Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold458
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: 516756
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 3
Found at i:15544 original size:1 final size:1
Alignment explanation
Indices: 15538--15604 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
15528 CATTCTCTTT
* ** * * * * *
15538 AAAAAAAAAACAAAAGCAAAAAAAAAAAAACAAAAACAAAAACAAAAAACAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15603 AA
1 AA
15605 GAGAGAAAAG
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:15559 original size:7 final size:7
Alignment explanation
Indices: 15538--15604 Score: 81
Period size: 7 Copynumber: 10.3 Consensus size: 7
15528 CATTCTCTTT
15538 AAAA-AA
1 AAAACAA
15544 AAAAC-A
1 AAAACAA
*
15550 AAAGCAA
1 AAAACAA
*
15557 AAAAAAA
1 AAAACAA
15564 AAAAC-A
1 AAAACAA
15570 AAAAC-A
1 AAAACAA
15576 AAAACAA
1 AAAACAA
15583 AAAACAA
1 AAAACAA
15590 AAAACAA
1 AAAACAA
15597 AAAA-AA
1 AAAACAA
15603 AA
1 AA
15605 GAGAGAAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
6 25 0.46
7 29 0.54
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:15563 original size:20 final size:19
Alignment explanation
Indices: 15538--15604 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 19
15528 CATTCTCTTT
15538 AAAAAAAAAACAAAAGCAAA
1 AAAAAAAAAACAAAA-CAAA
15558 AAAAAAAAAACAAAAACAAA
1 AAAAAAAAAAC-AAAACAAA
15578 AACAAAAAACAA-AAAACAAA
1 AA-AAAAAA-AACAAAACAAA
15598 AAAAAAA
1 AAAAAAA
15605 GAGAGAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.11
20 27 0.61
21 10 0.23
22 2 0.05
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAACAAAACAAA
Found at i:15567 original size:26 final size:27
Alignment explanation
Indices: 15539--15605 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
15529 ATTCTCTTTA
15539 AAAAAAAAACAAAAGCAAAAAA-AAAA
1 AAAAAAAAACAAAAGCAAAAAACAAAA
* *
15565 AAACAAAAACAAAAACAAAAAACAAAA
1 AAAAAAAAACAAAAGCAAAAAACAAAA
*
15592 AACAAAAAA-AAAAG
1 AAAAAAAAACAAAAG
15606 AGAGAAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 24 0.69
27 11 0.31
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (27 bp):
AAAAAAAAACAAAAGCAAAAAACAAAA
Found at i:16748 original size:55 final size:54
Alignment explanation
Indices: 16689--17734 Score: 1072
Period size: 55 Copynumber: 18.5 Consensus size: 54
16679 TTCACCCTTT
**
16689 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
** * *
16744 AGTCCTCAAAGAATAGGACGCCTTCCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * *
16799 AGTCCTCAAATAGTAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* *
16854 AGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGTTGCTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
*
16909 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAACGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTT-C
* * * *
16970 AGTCCTCAAAGAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATG-C----C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * * * ** *
17031 AGTCC-CTAAAGAGCAGAACGCCTTTCAAAGCCCATACGAGTTGGTGGCACCCTCC
1 AGTCCTC-AAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * **
17086 AGTCCTCAAGGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGATGCC--TTTC----AAAGCCCACACAAGTTGGTGGCA-TTTTC
* *
17147 AGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACATAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTT-C
* * * * * * **
17202 AGTCCTTAAAGAGTAGGACGTCTTTCAAAGCCCATACAAGTCGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* **
17256 TAGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
1 -AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
*
17312 AGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTC
* *
17366 TAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCTCACACAAGTTGGTGGCATTTTCC
1 -AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-C
* * * **
17422 AGTCCTCAAAGAGCAGGACGCCTTTCGAAGCCCACACAAGTCGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
*
17476 TAGTCCTCAAAGACCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 -AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-C
* * * *
17532 AGTCCTTAAAGAGCAGGACGCCTTTCAAAGCCCATATAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-C
* * *
17587 AGTCCTCAAAAAGCAGGATGCTTTCTCTTTCCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATG----C-CTTT-CAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * *
17648 AGTCCTCAAAGAGCAGGACACCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGG--A---TGCC-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
17709 AGTCCTCAAAGAGCAGGATGCACTTT
1 AGTCCTCAAAGAGCAGGATGC-CTTT
17735 ATTTTTCTCT
Statistics
Matches: 851, Mismatches: 98, Indels: 83
0.82 0.09 0.08
Matches are distributed among these distances:
54 11 0.01
55 575 0.68
56 12 0.01
57 5 0.01
59 3 0.00
60 13 0.02
61 220 0.26
62 10 0.01
63 1 0.00
66 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
Found at i:16750 original size:94 final size:97
Alignment explanation
Indices: 16586--16764 Score: 267
Period size: 94 Copynumber: 1.8 Consensus size: 97
16576 CCTTTCACTT
*
16586 TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTCC---TAAAGCCCACACAAGTTGGTGGCACCTTCTA
*
16651 GTCCTCAAAGAGCAGGACGCTCTCTCCGTTCACCC
63 GTCCTCAAAGAACAGGACGCTCTCTCCGTTCACCC
16686 TTTAGTCCTCAAAGAGCAGGATGCC-TTT-C-AAAGCCCACACAAGTTGGTGGCACCCTTC-AGT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTAAAGCCCACACAAGTTGGTGGCA-CCTTCTAGT
*
16747 CCTCAAAGAATAGGACGC
65 CCTCAAAGAACAGGACGC
16765 CTTCCAAAGC
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
94 42 0.56
95 5 0.07
98 1 0.01
99 3 0.04
100 24 0.32
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (97 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
CTCAAAGAACAGGACGCTCTCTCCGTTCACCC
Found at i:16851 original size:27 final size:27
Alignment explanation
Indices: 16770--16851 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
16760 GACGCCTTCC
16770 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
** * * * * *
16797 TCAGTCCTCAAATAGTAGGAT-GCCTTTT
1 AAAGCCCACACA-AGTTGG-TGGCATTTT
16825 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
16852 TCAGTCCTCA
Statistics
Matches: 38, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
26 1 0.03
27 18 0.47
28 18 0.47
29 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (27 bp):
AAAGCCCACACAAGTTGGTGGCATTTT
Found at i:18557 original size:13 final size:13
Alignment explanation
Indices: 18539--18563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18529 ACATAAGTGC
18539 TGTATCGATACAA
1 TGTATCGATACAA
18552 TGTATCGATACA
1 TGTATCGATACA
18564 TAAGTTTTGC
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:18559 original size:32 final size:32
Alignment explanation
Indices: 18518--18590 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
18508 ACAAACGGTA
*
18518 AATGTATCGATACATAAGTGCTGTATCGATAC
1 AATGTATCGATACATAAGTGCTGCATCGATAC
** *
18550 AATGTATCGATACATAAGTTTTGCATTGATAC
1 AATGTATCGATACATAAGTGCTGCATCGATAC
18582 AATGTATCG
1 AATGTATCG
18591 CTAGAAAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGCTGCATCGATAC
Found at i:20085 original size:33 final size:33
Alignment explanation
Indices: 20043--20107 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
20033 AAAATTTCCA
***
20043 AATGTATCGATACAAAGATCCATGTATCGATAT
1 AATGTATCGATACAAAGAAAAATGTATCGATAT
*
20076 AATGTATCGATACACAGAAAAATGTATCGATA
1 AATGTATCGATACAAAGAAAAATGTATCGATA
20108 CATTTCCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAT
Found at i:20169 original size:13 final size:13
Alignment explanation
Indices: 20151--20207 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
20141 ACAGCACTTA
20151 TGTATCGATACAT
1 TGTATCGATACAT
20164 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
20182 ATGTATCGATACAT
1 -TGTATCGATACAT
20196 TGTATCGATACA
1 TGTATCGATACA
20208 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:20173 original size:32 final size:32
Alignment explanation
Indices: 20132--20226 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
20122 TAGCTAATTA
*
20132 TGTATCGATACAGCACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
20164 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
20196 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
20227 AAACTTATGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:20247 original size:19 final size:19
Alignment explanation
Indices: 20129--20246 Score: 134
Period size: 19 Copynumber: 6.8 Consensus size: 19
20119 CAGTAGCTAA
*
20129 TTATGTATCGATACAGCAC
1 TTATGTATCGATACAACAC
20148 TTATGTATCGAT---ACA-
1 TTATGTATCGATACAACAC
20163 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAACAC
20180 TTATGTATCGAT---ACA-
1 TTATGTATCGATACAACAC
20195 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAACAC
*
20212 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAACAC
20231 TTATGTATCGATACAA
1 TTATGTATCGATACAA
20247 ACTGTTGAAT
Statistics
Matches: 85, Mismatches: 2, Indels: 24
0.77 0.02 0.22
Matches are distributed among these distances:
13 18 0.21
14 2 0.02
16 11 0.13
18 2 0.02
19 52 0.61
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (19 bp):
TTATGTATCGATACAACAC
Found at i:20309 original size:21 final size:21
Alignment explanation
Indices: 20283--20332 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
20273 GTTGGGACCC
20283 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
20304 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
20325 TGTATCGA
1 TGTATCGA
20333 AACAGTTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:27688 original size:13 final size:13
Alignment explanation
Indices: 27670--27698 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27660 ACAACATTCC
27670 TTGTATCGATACA
1 TTGTATCGATACA
27683 TTGTATCGATACA
1 TTGTATCGATACA
27696 TTG
1 TTG
27699 AGTACTATTT
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:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:27862 original size:20 final size:22
Alignment explanation
Indices: 27818--27864 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
27808 AATTTTCCAC
27818 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCACTTTTTCAC-TCA
27840 AAATCTTTCA-TTTTTCA-TCA
1 AAATCTTTCACTTTTTCACTCA
27860 AAATC
1 AAATC
27865 ATCAACAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATCTTTCACTTTTTCACTCA
Found at i:30253 original size:13 final size:13
Alignment explanation
Indices: 30235--30261 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30225 ACATCTTACT
30235 TTGTATCGATACA
1 TTGTATCGATACA
30248 TTGTATCGATACA
1 TTGTATCGATACA
30261 T
1 T
30262 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:30258 original size:33 final size:32
Alignment explanation
Indices: 30216--30280 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
30206 CACACCCAGA
*
30216 TGTATCGATACATCTTACTTTGTATCGATACAT
1 TGTATCGATACATCTT-CATTGTATCGATACAT
*
30249 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATCTTCATTGTATCGATACAT
30281 GTTCATTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATCTTCATTGTATCGATACAT
Found at i:30270 original size:19 final size:19
Alignment explanation
Indices: 30246--30320 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
30236 TGTATCGATA
30246 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
30265 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
**
30284 CATTGTATCGATACATGGA
1 CATTGTATCGATACATGTT
30303 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
30321 AAACTGGCAG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
19 37 0.70
20 16 0.30
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:30394 original size:33 final size:33
Alignment explanation
Indices: 30349--30411 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
30339 CTATCACTAT
* *
30349 TTGTATCGATACATGATA-TAATGTATCGATCCA
1 TTGTATCAATACATG-TAGAAATGTATCGATCCA
30382 TTGTATCAATACATGTAGAAATGTATCGAT
1 TTGTATCAATACATGTAGAAATGTATCGAT
30412 ACATAGCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
TTGTATCAATACATGTAGAAATGTATCGATCCA
Found at i:31439 original size:27 final size:27
Alignment explanation
Indices: 31390--32470 Score: 1295
Period size: 27 Copynumber: 39.4 Consensus size: 27
31380 CCACGATTTA
*
31390 GTGGCAGCCCTTTTTAAGTCCACAATTCC
1 GTGGCA-CCC-TTTTAAGTCCACAACTCC
* *
31419 GTGACACCCTTTTAAGCCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * *
31446 GTGGCAACCATTTAAGTCTACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * * *
31473 GTGGTAACCTTTTAAGTCTATAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31500 GTGACACCCTTTTAAGTCCACAACTCT
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31527 GTGGCAACCTTTTAAGTTCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31554 GTGGCAACCTTTTAAGTGCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
*
31581 GTGGCACCCTTTTAAGCCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31608 GTGGTAACCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
*
31635 GTGGCACCCTTTTAAGCCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31662 GTGGTAACCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
*
31689 GTGGCACCCTTTTAAGCCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31716 GTGGCAACCTTTTCAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31743 GTGGCACCCTTTTGAGTCCACAACTAC
1 GTGGCACCCTTTTAAGTCCACAACTCC
*
31770 GTGGTAACCC-TTTAAGTCCACAACTCC
1 GTGG-CACCCTTTTAAGTCCACAACTCC
* * *
31797 TTGGCACCCTCTTTTATGCCCACAACTCC
1 GTGGCA-CC-CTTTTAAGTCCACAACTCC
*
31826 GTGGCGA-CCTTTTAAGTCCACAACTCT
1 GTGGC-ACCCTTTTAAGTCCACAACTCC
* * * **
31853 GTGGTAACCTTTTAAGTCTACAACTTT
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31880 GTGGCAACCTTTTAAATCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * *
31907 GTAGCAACATTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
*
31935 GTGGCAACCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
31962 ATGCCACCCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * *
31989 ATGGCACCCTTTTAAGTCCAAAACTCT
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
32016 GTGGCACCCTTTTAAAGTTCACAACTTC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
32044 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
*
32072 ATGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
* *
32100 ATGGCACCCCTTTTTAAGCCCACAACTCC
1 GTGGCA-CCC-TTTTAAGTCCACAACTCC
32129 GTGGCGA-CCTTTTAAGTCCACAACTCC
1 GTGGC-ACCCTTTTAAGTCCACAACTCC
* ** *
32156 GTGGTAAACTTTTAAGTCCACAACTTC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * * *
32183 GTGGTAACCTTTTAAATCCATAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
*
32210 GTGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
*
32237 GTGGCAACCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
* * * *
32265 GTGGTAACCTTTTAAAGTCCATAACTTC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
*
32293 GTGGCACCCTTTTAAGTCCACAACTCT
1 GTGGCACCCTTTTAAGTCCACAACTCC
32320 GTGGCACCCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
32347 GTGGCACCCTTTTAAAGTCCATAACTCT
1 GTGGCACCCTTTT-AAGTCCACAACTCC
*
32375 GTGGTACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
* *
32403 GTGACATCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
* *
32431 ATCGCACCCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
32458 GTGGCAACCCTTT
1 GTGGC-ACCCTTT
32471 CAAAGCCCAC
Statistics
Matches: 918, Mismatches: 119, Indels: 31
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.00
27 633 0.69
28 232 0.25
29 44 0.05
30 6 0.01
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (27 bp):
GTGGCACCCTTTTAAGTCCACAACTCC
Found at i:32569 original size:29 final size:28
Alignment explanation
Indices: 32210--33225 Score: 760
Period size: 28 Copynumber: 35.2 Consensus size: 28
32200 CCATAACTCC
* * * *
32210 GTGGCATCCTTT-TAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
32237 GTGGCAACCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * *
32265 GTGGTAACCTTTTAAAGTCCATAACTTC-
1 GTGGCATCCTTTCAAAGCCCACAA-GTCA
* * * * *
32293 GTGGCACCCTTT-TAAGTCCACAACTCT
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
32320 GTGGCACCCTTT-TAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * *
32347 GTGGCACCCTTTTAAAGTCCATAACTCT
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * *
32375 GTGGTACCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
32403 GTGACATCCTTTTAAAGTCCACAACTCCA
1 GTGGCATCCTTTCAAAGCCCACAAGT-CA
* * * * * *
32432 -TCGCACCCTTT-TAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
32458 GTGGCAACCCTTTCAAAGCCCACAAGTCA
1 GTGGC-ATCCTTTCAAAGCCCACAAGTCA
*
32487 GTGGCAT-CTCTTCAAAGGACCACAAGTCA
1 GTGGCATCCT-TTCAAA-GCCCACAAGTCA
*
32516 ATGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
**
32544 GTGGCATCCCTTTTTAAGCCCACAAGTCA
1 GTGGCAT-CCTTTCAAAGCCCACAAGTCA
* * **
32573 GTGGCATCATTTCAAAGCCCACACAAATTG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* * *
32603 GTGGCAACTCATTTGAAAAAGCCCACATAAGTCG
1 GTGGC-A-TCCTTT--CAAAGCCCAC--AAGTCA
*
32637 GTGGCAACCCATTTCAAAGCCCACACAAGTCA
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* * *
32669 GTGGCAACTCATTTGAAAGCCCACACAAGTCG
1 GTGGC-A-TCCTTTCAAAG-CC-CACAAGTCA
* *
32701 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* *
32733 GTGGCAACCCATTTCAAAGCCCAAAAGTCA
1 GTGGC-ATCC-TTTCAAAGCCCACAAGTCA
32763 GTGGCATCCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* *
32792 GTGGCATCCTTCTTAAAGCCCACAAGTAA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* * *
32821 GTGGCTTCATTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCA
*
32852 GTGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
32880 ATGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
32908 GTGGTATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
32936 GTAGCATCCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
*
32965 GTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCA
*
32996 GTGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
33024 GTGGCAACCTTTCAAAGCCCACACAAGTCA
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* *
33054 GTGGTATCCTTTCAAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
33082 GTGGCATCCTTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
33110 GTGGCGTCCTTTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* *
33140 GTGG----C-TTCAAAACCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
33163 GTGGCATCCTTTCAAAGCTCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
33191 GTAGCATCCTTTCAAAGCCCACACAAGTCA
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
33221 GTGGC
1 GTGGC
33226 TTCAAAGCCC
Statistics
Matches: 843, Mismatches: 104, Indels: 81
0.82 0.10 0.08
Matches are distributed among these distances:
23 11 0.01
24 2 0.00
25 6 0.01
26 4 0.00
27 76 0.09
28 325 0.39
29 176 0.21
30 88 0.10
31 38 0.05
32 90 0.11
33 6 0.01
34 21 0.02
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.23
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:32642 original size:64 final size:63
Alignment explanation
Indices: 32458--33144 Score: 386
Period size: 58 Copynumber: 11.6 Consensus size: 63
32448 CCACAACTCC
* * * *
32458 GTGGCAACCC-TTTCAAAG-CC-CACAAGTCAGTGGCATCTC--TTCAAAGGACCAC-AAGTCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAA-GCCCACAAAGTCA
* * * * * **
32516 ATGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGGCATC-CCTTTTTAAGCCCAC-AAGTCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACAAAGTCA
* * *
32573 GTGGC-A-TCATTTCAAAGCCCACACAAATTGGTGGCAACTCATTTGAAAAAGCCCACATAAGTC
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTG--AAAGCCCACA-AAGTC
*
32636 G
63 A
* *
32637 GTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACA-AAGTCA
* *
32701 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA-AAAGTCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACAAAGTCA
* * * * *
32763 GTGGC-ATCC-TTCTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTCTTAAAGCCCAC-AAGTAA
1 GTGGCAACCCATT-TCAAAGCCCACACAAGTCGGTGGCAACTCATT-TGAAAGCCCACAAAGTCA
** * * * *
32821 GTGGC--TTCATTCTCAAAGCCCACACAAATCAGTGGC-A-TCTTTTCAAAGCCCAC-AAGTCA
1 GTGGCAACCCATT-TCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACAAAGTCA
* * * * * *
32880 ATGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGG-TA-TCCTTTCAAAGCCCAC-AAGTCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACAAAGTCA
* * * * * *
32936 GTAGC-ATCC-TTCTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTCTCAAAGCCCACACAAATC
1 GTGGCAACCCATT-TCAAAGCCCACACAAGTCGGTGGCAACTCATT-TGAAAGCCCACA-AAGTC
32995 A
63 A
* * * *
32996 GTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGCAAC-C-TTTCAAAGCCCACACAAGTCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACA-AAGTCA
* * ** * * *
33054 GTGG-TATCC-TTTCAAAG-CC-CACAAGTTAGTGGC-A-TCCTTTCAAAGCCCA-TAAGTCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACAAAGTCA
**
33110 GTGGC-GTCC-TTTCAAAGCCCACACAAGTCGGTGGC
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC
33145 TTCAAAACCC
Statistics
Matches: 543, Mismatches: 51, Indels: 70
0.82 0.08 0.11
Matches are distributed among these distances:
56 66 0.12
57 92 0.17
58 126 0.23
59 75 0.14
60 42 0.08
61 9 0.02
62 18 0.03
63 1 0.00
64 78 0.14
65 1 0.00
66 35 0.06
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (63 bp):
GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACAAAGTCA
Found at i:32947 original size:144 final size:143
Alignment explanation
Indices: 32448--33225 Score: 806
Period size: 144 Copynumber: 5.3 Consensus size: 143
32438 CCTTTTAAGT
* * * *
32448 CCACAACTCCGTGGCAACCCTTTCAAAGCCCACAAGTCAGTGGCAT-C-TCTTCAAAGGACCACA
1 CCACAAGTCAGTGGC-ATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTC-TCAAA-GCCCACA
* *
32511 AGTCAATGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGCATCCCTTTT-TAAGCCCACAAGTCA
63 AGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAT--CTTTTCAAAGCCCACAAGTCA
*
32573 GTGGCATCATTTCAAAGCC
126 GTGGCATCCTTTCAAAG-C
* ** * * * *
32592 CACACAAATTGGTGGCAACTCATTTGAAAAAGCCCACATAAGTCGGTGGCAACCCATT-TCAAAG
1 C-CACAAGTCAGTGGC-A-TCCTTT--CAAAGCCCAC--AAGTCAGTGGC-ATCC-TTCTCAAAG
* * * * *
32656 CCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
57 -CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACACAAGTCAGTGGC-A-TCTTTTCAAAG-
* *
32721 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
115 CC-CACAAGTCAGTGGC-ATCC-TTTCAAAGC
* *
32753 CCAAAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTTAAAGCCCACAAG
1 CCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAG
* * * * *
32818 TAAGTGGCTTCATTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCCACAAGTCAATG
65 TCAGTGGCATCCTT-TCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTG
32883 GCATCCTTTCAAAGC
129 GCATCCTTTCAAAGC
* *
32898 CCACAAGTCAGTGGTATCCTTTCAAAGCCCACAAGTCAGTAGCATCCTTCTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGT
*
32963 CAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
66 CAGTGGCATCCTT-TCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
*
33028 CAACCTTTCAAAGCC
130 CATCCTTTCAAAG-C
* * *
33043 CACACAAGTCAGTGGTATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAAGCCCATAAG
1 C-CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAG
* * * *
33107 TCAGTGGCGTCCTTTCAAAGCCCACACAAGTCGGTGG---C--TTCAAAACCCACAAGTTAGTGG
65 TCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
33167 CATCCTTTCAAAGC
130 CATCCTTTCAAAGC
* * *
33181 TCATAAGTCAGTAGCATCCTTTCAAAGCCCACACAAGTCAGTGGC
1 CCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGC
33226 TTCAAAGCCC
Statistics
Matches: 543, Mismatches: 61, Indels: 65
0.81 0.09 0.10
Matches are distributed among these distances:
137 23 0.04
138 3 0.01
139 45 0.08
141 1 0.00
144 137 0.25
145 69 0.13
146 53 0.10
147 12 0.02
148 11 0.02
149 9 0.02
150 16 0.03
151 23 0.04
152 20 0.04
153 17 0.03
154 10 0.02
155 19 0.03
156 2 0.00
157 26 0.05
158 8 0.01
159 4 0.01
160 23 0.04
161 4 0.01
162 8 0.01
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (143 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGT
CAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGC
ATCCTTTCAAAGC
Found at i:33201 original size:81 final size:83
Alignment explanation
Indices: 32466--33256 Score: 600
Period size: 86 Copynumber: 9.1 Consensus size: 83
32456 CCGTGGCAAC
* ** *
32466 CCTTTCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAGGAC-CACAAGTCAATGGCATCCTTTC
1 CCTTTCAAAGCCCACAAGTCAGTAGCATCCT-TTCAAAGCCCACACAAGTCAGTGG---CCTTTC
*
32529 AAAGCCCACAAGTCAGTGGCAT
62 AAAGCCCACAAGTTAGTGGCAT
** * * * **
32551 CCCTTTTTAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAATTGGTGGCAACTCATT
1 -CCTTTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCACACAAGTCAGTGG---C-C-TT
* ** *
32616 TGAAAAAGCCCACATAAGTCGGTGGCAAC
60 T--CAAAGCCCAC--AAGTTAGTGGC-AT
* * * *
32645 CCATTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACC
1 CC-TTTCAAAG-CC-CACAAGTCAGTAGC-A-TCCTTTCAAAGCCCACACAAGTCAGTGG----C
** *
32710 CATTTCAAAGCCCACACAAGTCGGTGGCAAC
57 C-TTTCAAAG-CC-CACAAGTTAGTGGC-AT
* *
32741 CCATTTCAAAGCCCAAAAGTCAGTGGCATCCTTCTCAAAG-CC-CACAAGTCAGTGGCATCCTTC
1 CC-TTTCAAAGCCCACAAGTCAGTAGCATCCTT-TCAAAGCCCACACAAGTCAGTGG---CCTT-
* * *
32804 TTAAAGCCCACAAGTAAGTGGCTT
60 TCAAAGCCCACAAGTTAGTGGCAT
* * * * *
32828 CATTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAG-CC-CACAAGTCAATGGCATCCTT
1 CCTT-TCAAAG-CC-CACAAGTCAGTAGCATCCTTTCAAAGCCCACACAAGTCAGTGG---CCTT
* *
32891 TCAAAGCCCACAAGTCAGTGGTAT
60 TCAAAGCCCACAAGTTAGTGGCAT
32915 CCTTTCAAAGCCCACAAGTCAGTAGCATCCTTCTCAAAG-CC-CACAAGTCAGTGGCATCCTTCT
1 CCTTTCAAAGCCCACAAGTCAGTAGCATCCTT-TCAAAGCCCACACAAGTCAGTGG---CCTT-T
* *
32978 CAAAGCCCACACAAATCAGTGGCAT
61 CAAAG-CC-CACAAGTTAGTGGCAT
* * *
33003 CTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACACAAGTCAGTGGTATCCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCACACAAGTCAGTGG---CCTTTCA
33068 AAGCCCACAAGTTAGTGGCAT
63 AAGCCCACAAGTTAGTGGCAT
* * * * *
33089 CCTTTCAAAGCCCATAAGTCAGTGGCGTCCTTTCAAAGCCCACACAAGTCGGTGG-C-TTCAAAA
1 CCTTTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCACACAAGTCAGTGGCCTTTCAAAG
33152 CCCACAAGTTAGTGGCAT
66 CCCACAAGTTAGTGGCAT
* *
33170 CCTTTCAAAGCTCATAAGTCAGTAGCATCCTTTCAAAGCCCACACAAGTCAGTGG-C-TTCAAAG
1 CCTTTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCACACAAGTCAGTGGCCTTTCAAAG
33233 CCCACAAAAGTTAGTGGCA-
66 CCCAC--AAGTTAGTGGCAT
33252 CCTTT
1 CCTTT
33257 TTTTAAAAGC
Statistics
Matches: 610, Mismatches: 65, Indels: 64
0.83 0.09 0.09
Matches are distributed among these distances:
81 87 0.14
82 6 0.01
83 12 0.02
84 17 0.03
85 29 0.05
86 112 0.18
87 53 0.09
88 93 0.15
89 43 0.07
90 8 0.01
91 21 0.03
92 6 0.01
93 18 0.03
94 20 0.03
95 4 0.01
96 43 0.07
97 3 0.00
98 33 0.05
99 2 0.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (83 bp):
CCTTTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCACACAAGTCAGTGGCCTTTCAAAG
CCCACAAGTTAGTGGCAT
Found at i:33235 original size:25 final size:25
Alignment explanation
Indices: 33201--33250 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
33191 GTAGCATCCT
*
33201 TTCAAAGCCCACACAAGTCAGTGGC
1 TTCAAAGCCCACAAAAGTCAGTGGC
*
33226 TTCAAAGCCCACAAAAGTTAGTGGC
1 TTCAAAGCCCACAAAAGTCAGTGGC
33251 ACCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (25 bp):
TTCAAAGCCCACAAAAGTCAGTGGC
Found at i:34162 original size:20 final size:20
Alignment explanation
Indices: 34139--34213 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
34129 AAGTACCAAG
*
34139 ATGTATCTATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
34159 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
34179 ATGTATCGATCCATTCTTCA
1 ATGTATCGATACATTTTTCA
34199 ATGTATCGATACATT
1 ATGTATCGATACATT
34214 CTATCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:41765 original size:21 final size:21
Alignment explanation
Indices: 41715--41756 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
41705 ATTGAAGATT
*
41715 ATAAATAATTATCTTTAAAAA
1 ATAAAAAATTATCTTTAAAAA
*
41736 ATAAAAAATTATTTTTAAAAA
1 ATAAAAAATTATCTTTAAAAA
41757 TTTTAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAAAATTATCTTTAAAAA
Found at i:41871 original size:33 final size:33
Alignment explanation
Indices: 41816--41878 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
41806 AAAAATTTTG
*
41816 AAGATAACATTAATCTCAAATATTATTAAATCA
1 AAGATAACATTAATCTCAAATATAATTAAATCA
* * **
41849 AAGATAACATTCATTTTTAATATAATTAAA
1 AAGATAACATTAATCTCAAATATAATTAAA
41879 ATAAGATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.37
Consensus pattern (33 bp):
AAGATAACATTAATCTCAAATATAATTAAATCA
Found at i:43299 original size:30 final size:30
Alignment explanation
Indices: 43243--43299 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
43233 ATTTTTTTTA
*
43243 AATAAAATATATTATTTTTATTTAATATTT
1 AATAAAATATATTATTTTTATATAATATTT
* *
43273 AATAATATATTTTCATTTTT-TATAATA
1 AATAAAATATATT-ATTTTTATATAATA
43300 AGTTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 17 0.74
31 6 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
AATAAAATATATTATTTTTATATAATATTT
Found at i:43936 original size:13 final size:15
Alignment explanation
Indices: 43918--43963 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
43908 TTTGGTAAAA
43918 TAAAAAATT-AAT-T
1 TAAAAAATTCAATAT
43931 TAAAAAATTCAATAT
1 TAAAAAATTCAATAT
* *
43946 T-AAAATTTTAATAT
1 TAAAAAATTCAATAT
43960 TAAA
1 TAAA
43964 TTCAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 9 0.32
14 15 0.54
15 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAAAATTCAATAT
Found at i:44665 original size:22 final size:24
Alignment explanation
Indices: 44640--44687 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
44630 TGTCGTTTTA
*
44640 ATTTTTGTATAGAT-TA-ATATAT
1 ATTTTTCTATAGATATATATATAT
*
44662 ATTTTTCTATATATATATATATAT
1 ATTTTTCTATAGATATATATATAT
44686 AT
1 AT
44688 ATATTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.55
23 2 0.09
24 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTTTCTATAGATATATATATAT
Found at i:44704 original size:12 final size:13
Alignment explanation
Indices: 44656--44704 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
44646 GTATAGATTA
*
44656 ATATATATTTTTCT
1 ATATATATTATT-T
*
44670 ATATATATATATAT
1 ATATATAT-TATTT
44684 ATATATATTATTT
1 ATATATATTATTT
44697 A-ATATATT
1 ATATATATT
44705 TTAAGAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 7 0.23
13 5 0.16
14 17 0.55
15 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATATATTATTT
Found at i:48502 original size:13 final size:11
Alignment explanation
Indices: 48493--48523 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
48483 GAAGAAAACT
48493 AAAAAAGAAAA
1 AAAAAAGAAAA
48504 AAAAAAGAAAGA
1 AAAAAAGAAA-A
48516 AAAAAAGA
1 AAAAAAGA
48524 GAGAGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:48509 original size:11 final size:12
Alignment explanation
Indices: 48493--48559 Score: 64
Period size: 12 Copynumber: 5.3 Consensus size: 12
48483 GAAGAAAACT
48493 AAAAAAGAAA-A
1 AAAAAAGAAAGA
48504 AAAAAAGAAAGA
1 AAAAAAGAAAGA
*
48516 AAAAAAGAGAGA
1 AAAAAAGAAAGA
* *
48528 GAATAAGAAAGAGA
1 AAAAAAG-AA-AGA
48542 AAGAATAAGAAAGA
1 AA-AA-AAGAAAGA
48556 AAAA
1 AAAA
48560 CAAAACAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
11 10 0.22
12 17 0.38
13 3 0.07
14 9 0.20
15 3 0.07
16 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:48538 original size:16 final size:16
Alignment explanation
Indices: 48496--48555 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 16
48486 GAAAACTAAA
* *
48496 AAAGAA-AAAAAAAAG
1 AAAGAATAAGAAAGAG
48511 AAAGAA-AA-AAAGAG
1 AAAGAATAAGAAAGAG
*
48525 AGAGAATAAGAAAGAG
1 AAAGAATAAGAAAGAG
48541 AAAGAATAAGAAAGA
1 AAAGAATAAGAAAGA
48556 AAAACAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.25
15 10 0.25
16 20 0.50
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (16 bp):
AAAGAATAAGAAAGAG
Found at i:49459 original size:57 final size:57
Alignment explanation
Indices: 49357--49548 Score: 158
Period size: 57 Copynumber: 3.4 Consensus size: 57
49347 TTAGGTGCTA
* * * * *
49357 TTATTTAATTTCATGGATTTTAGCA-CTATTTTAGTTATTTTCCATGACATAAAGA-C-T
1 TTATGTAATTTCATGCA-TTTAG-AGCCATTTTAGTAATTTACCATGACATAAA-ACCAT
* **
49414 TTATGTTATTTCATGCATCTTAGAGCCATTTTAGTAATTTACCATGATTTAAAACCAT
1 TTATGTAATTTCATGCAT-TTAGAGCCATTTTAGTAATTTACCATGACATAAAACCAT
** * * ** * *
49472 TTATGTAATTTCATGCATTTAG-GATTATTCTAGTAATTTGCCATGATTTACAACTAT
1 TTATGTAATTTCATGCATTTAGAG-CCATTTTAGTAATTTACCATGACATAAAACCAT
*
49529 TTATATAATTTCATGCATTT
1 TTATGTAATTTCATGCATTT
49549 TAGGCTCGTT
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
56 4 0.04
57 92 0.81
58 18 0.16
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (57 bp):
TTATGTAATTTCATGCATTTAGAGCCATTTTAGTAATTTACCATGACATAAAACCAT
Found at i:49472 original size:29 final size:28
Alignment explanation
Indices: 49439--49548 Score: 75
Period size: 29 Copynumber: 3.9 Consensus size: 28
49429 CATCTTAGAG
49439 CCATTTTAGTAATTTACCATGATTTAAAA
1 CCATTTTAGTAATTT-CCATGATTTAAAA
**
49468 CCA-TTTATGTAATTT-CATGCATTTAGGA
1 CCATTTTA-GTAATTTCCATG-ATTTAAAA
** * *
49496 TTATTCTAGTAATTTGCCATGATTTACAA
1 CCATTTTAGTAATTT-CCATGATTTAAAA
*
49525 CTATTTATA-TAATTT-CATGCATTT
1 CCATTT-TAGTAATTTCCATG-ATTT
49549 TAGGCTCGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
27 8 0.12
28 22 0.34
29 29 0.45
30 6 0.09
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (28 bp):
CCATTTTAGTAATTTCCATGATTTAAAA
Found at i:51903 original size:24 final size:23
Alignment explanation
Indices: 51860--51908 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
51850 TATTTATGTA
*
51860 TTTATATCGTATTTATATTATATT
1 TTTATATAGTATTTATATTAT-TT
51884 TTTATATAGTATTT-TAATTATTT
1 TTTATATAGTATTTAT-ATTATTT
51907 TT
1 TT
51909 CTAGGCTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTATATAGTATTTATATTATTT
Found at i:52347 original size:18 final size:18
Alignment explanation
Indices: 52324--52370 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
52314 ACATTTATAT
*
52324 TATATAAATTATATAATA
1 TATATAAATTATATAAAA
52342 TATATAAA-TATA-AAAA
1 TATATAAATTATATAAAA
*
52358 TA-ATATATTATAT
1 TATATAAATTATAT
52371 GATTGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 4 0.16
16 9 0.36
17 4 0.16
18 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATAAATTATATAAAA
Found at i:53347 original size:2 final size:2
Alignment explanation
Indices: 53340--53376 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
53330 AAAAAGTAAA
53340 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53377 GAATTTACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:53736 original size:2 final size:2
Alignment explanation
Indices: 53698--53724 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
53688 TGTGTGTGTG
53698 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 T
53725 TGTTTAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54861 original size:2 final size:2
Alignment explanation
Indices: 54854--54885 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
54844 ATTTAATCTA
54854 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
54886 GTGTATATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56493 original size:18 final size:18
Alignment explanation
Indices: 56442--56493 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
56432 GTTTATCTAG
* * *
56442 TAAAAATTATTTTTAATT
1 TAAATATTATTTTAAATA
*
56460 TAAAT-TTAATTATAAATA
1 TAAATATT-ATTTTAAATA
56478 TAAATATTATTTTAAA
1 TAAATATTATTTTAAA
56494 AATACAACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATATTATTTTAAATA
Found at i:57650 original size:22 final size:21
Alignment explanation
Indices: 57614--57671 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
57604 AGAAAATGAC
*
57614 AAAGGGAAAAGGAGAAAGAAGAA
1 AAAGAGAAAA-GAGAAAGAA-AA
57637 AAAGAGAAAAGAGAAAGAAAA
1 AAAGAGAAAAGAGAAAGAAAA
*
57658 AAAGA-AAAATAGAA
1 AAAGAGAAAAGAGAA
57672 CAAAAGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 8 0.24
21 7 0.21
22 9 0.27
23 9 0.27
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (21 bp):
AAAGAGAAAAGAGAAAGAAAA
Found at i:57724 original size:27 final size:28
Alignment explanation
Indices: 57694--57751 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
57684 TTTTTTTGAG
57694 TTTATTCCAAGGTAGTTTCTCTATTT-T
1 TTTATTCCAAGGTAGTTTCTCTATTTAT
* *
57721 TTTATTCCAAGGTGGTTTCTTTATTTAT
1 TTTATTCCAAGGTAGTTTCTCTATTTAT
57749 TTT
1 TTT
57752 TTTTTTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.59
Consensus pattern (28 bp):
TTTATTCCAAGGTAGTTTCTCTATTTAT
Found at i:58769 original size:2 final size:2
Alignment explanation
Indices: 58762--58787 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58752 TGTAAAGCTA
58762 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
58788 GTAATGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58820 original size:6 final size:6
Alignment explanation
Indices: 58809--58843 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
58799 ATATTACACA
*
58809 ATAAAT ATAAAT ATAAAT ATAAAT TTATAAT ATAA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATA-AAT ATAA
58844 TCATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATAAAT
Found at i:58963 original size:24 final size:24
Alignment explanation
Indices: 58935--58994 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
58925 CATATTTAAA
*
58935 TTAATTTTTTTTCAGATTTA-TTTT
1 TTAATTTTTTTT-AGATTCATTTTT
* * *
58959 TTAATATTTTATATATTCATTTTT
1 TTAATTTTTTTTAGATTCATTTTT
*
58983 TTGATTTTTTTT
1 TTAATTTTTTTT
58995 TTCATATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (24 bp):
TTAATTTTTTTTAGATTCATTTTT
Found at i:65802 original size:22 final size:22
Alignment explanation
Indices: 65747--65812 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
65737 AAAATATTTT
65747 TATTTAAAT-TTAATTATAAAAA
1 TATTTAAATATTAA-TATAAAAA
65769 TATATATAAATATTAATATAAAAA
1 TAT-T-TAAATATTAATATAAAAA
* * *
65793 TATTTTAATAATATTATAAA
1 TATTTAAATATTAATATAAA
65813 TAGTAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
22 16 0.42
23 2 0.05
24 16 0.42
25 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTTAAATATTAATATAAAAA
Found at i:66139 original size:2 final size:2
Alignment explanation
Indices: 66132--66168 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
66122 ACCTCACAAA
66132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66169 AATGCAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:66486 original size:19 final size:19
Alignment explanation
Indices: 66458--66497 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
66448 GTTCGATTAT
66458 TTTTAATATTTAAA-AAATA
1 TTTTAATA-TTAAATAAATA
*
66477 TTTTATTATTAAATAAATA
1 TTTTAATATTAAATAAATA
66496 TT
1 TT
66498 AAATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATATTAAATAAATA
Found at i:67883 original size:34 final size:35
Alignment explanation
Indices: 67835--67912 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
67825 ATATATTTAA
* *
67835 ATAAAATTTGATATATTAAT-AATTTAAATTATGT
1 ATAAATTTTAATATATTAATGAATTTAAATTATGT
* *
67869 ATAAATTTTAATATATTTATGTATTTAAATTATGT
1 ATAAATTTTAATATATTAATGAATTTAAATTATGT
67904 -TAAATTTTA
1 ATAAATTTTA
67913 TATTATGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 26 0.67
35 13 0.33
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (35 bp):
ATAAATTTTAATATATTAATGAATTTAAATTATGT
Found at i:67902 original size:35 final size:33
Alignment explanation
Indices: 67856--67928 Score: 103
Period size: 35 Copynumber: 2.2 Consensus size: 33
67846 TATATTAATA
*
67856 ATTTAAATTATGTATAAATTTTA-ATATATTTATGT
1 ATTTAAATTATGT-TAAATTTTATAT-TATGT-TGT
67891 ATTTAAATTATGTTAAATTTTATATTATGTTGT
1 ATTTAAATTATGTTAAATTTTATATTATGTTGT
67924 ATTTA
1 ATTTA
67929 TTTTTCGACG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 8 0.22
34 13 0.36
35 15 0.42
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (33 bp):
ATTTAAATTATGTTAAATTTTATATTATGTTGT
Found at i:67912 original size:17 final size:17
Alignment explanation
Indices: 67857--67921 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
67847 ATATTAATAA
67857 TTTAAATTATGTATAAAT
1 TTTAAATTATGT-TAAAT
**
67875 TTT-AATATAT-TTATGT
1 TTTAAAT-TATGTTAAAT
67891 ATTTAAATTATGTTAAAT
1 -TTTAAATTATGTTAAAT
*
67909 TTTATATTATGTT
1 TTTAAATTATGTT
67922 GTATTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.08
17 22 0.58
18 13 0.34
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTAAATTATGTTAAAT
Found at i:68732 original size:2 final size:2
Alignment explanation
Indices: 68727--68786 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
68717 AACTAATTTC
68727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68769 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
68787 TTGATTAACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70655 original size:19 final size:17
Alignment explanation
Indices: 70614--70653 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
70604 TAATATGAGC
*
70614 ATATGTTTGATATAATT
1 ATATATTTGATATAATT
* *
70631 AAATATTTGATATAAAT
1 ATATATTTGATATAATT
70648 ATATAT
1 ATATAT
70654 ATAATATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
ATATATTTGATATAATT
Found at i:71689 original size:2 final size:2
Alignment explanation
Indices: 71682--71712 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
71672 CTCCATGATC
71682 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
71713 TGTTTGATGG
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
Found at i:71903 original size:14 final size:14
Alignment explanation
Indices: 71879--71911 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
71869 TGTTTTACGA
71879 TTTAAATTTAAAAAT
1 TTTAAATTT-AAAAT
71894 TTTAAA-TTAAAAT
1 TTTAAATTTAAAAT
71907 TTTAA
1 TTTAA
71912 TATATCGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 2 0.11
15 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAATTTAAAAT
Found at i:74747 original size:16 final size:16
Alignment explanation
Indices: 74726--74766 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
74716 GTTTGAGTTT
*
74726 TTTTGGGTTCGGGTTC
1 TTTTGGGTTCAGGTTC
* *
74742 TTTTGGTTTTAGGTTC
1 TTTTGGGTTCAGGTTC
74758 TTTTGGGTT
1 TTTTGGGTT
74767 GACCATTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.02, C:0.07, G:0.32, T:0.59
Consensus pattern (16 bp):
TTTTGGGTTCAGGTTC
Found at i:75832 original size:25 final size:27
Alignment explanation
Indices: 75790--75846 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
75780 AATATTGTCT
* *
75790 TTTTTAATATATATTTAATAGTT-GAA
1 TTTTTAATATAAAATTAATAGTTAGAA
*
75816 TTTTTAA-ATAAAATTAATAGTTAGAT
1 TTTTTAATATAAAATTAATAGTTAGAA
75842 TTTTT
1 TTTTT
75847 TAATTTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (27 bp):
TTTTTAATATAAAATTAATAGTTAGAA
Found at i:75858 original size:26 final size:25
Alignment explanation
Indices: 75789--75858 Score: 59
Period size: 26 Copynumber: 2.7 Consensus size: 25
75779 GAATATTGTC
*
75789 TTTTTTAATATATATTTAATAGTTGAA
1 TTTTTTAAT-T-TAATTAATAGTTGAA
* ** *
75816 TTTTTAAATAAAATTAATAGTTAGAT
1 TTTTTTAATTTAATTAATAGTT-GAA
*
75842 TTTTTTAATTTACTTAA
1 TTTTTTAATTTAATTAA
75859 AACGTATATA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
25 10 0.30
26 15 0.45
27 8 0.24
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (25 bp):
TTTTTTAATTTAATTAATAGTTGAA
Found at i:76769 original size:2 final size:2
Alignment explanation
Indices: 76762--76800 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
76752 TAGTGAAATT
*
76762 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76801 CGAAATTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:77491 original size:29 final size:28
Alignment explanation
Indices: 77422--77492 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
77412 GACCTAGTAA
* *
77422 TTTATATATTTAT-ATTATATTTGTATCT
1 TTTATA-ATTTATAATTATATTTATATAT
**
77450 TTTATCGTATTATAATTATATTTATAATAT
1 TTTATAAT-TTATAATTATATTTAT-ATAT
77480 TTTATAATTTATA
1 TTTATAATTTATA
77493 TAATTTTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.03
28 9 0.26
29 15 0.44
30 9 0.26
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTATAATTTATAATTATATTTATATAT
Found at i:77498 original size:17 final size:16
Alignment explanation
Indices: 77465--77524 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 16
77455 CGTATTATAA
77465 TTATATTTATAATATT
1 TTATATTTATAATATT
77481 TTATAATTTAT-ATAATT
1 TTAT-ATTTATAAT-ATT
77498 TTGATATGTTAATAATTAATT
1 TT-ATAT-TT-ATAA-T-ATT
77519 TTATAT
1 TTATAT
77525 AAATTTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.16
17 13 0.35
18 4 0.11
19 2 0.05
20 5 0.14
21 7 0.19
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATATTTATAATATT
Found at i:83066 original size:2 final size:2
Alignment explanation
Indices: 83059--83094 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
83049 TCCCTACAGA
83059 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
83095 GTAAAGGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85323 original size:29 final size:28
Alignment explanation
Indices: 85290--85349 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
85280 ATTATTAAAA
*
85290 TATATAAAAATCATTTAGTAATAAATTTT
1 TATATAAAAATC-TTTAATAATAAATTTT
* * * *
85319 TATATTAATATCTTTAATAATCATTTTT
1 TATATAAAAATCTTTAATAATAAATTTT
85347 TAT
1 TAT
85350 TCTCATCTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (28 bp):
TATATAAAAATCTTTAATAATAAATTTT
Found at i:85633 original size:10 final size:10
Alignment explanation
Indices: 85618--85664 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
85608 ATTATTTATT
85618 TAATTTTTAA
1 TAATTTTTAA
85628 TAA-TTTT-A
1 TAATTTTTAA
* *
85636 TCATTTTCTAT
1 TAATTTT-TAA
85647 TAATTTTTAA
1 TAATTTTTAA
85657 TAATTTTT
1 TAATTTTT
85665 TGGGAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
8 3 0.10
9 7 0.23
10 14 0.47
11 6 0.20
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:85633 original size:19 final size:18
Alignment explanation
Indices: 85590--85633 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
85580 TATTTAAACT
85590 TAATATTATTAAATTTTTA
1 TAAT-TTATTAAATTTTTA
* *
85609 TTATTTATTTAATTTTTAA
1 TAATTTATTAAATTTTT-A
85628 TAATTT
1 TAATTT
85634 TATCATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTTATTAAATTTTTA
Found at i:89653 original size:22 final size:21
Alignment explanation
Indices: 89628--89675 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
89618 TTAATATCGG
*
89628 ATAAAAATATATATATTTAAAA
1 ATAAAAAAATATA-ATTTAAAA
* *
89650 ATAAAAAAATATAATTTGATA
1 ATAAAAAAATATAATTTAAAA
89671 ATAAA
1 ATAAA
89676 TTGATATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAAAAAATATAATTTAAAA
Found at i:93283 original size:3 final size:3
Alignment explanation
Indices: 93275--93304 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
93265 GTACAGCATA
93275 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93305 GAAAATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:93544 original size:14 final size:14
Alignment explanation
Indices: 93522--93551 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93512 GTTCATGCAG
*
93522 TTATTTTTAATAAA
1 TTATATTTAATAAA
93536 TTATATTTAATAAA
1 TTATATTTAATAAA
93550 TT
1 TT
93552 TAAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATATTTAATAAA
Found at i:94006 original size:31 final size:31
Alignment explanation
Indices: 93971--94031 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
93961 GTTTTTTTCG
93971 AGTTC-GGACCTATTCGAGTTTAAGCCTTTTT
1 AGTTCTGGACCTATTCGAGTTTAAG-CTTTTT
* * *
94002 AGTTCTGGGCCTTTTCGAGTTTGAGCTTTT
1 AGTTCTGGACCTATTCGAGTTTAAGCTTTT
94032 GGGGTTCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.15, C:0.18, G:0.23, T:0.44
Consensus pattern (31 bp):
AGTTCTGGACCTATTCGAGTTTAAGCTTTTT
Found at i:94211 original size:20 final size:19
Alignment explanation
Indices: 94183--94220 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
94173 TTATGTTTAA
94183 TATAATTATTTATTAAAATC
1 TATAATTATTTA-TAAAATC
*
94203 TATATTTATTTATAAAAT
1 TATAATTATTTATAAAAT
94221 TAATTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAATTATTTATAAAATC
Found at i:94236 original size:18 final size:18
Alignment explanation
Indices: 94192--94244 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
94182 ATATAATTAT
94192 TTAT-TAAAATCTATATTTA
1 TTATATAAAAT-TA-ATTTA
*
94211 TT-TATAAAATTAATTTG
1 TTATATAAAATTAATTTA
94228 TTATATAAAATTAATTT
1 TTATATAAAATTAATTT
94245 TTAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 6 0.19
18 17 0.55
19 8 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATATAAAATTAATTTA
Found at i:94361 original size:19 final size:20
Alignment explanation
Indices: 94337--94377 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
94327 ATACCATGTT
94337 TATTTT-TTATATTTTATTA
1 TATTTTATTATATTTTATTA
*
94356 TATTTTAATTATTTTTTATTA
1 TATTTT-ATTATATTTTATTA
94377 T
1 T
94378 GTTTGCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
21 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTATTATATTTTATTA
Found at i:94372 original size:11 final size:10
Alignment explanation
Indices: 94337--94377 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
94327 ATACCATGTT
94337 TATTTT-TTA
1 TATTTTATTA
94346 TATTTTATTA
1 TATTTTATTA
94356 TATTTTAATTA
1 TATTTT-ATTA
*
94367 TTTTTTATTA
1 TATTTTATTA
94377 T
1 T
94378 GTTTGCATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 6 0.21
10 14 0.48
11 9 0.31
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTTATTA
Found at i:95213 original size:22 final size:22
Alignment explanation
Indices: 95160--95203 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
95150 TAAAGCTCAT
95160 GATATAATTTACTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
95182 GATATAATTTACTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
95204 ATTATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
GATATAATTTACTTTTTGATAA
Found at i:101544 original size:2 final size:2
Alignment explanation
Indices: 101537--101566 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
101527 ATTATAAATT
*
101537 TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101567 GACATATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:101571 original size:10 final size:10
Alignment explanation
Indices: 101540--101574 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
101530 ATAAATTTAT
*
101540 ATATATATAT
1 ATATATATAC
101550 ATATATATAC
1 ATATATATAC
*
101560 ATATATAGAC
1 ATATATATAC
101570 ATATA
1 ATATA
101575 GACACACGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (10 bp):
ATATATATAC
Found at i:101971 original size:16 final size:16
Alignment explanation
Indices: 101915--101974 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 16
101905 TAATATTATG
101915 ATATTTTTTATAATTTTA
1 ATATTTTTTATAA--TTA
*
101933 AT-TTTTTTATTATTA
1 ATATTTTTTATAATTA
101948 ATA---TTTATAATTA
1 ATATTTTTTATAATTA
*
101961 ATATTTATTATAAT
1 ATATTTTTTATAAT
101975 AAATTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
13 12 0.34
15 5 0.14
16 7 0.20
17 9 0.26
18 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTTTTTATAATTA
Found at i:102316 original size:2 final size:2
Alignment explanation
Indices: 102304--102335 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
102294 AAATATAAAC
*
102304 AT AT TT 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
102336 TTGCTTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:104630 original size:2 final size:2
Alignment explanation
Indices: 104623--104650 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
104613 AATTTTAAAG
104623 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
104651 TAATTAAGAG
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):
AT
Found at i:105323 original size:30 final size:32
Alignment explanation
Indices: 105267--105330 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
105257 TATATAATGC
*
105267 AAAAATTATGTAAATATATTAAAATTTACATA
1 AAAAATTATGTAAATATATCAAAATTTACATA
* *
105299 AAAAATTAT-T-AATTTATCAAAATTTATATA
1 AAAAATTATGTAAATATATCAAAATTTACATA
105329 AA
1 AA
105331 TATATAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 19 0.66
31 1 0.03
32 9 0.31
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (32 bp):
AAAAATTATGTAAATATATCAAAATTTACATA
Found at i:105412 original size:3 final size:3
Alignment explanation
Indices: 105404--105440 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
105394 TTTCAAATGT
105404 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
105441 GACACGAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:105617 original size:20 final size:19
Alignment explanation
Indices: 105571--105625 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
105561 ATATTTTTAT
*
105571 AATATTGATTTTATATAAC
1 AATATTAATTTTATATAAC
105590 AA-ATTAATTTTATATCTAA-
1 AATATTAATTTTATA--TAAC
105609 AATATTAATTTTA-ATAA
1 AATATTAATTTTATATAA
105626 ATAAATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 3 0.09
18 11 0.34
19 5 0.16
20 13 0.41
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
AATATTAATTTTATATAAC
Found at i:107707 original size:2 final size:2
Alignment explanation
Indices: 107700--107726 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
107690 AAAGATTTAC
107700 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
107727 AATTAATCAA
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:108427 original size:22 final size:21
Alignment explanation
Indices: 108397--108438 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
108387 ACTTATCGAA
*
108397 ATTTATATAAATATATAATAT
1 ATTTATATAAATATAAAATAT
*
108418 ATTTAATATAATTATAAAATA
1 ATTT-ATATAAATATAAAATA
108439 AAAAAGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTATATAAATATAAAATAT
Found at i:108551 original size:17 final size:17
Alignment explanation
Indices: 108531--108563 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
108521 CGATATGAAA
108531 ATAA-ATAAAAATATAAT
1 ATAATATAAAAA-ATAAT
108548 ATAATATAAAAAATAA
1 ATAATATAAAAAATAA
108564 GCATGACACG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAATATAAAAAATAAT
Found at i:108688 original size:20 final size:18
Alignment explanation
Indices: 108642--108700 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 18
108632 ATTTTTATAC
108642 AATTGATTTTATATAAAA
1 AATTGATTTTATATAAAA
* *
108660 AATTAATTTCATATCTAAAA
1 AATTGATTT--TATATAAAA
*
108680 TATTGATTTTA-ATAAAGA
1 AATTGATTTTATATAAA-A
108698 AAT
1 AAT
108701 ATATAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
17 4 0.12
18 13 0.41
20 15 0.47
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
AATTGATTTTATATAAAA
Found at i:112562 original size:21 final size:21
Alignment explanation
Indices: 112538--112580 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
112528 TTAATATGAA
112538 TTTTGCATATATGTGCAAATC
1 TTTTGCATATATGTGCAAATC
112559 TTTTGCATATATGTGCAAATC
1 TTTTGCATATATGTGCAAATC
112580 T
1 T
112581 AACATGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (21 bp):
TTTTGCATATATGTGCAAATC
Found at i:113916 original size:40 final size:41
Alignment explanation
Indices: 113822--113916 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
113812 CTGCATGCAC
*
113822 ATATTTTGCCTTATCAAGATACTTTTTTTTGACCAAATACAA
1 ATATTTTGCCTTATCAAAATAC-TTTTTTTGACCAAATACAA
* * ** *
113864 ATATTCTACCTTATCAAAATAC-TTTTTTGGTCAAGTACAA
1 ATATTTTGCCTTATCAAAATACTTTTTTTGACCAAATACAA
*
113904 ATGTTTTGCCTTA
1 ATATTTTGCCTTA
113917 AAAAGATATG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 25 0.57
42 19 0.43
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (41 bp):
ATATTTTGCCTTATCAAAATACTTTTTTTGACCAAATACAA
Found at i:117640 original size:18 final size:18
Alignment explanation
Indices: 117617--117672 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 18
117607 ATATTTTTAT
117617 ATAATTGATTTTATATAA
1 ATAATTGATTTTATATAA
* *
117635 ATAATTAATTTCATATCTAA
1 ATAATTGATTT--TATATAA
117655 A-ATATTGATTTTA-ATAA
1 ATA-ATTGATTTTATATAA
117672 A
1 A
117673 AAAAATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 4 0.13
18 12 0.39
19 1 0.03
20 14 0.45
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (18 bp):
ATAATTGATTTTATATAA
Found at i:122691 original size:24 final size:25
Alignment explanation
Indices: 122645--122691 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
122635 GTACAAGTTT
*
122645 TTTTTTAAAAAAATTACTTATTTGA
1 TTTTTTAAAAAAATTACTAATTTGA
**
122670 TTTTTTAAATCAATT-CTAATTT
1 TTTTTTAAAAAAATTACTAATTT
122692 TTTTATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTTTTAAAAAAATTACTAATTTGA
Found at i:123795 original size:40 final size:41
Alignment explanation
Indices: 123706--123806 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 41
123696 AGCCCACTAC
* * *
123706 ATGCATATATTTTGCCTTATCAAGATACTTTTTTTTGACCAA
1 ATGCAAATATTATGCCTTATCAAAATAC-TTTTTTTGACCAA
* * **
123748 ATACAAATATTCTGCCTTATCAAAATAC-TTTTTTGGTCAA
1 ATGCAAATATTATGCCTTATCAAAATACTTTTTTTGACCAA
* *
123788 GTGCAAATGTTATGCCTTA
1 ATGCAAATATTATGCCTTA
123807 GAAAGATATG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
40 25 0.51
42 24 0.49
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (41 bp):
ATGCAAATATTATGCCTTATCAAAATACTTTTTTTGACCAA
Found at i:126755 original size:20 final size:18
Alignment explanation
Indices: 126709--126761 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
126699 ATTTTTATAC
126709 AATTGATTTTATATAAAA
1 AATTGATTTTATATAAAA
* *
126727 AATTAATTTCATATCTAAAA
1 AATTGATTT--TATATAAAA
*
126747 GATTGATTTTA-ATAA
1 AATTGATTTTATATAA
126762 GGAAATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
20 15 0.54
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (18 bp):
AATTGATTTTATATAAAA
Found at i:127011 original size:14 final size:14
Alignment explanation
Indices: 126992--127018 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
126982 AAAATTTACT
126992 TAAACATTTCAATA
1 TAAACATTTCAATA
127006 TAAACATTTCAAT
1 TAAACATTTCAAT
127019 TACATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAACATTTCAATA
Found at i:127092 original size:17 final size:17
Alignment explanation
Indices: 127070--127103 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
127060 TAAAACATAC
*
127070 CCAAACCCAAATTCAAA
1 CCAAACCCAAACTCAAA
127087 CCAAACCCAAACTCAAA
1 CCAAACCCAAACTCAAA
127104 AAGGTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.38, G:0.00, T:0.09
Consensus pattern (17 bp):
CCAAACCCAAACTCAAA
Found at i:127939 original size:19 final size:18
Alignment explanation
Indices: 127911--127958 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
127901 TTATTCTTGT
*
127911 AAAATCTAAA-ATGTGAAA
1 AAAATTTAAATATG-GAAA
*
127929 ATAAATTTAAATATGGATA
1 A-AAATTTAAATATGGAAA
127948 AAAATTTAAAT
1 AAAATTTAAAT
127959 TTATAATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 11 0.42
19 12 0.46
20 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (18 bp):
AAAATTTAAATATGGAAA
Found at i:129227 original size:21 final size:21
Alignment explanation
Indices: 129203--129245 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
129193 TTAATATGAA
129203 TTTTGCATATATGTGCAAATC
1 TTTTGCATATATGTGCAAATC
129224 TTTTGCATATATGTGCAAATC
1 TTTTGCATATATGTGCAAATC
129245 T
1 T
129246 AACATGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (21 bp):
TTTTGCATATATGTGCAAATC
Found at i:130581 original size:40 final size:41
Alignment explanation
Indices: 130487--130581 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
130477 CTACATGCAT
*
130487 ATATTTTGCCTTATCAAGATACTTTTTTTTGACCAAATACAA
1 ATATTTTGCCTTATCAAAATAC-TTTTTTTGACCAAATACAA
* * ** *
130529 ATATTCTACCTTATCAAAATAC-TTTTTTGGTCAAGTACAA
1 ATATTTTGCCTTATCAAAATACTTTTTTTGACCAAATACAA
*
130569 ATGTTTTGCCTTA
1 ATATTTTGCCTTA
130582 GAAAGATATG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 25 0.57
42 19 0.43
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (41 bp):
ATATTTTGCCTTATCAAAATACTTTTTTTGACCAAATACAA
Found at i:132205 original size:14 final size:14
Alignment explanation
Indices: 132174--132242 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
132164 TTTAGTATTA
* * *
132174 AATATTATTATATA
1 AATATTAATATTTT
132188 AATATTAATATTTT
1 AATATTAATATTTT
*
132202 AATAATAA-ATTTT
1 AATATTAATATTTT
** *
132215 TTTTTTAATATTTT
1 AATATTAATATTTT
132229 AATAATTAATATTT
1 AAT-ATTAATATTT
132243 AAGATTTTTG
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
13 9 0.21
14 24 0.57
15 9 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:132211 original size:21 final size:21
Alignment explanation
Indices: 132169--132206 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
132159 AATATTTTAG
132169 TATTAAATATTATTATATAAA
1 TATTAAATATTATTATATAAA
132190 TATT-AATATT-TTA-ATAA
1 TATTAAATATTATTATATAA
132207 TAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 3 0.18
20 6 0.35
21 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTAAATATTATTATATAAA
Found at i:132239 original size:15 final size:15
Alignment explanation
Indices: 132191--132242 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
132181 TTATATAAAT
132191 ATTAATATTTTAATA
1 ATTAATATTTTAATA
* *
132206 A-TAA-ATTTT-TTT
1 ATTAATATTTTAATA
*
132218 TTTAATATTTTAATA
1 ATTAATATTTTAATA
132233 ATTAATATTT
1 ATTAATATTT
132243 AAGATTTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
12 1 0.04
13 8 0.29
14 8 0.29
15 11 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTAATATTTTAATA
Found at i:132355 original size:75 final size:75
Alignment explanation
Indices: 132265--132415 Score: 241
Period size: 75 Copynumber: 2.0 Consensus size: 75
132255 TATATTGCTA
*
132265 TGTCAAAATAAATTTTCAAAAAATAACTAAACAACAAG-AAATATTTTTCATTATGTCATCCAAA
1 TGTCAAAATAAATTTTCAAAAAATAACGAAACAA-AAGAAAATATTTTTCATTATGTCATCCAAA
132329 CACAAAAAAAT
65 CACAAAAAAAT
* * *
132340 TGTCAAAATAAATTTTTAAAAAATAACGAAACAATAGAAAATATTTTTCATTATGTCATGCAAAC
1 TGTCAAAATAAATTTTCAAAAAATAACGAAACAAAAGAAAATATTTTTCATTATGTCATCCAAAC
*
132405 ACTAAAAAAT
66 ACAAAAAAAT
132415 T
1 T
132416 CTTACTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 2 0.03
75 68 0.97
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (75 bp):
TGTCAAAATAAATTTTCAAAAAATAACGAAACAAAAGAAAATATTTTTCATTATGTCATCCAAAC
ACAAAAAAAT
Found at i:139387 original size:2 final size:2
Alignment explanation
Indices: 139380--139405 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
139370 AATTTTAAAG
139380 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
139406 TAATCGAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:140359 original size:20 final size:18
Alignment explanation
Indices: 140313--140371 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 18
140303 ATTTTTAGAC
140313 AATTGATTTTATATAAAA
1 AATTGATTTTATATAAAA
* *
140331 AATTAATTTCATATCTAAAA
1 AATTGATTT--TATATAAAA
*
140351 TATTGATTTTA-ATAAAGA
1 AATTGATTTTATATAAA-A
140369 AAT
1 AAT
140372 ATATAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
17 4 0.12
18 13 0.41
20 15 0.47
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
AATTGATTTTATATAAAA
Found at i:141251 original size:2 final size:2
Alignment explanation
Indices: 141246--141272 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
141236 TCTATATCCT
141246 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 T
141273 GATTTAATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:148321 original size:50 final size:51
Alignment explanation
Indices: 148237--148334 Score: 123
Period size: 50 Copynumber: 1.9 Consensus size: 51
148227 AAATTGTTAT
*
148237 TTAATAATAAAAATAGTTTTTATTTTAATCTAA-TTATAACATATATAAATA
1 TTAATAATAAAAATAGTTTTTATTTTAATCTAATTTATAA-ATAGATAAATA
*
148288 TTAAT-ATAAAAATATTTTTTAATCTTT-AT-TAATTTATAAATAGATAA
1 TTAATAATAAAAATAGTTTTT-AT-TTTAATCTAATTTATAAATAGATAA
148335 TAAAATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
50 24 0.57
51 15 0.36
52 3 0.07
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (51 bp):
TTAATAATAAAAATAGTTTTTATTTTAATCTAATTTATAAATAGATAAATA
Found at i:148732 original size:42 final size:42
Alignment explanation
Indices: 148673--148757 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
148663 TAACATTAGC
148673 AGTTTTATTCTTGGAAGTTGATGGTCTAAGTCCACTGTACTT
1 AGTTTTATTCTTGGAAGTTGATGGTCTAAGTCCACTGTACTT
* * *
148715 AGTTTTATTCTTGGAAGTTGTTTGTCTAAGTCCACTTTACTT
1 AGTTTTATTCTTGGAAGTTGATGGTCTAAGTCCACTGTACTT
148757 A
1 A
148758 ATATGTCGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (42 bp):
AGTTTTATTCTTGGAAGTTGATGGTCTAAGTCCACTGTACTT
Found at i:149683 original size:18 final size:18
Alignment explanation
Indices: 149609--149687 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 18
149599 ATTTTAAGTA
*
149609 TTTAATAGTAATATAATAT
1 TTTAATAATAA-ATAATAT
* * *
149628 TTTAGTATTAAATATTAT
1 TTTAATAATAAATAATAT
*
149646 TGTTAA-AAT-ATTAATAT
1 T-TTAATAATAAATAATAT
*
149663 TTTAATAATAAATAATTT
1 TTTAATAATAAATAATAT
149681 TTTAATA
1 TTTAATA
149688 TTTTAATAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
16 4 0.08
17 10 0.21
18 22 0.46
19 12 0.25
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTAATAATAAATAATAT
Found at i:149700 original size:15 final size:15
Alignment explanation
Indices: 149655--149705 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
149645 TTGTTAAAAT
149655 ATTAATATTTTAATA
1 ATTAATATTTTAATA
* *
149670 ATAAATAATTT--T-
1 ATTAATATTTTAATA
149682 -TTAATATTTTAATA
1 ATTAATATTTTAATA
149696 ATTAATATTT
1 ATTAATATTT
149706 AAGATTTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
11 8 0.29
13 2 0.07
15 18 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTAATATTTTAATA
Found at i:149811 original size:74 final size:75
Alignment explanation
Indices: 149728--149877 Score: 207
Period size: 75 Copynumber: 2.0 Consensus size: 75
149718 TATATTGCTA
* * * *
149728 TGTCAAAATAAATT-TTCAAAAATAACTAAACAACAGGAAATATTTTTCATTATGTCA-GT-CAA
1 TGTCAAAATAAATTGTTAAAAAATAACTAAACAACAGAAAATATTGTTCATTA--TCATATCCAA
149790 ACACTAAAAAAT
64 ACACTAAAAAAT
* *
149802 TGTCAAAATAAATTGTTAAAAAATAACTAAATAATAGAAAATATTGTTCATTATCATATCCAAAC
1 TGTCAAAATAAATTGTTAAAAAATAACTAAACAACAGAAAATATTGTTCATTATCATATCCAAAC
149867 ACTAAAAAAT
66 ACTAAAAAAT
149877 T
1 T
149878 CTTAGTTTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
73 3 0.04
74 15 0.22
75 49 0.73
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (75 bp):
TGTCAAAATAAATTGTTAAAAAATAACTAAACAACAGAAAATATTGTTCATTATCATATCCAAAC
ACTAAAAAAT
Found at i:150054 original size:22 final size:23
Alignment explanation
Indices: 150029--150079 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
150019 AAAATATTTT
*
150029 TTATTTAAAT-TTCATATTAAAA-
1 TTATTTAAATATTAATA-TAAAAC
*
150051 TTATATAAATATTAATATAAAAC
1 TTATTTAAATATTAATATAAAAC
150074 TTATTT
1 TTATTT
150080 TTAATACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATTTAAATATTAATATAAAAC
Found at i:155864 original size:20 final size:19
Alignment explanation
Indices: 155837--155913 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 19
155827 GTAAAAAGAC
155837 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
*
155856 AAGAATGTATCGATACATTC
1 AA-AATGTATCGATACATTG
* *
155876 ATACATATATCGATACATTG
1 A-AAATGTATCGATACATTG
155896 AAAAATGTATCGATACAT
1 -AAAATGTATCGATACAT
155914 CTGGATATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:156879 original size:67 final size:67
Alignment explanation
Indices: 156761--156904 Score: 166
Period size: 67 Copynumber: 2.1 Consensus size: 67
156751 ACAATGATGA
* * *** * *
156761 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTCTTTTAAAAAGGTGCCACTAATTTGTATGG
1 TTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTCTGAAAAAAAGGTGCCACCAACTTGTATGG
156826 GC
66 GC
* * *
156828 TTTGAAAATAGTTGCCACCAACTTGTGTGGG-TTT-TGAAAAAAAGAGTTGCCACCGACTTGTGT
1 TTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTCTGAAAAAAAG-G-TGCCACCAACTTGTAT
156891 GGGC
64 GGGC
156895 TTTGAAAAGA
1 TTTGAAAAGA
156905 TACTACTAAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 7 0.11
66 4 0.06
67 53 0.83
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (67 bp):
TTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTCTGAAAAAAAGGTGCCACCAACTTGTATGG
GC
Found at i:156899 original size:35 final size:35
Alignment explanation
Indices: 156765--156902 Score: 124
Period size: 35 Copynumber: 4.0 Consensus size: 35
156755 TGATGATTTG
* * ***
156765 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTCTTTTA
1 AAAAGAGTTGCCACCAACTTGTGTGGGC-TT-TGAAA
* * *
156802 AAAAG-G-TGCCACTAATTTGTATGGGCTTTG---
1 AAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAA
* *
156832 AAAATAGTTGCCACCAACTTGTGTGGGTTTTGAAA
1 AAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAA
*
156867 AAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 AAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAA
156902 A
1 A
156903 GATACTACTA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
30 4 0.05
31 1 0.01
32 20 0.24
33 1 0.01
34 2 0.02
35 49 0.59
36 1 0.01
37 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (35 bp):
AAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAA
Found at i:156925 original size:28 final size:28
Alignment explanation
Indices: 156888--157184 Score: 308
Period size: 28 Copynumber: 10.4 Consensus size: 28
156878 CACCGACTTG
* *
156888 TGTGGGCTTTGAAAAGATACTACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
* * *
156916 TGTGGGCTTTGACAAGGATGCTACTGACT
1 TGTGGGCTTTGA-AAAGATGCCACTAACT
*
156945 TGTGAGCTTTGAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAA-GATGCCACTAACT
* * * *
156974 TGTGAGCTTTTAAAAAGGATGCCACTGACC
1 TGTGGGC-TTTGAAAA-GATGCCACTAACT
* * * *
157004 TGTGGGCTTCGAAAAAATGCAACTATCT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
* * *
157032 TATGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
* *
157060 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
*
157088 TGTGGGCTTTGAAAATG-TGCCACTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTAACT
* *
157116 TGTGAGCTTTGAAAGGGTATGCCACTAACT
1 TGTGGGCTTTGAAA-AG-ATGCCACTAACT
* *
157146 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTAACT
157174 TGTGGGCTTTG
1 TGTGGGCTTTG
157185 GAAGGGTGCT
Statistics
Matches: 231, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
28 132 0.57
29 51 0.22
30 48 0.21
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTAACT
Found at i:156977 original size:58 final size:57
Alignment explanation
Indices: 156802--157184 Score: 367
Period size: 58 Copynumber: 6.5 Consensus size: 57
156792 CTTTCTTTTA
* * * * * *
156802 AAAAGGTGCCACTAATTTGTATGGGCTTTGAAAATAGTTGCCACCAACTTGTGTGGGTTTTG
1 AAAAGGTGCCACTGACTTG--TGGGCTTTGAAAA-GGATGCCACTAAC-T-TGTGGGCTTTG
* * *
156864 AAAAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAA-GATACTACTAACTTGTGGGCTTTG
1 ---AAAAG-G-TGCCACTGAC-T-TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTG
* * * * *
156927 ACAAGGATGCTACTGACTTGTGAGCTTTGAAAAGGATGCCACTAACTTGTGAGCTTTTA
1 AAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGC-TTTG
* * * * * *
156986 AAAAGGATGCCACTGACCTGTGGGCTTCGAAAA-AATGCAACTATCTTATGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTG
*
157043 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTG
* * *
157099 AAAATGTGCCACTGACTTGTGAGCTTTGAAAGGGTATGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG-ATGCCACTAACTTGTGGGCTTTG
* *
157157 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
157185 GAAGGGTGCT
Statistics
Matches: 266, Mismatches: 43, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
56 73 0.27
57 23 0.09
58 78 0.29
59 40 0.15
60 4 0.02
63 10 0.04
64 1 0.00
65 13 0.05
66 1 0.00
67 20 0.08
68 1 0.00
69 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (57 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTG
Found at i:157183 original size:86 final size:85
Alignment explanation
Indices: 156888--157184 Score: 346
Period size: 86 Copynumber: 3.5 Consensus size: 85
156878 CACCGACTTG
* * * * *
156888 TGTGGGCTTTGAAAAGATACTACTAACTTGTGGGCTTTGACAAGGATGCTACTGACTTGTGAGCT
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAAG-TGCAACTGACTTGTGAGCT
156953 TTGAAAAGGATGCCACTAACT
65 TTGAAAAGGATGCCACTAACT
* * * * * * * *
156974 TGTGAGCTTTTAAAAAGGATGCCACTGACCTGTGGGCTTCGAAAAAATGCAACT-ATCTTATGGG
1 TGTGGGC-TTTGAAAA-GATGCCACTAACTTGTGGGCTTTGAAAAAGTGCAACTGA-CTTGTGAG
*
157038 CTTTGAAAAGG-TGCCACTGACT
63 CTTTGAAAAGGATGCCACTAACT
* * * *
157060 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAATGTGCCACTGACTTGTGAGCTT
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAAGTGCAACTGACTTGTGAGCTT
*
157125 TGAAAGGGTATGCCACTAACT
66 TGAAAAGG-ATGCCACTAACT
* *
157146 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG
1 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTG
157185 GAAGGGTGCT
Statistics
Matches: 177, Mismatches: 28, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
84 47 0.27
85 8 0.05
86 70 0.40
87 30 0.17
88 22 0.12
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (85 bp):
TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAAGTGCAACTGACTTGTGAGCTT
TGAAAAGGATGCCACTAACT
Done.