Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001582.1 Hibiscus syriacus cultivar Beakdansim tig00003151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1162828
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:1418 original size:33 final size:33
Alignment explanation
Indices: 1376--1502 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
1366 GGAAATTACT
1376 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
1409 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
1441 TTTCGCAATGCGAAATGAAAATTGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1475 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1503 TGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1509 original size:66 final size:66
Alignment explanation
Indices: 1377--1502 Score: 234
Period size: 66 Copynumber: 1.9 Consensus size: 66
1367 GAAATTACTA
1377 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1442 T
66 T
* *
1443 TCGCAATGCGAAATGAAAATTGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACG
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACG
1503 TGAATTTAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
T
Found at i:1682 original size:14 final size:14
Alignment explanation
Indices: 1663--1699 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1653 CATCAATTAA
1663 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1677 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1691 ACAAATCAA
1 ACAAATCAA
1700 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3116 original size:21 final size:21
Alignment explanation
Indices: 3050--3116 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3040 GTGAATCGGG
*
3050 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
3070 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
3092 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
3113 CTCT
1 CTCT
3117 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:3135 original size:42 final size:41
Alignment explanation
Indices: 3050--3172 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
3040 GTGAATCGGG
* * * *
3050 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
3092 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * * *
3134 CTTTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
3173 CGAGTCGGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 4 0.06
42 56 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:5221 original size:20 final size:19
Alignment explanation
Indices: 5176--5234 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
5166 TCTTTTGGTT
5176 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
5195 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
5216 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
5235 TAGAATCGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:5244 original size:14 final size:14
Alignment explanation
Indices: 5225--5261 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5215 GGAAATGACT
*
5225 ATCGCAACGATAGA
1 ATCGCAACGAGAGA
5239 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
5253 ATCGCAACG
1 ATCGCAACG
5262 CGAAATGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:5312 original size:19 final size:19
Alignment explanation
Indices: 5284--5329 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
5274 CGCGACCAGA
*
5284 TTGCGATTTTTGTTTCGCG
1 TTGCGATTTTTATTTCGCG
*
5303 TTGCGCTTTTTATTTCGCG
1 TTGCGATTTTTATTTCGCG
5322 TTGCGATT
1 TTGCGATT
5330 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.07, C:0.17, G:0.24, T:0.52
Consensus pattern (19 bp):
TTGCGATTTTTATTTCGCG
Found at i:5907 original size:20 final size:20
Alignment explanation
Indices: 5882--5934 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
5872 GCGCTATGTA
*
5882 AATCGCGTTGTGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
5902 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
5922 TATCTCGTTGCGA
1 AATCGCGTTGCGA
5935 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:5968 original size:20 final size:20
Alignment explanation
Indices: 5943--5996 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
5933 GATTTTGTAT
5943 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
5963 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
5983 TATCGCATTGCGAT
1 TATCGCATTGCGAT
5997 TTTCCCAATT
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:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:6015 original size:61 final size:61
Alignment explanation
Indices: 5883--6017 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
5873 CGCTATGTAA
* * * * * * ** *
5883 ATCGCGTTGTGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
5944 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
6006 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
6018 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:6107 original size:21 final size:21
Alignment explanation
Indices: 6067--6107 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6057 ACTGTATACC
**
6067 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
6088 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
6108 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:9626 original size:19 final size:19
Alignment explanation
Indices: 9602--9640 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9592 TCAAATGCAT
*
9602 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGAACTC
*
9621 TCCATGCATCGATGAACTC
1 TCCATGCACCGATGAACTC
9640 T
1 T
9641 GAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGAACTC
Found at i:9739 original size:64 final size:65
Alignment explanation
Indices: 9588--9748 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
9578 GAATTAATTG
* * * *** *
9588 AACATCAAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGAACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGAACTCAGAATATTTTCAA
* * **
9653 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGAACTCAGAATA-TTTTCA
9716 A
65 A
9717 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
9749 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGAACTCAGAATATTTTCAA
Found at i:13559 original size:19 final size:19
Alignment explanation
Indices: 13535--13572 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13525 ATAGACTCAT
13535 CAGTCTTTGAGGACATAAA
1 CAGTCTTTGAGGACATAAA
13554 CAGTCTTTGAGGACATAAA
1 CAGTCTTTGAGGACATAAA
13573 TATCGCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
CAGTCTTTGAGGACATAAA
Found at i:15580 original size:19 final size:19
Alignment explanation
Indices: 15558--15596 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15548 CTAATATAAA
15558 ATTAAA-AAGTAAATATTTT
1 ATTAAATAA-TAAATATTTT
*
15577 ATTAAATTATAAATATTTT
1 ATTAAATAATAAATATTTT
15596 A
1 A
15597 AAATAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTAAATAATAAATATTTT
Found at i:23843 original size:2 final size:2
Alignment explanation
Indices: 23836--23890 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
23826 ACCATTTAAG
23836 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23878 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
23891 TTCATATTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25095 original size:17 final size:17
Alignment explanation
Indices: 25038--25095 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
25028 AATTTCGTCC
*
25038 TTATATTATATA-ATAT
1 TTATATTATATATTTAT
* *
25054 ATATATT-TATATTATAAA
1 TTATATTATATATT-T-AT
25072 TTATATTATATATTTAT
1 TTATATTATATATTTAT
25089 TTATATT
1 TTATATT
25096 TTTTTCTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 4 0.12
16 6 0.18
17 9 0.27
18 8 0.24
19 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATTATATATTTAT
Found at i:26588 original size:27 final size:27
Alignment explanation
Indices: 26516--26597 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
26506 GTTTTTAGTT
*
26516 TTTATTTATTTATTACTATTATATATATC
1 TTTA-TTA-TTATTACCATTATATATATC
* * * * *
26545 TTTTTTATTTTTCCCATTGTTTATATC
1 TTTATTATTATTACCATTATATATATC
*
26572 TTTATTATTATTACCATCATATATAT
1 TTTATTATTATTACCATTATATATAT
26598 TATTTTTATA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
27 35 0.85
28 3 0.07
29 3 0.07
ACGTcount: A:0.27, C:0.11, G:0.01, T:0.61
Consensus pattern (27 bp):
TTTATTATTATTACCATTATATATATC
Found at i:37051 original size:1 final size:1
Alignment explanation
Indices: 37045--37148 Score: 100
Period size: 1 Copynumber: 104.0 Consensus size: 1
37035 TAAGCTGAAC
* * * * * * * *
37045 AAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
37110 AAAAAACAAAAAAACAAAAAAACAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
37149 GAGAAGAACG
Statistics
Matches: 79, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:37148 original size:8 final size:8
Alignment explanation
Indices: 37042--37139 Score: 196
Period size: 8 Copynumber: 12.2 Consensus size: 8
37032 TCCTAAGCTG
37042 AACAAAAA
1 AACAAAAA
37050 AACAAAAA
1 AACAAAAA
37058 AACAAAAA
1 AACAAAAA
37066 AACAAAAA
1 AACAAAAA
37074 AACAAAAA
1 AACAAAAA
37082 AACAAAAA
1 AACAAAAA
37090 AACAAAAA
1 AACAAAAA
37098 AACAAAAA
1 AACAAAAA
37106 AACAAAAA
1 AACAAAAA
37114 AACAAAAA
1 AACAAAAA
37122 AACAAAAA
1 AACAAAAA
37130 AACAAAAA
1 AACAAAAA
37138 AA
1 AA
37140 AAACAAAAAG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 90 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AACAAAAA
Found at i:38132 original size:105 final size:105
Alignment explanation
Indices: 37950--38832 Score: 1410
Period size: 105 Copynumber: 8.4 Consensus size: 105
37940 AGGTTTTACC
37950 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
38015 ACGAAGGGACCGCTGGTTGTCAATAAACATTTGTTAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTT
*
38055 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGCCAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
38120 ACAAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTC
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTT
38160 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
38225 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTC
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTT
38265 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
38330 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTT
*
38370 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
38435 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTT
38475 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
38540 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTTAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTTAATTT
38581 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
**
38646 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTTAATTT
* * * * ** ** * * * *
38687 CGGATCCAATTTCAACTTCACAGCGAAGGACATTAAACTTGAGACAGCACAAGCTCAACCTCAC-
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * ** * ** *
38751 AGCGAAGGGGCGGCTGACTGTCAACAAACAATTTC-CCAGTT
66 A-CGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTTAATTT
* * *
38792 CTAGAACCAATTTCAACTTCACAGCGGAGGATATTGGACTC
1 C-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
38833 GGAACAATAC
Statistics
Matches: 734, Mismatches: 41, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
105 508 0.69
106 226 0.31
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTT
Found at i:40196 original size:20 final size:20
Alignment explanation
Indices: 40163--40201 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
40153 TTCGTGTTTG
*
40163 GCCGCCGATGAACGACGGCC
1 GCCGCCGATCAACGACGGCC
* *
40183 GCCGCGGATCAACGGCGGC
1 GCCGCCGATCAACGACGGC
40202 GGCAAGACAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.38, G:0.38, T:0.05
Consensus pattern (20 bp):
GCCGCCGATCAACGACGGCC
Found at i:40861 original size:27 final size:27
Alignment explanation
Indices: 40773--40861 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
40763 TAGTTTTTAG
* *
40773 TTTTTTTTTATTACTATTATATATATC
1 TTTTTTATTATTACCATTATATATATC
* * * *
40800 TTTTTTATTTTTCCCATTGTTTATATC
1 TTTTTTATTATTACCATTATATATATC
* *
40827 TTTATTATTATTACCATCATATATAT-
1 TTTTTTATTATTACCATTATATATATC
40853 TATTTTTAT
1 T-TTTTTAT
40862 ATTCTATATT
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTTTATTATTACCATTATATATATC
Found at i:46563 original size:245 final size:246
Alignment explanation
Indices: 46096--46590 Score: 678
Period size: 245 Copynumber: 2.0 Consensus size: 246
46086 TTCATATATT
46096 GAATAAAAATATTTTTTATTATTTCGGGTTGGGTCGGATTTCTAATTCAAATATTCGGGTCGGGC
1 GAATAAAAATATTTTTTATTATTTC--G--GGGTCGGATTTCTAATTCAAATATTCGGGT---G-
*
46161 CGGGTGAAACTTTATTTTGGTCAGGCCGAGTCGGTTTTTTTAAGTGATATTCGAGTCAGGTCGAG
58 CGGGTGAAACTTTATTTTGATCAGGCCGAGTCGGTTTTTTTAAGTGATATTC-AGTCAGGTCGAG
* * *
46226 TTCGAGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATATTTAGGA
122 TTCGAGTTTAGGGTGAAAAATACCCGACCCGAAAAAAAATATAATGTTACCTTATATATTTAGGA
46291 ATAATTACAATAATACCCCTCTATATATAA-TTTTTTTCAATTAAATCATTGTTTTTATC
187 ATAATTACAATAATACCCCTCTATATATAATTTTTTTTCAATTAAATCATTGTTTTTATC
* *
46350 GAATAAAAATATTTTTTTATTATTTC-GGGTCGGGTTTCTAATTCATATATTCGGGT-CGGGTGA
1 GAATAAAAATA-TTTTTTATTATTTCGGGGTCGGATTTCTAATTCAAATATTCGGGTGCGGGTGA
* * * * * * *
46413 AACTTTATTTTGATC-GGATCGGGTCGGTTTTTTTAAGTGTTA-T-ATTCGGGTCGGGTTCGGGT
65 AACTTTATTTTGATCAGG-CCGAGTCGGTTTTTTTAAGTGATATTCAGTCAGGTCGAGTTCGAGT
*
46475 TTAGGGTGAAAAATACCCGACCCGACCCAAAAAAATATAATGTTACTTTATATATTTAGGAATAA
129 TTAGGGTGAAAAATACCCGACCCGA---AAAAAAATATAATGTTACCTTATATATTTAGGAATAA
* *
46540 TTACAATAATACCCCTTTATATATAATTTTTTTTCAATTAAGTCATTGTTT
191 TTACAATAATACCCCTCTATATATAATTTTTTTTCAATTAAATCATTGTTT
46591 CAACCCGGCA
Statistics
Matches: 219, Mismatches: 16, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
242 40 0.18
244 3 0.01
245 100 0.46
246 23 0.11
250 28 0.13
254 11 0.05
255 14 0.06
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (246 bp):
GAATAAAAATATTTTTTATTATTTCGGGGTCGGATTTCTAATTCAAATATTCGGGTGCGGGTGAA
ACTTTATTTTGATCAGGCCGAGTCGGTTTTTTTAAGTGATATTCAGTCAGGTCGAGTTCGAGTTT
AGGGTGAAAAATACCCGACCCGAAAAAAAATATAATGTTACCTTATATATTTAGGAATAATTACA
ATAATACCCCTCTATATATAATTTTTTTTCAATTAAATCATTGTTTTTATC
Found at i:48366 original size:27 final size:27
Alignment explanation
Indices: 48314--48377 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
48304 CTAAAAATAT
**
48314 TAATAATTACAAAAATTAATTTATAAAC
1 TAATAA-TACAAAAATTAATAAATAAAC
*
48342 TAATAATA-AAAAATTAAATAAATAAAT
1 TAATAATACAAAAATT-AATAAATAAAC
*
48369 TTATAATAC
1 TAATAATAC
48378 CCTAATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 7 0.23
27 17 0.57
28 6 0.20
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (27 bp):
TAATAATACAAAAATTAATAAATAAAC
Found at i:49902 original size:2 final size:2
Alignment explanation
Indices: 49895--49931 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
49885 CAGAATATTT
49895 TA TA TA 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 TA TA TA T
49932 TTGCTAGAAC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55129 original size:14 final size:14
Alignment explanation
Indices: 55096--55140 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
55086 AAAAAAAGGG
*
55096 GAAAAAA-AAGGAA
1 GAAAAAAGAAAGAA
55109 -AAAAAAGAAAGAA
1 GAAAAAAGAAAGAA
55122 GAAAAAAGAGAA-AA
1 GAAAAAAGA-AAGAA
55136 GAAAA
1 GAAAA
55141 TTGGAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 15 0.54
15 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAAGAA
Found at i:55135 original size:22 final size:22
Alignment explanation
Indices: 55066--55139 Score: 55
Period size: 24 Copynumber: 3.2 Consensus size: 22
55056 CATCATGAAG
55066 AGAAAGAAGAAAAAAAAGAGAAAA
1 AGAAAGAAG--AAAAAAGAGAAAA
* *
55090 A-AAGGGGAA-AAAAAAGGAAAAAAA
1 AGAA--AGAAGAAAAAA-G-AGAAAA
55114 AGAAAGAAGAAAAAAGAG-AAA
1 AGAAAGAAGAAAAAAGAGAAAA
55135 AGAAA
1 AGAAA
55140 ATTGGAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
21 8 0.20
22 7 0.17
23 7 0.17
24 13 0.32
25 5 0.12
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (22 bp):
AGAAAGAAGAAAAAAGAGAAAA
Found at i:57875 original size:216 final size:216
Alignment explanation
Indices: 57496--58695 Score: 2048
Period size: 216 Copynumber: 5.6 Consensus size: 216
57486 GCAAATCCAA
* *
57496 ACCTTCGGGTAAGATGTTTTCAAATGAATTTGAAAAATG-AAAAAATGATGTTTTAAGAAGATGA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTG-AAAATGAAAAAAATGATGTTTTAAGAAGATGG
57560 AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
65 AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
* ** *
57625 TAAGTCTTTCGAGCATGATGCTTAAATTCTTCGGGTCATCTGTAAATCTTTAGAGCAAGATAATA
130 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATA
57690 AGTCCTTCGGGCCATCCATAAG
195 AGTCCTTCGGGCCATCCATAAG
57712 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
*
57777 ATTTTTGAAAACGAAGAATGAGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
57842 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
*
57907 CTCCTTCGGGCCATCCATAAG
196 GTCCTTCGGGCCATCCATAAG
57928 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
*
57993 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCCCAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
*
58058 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAAAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
58123 GTCCTTCGGGCCATCCATAAG
196 GTCCTTCGGGCCATCCATAAG
*
58144 ACCTTCGGGTAGGATGTTTACAAATGAATTTGAAAATG-AAAAAATGATGTTTTAAGAAGATGGA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
* **
58208 ATTTTTGAAAACAAAGAATATGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
58273 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
58338 GTCCTTCGGGCCATCCATAAG
196 GTCCTTCGGGCCATCCATAAG
* *
58359 ACCTTCGTGTAGGATGTTTTCAAATGAATTTGAAAATAAAAAAAATGATGTTTTAAGAAGATGGA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
** * * *
58424 ATTTTTGAAAACGAAGAATGCGATTTTCAATTTTTCACAATTTATAAGTCATTTGGGACATCAGT
66 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
* * *
58489 AAGTCTTTCGAGCATAATGCTTAAATTCTTTGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
58554 GTCCTTCGGGCCATCCATAAG
196 GTCCTTCGGGCCATCCATAAG
* * * * * *
58575 ACCTTCGGGTAGGATGTTTTC-ATTGAATCTAAAAAT-AAGAAAATGATGTTTTAAGATGATGAA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
* * * *
58638 ATTTTTGAAAACGAAGAATGCGAGTTTAAAAATTTCACAATTTTTAAAATCCTTCGGG
66 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTAT-AAGTCCTTCGGG
58696 TAATTTTTAA
Statistics
Matches: 934, Mismatches: 47, Indels: 7
0.95 0.05 0.01
Matches are distributed among these distances:
214 64 0.07
215 234 0.25
216 636 0.68
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (216 bp):
ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
GTCCTTCGGGCCATCCATAAG
Found at i:57886 original size:42 final size:41
Alignment explanation
Indices: 57820--57921 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
57810 TTCACAATTT
* * * *
57820 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
57861 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
*
57903 ATAACTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
57922 CATAAGACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:58317 original size:42 final size:41
Alignment explanation
Indices: 58251--58352 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
58241 TTCACAATTT
* * * *
58251 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
58292 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
*
58334 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
58353 CATAAGACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:58332 original size:431 final size:430
Alignment explanation
Indices: 57496--58695 Score: 2046
Period size: 431 Copynumber: 2.8 Consensus size: 430
57486 GCAAATCCAA
* *
57496 ACCTTCGGGTAAGATGTTTTCAAATGAATTTGAAAAATG-AAAAAATGATGTTTTAAGAAGATGA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTG-AAAATGAAAAAAATGATGTTTTAAGAAGATGG
57560 AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
65 AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
** *
57625 TAAGTCTTTCGAGCATGATGCTTAAATTCTTCGGGTCATCTGTAAATCTTTAGAGCAAGATAATA
130 TAAGTCTTTCGAGCATGATGCTTAAATTCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATA
57690 AGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAA
195 AGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATG-AAAA
57755 AATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGAGATTTTCAAAATTTCACAATTT
259 AATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAAT-AGATTTTCAAAATTTCACAATTT
57820 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
323 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
57885 AGCCTTTAGAGCAAGATGATAACTCCTTCGGGCCATCCATAAG
388 AGCCTTTAGAGCAAGATGATAACTCCTTCGGGCCATCCATAAG
57928 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
*
57993 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCCCAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
* *
58058 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAAAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATTCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
*
58123 GTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTACAAATGAATTTGAAAATGAAAAAA
196 GTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAA
*
58188 TGATGTTTTAAGAAGATGGAATTTTTGAAAACAAAGAATATGATTTTCAAAATTTCACAATTTAT
261 TGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATA-GATTTTCAAAATTTCACAATTTAT
58253 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
325 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
*
58318 CCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAG
390 CCTTTAGAGCAAGATGATAACTCCTTCGGGCCATCCATAAG
* *
58359 ACCTTCGTGTAGGATGTTTTCAAATGAATTTGAAAATAAAAAAAATGATGTTTTAAGAAGATGGA
1 ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
** * * *
58424 ATTTTTGAAAACGAAGAATGCGATTTTCAATTTTTCACAATTTATAAGTCATTTGGGACATCAGT
66 ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
* *
58489 AAGTCTTTCGAGCATAATGCTTAAATTCTTTGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATTCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
* * *
58554 GTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTC-ATTGAATCTAAAAAT-AAGAAA
196 GTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAA-AAA
* * * * * *
58617 ATGATGTTTTAAGATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTAAAAATTTCACAATTTT
260 ATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAAT-AGATTTTCAAAATTTCACAATTTA
*
58682 TAAAATCCTTCGGG
324 T-AAGTCCTTCGGG
58696 TAATTTTTAA
Statistics
Matches: 728, Mismatches: 35, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
429 2 0.00
430 74 0.10
431 414 0.57
432 238 0.33
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (430 bp):
ACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGA
ATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
AAGTCTTTCGAGCATGATGCTTAAATTCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
GTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAA
TGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATAGATTTTCAAAATTTCACAATTTATA
AGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGC
CTTTAGAGCAAGATGATAACTCCTTCGGGCCATCCATAAG
Found at i:62176 original size:8 final size:8
Alignment explanation
Indices: 62163--62188 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
62153 TTACTCAAAA
62163 AATTAAAT
1 AATTAAAT
62171 AATTAAAT
1 AATTAAAT
62179 AATTAAAT
1 AATTAAAT
62187 AA
1 AA
62189 AATACTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTAAAT
Found at i:62953 original size:3 final size:3
Alignment explanation
Indices: 62947--63038 Score: 105
Period size: 3 Copynumber: 30.0 Consensus size: 3
62937 ACTACTACTA
* *
62947 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * *
62993 AAAT AAT AAT ATAT AAT AAT AAT AGT -AT ATT AAT AAT ATT AAT AAT
1 -AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
63039 TATTGTAGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
2 1 0.01
3 67 0.89
4 7 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:62986 original size:13 final size:13
Alignment explanation
Indices: 62922--63030 Score: 104
Period size: 13 Copynumber: 8.7 Consensus size: 13
62912 ATATTAGTTT
*
62922 ATAATAATAGTAG
1 ATAATAATAGTAA
* * *
62935 ATACTACTACTAA
1 ATAATAATAGTAA
62948 ATAAT-A-A-T-A
1 ATAATAATAGTAA
*
62957 ATAATAATAAT-A
1 ATAATAATAGTAA
62969 ATAATAATAGTAA
1 ATAATAATAGTAA
62982 ATAATAATAGTAA
1 ATAATAATAGTAA
62995 ATAATAATA-TATA
1 ATAATAATAGTA-A
63008 ATAATAATAGTATA
1 ATAATAATAGTA-A
*
63022 TTAATAATA
1 ATAATAATA
63031 TTAATAATTA
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
9 6 0.07
10 2 0.02
11 2 0.02
12 14 0.17
13 46 0.56
14 12 0.15
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.34
Consensus pattern (13 bp):
ATAATAATAGTAA
Found at i:63094 original size:11 final size:11
Alignment explanation
Indices: 63080--63132 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
63070 AATGGTGTAG
63080 TAATAATAATA
1 TAATAATAATA
63091 TAATAATAGA-A
1 TAATAATA-ATA
*
63102 TAATAATAATGC
1 TAATAATAAT-A
63114 TAAT-ATAATA
1 TAATAATAATA
63124 TTAATAATA
1 -TAATAATA
63133 GTACTAGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 1 0.03
11 26 0.74
12 8 0.23
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (11 bp):
TAATAATAATA
Found at i:63097 original size:14 final size:14
Alignment explanation
Indices: 63080--63132 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
63070 AATGGTGTAG
63080 TAATAATAATATAA
1 TAATAATAATATAA
*
63094 TAAT-AGAATAATAA
1 TAATAATAAT-ATAA
**
63108 TAATGCTAATATAA
1 TAATAATAATATAA
*
63122 TATTAATAATA
1 TAATAATAATA
63133 GTACTAGTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 4 0.13
14 24 0.77
15 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:64546 original size:2 final size:2
Alignment explanation
Indices: 64539--64600 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
64529 TGAGATTTCC
64539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64581 TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
64601 GTGTGTGTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68398 original size:3 final size:3
Alignment explanation
Indices: 68390--68425 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
68380 AATTACCCAT
68390 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
68426 AAGAATCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:78458 original size:60 final size:60
Alignment explanation
Indices: 78365--78483 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
78355 CGGTTGGAGG
* * *
78365 ATGTTCTATTATTTGGAAAGTTACTATGTAGAGTTTGATTGCCTTGTCAACTACTGAAGT
1 ATGTTCCATTATTTGGAAAGCTACTATGTAGAGTATGATTGCCTTGTCAACTACTGAAGT
78425 ATGTTCCATTATTTGGAAAGCTACTATGTAGAGTATGATTGCCTTGTCAACTACTGAAG
1 ATGTTCCATTATTTGGAAAGCTACTATGTAGAGTATGATTGCCTTGTCAACTACTGAAG
78484 CGGAGTACTG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (60 bp):
ATGTTCCATTATTTGGAAAGCTACTATGTAGAGTATGATTGCCTTGTCAACTACTGAAGT
Found at i:81763 original size:3 final size:3
Alignment explanation
Indices: 81755--81788 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
81745 GTCCCGTTTT
*
81755 ATA ATA ATA ATA ATA ATA ATA ATT A-A ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
81789 TTTATTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:88938 original size:183 final size:183
Alignment explanation
Indices: 88628--88969 Score: 594
Period size: 183 Copynumber: 1.9 Consensus size: 183
88618 AATTCTCCCT
*
88628 GAAATAAAGAGGAATAAACAAGGAGCCGCAAGGTAGATCAAATACAAATTGCTCAGAGATCAAAT
1 GAAATAAAGAGAAATAAACAAGGAGCCGCAAGGTAGATCAAATACAAATTGCTCAGAGATCAAAT
* * *
88693 CTAGTAGAGAACAACGAAAGAAGTTCCAAATACAAGAAATAAAGAGGAAAAGAAGATGCTCAAAG
66 CTAGCAGAGAACAACGAAAGAAGTTCCAAACACAAGAAACAAAGAGGAAAAGAAGATGCTCAAAG
*
88758 TAATTACACTCATCCAATAAAGAATAAGAAAAAAGCAAGAAAAAATAAATCAA
131 TAATTACACTCATCCAATAAAGAAGAAGAAAAAAGCAAGAAAAAATAAATCAA
88811 GAAATAAAGAGAAATAAACAAGGAGCCGCAAGGTAGATCAAATACAAATTGCTCAGAGATCAAAT
1 GAAATAAAGAGAAATAAACAAGGAGCCGCAAGGTAGATCAAATACAAATTGCTCAGAGATCAAAT
* * * * *
88876 CTAGCCGAGAGCAATGAATGAAGTTCCAAACACAAGAAACAAAGAGGAAAAGAAGTTGCTCAAAG
66 CTAGCAGAGAACAACGAAAGAAGTTCCAAACACAAGAAACAAAGAGGAAAAGAAGATGCTCAAAG
88941 TAATTACACTCATCCAATAAAGAAGAAGA
131 TAATTACACTCATCCAATAAAGAAGAAGA
88970 GGAACAGAAA
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 149 1.00
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.15
Consensus pattern (183 bp):
GAAATAAAGAGAAATAAACAAGGAGCCGCAAGGTAGATCAAATACAAATTGCTCAGAGATCAAAT
CTAGCAGAGAACAACGAAAGAAGTTCCAAACACAAGAAACAAAGAGGAAAAGAAGATGCTCAAAG
TAATTACACTCATCCAATAAAGAAGAAGAAAAAAGCAAGAAAAAATAAATCAA
Found at i:91825 original size:62 final size:62
Alignment explanation
Indices: 91658--92063 Score: 402
Period size: 62 Copynumber: 6.6 Consensus size: 62
91648 CTCATGAGAA
* * * * *
91658 AGAGTCAATACTTGACTTTCTAGTGAAGAGAAAT-AACACTTGTTATCCCTCACTCCTCAGT
1 AGAGTCAATACTTGACTTTCTCGTGAAGAGAAGTCAACATTTGTTATCCTTGACTCCTCAGT
* *
91719 AGAGTCAATATTTGACTTCCTAC-TGAA-A-AAGTCAACATTTGTTATCCTTGACTCCTCAGT
1 AGAGTCAATACTTGACTTTCT-CGTGAAGAGAAGTCAACATTTGTTATCCTTGACTCCTCAGT
* * * * *
91779 AGAGTTAATACTTAACTTTCTCGTGAAGAGAAGTCAACATTTGTTATCCCTAACTTCTCAGT
1 AGAGTCAATACTTGACTTTCTCGTGAAGAGAAGTCAACATTTGTTATCCTTGACTCCTCAGT
* * * * * * *
91841 AGAGTTAATACTTGACTTCCTCATGACGAGAA-TATAACCTTTGTTATTCTTGACTCC-CTAGT
1 AGAGTCAATACTTGACTTTCTCGTGAAGAGAAGT-CAACATTTGTTATCCTTGACTCCTC-AGT
* * * * *
91903 AGAGTCAAT-CATGGAC-TTCATTGTAAAGAAAAGTCAACATTTGTTATTCC-TGACTCCCCAGT
1 AGAGTCAATAC-TTGACTTTC-TCGTGAAGAGAAGTCAACATTTGTTA-TCCTTGACTCCTCAGT
* **
91965 AGAGTCAAT-CATTGACTTTGTCGTGAAGAGAAGTCAATC-TTTGTTATTTTTGACTCCTCAGT
1 AGAGTCAATAC-TTGACTTTCTCGTGAAGAGAAGTCAA-CATTTGTTATCCTTGACTCCTCAGT
* *
92027 AGAGTCAATCCTTGACTTTCTCGTAAAGAGAAGTCAA
1 AGAGTCAATACTTGACTTTCTCGTGAAGAGAAGTCAA
92064 TCTTTTTTAT
Statistics
Matches: 284, Mismatches: 45, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
59 4 0.01
60 46 0.16
61 30 0.11
62 196 0.69
63 8 0.03
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (62 bp):
AGAGTCAATACTTGACTTTCTCGTGAAGAGAAGTCAACATTTGTTATCCTTGACTCCTCAGT
Found at i:92328 original size:90 final size:90
Alignment explanation
Indices: 92103--92941 Score: 971
Period size: 89 Copynumber: 9.4 Consensus size: 90
92093 ATGAAGAAAA
* * * *
92103 TATTTCATATTTGGTCTTCATGAAAGAGTAGT-GAATCAAATCAATCTCAAGTCTGATCACCATG
1 TATTTCAGATTTGGTCTTCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCATG
*
92167 GAAGAGTAGTGGAAGAGATTCTT-T
66 GAAGAGTAGTGGAACAGATTCTTCT
* * *
92191 TATTTTAGATTTGGTC-TCAACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTCCAT
1 TATTTCAGATTTGGTCTTC-ACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCAT
*
92255 GGAAGAGTAGTGGAATAGATTCTTCT
65 GGAAGAGTAGTGGAACAGATTCTTCT
* * * * *
92281 TATGTGAGATTTGGTCTCCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTGTGATCACCACG
1 TATTTCAGATTTGGTCTTCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCATG
* *
92346 AAAGAGTAGTGGAATAGATTCTTCT
66 GAAGAGTAGTGGAACAGATTCTTCT
* * * * *
92371 TATATCAGATTTGGTCTTCACAAAAGAGCAGTGGAAACAAATCAATCTCGAGTCAGATCACCATG
1 TATTTCAGATTTGGTCTTCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCATG
* * *
92436 GAAGAATAGTGGAACAAATTATTCT
66 GAAGAGTAGTGGAACAGATTCTTCT
* * ** *
92461 TATGTCAGATTTGGTTTTCACGAAAGAGT-G-GCGAATTAAATCAATCTCGAGTCTGATCAACAT
1 TATTTCAGATTTGGTCTTCACGAAAGAGTAGTG-GAAGCAAATCAATCTCGAGTCTGATCACCAT
*
92524 GGAAGAGTAGTGGAACATATTCTTCT
65 GGAAGAGTAGTGGAACAGATTCTTCT
* ** **
92550 TATTTCAGATTTGGTCTTCACGAAAGTGTAGT-GACTCAAATCAATCTCGAGTCTGATCACCACA
1 TATTTCAGATTTGGTCTTCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCATG
* * *
92614 GAAGAGTATTAGAACATATTCTTCT
66 GAAGAGTAGTGGAACAGATTCTTCT
* * * * * *
92639 T-TTGTCATATTTGATCTTCACGAAAGAGAAGTGGAAGCAAATCAATCTTGATTCTGAT--CCTT
1 TATT-TCAGATTTGGTCTTCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCAT
* *
92701 GGAAGAGTAGAGGAACATATTCTTCT
65 GGAAGAGTAGTGGAACAGATTCTTCT
* * * * * * * * * *
92727 TATTTCATATTTGGTCTCCATGAAAGAGTAGTGAAAGCAAATCGATCTTGAGTCTAATCTCCTTA
1 TATTTCAGATTTGGTCTTCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCATG
* *
92792 GAATAGTAGTGGAACATATTCTTCT
66 GAAGAGTAGTGGAACAGATTCTTCT
* * *
92817 TATTTCAGATTTGGTCTTCACGAAAGAGTAGT-GAAACAAATCAATCTCGAGTCTAATCTCC-TC
1 TATTTCAGATTTGGTCTTCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCAT-
*
92880 GGAAGAGTAGAGGAACAGATTCTTCT
65 GGAAGAGTAGTGGAACAGATTCTTCT
* * * *
92906 TATTTCAGATTTAGTCTCCCCGGAAGAGTAGTGGAA
1 TATTTCAGATTTGGTCTTCACGAAAGAGTAGTGGAA
92942 CATATTCTCC
Statistics
Matches: 646, Mismatches: 91, Indels: 26
0.85 0.12 0.03
Matches are distributed among these distances:
87 2 0.00
88 100 0.15
89 280 0.43
90 263 0.41
91 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (90 bp):
TATTTCAGATTTGGTCTTCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCACCATG
GAAGAGTAGTGGAACAGATTCTTCT
Found at i:92353 original size:43 final size:43
Alignment explanation
Indices: 92205--92359 Score: 134
Period size: 43 Copynumber: 3.5 Consensus size: 43
92195 TTAGATTTGG
* *
92205 TCTCAACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGA
1 TCTCCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGA
* * * * * * * *
92248 TCTCCATGGAAGAGTAGTGGAA-TAGATTC-TTCTTATGTGAGATTTGG
1 TCTCCACGAAAGAGTAGTGGAAGCA-AATCAATC---T-CGAG-TCTGA
*
92295 TCTCCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTGTGA
1 TCTCCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGA
*
92338 TCACCACGAAAGAGTAGTGGAA
1 TCTCCACGAAAGAGTAGTGGAA
92360 TAGATTCTTC
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
42 3 0.03
43 47 0.54
44 3 0.03
45 2 0.02
46 3 0.03
47 26 0.30
48 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (43 bp):
TCTCCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGA
Found at i:92505 original size:179 final size:177
Alignment explanation
Indices: 92111--92943 Score: 913
Period size: 179 Copynumber: 4.7 Consensus size: 177
92101 AATATTTCAT
* * * *
92111 ATTTGGTCTTCATGAAAGAGTAGTGAATCAAATCAATCTCAAGTCTGATCACCATGGAAGAGTAG
1 ATTTGGTCTTCACGAAAGAGT-GGGAAGCAAATCAATCTCGAGTCTGATCACCATGGAAGAGTAG
* * * *
92176 TGGAAGAGATTCTT-TTATTTTAGATTTGGTC-TCAACGGAAGAGTAGTGGAAGCAAATCAATCT
65 TGGAACAGATTCTTCTTATTTCAGATTTGGTCTTC-ACGAAAGAGTAGT-GAAACAAATCAATCT
* * * * * *
92239 CGAGTCTGATCTCCATGGAAGAGTAGTGGAATAGATTCTTCTTATGTGAG
128 CGAGTCAGATCACCATAGAAGAGTAGTGGAACATATTCTTCTTATGTCAG
* * * *
92289 ATTTGGTCTCCACGAAAGAGTAGTGGAAGCAAATCAATCTCGAGTGTGATCACCACGAAAGAGTA
1 ATTTGGTCTTCACGAAAGAGT-G-GGAAGCAAATCAATCTCGAGTCTGATCACCATGGAAGAGTA
* * * *
92354 GTGGAATAGATTCTTCTTATATCAGATTTGGTCTTCACAAAAGAGCAGTGGAAACAAATCAATCT
64 GTGGAACAGATTCTTCTTATTTCAGATTTGGTCTTCACGAAAGAGTAGT-GAAACAAATCAATCT
* * * *
92419 CGAGTCAGATCACCATGGAAGAATAGTGGAACAAATTATTCTTATGTCAG
128 CGAGTCAGATCACCATAGAAGAGTAGTGGAACATATTCTTCTTATGTCAG
* ** *
92469 ATTTGGTTTTCACGAAAGAGTGGCGAATTAAATCAATCTCGAGTCTGATCAACATGGAAGAGTAG
1 ATTTGGTCTTCACGAAAGAGTGG-GAAGCAAATCAATCTCGAGTCTGATCACCATGGAAGAGTAG
* * **
92534 TGGAACATATTCTTCTTATTTCAGATTTGGTCTTCACGAAAGTGTAGTGACTCAAATCAATCTCG
65 TGGAACAGATTCTTCTTATTTCAGATTTGGTCTTCACGAAAGAGTAGTGAAACAAATCAATCTCG
* * * * * *
92599 AGTCTGATCACCACAGAAGAGTATTAGAACATATTCTTCTTTTGTCAT
130 AGTCAGATCACCATAGAAGAGTAGTGGAACATATTCTTCTTATGTCAG
* * * * *
92647 ATTTGATCTTCACGAAAGAGAAGTGGAAGCAAATCAATCTTGATTCTGAT--CCTTGGAAGAGTA
1 ATTTGGTCTTCACGAAAGAG-TG-GGAAGCAAATCAATCTCGAGTCTGATCACCATGGAAGAGTA
* * * * * *
92710 GAGGAACATATTCTTCTTATTTCATATTTGGTCTCCATGAAAGAGTAGTGAAAGCAAATCGATCT
64 GTGGAACAGATTCTTCTTATTTCAGATTTGGTCTTCACGAAAGAGTAGTGAAA-CAAATCAATCT
* * * * *
92775 TGAGTCTA-ATCTCCTTAGAATAGTAGTGGAACATATTCTTCTTATTTCAG
128 CGAGTC-AGATCACCATAGAAGAGTAGTGGAACATATTCTTCTTATGTCAG
* * * *
92825 ATTTGGTCTTCACGAAAGAGTAGTGAAACAAATCAATCTCGAGTCTAATCTCC-TCGGAAGAGTA
1 ATTTGGTCTTCACGAAAGAGT-GGGAAGCAAATCAATCTCGAGTCTGATCACCAT-GGAAGAGTA
* * * * * *
92889 GAGGAACAGATTCTTCTTATTTCAGATTTAGTCTCCCCGGAAGAGTAGTGGAACA
64 GTGGAACAGATTCTTCTTATTTCAGATTTGGTCTTCACGAAAGAGTAGTGAAACA
92944 TATTCTCCTT
Statistics
Matches: 553, Mismatches: 90, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
177 78 0.14
178 164 0.30
179 206 0.37
180 103 0.19
181 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (177 bp):
ATTTGGTCTTCACGAAAGAGTGGGAAGCAAATCAATCTCGAGTCTGATCACCATGGAAGAGTAGT
GGAACAGATTCTTCTTATTTCAGATTTGGTCTTCACGAAAGAGTAGTGAAACAAATCAATCTCGA
GTCAGATCACCATAGAAGAGTAGTGGAACATATTCTTCTTATGTCAG
Found at i:92942 original size:47 final size:47
Alignment explanation
Indices: 92796--92987 Score: 155
Period size: 47 Copynumber: 4.2 Consensus size: 47
92786 TCCTTAGAAT
* * * *
92796 AGTAGTGGAACATATTCTTCTTATTTCAGATTTGGTCTTCACGAAAG
1 AGTAGTGGAACATATTCTTCTTATTTCAGATTTAGTCTCCCCGGAAG
* * * * * * *
92843 AGTAGTGAAACA-A---ATC-AATCTC-GAGTCTAATCTCCTCGGAAG
1 AGTAGTGGAACATATTCTTCTTATTTCAGA-TTTAGTCTCCCCGGAAG
* *
92885 AGTAGAGGAACAGATTCTTCTTATTTCAGATTTAGTCTCCCCGGAAG
1 AGTAGTGGAACATATTCTTCTTATTTCAGATTTAGTCTCCCCGGAAG
* * * * *
92932 AGTAGTGGAACATATTCTCCTTATTTCATATTTGGTCT-ACCAGAAG
1 AGTAGTGGAACATATTCTTCTTATTTCAGATTTAGTCTCCCCGGAAG
*
92978 AATAGTGGAA
1 AGTAGTGGAA
92988 GAAAATAAAT
Statistics
Matches: 112, Mismatches: 26, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
41 2 0.02
42 25 0.22
43 3 0.03
46 18 0.16
47 62 0.55
48 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (47 bp):
AGTAGTGGAACATATTCTTCTTATTTCAGATTTAGTCTCCCCGGAAG
Found at i:93031 original size:136 final size:136
Alignment explanation
Indices: 92791--93077 Score: 348
Period size: 136 Copynumber: 2.1 Consensus size: 136
92781 TAATCTCCTT
* * * *
92791 AGAATAGTAGTGGAACATATTCTTCTTATTTCAGATTTGGTCTTCACGAAAGAGTAGTGAAACAA
1 AGAAGAGTAGTGGAACATATTCTCCTTATTTCAGATTTGGTCTCCACGAAAGAATAGTGAAACAA
* * * * *
92856 ATCAATCTCGAGTCTAATCTCCTCGGAAGAGTAGAGGAACAGATTCTTCTTATTTCAGATTTAGT
66 ATAAATCTCGAGTCTAATATCCACGGAAAAGTAGAGGAACAGATTCTCCTTATTTCAGATTTAGT
92921 CTCCCC
131 CTCCCC
* *
92927 GGAAGAGTAGTGGAACATATTCTCCTTATTTCATATTTGGTCTACCA-G-AAGAATAGTGGAAGA
1 AGAAGAGTAGTGGAACATATTCTCCTTATTTCAGATTTGGTCT-CCACGAAAGAATAGT-GAA-A
* * * * * *
92990 -AAATAAATCTTGAG-CATGATATCCAGGGAAAAGTAGTGGAACGGATTCTCCTTATTTCATATT
63 CAAATAAATCTCGAGTC-TAATATCCACGGAAAAGTAGAGGAACAGATTCTCCTTATTTCAGATT
*
93053 TGGTCTCCCC
127 TAGTCTCCCC
93063 AGAAGAGTAGTGGAA
1 AGAAGAGTAGTGGAA
93078 TCAAATCAGT
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
135 9 0.07
136 116 0.91
137 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (136 bp):
AGAAGAGTAGTGGAACATATTCTCCTTATTTCAGATTTGGTCTCCACGAAAGAATAGTGAAACAA
ATAAATCTCGAGTCTAATATCCACGGAAAAGTAGAGGAACAGATTCTCCTTATTTCAGATTTAGT
CTCCCC
Found at i:93114 original size:226 final size:226
Alignment explanation
Indices: 92701--93167 Score: 593
Period size: 226 Copynumber: 2.1 Consensus size: 226
92691 TCTGATCCTT
* * * *
92701 GGAAGAGTAGAGGAACATATTCTTCTTATTTCATATTTGGTCTCCATGAAAGAGTAGTGAAAGCA
1 GGAAGAGTAGTGGAACATATTCTCCTTATTTCATATTTGGTCTCCATGAAAGAATAGTGAAAGAA
** * ** * * *
92766 AATCGATCTTGAGTCTAATCTCCTTAGAATAGTAGTGGAACATATTCTTCTTATTTCAGATTTGG
66 AATAAATCTTGAGTCTAATATCCAGAGAAAAGTAGTGGAACAGATTCTCCTTATTTCAGATTTGG
* *
92831 TCTTCACGAAAGAGTAGTGAAACAAATCAATCTCGAGTCTAATCTCCTCGGAAGAGTAGA-GGAA
131 TCTCCACGAAAGAGTAGTGAAACAAATCAATCTCGAGTCTAATCTCCACGGAAGAGTA-ATGGAA
* *
92895 CAGATTCTTCTTATTTCAGATTTAGTCTCCCC
195 CAAATTCTCCTTATTTCAGATTTAGTCTCCCC
*
92927 GGAAGAGTAGTGGAACATATTCTCCTTATTTCATATTTGGTCTACCA-G-AAGAATAGTGGAAGA
1 GGAAGAGTAGTGGAACATATTCTCCTTATTTCATATTTGGTCT-CCATGAAAGAATAGTGAAAGA
* * * *
92990 AAATAAATCTTGAG-CATGATATCCAGGGAAAAGTAGTGGAACGGATTCTCCTTATTTCATATTT
65 AAATAAATCTTGAGTC-TAATATCCAGAGAAAAGTAGTGGAACAGATTCTCCTTATTTCAGATTT
* * * * * *
93054 GGTCTCC-CCAGAAGAGTAGTGGAATCAAATCAGTCTTGAGTCTGATCTCCACGTAAGAGTAATG
129 GGTCTCCACGA-AAGAGTAGT-GAAACAAATCAATCTCGAGTCTAATCTCCACGGAAGAGTAATG
*
93118 GAACAAATTCTCCTTATTTCAGATTTGGTCTCCCC
192 GAACAAATTCTCCTTATTTCAGATTTAGTCTCCCC
*
93153 GAAAGAGTAGTGGAA
1 GGAAGAGTAGTGGAA
93168 GCAAATAATT
Statistics
Matches: 207, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
224 3 0.01
225 78 0.38
226 123 0.59
227 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (226 bp):
GGAAGAGTAGTGGAACATATTCTCCTTATTTCATATTTGGTCTCCATGAAAGAATAGTGAAAGAA
AATAAATCTTGAGTCTAATATCCAGAGAAAAGTAGTGGAACAGATTCTCCTTATTTCAGATTTGG
TCTCCACGAAAGAGTAGTGAAACAAATCAATCTCGAGTCTAATCTCCACGGAAGAGTAATGGAAC
AAATTCTCCTTATTTCAGATTTAGTCTCCCC
Found at i:93120 original size:90 final size:90
Alignment explanation
Indices: 92920--93322 Score: 436
Period size: 90 Copynumber: 4.5 Consensus size: 90
92910 TCAGATTTAG
* * * * * *
92920 TCTCCCCGGAAGAGTAGTGGAACATATTCTCCTTATTTCATATTTGGTCTACCAG-AAGAATAGT
1 TCTCCACGGAAGAGTAGTGGAACAGATTCTCCTTATTTCAGATTTGGTCTCCCCGAAAGAGTAGT
* *
92984 GGAAGAAAATAAATCTTGAG-CATGA
66 GGAAGCAAATAAATCTCGAGTC-TGA
* * * * *
93009 TATCCAGGGAAAAGTAGTGGAACGGATTCTCCTTATTTCATATTTGGTCTCCCC-AGAAGAGTAG
1 TCTCCACGGAAGAGTAGTGGAACAGATTCTCCTTATTTCAGATTTGGTCTCCCCGA-AAGAGTAG
* * * *
93073 TGGAATCAAATCAGTCTTGAGTCTGA
65 TGGAAGCAAATAAATCTCGAGTCTGA
* * *
93099 TCTCCACGTAAGAGTAATGGAACAAATTCTCCTTATTTCAGATTTGGTCTCCCCGAAAGAGTAGT
1 TCTCCACGGAAGAGTAGTGGAACAGATTCTCCTTATTTCAGATTTGGTCTCCCCGAAAGAGTAGT
* *
93164 GGAAGCAAATAATTCTCGAGTCTAA
66 GGAAGCAAATAAATCTCGAGTCTGA
* * ** * * * *
93189 TCTCCACGGAATAGTAGTGGAGCTTATTCTCCTTATTTCAGATTTAGTCTTCACGAAAGAGTAAT
1 TCTCCACGGAAGAGTAGTGGAACAGATTCTCCTTATTTCAGATTTGGTCTCCCCGAAAGAGTAGT
* *
93254 -GAATCAAATCAATCTCGAGTCTGA
66 GGAAGCAAATAAATCTCGAGTCTGA
* * * *
93278 TCACCACAGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTT
1 TCTCCACGGAAGAGTAGTGGAACAGATTCTCCTTATTTCAGATTT
93323 CATTTTCCAA
Statistics
Matches: 264, Mismatches: 46, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
89 105 0.40
90 157 0.59
91 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (90 bp):
TCTCCACGGAAGAGTAGTGGAACAGATTCTCCTTATTTCAGATTTGGTCTCCCCGAAAGAGTAGT
GGAAGCAAATAAATCTCGAGTCTGA
Found at i:93130 original size:179 final size:178
Alignment explanation
Indices: 92928--93322 Score: 481
Period size: 179 Copynumber: 2.2 Consensus size: 178
92918 AGTCTCCCCG
* *
92928 GAAGAGTAGTGGAACATATTCTCCTTATTTCATATTTGGTCTACCAG-AAGAATAGTGGAAGAAA
1 GAAGAGTAGTGGAACAAATTCTCCTTATTTCAGATTTGGTCTACCAGAAAGAATAGTGGAAGAAA
* * * * *
92992 ATAAATCTTGAG-CATGATATCCAGGGAAAAGTAGTGGAACGGATTCTCCTTATTTCATATTTGG
66 ATAAATCTCGAGTC-TAATATCCACGGAAAAGTAGTGGAACGGATTCTCCTTATTTCAGATTTAG
* * * *
93056 TCTCC-CCAGAAGAGTAGTGGAATCAAATCAGTCTTGAGTCTGATCTCCAC
130 TCTCCACGA-AAGAGTAAT-GAATCAAATCAATCTCGAGTCTGATCTCCAC
* * * * *
93106 GTAAGAGTAATGGAACAAATTCTCCTTATTTCAGATTTGGTCTCCCCGAAAGAGTAGTGGAAGCA
1 G-AAGAGTAGTGGAACAAATTCTCCTTATTTCAGATTTGGTCTACCAGAAAGAATAGTGGAAGAA
* * * * **
93171 AATAATTCTCGAGTCTAATCTCCACGGAATAGTAGTGGAGCTTATTCTCCTTATTTCAGATTTAG
65 AATAAATCTCGAGTCTAATATCCACGGAAAAGTAGTGGAACGGATTCTCCTTATTTCAGATTTAG
* *
93236 TCTTCACGAAAGAGTAATGAATCAAATCAATCTCGAGTCTGATCACCAC
130 TCTCCACGAAAGAGTAATGAATCAAATCAATCTCGAGTCTGATCTCCAC
* * *
93285 AGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTT
1 -GAAGAGTAGTGGAACAAATTCTCCTTATTTCAGATTT
93323 CATTTTCCAA
Statistics
Matches: 184, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
178 1 0.01
179 101 0.55
180 79 0.43
181 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (178 bp):
GAAGAGTAGTGGAACAAATTCTCCTTATTTCAGATTTGGTCTACCAGAAAGAATAGTGGAAGAAA
ATAAATCTCGAGTCTAATATCCACGGAAAAGTAGTGGAACGGATTCTCCTTATTTCAGATTTAGT
CTCCACGAAAGAGTAATGAATCAAATCAATCTCGAGTCTGATCTCCAC
Found at i:93415 original size:47 final size:47
Alignment explanation
Indices: 93345--93521 Score: 167
Period size: 47 Copynumber: 3.6 Consensus size: 47
93335 ATTTCTCGAG
* * *
93345 TCTTATCTCCCTAAAAGAATAGTGGAGCAGATTCGTCTTCTTTTGGA
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCTTTTAGA
* * * * * *
93392 CCTTATCTCTCTGAAAGAATAGTGGAGCAGATCCGTTTTTCAAAGATTTCTCGA
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCG-TCTTC-----TTT-TAGA
* **
93446 GTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTTCCCTTAGA
1 -TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCTTTTAGA
93494 TCTTATCT-CCTGAAAGAAGAGTGGAGCA
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCA
93522 TATCCGTTTT
Statistics
Matches: 107, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
46 20 0.19
47 39 0.36
48 7 0.07
49 1 0.01
53 3 0.03
54 7 0.07
55 30 0.28
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (47 bp):
TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCTTTTAGA
Found at i:93477 original size:55 final size:54
Alignment explanation
Indices: 93393--93625 Score: 232
Period size: 55 Copynumber: 4.4 Consensus size: 54
93383 TCTTTTGGAC
* * *
93393 CTTATCTCTCTGAAAGAATAGTGGAGCAGATCCGTTTTTCAAAGATTTCTCGAGT
1 CTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCG-TTTTCAAAGATTTCTCGAAT
** * ** *
93448 CTTATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTTC-----CCT-TAG-AT
1 CTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTCAAAGATTTCTCGAAT
*
93495 CTTATCT-CCTGAAAGAAGAGTGGAGCATATCCGTTTTCAAAGATTTCTCGAAT
1 CTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTCAAAGATTTCTCGAAT
* * * * *
93548 CTTATCGCCTTGAAAGAAGAGTGTAGCAGATCTGTTTTCCAAAGATTTCTTGAAT
1 CTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTT-CAAAGATTTCTCGAAT
*
93603 CTTATCTCCTTGCAAA-AAGAGTG
1 CTTATCTCCCTG-AAAGAAGAGTG
93626 AAGTAAATTC
Statistics
Matches: 145, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
46 27 0.19
47 8 0.06
48 2 0.01
49 1 0.01
51 1 0.01
52 2 0.01
53 8 0.06
54 30 0.21
55 63 0.43
56 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
CTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTCAAAGATTTCTCGAAT
Found at i:93565 original size:100 final size:102
Alignment explanation
Indices: 93325--93587 Score: 368
Period size: 102 Copynumber: 2.6 Consensus size: 102
93315 TCAGATTTCA
* * * * ** *
93325 TTTTCCAAAGATTTCTCGAGTCTTATCTCCCTAAAAGAATAGTGGAGCAGATTCGTCTTCTTTTG
1 TTTTTCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTTCCCTTA
*
93390 GACCTTATCTCTCTGAAAGAATAGTGGAGCAGATCCG
66 GACCTTATCTCTCTGAAAGAAGAGTGGAGCAGATCCG
93427 TTTTTCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTTCCCTTA
1 TTTTTCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTTCCCTTA
* *
93492 GATCTTATCTC-CTGAAAGAAGAGTGGAGCATATCCG
66 GACCTTATCTCTCTGAAAGAAGAGTGGAGCAGATCCG
* * * * * *
93528 -TTTTCAAAGATTTCTCGAATCTTATCGCCTTGAAAGAAGAGTGTAGCAGATCTGTTTTCC
1 TTTTTCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTTCC
93588 AAAGATTTCT
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 54 0.37
101 23 0.16
102 68 0.47
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (102 bp):
TTTTTCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTTGTCTTCCCTTA
GACCTTATCTCTCTGAAAGAAGAGTGGAGCAGATCCG
Found at i:93852 original size:3 final size:3
Alignment explanation
Indices: 93844--93880 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
93834 TTTATAATTT
*
93844 TTA TTA TTA TTA TTA TTA TTA TTA -TA TAA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93881 CAGCCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:102098 original size:20 final size:21
Alignment explanation
Indices: 102075--102118 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
102065 AAGAAAAAAT
*
102075 AAAAGTTAA-AATGAAATAGA
1 AAAAGTTAAGAATGAAAGAGA
*
102095 AAAAGTTAAGGATGAAAGAGA
1 AAAAGTTAAGAATGAAAGAGA
102116 AAA
1 AAA
102119 TAAAAAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (21 bp):
AAAAGTTAAGAATGAAAGAGA
Found at i:112716 original size:19 final size:19
Alignment explanation
Indices: 112692--112731 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
112682 ATGATCTGAA
*
112692 ATTTAAGAATTTTTTTGGG
1 ATTTAAGAAATTTTTTGGG
*
112711 ATTTAATAAATTTTTTGGG
1 ATTTAAGAAATTTTTTGGG
112730 AT
1 AT
112732 GGGATATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (19 bp):
ATTTAAGAAATTTTTTGGG
Found at i:115119 original size:199 final size:200
Alignment explanation
Indices: 114774--115154 Score: 559
Period size: 199 Copynumber: 1.9 Consensus size: 200
114764 GACTAGCTAG
* *
114774 AAATAAACATGTATGGTTCACATTACATGTAATTTTCATGCTACGCTCCATGATTGATCGATGAC
1 AAATAAACATGTATGATTCACATTACATGTAATTTTCATGCTACACTCCATGATTGATCGATGAC
* * * *
114839 ATTTAGTTGTATTTGTATACGTGACCACTGATGGGTCTAGTCATGATTGATATGACAAAGGCCAC
66 ATTTAGCTATATTTGTATACATGACCACTGATGGGTCTAGTCATGATTGATATGAAAAAGGCCAC
* * *
114904 TTTGATCCTATATGGATA-AGTTGATGGACGAGATTGTTGTAGAATACCTATAGTTGATGGACCA
131 TTTGATCCTATATGGATATAATTGATAGACGAGATTGTTATAGAATACCTATAGTTGATGGACCA
114968 ATTGA
196 ATTGA
* * * **
114973 AAATAAACATGTGTGATTCACATTGCATGTAATTTTCATGCTACACTCCATGATTGTTCTTTGGA
1 AAATAAACATGTATGATTCACATTACATGTAATTTTCATGCTACACTCCATGATTGATCGAT-GA
* * *
115038 -ATTTGGCTATATTTGTATACATGACTATTGATGGGTCTAGTCATGATTGATATGAAAAAGGCCA
65 CATTTAGCTATATTTGTATACATGACCACTGATGGGTCTAGTCATGATTGATATGAAAAAGGCCA
* * *
115102 CTTTGATCTTGTATGGATATAATTGGTAGACGAGATTGTTATAGAATACCTAT
130 CTTTGATCCTATATGGATATAATTGATAGACGAGATTGTTATAGAATACCTAT
115155 TTGTTAGCAT
Statistics
Matches: 160, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
199 129 0.81
200 31 0.19
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (200 bp):
AAATAAACATGTATGATTCACATTACATGTAATTTTCATGCTACACTCCATGATTGATCGATGAC
ATTTAGCTATATTTGTATACATGACCACTGATGGGTCTAGTCATGATTGATATGAAAAAGGCCAC
TTTGATCCTATATGGATATAATTGATAGACGAGATTGTTATAGAATACCTATAGTTGATGGACCA
ATTGA
Found at i:117360 original size:11 final size:11
Alignment explanation
Indices: 117344--117377 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
117334 ACTATTTTTA
117344 TCTTTTAAAAT
1 TCTTTTAAAAT
117355 TCTTTTTTAAAAT
1 TC--TTTTAAAAT
117368 TCTTTTAAAA
1 TCTTTTAAAA
117378 AACTTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (11 bp):
TCTTTTAAAAT
Found at i:117364 original size:13 final size:13
Alignment explanation
Indices: 117346--117373 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
117336 TATTTTTATC
117346 TTTTAAAATTCTT
1 TTTTAAAATTCTT
117359 TTTTAAAATTCTT
1 TTTTAAAATTCTT
117372 TT
1 TT
117374 AAAAAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAAATTCTT
Found at i:120403 original size:29 final size:29
Alignment explanation
Indices: 120371--120430 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
120361 CACAACTAAT
** *
120371 CCATCATTCTTTTGTTCAATTGTGTTTAA
1 CCATCATTCTTTTACTCAATTGTATTTAA
*
120400 CCATTATTCTTTTACTCAATTGTATTTAA
1 CCATCATTCTTTTACTCAATTGTATTTAA
120429 CC
1 CC
120431 GTTCATCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (29 bp):
CCATCATTCTTTTACTCAATTGTATTTAA
Found at i:120496 original size:81 final size:81
Alignment explanation
Indices: 120403--120951 Score: 732
Period size: 81 Copynumber: 6.8 Consensus size: 81
120393 TGTTTAACCA
** * *
120403 TTATTCTTTTACTCAATTGTATTTAACCGTTCATCTAACTGACATAATTGGTGCATTTCTACCAA
1 TTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAA
*
120468 TTGCATAGTTAGGTCG
66 TTGCACAGTTAGGTCG
* * **
120484 TTGTTCTTTTACTCAACAGTATTTAACCGTTCACCTAACTAACA-AATTGGTACCA-TTCTACCA
1 TTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTA-CATTTCTACCA
*
120547 ATTGCACAGTTAGGTCA
65 ATTGCACAGTTAGGTCG
* * * *
120564 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTAGTATAATTGATACATTTCTACCAA
1 TTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAA
*
120629 TTGCATAGTTAGGTC-
66 TTGCACAGTTAGGTCG
* * *
120644 --ATTTTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAA
1 TTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAA
* *
120707 TTGTACAGTTAGGCCG
66 TTGCACAGTTAGGTCG
* * *
120723 TTATTCTTTTACTCAACAATATTTAACC-TTCATCTAACTGGCATAATTGGTACCTTTCTACCAG
1 TTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAA
120787 TTGCACAGTTAGGTCG
66 TTGCACAGTTAGGTCG
* *
120803 TTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGCATAATTGGCACATTTCTACCAA
1 TTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAA
**
120868 TTGCACAGTTAGACCG
66 TTGCACAGTTAGGTCG
* * * * * * * *
120884 TTGTTCTTTTACTCAACGGTATTTAATCGTTCATCTAAATGGCATAATTGATACCTTTCAACTAA
1 TTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAA
120949 TTG
66 TTG
120952 AATAGTTTGG
Statistics
Matches: 415, Mismatches: 46, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
78 70 0.17
80 147 0.35
81 198 0.48
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (81 bp):
TTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAA
TTGCACAGTTAGGTCG
Found at i:120579 original size:161 final size:161
Alignment explanation
Indices: 120400--120958 Score: 743
Period size: 161 Copynumber: 3.5 Consensus size: 161
120390 TTGTGTTTAA
** *
120400 CCATTATTCTTTTACTCAATTGTATTTAACCGTTCATCTAACTGACATAATTGGTGCATTTCTAC
1 CCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGACATAATTGGTACATTTCTAC
* **
120465 CAATTGCATAGTTAGGTCGTTGTTCTTTTACTCAACAGTATTTAACCGTTCACCTAACTAACA-A
66 CAATTGCATAGTTAGGTCGTT-TTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATA
120529 ATTGGTACCA-TTCTACCAATTGCACAGTTAGG
130 ATTGGTA-CATTTCTACCAATTGCACAGTTAGG
* * *
120561 TCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACT-AGTATAATTGATACATTTCTA
1 CCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGA-CATAATTGGTACATTTCTA
* * *
120625 CCAATTGCATAGTTAGGTC-ATTT-TTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATA
65 CCAATTGCATAGTTAGGTCGTTTTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATA
*
120688 ATTGGTACATTTCTACCAATTGTACAGTTAGG
130 ATTGGTACATTTCTACCAATTGCACAGTTAGG
* ** * *
120720 CCGTTATTCTTTTACTCAACAATATTTAACC-TTCATCTAACTGGCATAATTGGTACCTTTCTAC
1 CCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGACATAATTGGTACATTTCTAC
* * *
120784 CAGTTGCACAGTTAGGTCGTTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGCATA
66 CAATTGCATAGTTAGGTCGTT-TTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATA
* *
120849 ATTGGCACATTTCTACCAATTGCACAGTTAGA
130 ATTGGTACATTTCTACCAATTGCACAGTTAGG
* * * * * * * *
120881 CCGTTGTTCTTTTACTCAACGGTATTTAATCGTTCATCTAAATGGCATAATTGATACCTTTCAAC
1 CCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGACATAATTGGTACATTTCTAC
* *
120946 TAATTGAATAGTT
66 CAATTGCATAGTT
120959 TGGCCTCAAA
Statistics
Matches: 349, Mismatches: 41, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
158 79 0.23
159 59 0.17
160 4 0.01
161 168 0.48
162 39 0.11
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (161 bp):
CCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGACATAATTGGTACATTTCTAC
CAATTGCATAGTTAGGTCGTTTTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAA
TTGGTACATTTCTACCAATTGCACAGTTAGG
Found at i:120828 original size:239 final size:240
Alignment explanation
Indices: 120405--120951 Score: 774
Period size: 239 Copynumber: 2.3 Consensus size: 240
120395 TTTAACCATT
** * * *
120405 ATTCTTTTACTCAATTGTATTTAACCGTTCATCTAACTGACATAATTGGTGCATTTCTACCAATT
1 ATTCTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAATT
* * * *
120470 GCATAGTTAGGTCGTTGTTCTTTTACTCAACAGTATTTAACCGTTCACCTAACTAACAAATTGGT
66 GCACAGTTAGGCCGTTATTCTTTTACTCAACAATATTTAACCGTTCACCTAACTAACAAATTGGT
**
120535 ACCATTCTACCAATTGCACAGTTAGGTCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCT
131 ACCATTCTACCAATTGCACAGTTAGGTCATTATTCTTTTACTCAACAATATTTAACCGTTCATCT
* * *
120600 AACTAGTATAATTGATACATTTCTACCAATTGCATAGTTAG-GTC
196 AACTAGCATAATTGACACATTTCTACCAATTGCACAGTTAGCGTC
*
120644 ATTTTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAATT
1 ATTCTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAATT
* * **
120709 GTACAGTTAGGCCGTTATTCTTTTACTCAACAATATTTAACC-TTCATCTAACTGGCATAATTGG
66 GCACAGTTAGGCCGTTATTCTTTTACTCAACAATATTTAACCGTTCACCTAACTAACA-AATTGG
* * *
120773 TACCTTTCTACCAGTTGCACAGTTAGGTCGTTATTCTTTTACTCAACAATATTTAACCGTTCATC
130 TACCATTCTACCAATTGCACAGTTAGGTCATTATTCTTTTACTCAACAATATTTAACCGTTCATC
* * *
120838 TAACTGGCATAATTGGCACATTTCTACCAATTGCACAGTTAGACCGTT
195 TAACTAGCATAATTGACACATTTCTACCAATTGCACAGTTAG--CGTC
* * * * * *
120886 GTTCTTTTACTCAACGGTATTTAATCGTTCATCTAAATGGCATAATTGATACCTTTCAACTAATT
1 ATTCTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAATT
120951 G
66 G
120952 AATAGTTTGG
Statistics
Matches: 272, Mismatches: 32, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
238 12 0.04
239 199 0.73
242 61 0.22
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (240 bp):
ATTCTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAATT
GCACAGTTAGGCCGTTATTCTTTTACTCAACAATATTTAACCGTTCACCTAACTAACAAATTGGT
ACCATTCTACCAATTGCACAGTTAGGTCATTATTCTTTTACTCAACAATATTTAACCGTTCATCT
AACTAGCATAATTGACACATTTCTACCAATTGCACAGTTAGCGTC
Found at i:121008 original size:68 final size:67
Alignment explanation
Indices: 120913--121166 Score: 285
Period size: 68 Copynumber: 3.7 Consensus size: 67
120903 TATTTAATCG
* * ** * * * *
120913 TTCATCTAAATGGCATAATTGATACCTTTCAACTAATTGAATAGTTTGGCCTCAAAGGCACTAAG
1 TTCATCTAACTGGCATAATTGACACCTTTC-TGTAATTGCACAGTTAGGCCTCAAAGGCACTTAG
120978 CCT
65 CCT
* * *
120981 TTCATCTAACTGTCATAATTGGCACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGT-AATTGCACAGTTAGGCCTCAAAGGCACTTAG
121046 CCT
65 CCT
* * * * * *
121049 TTAATCTAACTGACATAAATGACACCTTTCTGTCATATGCACAGTTAGTCATCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTAAT-TGCACAGTTAGGCCTCAAAGGCACTTAG
121114 CCT
65 CCT
* *
121117 TTCATCTAACTGGCATAAATT-ACACCTTTCTATCATATGCACAGTTAGGC
1 TTCATCTAACTGGCAT-AATTGACACCTTTCTGTAAT-TGCACAGTTAGGC
121167 ATATTAATCT
Statistics
Matches: 159, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
67 2 0.01
68 154 0.97
69 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (67 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTAATTGCACAGTTAGGCCTCAAAGGCACTTAGC
CT
Found at i:121516 original size:30 final size:30
Alignment explanation
Indices: 121482--121543 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
121472 TTTAGCACAC
**
121482 AAAGTGCCCAATATTAAAATTCATACACTT
1 AAAGTGCCCAATACGAAAATTCATACACTT
*
121512 AAAGTGCCCAATACGGAAATTCATACACTT
1 AAAGTGCCCAATACGAAAATTCATACACTT
121542 AA
1 AA
121544 TATGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (30 bp):
AAAGTGCCCAATACGAAAATTCATACACTT
Found at i:122062 original size:21 final size:19
Alignment explanation
Indices: 122024--122075 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
122014 TGATGTTTCT
*
122024 TGGTATCGATACCCCTTATCA
1 TGGTATCGATACCACTTA--A
*
122045 TGGTATCGATACTACTTAA
1 TGGTATCGATACCACTTAA
122064 TCGGTATCGATA
1 T-GGTATCGATA
122076 TTGATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 10 0.36
21 16 0.57
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (19 bp):
TGGTATCGATACCACTTAA
Found at i:122083 original size:20 final size:21
Alignment explanation
Indices: 122046--122102 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
122036 CCCTTATCAT
*
122046 GGTATCGATACTACTT-AATC
1 GGTATCGATATTACTTAAATC
122066 GGTATCGATATTGA-TTAAATC
1 GGTATCGATATT-ACTTAAATC
* *
122087 AGTATTGATATTACTT
1 GGTATCGATATTACTT
122103 CATCTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (21 bp):
GGTATCGATATTACTTAAATC
Found at i:126002 original size:29 final size:29
Alignment explanation
Indices: 125965--126024 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
125955 CATAACTAAT
* * *
125965 CCATCATTCTTTTATTCAACAGTGTTTAA
1 CCATCATTCTTTTACTCAACAATATTTAA
*
125994 CCATTATTCTTTTACTCAACAATATTTAA
1 CCATCATTCTTTTACTCAACAATATTTAA
126023 CC
1 CC
126025 GTTCATCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.43
Consensus pattern (29 bp):
CCATCATTCTTTTACTCAACAATATTTAA
Found at i:126090 original size:81 final size:81
Alignment explanation
Indices: 125995--126392 Score: 573
Period size: 81 Copynumber: 4.9 Consensus size: 81
125985 AGTGTTTAAC
125995 CATTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGCATAATTGATACCTTTCTACC
1 CATTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGCATAATTGATACCTTTCTACC
*
126060 AATTGCATAGTTAGGT
66 AATTGCACAGTTAGGT
* * *
126076 CATTATTCTTTTACTCAACGATATTTAATCGTTCATCTAACTGGCATAATTGATACCTTTATACC
1 CATTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGCATAATTGATACCTTTCTACC
*
126141 AATTGCACAATTAGGT
66 AATTGCACAGTTAGGT
* * **
126157 CATTATTCTTTTACTCAACGATATTTAACCGTTCATCTAACTGACATAATTGATATATTTCTACC
1 CATTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGCATAATTGATACCTTTCTACC
126222 AATTGCACAGTTAGGT
66 AATTGCACAGTTAGGT
** * * *
126238 GGTAATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACC
1 CATTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGCATAATTGATACCTTTCTACC
*
126303 AATTGCACAGTTAAGT
66 AATTGCACAGTTAGGT
* * * * *
126319 CATTATTTTTTTTACTC-ACTAGTATTTAACCGTTCATTTAACTGGCATAATTGGTATCTTTCTA
1 CATTA-TTCTTTTACTCAAC-AATATTTAACCGTTCATCTAACTGGCATAATTGATACCTTTCTA
* *
126383 CAAAATGCAC
64 CCAATTGCAC
126393 TTAGCCTTTC
Statistics
Matches: 286, Mismatches: 29, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
81 226 0.79
82 60 0.21
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (81 bp):
CATTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGCATAATTGATACCTTTCTACC
AATTGCACAGTTAGGT
Found at i:126502 original size:68 final size:68
Alignment explanation
Indices: 126389--126587 Score: 290
Period size: 68 Copynumber: 2.9 Consensus size: 68
126379 TCTACAAAAT
* * * * * *
126389 GCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCA
1 GCACTTAGTCTTTCATCTAACTGGCATAAATGATACCTTTCTGTCATATGCACAGTTAGGCCTCA
*
126454 ATG
66 AAG
* * * *
126457 GCACTTAGTCTTTCATCTAATTGGCATAAATGATACATTTCTGTCATTTGCACAATTAGGCCTCA
1 GCACTTAGTCTTTCATCTAACTGGCATAAATGATACCTTTCTGTCATATGCACAGTTAGGCCTCA
126522 AAG
66 AAG
*
126525 GCACTCAGTCTTTCATCTAACTGGCATAAATGATACCTTTCTGTCATATGCACAGTTAGGCCT
1 GCACTTAGTCTTTCATCTAACTGGCATAAATGATACCTTTCTGTCATATGCACAGTTAGGCCT
126588 ATTAATCTTT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 115 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (68 bp):
GCACTTAGTCTTTCATCTAACTGGCATAAATGATACCTTTCTGTCATATGCACAGTTAGGCCTCA
AAG
Found at i:126927 original size:59 final size:59
Alignment explanation
Indices: 126852--127026 Score: 262
Period size: 59 Copynumber: 3.0 Consensus size: 59
126842 TGTAGTGCCC
* *
126852 ATACGAAAATTCATACACTTAGTATTAATTTCTTAGTATTTTAGCACACAAAGTGCCAA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAGTATTTTAGCACACAAAGTGCCAA
* *
126911 ATACGGAAATTAATACACTTAGTATGAATTTCTTAGTATTTTAGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAGTATTTTAGCACACAAAGTGCCAA
* ** **
126970 ATACGGAAATTCATACACTTAGTATGAATTTTTTAACATTTT-GCACACTTAGTGCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAGTATTTTAGCACACAAAGTGCCA
127027 TTTAGTAATA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 12 0.11
59 93 0.89
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAGTATTTTAGCACACAAAGTGCCAA
Found at i:127494 original size:22 final size:23
Alignment explanation
Indices: 127450--127494 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
127440 CTGGTATCGA
*
127450 TACCCTTACCATGGTATCAATAC
1 TACCCTTACCATGGTACCAATAC
* *
127473 TACCCTT-CTATGGTACCGATAC
1 TACCCTTACCATGGTACCAATAC
127495 CCCCTATCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (23 bp):
TACCCTTACCATGGTACCAATAC
Found at i:141804 original size:21 final size:21
Alignment explanation
Indices: 141760--141804 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
141750 GATTTCTGGG
* * *
141760 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
141781 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
141802 CAA
1 CAA
141805 ACGAACCAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:141877 original size:23 final size:22
Alignment explanation
Indices: 141829--141877 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
141819 ACAGAATGTC
141829 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
141850 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
141873 AAGGA
1 AAGGA
141878 AAAATGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:143575 original size:103 final size:103
Alignment explanation
Indices: 143350--143567 Score: 411
Period size: 103 Copynumber: 2.1 Consensus size: 103
143340 ATCGAGGGTC
143350 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
143415 TTGATCTCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
143453 TATGTGGTCCTTCGGGACATA-ATTGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCGGGACATATA-TGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
143517 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
143556 TATGTGGTCCTT
1 TATGTGGTCCTT
143568 ATGGACATTA
Statistics
Matches: 113, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
102 1 0.01
103 112 0.99
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:143635 original size:23 final size:23
Alignment explanation
Indices: 143583--143640 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
143573 CATTATTATA
143583 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* * *
143606 CGACACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
*
143629 TGGCACTTCGGT
1 TGGCACTACGGT
143641 ACATTTATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:148650 original size:27 final size:27
Alignment explanation
Indices: 148612--148671 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
148602 TAACGTATAA
148612 GAAAGTTACTTTCGATAATTTTAAAAT
1 GAAAGTTACTTTCGATAATTTTAAAAT
148639 GAAAGTTACTTTCGATAATTTTAAAAT
1 GAAAGTTACTTTCGATAATTTTAAAAT
148666 GAAAGT
1 GAAAGT
148672 CTATCCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (27 bp):
GAAAGTTACTTTCGATAATTTTAAAAT
Found at i:149250 original size:130 final size:131
Alignment explanation
Indices: 148951--149307 Score: 488
Period size: 130 Copynumber: 2.7 Consensus size: 131
148941 ATTAACATTG
* *
148951 AAAATAGTAATATCTTTTCATTTCAGA-TGAAGTAATAAATGA-TTTCTTTAAGGCATGAGAGGT
1 AAAATAGTAATATCTCTTCATTT-AGATTGAAGTAATAAATGACTGT-TTTAAGGCATGAGAGGT
* * * * *
149014 CATTTATTCTCGATTGGAAATAATTAGATGTTATCGTTTTCTCTCGAGTCAATATTGATTTTTAA
64 CATTTATTCTCGATTGGAAATAATTAGATATTATCGATTTCTCTCAAATCAATATTGAATTTTAA
149079 GAA
129 GAA
* * * * *
149082 AAAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAAGGACTGTTTTAAGGCATGAGATGTCA
1 AAAATAGTAATATCTCTTCATTTAGATTGAAGTAATAAATGACTGTTTTAAGGCATGAGAGGTCA
*
149147 TTTATTC-CTGATTGGAAATCATTAGATATTATC-ATTTCTCTCAAATCAATATTGAATTTTAAG
66 TTTATTCTC-GATTGGAAATAATTAGATATTATCGATTTCTCTCAAATCAATATTGAATTTTAAG
*
149210 AC
130 AA
* * *
149212 GAAATAGTAATATCTCTTCATTTTGATTGAAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
1 AAAATAGTAATATCTCTTCATTTAGATTGAAGTAATAAATGACTGTTTTAAGGCATGAGAGGTCA
* *
149277 TTTAATCTCGATTAGAAATAATTAGATATTA
66 TTTATTCTCGATTGGAAATAATTAGATATTA
149308 CCTTTTCCTC
Statistics
Matches: 198, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
130 114 0.58
131 82 0.41
132 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (131 bp):
AAAATAGTAATATCTCTTCATTTAGATTGAAGTAATAAATGACTGTTTTAAGGCATGAGAGGTCA
TTTATTCTCGATTGGAAATAATTAGATATTATCGATTTCTCTCAAATCAATATTGAATTTTAAGA
A
Found at i:150331 original size:38 final size:39
Alignment explanation
Indices: 150289--150371 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 39
150279 TAGAATCTGT
*
150289 AGGAATTGGAATCCAATTCCATATTCTGTTTGGTTGGCAGGAA
1 AGGAATTGGAATCCAATTCCATATTCTGTTTGGTT--C--GCA
*
150332 ATGGAATTGGAATCCAATTTCATATTCTGTTTGGTTCGCA
1 A-GGAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCA
150372 GACATGCCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
40 2 0.05
42 1 0.03
43 1 0.03
44 33 0.89
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (39 bp):
AGGAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCA
Found at i:150959 original size:37 final size:38
Alignment explanation
Indices: 150875--150959 Score: 145
Period size: 38 Copynumber: 2.3 Consensus size: 38
150865 TCTAAACCCG
*
150875 AACCCGACCAGACCTGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGACCTGACCCGAATATCACACTTAAAAA
*
150913 AATCCGACCCGACCTGACCCGAATATCACACTT-AAAA
1 AACCCGACCCGACCTGACCCGAATATCACACTTAAAAA
150950 AACCCGACCC
1 AACCCGACCC
150960 AACCCAACCT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 13 0.30
38 31 0.70
ACGTcount: A:0.39, C:0.38, G:0.11, T:0.13
Consensus pattern (38 bp):
AACCCGACCCGACCTGACCCGAATATCACACTTAAAAA
Found at i:151192 original size:37 final size:39
Alignment explanation
Indices: 151108--151199 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 39
151098 CCTAAACTCG
151108 AACCCGACCCGA-TCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGACTCCGACCCGAATATCACACTTAAAAA
*
151146 AACCCGACCCGACT-CGACCCGAATATCACAC-TCAAAA
1 AACCCGACCCGACTCCGACCCGAATATCACACTTAAAAA
151183 AACCCGACCCGAC-CCGA
1 AACCCGACCCGACTCCGA
151200 ACAAAATAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
37 21 0.41
38 29 0.57
39 1 0.02
ACGTcount: A:0.37, C:0.41, G:0.12, T:0.10
Consensus pattern (39 bp):
AACCCGACCCGACTCCGACCCGAATATCACACTTAAAAA
Found at i:152851 original size:33 final size:32
Alignment explanation
Indices: 152809--152877 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
152799 CAATTTTTTT
* *
152809 TTTTTAAAAA-ATGTAAACTAAACCCTTTAAAAA
1 TTTTCAAAAATAT-TAAACTAAA-CCTCTAAAAA
**
152842 TTTTCAAAAATATTAATTTAAACCTCTAAAAA
1 TTTTCAAAAATATTAAACTAAACCTCTAAAAA
152874 TTTT
1 TTTT
152878 AAATTTTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 13 0.42
33 16 0.52
34 2 0.06
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (32 bp):
TTTTCAAAAATATTAAACTAAACCTCTAAAAA
Found at i:153050 original size:31 final size:30
Alignment explanation
Indices: 153000--153066 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
152990 AAAATAGGTA
**
153000 AATTATTTATTTAGTCACTCATTTATTATTT
1 AATT-TTTATTTAGTCACTCAACTATTATTT
*
153031 AATTTTTATTTTGGTCACTCAACTATTATTT
1 AATTTTTA-TTTAGTCACTCAACTATTATTT
153062 -ATTTT
1 AATTTT
153067 AAATCACACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.58
Consensus pattern (30 bp):
AATTTTTATTTAGTCACTCAACTATTATTT
Found at i:154530 original size:65 final size:65
Alignment explanation
Indices: 154426--154562 Score: 256
Period size: 65 Copynumber: 2.1 Consensus size: 65
154416 GGAGGGGTGG
*
154426 GCACGTGGGATTTCTTTAAAAAAAATTATTTTTAAAGTTATTAAAATCAAAATTAACAGAAAATA
1 GCACGTGGGATTTCTTTAAAAAAAATTAATTTTAAAGTTATTAAAATCAAAATTAACAGAAAATA
154491 GCACGTGGGATTTCTTTAAAAAAAATTAATTTTAAAGTTATTAAAATCAAAATTAACAGAAAATA
1 GCACGTGGGATTTCTTTAAAAAAAATTAATTTTAAAGTTATTAAAATCAAAATTAACAGAAAATA
*
154556 ACACGTG
1 GCACGTG
154563 TCACCTAACT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (65 bp):
GCACGTGGGATTTCTTTAAAAAAAATTAATTTTAAAGTTATTAAAATCAAAATTAACAGAAAATA
Found at i:156081 original size:18 final size:17
Alignment explanation
Indices: 156046--156088 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
156036 GAAAATATTA
*
156046 AAATAATAAAAGCGATT
1 AAATAATAAAAGCAATT
*
156063 AAATAAGTAAAAGTAATT
1 AAATAA-TAAAAGCAATT
156081 AAA-AATAA
1 AAATAATAA
156089 GAAGATGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (17 bp):
AAATAATAAAAGCAATT
Found at i:156714 original size:23 final size:22
Alignment explanation
Indices: 156687--156730 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
156677 CTTGAAAAAT
156687 AAAAGAAAAATGAAAAGAACTTG
1 AAAAGAAAAATGAAAA-AACTTG
* *
156710 AAAAGTAAAATGAGAAAACTT
1 AAAAGAAAAATGAAAAAACTT
156731 TTATAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.64, C:0.05, G:0.16, T:0.16
Consensus pattern (22 bp):
AAAAGAAAAATGAAAAAACTTG
Found at i:161286 original size:48 final size:48
Alignment explanation
Indices: 161180--161288 Score: 112
Period size: 48 Copynumber: 2.3 Consensus size: 48
161170 TAAACGAGAT
* * *
161180 ATCAGAAATCAAAAAATAATTTAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAAAATAATTTAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
161228 GTTAGGAATCAGAACA-GATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAAAATAATTT-AGATCAGATATCAAAACAGAATCCAA
161276 ATCAGAAATCAGA
1 ATCAGAAATCAGA
161289 TAAAATATTC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
47 4 0.09
48 43 0.91
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAAAATAATTTAGATCAGATATCAAAACAGAATCCAA
Found at i:165329 original size:18 final size:19
Alignment explanation
Indices: 165306--165354 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
165296 GGTAAGAAAA
165306 TATTAAAATAA-TAAAAGC
1 TATTAAAATAAGTAAAAGC
165324 TATT-AAATAAGTAAAAGC
1 TATTAAAATAAGTAAAAGC
*
165342 AATTAAAAATAAG
1 TATT-AAAATAAG
165355 AAGATGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
20 7 0.26
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (19 bp):
TATTAAAATAAGTAAAAGC
Found at i:166579 original size:2 final size:2
Alignment explanation
Indices: 166572--166611 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
166562 AACGGTTTTC
*
166572 TA TA TA TA TA TA TA TA TA TA TA GA T- TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
166612 GTTTTTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:169739 original size:28 final size:28
Alignment explanation
Indices: 169705--169767 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
169695 AAAATGCTAG
169705 ACACCTACTTAAACAAAAAGTTCTTTAA
1 ACACCTACTTAAACAAAAAGTTCTTTAA
*
169733 ACACCTACTTAAACAAAAAGTTTTTTAA
1 ACACCTACTTAAACAAAAAGTTCTTTAA
169761 ACACCTA
1 ACACCTA
169768 AGATAACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (28 bp):
ACACCTACTTAAACAAAAAGTTCTTTAA
Found at i:170075 original size:2 final size:2
Alignment explanation
Indices: 170068--170129 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
170058 TATCATAAAG
*
170068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
170110 TA TA TA TA TA GA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
170130 ACCAAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:170885 original size:57 final size:56
Alignment explanation
Indices: 170816--170987 Score: 197
Period size: 57 Copynumber: 3.0 Consensus size: 56
170806 CATAACCATA
170816 CAACCCCATCACGAACAGTAAGGCCCATAGCACAAAGCGAAGGAACCTGCAAGTATT
1 CAACCCCATCACGAACAGTAAGGCCCATAGCACAAAGCG-AGGAACCTGCAAGTATT
* *
170873 CAACCCCATCACGAACAATAAGGCTCTCA-A-CACAAAGCCTAGGAACCTGCAAGTATT
1 CAACCCCATCACGAACAGTAAGGC-C-CATAGCACAAAG-CGAGGAACCTGCAAGTATT
* ** * * *
170930 CAACCCCGTCAATAACAGTAAGGCTC-TCAGCATAAAGCCGAGGAACCTACAAGTATT
1 CAACCCCATCACGAACAGTAAGGCCCAT-AGCACAAAG-CGAGGAACCTGCAAGTATT
170987 C
1 C
170988 TTCCTCTAAC
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
55 1 0.01
56 1 0.01
57 92 0.93
58 3 0.03
59 2 0.02
ACGTcount: A:0.38, C:0.30, G:0.17, T:0.15
Consensus pattern (56 bp):
CAACCCCATCACGAACAGTAAGGCCCATAGCACAAAGCGAGGAACCTGCAAGTATT
Found at i:171072 original size:24 final size:24
Alignment explanation
Indices: 171045--171108 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
171035 TATATCAAAA
*
171045 ATCAAAACATAGTTCATGTCAAGT
1 ATCAAAACATAATTCATGTCAAGT
* * * * *
171069 ATCAGATCAGAATCCATGTCAGGT
1 ATCAAAACATAATTCATGTCAAGT
*
171093 ATCATAACATAATTCA
1 ATCAAAACATAATTCA
171109 AATCAGAAAT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (24 bp):
ATCAAAACATAATTCATGTCAAGT
Found at i:174892 original size:21 final size:22
Alignment explanation
Indices: 174859--174899 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
174849 TAAACATTCA
*
174859 ATAACAATAATATT-TTATTAT
1 ATAAAAATAATATTATTATTAT
*
174880 ATAAAAATTATATTATTATT
1 ATAAAAATAATATTATTATT
174900 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAAATAATATTATTATTAT
Found at i:174936 original size:14 final size:15
Alignment explanation
Indices: 174917--174948 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
174907 TATTAAAATA
174917 ATTTA-TTCAATATT
1 ATTTATTTCAATATT
174931 ATTTATTTCAATATT
1 ATTTATTTCAATATT
174946 ATT
1 ATT
174949 AAAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTATTTCAATATT
Found at i:175141 original size:13 final size:13
Alignment explanation
Indices: 175123--175147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
175113 TTATTATTAT
175123 TATTATATTAAAA
1 TATTATATTAAAA
175136 TATTATATTAAA
1 TATTATATTAAA
175148 TAAAAATGTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTATATTAAAA
Found at i:175332 original size:49 final size:49
Alignment explanation
Indices: 175246--175367 Score: 131
Period size: 52 Copynumber: 2.4 Consensus size: 49
175236 TATTAATTTT
* *
175246 TAATAATTTATTATATATATTAAAATAAAATATAATAT-C-ATATTTATAATA
1 TAATAATATATTATA-ATATT--AAT-AAATATAATATACAATATTAATAATA
* *
175297 TAATGAATATATTCATAATATTAATAAATATAATATAACAATATTAATATTT
1 TAAT-AATATATT-ATAATATTAATAAATATAATAT-ACAATATTAATAATA
175349 TAATAATATATTATAATAT
1 TAATAATATATTATAATAT
175368 ATTAATATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
49 11 0.18
50 10 0.16
51 13 0.21
52 25 0.40
53 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (49 bp):
TAATAATATATTATAATATTAATAAATATAATATACAATATTAATAATA
Found at i:175344 original size:29 final size:27
Alignment explanation
Indices: 175312--175376 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
175302 AATATATTCA
175312 TAATATTAATAAATATAATATAACAATAT
1 TAATATTAAT-AATATAATATAA-AATAT
* *
175341 TAATATTTTAATAATATATTATAATATAT
1 TAATA--TTAATAATATAATATAAAATAT
175370 TAATATT
1 TAATATT
175377 TTAGTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 2 0.06
29 14 0.44
30 11 0.34
31 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATATTAATAATATAATATAAAATAT
Found at i:175378 original size:29 final size:30
Alignment explanation
Indices: 175293--175379 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
175283 TCATATTTAT
* * *
175293 AATATAAT-GAATATATTCATAATATTAATA
1 AATATAATATAATATATTAAT-ATTTTAATA
*
175323 AATATAATATAACAATATTAATATTTTAAT-
1 AATATAATATAA-TATATTAATATTTTAATA
*
175353 AATATATTATAATATATTAATATTTTA
1 AATATAATATAATATATTAATATTTTA
175380 GTATTTTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 14 0.29
30 19 0.39
31 9 0.18
32 7 0.14
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (30 bp):
AATATAATATAATATATTAATATTTTAATA
Found at i:175441 original size:20 final size:20
Alignment explanation
Indices: 175386--175441 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
175376 TTTAGTATTT
*
175386 TATTAATTTAATATGAAAATAA
1 TATTATTTTAA-AT-AAAATAA
*
175408 TATTAATATT-AATAAAATAA
1 TATT-ATTTTAAATAAAATAA
175428 TATTATTTTAAATA
1 TATTATTTTAAATA
175442 TTTATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.14
20 15 0.52
21 2 0.07
22 5 0.17
23 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTATTTTAAATAAAATAA
Found at i:183121 original size:2 final size:2
Alignment explanation
Indices: 183114--183191 Score: 149
Period size: 2 Copynumber: 39.5 Consensus size: 2
183104 TGCTCTCATA
183114 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
183156 AT AT AT AT AT AT AT AT AT AT AT A- 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
183192 CATACTTTTC
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:185058 original size:30 final size:30
Alignment explanation
Indices: 185019--185084 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
185009 TTAGAAAATC
185019 ATTTGGAAAATCTTAAAATCCATTTAACTTA
1 ATTT-GAAAATCTTAAAATCCATTTAACTTA
185050 ATTTGAAAATCTTAAAATCCATTTAACTTA
1 ATTTGAAAATCTTAAAATCCATTTAACTTA
185080 ATTTG
1 ATTTG
185085 TTATATCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTGAAAATCTTAAAATCCATTTAACTTA
Found at i:187385 original size:21 final size:21
Alignment explanation
Indices: 187359--187398 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
187349 CAGAACCCCA
*
187359 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
187380 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
187399 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:193474 original size:30 final size:30
Alignment explanation
Indices: 193435--193500 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
193425 TTAGAAAATC
193435 ATTTGGAAAATCTTAAAATCCATTTAACTTA
1 ATTT-GAAAATCTTAAAATCCATTTAACTTA
193466 ATTTGAAAATCTTAAAATCCATTTAACTTA
1 ATTTGAAAATCTTAAAATCCATTTAACTTA
193496 ATTTG
1 ATTTG
193501 TTATATCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTGAAAATCTTAAAATCCATTTAACTTA
Found at i:198500 original size:28 final size:27
Alignment explanation
Indices: 198445--198497 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
198435 ATCAATTTTA
*
198445 TGAAAAATATAAAATTAATGACTAAAT
1 TGAAAAATATAAAATTAATAACTAAAT
*
198472 TGAACAAATATAAAATT-ATAAGTAAA
1 TGAA-AAATATAAAATTAATAACTAAA
198498 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (27 bp):
TGAAAAATATAAAATTAATAACTAAAT
Found at i:199007 original size:2 final size:2
Alignment explanation
Indices: 198996--199177 Score: 123
Period size: 2 Copynumber: 92.5 Consensus size: 2
198986 TTGAAACAAT
198996 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * * *
199038 -A CTA TG TA TA TA AA CTA TA TA GTT TA TA TT TA TA T- TA T- TA
1 TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * *
199078 TA AA CTA TA TA T- TA TA TA TC TA AA T- TA TA TA GTT TA TA TT TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
199120 TA T- TA T- TA -A TG TA AA T- TA TA TA TA AA CTA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
199159 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
199178 TATGTATAAA
Statistics
Matches: 139, Mismatches: 24, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
1 10 0.07
2 122 0.88
3 7 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:199112 original size:50 final size:52
Alignment explanation
Indices: 199007--199192 Score: 173
Period size: 55 Copynumber: 3.5 Consensus size: 52
198997 ATAATATATA
* * * *
199007 TATATATATATATATATATATA-TATATATGAACTATGTATATAAACTATATAGTT
1 TATATTTATAT-TAT-TATAAACTATATATAAACTA--TATATAAATTATATAGTT
* *
199062 TATATTTATATTATTATAAACTATATAT-TA-TATATCTAAATTATATAGTT
1 TATATTTATATTATTATAAACTATATATAAACTATATATAAATTATATAGTT
* * *
199112 TATATTTATATTATTAATGTAAATTATATATAAACTATATATATATATATATA-TA
1 TATATTTATATTATT-A--TAAACTATATATAAACTATATATAAAT-TATATAGTT
*
199167 TATATATATATTATGTATAAACTATA
1 TATATTTATATTAT-TATAAACTATA
199193 GAGTTTATAT
Statistics
Matches: 111, Mismatches: 12, Indels: 18
0.79 0.09 0.13
Matches are distributed among these distances:
50 31 0.28
51 1 0.01
52 2 0.02
53 25 0.23
54 11 0.10
55 34 0.31
56 7 0.06
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (52 bp):
TATATTTATATTATTATAAACTATATATAAACTATATATAAATTATATAGTT
Found at i:199247 original size:22 final size:20
Alignment explanation
Indices: 199072--199271 Score: 117
Period size: 20 Copynumber: 9.7 Consensus size: 20
199062 TATATTTATA
199072 TTAT-TATAAACTATATA-T
1 TTATATATAAACTATATAGT
* *
199090 TATATATCTAAATTATATAGT
1 T-TATATATAAACTATATAGT
* * *
199111 TTATATTTATATTAT-TAATGT
1 TTATATATAAACTATAT-A-GT
199132 AAATTATATATAAACTATATA-T
1 ---TTATATATAAACTATATAGT
199154 ATATATATATATATA-TATATA-T
1 -T-TATATATA-A-ACTATATAGT
* *
199176 ATTATGTATAAACTATAGAGT
1 -TTATATATAAACTATATAGT
* * * *
199197 TTATATCTGAACTAT-TGGA
1 TTATATATAAACTATATAGT
*
199216 CTATATATAAACTATATAGT
1 TTATATATAAACTATATAGT
*
199236 TTATTAATATAAATTATATAGT
1 TTA-T-ATATAAACTATATAGT
199258 TTATATATAAACTA
1 TTATATATAAACTA
199272 AATATGAATT
Statistics
Matches: 142, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.01
19 18 0.13
20 57 0.40
21 22 0.15
22 29 0.20
23 1 0.01
24 13 0.09
25 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATATATAAACTATATAGT
Found at i:199291 original size:42 final size:41
Alignment explanation
Indices: 199217--199296 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
199207 ACTATTGGAC
* **
199217 TATATATAAACTATATAGTTTATTAATATAAATTATATAGTT
1 TATATATAAACTAAATAGTGAATTAATATAAA-TATATAGTT
*
199259 TATATATAAACTAAATA-TGAATTATATTTAAATATATA
1 TATATATAAACTAAATAGTGAATTA-ATATAAATATATA
199297 CAACTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 11 0.33
42 22 0.67
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (41 bp):
TATATATAAACTAAATAGTGAATTAATATAAATATATAGTT
Found at i:199399 original size:20 final size:19
Alignment explanation
Indices: 199319--199392 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
199309 ATATGTTATG
*
199319 TATAATTATAAAGTATATA
1 TATAAATATAAAGTATATA
** *
199338 TACTATGTATAAATTATATA
1 TA-TAAATATAAAGTATATA
*
199358 GTTTAAATATAAAGTATATA
1 -TATAAATATAAAGTATATA
199378 TATAAACTATAAAGT
1 TATAAA-TATAAAGT
199393 GTGTATAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.16
20 36 0.82
21 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.41
Consensus pattern (19 bp):
TATAAATATAAAGTATATA
Found at i:200584 original size:17 final size:18
Alignment explanation
Indices: 200562--200595 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
200552 AATATGAATG
200562 CAACATGAA-ATGCAATT
1 CAACATGAACATGCAATT
200579 CAACATGAACATGCAAT
1 CAACATGAACATGCAAT
200596 ACTAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (18 bp):
CAACATGAACATGCAATT
Found at i:200837 original size:2 final size:2
Alignment explanation
Indices: 200830--200923 Score: 95
Period size: 2 Copynumber: 47.0 Consensus size: 2
200820 CACCATCCGG
* * * *
200830 AT AT AT AT AT AT AT AA AGT AT A- AT -T AT AA AG ACT AA AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT
*
200872 A- AGT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
200914 AT AT AT AT AT
1 AT AT AT AT AT
200924 TTATTTATTT
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
1 3 0.04
2 71 0.92
3 3 0.04
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:201031 original size:22 final size:20
Alignment explanation
Indices: 200960--201200 Score: 99
Period size: 20 Copynumber: 12.2 Consensus size: 20
200950 TCTCTCTCTA
*
200960 TATATATATAAAGTATAAAAG
1 TATAAATATAAAGTAT-AAAG
200981 TAT-AATATAAAGTATAAAG
1 TATAAATATAAAGTATAAAG
*
201000 TATAATTATAAAG-ACTAAAG
1 TATAAATATAAAGTA-TAAAG
*
201020 TAT--ATA-AATA-TATAAAA
1 TATAAATATAA-AGTATAAAG
*
201037 TACAATATATAAAGTAT--A-
1 TATAA-ATATAAAGTATAAAG
*
201055 TATACATATATAAGTAT---G
1 TATAAATATA-AAGTATAAAG
*
201073 TATAAATATATAAACTATAAAG
1 TAT-AA-ATATAAAGTATAAAG
*
201095 TATCAAAGTATATAAGTATATA-
1 TAT-AAA-TATA-AAGTATAAAG
201117 TA-AAATATATAAGTATTAAA-
1 TATAAATATA-AAGTA-TAAAG
*
201137 TATAAGTATATAAGTATATATA-
1 TATAAATATA-AAGTATA-A-AG
*
201159 TATAGACTATAAAGTAT---G
1 TATA-AATATAAAGTATAAAG
* *
201177 TATATATATATA-TATAAAG
1 TATAAATATAAAGTATAAAG
201196 TATAA
1 TATAA
201201 GTGTATATTT
Statistics
Matches: 174, Mismatches: 19, Indels: 56
0.70 0.08 0.22
Matches are distributed among these distances:
16 3 0.02
17 18 0.10
18 20 0.11
19 30 0.17
20 46 0.26
21 22 0.13
22 23 0.13
23 12 0.07
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (20 bp):
TATAAATATAAAGTATAAAG
Found at i:201033 original size:8 final size:8
Alignment explanation
Indices: 201015--201162 Score: 76
Period size: 8 Copynumber: 18.0 Consensus size: 8
201005 TTATAAAGAC
201015 TAAAGTATA
1 TAAA-TATA
201024 TAAATATA
1 TAAATATA
201032 TAAA-ATA
1 TAAATATA
*
201039 -CAATATA
1 TAAATATA
201046 TAAAGTATA
1 TAAA-TATA
201055 TATACATATA
1 TA-A-ATATA
*
201065 TAAGTATGTA
1 TAA--ATATA
201075 TAAATATA
1 TAAATATA
201083 TAAACTATA
1 TAAA-TATA
*
201092 -AAGTATCA
1 TAAATAT-A
*
201100 -AAGTATA
1 TAAATATA
201107 TAAGTATATA
1 TAA--ATATA
201117 TAAAATATA
1 T-AAATATA
*
201126 TAAGTAT-
1 TAAATATA
201133 T-AA-ATA
1 TAAATATA
*
201139 TAAGTATA
1 TAAATATA
*
201147 TAAGTATA
1 TAAATATA
*
201155 TATATATA
1 TAAATATA
201163 GACTATAAAG
Statistics
Matches: 112, Mismatches: 12, Indels: 31
0.72 0.08 0.20
Matches are distributed among these distances:
5 2 0.02
6 4 0.04
7 12 0.11
8 51 0.46
9 21 0.19
10 19 0.17
11 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (8 bp):
TAAATATA
Found at i:201107 original size:42 final size:39
Alignment explanation
Indices: 201061--201199 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 39
201051 TATATATACA
201061 TATATAAGTATGTATAAATATATAAACTATAAAGTATCAAAG
1 TATATAAGTAT-TATAAATATATAAACTATAAAGTAT--AAG
*
201103 TATATAAGTATATATAAA-ATATATAAGTATTAAA-TATAAG
1 TATATAAGTAT-TATAAATATATA-AACTA-TAAAGTATAAG
*
201143 TATATAAGTA-TAT--ATATATAGACTATAAAGTAT--G
1 TATATAAGTATTATAAATATATAAACTATAAAGTATAAG
201177 TATATATA-TATATATAAAGTATA
1 TATATA-AGTAT-TATAAA-TATA
201200 AGTGTATATT
Statistics
Matches: 83, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
34 9 0.11
35 5 0.06
36 10 0.12
37 5 0.06
38 4 0.05
39 4 0.05
40 13 0.16
41 5 0.06
42 24 0.29
43 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (39 bp):
TATATAAGTATTATAAATATATAAACTATAAAGTATAAG
Found at i:201155 original size:40 final size:42
Alignment explanation
Indices: 201027--201158 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 42
201017 AAGTATATAA
* * *
201027 ATATATAAAATACA-ATA-TATAAAGTATATATACATATATAAGT
1 ATATATAAAATATATAAACTATAAAGTATA-A-A-GTATATAAGT
*
201070 ATGTAT-AAATATATAAACTATAAAGTATCAAAGTATATAAGT
1 ATATATAAAATATATAAACTATAAAGTAT-AAAGTATATAAGT
*
201112 ATATATAAAATATAT-AAGTATTAAA-TAT-AAGTATATAAGT
1 ATATATAAAATATATAAACTA-TAAAGTATAAAGTATATAAGT
201152 ATATATA
1 ATATATA
201159 TATAGACTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
40 19 0.24
42 27 0.35
43 20 0.26
44 11 0.14
45 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (42 bp):
ATATATAAAATATATAAACTATAAAGTATAAAGTATATAAGT
Found at i:201308 original size:20 final size:21
Alignment explanation
Indices: 201279--201318 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
201269 AAACTCTCTC
201279 TATATAATATA-TTTATACTT
1 TATATAATATACTTTATACTT
*
201299 TATATTATATACTTTATACT
1 TATATAATATACTTTATACT
201319 AAAACTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATAATATACTTTATACTT
Found at i:201311 original size:14 final size:14
Alignment explanation
Indices: 201286--201337 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
201276 CTCTATATAA
201286 TATATT-TATACTT
1 TATATTATATACTT
201299 TATATTATATACTT
1 TATATTATATACTT
* *
201313 TATACTA-AAACTT
1 TATATTATATACTT
201326 TATATATATATA
1 TATAT-TATATA
201338 TATAAGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 15 0.47
14 15 0.47
15 2 0.06
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATTATATACTT
Done.