTATCTAAGGCAACCTTT
1 -AAAAAGGTTG-GGATAGAC-TTGTCTAAGGCAACC-TT
** *
206806 AAAAAAGGTTATGATAGACTCGTCTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
* *
206842 -AAAAGGTTGGGATAGATATTGTCTAAGACAACCTTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC-TT
* * *
206878 AAAAAAGATTGGGGTAGACCTGTCTAAGGCAACCTTT
1 -AAAAAGGTTGGGATAGACTTGTCTAAGGCAACC-TT
* **
206915 AAAAAGGGTTGGGATAAACTCATCTAAGGCAACCTT
1 AAAAA-GGTTGGGATAGACTTGTCTAAGGCAACCTT
* ** * *
206951 AAAAAGGTTGGGATAGACCTTTTCTGTGACACCCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
* *
206987 AAAAAGGTTGGGATGGACTCGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
*
207022 AAAAAGGTTGGGATAGACCTT-TACTAAGGCAACCTA
1 AAAAAGGTTGGGATAGA-CTTGT-CTAAGGCAACCTT
207058 AAAAAGGTT-GGATAGACTTTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACCTT
* ** * *
207093 AAAAAGGTTGGGATAAACCAGTTTAAGGCAACCAT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
*
207128 AAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
1 AAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTT
*
207164 AAAAAGGTTGGGATAGACTTGTCTAAGGAAACCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
207199 AAAAAGGTT
1 AAAAAGGTT
207208 CTAAGGAAAC
Statistics
Matches: 423, Mismatches: 72, Indels: 37
0.80 0.14 0.07
Matches are distributed among these distances:
34 15 0.04
35 152 0.36
36 115 0.27
37 66 0.16
38 73 0.17
39 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTT
Found at i:206874 original size:35 final size:36
Alignment explanation
Indices: 206658--207735 Score: 617
Period size: 36 Copynumber: 29.5 Consensus size: 36
206648 TCGACCTTTA
*
206658 AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACCTTTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC--TT
* * * *
206696 AAAAAGATTGTGATAGACAC--ATCTAAGACAACCTT
1 AAAAAGGTTGGGATAGAC-CTTGTCTAAGGCAACCTT
* * * * * *
206731 TAAAAGGTTGGGGTATACATTTTCTAAGGAAACCTTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TT
* * *
206768 AAAAAAGGTTGAGG-TATACATTATCTAAGGCAACCTTT
1 -AAAAAGGTTG-GGATAGACCTTGTCTAAGGCAACC-TT
** *
206806 AAAAAAGGTTATGATAGA-CTCGTCTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
** *
206842 -AAAAGGTTGGGATAGATATTGTCTAAGACAACCTTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TT
* *
206878 AAAAAAGATTGGGGTAGACC-TGTCTAAGGCAACCTTT
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TT
* **
206915 AAAAAGGGTTGGGATA-AACTCATCTAAGGCAACCTT
1 AAAAA-GGTTGGGATAGACCTTGTCTAAGGCAACCTT
* ** * *
206951 AAAAAGGTTGGGATAGACCTTTTCTGTGACACCCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
206987 AAAAAGGTTGGGATGGA-CTCGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
207022 AAAAAGGTTGGGATAGACCTT-TACTAAGGCAACCTA
1 AAAAAGGTTGGGATAGACCTTGT-CTAAGGCAACCTT
*
207058 AAAAAGGTT-GGATAGACTTTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* * * *
207093 AAAAAGGTTGGGATAAACC-AGTTTAAGGCAACCAT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
207128 AAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
207164 AAAAAGGTTGGGATAGA-CTTGTCTAAGGAAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *** ******
207199 AAAAAGGTTCTAAGGA-A-ACCTT-AAAAAGGTTGGGAT
1 AAAAAGG-T-T-GGGATAGACCTTGTCTAAGGCAACCTT
**** * * * * *
207235 AGACCTTGTCTAAGG-CA-ACCTTAAAAAGT-TTAGGATAGACC-C
1 A-AAAAGGT-T-GGGATAGACCTT-----GTCTAAGG-CA-ACCTT
* ****** *** * * *
207277 ATCAAAGGCAACTTTAGA-AAGGT-T-GGGATAGACTTT
1 A-AAAAGGTTGGGATAGACCTTGTCTAAGG-CA-ACCTT
*** **** * ** ** * *
207313 GTCTAAGGTAACCATAAAAAAGTTGGGATAGACTTGTCTAAGGCAACCT
1 -AAAAAGGTTGGGAT--AGACCTT-GTCTA-A---GGC-AA--C--CTT
* *
207362 TAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
207398 AAAAAGGTTGGGATAGACC-CGTCTAAGGCATCCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* * * *
207433 AAATAGGTTGGGATAGACC-CGTCGAAGGCAACATT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
207468 AAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACATT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
207503 AAAAAGGTTGGGATAGACTTTGTCTAAGGCAATCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
207539 AAAAAGGTTGGG-T-GACTTTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
207573 GAAAAGGTTAGGATAGACCTTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
207609 AAAAAGGTTGGGATAGACCTTATCTAAGCCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
207645 AAAAAGGTTGGGATAGACCTTGTCTAAGCCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* * *
207681 AAAAAGTTTGGGACAGACCTTGTCTAAGCCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
207717 AAAAAAGTTGGGATAGACC
1 AAAAAGGTTGGGATAGACC
207736 CATCTAAGGT
Statistics
Matches: 820, Mismatches: 164, Indels: 114
0.75 0.15 0.10
Matches are distributed among these distances:
34 45 0.05
35 254 0.31
36 333 0.41
37 70 0.09
38 79 0.10
39 3 0.00
40 4 0.00
41 7 0.01
42 4 0.00
44 1 0.00
45 4 0.00
46 6 0.01
47 1 0.00
48 8 0.01
49 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (36 bp):
AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
Found at i:207025 original size:71 final size:71
Alignment explanation
Indices: 206658--207207 Score: 538
Period size: 71 Copynumber: 7.6 Consensus size: 71
206648 TCGACCTTTA
* * * * ***
206658 AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACCTTTTAAAAAGATTGTGATAGACACATCTAAG
1 AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACC--TTAAAAAGGTTGGGATAGACTTGTCTAAG
*
206723 ACAACCTT
64 GCAACCTT
* * * * * * *
206731 TAAAAGGTTGGGGTATACATTTTCTAAGGAAACCTTTAAAAAAGGTTGAGG-TATACATTATCTA
1 AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACC-TT-AAAAAGGTTG-GGATAGAC-TTGTCTA
206795 AGGCAACCTTT
62 AGGCAACC-TT
** ** *
206806 AAAAAAGGTTATGATAGA-CTCGTCTAAGGCAACCTT-AAAAGGTTGGGATAGATATTGTCTAAG
1 -AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAG
*
206869 ACAACCTTT
64 GCAACC-TT
* * * * **
206878 AAAAAAGATTGGGGTAGACC-TGTCTAAGGCAACCTTTAAAAAGGGTTGGGATAAACTCATCTAA
1 -AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACC-TTAAAAA-GGTTGGGATAGACTTGTCTAA
206942 GGCAACCTT
63 GGCAACCTT
** * * * *
206951 AAAAAGGTTGGGATAGACCTTTTCTGTGACACCCTTAAAAAGGTTGGGATGGACTCGTCTAAGGC
1 AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGGC
207016 AACCTT
66 AACCTT
* *
207022 AAAAAGGTTGGGATAGACCTTTACTAAGGCAACCTAAAAAAGGTT-GGATAGACTTTGTCTAAGG
1 AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACCTTAAAAAGGTTGGGATAGAC-TTGTCTAAGG
207086 CAACCTT
65 CAACCTT
* ** * *
207093 AAAAAGGTTGGGATAAACCAGTT-TAAGGCAACCATAAAAAGGTTGGGATAGACCTTGTCTAAAG
1 AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAGG
207157 CAACCTT
65 CAACCTT
* *
207164 AAAAAGGTTGGGATAGA-CTTGTCTAAGGAAACCTTAAAAAGGTT
1 AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACCTTAAAAAGGTT
207208 CTAAGGAAAC
Statistics
Matches: 394, Mismatches: 67, Indels: 34
0.80 0.14 0.07
Matches are distributed among these distances:
70 28 0.07
71 161 0.41
72 83 0.21
73 54 0.14
74 31 0.08
75 25 0.06
76 12 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAAGGTTGGGATAGACCTTTTCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGGC
AACCTT
Found at i:207210 original size:22 final size:22
Alignment explanation
Indices: 207185--207229 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
207175 GATAGACTTG
207185 TCTAAGGAAACCTTAAAAAGGT
1 TCTAAGGAAACCTTAAAAAGGT
207207 TCTAAGGAAACCTTAAAAAGGT
1 TCTAAGGAAACCTTAAAAAGGT
207229 T
1 T
207230 GGGATAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.24
Consensus pattern (22 bp):
TCTAAGGAAACCTTAAAAAGGT
Found at i:207255 original size:36 final size:36
Alignment explanation
Indices: 207207--207735 Score: 705
Period size: 36 Copynumber: 14.9 Consensus size: 36
207197 TTAAAAAGGT
*
207207 TCTAAGGAAACCTTAAAAAGGTTGGGATAGACCTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* * **
207243 TCTAAGGCAACCTTAAAAAGTTTAGGATAGACC-CA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* * * *
207278 TCAAAGGCAACTTTAGAAAGGTTGGGATAGACTTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* * *
207314 TCTAAGGTAACCATAAAAAAGTTGGGATAGA-CTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
207349 TCTAAGGCAACCTT-AAAAGGTTGGGATAGACCTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* *
207384 TCTAAGACAACCTTAAAAAGGTTGGGATAGACC-CG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* * *
207419 TCTAAGGCATCCTTAAATAGGTTGGGATAGACC-CG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* * *
207454 TCGAAGGCAACATTAAAAAGGTTGGGATAGA-CTCG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* *
207489 TCTAAGGCAACATTAAAAAGGTTGGGATAGACTTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* *
207525 TCTAAGGCAATCTTAAAAAGGTTGGG-T-GACTTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* *
207559 TCTAAGGCAACCTTGAAAAGGTTAGGATAGACCTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
*
207595 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
*
207631 TCTAAGCCAACCTTAAAAAGGTTGGGATAGACCTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* * *
207667 TCTAAGCCAACCTTAAAAAGTTTGGGACAGACCTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
* *
207703 TCTAAGCCAACCTTAAAAAAGTTGGGATAGACC
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACC
207736 CATCTAAGGT
Statistics
Matches: 435, Mismatches: 51, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
34 46 0.11
35 153 0.35
36 236 0.54
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (36 bp):
TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTG
Found at i:207321 original size:93 final size:93
Alignment explanation
Indices: 207116--207300 Score: 262
Period size: 93 Copynumber: 2.0 Consensus size: 93
207106 TAAACCAGTT
* * *
207116 TAAGGCAACCATAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGA
1 TAAGGAAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGA
*** *
207181 CTTGTCTAAGGAAACCTTAAAAAGGTTC
66 CCCATCAAAGGAAACCTTAAAAAGGTTC
* *
207209 TAAGGAAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGTTTAGGATAGA
1 TAAGGAAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGA
* * *
207274 CCCATCAAAGGCAACTTTAGAAAGGTT
66 CCCATCAAAGGAAACCTTAAAAAGGTT
207301 GGGATAGACT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 80 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (93 bp):
TAAGGAAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGA
CCCATCAAAGGAAACCTTAAAAAGGTTC
Found at i:207401 original size:70 final size:71
Alignment explanation
Indices: 207207--207735 Score: 697
Period size: 70 Copynumber: 7.5 Consensus size: 71
207197 TTAAAAAGGT
* * *
207207 TCTAAGGAAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGTTTAGGATA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
***
207272 GACCCA
66 GACTTG
* * * * * * *
207278 TCAAAGGCAACTTTAGAAAGGTTGGGATAGACTTTGTCTAAGGTAACCATAAAAAAGTTGGGATA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
207343 GACTTG
66 GACTTG
*
207349 TCTAAGGCAACCTT-AAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTAAAAAGGTTGGGATA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
**
207413 GACCCG
66 GACTTG
* * * * *
207419 TCTAAGGCATCCTTAAATAGGTTGGGATAGACC-CGTCGAAGGCAACATTAAAAAGGTTGGGATA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
*
207483 GACTCG
66 GACTTG
* * *
207489 TCTAAGGCAACATTAAAAAGGTTGGGATAGACTTTGTCTAAGGCAATCTTAAAAAGGTTGGG-T-
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
207552 GACTTTG
66 GAC-TTG
* *
207559 TCTAAGGCAACCTTGAAAAGGTTAGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
*
207624 GACCTTA
66 GA-CTTG
* * * *
207631 TCTAAGCCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGCCAACCTTAAAAAGTTTGGGACA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
207696 GACCTTG
66 GA-CTTG
* *
207703 TCTAAGCCAACCTTAAAAAAGTTGGGATAGACC
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACC
207736 CATCTAAGGT
Statistics
Matches: 399, Mismatches: 53, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
69 3 0.01
70 182 0.46
71 112 0.28
72 101 0.25
73 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (71 bp):
TCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATA
GACTTG
Found at i:215588 original size:26 final size:26
Alignment explanation
Indices: 215542--215595 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
215532 TAATGTCTGT
* * *
215542 TAAATATACACTGACATAAAGCTTGC
1 TAAACATACACTGACACAAAGCCTGC
215568 TAAACATACACT-AGCACAAAGCCTGC
1 TAAACATACACTGA-CACAAAGCCTGC
215594 TA
1 TA
215596 CGCCCTAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (26 bp):
TAAACATACACTGACACAAAGCCTGC
Found at i:218384 original size:5 final size:5
Alignment explanation
Indices: 218374--218401 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
218364 AATATGAACT
218374 CCAAA CCAAA CCAAA CCAAA CCAAA CCA
1 CCAAA CCAAA CCAAA CCAAA CCAAA CCA
218402 GAGGAGGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.43, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAA
Found at i:221071 original size:18 final size:19
Alignment explanation
Indices: 221048--221084 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
221038 TTCTAATAAG
221048 CACTTTTGAGA-CAAAAAA
1 CACTTTTGAGATCAAAAAA
221066 CACTTTTGAGATCAAAAAA
1 CACTTTTGAGATCAAAAAA
221085 TTTCTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (19 bp):
CACTTTTGAGATCAAAAAA
Found at i:222411 original size:2 final size:2
Alignment explanation
Indices: 222404--222430 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
222394 TTAAAATTGA
222404 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 A
222431 ATAATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:224574 original size:42 final size:42
Alignment explanation
Indices: 224470--224581 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
224460 TAAGGACATA
* * *
224470 AGATTCGCCTTTG-TAGCTCCAATCTAGC-CCTTTATAGATTTG
1 AGATTCGCCTTTGCGA-CTTCAATCT-GCTCCTCTATAGATTTG
* * *
224512 AGATTTGCCTTTACGGCTTCAATCTGCTCCTCTATAG-TCTTG
1 AGATTCGCCTTTGCGACTTCAATCTGCTCCTCTATAGAT-TTG
*
224554 AGATTCGCCTTTGCGACTTCAATATGCT
1 AGATTCGCCTTTGCGACTTCAATCTGCT
224582 TCTCCTCATC
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 3 0.05
42 54 0.95
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (42 bp):
AGATTCGCCTTTGCGACTTCAATCTGCTCCTCTATAGATTTG
Found at i:224877 original size:147 final size:147
Alignment explanation
Indices: 224588--225274 Score: 648
Period size: 147 Copynumber: 4.7 Consensus size: 147
224578 TGCTTCTCCT
* * * * * * *
224588 CATCTTTAGGGTATAAGATTTACCGTTACGGCTTCAATATTTCCTTTCACATCTTTTAGGGTACA
1 CATCTCTAGGGTATAAGATTCACAGTTGCGGCTTCAATCTTTCCCTTCACATC-TCTAGGGTACA
* * * * * **
224653 AGATTCACTATTACGGCTTCAATCTTTCCCATT-TCATCTCTAAGGTATAAGATTCGTCATTGTG
65 AGATTCACCATTGCGGCTTCAATCTTTCCC-TTCACATCTCTAAGGTACAAGATTCATCATTACG
**
224717 GTTTCAATCTTTCCCTTCA
129 ACTTCAATCTTTCCCTTCA
*** * *
224736 CATCTCTAGGGTATAAGATTTGTAGTTACGGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAA
1 CATCTCTAGGGTATAAGATTCACAGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAGGGTACAA
* * * * ** *
224801 GATTCACCGTTGTGGCTTCAATCTTTCCCTTCACAGCTCTAGGGTACAAGATTCGCCATTACAAC
66 GATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCATCATTACGAC
* *
224866 TTCAATTTTTCCCTTAA
131 TTCAATCTTTCCCTTCA
* * * * * * * *
224883 TATCTCTAGGATACAAGATTCACCGTTGCGGCTTAAATATTTCCCTTCACATCCCTAGGGTAAAA
1 CATCTCTAGGGTATAAGATTCACAGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAGGGTACAA
* * * * *
224948 GATTCGCCATTGCGGCTTCAACCTTTCCGTCCATATCTCTAAGGTACAAGATTCATCATTACGAC
66 GATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCATCATTACGAC
* * *
225013 TTTATTCTTTCCCATCA
131 TTCAATCTTTCCCTTCA
* * * * *
225030 CATCTCTAAGGTACAAGATTCGCCA-TTGCGGCTTCAAATCTTTCCCTTCACATCTCTAGTGTGC
1 CATCTCTAGGGTATAAGATTC-ACAGTTGCGGCTTC-AATCTTTCCCTTCACATCTCTAGGGTAC
** * * * *
225094 AAGATTCGTCATTGCGGCTTCAATCTTTCCCATCAAATCTCTAAGGTACAAGATTCATCGTTGCG
64 AAGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCATCATTACG
225159 ACTTCAATCTTTCCCTTCA
129 ACTTCAATCTTTCCCTTCA
* * ** ** * * *
225178 CGTC-CTTA-TGTATAAGATTCATTGTTGCAACTTCAATCTTTCCCTTCACGTC-CTTA-TGTAT
1 CATCTC-TAGGGTATAAGATTCACAGTTGCGGCTTCAATCTTTCCCTTCACATCTC-TAGGGTAC
*** *
225239 AAGATTCATTGTTGCAGCTTCAATCTTTCCCTTCAC
64 AAGATTCACCATTGCGGCTTCAATCTTTCCCTTCAC
225275 GTCTTCAAGG
Statistics
Matches: 441, Mismatches: 92, Indels: 15
0.80 0.17 0.03
Matches are distributed among these distances:
145 34 0.08
146 21 0.05
147 237 0.54
148 149 0.34
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (147 bp):
CATCTCTAGGGTATAAGATTCACAGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAGGGTACAA
GATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCATCATTACGAC
TTCAATCTTTCCCTTCA
Found at i:225146 original size:49 final size:49
Alignment explanation
Indices: 224616--225274 Score: 547
Period size: 49 Copynumber: 13.4 Consensus size: 49
224606 TTTACCGTTA
* * * * * * *
224616 CGGCTTCAATATTTCCTTTCACATCTTTTAGGGTACAAGATTCACTATTA
1 CGGCTTCAATCTTTCCCTTCACATC-TCTAAGGTACAAGATTCGCCATTG
* * *
224666 CGGCTTCAATCTTTCCCATT-TCATCTCTAAGGTATAAGATTCGTCATTG
1 CGGCTTCAATCTTTCCC-TTCACATCTCTAAGGTACAAGATTCGCCATTG
* * * * * * *
224715 TGGTTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTTG-TAGTTA
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCA-TTG
* * * *
224764 CGGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTG
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
* * * *
224813 TGGCTTCAATCTTTCCCTTCACAGCTCTAGGGTACAAGATTCGCCATTA
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
** * * * * *
224862 CAACTTCAATTTTTCCCTTAATATCTCT-AGGATACAAGATTCACCGTTG
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGG-TACAAGATTCGCCATTG
* * * * *
224911 CGGCTTAAATATTTCCCTTCACATCCCTAGGGTAAAAGATTCGCCATTG
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
* * * * ** *
224960 CGGCTTCAACCTTTCCGTCCATATCTCTAAGGTACAAGATTCATCATTA
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
* * * *
225009 CGACTTTATTCTTTCCCATCACATCTCTAAGGTACAAGATTCGCCATTG
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
* *
225058 CGGCTTCAAATCTTTCCCTTCACATCTCT-AGTGTGCAAGATTCGTCATTG
1 CGGCTTC-AATCTTTCCCTTCACATCTCTAAG-GTACAAGATTCGCCATTG
* * ** *
225108 CGGCTTCAATCTTTCCCATCAAATCTCTAAGGTACAAGATTCATCGTTG
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
* * * * * ****
225157 CGACTTCAATCTTTCCCTTCACGTC-CTTATGTATAAGATTCATTGTTG
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
** * * * * ****
225205 CAACTTCAATCTTTCCCTTCACGTC-CTTATGTATAAGATTCATTGTTG
1 CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
*
225253 CAGCTTCAATCTTTCCCTTCAC
1 CGGCTTCAATCTTTCCCTTCAC
225275 GTCTTCAAGG
Statistics
Matches: 504, Mismatches: 96, Indels: 20
0.81 0.15 0.03
Matches are distributed among these distances:
48 92 0.18
49 345 0.68
50 65 0.13
51 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (49 bp):
CGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACAAGATTCGCCATTG
Found at i:225211 original size:48 final size:48
Alignment explanation
Indices: 225111--225277 Score: 244
Period size: 48 Copynumber: 3.5 Consensus size: 48
225101 GTCATTGCGG
* ** * * * * *
225111 CTTCAATCTTTCCCATCAAATCTCTAAGGTACAAGATTCATCGTTGCGA
1 CTTCAATCTTTCCCTTCACGTC-CTTATGTATAAGATTCATTGTTGCAA
225160 CTTCAATCTTTCCCTTCACGTCCTTATGTATAAGATTCATTGTTGCAA
1 CTTCAATCTTTCCCTTCACGTCCTTATGTATAAGATTCATTGTTGCAA
*
225208 CTTCAATCTTTCCCTTCACGTCCTTATGTATAAGATTCATTGTTGCAG
1 CTTCAATCTTTCCCTTCACGTCCTTATGTATAAGATTCATTGTTGCAA
225256 CTTCAATCTTTCCCTTCACGTC
1 CTTCAATCTTTCCCTTCACGTC
225278 TTCAAGGTAT
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
48 90 0.83
49 19 0.17
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.39
Consensus pattern (48 bp):
CTTCAATCTTTCCCTTCACGTCCTTATGTATAAGATTCATTGTTGCAA
Found at i:226107 original size:4 final size:4
Alignment explanation
Indices: 226100--226151 Score: 63
Period size: 4 Copynumber: 12.8 Consensus size: 4
226090 CTCTCTTTTT
226100 TTTC TTTC TTTC TTTTC TTTTC TTTC TTTC TTT- TTTC TTT- TTTC TTTTC
1 TTTC TTTC TTTC -TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC
226149 TTT
1 TTT
226152 GGTTTCAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 6 0.14
4 25 0.57
5 13 0.30
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (4 bp):
TTTC
Found at i:226118 original size:22 final size:21
Alignment explanation
Indices: 226093--226151 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 21
226083 TCTTGACCTC
226093 TCTTTTTTTTCTTTCTTTCTTT
1 TCTTTTTTTTCTTTCTTT-TTT
*
226115 TCTTTTCTTTCTTTC-TTTTT
1 TCTTTTTTTTCTTTCTTTTTT
*
226135 TCTTTTTTCT-TTTCTTT
1 TCTTTTTTTTCTTTCTTT
226152 GGTTTCAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.12
20 13 0.39
21 2 0.06
22 14 0.42
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (21 bp):
TCTTTTTTTTCTTTCTTTTTT
Found at i:226122 original size:18 final size:17
Alignment explanation
Indices: 226093--226151 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 17
226083 TCTTGACCTC
226093 TCTTTTTTTTCTTTCTT
1 TCTTTTTTTTCTTTCTT
226110 TCTTTTCTTTTCTTTCTT
1 TCTTTT-TTTTCTTTCTT
*
226128 TCTTTTTTCTTTTTTCTTT
1 TCTTTTTT-TTCTTTC-TT
226147 TCTTT
1 TCTTT
226152 GGTTTCAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
17 8 0.21
18 23 0.61
19 7 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TCTTTTTTTTCTTTCTT
Found at i:226157 original size:14 final size:12
Alignment explanation
Indices: 226095--226151 Score: 61
Period size: 11 Copynumber: 5.1 Consensus size: 12
226085 TTGACCTCTC
226095 TTTT-TTTTCTT
1 TTTTCTTTTCTT
226106 TCTTTCTTTTC--
1 T-TTTCTTTTCTT
226117 TTTTC-TTTCTT
1 TTTTCTTTTCTT
*
226128 TCTT-TTTTCTT
1 TTTTCTTTTCTT
226139 TTTTCTTTTCTT
1 TTTTCTTTTCTT
226151 T
1 T
226152 GGTTTCAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 14 0.37
12 11 0.29
13 5 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:230263 original size:16 final size:16
Alignment explanation
Indices: 230242--230272 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
230232 ATAATGTTAA
230242 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
230258 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
230273 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:231312 original size:37 final size:37
Alignment explanation
Indices: 231236--231321 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
231226 CGACGATAAT
* * * * **
231236 TTTTGGGTGAAATCTGGAAGTGCTCATGTGGTGACAG
1 TTTTGGGCGCAATCTAGAAGTGCTCATGCGGCAACAG
*
231273 TTTTGGGCGCAATCTAGAAGTGCTCATGCGGCAATAG
1 TTTTGGGCGCAATCTAGAAGTGCTCATGCGGCAACAG
231310 TTTTGGGCGCAA
1 TTTTGGGCGCAA
231322 ATTTGGACGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.30
Consensus pattern (37 bp):
TTTTGGGCGCAATCTAGAAGTGCTCATGCGGCAACAG
Found at i:232387 original size:92 final size:92
Alignment explanation
Indices: 232230--232403 Score: 339
Period size: 92 Copynumber: 1.9 Consensus size: 92
232220 TAACATGGTG
*
232230 ATATGCGCCTCTGGGCAACTCATCTAGTTGTACTTCTCAAATTTTGGAGCTTTGACTTTGGAAGG
1 ATATGCGCCTCTGGGCAACTCATCCAGTTGTACTTCTCAAATTTTGGAGCTTTGACTTTGGAAGG
232295 AAGTACTAAGTTTAGGACCAAACTTAA
66 AAGTACTAAGTTTAGGACCAAACTTAA
232322 ATATGCGCCTCTGGGCAACTCATCCAGTTGTACTTCTCAAATTTTGGAGCTTTGACTTTGGAAGG
1 ATATGCGCCTCTGGGCAACTCATCCAGTTGTACTTCTCAAATTTTGGAGCTTTGACTTTGGAAGG
232387 AAGTACTAAGTTTAGGA
66 AAGTACTAAGTTTAGGA
232404 ACTTAATTCC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (92 bp):
ATATGCGCCTCTGGGCAACTCATCCAGTTGTACTTCTCAAATTTTGGAGCTTTGACTTTGGAAGG
AAGTACTAAGTTTAGGACCAAACTTAA
Found at i:234810 original size:17 final size:15
Alignment explanation
Indices: 234769--234816 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
234759 AATTAAATTT
234769 AAATTACAA-AAATAA
1 AAATTA-AATAAATAA
234784 AAATTAAATAAATAA
1 AAATTAAATAAATAA
*
234799 ACAATATAAATAAGTAA
1 A-AAT-TAAATAAATAA
234816 A
1 A
234817 TAAATTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 13 0.45
16 3 0.10
17 11 0.38
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (15 bp):
AAATTAAATAAATAA
Found at i:237355 original size:18 final size:18
Alignment explanation
Indices: 237319--237356 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
237309 TGAACTTTAC
*
237319 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCAAAT
*
237337 AATTTGAATAACTTAAAT
1 AATTTGAATAACTCAAAT
237355 AA
1 AA
237357 CATATTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (18 bp):
AATTTGAATAACTCAAAT
Found at i:237673 original size:16 final size:17
Alignment explanation
Indices: 237643--237675 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
237633 CTTTGAAAGA
237643 GTTTTCAAATATATATG
1 GTTTTCAAATATATATG
*
237660 GTTTT-AAATTTATATG
1 GTTTTCAAATATATATG
237676 TTCTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (17 bp):
GTTTTCAAATATATATG
Found at i:238489 original size:11 final size:11
Alignment explanation
Indices: 238475--238553 Score: 86
Period size: 11 Copynumber: 7.2 Consensus size: 11
238465 TTTCCCGCTG
238475 TTTTGTTATTA
1 TTTTGTTATTA
* *
238486 TTTTCTTATTG
1 TTTTGTTATTA
* *
238497 TTTTCTAATTA
1 TTTTGTTATTA
*
238508 TTTTGTTATCA
1 TTTTGTTATTA
*
238519 TTTTATTATTA
1 TTTTGTTATTA
* *
238530 TGTTGTTACTA
1 TTTTGTTATTA
238541 TTTTGTTATTA
1 TTTTGTTATTA
238552 TT
1 TT
238554 GCTTGGATAT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 54 1.00
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:238512 original size:33 final size:33
Alignment explanation
Indices: 238475--238553 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
238465 TTTCCCGCTG
* * * *
238475 TTTTGTTATTATTTTCTTATTGTTTTCTAATTA
1 TTTTGTTATTATTTTATTATTATGTTCTAACTA
* * *
238508 TTTTGTTATCATTTTATTATTATGTTGTTACTA
1 TTTTGTTATTATTTTATTATTATGTTCTAACTA
238541 TTTTGTTATTATT
1 TTTTGTTATTATT
238554 GCTTGGATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (33 bp):
TTTTGTTATTATTTTATTATTATGTTCTAACTA
Found at i:241529 original size:46 final size:45
Alignment explanation
Indices: 241462--241561 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 45
241452 TTACAGTTAT
* * *
241462 AGATACAGAGAGGTCACAGATACAGTTACGGATGCAGACATGAAAC
1 AGATACAGTGAAGTCACAGATACAATTACGGATGCAGA-ATGAAAC
* *
241508 AGATACAGTGAAGTCACAGATACAATTACGGATGTAGAATGATAC
1 AGATACAGTGAAGTCACAGATACAATTACGGATGCAGAATGAAAC
241553 AGATACAGT
1 AGATACAGT
241562 TAGAGATGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 15 0.31
46 34 0.69
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (45 bp):
AGATACAGTGAAGTCACAGATACAATTACGGATGCAGAATGAAAC
Found at i:241569 original size:28 final size:29
Alignment explanation
Indices: 241523--241581 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
241513 CAGTGAAGTC
241523 ACAGATACAATTACGGATGTAG-AATGAT
1 ACAGATACAATTACGGATGTAGAAATGAT
*
241551 ACAGATACAGTTA-GAGATGTAGAAATGAT
1 ACAGATACAATTACG-GATGTAGAAATGAT
241580 AC
1 AC
241582 CTCTATCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 1 0.04
28 19 0.68
29 8 0.29
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (29 bp):
ACAGATACAATTACGGATGTAGAAATGAT
Found at i:242242 original size:53 final size:53
Alignment explanation
Indices: 242140--242281 Score: 151
Period size: 53 Copynumber: 2.7 Consensus size: 53
242130 TGTGTCTTAA
* * * * *
242140 AACAATATATACACACCTTGACACTCGCCCATGTGCTAGCTCATGTGTCCCAG
1 AACAATATACACACACCTTGACACACGCCCATGTGCAACCTCATATGTCCCAG
* *
242193 AACAATATACACACACCTTGACACACGCCCATTTGTCAACCT-GTATGTCCCAG
1 AACAATATACACACACCTTGACACACGCCCATGTG-CAACCTCATATGTCCCAG
* * * * * *
242246 AATAGTATACAAACACCCTGACACACGTCCGTGTGC
1 AACAATATACACACACCTTGACACACGCCCATGTGC
242282 CCATAACAGT
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
52 1 0.01
53 69 0.93
54 4 0.05
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (53 bp):
AACAATATACACACACCTTGACACACGCCCATGTGCAACCTCATATGTCCCAG
Found at i:244826 original size:24 final size:24
Alignment explanation
Indices: 244799--244845 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
244789 TGGTTAAACT
244799 CTATCTGAGCTCATAAGAGCTAAC
1 CTATCTGAGCTCATAAGAGCTAAC
*
244823 CTATCTGGGCTCATAAGAGCTAA
1 CTATCTGAGCTCATAAGAGCTAA
244846 TTTTGTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (24 bp):
CTATCTGAGCTCATAAGAGCTAAC
Found at i:245505 original size:107 final size:107
Alignment explanation
Indices: 245314--245522 Score: 357
Period size: 107 Copynumber: 2.0 Consensus size: 107
245304 TGTTTTAGTG
*
245314 TTGTTGGTTACAGACTCAAAAGAATTAAAGGAATTTTTGGAAATCTGTATATTTGTTTCGGTAGT
1 TTGTTGGTTACAAACTCAAAAGAATTAAAGGAATTTTTGGAAATCTGTATATTTGTTTCGGTAGT
* *
245379 ACTTTTTCATGTATTGGTAGAAGTACAGAGTAGGAGATATTA
66 ACTTTTGCATGTATCGGTAGAAGTACAGAGTAGGAGATATTA
* *
245421 TTGTTGGTTACAAACAT-AGAAGAATTAAAGGTATTTTTGGAAATCTGTATATTTGTTTCGGTAG
1 TTGTTGGTTACAAAC-TCAAAAGAATTAAAGGAATTTTTGGAAATCTGTATATTTGTTTCGGTAG
245485 TACTTTTGCATGTATCGGTAGAAGTACAGAGTAGGAGA
65 TACTTTTGCATGTATCGGTAGAAGTACAGAGTAGGAGA
245523 GATATTGGTT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
107 95 0.99
108 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (107 bp):
TTGTTGGTTACAAACTCAAAAGAATTAAAGGAATTTTTGGAAATCTGTATATTTGTTTCGGTAGT
ACTTTTGCATGTATCGGTAGAAGTACAGAGTAGGAGATATTA
Found at i:247042 original size:58 final size:58
Alignment explanation
Indices: 246952--247063 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
246942 ATCATACCAT
*
246952 TACAGTTACAGATACAGTAATGTCATAGATATAATTACGGATGCAGACATGATACATA
1 TACAGTTACAGATACAGTAATGTCATAGATATAATTACGAATGCAGACATGATACATA
* * * *
247010 TACAGTTATAGATACAGTCATGTCATAGATATAGTTACGAATGTAGACATGATA
1 TACAGTTACAGATACAGTAATGTCATAGATATAATTACGAATGCAGACATGATA
247064 TACAGTTACA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (58 bp):
TACAGTTACAGATACAGTAATGTCATAGATATAATTACGAATGCAGACATGATACATA
Found at i:247045 original size:29 final size:29
Alignment explanation
Indices: 246955--247047 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
246945 ATACCATTAC
*
246955 AGTTACAGATACAGTAATGTCATAGATAT
1 AGTTACAGATACAGTCATGTCATAGATAT
* * * * *
246984 AATTACGGATGCAGACATGATACAT--ATAC
1 AGTTACAGATACAGTCATG-T-CATAGATAT
*
247013 AGTTATAGATACAGTCATGTCATAGATAT
1 AGTTACAGATACAGTCATGTCATAGATAT
247042 AGTTAC
1 AGTTAC
247048 GAATGTAGAC
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
27 3 0.06
28 1 0.02
29 39 0.83
30 1 0.02
31 3 0.06
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (29 bp):
AGTTACAGATACAGTCATGTCATAGATAT
Found at i:247063 original size:23 final size:24
Alignment explanation
Indices: 247037--247088 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
247027 TCATGTCATA
* *
247037 GATAT-AGTTACGAATGTAGACAT
1 GATATAAGTTACAAATGCAGACAT
*
247060 GATATACAGTTACAAATGCGGACAT
1 GATATA-AGTTACAAATGCAGACAT
247085 GATA
1 GATA
247089 CCCCCATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
25 19 0.79
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (24 bp):
GATATAAGTTACAAATGCAGACAT
Found at i:247164 original size:36 final size:36
Alignment explanation
Indices: 247114--247203 Score: 153
Period size: 36 Copynumber: 2.5 Consensus size: 36
247104 CACCATCTCC
* *
247114 ATCCAACCCAACACACCATTTAGGTATATAATACCT
1 ATCCAACCCTACACACCATGTAGGTATATAATACCT
*
247150 ATCCATCCCTACACACCATGTAGGTATATAATACCT
1 ATCCAACCCTACACACCATGTAGGTATATAATACCT
247186 ATCCAACCCTACACACCA
1 ATCCAACCCTACACACCA
247204 AATAGTATCG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.37, C:0.34, G:0.06, T:0.23
Consensus pattern (36 bp):
ATCCAACCCTACACACCATGTAGGTATATAATACCT
Found at i:247787 original size:41 final size:41
Alignment explanation
Indices: 247698--247788 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
247688 GCACACCCTA
* * *
247698 ACACACAACCATGTGTCAACCCATGTGTTCCAGAATAGTAT
1 ACACACACCCATGTGTCAACCCATGTGCTCCAGAACAGTAT
*
247739 ACACACACCCATGTGTCAGCCCATGTGC-CTCAGAACAGTAT
1 ACACACACCCATGTGTCAACCCATGTGCTC-CAGAACAGTAT
247780 ACACACACC
1 ACACACACC
247789 TTGACATACG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 44 0.98
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (41 bp):
ACACACACCCATGTGTCAACCCATGTGCTCCAGAACAGTAT
Found at i:247807 original size:41 final size:41
Alignment explanation
Indices: 247762--247849 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 41
247752 TGTCAGCCCA
* * *
247762 TGTG-CCTCAGAACAGTATACACACACCTTGACATACGTCTG
1 TGTGCCCT-AGAACAGTATACACACACCCTGACACACGCCTG
*
247803 TGTGCCCTAGAATAGTATACACACACCCTGACACACGCCTG
1 TGTGCCCTAGAACAGTATACACACACCCTGACACACGCCTG
247844 TGTGCC
1 TGTGCC
247850 AGCCCGTGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 39 0.93
42 3 0.07
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (41 bp):
TGTGCCCTAGAACAGTATACACACACCCTGACACACGCCTG
Found at i:247954 original size:96 final size:93
Alignment explanation
Indices: 247741--247974 Score: 260
Period size: 94 Copynumber: 2.5 Consensus size: 93
247731 AATAGTATAC
* * * *
247741 ACACAC-CCATGTGTCAGCCCATGTGCCT-CAGAACAGTATACACACACCTTGACATACGTCTGT
1 ACACACGCCATGTGTCAGCCCGTGTGCCTCCA-AACAGTATACACACACCTTAACACACGCCTGT
* * * *
247804 GTGCCCTAGAATAGTATACACACACCCTG
65 GTACCCCAGAACAGTATACACACACCCTA
* * *
247833 ACACACGCC-TGTGTGCCAGCCCGTGTGCTTCCAAATAGTATACACACACTTTAACACACGCCTG
1 ACACACGCCATGTGT--CAGCCCGTGTGCCTCCAAACAGTATACACACACCTTAACACACGCCTG
247897 TGTACCTCCA-AACAGTATACACACACACCCTA
64 TGTACC-CCAGAACAGTAT--ACACACACCCTA
* *
247929 ACACACGCTCATGTGTCAGCCCGTGTACCTCCATACAGTATACACA
1 ACACACGC-CATGTGTCAGCCCGTGTGCCTCCAAACAGTATACACA
247975 TAACCGGACA
Statistics
Matches: 118, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
92 11 0.09
93 2 0.02
94 50 0.42
95 4 0.03
96 45 0.38
97 1 0.01
98 5 0.04
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.21
Consensus pattern (93 bp):
ACACACGCCATGTGTCAGCCCGTGTGCCTCCAAACAGTATACACACACCTTAACACACGCCTGTG
TACCCCAGAACAGTATACACACACCCTA
Found at i:247986 original size:53 final size:55
Alignment explanation
Indices: 247896--248013 Score: 150
Period size: 53 Copynumber: 2.2 Consensus size: 55
247886 ACACACGCCT
* *
247896 GTGTACCTCCAAACAGTATACACACACACCCTAACACACGCTCATGTGTCAGCCC
1 GTGTACCTCCAAACAGTATACACACACACCCGAACACACGCTCATGTGTCAACCC
* * * **
247951 GTGTACCTCCATACAGTATACACATA-A-CCGGACACACGCTTGTGTGTCAACCC
1 GTGTACCTCCAAACAGTATACACACACACCCGAACACACGCTCATGTGTCAACCC
*
248004 GTGTGCCTCC
1 GTGTACCTCC
248014 TGTAGCTTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 30 0.55
54 1 0.02
55 24 0.44
ACGTcount: A:0.27, C:0.36, G:0.16, T:0.21
Consensus pattern (55 bp):
GTGTACCTCCAAACAGTATACACACACACCCGAACACACGCTCATGTGTCAACCC
Found at i:247986 original size:96 final size:95
Alignment explanation
Indices: 247821--247995 Score: 210
Period size: 96 Copynumber: 1.8 Consensus size: 95
247811 AGAATAGTAT
* * * * * **
247821 ACACACACCCTGACACACGCCTGTGTGCCAGCCCGTGTGCTTCCAAATAGTATACACACACTTTA
1 ACACACACCCTAACACACGCCTGTGT-CCAGCCCGTGTACCTCCAAACAGTATACACAAACTCGA
247886 ACACACGCCTGTGTACCTCCAAACAGTATAC
65 ACACACGCCTGTGTACCTCCAAACAGTATAC
*
247917 ACACACACCCTAACACACGCTCATGTGT-CAGCCCGTGTACCTCCATACAGTATACACATAAC-C
1 ACACACACCCTAACACACGC-C-TGTGTCCAGCCCGTGTACCTCCAAACAGTATACACA-AACTC
* *
247980 GGACACACGCTTGTGT
63 GAACACACGCCTGTGT
247996 GTCAACCCGT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
96 58 0.88
97 3 0.05
98 5 0.08
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (95 bp):
ACACACACCCTAACACACGCCTGTGTCCAGCCCGTGTACCTCCAAACAGTATACACAAACTCGAA
CACACGCCTGTGTACCTCCAAACAGTATAC
Found at i:263840 original size:62 final size:62
Alignment explanation
Indices: 263743--263867 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
263733 GGTCAGTGAC
263743 GATGGTGGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
1 GATGGTGGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
263805 GATGGTGGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
1 GATGGTGGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
263867 G
1 G
263868 TTTGGCGTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.16, C:0.14, G:0.41, T:0.29
Consensus pattern (62 bp):
GATGGTGGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
Found at i:263878 original size:62 final size:62
Alignment explanation
Indices: 263743--263881 Score: 235
Period size: 62 Copynumber: 2.2 Consensus size: 62
263733 GGTCAGTGAC
*
263743 GATGGTGGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
1 GATGGTCGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
*
263805 GATGGTGGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
1 GATGGTCGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
*
263867 GTTTGG-CGTTTGTAT
1 G-ATGGTCGTTTGTAT
263882 GAAAAAGGGT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
62 71 0.96
63 3 0.04
ACGTcount: A:0.15, C:0.14, G:0.40, T:0.32
Consensus pattern (62 bp):
GATGGTCGTTTGTATTGCGCCCGATGAGTCGCGTGCGCTGTGGTTGGGGAAATAGAAGGCTT
Found at i:264224 original size:20 final size:19
Alignment explanation
Indices: 264173--264224 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
264163 GTTTTTAGAG
*
264173 TATAATAAAAA-AAGAGTGA
1 TATAA-AAAAATAATAGTGA
*
264192 TATAAAATAATAATAGTGA
1 TATAAAAAAATAATAGTGA
*
264211 TGTAAAAAACATAA
1 TATAAAAAA-ATAA
264225 GAATAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.25
Consensus pattern (19 bp):
TATAAAAAAATAATAGTGA
Found at i:270170 original size:17 final size:16
Alignment explanation
Indices: 270148--270207 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 16
270138 AAGAATATGA
*
270148 AAGGTTGAGGAAGAGGG
1 AAGGTTAAGGAAGA-GG
270165 AAGGTTAAAGGTCAAGAGG
1 AAGGTT-AAGG--AAGAGG
270184 -AGGTTAAGGAAGATGG
1 AAGGTTAAGGAAGA-GG
270200 AAGGTTAA
1 AAGGTTAA
270208 AAGTCAGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
15 4 0.11
16 2 0.05
17 17 0.46
18 8 0.22
19 2 0.05
20 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.42, T:0.17
Consensus pattern (16 bp):
AAGGTTAAGGAAGAGG
Found at i:270615 original size:27 final size:26
Alignment explanation
Indices: 270567--270620 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
270557 TATGAACTTC
* *
270567 TTCACCGCCAGATCTCTCAAATGGGT
1 TTCACCGCCAAATCTCTCAAATAGGT
*
270593 TTCACCGCTCAAATTTCTCAAATAGGT
1 TTCACCGC-CAAATCTCTCAAATAGGT
270620 T
1 T
270621 GGCTATTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (26 bp):
TTCACCGCCAAATCTCTCAAATAGGT
Done.