Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2601
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: 138353
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
File 1 of 2
Found at i:6998 original size:14 final size:13
Alignment explanation
Indices: 6978--7040 Score: 74
Period size: 13 Copynumber: 4.7 Consensus size: 13
6968 ACCTTCTCTT
*
6978 CAAAAAAAAAGAG
1 CAAAAAAAAAAAG
6991 CAAAAAAAAAAAG
1 CAAAAAAAAAAAG
*
7004 CAAAAAAAAAAAAA
1 C-AAAAAAAAAAAG
7018 CAAAAAAACAAAA-
1 CAAAAAAA-AAAAG
7031 CAAAGAAAAA
1 CAAA-AAAAA
7041 GAGAGAAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 25 0.56
14 20 0.44
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAG
Found at i:6999 original size:15 final size:14
Alignment explanation
Indices: 6979--7040 Score: 74
Period size: 14 Copynumber: 4.6 Consensus size: 14
6969 CCTTCTCTTC
*
6979 AAAAAAAAAGAGC-
1 AAAAAAAAAAAGCA
6992 AAAAAAAAAAAGCA
1 AAAAAAAAAAAGCA
*
7006 AAAAAAAAAAAACA
1 AAAAAAAAAAAGCA
*
7020 AAAAAACAAAA-CA
1 AAAAAAAAAAAGCA
*
7033 AAGAAAAA
1 AAAAAAAA
7041 GAGAGAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
13 20 0.47
14 23 0.53
ACGTcount: A:0.85, C:0.08, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGCA
Found at i:7008 original size:8 final size:8
Alignment explanation
Indices: 6992--7040 Score: 50
Period size: 7 Copynumber: 6.4 Consensus size: 8
6982 AAAAAAGAGC
6992 AAAAA-AA
1 AAAAACAA
*
6999 AAAAGC-A
1 AAAAACAA
7006 AAAAA-AA
1 AAAAACAA
7013 AAAAACAA
1 AAAAACAA
7021 AAAAACAA
1 AAAAACAA
*
7029 AACAAAGAA
1 AA-AAACAA
7038 AAA
1 AAA
7041 GAGAGAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
7 15 0.43
8 13 0.37
9 7 0.20
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (8 bp):
AAAAACAA
Found at i:7049 original size:27 final size:25
Alignment explanation
Indices: 6978--7049 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
6968 ACCTTCTCTT
6978 CAAAAAAAAAGAGCAAAAAAAAAAAG
1 CAAAAAAAAAGAG-AAAAAAAAAAAG
* * *
7004 CAAAAAAAAAAAAACAAAAAAACAAAA
1 CAAAAAAAAAGAGA-AAAAAAA-AAAG
* *
7031 CAAAGAAAAAGAGAGAAAA
1 CAAAAAAAAAGAGAAAAAA
7050 GGAAAAGAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.03
26 22 0.59
27 14 0.38
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (25 bp):
CAAAAAAAAAGAGAAAAAAAAAAAG
Found at i:8110 original size:55 final size:55
Alignment explanation
Indices: 8024--8706 Score: 919
Period size: 55 Copynumber: 12.3 Consensus size: 55
8014 TCCGCTTTTT
*
8024 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * ** *
8079 AATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
**
8134 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
8195 AGTCCTCAAAGAGCAGGACACCTTTCAAATCCCACACAAGTTGGTGGTA--TTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
8249 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
8304 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
8359 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
8414 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
8468 TAGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 -AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
8524 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
8579 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * ** * *
8634 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
8689 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
8707 TACAATTTAT
Statistics
Matches: 566, Mismatches: 48, Indels: 28
0.88 0.07 0.04
Matches are distributed among these distances:
53 3 0.01
54 56 0.10
55 442 0.78
56 15 0.03
57 1 0.00
59 1 0.00
60 5 0.01
61 43 0.08
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:8366 original size:29 final size:29
Alignment explanation
Indices: 8334--8421 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
8324 CCTCTTAAAG
8334 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * *
8363 CCCA-A-AGAG-CAG-GACACCTCTTAAAG--
1 CCCACACA-AGTTGGTGGCACCT-TT-CAGTC
8389 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
8418 CCCA
1 CCCA
8422 AAGAGCAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
26 10 0.24
27 9 0.21
28 9 0.21
29 14 0.33
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:8634 original size:29 final size:29
Alignment explanation
Indices: 8487--8634 Score: 71
Period size: 29 Copynumber: 5.3 Consensus size: 29
8477 AAGAACAGGA
*
8487 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
* * * * * * *
8516 CA-TTTTC-CAGTCCTCA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
8542 CACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CACCT-TTCAAAGCCCACACAAGTGGGTGG
** * * *
8571 CACCTTTC-ATTCCC-CA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
8597 CACTTTTCAAAGCCCACACAAGTGGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
8626 CACCTTTCA
1 CACCTTTCA
8635 GTCCTCAAAG
Statistics
Matches: 78, Mismatches: 29, Indels: 24
0.60 0.22 0.18
Matches are distributed among these distances:
26 17 0.22
27 15 0.19
28 22 0.28
29 24 0.31
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTGGGTGG
Found at i:9335 original size:21 final size:21
Alignment explanation
Indices: 9311--9367 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
9301 AAAAAATTTA
9311 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
9332 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
9353 AATGTATCGATACAT
1 AATGTATCGATACAT
9368 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:9447 original size:19 final size:19
Alignment explanation
Indices: 9423--9490 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
9413 AATTCAACAA
9423 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
9442 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
9457 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
9474 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
9491 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:9462 original size:13 final size:13
Alignment explanation
Indices: 9444--9468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9434 ACATAAGTTT
9444 TGTATCGATACAA
1 TGTATCGATACAA
9457 TGTATCGATACA
1 TGTATCGATACA
9469 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9466 original size:32 final size:32
Alignment explanation
Indices: 9425--9487 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
9415 TTCAACAATT
*
9425 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
9457 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
9488 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:9548 original size:13 final size:13
Alignment explanation
Indices: 9530--9588 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
9520 CATTTTTTTG
9530 TGTATCGATACAT
1 TGTATCGATACAT
9543 TGTATCGATACA-
1 TGTATCGATACAT
*
9555 TG----GAT-CTT
1 TGTATCGATACAT
9563 TGTATCGATACAT
1 TGTATCGATACAT
9576 TGTATCGATACAT
1 TGTATCGATACAT
9589 GGATCTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
7 1 0.03
8 5 0.13
12 5 0.13
13 27 0.71
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:9552 original size:33 final size:33
Alignment explanation
Indices: 9530--9609 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
9520 CATTTTTTTG
9530 TGTATCGATACATTGTATCGATACATGGATCTT
1 TGTATCGATACATTGTATCGATACATGGATCTT
9563 TGTATCGATACATTGTATCGATACATGGATCTT
1 TGTATCGATACATTGTATCGATACATGGATCTT
9596 TGTATCGATACATT
1 TGTATCGATACATT
9610 CGGAAATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACATGGATCTT
Found at i:9567 original size:20 final size:20
Alignment explanation
Indices: 9542--9608 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
9532 TATCGATACA
9542 TTGTATCGATACATGGATCT
1 TTGTATCGATACATGGATCT
9562 TTGTATCGATAC----A---
1 TTGTATCGATACATGGATCT
9575 TTGTATCGATACATGGATCT
1 TTGTATCGATACATGGATCT
9595 TTGTATCGATACAT
1 TTGTATCGATACAT
9609 TCGGAAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.30
16 1 0.03
17 1 0.03
20 26 0.65
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATGGATCT
Found at i:12131 original size:28 final size:27
Alignment explanation
Indices: 12064--12136 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
12054 CTTCACAATC
* *
12064 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
12091 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
12119 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
12137 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:12181 original size:51 final size:50
Alignment explanation
Indices: 12119--12289 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 50
12109 TTATTTCTGA
* * *
12119 GGGGATACTCCAACCCCGACTTTATTTTCAAGATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAA-ATACCAATTTTTCATAATC
* * * *
12170 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCA-AATACCAATTT-TTC-ATAATC
** * *
12223 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC--AAATACCAATTTTTCATAATC
*
12275 GAGGATACTCCAACC
1 GGGGATACTCCAACC
12290 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
51 35 0.36
52 19 0.20
53 32 0.33
54 10 0.10
55 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAATACCAATTTTTCATAATC
Found at i:12308 original size:28 final size:28
Alignment explanation
Indices: 12272--12353 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
12262 ATTTTTCACA
*
12272 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
12300 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
12328 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
12354 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:14535 original size:21 final size:21
Alignment explanation
Indices: 14506--14550 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14496 AAGTTTTCAT
*
14506 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
14526 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
14548 TTT
1 TTT
14551 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:16786 original size:13 final size:13
Alignment explanation
Indices: 16768--16793 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16758 CAATTTTTGG
16768 TGTATCGATACAT
1 TGTATCGATACAT
16781 TGTATCGATACAT
1 TGTATCGATACAT
16794 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16805 original size:32 final size:33
Alignment explanation
Indices: 16748--16811 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
16738 TACAAGCCAA
**
16748 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
16781 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
16812 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:16818 original size:19 final size:18
Alignment explanation
Indices: 16748--16818 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
16738 TACAAGCCAA
16748 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
16768 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
16781 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
16800 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
16819 CTACTACCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:22665 original size:17 final size:17
Alignment explanation
Indices: 22643--22681 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22633 AAAAAAAGGC
*
22643 CAAAAAAAAAGAAAAAAA
1 CAAAAAAAAA-AACAAAA
*
22661 CAAAACAAAAAACAAAA
1 CAAAAAAAAAAACAAAA
22678 CAAA
1 CAAA
22682 GAAGAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.85, C:0.13, G:0.03, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAACAAAA
Found at i:23920 original size:176 final size:175
Alignment explanation
Indices: 23661--24355 Score: 800
Period size: 176 Copynumber: 4.1 Consensus size: 175
23651 GCTTTTTAGC
* *
23661 CCTCAAAGAGC-AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTC
1 CCTCAAAGAGCGA-GACGCCTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTC
23725 AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAG
64 AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAG
**
23789 GACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGT
128 GACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
* * *
23837 CCTCAAACAGCGAGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCCA
1 CCTCAAAGAGCGAGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCA
* * *
23902 AAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAATCCTCAAAGAGCAAG
65 AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGG
23966 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
129 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
* * * *
24013 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAA
1 CCTCAAAGAGCGAGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
** * *
24078 AGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
66 AGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAG
* ** *
24143 TAGGA---C--C-CCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCTAGT
125 CAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
* *
24188 CCTCAAAGAGC-AGGAC-AC----CTTTCAAAGCCCATACAAGTTGGTGG------CA-TCCTCA
1 CCTCAAAGAGCGA-GACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
* * *
24240 AAGAGCATGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
65 AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
* * *
24305 CACCTT-T-C----AAAGCCCACACGAGTTGGTGGCACTTTT-TAGT
130 CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGT
24345 CCTCAAAGAGC
1 CCTCAAAGAGC
24356 AGGATACACT
Statistics
Matches: 461, Mismatches: 41, Indels: 53
0.83 0.07 0.10
Matches are distributed among these distances:
157 81 0.18
158 8 0.02
160 1 0.00
161 2 0.00
163 15 0.03
164 2 0.00
170 23 0.05
174 1 0.00
175 96 0.21
176 183 0.40
177 2 0.00
178 1 0.00
180 5 0.01
181 38 0.08
182 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (175 bp):
CCTCAAAGAGCGAGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
AGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAC
GCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
Found at i:23959 original size:55 final size:54
Alignment explanation
Indices: 23684--24359 Score: 618
Period size: 55 Copynumber: 12.0 Consensus size: 54
23674 GATGCCTTTT
*
23684 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACC
23738 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAGGA---C--C
* *
23798 TCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAACAGC-GAGACGC
1 -CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAG-GAC-C
* *
23855 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAGAGCAGGACC
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCA-C-TTCCAGTCCTCAAAGAGCAGGACC
* *
23914 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAAGACGCCTTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGC-AG--GAC--C
* *
23974 TCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGCC
1 -CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGA--CC
* * *
24032 TTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCTTTT
1 ---CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGA--C---C
* * * *
24094 TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGTAGGACC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACC
** * * *
24150 CCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACC
* * * *
24205 CCTTTCAAAGCCCATACAAGTTGGTGG------CA-TCCTCAAAGAGCATGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACC
* * *
24252 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACC
* * **
24307 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCAGTCCTCAAAGAGCAGGA
24360 TACACTTTAT
Statistics
Matches: 530, Mismatches: 49, Indels: 85
0.80 0.07 0.13
Matches are distributed among these distances:
47 41 0.08
48 1 0.00
53 5 0.01
54 35 0.07
55 187 0.35
56 7 0.01
57 1 0.00
58 6 0.01
59 30 0.06
60 102 0.19
61 111 0.21
62 4 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (54 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACC
Found at i:24262 original size:47 final size:47
Alignment explanation
Indices: 24187--24335 Score: 183
Period size: 47 Copynumber: 3.0 Consensus size: 47
24177 CATTTTCTAG
*
24187 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCATACAAGTTGGTGGCA
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
24234 TCCTCAAAGAGCATGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCA
1 TCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGG-------CA
*
24288 GTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
24336 CTTTTTAGTC
Statistics
Matches: 88, Mismatches: 4, Indels: 19
0.79 0.04 0.17
Matches are distributed among these distances:
47 40 0.45
48 4 0.05
54 4 0.05
55 40 0.45
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (47 bp):
TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:25834 original size:27 final size:25
Alignment explanation
Indices: 25804--25879 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 25
25794 TTTCTTCACA
25804 ATCGGGGATACTCCAACCCCGTTAAT
1 ATCGGGGATACTCCAACCCCGTT-AT
*
25830 CATCGGGGATACTCCAATCCCGTTAT
1 -ATCGGGGATACTCCAACCCCGTTAT
*
25856 TTCCGAAGGGATACTCCAACCCCG
1 AT-CG--GGGATACTCCAACCCCG
25880 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 22 0.51
28 16 0.37
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (25 bp):
ATCGGGGATACTCCAACCCCGTTAT
Found at i:25998 original size:52 final size:52
Alignment explanation
Indices: 25698--26346 Score: 378
Period size: 51 Copynumber: 12.4 Consensus size: 52
25688 AATTCTCCAC
* ** * *
25698 AATCGGGGATATTCCAACTTCGATTTTATTTTC-AAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
* * *
25749 AATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAACACCAATTT-TTCAT
* * *** * * **
25803 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAATCCCGTT-AT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACACCAAT--TTTTCAT
* * * ***
25856 -TTCCGAAGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTTCAT
1 AAT-CG--GGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * * *
25909 AATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT-CAT
* * * * * *
25961 AATTGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTCTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
* * *
26013 AATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAACACCAATTT-TTCAT
* * *** * * ***
26067 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTT-AT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACACCAA--TTTTTCAT
* * * * **
26120 -TTCCGAGGGGTACTCCAACCCCGACTTTATTTCC-AAAATATTAATTTTTCAT
1 AAT-CG-GGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * *
26172 AATCGGGGATACTCCAACCCC-AGTTTTA-TTGCTAAAACACTAATTTTCCAT
1 AATCGGGGATACTCCAACCCCGA-TTTTATTTCCAAAAACACCAATTTTTCAT
* * * * *
26223 AATTGGGGATACTCCAACCCTGATTTTATTTTC-AAAACACCAATTTTCCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTT-TC-AT
* * *
26276 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCAT
*
26328 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
26347 TCATTATTTC
Statistics
Matches: 455, Mismatches: 104, Indels: 77
0.72 0.16 0.12
Matches are distributed among these distances:
50 7 0.02
51 136 0.30
52 108 0.24
53 77 0.17
54 93 0.20
55 24 0.05
56 6 0.01
57 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCAT
Found at i:26153 original size:30 final size:28
Alignment explanation
Indices: 26071--26142 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
26061 CTTCACAATC
* ***
26071 GGGGATACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
26098 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
26126 GGGG-TACTCCAACCCCG
1 GGGGATACTCCAACCCCG
26143 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 34 0.85
28 6 0.15
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:26180 original size:263 final size:261
Alignment explanation
Indices: 25688--26456 Score: 1218
Period size: 263 Copynumber: 2.9 Consensus size: 261
25678 TGAGTTTCTC
* * * ** * * *
25688 AATTCTCCACAATCGGGGATATTCCAACTTCGATTTTATTTTCAAAACACTAATTTTCTATAATC
1 AATTTTCCACAATTGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTTTAATC
25753 GGGGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
66 GGGGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
* *
25818 AACCCCGTTAATCATCGGGGATACTCCAATCCCGTTATTTCCGAAGGGATACTCCAACCCCGACT
131 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCG-AGGGGTACTCCAACCCCGACT
25883 TTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACA
195 TTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACA
25948 CT
260 CT
*
25950 AATTTTTCCACAATTGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTCTCCTTTAA
1 AA-TTTTCCACAATTGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATT-TCCTTTAA
26015 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACT
64 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACT
26080 CCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGTACTCCAACCCCGAC
129 CCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGTACTCCAACCCCGAC
* *
26145 TTTATTTCCAAAATATTAATTTTTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAAC
194 TTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAAC
26210 ACT
259 ACT
* *
26213 AATTTTCCATAATTGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTCCCTTTAA
1 AATTTTCCACAATTGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTT-CCTTTAA
* * *
26278 TCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACT
64 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACT
* * * *
26341 CCAACCTCATTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCG
129 CCAACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGG-TACTCCAACCCCG
* * * * *
26406 GCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTTCAACCCCG
192 ACTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCG
26457 TTATTTTTGA
Statistics
Matches: 471, Mismatches: 30, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
261 27 0.06
262 100 0.21
263 229 0.49
264 115 0.24
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (261 bp):
AATTTTCCACAATTGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTTTAATC
GGGGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGTACTCCAACCCCGACTT
TATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACAC
T
Found at i:26365 original size:28 final size:28
Alignment explanation
Indices: 26329--26404 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
26319 ATTTTTCACA
* * *
26329 ATCGAGGATACTCCAACCTCATTATTTC
1 ATCGGGGATACTCCAACCCCATTACTTC
*
26357 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCATTACTTC
***
26385 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
26405 GGCTTTATTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTACTTC
Found at i:26484 original size:28 final size:29
Alignment explanation
Indices: 26439--26493 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
26429 TCTCATAATT
*
26439 GGGGATACTTCAACCCCG-TTATTTTTGA
1 GGGGATACTCCAACCCCGATTATTTTTGA
* *
26467 GGGGATACTCCAATCCCGATTTTTTTT
1 GGGGATACTCCAACCCCGATTATTTTT
26494 CTAATCATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTTGA
Found at i:26537 original size:78 final size:79
Alignment explanation
Indices: 26359--26562 Score: 223
Period size: 78 Copynumber: 2.6 Consensus size: 79
26349 ATTATTTCAT
* * *
26359 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
26424 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * ** *
26438 TGGGGATACTTCAACCCCGTTATTTTTGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
26501 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
26516 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
26563 TTATTATCTC
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
77 3 0.03
78 58 0.57
79 40 0.40
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:27594 original size:34 final size:34
Alignment explanation
Indices: 27539--27604 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
27529 TGACAGTTAC
* *
27539 CTTTAAGGCAAAGGTATAACCTTACAA-CACTAT
1 CTTTAAGGCAAAGATAGAACCTTACAATCACTAT
* *
27572 CTTTCAAGGCTAAGATAGAACCTTTCAATCACT
1 CTTT-AAGGCAAAGATAGAACCTTACAATCACT
27605 CCAAGAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 4 0.15
34 19 0.70
35 4 0.15
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (34 bp):
CTTTAAGGCAAAGATAGAACCTTACAATCACTAT
Found at i:28166 original size:33 final size:33
Alignment explanation
Indices: 28115--28178 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
28105 ATAATTCATG
*
28115 GTGTATCAATACAAAGCAATTTGTATTGATACA
1 GTGTATCAATACAAAGCAATTTATATTGATACA
* **
28148 GTGTATCGATACTTAGCAATTTATATTGATA
1 GTGTATCAATACAAAGCAATTTATATTGATA
28179 AATCTGGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (33 bp):
GTGTATCAATACAAAGCAATTTATATTGATACA
Found at i:28313 original size:22 final size:22
Alignment explanation
Indices: 28279--28321 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
28269 TATAGTAAGT
28279 ATTTTTACTTTGAAAAACATTA
1 ATTTTTACTTTGAAAAACATTA
28301 ATTTATTAC-TTGAAAAACATT
1 ATTT-TTACTTTGAAAAACATT
28322 TAGACTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTTTTACTTTGAAAAACATTA
Found at i:28981 original size:12 final size:12
Alignment explanation
Indices: 28964--28989 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28954 CCCCTATGTG
28964 TTATAAACCAAA
1 TTATAAACCAAA
28976 TTATAAACCAAA
1 TTATAAACCAAA
28988 TT
1 TT
28990 TATGCACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (12 bp):
TTATAAACCAAA
Found at i:30530 original size:21 final size:21
Alignment explanation
Indices: 30504--30562 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
30494 ACTGCCAAGG
30504 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
30525 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
*
30546 AAATGTCTCGATACATT
1 AAATGTATCGATACATT
30563 GTATCGATAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:30571 original size:13 final size:13
Alignment explanation
Indices: 30553--30577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30543 CTCAAATGTC
30553 TCGATACATTGTA
1 TCGATACATTGTA
30566 TCGATACATTGT
1 TCGATACATTGT
30578 TCTTTGTATC
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TCGATACATTGTA
Found at i:41659 original size:52 final size:52
Alignment explanation
Indices: 41581--41709 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
41571 CGAAATATGA
41581 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGC
* *
41633 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGC
41685 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
41710 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGC
Found at i:41720 original size:52 final size:51
Alignment explanation
Indices: 41581--41729 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
41571 CGAAATATGA
41581 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGAGC
* *
41633 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGAGC
*
41685 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
41730 ATGTATCGAT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGAGC
Found at i:41736 original size:13 final size:13
Alignment explanation
Indices: 41718--41742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41708 CAAAGATCAG
41718 TGTATCGATACAA
1 TGTATCGATACAA
41731 TGTATCGATACA
1 TGTATCGATACA
41743 TTTCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:41786 original size:32 final size:33
Alignment explanation
Indices: 41750--41813 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
41740 ACATTTCAAA
41750 TGTATCGATACAAAAC-TTATGTATCGATACAT
1 TGTATCGATACAAAACTTTATGTATCGATACAT
*
41782 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAAAACTTTATGTATCGATACA
41814 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAT
Found at i:41787 original size:13 final size:13
Alignment explanation
Indices: 41769--41793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41759 ACAAAACTTA
41769 TGTATCGATACAT
1 TGTATCGATACAT
41782 TGTATCGATACA
1 TGTATCGATACA
41794 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:41805 original size:52 final size:52
Alignment explanation
Indices: 41697--41815 Score: 143
Period size: 52 Copynumber: 2.3 Consensus size: 52
41687 ATTTGCCTGC
***
41697 ATGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACATTTCAA
1 ATGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACAACACAA
* * **
41749 ATGTATCGATACAAA-ACTTA-TGTATCGATACATTGTATCGATACAACACTTT
1 ATGTATCGATACAAAGA-TCAGTGTATCGATACAATGTATCGATACAACAC-AA
41801 ATGTATCGATACAAA
1 ATGTATCGATACAAA
41816 TCGTTGAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 26 0.45
52 32 0.55
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (52 bp):
ATGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACAACACAA
Found at i:43741 original size:20 final size:19
Alignment explanation
Indices: 43687--43724 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43677 ATATAGTCAA
43687 AATGTATTGATACAATTTT
1 AATGTATTGATACAATTTT
43706 AATGTATTGATACAATTTT
1 AATGTATTGATACAATTTT
43725 CATTATATCG
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:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
AATGTATTGATACAATTTT
Found at i:44850 original size:15 final size:15
Alignment explanation
Indices: 44830--44860 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44820 AAGTACAAAG
*
44830 AGAATAACAGAGCTT
1 AGAATAAAAGAGCTT
44845 AGAATAAAAGAGCTT
1 AGAATAAAAGAGCTT
44860 A
1 A
44861 ACAAAGAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (15 bp):
AGAATAAAAGAGCTT
Found at i:46270 original size:166 final size:163
Alignment explanation
Indices: 45905--46641 Score: 639
Period size: 164 Copynumber: 4.5 Consensus size: 163
45895 GATTTTAAAG
* ** * * * *
45905 AAAAAATCCAAAA-CTCATGAACTTGAAAGAATATTTGAAAAA-TGATTTAATTTGAAATAAAAA
1 AAAAAATCAAAAATC-CATGAAAATGAATGAAT-TTTTAAAAATTGATTTAATATGAAATAAATA
* * * * *
45968 ATAATATCTT-ATGAATTTAAAAAATT-AAAACTAAGAAAAATCCTCCCGAAAAAATTTACGGAG
64 ATAATAT-TTGATGAATTTTAAAAATTAAAAACCATG-AAAATCCTCTC-AAAAAA-TTACGAAG
* * * ** * * * *
46031 TAGACAATTCTGTATTTCG-AAAACAGAAGAATTTCAAG-
125 -AAAAAACTCCATATTTCGAAAAAAAAAAGAGTTGCAAGA
* **
46069 AAAAAAT-ATAAAATCCAAGAAAATGAATGAATTTTTAAAAAATT-ATTTAATATGACTTAAATA
1 AAAAAATCA-AAAATCCATGAAAATGAATGAATTTTT-AAAAATTGATTTAATATGAAATAAATA
* * *
46132 ATTATATTTGGTGAATTTTAAAAATTAAAAACCATTGAAAATCCTCTCAAAAAATTACAAAGAAG
64 ATAATATTTGATGAATTTTAAAAATTAAAAACCA-TGAAAATCCTCTCAAAAAATTACGAAGAA-
*
46197 AAAACTCCATATTTTGAAAAAAAAAAGAGTTGCAAGGA
127 AAAACTCCATATTTCGAAAAAAAAAAGAGTTGCAA-GA
* * *
46235 AAAAAATCAAAAATCCATGAAAATGAATGAATTTTTGACAACTGATTTAATATGAAATAAATAAT
1 AAAAAATCAAAAATCCATGAAAATGAATGAATTTTTAAAAATTGATTTAATATGAAATAAATAAT
* *
46300 AATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCCTCTCAAAAATTTACGGAGAAAAA
66 AATATTTGATGAATTTTAAAAATTAAAAACC-ATGAAAATCCTCTCAAAAAATTACGAAG-AAAA
* *
46365 AACTCTATATTTCG--ACAAAAAAGAGTTGCAAGCA
129 AACTCCATATTTCGAAAAAAAAAAGAGTTGCAAG-A
* * * *
46399 AAAAAGTCAAAAATCTATGAAAATGAAT-AA---TTGAAAATTGATTTAATATAAAATAAATAAT
1 AAAAAATCAAAAATCCATGAAAATGAATGAATTTTTAAAAATTGATTTAATATGAAATAAATAAT
* * * * * *
46460 AATAATTGATGAATTTT-AAAATTAAAAACTGATGAAAATACTCCCGAAAAAATTTATGGAGGAA
66 AATATTTGATGAATTTTAAAAATTAAAAAC-CATGAAAATCCTCTC-AAAAAA-TTA-CGAAGAA
* *
46524 AAAACTCCATATTTCGAAAAAAAACAA-AATTCCAA-A
127 AAAACTCCATATTTCGAAAAAAAA-AAGAGTTGCAAGA
* * * * * * **
46560 AGAAAACCAATAA-CTCA-AAAAATAAAATAAATTTTTAAAAATTGATTTAATATGATTTAAATA
1 AAAAAATCAAAAATC-CATGAAAAT-GAATGAATTTTTAAAAATTGATTTAATATGAAATAAATA
*
46623 ATAATATTTGAAGAATTTT
64 ATAATATTTGATGAATTTT
46642 GATGCTTGAA
Statistics
Matches: 472, Mismatches: 72, Indels: 57
0.79 0.12 0.09
Matches are distributed among these distances:
159 24 0.05
160 55 0.12
161 34 0.07
162 5 0.01
163 36 0.08
164 129 0.27
165 65 0.14
166 120 0.25
167 4 0.01
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (163 bp):
AAAAAATCAAAAATCCATGAAAATGAATGAATTTTTAAAAATTGATTTAATATGAAATAAATAAT
AATATTTGATGAATTTTAAAAATTAAAAACCATGAAAATCCTCTCAAAAAATTACGAAGAAAAAA
CTCCATATTTCGAAAAAAAAAAGAGTTGCAAGA
Found at i:48382 original size:19 final size:19
Alignment explanation
Indices: 48354--48407 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
48344 ATAGGAAATT
*
48354 ATATTAAATAAATATTTTA
1 ATATTTAATAAATATTTTA
* *
48373 TTATTTAATAAAT-TATCTA
1 ATATTTAATAAATAT-TTTA
48392 ATATTT-ATAAATATTT
1 ATATTTAATAAATATTT
48408 AAATTATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATTTAATAAATATTTTA
Found at i:48546 original size:18 final size:18
Alignment explanation
Indices: 48510--48557 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
48500 ATTATTTTAA
48510 ATAAATATTAATATGTTT
1 ATAAATATTAATATGTTT
*
48528 ATAAACTATTTATAT-TTT
1 ATAAA-TATTAATATGTTT
48546 A-AAATAATTAAT
1 ATAAAT-ATTAAT
48558 TCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 8 0.31
18 9 0.35
19 8 0.31
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
ATAAATATTAATATGTTT
Found at i:49262 original size:2 final size:2
Alignment explanation
Indices: 49255--49295 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
49245 GGGAGTGGCA
49255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
49296 TTAATAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51057 original size:12 final size:12
Alignment explanation
Indices: 51040--51064 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51030 AAAAAGGAAG
51040 TTTTATTTTTTA
1 TTTTATTTTTTA
51052 TTTTATTTTTTA
1 TTTTATTTTTTA
51064 T
1 T
51065 AATTGTAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:51796 original size:4 final size:4
Alignment explanation
Indices: 51787--51818 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
51777 CAATCTCTAT
51787 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
51819 GGCTTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:53241 original size:23 final size:23
Alignment explanation
Indices: 53191--53242 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
53181 ACTTTTAAGC
* *
53191 AAAT-TAAAAATATTTATTTATT
1 AAATATAAAAAAATTTAATTATT
**
53213 TGATATAAAAAAATTTAATTATT
1 AAATATAAAAAAATTTAATTATT
53236 AAATATA
1 AAATATA
53243 TATTAAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATATAAAAAAATTTAATTATT
Found at i:56449 original size:21 final size:21
Alignment explanation
Indices: 56425--56471 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
56415 TTTGATGCTG
56425 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
56445 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
56466 ATTTTG
1 ATTTTG
56472 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:56610 original size:13 final size:13
Alignment explanation
Indices: 56592--56630 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
56582 ATAATCACCC
*
56592 TGTATCGATACAG
1 TGTATCGATACAA
56605 TGTATCGATACAA
1 TGTATCGATACAA
56618 TGTATCGATACAA
1 TGTATCGATACAA
56631 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:56641 original size:20 final size:20
Alignment explanation
Indices: 56616--56694 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
56606 GTATCGATAC
56616 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
56636 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
56661 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
56681 CATGTATCGATACA
1 AATGTATCGATACA
56695 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:58729 original size:15 final size:15
Alignment explanation
Indices: 58709--58739 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58699 ATTTCGTTTG
*
58709 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
58724 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
58739 G
1 G
58740 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:60572 original size:21 final size:21
Alignment explanation
Indices: 60543--60587 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
60533 AAGTTTTCAT
*
60543 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
60563 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
60585 TTT
1 TTT
60588 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:65029 original size:20 final size:21
Alignment explanation
Indices: 64998--65038 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
64988 ACTTAGATTT
64998 TTTCCTAACAAATTTAGTTCC
1 TTTCCTAACAAATTTAGTTCC
65019 TTTCC-AACAAATTTAGTTCC
1 TTTCCTAACAAATTTAGTTCC
65039 AAAATGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (21 bp):
TTTCCTAACAAATTTAGTTCC
Found at i:65159 original size:55 final size:55
Alignment explanation
Indices: 65072--65185 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
65062 AGATAGCTAT
*
65072 CATGCATTTAGGTAATAGCTTGAAAAAGGATATGAA-AAAAGTAT-GAAAGATATGA
1 CATGCATTTAGATAATAGCTTGAAAAAGGATAT-AACAAAAGTATAG-AAGATATGA
* * * *
65127 CATGCATTTAGATAGTAGCTTGTGAGAA-GATATAACAAAAGTATAGGAGATATGA
1 CATGCATTTAGATAATAGCTTG-AAAAAGGATATAACAAAAGTATAGAAGATATGA
65182 CATG
1 CATG
65186 TAACTAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 2 0.04
55 45 0.88
56 4 0.08
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (55 bp):
CATGCATTTAGATAATAGCTTGAAAAAGGATATAACAAAAGTATAGAAGATATGA
Found at i:65623 original size:2 final size:2
Alignment explanation
Indices: 65616--65640 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65606 ATTGTTCATT
65616 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 T
65641 CTTTGTGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67346 original size:2 final size:2
Alignment explanation
Indices: 67339--67373 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
67329 TTTTGCAGTA
67339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67374 CACAATAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67857 original size:25 final size:25
Alignment explanation
Indices: 67829--67880 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
67819 AGATTGAAAG
67829 TTAATATTAAAAGTTGATCCTGTTA
1 TTAATATTAAAAGTTGATCCTGTTA
67854 TTAATATTAAAAGTTGATCCTGTTA
1 TTAATATTAAAAGTTGATCCTGTTA
67879 TT
1 TT
67881 GTATAACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (25 bp):
TTAATATTAAAAGTTGATCCTGTTA
Found at i:72842 original size:13 final size:14
Alignment explanation
Indices: 72824--72852 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
72814 CATGTATCGA
72824 TACA-TTCATAGTG
1 TACATTTCATAGTG
72837 TACATTTCATAGTG
1 TACATTTCATAGTG
72851 TA
1 TA
72853 TCGATACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (14 bp):
TACATTTCATAGTG
Found at i:72915 original size:52 final size:52
Alignment explanation
Indices: 72837--72944 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
72827 ATTCATAGTG
72837 TACATTTCATAGTGTATCGATACATCTAGGCAAATTTGCCT-CTATGTATCGA
1 TACATTTCATAGTGTATCGATACATCTAGGCAAATTTGCCTGC-ATGTATCGA
* *
72889 TACATTTTATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
1 TACATTTCATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGA
72941 TACA
1 TACA
72945 AAGATCAGTG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 52 0.98
53 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (52 bp):
TACATTTCATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGA
Found at i:72955 original size:52 final size:52
Alignment explanation
Indices: 72845--72964 Score: 172
Period size: 52 Copynumber: 2.3 Consensus size: 52
72835 TGTACATTTC
***
72845 ATAGTGTATCGATACATCTAGGCAAATTTGCCTCTATGTATCGATACATTTT
1 ATAGTGTATCGATACATCTAGGCAAATTTGCCTCTATGTATCGATACATAAG
*
72897 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGC-ATGTATCGATACA-AAG
1 ATAGTGTATCGATACATCTAGGCAAATTTGCCT-CTATGTATCGATACATAAG
72948 ATCAGTGTATCGATACA
1 AT-AGTGTATCGATACA
72965 ATGTATCGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
51 2 0.03
52 59 0.95
53 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTAGGCAAATTTGCCTCTATGTATCGATACATAAG
Found at i:72971 original size:13 final size:13
Alignment explanation
Indices: 72953--72977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72943 CAAAGATCAG
72953 TGTATCGATACAA
1 TGTATCGATACAA
72966 TGTATCGATACA
1 TGTATCGATACA
72978 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:73057 original size:13 final size:13
Alignment explanation
Indices: 73039--73063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73029 ACAAAACTTA
73039 TGTATCGATACAT
1 TGTATCGATACAT
73052 TGTATCGATACA
1 TGTATCGATACA
73064 AATCGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:77324 original size:27 final size:30
Alignment explanation
Indices: 77291--77345 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
77281 ACTTGGATCA
*
77291 TTATTT-ATTT-AATTA-AATAATATATTT
1 TTATTTAATTTGAATTATAAAAATATATTT
77318 TTATTTAATTTGAATTATAAAAATATAT
1 TTATTTAATTTGAATTATAAAAATATAT
77346 AAATATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 4 0.17
29 5 0.21
30 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTATTTAATTTGAATTATAAAAATATATTT
Found at i:79389 original size:2 final size:2
Alignment explanation
Indices: 79382--79416 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
79372 TCTTCTATCC
79382 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 T
79417 GCATGTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83360 original size:326 final size:326
Alignment explanation
Indices: 82762--83745 Score: 1941
Period size: 326 Copynumber: 3.0 Consensus size: 326
82752 GAGGATGGTA
*
82762 ATGATGCAAAAGTAGTTGTGCCTTGACATGGCTTGAGGGAGGACTAAAAAAAAATGTTTTGATAC
1 ATGAAGCAAAAGTAGTTGTGCCTTGACATGGCTTGAGGGAGGACTAAAAAAAAATGTTTTGATAC
82827 TGATTGGGGGTATACAAAGACATCCCAATGTCTCAGGATGAAACCCGAGAAAATGAACCAATTTG
66 TGATTGGGGGTATACAAAGACATCCCAATGTCTCAGGATGAAACCCGAGAAAATGAACCAATTTG
82892 GACGGTAACCAAAAACAGGGGACAGCATCGCACTGTCCTTTCAGGTTGATTCAGAGGTTCTAGAG
131 GACGGTAACCAAAAACAGGGGACAGCATCGCACTGTCCTTTCAGGTTGATTCAGAGGTTCTAGAG
82957 GGTGAAATTGGTACTGTTCGAAAGGTGACTTGATGAGAATCGATTTAAAAATATTTCCAAAATCC
196 GGTGAAATTGGTACTGTTCGAAAGGTGACTTGATGAGAATCGATTTAAAAATATTTCCAAAATCC
83022 CAAAAAATCTTTTTCCAAGAGGAATAAATTCTCAAAATCAAGTGAAGTGCCCTGCTAGTAGAGCA
261 CAAAAAATCTTTTTCCAAGAGGAATAAATTCTCAAAATCAAGTGAAGTGCCCTGCTAGTAGAGCA
83087 C
326 C
*
83088 ATGAAGCAAAAGTAGTTGTGCCTTGACATGGCTTGAGGAAGGACTAAAAAAAAATGTTTTGATAC
1 ATGAAGCAAAAGTAGTTGTGCCTTGACATGGCTTGAGGGAGGACTAAAAAAAAATGTTTTGATAC
*
83153 TGATTGGGGGTATACAAAGACATCCCAATGTCTCAGGATGAAACTCGAGAAAATGAACCAATTTG
66 TGATTGGGGGTATACAAAGACATCCCAATGTCTCAGGATGAAACCCGAGAAAATGAACCAATTTG
83218 GACGGTAACCAAAAACAGGGGACAGCATCGCACTGTCCTTTCAGGTTGATTCAGAGGTTCTAGAG
131 GACGGTAACCAAAAACAGGGGACAGCATCGCACTGTCCTTTCAGGTTGATTCAGAGGTTCTAGAG
83283 GGTGAAATTGGTACTGTTCGAAAGGTGACTTGATGAGAATCGATTTAAAAATATTTCCAAAATCC
196 GGTGAAATTGGTACTGTTCGAAAGGTGACTTGATGAGAATCGATTTAAAAATATTTCCAAAATCC
83348 CAAAAAATCTTTTTCCAAGAGGAATAAATTCTCAAAATCAAGTGAAGTGCCCTGCTAGTAGAGCA
261 CAAAAAATCTTTTTCCAAGAGGAATAAATTCTCAAAATCAAGTGAAGTGCCCTGCTAGTAGAGCA
83413 C
326 C
83414 ATGAAGCAAAAGTAGTTGTGCCTTGACATGGCTTGAGGGAGGACTAAAAAAAAATGTTTTGATAC
1 ATGAAGCAAAAGTAGTTGTGCCTTGACATGGCTTGAGGGAGGACTAAAAAAAAATGTTTTGATAC
83479 TGATTGGGGGTATACAAAGACATCCCAATGTCTCAGGATGAAACCCGAGAAAATGAACCAATTTG
66 TGATTGGGGGTATACAAAGACATCCCAATGTCTCAGGATGAAACCCGAGAAAATGAACCAATTTG
83544 GACGGTAACCAAAAACAGGGGACAGCATCGCACTGTCCTTTCAGGTTGATTCAGAGGTTCTAGAG
131 GACGGTAACCAAAAACAGGGGACAGCATCGCACTGTCCTTTCAGGTTGATTCAGAGGTTCTAGAG
83609 GGTGAAATTGGTACTGTTCGAAAGGTGACTTGATGAGAATCGATTTAAAAATATTTCCAAAATCC
196 GGTGAAATTGGTACTGTTCGAAAGGTGACTTGATGAGAATCGATTTAAAAATATTTCCAAAATCC
83674 CAAAAAATCTTTTTCCAAGAGGAATAAATTCTCAAAATCAAGTGAAGTGCCCTGCTAGTAGAGCA
261 CAAAAAATCTTTTTCCAAGAGGAATAAATTCTCAAAATCAAGTGAAGTGCCCTGCTAGTAGAGCA
83739 C
326 C
83740 ATGAAG
1 ATGAAG
83746 TAAAGGTGTT
Statistics
Matches: 653, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
326 653 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (326 bp):
ATGAAGCAAAAGTAGTTGTGCCTTGACATGGCTTGAGGGAGGACTAAAAAAAAATGTTTTGATAC
TGATTGGGGGTATACAAAGACATCCCAATGTCTCAGGATGAAACCCGAGAAAATGAACCAATTTG
GACGGTAACCAAAAACAGGGGACAGCATCGCACTGTCCTTTCAGGTTGATTCAGAGGTTCTAGAG
GGTGAAATTGGTACTGTTCGAAAGGTGACTTGATGAGAATCGATTTAAAAATATTTCCAAAATCC
CAAAAAATCTTTTTCCAAGAGGAATAAATTCTCAAAATCAAGTGAAGTGCCCTGCTAGTAGAGCA
C
Found at i:85581 original size:20 final size:19
Alignment explanation
Indices: 85556--85629 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
85546 AAAAAGATAG
85556 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAA-A
* *
85576 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGA-AA
85596 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTG-AAA
85616 ATGTATCGATACAT
1 ATGTATCGATACAT
85630 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 46 0.96
21 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACATTGAAA
Found at i:91871 original size:33 final size:33
Alignment explanation
Indices: 91834--91900 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
91824 TTCAACGATC
91834 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
91867 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
91900 T
1 T
91901 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:91872 original size:13 final size:13
Alignment explanation
Indices: 91854--91878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91844 CATAAAATGT
91854 TGTATCGATACAA
1 TGTATCGATACAA
91867 TGTATCGATACA
1 TGTATCGATACA
91879 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:91961 original size:13 final size:13
Alignment explanation
Indices: 91943--91967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91933 ATTACTCACA
91943 TGTATCGATACAT
1 TGTATCGATACAT
91956 TGTATCGATACA
1 TGTATCGATACA
91968 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:92104 original size:52 final size:52
Alignment explanation
Indices: 91976--92093 Score: 218
Period size: 52 Copynumber: 2.3 Consensus size: 52
91966 CACTGATCTT
*
91976 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
92028 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
92080 TGTATCGATACATG
1 TGTATCGATACATG
92094 TAGATAAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:99256 original size:11 final size:11
Alignment explanation
Indices: 99227--99256 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
99217 TTCCAAACAC
*
99227 AAAAAAAAGGG
1 AAAAAAAAGGA
99238 AAAAAAAAGGA
1 AAAAAAAAGGA
99249 AAAAAAAA
1 AAAAAAAA
99257 ACAGAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGGA
Found at i:99343 original size:19 final size:19
Alignment explanation
Indices: 99321--99358 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
99311 AAAAGATGCA
99321 AAAAAAAAAAAACAAAAAC
1 AAAAAAAAAAAACAAAAAC
* *
99340 AAAAAAGAAAAAGAAAAAC
1 AAAAAAAAAAAACAAAAAC
99359 CCCTTTTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAACAAAAAC
Found at i:100330 original size:30 final size:31
Alignment explanation
Indices: 100294--100375 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
100284 ATACCTTTTT
100294 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
100324 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
100355 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
100376 CCTTTTTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:100394 original size:34 final size:34
Alignment explanation
Indices: 100352--101434 Score: 1022
Period size: 34 Copynumber: 32.9 Consensus size: 34
100342 GCATTTTTTC
100352 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
100386 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
100419 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
* *
100456 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
100490 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCT-T
* * * * *
100526 TCTCAAAGTCCACGACTCAGTGGCA--TTTTT-TC
1 T-TTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* * *
100558 TTTAAAGCCCACAACTCTGTGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
100592 TTT-AAGTCCACAACTCCGTGGCACC-----C-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* * *
100619 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TT
*
100654 TTT-AAGTCCACAACTCCGTGGCACC-----C-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* * * *
100681 TTT-AAGCCCACAATTCTGTGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TT
* *
100715 TTT-AAGTCCACAACTCCGTGGCACC-----C-G
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
100742 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
100775 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
100808 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
* *
100845 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
100879 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCT-T
*
100915 TTTCAAAGCCCATAACTCCGTGGCA-C----TC--
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
100943 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
100977 TTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
* *
101014 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
101048 TTTAAAGCCCACGACTCCGTGGCA-C----TC--
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
101075 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* * *
101109 TTTAAAGCCCACAGCTCCATGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* ** *
101143 TTCAAAGCCCACAACTCTATGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
101177 TTCAAAGCCCACGACTCCGTGGCA-C----TCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
101206 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
** * * *
101241 CCT-AAGCCCACAACTCTGTGGCACTCTTCTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
*
101275 TCT-AAGCCCACAACTCCGTGGCACC-----C-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* * *
101302 TTT-AAGCCCATAACTCCGTGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TT
* * *
101336 TGT-AAGTCCACAACTCCGTGGCACCTTTTTTTTCT
1 TTTAAAGCCCACAACTCCGTGGCACC-TTTTTCT-T
*
101371 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTT
* *
101407 TTT-AAGTCCACAACTCCGTGGCATCTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT
101435 CTCCCTTCCT
Statistics
Matches: 886, Mismatches: 89, Indels: 148
0.79 0.08 0.13
Matches are distributed among these distances:
27 115 0.13
28 26 0.03
29 30 0.03
31 22 0.02
32 8 0.01
33 82 0.09
34 380 0.43
35 55 0.06
36 53 0.06
37 115 0.13
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:100532 original size:71 final size:68
Alignment explanation
Indices: 100322--101454 Score: 1076
Period size: 61 Copynumber: 17.2 Consensus size: 68
100312 GCATTTTGTC
* * * *
100322 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
100385 -TT
66 CTT
* *
100387 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
100452 CCTTT
65 TC-TT
100457 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
100522 CTCTT
64 CTCTT
* * * * * *
100527 CTCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCTGTGGCACCTTGTTC
1 -TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
100590 -CTT
65 TCTT
* * * *
100593 T-TAAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCA
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-
100652 TCTT
65 TCTT
* * * *
100656 T--AAGTCCACAACTCCGTGGCACC-----CTTTT-AAGCCCACAATTCTGTGGCACTTTTTTCA
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-
100713 TCTT
65 TCTT
* *
100717 T--AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCACCTTTTTCT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
100774 -TT
66 CTT
* *
100776 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
*
100841 CCTTT
65 TC-TT
100846 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
100911 CTCTTT
64 CTC-TT
* *
100917 TCAAAGCCCATAACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
100976 -TT
66 CTT
*
100978 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTT
*
101043 TTCTGTT
62 TTCTCTT
* *
101050 T-AAAGCCCACGACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
101108 -TT
66 CTT
* * * * ** *
101110 TTAAAGCCCACAGCTCCATGGCACCTTCTTCTTTTCAAAGCCCACAACTCTATGGCACCTTCTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
101175 T-TT
65 TCTT
* *
101178 TCAAAGCCCACGACTCCGTGGCA-C--TCT-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
101239 -C-T
65 TCTT
* * * * *
101241 CCTAAGCCCACAACTCTGTGGCACTCTTCTTCCTTCT-AAGCCCACAACTCCGTGGCACC-----
1 TCAAAGCCCACAACTCCGTGGCAC-CTT-TTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
101300 CT-TT
64 CTCTT
* * * *
101304 T--AAGCCCATAACTCCGTGGCACTTTTTTCATCTGT-AAGTCCACAACTCCGTGGCACCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGCCCACAACTCCGTGGCACC-TTTT
*
101366 TTTCTT
63 TCTCTT
* * * *
101372 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTC
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAGCCCACAACTCCGTGGCACCTTTT
*
101436 TCCCTT
63 TCTCTT
*
101442 CCTAAAGCCCACA
1 TC-AAAGCCCACA
101455 CAAGTCGGTG
Statistics
Matches: 919, Mismatches: 82, Indels: 128
0.81 0.07 0.11
Matches are distributed among these distances:
59 6 0.01
60 8 0.01
61 245 0.27
62 32 0.03
63 54 0.06
64 53 0.06
65 23 0.03
66 17 0.02
67 57 0.06
68 112 0.12
69 5 0.01
70 105 0.11
71 197 0.21
72 4 0.00
73 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (68 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
CTT
Found at i:100707 original size:25 final size:26
Alignment explanation
Indices: 100654--100709 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
100644 TTTTTTCATC
*
100654 TTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAGCCCACAACTCCGTGGCA-CCT
* * *
100681 TTTAAGCCCACAATTCTGTGGCACTT
1 TTTAAGCCCACAACTCCGTGGCACCT
100707 TTT
1 TTT
100710 TCATCTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.34
Consensus pattern (26 bp):
TTTAAGCCCACAACTCCGTGGCACCT
Found at i:101331 original size:27 final size:27
Alignment explanation
Indices: 101272--101325 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
101262 CACTCTTCTT
*
101272 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
101299 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
101326 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:101440 original size:34 final size:34
Alignment explanation
Indices: 101298--101441 Score: 155
Period size: 36 Copynumber: 4.1 Consensus size: 34
101288 CTCCGTGGCA
*
101298 CCCTTTTAAGCCCATAACTCCGTGGCA-CTTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
* * * * *
101331 TCATCTGTAAGTCCACAACTCCGTGGCACCTTTTTT
1 CCCT-TTTAAGCCCACAACTCCGTGGCATC-TTTTT
**
101367 TTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTT-AAGCCCACAACTCCGTGGCA-TCTTTTT
* *
101403 CCCTTTTAAGTCCACAACTCCGTGGCATCTTTCT
1 CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
101437 CCCTT
1 CCCTT
101442 CCTAAAGCCC
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.02
34 31 0.34
35 22 0.24
36 36 0.39
37 1 0.01
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.37
Consensus pattern (34 bp):
CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
Found at i:101482 original size:33 final size:35
Alignment explanation
Indices: 101439--101508 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
101429 ATCTTTCTCC
*
101439 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGATGGCAACCCTT
101473 CTTCC-AAAGCCCACACAAGTCGATGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGATGGCAACCCTT
101507 CT
1 CT
101509 AAGCCCAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 23 0.68
34 11 0.32
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGATGGCAACCCTT
Found at i:101572 original size:49 final size:49
Alignment explanation
Indices: 101508--102179 Score: 711
Period size: 49 Copynumber: 13.8 Consensus size: 49
101498 GCAACCCTTC
* * *
101508 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
101557 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
101600 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
*
101652 TAAGTCCAATGTAGCTGGCCTT-AACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAA-TCAGCACATTGGCATCTTCATCTT
101701 TAAGTCCAATGTAGCTGGCCTT-AACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAA-TCAGCACATTGGCATCTTCATCTT
* * * *
101744 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* *
101796 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
101845 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
101888 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
** * * *
101940 TAAGTCCAATGTAGCTGGCCTTGACCCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
101989 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC-TTCATCTT
* * *
102038 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
102087 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TCTTCATCTT
* * *
102139 TAAGTTCAATGTAGCTGGCTTTGAATCAGCACATTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
102180 CTTTTTCATC
Statistics
Matches: 526, Mismatches: 63, Indels: 68
0.80 0.10 0.10
Matches are distributed among these distances:
43 112 0.21
44 2 0.00
45 3 0.01
48 1 0.00
49 244 0.46
50 10 0.02
51 2 0.00
52 152 0.29
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:101773 original size:144 final size:144
Alignment explanation
Indices: 101508--102183 Score: 952
Period size: 144 Copynumber: 4.6 Consensus size: 144
101498 GCAACCCTTC
* * * *
101508 TAAGCCCAATATAGCTGGCCTTGAA-TCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATGTAGCTGGCCTT-AACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
*
101572 TGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
65 TGGCCTTAACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
101637 CACCTTTTCCATCTT
130 CACCTTTTCCATCTT
101652 TAAGTCCAATGTAGCTGGCCTTAACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTAACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
101717 GGCCTTAACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTAACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
101782 ACCTTTTCCATCTT
131 ACCTTTTCCATCTT
*
101796 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTAACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
101861 GGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTAACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
101926 ACCTTTTCCATCTT
131 ACCTTTTCCATCTT
* * * * * *
101940 TAAGTCCAATGTAGCTGGCCTTGACCCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTAACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * * *
102005 GGCCTTGAA-TCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTTAGCA
66 GGCCTT-AACTCAGCACATTGGCAC------CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
*
102069 CATTGGCACC--TT-CATCTT
124 TATTGGCACCTTTTCCATCTT
* * * *
102087 TAAGTCCAATATAGCTGGCCTTGAA-TCAGCATATCGGCACCTTTTTCATCTTTAAGTTCAATGT
1 TAAGTCCAATGTAGCTGGCCTT-AACTCAGCACATTGGCACC---TTCATCTTTAAGTCCAATGT
* *
102151 AGCTGGCTTTGAA-TCAGCACATTGACATCCTTT
62 AGCTGGCCTT-AACTCAGCACATTGGCA-CCTTT
102184 TTCATCATCT
Statistics
Matches: 487, Mismatches: 32, Indels: 25
0.90 0.06 0.05
Matches are distributed among these distances:
143 2 0.00
144 358 0.74
145 5 0.01
147 40 0.08
148 3 0.01
150 78 0.16
151 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (144 bp):
TAAGTCCAATGTAGCTGGCCTTAACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTAACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
ACCTTTTCCATCTT
Found at i:102220 original size:56 final size:52
Alignment explanation
Indices: 101885--102222 Score: 298
Period size: 49 Copynumber: 6.6 Consensus size: 52
101875 ACATTGGCAC
* * * * *
101885 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTTCAT
* ** * * *
101937 CTTTAAGTCCAATGTAGCTGGCCTTGACCCAGCACATTGGCACC---TTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTTCAT
* * * * *
101986 CATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TTTT-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTTCAT
* * * * *
102035 CTTTAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACC---TTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTTCAT
* *
102084 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTTCAT
* * * *
102136 CTTTAAGTTCAATGTAGCTGGCTTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTT--TCAT
* * * *
102192 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
102223 ACATATTGGC
Statistics
Matches: 237, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
48 3 0.01
49 117 0.49
50 3 0.01
52 80 0.34
53 2 0.01
54 4 0.02
56 28 0.12
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTTCAT
Found at i:103077 original size:33 final size:33
Alignment explanation
Indices: 103040--103106 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
103030 TTCAACGATC
103040 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
103073 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
103106 T
1 T
103107 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:103078 original size:13 final size:13
Alignment explanation
Indices: 103060--103084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103050 CATAAAATGT
103060 TGTATCGATACAA
1 TGTATCGATACAA
103073 TGTATCGATACA
1 TGTATCGATACA
103085 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:103167 original size:13 final size:13
Alignment explanation
Indices: 103149--103173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103139 ATTACTCACA
103149 TGTATCGATACAT
1 TGTATCGATACAT
103162 TGTATCGATACA
1 TGTATCGATACA
103174 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:103310 original size:52 final size:52
Alignment explanation
Indices: 103182--103302 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
103172 CACTGATCTT
*
103182 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
103234 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
103286 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
103303 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:108997 original size:27 final size:27
Alignment explanation
Indices: 108955--109134 Score: 144
Period size: 27 Copynumber: 6.2 Consensus size: 27
108945 TCCCTCTTTT
*
108955 CCTTTTAAGTCCACAACTCTATGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
108982 CCTTTTAAGTCTACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
109009 CCTTTTAAGTCCACAATTCTGTGGCACC
1 CCTTTTAAGTCCACAACTCTGTGGCA-C
** *
109037 ATTTTCCTTTTAAGTCCACAACTCCATGTCAC
1 -----CCTTTTAAGTCCACAACTCTGTGGCAC
** * *
109069 ATTTTTAAGTCCATAACTCCGTGGCACCC
1 CCTTTTAAGTCCACAACTCTGTGGCA--C
**
109098 CTTTTCTTTTAAGTCCACAACTCCATGGCAC
1 C----CTTTTAAGTCCACAACTCTGTGGCAC
109129 CCTTTT
1 CCTTTT
109135 CCTTTTAAGT
Statistics
Matches: 124, Mismatches: 17, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
27 75 0.60
28 1 0.01
29 1 0.01
31 2 0.02
32 1 0.01
33 44 0.35
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:109051 original size:33 final size:33
Alignment explanation
Indices: 109009--109294 Score: 327
Period size: 33 Copynumber: 8.8 Consensus size: 33
108999 TCTGTGGCAC
* **
109009 CCTTTTAAGTCCACAATTCTGTGGCACCATTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCATTTT
*
109042 CCTTTTAAGTCCACAACTCCATGTCA-CA---T
1 CCTTTTAAGTCCACAACTCCATGGCACCATTTT
* * *
109071 --TTTTAAGTCCATAACTCCGTGGCACCCCTTTT
1 CCTTTTAAGTCCACAACTCCATGGCA-CCATTTT
*
109103 -CTTTTAAGTCCACAACTCCATGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCATTTT
* *
109135 CCTTTTAAGTCCACAACTCCGTGGCACAATTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCATTTT
* * * *
109168 TCTTTTAAGTCCATAATTCCATGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCATTTT
*
109201 CCTTTTAAGTCCATAACTCCATGGCACCAATTTT
1 CCTTTTAAGTCCACAACTCCATGGCACC-ATTTT
*
109235 -CTTTTAAGTCCATAACTCCATGGCACCCATTTT
1 CCTTTTAAGTCCACAACTCCATGGCA-CCATTTT
* *
109268 CTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
109295 TTTTTTAAGT
Statistics
Matches: 218, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
27 21 0.10
29 2 0.01
32 10 0.05
33 157 0.72
34 28 0.13
ACGTcount: A:0.23, C:0.31, G:0.10, T:0.36
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCATGGCACCATTTT
Found at i:109154 original size:66 final size:66
Alignment explanation
Indices: 109009--109294 Score: 372
Period size: 66 Copynumber: 4.4 Consensus size: 66
108999 TCTGTGGCAC
* * *
109009 CCTTTTAAGTCCACAATTCTGTGGCACC-ATTTTCCTTTTAAGTCCACAACTCCATGTCA--C--
1 CCTTTTAAGTCCACAACTCCGTGGCACCAATTTT-CTTTTAAGTCCACAACTCCATGGCACCCTT
*
109069 AT
65 TT
* **
109071 --TTTTAAGTCCATAACTCCGTGGCACCCCTTTTCTTTTAAGTCCACAACTCCATGGCACCCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCAATTTTCTTTTAAGTCCACAACTCCATGGCACCCTTT
109134 T
66 T
* *
109135 CCTTTTAAGTCCACAACTCCGTGGCA-CAATTTTTCTTTTAAGTCCATAATTCCATGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCAA-TTTTCTTTTAAGTCCACAACTCCATGGCACCCTT
109199 TT
65 TT
* * *
109201 CCTTTTAAGTCCATAACTCCATGGCACCAATTTTCTTTTAAGTCCATAACTCCATGGCACCCATT
1 CCTTTTAAGTCCACAACTCCGTGGCACCAATTTTCTTTTAAGTCCACAACTCCATGGCACCC-TT
109266 TT
65 TT
*
109268 CTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
109295 TTTTTTAAGT
Statistics
Matches: 197, Mismatches: 17, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
60 47 0.24
61 4 0.02
62 1 0.01
64 1 0.01
65 1 0.01
66 112 0.57
67 31 0.16
ACGTcount: A:0.23, C:0.31, G:0.10, T:0.36
Consensus pattern (66 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCAATTTTCTTTTAAGTCCACAACTCCATGGCACCCTTT
T
Found at i:109219 original size:99 final size:97
Alignment explanation
Indices: 108951--109294 Score: 369
Period size: 99 Copynumber: 3.6 Consensus size: 97
108941 TTCTTCCCTC
* * * * *
108951 TTTTCCTTTTAAGTCCACAACTCTATGGCAC----CCTTTTAAGTCTACAACTCTGTGGCA--C-
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACATTTTCTTTTAAGTCCATAACTCCGTGGCACCCT
* **
109009 ---CCTTTTAAGTCCACAATTCTGTGGCACCA
66 TTTCCTTTTAAGTCCACAACTCCATGGCACCA
*
109038 TTTTCCTTTTAAGTCCACAACTCCATGTCACA---T-TTTTAAGTCCATAACTCCGTGGCACCCC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCACATTTTCTTTTAAGTCCATAACTCCGTGGCA-CCC
*
109099 TTTT-CTTTTAAGTCCACAACTCCATGGCACCC
65 TTTTCCTTTTAAGTCCACAACTCCATGGCACCA
* * *
109131 TTTTCCTTTTAAGTCCACAACTCCGTGGCACAATTTTTCTTTTAAGTCCATAATTCCATGGCACC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCAC-A-TTTTCTTTTAAGTCCATAACTCCGTGGCACC
*
109196 CTTTTCCTTTTAAGTCCATAACTCCATGGCACCAA
64 CTTTTCCTTTTAAGTCCACAACTCCATGGCACC-A
* *
109231 TTTT-CTTTTAAGTCCATAACTCCATGGCACCCATTTTCTTTTTAAGTCCACAACTCCGTGGCAC
1 TTTTCCTTTTAAGTCCACAACTCCATGGCA--CATTTTC-TTTTAAGTCCATAACTCCGTGGCAC
109295 TTTTTTAAGT
Statistics
Matches: 217, Mismatches: 21, Indels: 25
0.83 0.08 0.10
Matches are distributed among these distances:
87 50 0.23
90 1 0.00
93 53 0.24
94 1 0.00
98 8 0.04
99 76 0.35
100 27 0.12
101 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.36
Consensus pattern (97 bp):
TTTTCCTTTTAAGTCCACAACTCCATGGCACATTTTCTTTTAAGTCCATAACTCCGTGGCACCCT
TTTCCTTTTAAGTCCACAACTCCATGGCACCA
Found at i:109310 original size:27 final size:29
Alignment explanation
Indices: 108957--109342 Score: 176
Period size: 33 Copynumber: 12.6 Consensus size: 29
108947 CCTCTTTTCC
** **
108957 TTTTAAGTCCACAACTCTATGGCA-C-CC
1 TTTTAAGTCCACAACTCCGTGGCATCTTT
* * **
108984 TTTTAAGTCTACAACTCTGTGGCA-C-CC
1 TTTTAAGTCCACAACTCCGTGGCATCTTT
* * *
109011 TTTTAAGTCCACAATTCTGTGGCACCATTTT
1 TTTTAAGTCCACAACTCCGTGGCATC--TTT
* * *
109042 CCTTTTAAGTCCACAACTCCATGTCA-C-AT
1 --TTTTAAGTCCACAACTCCGTGGCATCTTT
* *
109071 TTTTAAGTCCATAACTCCGTGGCACCCCTTTT
1 TTTTAAGTCCACAACTCCGTGGCA--TC-TTT
* *
109103 CTTTTAAGTCCACAACTCCATGGCACCCTTTT
1 -TTTTAAGTCCACAACTCCGTGGCA-TC-TTT
*
109135 CCTTTTAAGTCCACAACTCCGTGGCACAATTTTT
1 --TTTTAAGTCCACAACTCCGTGG--C-ATCTTT
* * * *
109169 CTTTTAAGTCCATAATTCCATGGCACCCTTTT
1 -TTTTAAGTCCACAACTCCGTGGCA-TC-TTT
* * *
109201 CCTTTTAAGTCCATAACTCCATGGCACCAATTTT
1 --TTTTAAGTCCACAACTCCGTGGCATC---TTT
* * *
109235 CTTTTAAGTCCATAACTCCATGGCACCCATTTTCT
1 -TTTTAAGTCCACAACTCCGTGG----CATCTT-T
109270 TTTTAAGTCCACAACTCCGTGGCA-C-TT
1 TTTTAAGTCCACAACTCCGTGGCATCTTT
**
109297 TTTTAAGTTTACAACTCCGTGGCATCTTT
1 TTTTAAGTCCACAACTCCGTGGCATCTTT
109326 TTTTAAGTCCACAACTC
1 TTTTAAGTCCACAACTC
109343 TGTAGCACCT
Statistics
Matches: 296, Mismatches: 35, Indels: 54
0.77 0.09 0.14
Matches are distributed among these distances:
27 91 0.31
28 3 0.01
29 18 0.06
30 4 0.01
31 1 0.00
32 14 0.05
33 131 0.44
34 29 0.10
35 2 0.01
36 1 0.00
37 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (29 bp):
TTTTAAGTCCACAACTCCGTGGCATCTTT
Found at i:110756 original size:78 final size:79
Alignment explanation
Indices: 110326--110869 Score: 567
Period size: 79 Copynumber: 6.9 Consensus size: 79
110316 AAAAACGAGA
* * * ** * *
110326 TTGGAGTATCTCCTTGGAAATAACGGGGTTGGAGTATCCTTGATGGTGGAAAATCGATGTTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAG
* *
110391 AAATAAAATCAGGG
66 AAATAAAACCGGGG
* * * * *
110405 TTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTAA
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAG
* *
110470 AAATAAAACTGAGG
66 AAATAAAACCGGGG
* ** * * * * * *
110484 TTAGAGTATCTTCTCGGAAATAACGGGGTTGGAGTATCCCCAATTGTAGAAAATCAGTATTTTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAG
* ***
110549 AAATAAAGCCAAAG
66 AAATAAAACCGGGG
* * *
110563 TTGGAGTGA-CCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGATGGAAAATCGGTGTTTCA
1 TTGGAGT-ATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTA
* *
110627 GAAATAAAATCGGAG
65 GAAATAAAACCGGGG
* * ** * *
110642 TTGGAGTGTTCCCTCGAAAATAACGGGGTTGGAGTATCCTTGATGGTAGAAAATTGGTGTTTTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAG
**
110707 -AATAAAATTGGGG
66 AAATAAAACCGGGG
* ** * * * *
110720 TTGGAGTATACCCTCGAAAATAACAAGGTTAGAGTATCTCCGACGGTGGAAAATCGATGTTTTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAG
*
110785 AAATAAAA-CTGGG
66 AAATAAAACCGGGG
* *
110798 TTGGAGTATCCCCTC-AGAAATAACGAGGTTGGAGTAT-CCCGTTGGTGGAAAATCGGTGTTTTA
1 TTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTA
110861 GAAATAAAA
65 GAAATAAAA
110870 ACATCAGTAA
Statistics
Matches: 384, Mismatches: 77, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
77 32 0.08
78 99 0.26
79 252 0.66
80 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAG
AAATAAAACCGGGG
Found at i:114483 original size:9 final size:9
Alignment explanation
Indices: 114468--114507 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
114458 AGGTTCAACT
114468 AAAAAAAAGG
1 AAAAAAAA-G
114478 AAAAAAAAG
1 AAAAAAAAG
114487 AAAAAAAAG
1 AAAAAAAAG
114496 AGAAAGAAAAG
1 A-AAA-AAAAG
114507 A
1 A
114508 GAGAAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 11 0.39
10 11 0.39
11 6 0.21
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:114493 original size:20 final size:20
Alignment explanation
Indices: 114468--114507 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
114458 AGGTTCAACT
114468 AAAAAAAAG-GAAAAAAAAG
1 AAAAAAAAGAGAAAAAAAAG
*
114487 AAAAAAAAGAGAAAGAAAAG
1 AAAAAAAAGAGAAAAAAAAG
114507 A
1 A
114508 GAGAAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGAGAAAAAAAAG
Found at i:114499 original size:11 final size:11
Alignment explanation
Indices: 114468--114528 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
114458 AGGTTCAACT
114468 AAAAAAAAG-G
1 AAAAAAAAGAG
114478 -AAAAAAA-AG
1 AAAAAAAAGAG
114487 AAAAAAAAGAG
1 AAAAAAAAGAG
*
114498 AAAGAAAAGAG
1 AAAAAAAAGAG
* * *
114509 AGAAGAAATAG
1 AAAAAAAAGAG
114520 AAACAAAAA
1 AAA-AAAAA
114529 AATAAGGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 8 0.20
10 7 0.17
11 21 0.52
12 4 0.10
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:117370 original size:20 final size:20
Alignment explanation
Indices: 117328--117381 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
117318 TTCAACAATT
117328 TGTATCGATACAATAAGGCAA
1 TGTATCGATAC-ATAAGGCAA
117349 TGTATCGATACATAA-GCGAA
1 TGTATCGATACATAAGGC-AA
117369 TGTATCGATACAT
1 TGTATCGATACAT
117382 GCCTGAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.06
20 19 0.59
21 11 0.34
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATAAGGCAA
Found at i:117393 original size:21 final size:19
Alignment explanation
Indices: 117328--117399 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 19
117318 TTCAACAATT
117328 TGTATCGATACAATAAG-GCAA
1 TGTATCGATAC-AT-AGCG-AA
117349 TGTATCGATACATAAGCGAA
1 TGTATCGATACAT-AGCGAA
117369 TGTATCGATACAT-GCCTGAAA
1 TGTATCGATACATAG-C-G-AA
117390 TGTATCGATA
1 TGTATCGATA
117400 TAGGACCATG
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 21 0.45
21 24 0.51
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (19 bp):
TGTATCGATACATAGCGAA
Found at i:117454 original size:20 final size:20
Alignment explanation
Indices: 117429--117502 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
117419 GGAAGGAAAT
*
117429 TGTATCGATACATTTTTCAA
1 TGTATCGATACATTTATCAA
* **
117449 TGTATCGATACA-TAAGAAA
1 TGTATCGATACATTTATCAA
* *
117468 TTGTATCAATACATTTCTCAA
1 -TGTATCGATACATTTATCAA
117489 TGTATCGATACATT
1 TGTATCGATACATT
117503 CTGGGTTTTG
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTATCAA
Found at i:117473 original size:40 final size:40
Alignment explanation
Indices: 117424--117501 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
117414 ATTTTGGAAG
* *
117424 GAAATTGTATCGATACATTTTTCAATGTATCGATACATAA
1 GAAATTGTATCAATACATTTCTCAATGTATCGATACATAA
117464 GAAATTGTATCAATACATTTCTCAATGTATCGATACAT
1 GAAATTGTATCAATACATTTCTCAATGTATCGATACAT
117502 TCTGGGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (40 bp):
GAAATTGTATCAATACATTTCTCAATGTATCGATACATAA
Found at i:117952 original size:20 final size:20
Alignment explanation
Indices: 117927--117975 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
117917 GTCAAGCCAA
*
117927 TTTTAGCTAAGGACTTTTGT
1 TTTTAGCCAAGGACTTTTGT
117947 TTTTAGCCAAGGACTTTTGT
1 TTTTAGCCAAGGACTTTTGT
117967 TTTTAGCCA
1 TTTTAGCCA
117976 CATTTTCCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.47
Consensus pattern (20 bp):
TTTTAGCCAAGGACTTTTGT
Found at i:121304 original size:19 final size:19
Alignment explanation
Indices: 121260--121332 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
121250 CTACCAGCTT
**
121260 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
121280 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
121299 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
121320 -ATGTATCGATACA
1 CATGTATCGATACA
121333 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:121884 original size:16 final size:17
Alignment explanation
Indices: 121858--121894 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
121848 TAATTAAGGC
*
121858 TCTCGTTAAAAAAATTT
1 TCTCGTTAAAAAAAATT
121875 TCTC-TTAAAAAAAATT
1 TCTCGTTAAAAAAAATT
121891 TCTC
1 TCTC
121895 CCCCTTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.41
Consensus pattern (17 bp):
TCTCGTTAAAAAAAATT
Found at i:123634 original size:13 final size:13
Alignment explanation
Indices: 123616--123641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
123606 ATATTTTTTG
123616 TGTATCGATACAT
1 TGTATCGATACAT
123629 TGTATCGATACAT
1 TGTATCGATACAT
123642 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:123652 original size:32 final size:33
Alignment explanation
Indices: 123595--123659 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
123585 TACAAACCAA
123595 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
123629 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
123660 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:123653 original size:19 final size:19
Alignment explanation
Indices: 123595--123659 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
123585 TACAAACCAA
123595 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
123616 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
123629 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
123648 TGTATCGATACA
1 TGTATCGATACA
123660 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:126207 original size:13 final size:13
Alignment explanation
Indices: 126189--126226 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
126179 ATAATCCCCC
126189 TGTATCGATACAG
1 TGTATCGATACAG
*
126202 TGTATCGATACAT
1 TGTATCGATACAG
126215 TGTATCGATACA
1 TGTATCGATACA
126227 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:127407 original size:30 final size:30
Alignment explanation
Indices: 127137--127500 Score: 230
Period size: 30 Copynumber: 11.9 Consensus size: 30
127127 TTTATCACCC
* ***
127137 TTCAAAAGTCCACAAGTCAGTGGCATTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
* ***
127168 TTC-AAAGCCCATAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
127197 TTCAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
127225 TTC-AAAGCCCACAAATCAGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-C-TT
* *
127255 TTC-GAAGCCCACAAGTCGGTGGC--CTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTT
* * * **
127283 TTCCAAAGCTCACAACTCTA-TAAC-ACTCTTT
1 TTCAAAAGCCCACAAGTC-AGTGGCAAC-C-TT
** * *
127314 TTCTTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCAACCTT
* *
127347 TTCAAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
127377 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
127406 TT-AAAAGCCCACACAAGTCGGTGGCAACCCTT
1 TTCAAAAG-CC-CACAAGTCAGTGGCAA-CCTT
* *
127438 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1 TTCAAAAG-CC-CACAAGTCAGTGGCAA-CCTT
* * *
127471 CTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCAAAAG-CC-CACAAGTCAGTGGCAACC
127501 ATTCTAAGCC
Statistics
Matches: 283, Mismatches: 31, Indels: 37
0.81 0.09 0.11
Matches are distributed among these distances:
26 2 0.01
27 20 0.07
28 13 0.05
29 29 0.10
30 128 0.45
31 10 0.04
32 5 0.02
33 62 0.22
34 13 0.05
35 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:127421 original size:60 final size:62
Alignment explanation
Indices: 127195--127500 Score: 217
Period size: 63 Copynumber: 5.0 Consensus size: 62
127185 AGTGGCATTT
*
127195 TTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACA-AA-TCAGTGGC-ACTCT
1 TTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACACAAGTCAGTGGCAAC-CC
* * ** * * * * ** *
127253 TTTTC-GAAGCCCACAAGTCGGTGGCCTCTTTTCCAAAG--CTCACAACTCTA-TAAC-ACTCT
1 TTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACACAAGTC-AGTGGCAAC-CC
** * * *
127312 TTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAG-CC-CACAAGTTAGTGGC-ACC
1 TTTTC---AAAAGCCCACAAGTCAGTGGCAACC-TTTCAAAAGCCCACACAAGTCAGTGGCAACC
127374 C
62 C
*
127375 TTTTCAAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACACAAGTCAGTGGCAACCC
* * * *
127436 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTTTCAAAAG-CC-CACAAGTCAGTGGCAA-CCTT-TCAAAAGCCCACACAAGTCAGTGGCAACC
127501 ATTCTAAGCC
Statistics
Matches: 199, Mismatches: 29, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
57 22 0.11
58 15 0.08
59 23 0.12
60 34 0.17
61 13 0.07
62 2 0.01
63 40 0.20
64 22 0.11
65 2 0.01
66 26 0.13
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (62 bp):
TTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACACAAGTCAGTGGCAACCC
Found at i:127619 original size:49 final size:49
Alignment explanation
Indices: 127505--127776 Score: 353
Period size: 49 Copynumber: 5.7 Consensus size: 49
127495 GCAACCATTC
* *
127505 TAAGCCCAATATAGCTGGCCTTGACTCAGCACATTGGCA-C--CA---T
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
127548 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
127597 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
127646 TAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
127693 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
127745 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
127777 GTTGACATCC
Statistics
Matches: 200, Mismatches: 18, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
43 36 0.18
44 1 0.00
46 1 0.00
47 40 0.20
48 3 0.01
49 85 0.43
50 1 0.00
51 2 0.01
52 31 0.16
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:127716 original size:145 final size:143
Alignment explanation
Indices: 127516--127776 Score: 436
Period size: 145 Copynumber: 1.8 Consensus size: 143
127506 AAGCCCAATA
*
127516 TAGCTGGCCTTGACTCAGCACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
*
127581 TTGGCACC-TTT-ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATC
66 TTGGCACCTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
127644 TTTAAGTCCAGTG
131 TTTAAGTCCAGTG
127657 TAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTAAGTCCAATATAGCTGGCCTTGAATCAG
1 TAGCTGGCCTTGAATCAGCACATTGGCA-C-CA--TTAAGTCCAATATAGCTGGCCTTGAATCAG
*
127722 CATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
62 CATATTGGCACCTTTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
127777 GTTGACATCC
Statistics
Matches: 110, Mismatches: 3, Indels: 7
0.92 0.03 0.06
Matches are distributed among these distances:
141 27 0.25
142 1 0.01
143 2 0.02
145 42 0.38
146 3 0.03
148 35 0.32
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (143 bp):
TAGCTGGCCTTGAATCAGCACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
TTGGCACCTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
TTTAAGTCCAGTG
Found at i:127825 original size:55 final size:52
Alignment explanation
Indices: 127547--127827 Score: 296
Period size: 49 Copynumber: 5.6 Consensus size: 52
127537 ATTGGCACCA
* *
127547 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCT
* * *
127596 TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCT
* * * *
127645 TTAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCACC---T-CA-CC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCT
* *
127692 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCT
* * *
127744 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CATCT
* * * *
127799 TTAAGCCCAATATCGTTGGCCATGAATCA
1 TTAAGTCCAATATAGCTGGCCTTGAATCA
127828 ACATATTGGC
Statistics
Matches: 202, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
47 40 0.20
48 5 0.02
49 83 0.41
50 1 0.00
51 2 0.01
52 36 0.18
53 2 0.01
54 5 0.02
55 28 0.14
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (52 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCT
Found at i:128736 original size:13 final size:13
Alignment explanation
Indices: 128718--128742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128708 CATAAAGTGT
128718 TGTATCGATACAA
1 TGTATCGATACAA
128731 TGTATCGATACA
1 TGTATCGATACA
128743 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:128824 original size:13 final size:13
Alignment explanation
Indices: 128806--128830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128796 ATCACTTAAA
128806 TGTATCGATACAT
1 TGTATCGATACAT
128819 TGTATCGATACA
1 TGTATCGATACA
128831 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:128895 original size:52 final size:52
Alignment explanation
Indices: 128839--128967 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
128829 CACTGATCTT
*
128839 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
128891 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
128943 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
128968 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Done.