Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold323
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: 1512004
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:1625 original size:19 final size:21
Alignment explanation
Indices: 1592--1632 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1582 ATATAACCTT
1592 AAAAATCTAATTAAAAA-AAA
1 AAAAATCTAATTAAAAACAAA
*
1612 AAAAATCTGA-TAAAAACAAA
1 AAAAATCTAATTAAAAACAAA
1632 A
1 A
1633 TACAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAATCTAATTAAAAACAAA
Found at i:6173 original size:17 final size:19
Alignment explanation
Indices: 6153--6209 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
6143 AACTTAAAGC
6153 ATATTATACTTAAA-ATTAT
1 ATATTATACTTAAATA-TAT
*
6172 ATATAATA-TTAAATATAAT
1 ATATTATACTTAAATAT-AT
6191 ATATTACTACTT-AATATAT
1 ATATTA-TACTTAAATATAT
6210 TAAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 6 0.19
19 17 0.53
20 7 0.22
21 2 0.06
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTATACTTAAATATAT
Found at i:6733 original size:12 final size:11
Alignment explanation
Indices: 6705--6738 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
6695 AAATGATACC
6705 ATTATAAATATA
1 ATTA-AAATATA
6717 ATTAAAATATA
1 ATTAAAATATA
6728 ACTTAAAATAT
1 A-TTAAAATAT
6739 GACATGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTAAAATATA
Found at i:6857 original size:20 final size:23
Alignment explanation
Indices: 6811--6857 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 23
6801 AATATGAATT
*
6811 ATAATATATGACAAAAATAAAAT
1 ATAATATATGACAAAAATAAAAC
*
6834 ATAA-ATAT-ACAAAAA-ATAAC
1 ATAATATATGACAAAAATAAAAC
6854 ATAA
1 ATAA
6858 CTAAAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 4 0.18
23 4 0.18
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (23 bp):
ATAATATATGACAAAAATAAAAC
Found at i:7318 original size:50 final size:50
Alignment explanation
Indices: 7253--7520 Score: 244
Period size: 50 Copynumber: 5.4 Consensus size: 50
7243 AGTTATTTAG
* **
7253 AGTCAATAATTACGACCACATCTCTCTATTGTCAAAGGTTAATGAAGAAT
1 AGTCAACAATTACGACCACATCTCTCTATTGTCAAAGGTTGGTGAAGAAT
* * * ** *
7303 AG-CTAACAATTACGACAACTTCTCTCGATTGTCAAATATTGGAGAAGAAT
1 AGTC-AACAATTACGACCACATCTCTCTATTGTCAAAGGTTGGTGAAGAAT
* * * * *
7353 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGATTGGTAAAGAAT
1 AGTCAACAATTACGACCACATCTCTCTATTGTCAAAGGTTGGTGAAGAAT
* * *
7403 AGTTAACAATTATG-GCA-ATCTCTCTCGATTGTC-AAGGTTGGTGAAGAAT
1 AGTCAACAATTACGACCACATCTCTCT--ATTGTCAAAGGTTGGTGAAGAAT
* **
7452 -GATCAACAATTAC-AGC-CATCTCTCTTGATTGTTGAAGGTTGGTGAAGAAT
1 AG-TCAACAATTACGACCACATCTCTC-T-ATTGTCAAAGGTTGGTGAAGAAT
*
7502 AGTCAACAATTACGGCCAC
1 AGTCAACAATTACGACCAC
7521 CTCTTTTGCA
Statistics
Matches: 179, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
48 7 0.04
49 41 0.23
50 127 0.71
51 3 0.02
52 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTACGACCACATCTCTCTATTGTCAAAGGTTGGTGAAGAAT
Found at i:7427 original size:100 final size:99
Alignment explanation
Indices: 7253--7515 Score: 305
Period size: 100 Copynumber: 2.6 Consensus size: 99
7243 AGTTATTTAG
* * * * ** *
7253 AGTCAATAATTACGACCACATCTCTCTATTGTCAAAGGTTAATGAAGAATAGCTAACAATTACGA
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTACGA
*
7318 CAACTTCTCTCGATTGTCAAATATTGGAGAAGAAT
66 CAACTTCTCTCGATTGTC-AAGATTGGAGAAGAAT
* * * *
7353 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGATTGGTAAAGAATAGTTAACAATTATGG
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTACGA
* *
7418 CAA-TCTCTCTCGATTGTCAAGGTTGGTGAAGAAT
66 CAACT-TCTCTCGATTGTCAAGATTGGAGAAGAAT
* * * ** *
7452 -GATCAACAATTACAGCCATCTCTCTTGATTGTTGAAGGTTGGTGAAGAATAGTCAACAATTACG
1 AG-TCAACAATTACGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTACG
7516 GCCACCTCTT
Statistics
Matches: 138, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
98 1 0.01
99 67 0.49
100 70 0.51
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (99 bp):
AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTTAACAATTACGA
CAACTTCTCTCGATTGTCAAGATTGGAGAAGAAT
Found at i:11937 original size:50 final size:50
Alignment explanation
Indices: 11876--12013 Score: 168
Period size: 50 Copynumber: 2.8 Consensus size: 50
11866 AGTTGCTTAG
* * *
11876 AGTTAATAATTATGACCACCTCTCTCTATTATCAAATATTGGTAAAAAAT
1 AGTTAACAATTATGACCACCTCTCTCGATTATCAAAGATTGGTAAAAAAT
* ** *
11926 AGTTAACAATTACGGTCACCTCTCTCGATTGTCAAAGATTGGTAAAAAAT
1 AGTTAACAATTATGACCACCTCTCTCGATTATCAAAGATTGGTAAAAAAT
* * * * *
11976 AGTCAACAATTATGGCTATCTTTCTCGATTATCAAAGA
1 AGTTAACAATTATGACCACCTCTCTCGATTATCAAAGA
12014 CTAATCAACA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (50 bp):
AGTTAACAATTATGACCACCTCTCTCGATTATCAAAGATTGGTAAAAAAT
Found at i:12085 original size:22 final size:23
Alignment explanation
Indices: 12060--12103 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
12050 TTAGTCAATA
*
12060 ATTTTTTATATCATATT-TATTT
1 ATTTTTTATATAATATTATATTT
12082 ATTTTTTATATAATATTATATT
1 ATTTTTTATATAATATTATATT
12104 ATAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTTTTATATAATATTATATTT
Found at i:12105 original size:22 final size:21
Alignment explanation
Indices: 12060--12137 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 21
12050 TTAGTCAATA
12060 ATTTTTTATATCATATT-TATTT
1 ATTTTTTATAT-ATATTATA-TT
12082 ATTTTTTATATAATATTATATT
1 ATTTTTTATAT-ATATTATATT
***
12104 ATAAATTATAT-T-TTA-ATT
1 ATTTTTTATATATATTATATT
12122 ATTTTTTATATTATAT
1 ATTTTTTATA-TATAT
12138 AATAATTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 10 0.22
19 4 0.09
20 2 0.04
21 1 0.02
22 26 0.58
23 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTTATATATATTATATT
Found at i:12154 original size:35 final size:38
Alignment explanation
Indices: 12070--12154 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 38
12060 ATTTTTTATA
*
12070 TCATATTTATTTATTTTTTATATAATATTATATTATAAAT
1 TCATATTTAATTATTTTTTATAT-ATATTATA-TATAAAT
*
12110 T-ATATTTTAATTATTTTTTATAT-TA-TATA-ATAATT
1 TCATA-TTTAATTATTTTTTATATATATTATATATAAAT
12145 TCATATTTAA
1 TCATATTTAA
12155 AATAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
35 11 0.27
36 3 0.07
37 4 0.10
38 2 0.05
39 3 0.07
40 18 0.44
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (38 bp):
TCATATTTAATTATTTTTTATATATATTATATATAAAT
Found at i:14575 original size:2 final size:2
Alignment explanation
Indices: 14568--14605 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14558 TAGTTGATTC
14568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14606 TAAGAGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16071 original size:15 final size:15
Alignment explanation
Indices: 16048--16119 Score: 65
Period size: 15 Copynumber: 4.8 Consensus size: 15
16038 CATATTTGAA
*
16048 TTTATTTTAAATTAT
1 TTTAATTTAAATTAT
* *
16063 TTTAATTTAATTTTT
1 TTTAATTTAAATTAT
*
16078 TTTAATTTAAATAAT
1 TTTAATTTAAATTAT
* *
16093 TTTAAATTTGACTT-T
1 TTT-AATTTAAATTAT
*
16108 TTAAATTTAAAT
1 TTTAATTTAAAT
16120 AATCTCAGTT
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
14 7 0.16
15 30 0.68
16 7 0.16
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (15 bp):
TTTAATTTAAATTAT
Found at i:16089 original size:30 final size:30
Alignment explanation
Indices: 16048--16122 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
16038 CATATTTGAA
* * *
16048 TTTATTTTAAATTATTTT-AATTTAATTTTT
1 TTTAATTTAAATAATTTTAAATTTAA-CTTT
*
16078 TTTAATTTAAATAATTTTAAATTTGACTTT
1 TTTAATTTAAATAATTTTAAATTTAACTTT
*
16108 TTAAATTTAAATAAT
1 TTTAATTTAAATAAT
16123 CTCAGTTTCG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 33 0.85
31 6 0.15
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTAATTTAAATAATTTTAAATTTAACTTT
Found at i:18334 original size:7 final size:7
Alignment explanation
Indices: 18319--18352 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
18309 TGAAAATATC
*
18319 AAAGCAA
1 AAAGAAA
18326 AAAGAAA
1 AAAGAAA
18333 AAAGAAA
1 AAAGAAA
18340 AAAG-AA
1 AAAGAAA
18346 AAAGAAA
1 AAAGAAA
18353 GATGAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:20117 original size:17 final size:18
Alignment explanation
Indices: 20082--20121 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
20072 TAGGTTTTTT
20082 ATTAATATTTTTAATAAA
1 ATTAATATTTTTAATAAA
* *
20100 ATTAATTTTTTTTA-AAA
1 ATTAATATTTTTAATAAA
20117 ATTAA
1 ATTAA
20122 GGTAATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTAATATTTTTAATAAA
Found at i:22073 original size:79 final size:78
Alignment explanation
Indices: 21956--22173 Score: 269
Period size: 79 Copynumber: 2.7 Consensus size: 78
21946 ACAGGGTTGT
* *
21956 AGTACCCCTGATGATGAAAATTTTAATATTTT-GAAAATAAAAACAGGGTTAGAGTATCCCCTCA
1 AGTATCCCTG-TGATGAAAAATTTAATATTTTAG-AAATAAAAACAGGGTT-GAGTATCCCCTCA
*
22020 GAAATAATGGGGTTAG
63 GAAATAACGGGGTTAG
* * *
22036 AGTATCCCTGTGATGAAAAATTTAATATTTTAGAAATAAAAACAGGGTTGAAGTATACCTTTAGA
1 AGTATCCCTGTGATGAAAAATTTAATATTTTAGAAATAAAAACAGGGTTG-AGTATCCCCTCAGA
22101 AATAACGGGGTTAG
65 AATAACGGGGTTAG
* * * **
22115 AGTAT-CCTCGAGATAAAAAATTTAATATTTTAGAGATAAAAATGGGGTTGGAGTATCCC
1 AGTATCCCT-GTGATGAAAAATTTAATATTTTAGAAATAAAAACAGGGTT-GAGTATCCC
22174 TGAGATGAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
78 4 0.03
79 107 0.88
80 11 0.09
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (78 bp):
AGTATCCCTGTGATGAAAAATTTAATATTTTAGAAATAAAAACAGGGTTGAGTATCCCCTCAGAA
ATAACGGGGTTAG
Found at i:22169 original size:51 final size:51
Alignment explanation
Indices: 22107--22224 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
22097 TAGAAATAAC
* *
22107 GGGGTTAGAGTAT-CCTCGAGATAAAAAATTTAATATTTTAGAGATAAAAAT
1 GGGGTTGGAGTATCCCT-GAGATAAAAAATTTAATATTTTAGAAATAAAAAT
* *
22158 GGGGTTGGAGTATCCCTGAGATGAAAAATTTAATATTTTTGAAATAAAAAT
1 GGGGTTGGAGTATCCCTGAGATAAAAAATTTAATATTTTAGAAATAAAAAT
*
22209 GGAGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
22225 CTCGAAAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 58 0.95
52 3 0.05
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCTGAGATAAAAAATTTAATATTTTAGAAATAAAAAT
Found at i:22258 original size:130 final size:129
Alignment explanation
Indices: 22025--22274 Score: 326
Period size: 130 Copynumber: 1.9 Consensus size: 129
22015 CCTCAGAAAT
*
22025 AATGGGGTTAGAGTATCCCTGTGATGAAAAATTTAATATTTTAGAAATAAAAACAGGGTTGAAGT
1 AATGGGGTTAGAGTATCCCTGAGATGAAAAATTTAATATTTTAGAAATAAAAACAGGGTTGAAGT
** ** *
22090 ATACCTTTAGAAATAACGGGGTTAGAGTATCCTCGAGATAAAAAATTTAATATTTTAGAGATAAA
66 ATACCTCGAGAAATAACAAGGTTAGAGTATCCTCGAGATAAAAAA-TCAATATTTTAGAGATAAA
* * * *
22155 AATGGGGTTGGAGTATCCCTGAGATGAAAAATTTAATATTTTTGAAATAAAAA-TGGAGTTGGAG
1 AATGGGGTTAGAGTATCCCTGAGATGAAAAATTTAATATTTTAGAAATAAAAACAGG-GTTGAAG
* * *
22219 TATCCCCTCGA-AAATAACAAGGTTGGAGTATCC-CTGAGATGAAAAATCAATATTTT
65 TAT-ACCTCGAGAAATAACAAGGTTAGAGTATCCTC-GAGATAAAAAATCAATATTTT
22275 TGGAAAGACA
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
129 12 0.12
130 88 0.85
131 4 0.04
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (129 bp):
AATGGGGTTAGAGTATCCCTGAGATGAAAAATTTAATATTTTAGAAATAAAAACAGGGTTGAAGT
ATACCTCGAGAAATAACAAGGTTAGAGTATCCTCGAGATAAAAAATCAATATTTTAGAGATAAA
Found at i:24021 original size:13 final size:13
Alignment explanation
Indices: 24003--24028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23993 TACAGCAAGT
24003 ATGTATCGATACA
1 ATGTATCGATACA
24016 ATGTATCGATACA
1 ATGTATCGATACA
24029 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:37983 original size:1 final size:1
Alignment explanation
Indices: 37979--38049 Score: 70
Period size: 1 Copynumber: 71.0 Consensus size: 1
37969 CATTCTTTTT
* * * * * * * *
37979 AAAAAAAACAAAAACAACAAAAAACAAAAAAAAAAAAAAAAAAACAAAAAGAAAAAAAGAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
38044 AAAAAA
1 AAAAAA
38050 GAGAATCTGC
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:38018 original size:27 final size:28
Alignment explanation
Indices: 37980--38049 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
37970 ATTCTTTTTA
* * *
37980 AAAAAAACAAAAACAACAAAAA-ACAAA
1 AAAAAAAAAAAAAAAACAAAAAGAAAAA
38007 AAAAAAAAAAAAAAAACAAAAAGAAAAA
1 AAAAAAAAAAAAAAAACAAAAAGAAAAA
* *
38035 AAGAGAAAAAAAAAA
1 AAAAAAAAAAAAAAA
38050 GAGAATCTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.54
28 17 0.46
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAAAAAAAACAAAAAGAAAAA
Found at i:38022 original size:36 final size:36
Alignment explanation
Indices: 37979--38049 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
37969 CATTCTTTTT
37979 AAAAAAAACAAAAACAACAAAAA-ACAAAAAAAAAAA
1 AAAAAAAACAAAAACAA-AAAAAGACAAAAAAAAAAA
* *
38015 AAAAAAAACAAAAAGAAAAAAAGAGAAAAAAAAAA
1 AAAAAAAACAAAAACAAAAAAAGACAAAAAAAAAA
38050 GAGAATCTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 5 0.16
36 27 0.84
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (36 bp):
AAAAAAAACAAAAACAAAAAAAGACAAAAAAAAAAA
Found at i:39376 original size:28 final size:28
Alignment explanation
Indices: 39340--39416 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
39330 ATTTTTCATA
*
39340 ATCGGGGATACTCCAGCCCTC-TTATTTC
1 ATCGGGGATACTCCAACCC-CGTTATTTC
*
39368 ATCGGGGATACTCAAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
39396 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
39417 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 41 0.95
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:40483 original size:13 final size:13
Alignment explanation
Indices: 40465--40494 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
40455 ACAATTCCTC
*
40465 ATGTATCGGTACA
1 ATGTATCGATACA
40478 ATGTATCGATACA
1 ATGTATCGATACA
40491 ATGT
1 ATGT
40495 CCATGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:40489 original size:33 final size:32
Alignment explanation
Indices: 40443--40510 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
40433 TCGTTAGAAG
*
40443 CAATGTAATGATACAAT-TCCTCATGTATCGGTA
1 CAATGTAATGATACAATGT-C-CATGTATCGATA
40476 CAATGT-ATCGATACAATGTCCATGTATCGATA
1 CAATGTAAT-GATACAATGTCCATGTATCGATA
40508 CAA
1 CAA
40511 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
32 16 0.50
33 15 0.47
34 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (32 bp):
CAATGTAATGATACAATGTCCATGTATCGATA
Found at i:40583 original size:19 final size:19
Alignment explanation
Indices: 40538--40599 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
40528 ACTGCCAGTT
40538 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
40557 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
40577 TCATGTATCGATACAATGTA
1 TCATGTATCGATACAATG-A
40597 TCA
1 TCA
40600 ATACAAAGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 20 0.50
20 20 0.50
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:40621 original size:33 final size:32
Alignment explanation
Indices: 40560--40624 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
40550 ACAATTGTCC
* * *
40560 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCAATACAAAGATAATGTATCGATACA
40592 ATGTATCAATACAAAGCATAATGTATCGATACA
1 ATGTATCAATACAAAG-ATAATGTATCGATACA
40625 TTCAAAGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (32 bp):
ATGTATCAATACAAAGATAATGTATCGATACA
Found at i:47578 original size:13 final size:13
Alignment explanation
Indices: 47560--47584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47550 ATATTGCACA
47560 GTATCGATACATT
1 GTATCGATACATT
47573 GTATCGATACAT
1 GTATCGATACAT
47585 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:47702 original size:13 final size:13
Alignment explanation
Indices: 47684--47709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47674 TACACACAAG
47684 ATGTATCGATACA
1 ATGTATCGATACA
47697 ATGTATCGATACA
1 ATGTATCGATACA
47710 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:47726 original size:33 final size:32
Alignment explanation
Indices: 47666--47729 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
47656 CTTAACTGTT
*
47666 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
47698 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
47730 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:53867 original size:20 final size:21
Alignment explanation
Indices: 53820--53872 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
53810 GCCAATGACT
**
53820 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
53841 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
53861 TGTATCGATACA
1 TGTATCGATACA
53873 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:53878 original size:13 final size:13
Alignment explanation
Indices: 53860--53884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53850 ACATTTGGTC
53860 ATGTATCGATACA
1 ATGTATCGATACA
53873 ATGTATCGATAC
1 ATGTATCGATAC
53885 TATGCAACAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:56204 original size:20 final size:21
Alignment explanation
Indices: 56175--56215 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
56165 TGTTTTTGAT
56175 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
56194 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
56216 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:56355 original size:13 final size:13
Alignment explanation
Indices: 56337--56375 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
56327 ATAATCCCCT
*
56337 TGTATCGATACAG
1 TGTATCGATACAA
56350 TGTATCGATACAA
1 TGTATCGATACAA
56363 TGTATCGATACAA
1 TGTATCGATACAA
56376 AGAATGCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:60931 original size:9 final size:9
Alignment explanation
Indices: 60917--60947 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
60907 TCTGAGTCAC
*
60917 CATCATCAT
1 CATCATCTT
60926 CATCATCTT
1 CATCATCTT
60935 CATCATCTT
1 CATCATCTT
60944 CATC
1 CATC
60948 GTCCTTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCATCTT
Found at i:62573 original size:13 final size:13
Alignment explanation
Indices: 62555--62579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62545 CATTTTATGG
62555 TGTATCGATACAA
1 TGTATCGATACAA
62568 TGTATCGATACA
1 TGTATCGATACA
62580 TACTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:62595 original size:32 final size:33
Alignment explanation
Indices: 62532--62599 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
62522 CGTTACAAGC
**
62532 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
62565 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
62597 CAA
1 CAA
62600 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:62678 original size:20 final size:21
Alignment explanation
Indices: 62631--62683 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
62621 GCCAATGACT
**
62631 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
62652 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
62672 TGTATCGATACA
1 TGTATCGATACA
62684 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:62689 original size:13 final size:13
Alignment explanation
Indices: 62671--62695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62661 ACATTTGGTC
62671 ATGTATCGATACA
1 ATGTATCGATACA
62684 ATGTATCGATAC
1 ATGTATCGATAC
62696 TATGCAACAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:63930 original size:13 final size:13
Alignment explanation
Indices: 63912--63936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63902 CAACATTCTC
63912 TGTATCGATACAT
1 TGTATCGATACAT
63925 TGTATCGATACA
1 TGTATCGATACA
63937 AAGGGTTTAT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:64343 original size:20 final size:20
Alignment explanation
Indices: 64320--64373 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
64310 AACACCCTTA
64320 AAAGTATCGATACACAATT-C
1 AAAGTATCGATACA-AATTGC
*
64340 AAAGTATCGATACAAGTTGC
1 AAAGTATCGATACAAATTGC
*
64360 AATGTATCGATACA
1 AAAGTATCGATACA
64374 TGAAAAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAGTATCGATACAAATTGC
Found at i:64463 original size:13 final size:13
Alignment explanation
Indices: 64445--64470 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64435 TACACCAAGT
64445 ATGTATCGATACA
1 ATGTATCGATACA
64458 ATGTATCGATACA
1 ATGTATCGATACA
64471 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:64489 original size:34 final size:32
Alignment explanation
Indices: 64427--64491 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
64417 TAGCCAAACT
**
64427 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
64459 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
64492 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:70681 original size:13 final size:13
Alignment explanation
Indices: 70663--70697 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
70653 TTTTCCTTGT
*
70663 ATCGATACATTGC
1 ATCGATACACTGC
*
70676 ATCGATACACTGT
1 ATCGATACACTGC
70689 ATCGATACA
1 ATCGATACA
70698 GGGGGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (13 bp):
ATCGATACACTGC
Found at i:70690 original size:46 final size:46
Alignment explanation
Indices: 70592--70697 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
70582 AAATTTCCAA
* *
70592 AATGTATCGATACATGTTTCTGTGTATCGATACATCTGGAAAATTC
1 AATGTATCGATACATGTTTCTGTGTATCGATACATCTGCAAAATAC
* **
70638 AATGTATCGATACATTTTTCCT-TGTATCGATACAT-TGCATCGATAC
1 AATGTATCGATACATGTTT-CTGTGTATCGATACATCTGCA-AAATAC
*
70684 ACTGTATCGATACA
1 AATGTATCGATACA
70698 GGGGGATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 3 0.06
46 47 0.90
47 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (46 bp):
AATGTATCGATACATGTTTCTGTGTATCGATACATCTGCAAAATAC
Found at i:70862 original size:20 final size:20
Alignment explanation
Indices: 70819--70865 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
70809 AAATCTTTTG
70819 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
70840 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
70860 CAAAAT
1 CAAAAT
70866 CAGCTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:72344 original size:20 final size:22
Alignment explanation
Indices: 72321--72360 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
72311 TAGTATTTAA
72321 TTTATTTGC-TTG-ACTTTGTG
1 TTTATTTGCATTGTACTTTGTG
72341 TTTATTTGCATTGTACTTTG
1 TTTATTTGCATTGTACTTTG
72361 ACTTTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.60
Consensus pattern (22 bp):
TTTATTTGCATTGTACTTTGTG
Found at i:74399 original size:20 final size:22
Alignment explanation
Indices: 74374--74418 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
74364 GCAGCACTCA
*
74374 CCAGGTCGCGACC-GGCA-CCC
1 CCAGGTCGCAACCGGGCAGCCC
74394 CCAGGTCGCAACCGGGCAGCCC
1 CCAGGTCGCAACCGGGCAGCCC
74416 CCA
1 CCA
74419 CACTAGCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.18, C:0.49, G:0.29, T:0.04
Consensus pattern (22 bp):
CCAGGTCGCAACCGGGCAGCCC
Found at i:76412 original size:13 final size:13
Alignment explanation
Indices: 76394--76418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76384 ATATTGCACA
76394 GTATCGATACATT
1 GTATCGATACATT
76407 GTATCGATACAT
1 GTATCGATACAT
76419 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:76560 original size:33 final size:32
Alignment explanation
Indices: 76502--76563 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
76492 TAACTGTTTG
*
76502 TATCGATACACACAAGATGTATCGATACAATA
1 TATCGATACACACAAAATGTATCGATACAATA
*
76534 TATCGATACATCCCAAAATGTATCGATACA
1 TATCGATACA-CACAAAATGTATCGATACA
76564 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (32 bp):
TATCGATACACACAAAATGTATCGATACAATA
Found at i:77963 original size:13 final size:13
Alignment explanation
Indices: 77945--77974 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
77935 ACAATTCCTT
77945 ATGTATCGATACA
1 ATGTATCGATACA
*
77958 ATGTATCGGTACA
1 ATGTATCGATACA
77971 ATGT
1 ATGT
77975 CCATATATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:77971 original size:33 final size:32
Alignment explanation
Indices: 77923--77990 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
77913 TCGTTAGAAG
* *
77923 CAATGTATCTATACAAT-TCCTTATGTATCGATA
1 CAATGTATCGATACAATGTCC--ATATATCGATA
*
77956 CAATGTATCGGTACAATGTCCATATATCGATA
1 CAATGTATCGATACAATGTCCATATATCGATA
77988 CAA
1 CAA
77991 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 13 0.42
33 15 0.48
34 3 0.10
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACAATGTCCATATATCGATA
Found at i:78042 original size:19 final size:19
Alignment explanation
Indices: 78018--78054 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
78008 ATTGCCAGTT
*
78018 TCATGTATTGATACAATGA
1 TCATGTATCGATACAATGA
78037 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
78055 TATCGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:81728 original size:13 final size:13
Alignment explanation
Indices: 81710--81735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81700 CAATTTTTTG
81710 TGTATCGATACAT
1 TGTATCGATACAT
81723 TGTATCGATACAT
1 TGTATCGATACAT
81736 ACTTGATGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:81820 original size:20 final size:20
Alignment explanation
Indices: 81795--81867 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
81785 CAACTTTTTT
81795 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
81815 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
81836 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
81856 ATGTATCGATAC
1 ATGTATCGATAC
81868 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:81833 original size:41 final size:41
Alignment explanation
Indices: 81774--81867 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
81764 CTGCCAAGAA
*
81774 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
81815 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
81856 ATGTATCGATAC
1 ATGTATCGATAC
81868 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:81849 original size:21 final size:21
Alignment explanation
Indices: 81774--81849 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
81764 CTGCCAAGAA
* *
81774 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
81795 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
81815 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
81836 ATGTATCGATACAT
1 ATGTATCGATACAT
81850 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:84330 original size:13 final size:13
Alignment explanation
Indices: 84312--84350 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
84302 ATAATCACCC
*
84312 TGTATCGATACAG
1 TGTATCGATACAA
84325 TGTATCGATACAA
1 TGTATCGATACAA
84338 TGTATCGATACAA
1 TGTATCGATACAA
84351 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:84361 original size:20 final size:20
Alignment explanation
Indices: 84336--84414 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
84326 GTATCGATAC
84336 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
84356 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
84381 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
84401 CATGTATCGATACA
1 AATGTATCGATACA
84415 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:90492 original size:13 final size:13
Alignment explanation
Indices: 90474--90499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90464 CAATTTTTTG
90474 TGTATCGATACAT
1 TGTATCGATACAT
90487 TGTATCGATACAT
1 TGTATCGATACAT
90500 ACTTGATGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:90584 original size:20 final size:20
Alignment explanation
Indices: 90559--90631 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
90549 CAACTTTTTT
90559 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
90579 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
90600 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
90620 ATGTATCGATAC
1 ATGTATCGATAC
90632 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:90587 original size:41 final size:41
Alignment explanation
Indices: 90538--90631 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
90528 TTGCCAAGAA
*
90538 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
90579 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
90620 ATGTATCGATAC
1 ATGTATCGATAC
90632 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:90613 original size:21 final size:21
Alignment explanation
Indices: 90538--90613 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
90528 TTGCCAAGAA
* *
90538 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
90559 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
90579 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
90600 ATGTATCGATACAT
1 ATGTATCGATACAT
90614 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:91774 original size:20 final size:20
Alignment explanation
Indices: 91749--91873 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
91739 TTTTAACTAG
91749 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
91769 ATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACAT-T--G--AAAA
*
91794 GATAGAATTTATCGATACATTGAAGA
1 -AT-G----TATCGATACATTGAAAA
* * *
91820 ATGTATCGATACATTCATAT
1 ATGTATCGATACATTGAAAA
*
91840 ATGTATCGATATATTGAAAA
1 ATGTATCGATACATTGAAAA
*
91860 ATGTGTCGATACAT
1 ATGTATCGATACAT
91874 CTGGGTACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 55 0.66
21 1 0.01
23 1 0.01
24 1 0.01
25 6 0.07
26 5 0.06
27 1 0.01
28 1 0.01
30 1 0.01
31 11 0.13
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:92785 original size:32 final size:32
Alignment explanation
Indices: 92737--93759 Score: 620
Period size: 32 Copynumber: 33.5 Consensus size: 32
92727 TAAAAAAATG
* *
92737 TGCCACTAACTTGTGTGCGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * *
92769 TGCCACCGACTCGTGTGGGTTTTGAAAAGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* *
92801 TACCACTGGC-T-TGTGGGCTTTGAAAAGAG-
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
*
92830 TGCCACTGAC-T-TGTGGGCTTTG-AAAG-GG
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
*
92858 TGCCACTGAC--CTGTGGGCTTTGAAAAGAG-
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
** *
92887 TGCCACTGAC-T-TGTAAGCTTTG-AAAG-GG
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
*
92915 TGCCACTGAC-T-TATGGGCTTTGAAAAGAG-
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* *
92944 TGCCACTGAC--ATGTGGGCTTTG-AAAG-GG
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * *
92972 TGCCACTAACTTGCGTGGGCTTT-AAAAG-GG
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
*
93002 TGCCACTGAC-T-TGTGGGCTTCG-AAAGAG-
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* *
93030 TGCCATTGAC-T-TGTGGGCTTTG-AAAG-GG
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
** ** *
93058 TGCCACTGACTGGTGGGCCTGACTGGTGGGCTTTGAAAG-GG
1 TGCCACTGACT--T--G--TG--T-G-GGCTTTGAAAAGAGT
* *
93099 TGCCACTGAC-TG-GTGGGCTTT-CAAAG-GG
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
93127 TGCCACTGAC-T-TGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * * *
93157 TACCATTGAC-T-CGTGGGCTTTG-AAAG-GA
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * *
93185 TGCCACTAAC-T-TATGGGCTTTGAAAATAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
** * *
93215 TGCCACCAAC-T-CGTGGGCTTTG-AAAG-GA
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
*
93243 TGCCACTGAC-T-TGTAGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
** * *
93273 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * * * *
93305 TGCCACTAACTCGTGTGAGCTTTCAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* **
93337 TGCCA-TCGATTTGTGTGGGCTTTGAAATTA--
1 TGCCACT-GACTTGTGTGGGCTTTGAAAAGAGT
* *
93367 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
** * *
93399 TGCCACCAACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * * * *
93431 TACCACCGATTTGTGCGGGCTTTGAAATGA--
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * *
93461 TGCCACTGAC-T-TGTGGACTTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * *
93491 TACCACTGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
** * *
93523 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
** * *
93555 TGCCACCAACTTGTGTAGGCTTTGAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* * * *
93587 TGCCACCGACTTGTGTGGGATTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
** * * **
93619 TGCCACCAACTTATGTGGGCTTTCAATTGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
* *
93651 TGCCAGC-GACTTGTGTGGACTTTGAAAAGGGT
1 TGCCA-CTGACTTGTGTGGGCTTTGAAAAGAGT
* * * *
93683 TGCCAGC-AACTTATGTGGGCTTTCAAATGAGT
1 TGCCA-CTGACTTGTGTGGGCTTTGAAAAGAGT
** * * *
93715 TGCCACCAACTTGTGTAGGCTTTTAAATGA--
1 TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
93745 TGCCACTGACTTGTG
1 TGCCACTGACTTGTG
93760 GGCTTTAAAA
Statistics
Matches: 818, Mismatches: 125, Indels: 98
0.79 0.12 0.09
Matches are distributed among these distances:
27 4 0.00
28 183 0.22
29 92 0.11
30 147 0.18
31 7 0.01
32 357 0.44
33 2 0.00
36 3 0.00
38 2 0.00
39 1 0.00
40 4 0.00
41 16 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (32 bp):
TGCCACTGACTTGTGTGGGCTTTGAAAAGAGT
Found at i:92864 original size:28 final size:28
Alignment explanation
Indices: 92736--93075 Score: 374
Period size: 28 Copynumber: 11.7 Consensus size: 28
92726 TTAAAAAAAT
*
92736 GTGCCACTAACTTGTGTGCGCTTTGAAAAGAG
1 GTGCCACTGACTTGTG-G-GCTTTG-AAAG-G
* * *
92768 TTGCCACCGACTCGTGTGGGTTTTGAAAAGAG
1 GTGCCACTGACT--TGTGGGCTTTG-AAAG-G
* * * *
92800 TTACCACTGGCTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
92829 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
92857 GTGCCACTGACCTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
**
92886 GTGCCACTGACTTGTAAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
92914 GTGCCACTGACTTATGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
92943 GTGCCACTGACATGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
92971 GTGCCACTAACTTGCGTGGGCTTTAAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAGG
* *
93001 GTGCCACTGACTTGTGGGCTTCGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
93029 GTGCCATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
93057 GTGCCACTGACTGGTGGGC
1 GTGCCACTGACTTGTGGGC
93076 CTGACTGGTG
Statistics
Matches: 264, Mismatches: 38, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
28 119 0.45
29 69 0.26
30 41 0.16
32 30 0.11
33 1 0.00
34 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:93079 original size:13 final size:13
Alignment explanation
Indices: 93063--93088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93053 AAGGGTGCCA
93063 CTGACTGGTGGGC
1 CTGACTGGTGGGC
93076 CTGACTGGTGGGC
1 CTGACTGGTGGGC
93089 TTTGAAAGGG
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:0.08, C:0.23, G:0.46, T:0.23
Consensus pattern (13 bp):
CTGACTGGTGGGC
Found at i:93093 original size:41 final size:41
Alignment explanation
Indices: 93036--93116 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
93026 AGAGTGCCAT
*
93036 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTGGTGGGCC
1 TGACTGGTGGGCTTTGAAAGGGTGCCACTGACTGGTGGGCC
93077 TGACTGGTGGGCTTTGAAAGGGTGCCACTGACTGGTGGGC
1 TGACTGGTGGGCTTTGAAAGGGTGCCACTGACTGGTGGGC
93117 TTTCAAAGGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.15, C:0.19, G:0.41, T:0.26
Consensus pattern (41 bp):
TGACTGGTGGGCTTTGAAAGGGTGCCACTGACTGGTGGGCC
Found at i:93106 original size:24 final size:27
Alignment explanation
Indices: 93078--93147 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 27
93068 TGGTGGGCCT
*
93078 GACTGGTGGGCTTTGAAAGGGTGCCAC
1 GACTGGTGGGCTTTCAAAGGGTGCCAC
93105 TGACTGGTGGGCTTTCAAAGGGTGCCAC
1 -GACTGGTGGGCTTTCAAAGGGTGCCAC
*
93133 TGACTTGTGGGCTTT
1 -GACTGGTGGGCTTT
93148 GAAAAGAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.16, C:0.19, G:0.37, T:0.29
Consensus pattern (27 bp):
GACTGGTGGGCTTTCAAAGGGTGCCAC
Found at i:93118 original size:69 final size:69
Alignment explanation
Indices: 93007--93144 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
92997 AAGGGTGCCA
* * * *
93007 CTGACTTGTGGGCTTCGAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTGGT
1 CTGACTGGTGGGCTTCGAAAGAGTGCCACTGACTGGTGGGCTTTCAAAGGGTGCCACTGACTGGT
93072 GGGC
66 GGGC
* * *
93076 CTGACTGGTGGGCTTTGAAAGGGTGCCACTGACTGGTGGGCTTTCAAAGGGTGCCACTGACTTGT
1 CTGACTGGTGGGCTTCGAAAGAGTGCCACTGACTGGTGGGCTTTCAAAGGGTGCCACTGACTGGT
93141 GGGC
66 GGGC
93145 TTTGAAAAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.27
Consensus pattern (69 bp):
CTGACTGGTGGGCTTCGAAAGAGTGCCACTGACTGGTGGGCTTTCAAAGGGTGCCACTGACTGGT
GGGC
Found at i:93202 original size:127 final size:127
Alignment explanation
Indices: 92956--93202 Score: 381
Period size: 127 Copynumber: 1.9 Consensus size: 127
92946 CCACTGACAT
92956 GTGGGCTTTGAAAGGGTGCCACTAACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAGGGTGCCACTAACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCT
* * * * *
93021 TCGAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTGGTGGGCCTGACTG
66 TCGAAAGAGTACCATTGACTCGTGGGCTTTGAAAGGATGCCACTAACTGATGGGCCTGACTG
* *
93083 GTGGGCTTTGAAAGGGTGCCACTGAC-TG-GTGGGCTTTCAAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAGGGTGCCACTAACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCT
* *
93146 TTGAAAAGAGTTACCATTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTATGGGC
66 TCG-AAAGAG-TACCATTGACTCGTGGGCTTTGAAAGGATGCCACTAACTGATGGGC
93203 TTTGAAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
125 36 0.33
126 8 0.07
127 65 0.60
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (127 bp):
GTGGGCTTTGAAAGGGTGCCACTAACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCT
TCGAAAGAGTACCATTGACTCGTGGGCTTTGAAAGGATGCCACTAACTGATGGGCCTGACTG
Found at i:93838 original size:27 final size:27
Alignment explanation
Indices: 93804--94180 Score: 443
Period size: 27 Copynumber: 13.7 Consensus size: 27
93794 AAAAGGGTGC
93804 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
93831 TGCCACGGAGTTATGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
93858 TGCCATGGAGTTGTGGAATTTACAAGGG
1 TGCCACGGAGTTGTGG-ACTTAAAAGGA
93886 TGCCACGGAGTTGTGGACTTTAAACA-GA
1 TGCCACGGAGTTGTGGAC-TTAAA-AGGA
93914 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
93941 TGCCACAGAGTTGTGGACTTTACAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
93969 TGCCACAGAGTTGTGGACTTTAAAAGAA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
** * * *
93997 CACCACGAAGTTGTGGACTTGAAACGAA
1 TGCCACGGAGTTGTGGACTT-AAAAGGA
*
94025 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
94052 TGCCACGAAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* ** * *
94079 TGCCATGGAG-TGTAAACTTTACAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
94106 TGCCACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
94134 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
94161 TGCCACAGAGTTGTAGACTT
1 TGCCACGGAGTTGTGGACTT
94181 TGAAAAGAAA
Statistics
Matches: 298, Mismatches: 44, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
26 6 0.02
27 146 0.49
28 145 0.49
29 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:93895 original size:28 final size:28
Alignment explanation
Indices: 93804--94174 Score: 355
Period size: 28 Copynumber: 13.5 Consensus size: 28
93794 AAAAGGGTGC
*
93804 TGCCACGGAGTTGTGG-ACTTAAAAGGA
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
* *
93831 TGCCACGGAGTTATGG-ACTTAAAAGGA
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
* * *
93858 TGCCATGGAGTTGTGGAATTTACAAGGG
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
*
93886 TGCCACGGAGTTGTGGACTTTAAACA-GA
1 TGCCACGGAGTTGTGGAATTTAAA-AGGA
*
93914 TGCCACGGAGTTGTGG-ACTTAAAAGGA
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
* * * *
93941 TGCCACAGAGTTGTGGACTTTACAAGGG
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
* * *
93969 TGCCACAGAGTTGTGGACTTTAAAAGAA
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
** * * * * *
93997 CACCACGAAGTTGTGGACTTGAAACGAA
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
* *
94025 TGCCACGGAGTTGTGG-ACTTAAAAGGG
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
* *
94052 TGCCACGAAGTTGTGG-ACTTAAAAGGA
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
* * * *
94079 TGCCATGGAG-TGT-AAACTTTACAAGGG
1 TGCCACGGAGTTGTGGAA-TTTAAAAGGA
* *
94106 TGCCACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
*
94134 TGCCACGGAGTTGTGG-ACTTAAAAGGA
1 TGCCACGGAGTTGTGGAATTTAAAAGGA
*
94161 TGCCACAGAGTTGT
1 TGCCACGGAGTTGT
94175 AGACTTTGAA
Statistics
Matches: 283, Mismatches: 53, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.02
27 137 0.48
28 139 0.49
29 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.24
Consensus pattern (28 bp):
TGCCACGGAGTTGTGGAATTTAAAAGGA
Found at i:94181 original size:55 final size:55
Alignment explanation
Indices: 93804--94196 Score: 456
Period size: 55 Copynumber: 7.1 Consensus size: 55
93794 AAAAGGGTGC
* *
93804 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTATGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGA
* * * * *
93858 TGCCATGGAGTTGTGGAATTTACAAGGGTGCCACGGAGTTGTGGACTTTAAACA-GA
1 TGCCACGGAGTTGTGG-ACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAA-AGGA
* *
93914 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTACAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGA
* * ** * * *
93969 TGCCACAGAGTTGTGGACTTTAAAAGAACACCAC-GAAGTTGTGGACTTGAAACGAA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAG-AGTTGTGGACTTTAAAAGGA
*
94025 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAAGTTGTGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAG-AGTTGTGGACTTTAAAAGGA
* ** * *
94079 TGCCATGGAG-TGTAAACTTTACAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGA
* *
94134 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTAGACTTTGAAAAGAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTT-AAAAG-GA
94191 TGCCAC
1 TGCCAC
94197 TAAATCATGG
Statistics
Matches: 287, Mismatches: 40, Indels: 21
0.82 0.11 0.06
Matches are distributed among these distances:
53 5 0.02
54 55 0.19
55 143 0.50
56 76 0.26
57 8 0.03
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (55 bp):
TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGA
Found at i:103108 original size:13 final size:13
Alignment explanation
Indices: 103090--103120 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
103080 AAATTTCTTC
103090 ATGTATCGATACA
1 ATGTATCGATACA
103103 ATGTATCGATACA
1 ATGTATCGATACA
*
103116 TTGTA
1 ATGTA
103121 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:103108 original size:33 final size:33
Alignment explanation
Indices: 103070--103136 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
103060 ATTACAAGCT
103070 ATGTATCGATAAATT-T-CTTCATGTATCGATACA
1 ATGTATCGATAAATTGTAC--CATGTATCGATACA
*
103103 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATAAATTGTACCATGTATCGATACA
103136 A
1 A
103137 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATAAATTGTACCATGTATCGATACA
Found at i:103191 original size:21 final size:21
Alignment explanation
Indices: 103165--103220 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
103155 CTGCCAATTT
* **
103165 CATGTATTGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
103186 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
103205 CATGTATCGATACAAT
1 CATGTATCGATACAAT
103221 ATATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 16 0.53
20 2 0.07
21 12 0.40
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:111959 original size:21 final size:21
Alignment explanation
Indices: 111934--111989 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
111924 CTGCCAATTT
**
111934 CATGTATCGATATAATTTGTC
1 CATGTATCGATATAATTTGAA
*
111955 CATGTATCGATA-CA-TTGAA
1 CATGTATCGATATAATTTGAA
111974 CATGTATCGATATAAT
1 CATGTATCGATATAAT
111990 GTATCAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 15 0.52
20 2 0.07
21 12 0.41
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
CATGTATCGATATAATTTGAA
Found at i:112529 original size:20 final size:20
Alignment explanation
Indices: 112506--112620 Score: 135
Period size: 20 Copynumber: 5.8 Consensus size: 20
112496 GAAAAGACAG
*
112506 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* *
112526 AATGTATCGATACATTCATAC
1 AATGTATCGATACATTGA-AA
*
112547 AA-GTATTGATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
112566 AATGTATCGATACATTCATAC
1 AATGTATCGATACATTGA-AA
*
112587 AA-GTATTGATACATTGAAA
1 AATGTATCGATACATTGAAA
112606 AATGTATCGATACAT
1 AATGTATCGATACAT
112621 CTGGTACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
19 6 0.08
20 67 0.85
21 6 0.08
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:112570 original size:40 final size:40
Alignment explanation
Indices: 112509--112620 Score: 206
Period size: 40 Copynumber: 2.8 Consensus size: 40
112499 AAGACAGAAT
* *
112509 GTATCGATACATTGAAGAATGTATCGATACATTCATACAA
1 GTATTGATACATTGAAAAATGTATCGATACATTCATACAA
112549 GTATTGATACATTGAAAAATGTATCGATACATTCATACAA
1 GTATTGATACATTGAAAAATGTATCGATACATTCATACAA
112589 GTATTGATACATTGAAAAATGTATCGATACAT
1 GTATTGATACATTGAAAAATGTATCGATACAT
112621 CTGGTACTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (40 bp):
GTATTGATACATTGAAAAATGTATCGATACATTCATACAA
Found at i:116843 original size:20 final size:20
Alignment explanation
Indices: 116816--116869 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
116806 AAAAACCCAG
116816 AATGTATCGATACAAA-GCA
1 AATGTATCGATACAAATGCA
**
116835 AATTGTATCGATACAAATGGG
1 AA-TGTATCGATACAAATGCA
116856 AATGTATCGATACA
1 AATGTATCGATACA
116870 TTTACTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAAATGCA
Found at i:116945 original size:20 final size:21
Alignment explanation
Indices: 116920--116970 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
116910 ACACGGTCTA
**
116920 TATCGATACATTCA-TTTTTG
1 TATCGATACATTCACTAATTG
116940 TATCGATACATTCACTAATTG
1 TATCGATACATTCACTAATTG
116961 TATCGATACA
1 TATCGATACA
116971 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (21 bp):
TATCGATACATTCACTAATTG
Found at i:117281 original size:13 final size:13
Alignment explanation
Indices: 117262--117291 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
117252 GTGTAGCGAG
117262 ATTTTTTTT-AAA
1 ATTTTTTTTGAAA
117274 ATTTTTTTTGAAA
1 ATTTTTTTTGAAA
117287 ATTTT
1 ATTTT
117292 AAAAATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
ATTTTTTTTGAAA
Found at i:118068 original size:14 final size:14
Alignment explanation
Indices: 118049--118082 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
118039 AAATTTCATC
118049 TTAATTTTTA-AATT
1 TTAATTTTTATAA-T
118063 TTAATTTTTATAAT
1 TTAATTTTTATAAT
118077 TTAATT
1 TTAATT
118083 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAATTTTTATAAT
Found at i:118379 original size:27 final size:27
Alignment explanation
Indices: 118349--118414 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
118339 GGTAAGAAAG
* *
118349 ACAACAAGGCAAGCAGCAA-AAAAGGTA
1 ACAACAAAGCAAGCAGCAAGAAAA-GCA
118376 ACAACAAAGCAAGCAGCAAGAAAAGCA
1 ACAACAAAGCAAGCAGCAAGAAAAGCA
118403 ACAACAAA-CAAG
1 ACAACAAAGCAAG
118415 TCGTAAAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 4 0.11
27 28 0.78
28 4 0.11
ACGTcount: A:0.59, C:0.21, G:0.18, T:0.02
Consensus pattern (27 bp):
ACAACAAAGCAAGCAGCAAGAAAAGCA
Found at i:118781 original size:40 final size:40
Alignment explanation
Indices: 118726--118819 Score: 188
Period size: 40 Copynumber: 2.4 Consensus size: 40
118716 ATGGAGGAGG
118726 AAACAGCAGCTGATAAAGGAGAAAATAGCGGCACCAAAAA
1 AAACAGCAGCTGATAAAGGAGAAAATAGCGGCACCAAAAA
118766 AAACAGCAGCTGATAAAGGAGAAAATAGCGGCACCAAAAA
1 AAACAGCAGCTGATAAAGGAGAAAATAGCGGCACCAAAAA
118806 AAACAGCAGCTGAT
1 AAACAGCAGCTGAT
118820 GGATGAGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.51, C:0.18, G:0.22, T:0.09
Consensus pattern (40 bp):
AAACAGCAGCTGATAAAGGAGAAAATAGCGGCACCAAAAA
Found at i:118926 original size:22 final size:22
Alignment explanation
Indices: 118901--118943 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
118891 AAAAGCAAGC
*
118901 AAAAAAA-TAAGGAAAATAAGAG
1 AAAAAAACTAACGAAAA-AAGAG
118923 AAAAAAACTAACGAAAAAAGA
1 AAAAAAACTAACGAAAAAAGA
118944 AAGAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.74, C:0.05, G:0.14, T:0.07
Consensus pattern (22 bp):
AAAAAAACTAACGAAAAAAGAG
Found at i:122664 original size:34 final size:34
Alignment explanation
Indices: 122626--122693 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
122616 TATCTTAAAA
122626 ATCAATCATTTTAAGCCTTGAAAACATTTATACT
1 ATCAATCATTTTAAGCCTTGAAAACATTTATACT
122660 ATCAATCATTTTAAGCCTTGAAAACATTTATACT
1 ATCAATCATTTTAAGCCTTGAAAACATTTATACT
122694 TAACTAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (34 bp):
ATCAATCATTTTAAGCCTTGAAAACATTTATACT
Found at i:128218 original size:21 final size:21
Alignment explanation
Indices: 128189--128233 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
128179 AAGTTTTTAT
*
128189 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAAGTTCATTA
*
128209 TTTTCATTAGCCAAGTTCTTTA
1 TTTTC-TTAGCCAAGTTCATTA
128231 TTT
1 TTT
128234 CAACTTCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAGTTCATTA
Found at i:128233 original size:22 final size:21
Alignment explanation
Indices: 128178--128233 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
128168 ATGAATCATG
128178 CAAGTT-TTTATTTTTCTTAGC
1 CAAGTTCTTTA-TTTTCTTAGC
* *
128199 TAA-TTCATTATTTTCATTAGC
1 CAAGTTCTTTATTTTC-TTAGC
128220 CAAGTTCTTTATTT
1 CAAGTTCTTTATTT
128234 CAACTTCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (21 bp):
CAAGTTCTTTATTTTCTTAGC
Found at i:128293 original size:20 final size:18
Alignment explanation
Indices: 128248--128295 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
128238 TTCCAATTCA
128248 TTTATTTTCTTTTAAAAG
1 TTTATTTTCTTTTAAAAG
* **
128266 TTTTTTTTCTCTTTAAGCG
1 TTTATTTTCT-TTTAAAAG
128285 CTTTATTTTCT
1 -TTTATTTTCT
128296 AAACATACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 9 0.38
ACGTcount: A:0.17, C:0.12, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTATTTTCTTTTAAAAG
Found at i:128831 original size:12 final size:12
Alignment explanation
Indices: 128816--128849 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
128806 TCCGAGTCAC
128816 CATCTTCATCAA
1 CATCTTCATCAA
*
128828 CATCTTCATCAT
1 CATCTTCATCAA
*
128840 CTTCTTCATC
1 CATCTTCATC
128850 CTTGATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (12 bp):
CATCTTCATCAA
Found at i:130458 original size:13 final size:13
Alignment explanation
Indices: 130440--130464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
130430 AATTTTTTGG
130440 TGTATCGATACAA
1 TGTATCGATACAA
130453 TGTATCGATACA
1 TGTATCGATACA
130465 TACTTGGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:130477 original size:32 final size:34
Alignment explanation
Indices: 130416--130484 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 34
130406 CGTTACAAGC
**
130416 CAATGTATCGATACAATTTTTTGGTGTATCGATA
1 CAATGTATCGATACAATTACTTGGTGTATCGATA
130450 CAATGTATCGATAC-A-TACTTGGTGTATCGATA
1 CAATGTATCGATACAATTACTTGGTGTATCGATA
130482 CAA
1 CAA
130485 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 18 0.55
33 1 0.03
34 14 0.42
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (34 bp):
CAATGTATCGATACAATTACTTGGTGTATCGATA
Found at i:131484 original size:20 final size:20
Alignment explanation
Indices: 131459--131512 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
131449 TTTACGCAGA
131459 TGTATCGATACATTGTTCAC
1 TGTATCGATACATTGTTCAC
*
131479 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAC
131499 TGTATCGATACATT
1 TGTATCGATACATT
131513 CTGGGTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAC
Found at i:131560 original size:69 final size:70
Alignment explanation
Indices: 131409--131561 Score: 256
Period size: 69 Copynumber: 2.2 Consensus size: 70
131399 TTTCACAATT
131409 TGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTACGCAGATGTATCGATACATTG
1 TGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTACGCAGATGTATCGATACATTG
*
131474 TTCAC
66 TTCAA
*
131479 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGG-TTTAC-CTAGATGTATCGATACATT
1 TGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTACGC-AGATGTATCGATACATT
*
131542 TTTCAA
65 GTTCAA
131548 TGTATCGATACATT
1 TGTATCGATACATT
131562 CAGGTATTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
68 1 0.01
69 40 0.51
70 38 0.48
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (70 bp):
TGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTACGCAGATGTATCGATACATTG
TTCAA
Found at i:134114 original size:28 final size:28
Alignment explanation
Indices: 134045--134114 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
134035 CACAATCAGA
** *
134045 ATACTCCAACCCTATTATTTCATCAGGG
1 ATACTCCAACCCCGTTATTTCATAAGGG
134073 ATACTCCAACCCCGTTATTTCA-AAGGGG
1 ATACTCCAACCCCGTTATTTCATAA-GGG
134101 ATACTCCAACCCCG
1 ATACTCCAACCCCG
134115 GCTTTATTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.26
Consensus pattern (28 bp):
ATACTCCAACCCCGTTATTTCATAAGGG
Found at i:134159 original size:79 final size:78
Alignment explanation
Indices: 134066--134403 Score: 337
Period size: 79 Copynumber: 4.3 Consensus size: 78
134056 CTATTATTTC
134066 ATCAGGGATACTCCAACCCCGTTA-TTTCAAAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
1 ATCAGGGATACTCCAACCCCGTTATTTTCAAA-GGGATACTCCAACCCCGGCTTTATTTCTAAAA
* *
134130 TATTGATTTCTCATA
65 CATCGATTT-TCATA
* *
134145 ATC-GAGGATACTCCAACCCTGTTATTTTCACAA-GGATACTCCAACCCCGGCCTTATTTCTAAA
1 ATCAG-GGATACTCCAACCCCGTTATTTTCA-AAGGGATACTCCAACCCCGGCTTTATTTCTAAA
* * *
134208 GCATTGATTTTCACA
64 ACATCGATTTTCATA
* * * * * *
134223 ATCGGGGATACTCCAACTCCGTTATTTTCGAAGGGATATTCTAACCCC-GATATTATTT-TCAAA
1 ATCAGGGATACTCCAACCCCGTTATTTTCAAAGGGATACTCCAACCCCGGCT-TTATTTCT-AAA
134286 ACATCGATTTTCTATA
64 ACATCGATTTTC-ATA
* * ** *** * *
134302 ATCATGGATACTCCAACCCTGTTA-TTTCCGAGAGGATACTCCAACCCCAATTTTATTTCCAGAA
1 ATCAGGGATACTCCAACCCCGTTATTTTCAAAG-GGATACTCCAACCCCGGCTTTATTTCTAAAA
*
134366 CATCAATTTTTCATA
65 CATCGA-TTTTCATA
*
134381 ATCAGGGATACTCCAGCCCCGTT
1 ATCAGGGATACTCCAACCCCGTT
134404 TTTATTCCCA
Statistics
Matches: 216, Mismatches: 31, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
77 4 0.02
78 68 0.31
79 131 0.61
80 11 0.05
81 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (78 bp):
ATCAGGGATACTCCAACCCCGTTATTTTCAAAGGGATACTCCAACCCCGGCTTTATTTCTAAAAC
ATCGATTTTCATA
Found at i:134358 original size:157 final size:158
Alignment explanation
Indices: 134066--134403 Score: 388
Period size: 157 Copynumber: 2.1 Consensus size: 158
134056 CTATTATTTC
* *
134066 ATCAGGGATACTCCAACCCCGTTATTTCAAAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCAGGGATACTCCAACCCCGTTATTTCAAAGGGGATACTCCAACCCCGGATTTATTTCTAAAAC
* **
134131 ATTGATTTCTCATAATCGAGGATACTCCAACCCTGTTATTTTCACAAGGATACTCCAACCCCGGC
66 ATCGATTTCTCATAATCGAGGATACTCCAACCCTGTTATTTTCACAAGGATACTCCAACCCCAAC
* **
134196 CTTATTTCTA-AAGCATTGA-TTTTCACA
131 CTTATTTCCAGAA-CATCAATTTTTCACA
* * * * *
134223 ATCGGGGATACTCCAACTCCGTTATTTTCGAA-GGGATATTCTAACCCC-GATATTATTT-TCAA
1 ATCAGGGATACTCCAACCCCGTTA-TTTCAAAGGGGATACTCCAACCCCGGAT-TTATTTCT-AA
134285 AACATCGATTT-TCTATAATC-ATGGATACTCCAACCCTGTTA-TTTC-CGAGAGGATACTCCAA
63 AACATCGATTTCTC-ATAATCGA-GGATACTCCAACCCTGTTATTTTCAC-A-AGGATACTCCAA
** *
134346 CCCCAATTTTATTTCCAGAACATCAATTTTTCATA
124 CCCCAACCTTATTTCCAGAACATCAATTTTTCACA
*
134381 ATCAGGGATACTCCAGCCCCGTT
1 ATCAGGGATACTCCAACCCCGTT
134404 TTTATTCCCA
Statistics
Matches: 153, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
155 1 0.01
156 11 0.07
157 106 0.69
158 35 0.23
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (158 bp):
ATCAGGGATACTCCAACCCCGTTATTTCAAAGGGGATACTCCAACCCCGGATTTATTTCTAAAAC
ATCGATTTCTCATAATCGAGGATACTCCAACCCTGTTATTTTCACAAGGATACTCCAACCCCAAC
CTTATTTCCAGAACATCAATTTTTCACA
Found at i:136712 original size:19 final size:20
Alignment explanation
Indices: 136685--136722 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
136675 ATCCAGCGAC
*
136685 CGGCCACTA-CGTCGGTCAT
1 CGGCAACTACCGTCGGTCAT
136704 CGGCAACTACCGTCGGTCA
1 CGGCAACTACCGTCGGTCA
136723 CCGCTCGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.18, C:0.37, G:0.26, T:0.18
Consensus pattern (20 bp):
CGGCAACTACCGTCGGTCAT
Found at i:139344 original size:20 final size:19
Alignment explanation
Indices: 139318--139371 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
139308 AAAACCTTGA
139318 AAAGTATCGATACACCTTC
1 AAAGTATCGATACACCTTC
*
139337 AAATGTATCGATACACATTAC
1 AAA-GTATCGATACACCTT-C
*
139358 ACAGTATCGATACA
1 AAAGTATCGATACA
139372 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (19 bp):
AAAGTATCGATACACCTTC
Found at i:139377 original size:13 final size:13
Alignment explanation
Indices: 139361--139385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
139351 ACATTACACA
139361 GTATCGATACATT
1 GTATCGATACATT
139374 GTATCGATACAT
1 GTATCGATACAT
139386 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:139398 original size:20 final size:21
Alignment explanation
Indices: 139373--139425 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
139363 ATCGATACAT
*
139373 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
139393 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
139414 TGTATCGATACA
1 TGTATCGATACA
139426 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:139507 original size:32 final size:33
Alignment explanation
Indices: 139466--139533 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
139456 CCTTAACTGT
**
139466 TTGTATCGATACA-CACATTATGTATCAATACA
1 TTGTATCGATACATCACAAAATGTATCAATACA
* *
139498 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCAATACA
139531 TTG
1 TTG
139534 GCTTGTAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCAATACA
Found at i:146138 original size:20 final size:21
Alignment explanation
Indices: 146106--146157 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
146096 CCTCTAGGCA
* *
146106 GCACCCACCAGGTTGCGACC-G
1 GCACCC-CCAGGTCGCAACCGG
146127 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
146148 GCAGCCCCCA
1 GCA-CCCCCA
146158 CACTAGCAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:149589 original size:21 final size:21
Alignment explanation
Indices: 149565--149619 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
149555 CACTTGCAAC
*
149565 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
149586 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
149607 TCACTTAATTTCT
1 TCATTTATTTTCT
149620 TTTAAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:149620 original size:21 final size:21
Alignment explanation
Indices: 149580--149622 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
149570 TCTTTTCTCC
* *
149580 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
149601 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
149622 T
1 T
149623 AAAGAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.63
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:150588 original size:364 final size:363
Alignment explanation
Indices: 149856--150945 Score: 2108
Period size: 363 Copynumber: 3.0 Consensus size: 363
149846 CGTTGTAGAC
149856 ACCATAGCCTTCTTCTTTGGTTTCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCG
1 ACCATAGCCTTCTTCTTTGGTTTCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCG
149921 ATAGCATATGACTTGCTCGTTGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCT
66 ATAGCATATGACTTGCTCGTTGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCT
149986 TTGCTTTGTTCATTTTTAAGAACTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCA
131 TTGCTTTGTTCATTTTTAAGAACTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCA
*
150051 TCAACCTCTTGATCATCTTCATCATCATTATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTT
196 TCAACCTCTTGATCATCTTCATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTT
150116 CTTTGATGGTGCTTGACCATGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCAT
261 CTTTGATGGTGCTTGACCATGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCAT
*
150181 CTAAGGAAAGGGTGTTGGGATCCTTGGATTCTTCAATA
326 CCAAGGAAAGGGTGTTGGGATCCTTGGATTCTTCAATA
*
150219 ACCATAGCCTTCTTCTTTGGTTTCTTTGGACATTCAAACTTGTCATGTCCTGGTTTCTTGCATCG
1 ACCATAGCCTTCTTCTTTGGTTTCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCG
*
150284 ATAGCATATGACTTGCTCGTTGTTGCTTAACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCT
66 ATAGCATATGACTTGCTCGTTGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCT
*
150349 TTGCTTTGTTCATTTTTAAGAACTTTTTAAATCTTCTTGCAAGCATATCCATTTTTTTCATTTTC
131 TTGCTTTGTTCATTTTTAAGAACTTTTTAAATCTTCTTGCAAGCATATCCA-TTTCTTCATTTTC
150414 ATCAACCTCTTGATCATCTTCATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCT
195 ATCAACCTCTTGATCATCTTCATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCT
150479 TCTTTGATGGTGCTTGACCATGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCA
260 TCTTTGATGGTGCTTGACCATGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCA
150544 TCCAAGGAAAGGGTGTTGGGATCCTTGGATTCTTCAATA
325 TCCAAGGAAAGGGTGTTGGGATCCTTGGATTCTTCAATA
*
150583 ACCATAGCCTTATTCTTTGGTTTCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCG
1 ACCATAGCCTTCTTCTTTGGTTTCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCG
150648 ATAGCATATGACTTGCTCGTTGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCT
66 ATAGCATATGACTTGCTCGTTGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCT
150713 TTGCTTTGTTCATTTTTAAGAACTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCA
131 TTGCTTTGTTCATTTTTAAGAACTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCA
*
150778 TCAATCTCTTGATCATCTTCATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTT
196 TCAACCTCTTGATCATCTTCATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTT
150843 CTTTGATGGTGCTTGACCATGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCAT
261 CTTTGATGGTGCTTGACCATGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCAT
150908 CCAAGGAAAGGGTGTTGGGATCCTTGGATTCTTCAATA
326 CCAAGGAAAGGGTGTTGGGATCCTTGGATTCTTCAATA
150946 GCCGTAACTT
Statistics
Matches: 716, Mismatches: 10, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
363 359 0.50
364 357 0.50
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.41
Consensus pattern (363 bp):
ACCATAGCCTTCTTCTTTGGTTTCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCG
ATAGCATATGACTTGCTCGTTGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCT
TTGCTTTGTTCATTTTTAAGAACTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCA
TCAACCTCTTGATCATCTTCATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTT
CTTTGATGGTGCTTGACCATGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCAT
CCAAGGAAAGGGTGTTGGGATCCTTGGATTCTTCAATA
Found at i:150975 original size:363 final size:361
Alignment explanation
Indices: 149878--150975 Score: 1944
Period size: 364 Copynumber: 3.0 Consensus size: 361
149868 TTCTTTGGTT
149878 TCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCGATAGCATATGACTTGCTCGTTG
1 TCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCGATAGCATATGACTTGCTCGTTG
149943 TTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCTTTGCTTTGTTCATTTTTAAGAA
66 TTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCTTTGCTTTGTTCATTTTTAAGAA
150008 CTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCATCAACCTCTTGATCATCTTCAT
131 CTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCATCAACCTCTTGATCATCTTCAT
*
150073 CATCATTATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTTCTTTGATGGTGCTTGACCATGG
196 CATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTTCTTTGATGGTGCTTGACCATGG
*
150138 TTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCATCTAAGGAAAGGGTGTTGGGATC
261 TTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCATCCAAGGAAAGGGTGTTGGGATC
* * ***
150203 CTTGGATTCTTCAATAACCATAGCCTTCTTCTTTGG
326 CTTGGATTCTTCAATAACCATAACTTTCTTCTCAAG
*
150239 TTTCTTTGGACATTCAAACTTGTCATGTCCTGGTTTCTTGCATCGATAGCATATGACTTGCTCGT
1 --TCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCGATAGCATATGACTTGCTCGT
*
150304 TGTTGCTTAACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCTTTGCTTTGTTCATTTTTAAG
64 TGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCTTTGCTTTGTTCATTTTTAAG
*
150369 AACTTTTTAAATCTTCTTGCAAGCATATCCATTTTTTTCATTTTCATCAACCTCTTGATCATCTT
129 AACTTTTTAAATCTTCTTGCAAGCATATCCA-TTTCTTCATTTTCATCAACCTCTTGATCATCTT
150434 CATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTTCTTTGATGGTGCTTGACCA
193 CATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTTCTTTGATGGTGCTTGACCA
150499 TGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCATCCAAGGAAAGGGTGTTGGG
258 TGGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCATCCAAGGAAAGGGTGTTGGG
* * * ***
150564 ATCCTTGGATTCTTCAATAACCATAGCCTTATTCTTTGG
323 ATCCTTGGATTCTTCAATAACCATAACTTTCTTCTCAAG
150603 TTTCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCGATAGCATATGACTTGCTCGT
1 --TCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCGATAGCATATGACTTGCTCGT
150668 TGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCTTTGCTTTGTTCATTTTTAAG
64 TGTTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCTTTGCTTTGTTCATTTTTAAG
*
150733 AACTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCATCAATCTCTTGATCATCTTC
129 AACTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCATCAACCTCTTGATCATCTTC
150798 ATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTTCTTTGATGGTGCTTGACCAT
194 ATCATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTTCTTTGATGGTGCTTGACCAT
150863 GGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCATCCAAGGAAAGGGTGTTGGGA
259 GGTTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCATCCAAGGAAAGGGTGTTGGGA
* * *
150928 TCCTTGGATTCTTCAATAGCCGTAACTTTGGCTTCCCAAG
324 TCCTTGGATTCTTCAATAACCATAACTTT--CTTCTCAAG
*
150968 ACTTTGGA
1 TCTTTGGA
150976 AGGCTATTGA
Statistics
Matches: 712, Mismatches: 20, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
363 351 0.49
364 357 0.50
365 4 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.41
Consensus pattern (361 bp):
TCTTTGGACATTCAAACTTGACATGTCCTGGTTTCTTGCATCGATAGCATATGACTTGCTCGTTG
TTGCTTGACTCTCCTTTCAACATTTCTCTCCTAGGAGGTCTCTTTGCTTTGTTCATTTTTAAGAA
CTTTTTAAATCTTCTTGCAAGCATATCCATTTCTTCATTTTCATCAACCTCTTGATCATCTTCAT
CATCATCATCTTGAACGGTTGATTTGAAGGCGATTCCAATCTTCTTTGATGGTGCTTGACCATGG
TTGATTTTCATCTCATAGGTTAATAGAGATCCTATGAGTTCATCCAAGGAAAGGGTGTTGGGATC
CTTGGATTCTTCAATAACCATAACTTTCTTCTCAAG
Found at i:152504 original size:17 final size:17
Alignment explanation
Indices: 152466--152514 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
152456 TGAACAGTAT
152466 TAAATAGTGAT--AC-G
1 TAAATAGTGATAAACAG
* *
152480 TGAATAGTTATAAACAG
1 TAAATAGTGATAAACAG
*
152497 TAAATAGTGATGAACAG
1 TAAATAGTGATAAACAG
152514 T
1 T
152515 GATATATCGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.33
16 2 0.07
17 16 0.59
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (17 bp):
TAAATAGTGATAAACAG
Found at i:152841 original size:23 final size:22
Alignment explanation
Indices: 152815--152868 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
152805 TTTATTCCTG
*
152815 TCATATTTTAAGTTGTGTTTTTT
1 TCATATTAT-AGTTGTGTTTTTT
* *
152838 TCATGTTATATTTGTGTTTTTT
1 TCATATTATAGTTGTGTTTTTT
*
152860 T-GTATTATA
1 TCATATTATA
152869 TATAATAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 6 0.23
22 13 0.50
23 7 0.27
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.65
Consensus pattern (22 bp):
TCATATTATAGTTGTGTTTTTT
Found at i:152867 original size:21 final size:22
Alignment explanation
Indices: 152827--152869 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
152817 ATATTTTAAG
*
152827 TTGTGTTTTTTTCATGTTATAT
1 TTGTGTTTTTTTCATATTATAT
*
152849 TTGTGTTTTTTT-GTATTATAT
1 TTGTGTTTTTTTCATATTATAT
152870 ATAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (22 bp):
TTGTGTTTTTTTCATATTATAT
Found at i:152948 original size:23 final size:23
Alignment explanation
Indices: 152922--152965 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
152912 GGTCATATTA
152922 TTTTTT-TATCATTTTTATTTTAT
1 TTTTTTATATCA-TTTTATTTTAT
*
152945 TTTTTTATATTATTTTATTTT
1 TTTTTTATATCATTTTATTTT
152966 TTAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTATATCATTTTATTTTAT
Found at i:152977 original size:19 final size:18
Alignment explanation
Indices: 152937--152978 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
152927 TTATCATTTT
* *
152937 TATTTTATTTTTTTATAT
1 TATTTTATTTTTTAATAA
152955 TATTTTATTTTTTAAATAA
1 TATTTTATTTTTT-AATAA
152974 TATTT
1 TATTT
152979 CAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTATTTTTTAATAA
Found at i:153009 original size:25 final size:23
Alignment explanation
Indices: 152959--153010 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
152949 TTATATTATT
*
152959 TTATTTTTTAAATAATATTTCAA
1 TTATTTTTTAAATAATATATCAA
* *
152982 TTATTTTTTATATCATATAATCATA
1 TTATTTTTTAAATAATAT-ATCA-A
153007 TTAT
1 TTAT
153011 ATTTAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.67
24 3 0.12
25 5 0.21
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATTTTTTAAATAATATATCAA
Found at i:154280 original size:22 final size:22
Alignment explanation
Indices: 154255--154299 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
154245 ATGACATAGT
154255 TAATTTAGCTATGAAAATATTG
1 TAATTTAGCTATGAAAATATTG
154277 TAATTTAGCTATGAAAATATTG
1 TAATTTAGCTATGAAAATATTG
154299 T
1 T
154300 TGTATTGTAA
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:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (22 bp):
TAATTTAGCTATGAAAATATTG
Found at i:154631 original size:26 final size:24
Alignment explanation
Indices: 154592--154651 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
154582 ATATTTTTAG
154592 ATAT-TTTTTAAAATATTCATATCAA
1 ATATATTTTTAAAATA-TCATA-CAA
* *
154617 ATATATTTTTCAAATATGATACAA
1 ATATATTTTTAAAATATCATACAA
154641 ATATAATTTTT
1 ATAT-ATTTTT
154652 TAATAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 7 0.23
25 14 0.45
26 10 0.32
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (24 bp):
ATATATTTTTAAAATATCATACAA
Found at i:154652 original size:26 final size:27
Alignment explanation
Indices: 154592--154654 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
154582 ATATTTTTAG
154592 ATATTTTTTAAAATATTCATATCAAAT
1 ATATTTTTTAAAATATTCATATCAAAT
* *
154619 ATA-TTTTTCAAATA-TGATA-CAAAT
1 ATATTTTTTAAAATATTCATATCAAAT
154643 ATAATTTTTTAA
1 AT-ATTTTTTAA
154655 TAATTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 7 0.23
25 5 0.16
26 16 0.52
27 3 0.10
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATTTTTTAAAATATTCATATCAAAT
Found at i:155707 original size:2 final size:2
Alignment explanation
Indices: 155700--155740 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
155690 CTTCTAGTTG
155700 AT AT AT AT AT -T GAT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
155741 CACACAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.95
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:156118 original size:2 final size:2
Alignment explanation
Indices: 156111--156141 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
156101 TCACTTCTTC
156111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
156142 GTAAATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.