Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold469
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: 257357
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:1579 original size:13 final size:13
Alignment explanation
Indices: 1557--1603 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
1547 TTTGCTTTGT
1557 TTTTTCCTTTTCTC
1 TTTTT-CTTTTCTC
1571 TTTTTCTTTT-TC
1 TTTTTCTTTTCTC
1583 TTTTTTCTTTTTCTCC
1 -TTTTTC-TTTTCT-C
1599 TTTTT
1 TTTTT
1604 TTACTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.07
13 11 0.38
14 9 0.31
15 6 0.21
16 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:1580 original size:19 final size:19
Alignment explanation
Indices: 1558--1596 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1548 TTGCTTTGTT
1558 TTTTCCTTTTCTCTTTTTC
1 TTTTCCTTTTCTCTTTTTC
* *
1577 TTTTTCTTTTTTCTTTTTC
1 TTTTCCTTTTCTCTTTTTC
1596 T
1 T
1597 CCTTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCCTTTTCTCTTTTTC
Found at i:1586 original size:5 final size:6
Alignment explanation
Indices: 1557--1596 Score: 53
Period size: 6 Copynumber: 6.2 Consensus size: 6
1547 TTTGCTTTGT
1557 TTTTTCC TTTTCTC TTTTTC TTTTTC TTTTTTC TTTTTC T
1 TTTTT-C TTTT-TC TTTTTC TTTTTC -TTTTTC TTTTTC T
1597 CCTTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 15 0.48
7 15 0.48
8 1 0.03
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:3355 original size:153 final size:150
Alignment explanation
Indices: 3030--3440 Score: 429
Period size: 153 Copynumber: 2.7 Consensus size: 150
3020 CTACTTCGTC
* * *
3030 AATTTCACCAATAGGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATCATTTAAT
1 AATTTCTCCAGTAGGATTTTTCTAA-TTTATAATTTTCAAAATTCTTCAAATATTAT-TTTTAAT
* * *
3095 TCATAATAAATCAGTTTAGAAAATTTAATTTATTTTATGAATTTTAAAATTTTACTTGTTACTAA
64 TCATATTAAATCAGTTTTGAAAATTTAATTTATTTTATGAACTTTAAAATTTTA-TTGTTACTAA
* *
3160 GATACAAAATTTTTTAATCCGTA
128 GATACAAAATTTTCTAATCCATA
* *
3183 AATTTCTCCAGTAGAATTTTTCTAATCTTATAATTTTCAAAATTCTTCAAATATTATTGTTTAAC
1 AATTTCTCCAGTAGGATTTTTCTAAT-TTATAATTTTCAAAATTCTTCAAATATTATT-TTTAAT
* * * * *
3248 CCATATTAATTCAGTTTTGCAAATTTCAATTTATTTTATGAGCTTTAGAATTTT-TT-TATACTA
64 TCATATTAAATCAGTTTTGAAAATTT-AATTTATTTTATGAACTTTAAAATTTTATTGT-TACTA
* * * * * *
3311 CGATATAGAGTTTTCTACTTCATA
127 AGATACAAAATTTTCTAATCCATA
* * * *
3335 AATTTCTTCAGTTGGGA-TTTTCTCAATTTA-AAGTTTTCAAAATT-TATAAAATA-TATTTATG
1 AATTTCTCCAG-TAGGATTTTTCT-AATTTATAA-TTTTCAAAATTCT-TCAAATATTATTT-TT
*
3396 AATTCATATTAAATCATTTTATGAAAATTTAATTTATTTTATGAA
61 AATTCATATTAAATCAGTTT-TGAAAATTTAATTTATTTTATGAA
3441 TTTTGTATTT
Statistics
Matches: 216, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
150 1 0.00
151 39 0.18
152 68 0.31
153 84 0.39
154 24 0.11
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (150 bp):
AATTTCTCCAGTAGGATTTTTCTAATTTATAATTTTCAAAATTCTTCAAATATTATTTTTAATTC
ATATTAAATCAGTTTTGAAAATTTAATTTATTTTATGAACTTTAAAATTTTATTGTTACTAAGAT
ACAAAATTTTCTAATCCATA
Found at i:4451 original size:148 final size:148
Alignment explanation
Indices: 4267--4621 Score: 384
Period size: 148 Copynumber: 2.4 Consensus size: 148
4257 TATTGCAATG
*
4267 TTTTTCAAGTCC-CTTAGGATCA-CCGAGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTT
1 TTTTTCAAGTCCTC-TAGGATCATCAG-GCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTT
* * * *
4330 AGCATTTTCCTTGAAACCTAGTCCTATAAAACTACCAA-GTCCACTTCTA-GTCGAAGGTACAAA
64 AGCATTCTCC-TAAAACCTAGTCCTACAAAACTA-CAAGGTCCACTTCTATGCCGAAGGTACAAA
*
4393 TTATGAGTA-GATTCGCTTTTA-C
127 TTAGGAGTAGGATT-G-TTTTATC
* * * * * **
4415 TTTTTCAAATCCTCTAGGATCATCAGGCACTTCTAAGTTGATGATAGACCTCAGGGACCTTTTAG
1 TTTTTCAAGTCCTCTAGGATCATCAGGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTTAG
* * * **
4480 CATTCTCCTAAAACCTAGTCTTACAAAACTACAAGGTCCGCTTCTATGCCTAAGGTATGAATTAG
66 CATTCTCCTAAAACCTAGTCCTACAAAACTACAAGGTCCACTTCTATGCCGAAGGTACAAATTAG
4545 GAGTAGGATTGTTTTATC
131 GAGTAGGATTGTTTTATC
* * * **
4563 TTTTT-AAGTGCTCTAGG-TCCTCCAGGCACTTCTATGTCGATGGTAAGTCTTAGGGATAT
1 TTTTTCAAGTCCTCTAGGATCAT-CAGGCACTTCTAAGTCGATGGTAAACCTTAGGGATAT
4622 CCTAGTAAGT
Statistics
Matches: 170, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
146 6 0.04
147 73 0.43
148 84 0.49
149 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (148 bp):
TTTTTCAAGTCCTCTAGGATCATCAGGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTTAG
CATTCTCCTAAAACCTAGTCCTACAAAACTACAAGGTCCACTTCTATGCCGAAGGTACAAATTAG
GAGTAGGATTGTTTTATC
Found at i:8038 original size:18 final size:17
Alignment explanation
Indices: 8017--8062 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
8007 AATTTCCTTT
8017 AAACAAAAAAAAGGAAAA
1 AAACAAAAAAAA-GAAAA
*
8035 AAAC-AAAAAAATAAAA
1 AAACAAAAAAAAGAAAA
*
8051 AAATAAAAAAAA
1 AAACAAAAAAAA
8063 AGTGGAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.87, C:0.04, G:0.04, T:0.04
Consensus pattern (17 bp):
AAACAAAAAAAAGAAAA
Found at i:8042 original size:16 final size:16
Alignment explanation
Indices: 8017--8061 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
8007 AATTTCCTTT
8017 AAACAAAAAAAAGGAAAA
1 AAAC-AAAAAAA-GAAAA
*
8035 AAACAAAAAAATAAAA
1 AAACAAAAAAAGAAAA
*
8051 AAATAAAAAAA
1 AAACAAAAAAA
8062 AAGTGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 7 0.28
18 4 0.16
ACGTcount: A:0.87, C:0.04, G:0.04, T:0.04
Consensus pattern (16 bp):
AAACAAAAAAAGAAAA
Found at i:8050 original size:7 final size:8
Alignment explanation
Indices: 8031--8061 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
8021 AAAAAAAAGG
*
8031 AAAAAAAC
1 AAAAAAAT
8039 AAAAAAAT
1 AAAAAAAT
8047 AAAAAAAT
1 AAAAAAAT
8055 AAAAAAA
1 AAAAAAA
8062 AAGTGGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.06
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8125 original size:17 final size:16
Alignment explanation
Indices: 8086--8125 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
8076 GAAAAAGTGT
8086 AAATAGAAAAAAGAAAA
1 AAAT-GAAAAAAGAAAA
8103 AAATGAAAAAAGAAAA
1 AAATGAAAAAAGAAAA
8119 AAGATGA
1 AA-ATGA
8126 GGAAACAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
AAATGAAAAAAGAAAA
Found at i:9574 original size:20 final size:20
Alignment explanation
Indices: 9537--9590 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
9527 TTCTATAATT
*
9537 TGTATCGATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
9558 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
9578 TGTATCGATACAT
1 TGTATCGATACAT
9591 GTTTGTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:9674 original size:20 final size:20
Alignment explanation
Indices: 9649--9722 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 20
9639 CTGGAAAAAT
*
9649 TGTATCGATACATCCACTTA
1 TGTATCGATACATCCACTAA
9669 TGTATCGATACATCCTAGC-AA
1 TGTATCGATACATCC-A-CTAA
*
9690 TGTATCGATACAT-CACTCAT
1 TGTATCGATACATCCACT-AA
9710 TGTATCGATACAT
1 TGTATCGATACAT
9723 TCTGGATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 30 0.62
21 15 0.31
22 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATCCACTAA
Found at i:9813 original size:93 final size:93
Alignment explanation
Indices: 9668--9869 Score: 323
Period size: 93 Copynumber: 2.2 Consensus size: 93
9658 ACATCCACTT
* *
9668 ATGTATCGATACATCCTAGCAATGTATCGATACATCACTCATTGTATCGATACATTCTGGATTTT
1 ATGTATCGATACATGCTAGCAATGTATCGATACATCACTCATTGTATCGATACATTATGGATTTT
9733 TGACCCAAATGTATCAATACATTCTTCA
66 TGACCCAAATGTATCAATACATTCTTCA
* * * * * *
9761 ATGTATCGATAAATGCTGGTAATGTATTGATACATCACTCATTGTATTGATACATTATGGGTTTT
1 ATGTATCGATACATGCTAGCAATGTATCGATACATCACTCATTGTATCGATACATTATGGATTTT
*
9826 TGACCCAAATGTATCGATACATTCTTCA
66 TGACCCAAATGTATCAATACATTCTTCA
9854 ATGTATCGATACATGC
1 ATGTATCGATACATGC
9870 AAGCTATTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 99 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (93 bp):
ATGTATCGATACATGCTAGCAATGTATCGATACATCACTCATTGTATCGATACATTATGGATTTT
TGACCCAAATGTATCAATACATTCTTCA
Found at i:11456 original size:13 final size:13
Alignment explanation
Indices: 11438--11494 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
11428 TTCAATGATT
11438 TGTATCGATACAA
1 TGTATCGATACAA
11451 TGTATCGATACATAA
1 TGTATCGATAC--AA
11466 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
11483 TGTATAGATACA
1 TGTATCGATACA
11495 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11475 original size:19 final size:18
Alignment explanation
Indices: 11451--11513 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
11441 ATCGATACAA
11451 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
11470 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
11483 TGTATAGATACATAAGTTT
1 TGTATCGATACATAAG-TT
11502 TGTATCGATACA
1 TGTATCGATACA
11514 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:11478 original size:32 final size:32
Alignment explanation
Indices: 11437--11521 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
11427 TTTCAATGAT
11437 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
11469 TTGTATCGATACAATGTATAGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
11501 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
11522 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:15863 original size:54 final size:50
Alignment explanation
Indices: 15778--15924 Score: 141
Period size: 53 Copynumber: 2.8 Consensus size: 50
15768 AACATCACTC
* * *
15778 CAACCCCTTTTTACTTCTAAAACACCAAATTTTTCATCTCTTAAGAGATACT
1 CAACCCCTTTTTACTTCTAAAATATCGAATTTTTCATCTC-T-AGAGATACT
* * *
15830 CAAACCCCATTTTTACTTCCAAAATATTGAATTTTTTAATCTCTAGAGATACTT
1 C-AACCCC-TTTTTACTTCTAAAATATCGAA-TTTTTCATCTCTAGAGATAC-T
** * *
15884 CAACCTTGTTTTTACTTCTAAAATGTCGTATTTTTCATCTC
1 CAACC-CCTTTTTACTTCTAAAATATCGAATTTTTCATCTC
15925 CGAGGATATC
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
52 11 0.14
53 36 0.47
54 20 0.26
55 10 0.13
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.41
Consensus pattern (50 bp):
CAACCCCTTTTTACTTCTAAAATATCGAATTTTTCATCTCTAGAGATACT
Found at i:17626 original size:36 final size:37
Alignment explanation
Indices: 17579--17652 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
17569 TGGTTCTCAC
17579 CCTAGTCAAACA-CCTTTTCATTCCCATTTGACTATA
1 CCTAGTCAAACATCCTTTTCATTCCCATTTGACTATA
* * *
17615 CCTAGTCAAACATTCTTTTCTTTCCCATTTGATTATA
1 CCTAGTCAAACATCCTTTTCATTCCCATTTGACTATA
17652 C
1 C
17653 GCGGTCAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 12 0.35
37 22 0.65
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (37 bp):
CCTAGTCAAACATCCTTTTCATTCCCATTTGACTATA
Found at i:17759 original size:82 final size:80
Alignment explanation
Indices: 17615--17837 Score: 223
Period size: 82 Copynumber: 2.7 Consensus size: 80
17605 TTTGACTATA
* * * * * *
17615 CCTAGTCAAACATTCTTTTCTTTCCCATTTGATTATACGC-GGTCAAACGTTTTTCATTACTGTT
1 CCTAGTCAAACA-TCTTTTC-ATCTCGTTCGACTATAC-CTGGTCAAACTTTTTTCATTACTGTT
* * *
17679 TGACGGGATGGTTCTTAC
63 TAACAGGATGGTTCTCAC
* * *
17697 CCTGGTTAAACATCTTTTCATTTCTTGTTCGACTATACCTGGTCAAACTTTTTTCATTACTGTTT
1 CCTAGTCAAACATCTTTTCA--TCTCGTTCGACTATACCTGGTCAAACTTTTTTCATTACTGTTT
*
17762 AACATGATGGTTCTCAC
64 AACAGGATGGTTCTCAC
* * * * * *
17779 CTTAGTCAAACATCTTTTCATCTCGTTTGATTGTACCTGGTTAAACTTCTTTCATTACT
1 CCTAGTCAAACATCTTTTCATCTCGTTCGACTATACCTGGTCAAACTTTTTTCATTACT
17838 CTTTTGAGGT
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
80 33 0.28
81 8 0.07
82 75 0.65
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (80 bp):
CCTAGTCAAACATCTTTTCATCTCGTTCGACTATACCTGGTCAAACTTTTTTCATTACTGTTTAA
CAGGATGGTTCTCAC
Found at i:19621 original size:10 final size:10
Alignment explanation
Indices: 19594--19640 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
19584 GAAAGTGGAG
* *
19594 AGAAAAAGAG
1 AGAAAAAAAT
*
19604 AGAAAAAAAA
1 AGAAAAAAAT
19614 AGAAAAAAAT
1 AGAAAAAAAT
*
19624 AG-ATAAAAT
1 AGAAAAAAAT
19633 AGAAAAAA
1 AGAAAAAA
19641 CAAGCTAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (10 bp):
AGAAAAAAAT
Found at i:20501 original size:15 final size:15
Alignment explanation
Indices: 20463--20502 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
20453 GAAATTTTTG
*
20463 AAAATAAAAAAATAT
1 AAAATAAATAAATAT
20478 AAAATAAATAAATA-
1 AAAATAAATAAATAT
20492 ATAAATAAATA
1 A-AAATAAATA
20503 TTATTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAAATAAATAT
Found at i:26357 original size:155 final size:155
Alignment explanation
Indices: 25918--26898 Score: 989
Period size: 156 Copynumber: 6.3 Consensus size: 155
25908 GCTGAGTTTA
* * *
25918 AAAAAATTACTAAAATGCCCTTAAGGGATAAC-TTCGACGTAAAAGTAT-CT-GATACCCCTAAA
1 AAAAAATTACAAAAATACCCCTAAGGGAT-ACTTTCGACGTAAAAGTATCCTAG-TACCCCTAAA
* * * * ** *
25980 AGACTTAAAAAGGATTATAAATGGGACAAACCTATCCTAAATACCCACTTTCGGCATAAAAGCGG
64 GGAATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGG
26045 ACCCGGTGATAACCTAGGACTCGATTCT
128 ACCCGGTGATAACCTAGGACTCGATTCT
*** * * * ** * * *
26073 AAAAAATTACCGTAATACCCCTAGGGGATATTTTCGACGTCAAAGTGCCCGA-TATCCCTAAA-T
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAGG
* * * *
26136 AATTTAAAAAAGATTACAAACTA-GGATGAACCTATCCTAAATACCCACCTTCGGCATAGAAGCG
66 AA-TTAAAAAGGACTATAAA--AGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCG
* * *
26200 GACCCGGTGATAACCTAAGACTTGACTCT
127 GACCCGGTGATAACCTAGGACTCGATTCT
* * *
26229 AAAAAATTACAAAAATACCCCT-AGGGATAATTTCAATGTAAAAGTATCCTAGTACCCCTAAAGG
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAGG
* *
26293 AATTAAAAAGGACTATAAAAGGGGTGAACCTATCCTAAATATCCACCTTCGGCATAGAAGCGGAC
66 AATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGGAC
* * * *
26358 CCGGTGATAACTTAAGACTTGACTCT
130 CCGGTGATAACCTAGGACTCGATTCT
* * *
26384 AAAAAATTACAAAAATACCCCTAGGGGATACTTTCGATGTAAAAGTATCCTGGTACCCCTAAAGG
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAGG
* * * *
26449 ACTTAAAAAGG-CTATAAAAGGGGTGAACCTATCCTAAATACCTACCTTTGGCATAAAAGTGGAC
66 AATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACC-ACCTTCGGCATAAAAGCGGAC
** * *
26513 CTAGTGATAACTTAGGACTCGGTTCT
130 CCGGTGATAACCTAGGACTCGATTCT
* * * ** *
26539 AGAAAAA-CACAAAAATGCCCCTAAAGGTATACTTTCGACGTGAAAA-TATCCCGGTAACCCTAA
1 A-AAAAATTACAAAAATACCCCT-AAGGGATACTTTCGACGT-AAAAGTATCCTAGTACCCCTAA
* * *
26602 AAG-ATGTAAAAAAGACTATAAAAGGGATGAACCTATCCTAAACACCTACCTTCGGCATAAAAGC
63 AGGAAT-TAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACC-ACCTTCGGCATAAAAGC
* * * *
26666 AGACTCGGTGATAACCTAGGACTCGGTTTT
126 GGACCCGGTGATAACCTAGGACTCGATTCT
** * * * * * * * * *
26696 AAAAAATTATGAAAATATCCCTACAAGTATACCTTCGATGTAAAAGTATCCCAGCAACCTTAAAG
1 AAAAAATTACAAAAATACCCCTA-AGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAG
* * * * * * *
26761 GACTTAAAAA-GACAAGAGATGGGATGAACCTATCCTAAATATCTACTTTCGGCATAAAAGCGGA
65 GAATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGGA
*
26825 CCCGGTGACAACCTAGGACTCGATTCT
129 CCCGGTGATAACCTAGGACTCGATTCT
*
26852 AAAAAATTACAAAAATACCCCTAAGGGATACCTTT-GACGTGAAAGTA
1 AAAAAATTACAAAAATACCCCTAAGGGATA-CTTTCGACGTAAAAGTA
26899 CTCAATACTC
Statistics
Matches: 694, Mismatches: 110, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
154 5 0.01
155 267 0.38
156 298 0.43
157 123 0.18
158 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (155 bp):
AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAGG
AATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCACCTTCGGCATAAAAGCGGACC
CGGTGATAACCTAGGACTCGATTCT
Found at i:28381 original size:13 final size:12
Alignment explanation
Indices: 28364--28413 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
28354 TTTCATTCTA
28364 TTTTCTCTTTTT
1 TTTTCTCTTTTT
28376 TCTTTC-CTTTTT
1 T-TTTCTCTTTTT
**
28388 TTTAATCTTTTT
1 TTTTCTCTTTTT
*
28400 TTCTCTCTTTTT
1 TTTTCTCTTTTT
28412 TT
1 TT
28414 CAGCTCAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 2 0.06
12 25 0.81
13 4 0.13
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:29217 original size:167 final size:165
Alignment explanation
Indices: 29026--29509 Score: 605
Period size: 166 Copynumber: 2.9 Consensus size: 165
29016 GATTTGAAAG
* * *
29026 AAAAAATTCAAAACTCAAGAAAATGAATGAATTTTTTAAAAAATAATTTAATA-AAAATCAAATG
1 AAAAAATTAAAAACTCATGAAAATGAATGAATTTTTT-AAAAATAATTTAATAGGAAAT-AAATG
* * * *
29090 ATGATGTTTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCCCTC-AAAAAAATTACGGAGT
64 ATGATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAGAGT
* * *
29154 TGAAAACACTGTATTTTGAAAAAAAAGAAATTTCAAGA
129 AGAAAACACCGTATTTAGAAAAAAAAG-AATTTCAAGA
* * * *
29192 AAAAAATTTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATGA
1 AAAAAA-TTAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAATTTAATAGGAAATAAATGA
* * * *
29257 TGATATTTGATTAATTTAAAAAATTGAAAACCAAGAAAAATTCCCTCGAAAAAAATTACAGAGTA
65 TGATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAGAGTA
29322 GAAAACACCGTATTTAGAAAAAAAAGAATTTCAAGA
130 GAAAACACCGTATTTAGAAAAAAAAGAATTTCAAGA
* * * * *
29358 AAAAAAATAAAAACTCATGAAAATTAATTAATTTTTT-CAAATAATTTAATAGGAAATAAATAAT
1 AAAAAATTAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAATTTAATAGGAAATAAATGAT
* * * *** *
29422 AATATTTGATAAATTTTAAAAATCAAAAACCAAGAAAATTCTTTTCGAAAAAATTTACAGAGTAA
66 GATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAGAGT-A
* *
29487 AAAAAAACCGTATTTTAGAAAAA
130 GAAAACACCGTA-TTTAGAAAAA
29510 GGAAAGTTTG
Statistics
Matches: 276, Mismatches: 37, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
164 74 0.27
165 38 0.14
166 93 0.34
167 71 0.26
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.28
Consensus pattern (165 bp):
AAAAAATTAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAATTTAATAGGAAATAAATGAT
GATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAGAGTAG
AAAACACCGTATTTAGAAAAAAAAGAATTTCAAGA
Found at i:31286 original size:143 final size:140
Alignment explanation
Indices: 30954--31305 Score: 388
Period size: 139 Copynumber: 2.5 Consensus size: 140
30944 GTAAATTTTG
* * * * * *
30954 AAAATCTCATTTCGTACCTTAATGAAAAACTGAAAAGATACGAAAAGTTTTGAAGATTTTTACAC
1 AAAAT-TCATTTCATACCTCAATGGAAAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATAC
* * * * * * * *
31019 TCTTACGAAAAATCACA-G-GAATA-TAGAAATCTTGAAAAATTAAGACAATAATTTTATTTAAT
65 CCCTAAGGAAAA-C-CATGAGACTATTAGAAATCCTAAAAAATTAAGACAATAATTTTATCTAAT
31081 TTTAAATTTCCAA
128 TTTAAATTTCCAA
* * * *
31094 AAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATATC
1 AAAATTCATTTCATACCTCAATGGAAAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACC
* *
31159 CCTAAGGAAAACCATGAGACTATTAGAAATCCTAAAAAATTAAGATAATAATTTTTATCTGATAT
66 CCTAAGGAAAACCATGAGACTATTAGAAATCCTAAAAAATTAAGACAATAA-TTTTATCTAAT-T
**
31224 TT-AATTTTTAA
129 TTAAATTTCCAA
* * *
31235 GAAAATTCATTTTTATACCTCAATGGAAAACCGAAAAGTTACGAAATGTTTTGAAGATTTCTATA
1 -AAAATTCA-TTTCATACCTCAATGGAAAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATA
31300 CCCCTA
64 CCCCTA
31306 CAAAAGAAAT
Statistics
Matches: 180, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
137 2 0.01
138 2 0.01
139 65 0.36
140 30 0.17
141 16 0.09
142 11 0.06
143 54 0.30
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (140 bp):
AAAATTCATTTCATACCTCAATGGAAAACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACC
CCTAAGGAAAACCATGAGACTATTAGAAATCCTAAAAAATTAAGACAATAATTTTATCTAATTTT
AAATTTCCAA
Found at i:33399 original size:52 final size:52
Alignment explanation
Indices: 33329--33449 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
33319 GAAAATTTAT
*
33329 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
33381 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
33433 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
33450 AAGATCAGTG
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:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:33462 original size:52 final size:51
Alignment explanation
Indices: 33329--33469 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
33319 GAAAATTTAT
33329 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
33381 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
33433 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
33470 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:33476 original size:13 final size:13
Alignment explanation
Indices: 33458--33482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33448 CAAAGATCAG
33458 TGTATCGATACAA
1 TGTATCGATACAA
33471 TGTATCGATACA
1 TGTATCGATACA
33483 TGTGAGTAAT
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:33566 original size:13 final size:13
Alignment explanation
Indices: 33548--33572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33538 CAAAAAAATA
33548 TGTATCGATACAT
1 TGTATCGATACAT
33561 TGTATCGATACA
1 TGTATCGATACA
33573 ACATTTTATG
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:33568 original size:33 final size:33
Alignment explanation
Indices: 33526--33592 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
33516 AGTAGCTTAA
33526 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
33559 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
33592 A
1 A
33593 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:34683 original size:21 final size:20
Alignment explanation
Indices: 34657--34696 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
34647 TTTGTGCAAG
34657 AAAACTAATACAAAAAAATTC
1 AAAACTAATA-AAAAAAATTC
* *
34678 AAAACTCATAAAATAAATT
1 AAAACTAATAAAAAAAATT
34697 GAATTTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAAAAAATTC
Found at i:37930 original size:20 final size:20
Alignment explanation
Indices: 37905--37958 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
37895 ATTTACCTGC
37905 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
37925 ATGTATCAATACATTGAATA
1 ATGTATCGATACATTGAATA
37945 ATGTATCGATACAT
1 ATGTATCGATACAT
37959 CTGGGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:38012 original size:13 final size:13
Alignment explanation
Indices: 37994--38022 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37984 ATACAAAGAT
37994 CAATGTATCGATA
1 CAATGTATCGATA
38007 CAATGTATCGATA
1 CAATGTATCGATA
38020 CAA
1 CAA
38023 ATTGTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:39742 original size:45 final size:44
Alignment explanation
Indices: 39607--39742 Score: 119
Period size: 45 Copynumber: 3.0 Consensus size: 44
39597 CTTTACTCAT
* * * * *
39607 ACGAATATAAAAAGGTGTTTGATTAGGGATAAACCATGACATCAA
1 ACGAATAT-GAAAGGAGTTTGACTAGGGCTAAACCATGACATTAA
* * * * * **
39652 ATGAAGATGATAAAGAGTTTAACTAGGGCTAAATCATGATGTTAA
1 ACGAATATGA-AAGGAGTTTGACTAGGGCTAAACCATGACATTAA
* *
39697 ACGAATATGGAAAGGAGTTTGACCAGGGCTAAACCATCACATTAA
1 ACGAATAT-GAAAGGAGTTTGACTAGGGCTAAACCATGACATTAA
39742 A
1 A
39743 TGAGGGTTAA
Statistics
Matches: 68, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
44 1 0.01
45 65 0.96
46 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (44 bp):
ACGAATATGAAAGGAGTTTGACTAGGGCTAAACCATGACATTAA
Found at i:39884 original size:93 final size:93
Alignment explanation
Indices: 39745--40153 Score: 263
Period size: 93 Copynumber: 4.4 Consensus size: 93
39735 ACATTAAATG
* * * *
39745 AGGGTTAAAAGAGTTTGACTAGGACTTACGCCAATATAGTCAAACAACGA-TGAAAAGAGTTCGA
1 AGGGTGAAAAGAGTTTGACCAGGACTAACGCCAATATAGTCAAACAA-GAGTGAAAACAGTTCGA
* *
39809 CCAAG-ACTAACGCCAATACAGTCAAACT
65 CCAAGTACTAACACCAATACAGTCAAACA
* * * *
39837 AGGGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAAGAGTGGAAACAGTTTGA
1 AGGGTGAAAAGAGTTTGACCAGG-ACTAACGCCAATATAGTCAAACAAGAGTGAAAACAGTTCGA
* * *
39902 CCAGGTCCTAACACCAATATAGTCAAACA
65 CCAAGTACTAACACCAATACAGTCAAACA
* * ** * * ** * * * *
39931 ATGGTGAAAAGAGTTCT-ACTAGGACTAACAACAATACAATTGAACAAGGGTGAGAAGAGTTTGA
1 AGGGTGAAAAGAGTT-TGACCAGGACTAACGCCAATATAGTCAAACAAGAGTGAAAACAGTTCGA
* * * * * * * *
39995 CGAGGTCCCAACGCTAATAAAATCAAACGA
65 CCAAGTACTAACACCAATACAGTCAAAC-A
* * * * * * ** *
40025 A-AGT-AGAAAGAGTTTGACCAGGTCTTAATGCTAATATGGTCAAACAA-AGGTAAAAAGGGTTT
1 AGGGTGA-AAAGAGTTTGACCAGGAC-TAACGCCAATATAGTCAAACAAGA-GTGAAAACAGTTC
* * * *
40087 GACCAGGTCCTAAAACCAATACAATCAAACA
63 GACCAAGTACTAACACCAATACAGTCAAACA
* * * *
40118 ACGGTGAAAAGAGTTCGATCAGGACTAATGCCAATA
1 AGGGTGAAAAGAGTTTGACCAGGACTAACGCCAATA
40154 CTGTCGATAA
Statistics
Matches: 246, Mismatches: 60, Indels: 21
0.75 0.18 0.06
Matches are distributed among these distances:
92 25 0.10
93 115 0.47
94 104 0.42
95 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (93 bp):
AGGGTGAAAAGAGTTTGACCAGGACTAACGCCAATATAGTCAAACAAGAGTGAAAACAGTTCGAC
CAAGTACTAACACCAATACAGTCAAACA
Found at i:39899 original size:47 final size:47
Alignment explanation
Indices: 39751--40320 Score: 367
Period size: 47 Copynumber: 12.2 Consensus size: 47
39741 AATGAGGGTT
* * * * * *
39751 AAAAGAGTTTGACTAGG-ACTTACGCCAATATAGTCAAACAACGA-TG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAA-GAGTG
* * * * * * *
39797 AAAAGAGTTCGACCAAG-ACTAACGCCAATACAGTCAAACTAGGGTG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGAGTG
* *
39843 AAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAAGAGTG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGAGTG
* * ** * *
39890 GAAACAGTTTGACCAGGTCCTAACACCAATATAGTCAAACAATG-GTG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAA-GAGTG
* * *** ** *
39937 AAAAGAGTTCT-ACTAGG-ACTAACAACAATACAATTGAACAAGGGTG
1 AAAAGAGTT-TGACCAGGTCCTAATGCCAATACAATCAAACAAGAGTG
* * * * * *
39983 AGAAGAGTTTGACGAGGTCCCAACGCTAATAAAATCAAACGAA-AGT-
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAAC-AAGAGTG
* * *** *
40029 AGAAAGAGTTTGACCAGGTCTTAATGCTAATATGGTCAAACAA-AGGTA
1 A-AAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGA-GTG
* **
40077 AAAAGGGTTTGACCAGGTCCTAAAACCAATACAATCAAACAACG-GTG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAA-GAGTG
* * * ** * * * *
40124 AAAAGAGTTCGATCAGG-ACTAATGCCAATACTGTC-GATAAGGGCG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGAGTG
* * * * *
40169 AGAAGAGTTTAACCTGGTCCTAATGCCAATACAATCAAATGAAG-GTA
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAA-CAAGAGTG
* * * * *
40216 AAAAAAGTTTGACTAGGTCCTAATGCCAATACAATCAAATAAGGGTA
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGAGTG
* *
40263 AAAAGAGTTTGACCAGGTCCTAATGCTAATACAATTAAACAA-AGGTG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGA-GTG
*
40310 GAAAGAGTTTG
1 AAAAGAGTTTG
40321 GTGCAGAGTA
Statistics
Matches: 413, Mismatches: 92, Indels: 37
0.76 0.17 0.07
Matches are distributed among these distances:
44 1 0.00
45 20 0.05
46 121 0.29
47 263 0.64
48 8 0.02
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (47 bp):
AAAAGAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGAGTG
Found at i:40039 original size:140 final size:140
Alignment explanation
Indices: 39752--40132 Score: 399
Period size: 140 Copynumber: 2.7 Consensus size: 140
39742 ATGAGGGTTA
* * * * *
39752 AAAGAGTTTGACTAGG-ACTTACGCCAATATAGTCAAACAACGATGAAAAGAGTTCGACCAAGAC
1 AAAGAGTTTGACCAGGTCCTAACGCCAATATAGTCAAACAAAGGTGAAAAGAGTTCGACCAAGAC
** * * * * * *
39816 TAACGCCAATACAGTCAAACTAGGGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAA
66 TAACAACAATACAATCAAACAAGGGTGAAAAGAGTTTGACCAGGTCCCAACGCCAATAAAATCAA
*
39881 ACAAGAGTGG
131 ACAAGAGTAG
* * * * * *
39891 AAACAGTTTGACCAGGTCCTAACACCAATATAGTCAAACAATGGTGAAAAGAGTTCTACTAGGAC
1 AAAGAGTTTGACCAGGTCCTAACGCCAATATAGTCAAACAAAGGTGAAAAGAGTTCGACCAAGAC
** * * *
39956 TAACAACAATACAATTGAACAAGGGTGAGAAGAGTTTGACGAGGTCCCAACGCTAATAAAATCAA
66 TAACAACAATACAATCAAACAAGGGTGAAAAGAGTTTGACCAGGTCCCAACGCCAATAAAATCAA
40021 ACGAA-AGTAG
131 AC-AAGAGTAG
* * * * * * * * *
40031 AAAGAGTTTGACCAGGTCTTAATGCTAATATGGTCAAACAAAGGTAAAAAGGGTTTGACCAGGTC
1 AAAGAGTTTGACCAGGTCCTAACGCCAATATAGTCAAACAAAGGTGAAAAGAGTTCGACCAAG-A
*
40096 CTAA-AACCAATACAATCAAACAACGGTGAAAAGAGTT
65 CTAACAA-CAATACAATCAAACAAGGGTGAAAAGAGTT
40133 CGATCAGGAC
Statistics
Matches: 197, Mismatches: 41, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
139 14 0.07
140 151 0.77
141 32 0.16
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.20
Consensus pattern (140 bp):
AAAGAGTTTGACCAGGTCCTAACGCCAATATAGTCAAACAAAGGTGAAAAGAGTTCGACCAAGAC
TAACAACAATACAATCAAACAAGGGTGAAAAGAGTTTGACCAGGTCCCAACGCCAATAAAATCAA
ACAAGAGTAG
Found at i:40069 original size:187 final size:186
Alignment explanation
Indices: 39843--40318 Score: 510
Period size: 186 Copynumber: 2.6 Consensus size: 186
39833 AACTAGGGTG
* *
39843 AAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAAGAGTGGAAACAGTTTGACCAGGT
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAAGAGTGAAAAAAGTTTGACCAGGT
* * * * * *
39908 CCTAACACCAATATAGTCAAACAATGGTGAAAAGAGTTCTA-CTAGGACTAACAACAATACAATT
66 CCTAAAACCAATACAATCAAACAACGGTGAAAAGAGTTCGATC-AGGACTAACAACAATACAATC
* * * *
39972 GAACAAGGGTGAGAAGAGTTTGACGAGGTCCCAACGCTAATAAAATCAAACGAAAGTA
130 G-ACAAGGGCGAGAAGAGTTTAACCAGGTCCCAACGCCAATAAAATCAAACGAAAGTA
* * * * *
40030 GAAAGAGTTTGACCAGGTCTTAATGCTAATATGGTCAAACAA-AG-GTAAAAAGGGTTTGACCAG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAAGAGTG-AAAAA-AGTTTGACCAG
*** **
40093 GTCCTAAAACCAATACAATCAAACAACGGTGAAAAGAGTTCGATCAGGACTAATGCCAATACTGT
64 GTCCTAAAACCAATACAATCAAACAACGGTGAAAAGAGTTCGATCAGGACTAACAACAATACAAT
* * * * * * *
40158 CGATAAGGGCGAGAAGAGTTTAACCTGGTCCTAATGCCAATACAATCAAATGAAGGTA
129 CGACAAGGGCGAGAAGAGTTTAACCAGGTCCCAACGCCAATAAAATCAAACGAAAGTA
* * * * * *
40216 AAAAAAGTTTGACTAGGTCCTAATGCCAATACAATCAAATAAGGGT-AAAAAGAGTTTGACCAGG
1 AAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAAGAGTGAAAAA-AGTTTGACCAGG
** * * * *
40280 TCCTAATGCTAATACAATTAAACAAAGGTGGAAAGAGTT
65 TCCTAAAACCAATACAATCAAACAACGGTGAAAAGAGTT
40319 TGGTGCAGAG
Statistics
Matches: 238, Mismatches: 46, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
185 1 0.00
186 133 0.56
187 103 0.43
188 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (186 bp):
AAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAAGAGTGAAAAAAGTTTGACCAGGT
CCTAAAACCAATACAATCAAACAACGGTGAAAAGAGTTCGATCAGGACTAACAACAATACAATCG
ACAAGGGCGAGAAGAGTTTAACCAGGTCCCAACGCCAATAAAATCAAACGAAAGTA
Found at i:40286 original size:94 final size:93
Alignment explanation
Indices: 39751--40320 Score: 445
Period size: 94 Copynumber: 6.1 Consensus size: 93
39741 AATGAGGGTT
* * * * * * * *
39751 AAAAGAGTTTGACTAGG-ACTTACGCCAATATAGTCAAACAACGATGAAAAGAGTTCGACCAAG-
1 AAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAACAAGGGTGAAAAGAGTTTGACCAGGT
* * *
39814 ACTAACGCCAATACAGTCAAACTAGGGTG
66 CCTAACGCCAATACAATCAAAC-AAGGTG
* * * * *
39843 AAAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAAGAGTGGAAACAGTTTGACCAGGT
1 AAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAACAAGGGTGAAAAGAGTTTGACCAGGT
* * *
39908 CCTAACACCAATATAGTCAAACAATGGTG
66 CCTAACGCCAATACAATCAAACAA-GGTG
* *** * ** * *
39937 AAAAGAGTTCT-ACTAGG-ACTAACAACAATACAATTGAACAAGGGTGAGAAGAGTTTGACGAGG
1 AAAAGAGTT-TGACTAGGTCCTAATGCCAATACAGTCAAACAAGGGTGAAAAGAGTTTGACCAGG
* * * *
40000 TCCCAACGCTAATAAAATCAAACGAAAGT-
65 TCCTAACGCCAATACAATCAAAC-AAGGTG
* * * ** * * *
40029 AGAAAGAGTTTGACCAGGTCTTAATGCTAATATGGTCAAACAAAGGTAAAAAGGGTTTGACCAGG
1 A-AAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAACAAGGGTGAAAAGAGTTTGACCAGG
**
40094 TCCTAAAACCAATACAATCAAACAACGGTG
65 TCCTAACGCCAATACAATCAAACAA-GGTG
* * * * * * * * *
40124 AAAAGAGTTCGA-TCAGG-ACTAATGCCAATACTGTC-GATAAGGGCGAGAAGAGTTTAACCTGG
1 AAAAGAGTTTGACT-AGGTCCTAATGCCAATACAGTCAAACAAGGGTGAAAAGAGTTTGACCAGG
* * *
40186 TCCTAATGCCAATACAATCAAATGAAGGTA
65 TCCTAACGCCAATACAATCAAA-CAAGGTG
* * * *
40216 AAAAAAGTTTGACTAGGTCCTAATGCCAATACAATCAAATAAGGGTAAAAAGAGTTTGACCAGGT
1 AAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAACAAGGGTGAAAAGAGTTTGACCAGGT
* * *
40281 CCTAATGCTAATACAATTAAACAAAGGTG
66 CCTAACGCCAATACAATCAAAC-AAGGTG
*
40310 GAAAGAGTTTG
1 AAAAGAGTTTG
40321 GTGCAGAGTA
Statistics
Matches: 367, Mismatches: 95, Indels: 30
0.75 0.19 0.06
Matches are distributed among these distances:
92 72 0.20
93 136 0.37
94 157 0.43
95 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (93 bp):
AAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAACAAGGGTGAAAAGAGTTTGACCAGGT
CCTAACGCCAATACAATCAAACAAGGTG
Found at i:41318 original size:15 final size:13
Alignment explanation
Indices: 41307--41351 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
41297 ATTTTTCTTG
41307 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
41320 TTTCTTTTTTT-T
1 TTTCTTTTTTTCT
**
41332 TTT-TTTGCTTCT
1 TTTCTTTTTTTCT
41344 TTT-TTTTT
1 TTTCTTTTT
41352 ATTGCCCCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 5 0.19
12 11 0.41
13 11 0.41
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.87
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:41322 original size:20 final size:18
Alignment explanation
Indices: 41299--41351 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
41289 CATTCTTCAT
41299 TTTTCTTGTTTCTTTTTTTC
1 TTTTCTT-TTT-TTTTTTTC
41319 TTTTCTTTTTTTTTTTT-
1 TTTTCTTTTTTTTTTTTC
41336 TTGCTTCTTTTTTTTT
1 TT--TTCTTTTTTTTT
41352 ATTGCCCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.06
18 7 0.23
19 15 0.48
20 7 0.23
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (18 bp):
TTTTCTTTTTTTTTTTTC
Found at i:41654 original size:18 final size:17
Alignment explanation
Indices: 41607--41655 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
41597 ACACAACATG
*
41607 TTTTTATTTTTTTCATC
1 TTTTTATGTTTTTCATC
*
41624 TTTTGT-TGATTTTCATTC
1 TTTT-TATGTTTTTCA-TC
41642 TTTTTATGTTTTTC
1 TTTTTATGTTTTTC
41656 TCTATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTTATGTTTTTCATC
Found at i:41693 original size:12 final size:12
Alignment explanation
Indices: 41676--41712 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
41666 CCTCATCTCA
41676 TTCTTCTTTTTT
1 TTCTTCTTTTTT
*
41688 TTCTTCTTTTTC
1 TTCTTCTTTTTT
41700 TT-TT-TTTTTT
1 TTCTTCTTTTTT
41710 TTC
1 TTC
41713 AAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 7 0.32
11 2 0.09
12 13 0.59
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTCTTCTTTTTT
Found at i:42038 original size:16 final size:16
Alignment explanation
Indices: 42017--42051 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
42007 TGGCACTTAA
42017 TTTTTCTTCTCTTT-TT
1 TTTTTCTT-TCTTTCTT
42033 TTTTTCTTTCTTTCTT
1 TTTTTCTTTCTTTCTT
42049 TTT
1 TTT
42052 ATTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTTTCTTTCTT
Found at i:48155 original size:23 final size:23
Alignment explanation
Indices: 48129--48173 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
48119 GGCTTAGTTT
48129 TTCTTTTTTTCTCTATTTTTTCC
1 TTCTTTTTTTCTCTATTTTTTCC
*
48152 TTCTTTTTTTCTCTTTTTTTTC
1 TTCTTTTTTTCTCTATTTTTTC
48174 TCCAAGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTCTTTTTTTCTCTATTTTTTCC
Found at i:48166 original size:10 final size:10
Alignment explanation
Indices: 48126--48171 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
48116 TTTGGCTTAG
48126 TTTT-TCTTT
1 TTTTCTCTTT
48135 TTTTCTCTATT
1 TTTTCTCT-TT
48146 TTTTCCTTCTTT
1 TTTT-C-TCTTT
48158 TTTTCTCTTT
1 TTTTCTCTTT
48168 TTTT
1 TTTT
48172 TCTCCAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 4 0.12
10 12 0.36
11 7 0.21
12 7 0.21
13 3 0.09
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:48172 original size:11 final size:11
Alignment explanation
Indices: 48132--48175 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
48122 TTAGTTTTTC
48132 TTTTTTTCTCT
1 TTTTTTTCTCT
*
48143 ATTTTTTC-CTT
1 TTTTTTTCTC-T
48154 CTTTTTTTCTCT
1 -TTTTTTTCTCT
48166 TTTTTTTCTC
1 TTTTTTTCTC
48176 CAAGTTTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 18 0.64
12 8 0.29
13 1 0.04
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:48901 original size:167 final size:166
Alignment explanation
Indices: 48715--49142 Score: 567
Period size: 167 Copynumber: 2.6 Consensus size: 166
48705 AAAATCCCCC
* ** *
48715 AAAAACATTTACGGAATAGAAAACTCGATTTTTTGGAAATAGGGGAATTACAAAGAAAAAACTAA
1 AAAAACATTTACGGAATAGAAAACTCGGTTTTTAAGAAATAAGGGAATT-CAAAGAAAAAA-TAA
* * *
48780 AAACCTCATGAAAATAAATGAATTTTTCAAAATTGATTTACTATGATTTAAATGATGATATTTGG
64 AAAACTCATGAAAATAAATGAATTTTTCAAAAATGATTTACTATGATTTAAATGATGATATTTGA
* * *
48845 TGAATATTAAAAAGTTTGAACTG-AGATAAACCCTTGTG
129 TGAATATTAAAAAGTTTGAACGGTAAAAAAACCCTT-TG
* * * * *
48883 -AGAACATTTATGGAATAGAAAACTTGGTTTTTAAGAAACAAGGGAATTTCAAGGAAAAAATAAA
1 AAAAACATTTACGGAATAGAAAACTCGGTTTTTAAGAAATAAGGGAA-TTCAAAGAAAAAAT-AA
*
48947 AAAACTCATGAAAATAAATGAATTTTTCAAAAATGATTTGCTATGATTTAAATGATGATATTTGA
64 AAAACTCATGAAAATAAATGAATTTTTCAAAAATGATTTACTATGATTTAAATGATGATATTTGA
*
49012 TGAATATTAAAAATTTTGAACGGTAAAAAAACCCTTTG
129 TGAATATTAAAAAGTTTGAACGGTAAAAAAACCCTTTG
* ** *
49050 AAAAACATTTACGGAATAGAAAACTCGGTTTTTCAA-AAATAAGAGAATTTTAAGAAAAAATGAA
1 AAAAACATTTACGGAATAGAAAACTCGGTTTTT-AAGAAATAAGGGAATTCAAAGAAAAAATAAA
* *
49114 AAACTCATGAAATTAAAT-AAATTTTCAAA
65 AAACTCATGAAAATAAATGAATTTTTCAAA
49143 CTGATTAAAT
Statistics
Matches: 227, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
165 10 0.04
166 20 0.09
167 145 0.64
168 50 0.22
169 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.30
Consensus pattern (166 bp):
AAAAACATTTACGGAATAGAAAACTCGGTTTTTAAGAAATAAGGGAATTCAAAGAAAAAATAAAA
AACTCATGAAAATAAATGAATTTTTCAAAAATGATTTACTATGATTTAAATGATGATATTTGATG
AATATTAAAAAGTTTGAACGGTAAAAAAACCCTTTG
Found at i:50631 original size:181 final size:177
Alignment explanation
Indices: 50276--50636 Score: 485
Period size: 177 Copynumber: 2.0 Consensus size: 177
50266 TGCATGGACA
50276 AGAGTTCGGGGGCGCAATGTAGTTGTGCCAGATATGGATGGGGCTATCTCTCTAGTAATCATTTG
1 AGAGTTCGGGGGCGCAATGTAGTTGTGCCAGATATGGATGGGGCTATCTCTCTAGTAATCATTTG
* * * *
50341 ACCAAAACTAGTGACGCCTTCCGAGATAAACTTGACCAAAGCCAAGGCTGCCGGAGAACAGAAAA
66 ACCAAAACCAGTGACGCCTTCCGAAATAAACTTGACCAAAGCCAAGACTGCAGGAGAACAGAAAA
* *
50406 GATTAAGTGATGAGAATCAACAATTATATGAAGATGTGGCTTACTTG
131 GATTAAGTGATGAGAATCAACAATTACATGAAGAGGTGGCTTACTTG
* * * *
50453 AGAGTTTGGGGGTGCAATGTAGTTGTGCCGGATATTGATGGGGCTAT-TCCTCTAGTAATCATTC
1 AGAGTTCGGGGGCGCAATGTAGTTGTGCCAGATATGGATGGGGCTATCT-CTCTAGTAATCATT-
*** * * * *
50517 T-ACCAAAACCAGTGTTTCCTTCTGAAATAAATAGACTTGATCAAAGCCGAGACTGCAGGAGAAT
64 TGACCAAAACCAGTGACGCCTTCCGAAAT--A-A-ACTTGACCAAAGCCAAGACTGCAGGAGAAC
50581 AGAAAAGATTAAGTGATGAGAATCAACAATTACATGAA-AGGGTGGCTTACTTG
125 AGAAAAGATTAAGTGATGAGAATCAACAATTACATGAAGA-GGTGGCTTACTTG
50634 AGA
1 AGA
50637 ATGAAGATTG
Statistics
Matches: 160, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
176 1 0.01
177 78 0.49
178 1 0.01
179 1 0.01
180 2 0.01
181 77 0.48
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (177 bp):
AGAGTTCGGGGGCGCAATGTAGTTGTGCCAGATATGGATGGGGCTATCTCTCTAGTAATCATTTG
ACCAAAACCAGTGACGCCTTCCGAAATAAACTTGACCAAAGCCAAGACTGCAGGAGAACAGAAAA
GATTAAGTGATGAGAATCAACAATTACATGAAGAGGTGGCTTACTTG
Found at i:51452 original size:16 final size:17
Alignment explanation
Indices: 51425--51456 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
51415 CTACTTAATA
51425 TTCATATCATATACATC
1 TTCATATCATATACATC
51442 TTCAT-TCATATACAT
1 TTCATATCATATACAT
51457 GTCTATACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (17 bp):
TTCATATCATATACATC
Found at i:51800 original size:19 final size:21
Alignment explanation
Indices: 51757--51808 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
51747 TTCAATAATT
*
51757 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
51778 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
51797 TGTATCGATACA
1 TGTATCGATACA
51809 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:53782 original size:51 final size:51
Alignment explanation
Indices: 53690--53868 Score: 204
Period size: 50 Copynumber: 3.5 Consensus size: 51
53680 TAAATTTCTA
* * *** *
53690 AATTTTTCAC-CTCGGGGATACTCCAA-TCCCGGTTCCGTTTTCAAAATA-T
1 AATTTTTCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACT
** *
53739 CAATTTTTCTTAATCGGGGATACTCCAACTCTGATTTTATTTTCAAAACACT
1 -AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACT
*
53791 AA-TTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACT
* *
53841 AATTTTTCACAATTGGAGATACTCCAAC
1 AATTTTTCACAATCGGGGATACTCCAAC
53869 CCTGTTATTT
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 54 0.50
51 53 0.49
52 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACT
Found at i:53890 original size:28 final size:27
Alignment explanation
Indices: 53858--53926 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 27
53848 CACAATTGGA
53858 GATACTCCAACCCTGTTA-TTTCATCGGG
1 GATACTCCAACCCTGTTATTTTCA--GGG
53886 GATACTCCAACCCTGTTATTTTCGAGGG
1 GATACTCCAACCCTGTTATTTTC-AGGG
53914 GATACTCCAACCC
1 GATACTCCAACCC
53927 CAATTTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (27 bp):
GATACTCCAACCCTGTTATTTTCAGGG
Found at i:62013 original size:32 final size:33
Alignment explanation
Indices: 61950--62013 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
61940 TACAAGCCAA
* *
61950 TGTATCGATACAATTTTTTGTATATCGATACAT
1 TGTATCGATACAATATTTGGTATATCGATACAT
*
61983 TGTATCGATAC-ATATTTGGTGTATCGATACA
1 TGTATCGATACAATATTTGGTATATCGATACA
62014 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATATTTGGTATATCGATACAT
Found at i:64586 original size:13 final size:13
Alignment explanation
Indices: 64570--64606 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
64560 AATCCCCCTA
64570 TATCGATACAATG
1 TATCGATACAATG
64583 TATCGATACAATG
1 TATCGATACAATG
64596 TATCGATACAA
1 TATCGATACAA
64607 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:70813 original size:13 final size:13
Alignment explanation
Indices: 70795--70820 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70785 CAATTTTTTG
70795 TGTATCGATACAT
1 TGTATCGATACAT
70808 TGTATCGATACAT
1 TGTATCGATACAT
70821 ATTTGGTGTA
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:70835 original size:32 final size:33
Alignment explanation
Indices: 70775--70838 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
70765 TACAAGCCAA
* *
70775 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTGGTGTATCGATACAT
70808 TGTATCGATAC-ATATTTGGTGTATCGATACA
1 TGTATCGATACAATATTTGGTGTATCGATACA
70839 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:0.12, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATATTTGGTGTATCGATACAT
Found at i:76427 original size:1 final size:1
Alignment explanation
Indices: 76421--76487 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
76411 CTTCTCTTCT
* * ** * * * * *
76421 AAAAAAAAACAAAAACAAAAGCAAAAAAACAAAAAAAAAACAAAAAAAAAACAAAACAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
76486 AA
1 AA
76488 GAGAGAAAAG
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:76448 original size:20 final size:19
Alignment explanation
Indices: 76423--76487 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
76413 TCTCTTCTAA
*
76423 AAAAAAACAAAAACAAAAGC
1 AAAAAAACAAAAA-AAAAAC
76443 AAAAAAACAAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
*
76462 AAAAAAA-AAACAAAACAAAG
1 AAAAAAACAAA-AAAA-AAAC
76482 AAAAAA
1 AAAAAA
76488 GAGAGAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.07
19 16 0.39
20 22 0.54
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAC
Found at i:76456 original size:16 final size:16
Alignment explanation
Indices: 76426--76488 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
76416 CTTCTAAAAA
76426 AAAACAAAAACAAAAGC
1 AAAACAAAAA-AAAAGC
76443 AAAA-AAACAAAAAA--
1 AAAACAAA-AAAAAAGC
*
76457 AAAACAAAAAAAAAAC
1 AAAACAAAAAAAAAGC
76473 AAAACAAAGAAAAAAG
1 AAAACAAA-AAAAAAG
76489 AGAGAAAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 10 0.25
15 3 0.08
16 15 0.38
17 12 0.30
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAAAAAGC
Found at i:76459 original size:31 final size:31
Alignment explanation
Indices: 76421--76487 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
76411 CTTCTCTTCT
*
76421 AAAAAAAAACAAAAACAAAAGCAAAA-AAACA
1 AAAAAAAAACAAAAA-AAAAACAAAACAAACA
*
76452 AAAAAAAAACAAAAAAAAAACAAAACAAAGA
1 AAAAAAAAACAAAAAAAAAACAAAACAAACA
76483 AAAAA
1 AAAAA
76488 GAGAGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (31 bp):
AAAAAAAAACAAAAAAAAAACAAAACAAACA
Found at i:76487 original size:11 final size:11
Alignment explanation
Indices: 76421--76476 Score: 73
Period size: 11 Copynumber: 5.3 Consensus size: 11
76411 CTTCTCTTCT
76421 AAAAAAAAACA
1 AAAAAAAAACA
*
76432 AAAACAAAAGC-
1 AAAA-AAAAACA
76443 --AAAAAAACA
1 AAAAAAAAACA
76452 AAAAAAAAACA
1 AAAAAAAAACA
76463 AAAAAAAAACA
1 AAAAAAAAACA
76474 AAA
1 AAA
76477 CAAAGAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 5 0.13
9 2 0.05
11 27 0.69
12 5 0.13
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:77624 original size:55 final size:55
Alignment explanation
Indices: 77564--78147 Score: 652
Period size: 55 Copynumber: 10.2 Consensus size: 55
77554 TCACCTTCAA
* *
77564 TCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAG
* * * * * *
77619 TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCATACGAGTTGATGGCATTTTCTAA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
* * * *
77674 TCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCATTTTCTAG
**
77735 TCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTAATGGCATTTTCTAG
1 TCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
* *
77790 TCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAG
* *
77845 TCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
* * *
77900 TCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
* * * *
77955 TCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCGCACACAAGTGGGTGGCATTTTCTAG
1 TCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
*
78016 TCCTCAAAGAGCAGAACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
1 TCCTCAAAGAGCAGGACG-C----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
* * *
78076 TCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAG
1 TCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCTAG
78137 TCCTCAAAGAG
1 TCCTCAAAGAG
78148 TAAGATGCTC
Statistics
Matches: 462, Mismatches: 43, Indels: 42
0.84 0.08 0.08
Matches are distributed among these distances:
54 10 0.02
55 253 0.55
56 8 0.02
57 1 0.00
59 1 0.00
60 51 0.11
61 137 0.30
62 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (55 bp):
TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
Found at i:77997 original size:226 final size:220
Alignment explanation
Indices: 77564--78423 Score: 731
Period size: 226 Copynumber: 3.8 Consensus size: 220
77554 TCACCTTCAA
*
77564 TCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
* * * * * *
77629 GCAGGACT-CCTTTTAAAGCCCATACGAGTTGATGGCATTTTCTAATCCTCAAAGAGCAAGACAC
66 GCAGGA-TGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAG--A-
* * * *
77693 CTTTTCTTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCT
127 ---TGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCCTCT
*
77758 TAAAGCCCACACAAGTTAATGGCATTTTCTAG
189 TAAAGCCCACACAAGTGAATGGCATTTTCTAG
*
77790 TCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
77855 GCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCC
66 GCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCC
* * *
77920 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTC
131 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGC-----CTCTT-
* **
77985 AAAGCGCACACAAGTGGGTGGCATTTTCTAG
190 AAAGCCCACACAAGTGAATGGCATTTTCTAG
* *
78016 TCCTCAAAGAGCAGAACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCT
1 TCCTCAAAGAGCAGGACG-C----CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCT
*
78080 CAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAA
60 CAAAGAGCAGGATGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAA
* * * * *
78144 AGAGTAAGATG-CTCTCT----CCTCTCAC----------C-TTTT--TGTCCTCAAAGAGCAGG
118 AGAGCAAGATGCCT-TTTAAAGCC-CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAG
* * ** * *
78191 ATGCCTTTTAAAGCCCACACAAGCCAGTGGCACTTTC-AG
181 ACGCCTCTTAAAGCCCACACAAGTGAATGGCATTTTCTAG
* * *
78230 TCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTT
1 TCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* **
78295 CAAAGAGCAAGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
60 CAAAGAGCAGGATGC---C--TTT-CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
* * ** * *
78360 GGGCAGGACACCTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACTTTT-CAGTCCTCAAAGAG
119 GAGCA--AGA---TGCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAG
78424 TAGGACACAC
Statistics
Matches: 530, Mismatches: 46, Indels: 105
0.78 0.07 0.15
Matches are distributed among these distances:
214 19 0.04
215 105 0.20
216 15 0.03
217 2 0.00
218 1 0.00
219 3 0.01
220 57 0.11
221 21 0.04
223 4 0.01
224 6 0.01
225 7 0.01
226 158 0.30
227 1 0.00
230 4 0.01
231 52 0.10
232 1 0.00
233 3 0.01
234 5 0.01
236 10 0.02
237 56 0.11
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (220 bp):
TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
GCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCC
TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCCTCTTAAAGCC
CACACAAGTGAATGGCATTTTCTAG
Found at i:78325 original size:61 final size:61
Alignment explanation
Indices: 78195--78428 Score: 280
Period size: 61 Copynumber: 3.9 Consensus size: 61
78185 AGCAGGATGC
*** *
78195 CTTTT-AAAGCCCACACAAGCCAGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGCTTTCT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGCTTTCT
* * *
78254 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAAGATGCTTTCT
1 -CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGCTTTCT
* * * *
78315 -TTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGACACCTTT-T
1 CTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA-AGCTTTCT
* * *
78376 CTTTTCAAAGCCCACACGAGTTGATGGCACTTTTCAGTCCTCAAAGAGTAGGA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
78429 CACACTTCCT
Statistics
Matches: 150, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
59 4 0.03
60 26 0.17
61 112 0.75
62 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (61 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAAGCTTTCT
Found at i:78389 original size:122 final size:121
Alignment explanation
Indices: 78200--78423 Score: 326
Period size: 122 Copynumber: 1.8 Consensus size: 121
78190 GATGCCTTTT
* *
78200 AAAGCCCACACAAGCCAGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCCAGTGGCACTTCCAGTCCTCAAAGAGCAGGACCCTTTCTCCTTTTAAAGC
* *
78265 CCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAAGATGCTTTCTTTTTGC
66 CCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAAGATGCTTTCTTTTTGC
*** *
78321 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGACACCTTT-T-CTTTTCAA
1 AAAGCCCACACAAGCCAGTGGCA-CTTCCAGTCCTCAAAGAGCAGGAC-CCTTTCTCCTTTT-AA
*
78384 AGCCCACACGAGTTGATGGCACTTTTCAGTCCTCAAAGAG
63 AGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAG
78424 TAGGACACAC
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
121 25 0.27
122 62 0.68
123 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (121 bp):
AAAGCCCACACAAGCCAGTGGCACTTCCAGTCCTCAAAGAGCAGGACCCTTTCTCCTTTTAAAGC
CCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAAGATGCTTTCTTTTTGC
Found at i:79144 original size:20 final size:20
Alignment explanation
Indices: 79119--79216 Score: 98
Period size: 20 Copynumber: 5.6 Consensus size: 20
79109 CGATACATTA
79119 TATCGATACATCCATCTTTG
1 TATCGATACATCCATCTTTG
79139 TATCGAT--A--CA---TTG
1 TATCGATACATCCATCTTTG
79152 TATCGATACATCCATCTTTG
1 TATCGATACATCCATCTTTG
79172 TATCGAT--A--CA---TTG
1 TATCGATACATCCATCTTTG
79185 TATCGATACATCCATCTTTG
1 TATCGATACATCCATCTTTG
79205 TATCGATACATC
1 TATCGATACATC
79217 TAGGAAGTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
20 32 0.50
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (20 bp):
TATCGATACATCCATCTTTG
Found at i:79147 original size:33 final size:33
Alignment explanation
Indices: 79105--79215 Score: 213
Period size: 33 Copynumber: 3.4 Consensus size: 33
79095 TCGAGATAGA
*
79105 GTATCGATACATTATATCGATACATCCATCTTT
1 GTATCGATACATTGTATCGATACATCCATCTTT
79138 GTATCGATACATTGTATCGATACATCCATCTTT
1 GTATCGATACATTGTATCGATACATCCATCTTT
79171 GTATCGATACATTGTATCGATACATCCATCTTT
1 GTATCGATACATTGTATCGATACATCCATCTTT
79204 GTATCGATACAT
1 GTATCGATACAT
79216 CTAGGAAGTT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.39
Consensus pattern (33 bp):
GTATCGATACATTGTATCGATACATCCATCTTT
Found at i:79154 original size:13 final size:13
Alignment explanation
Indices: 79136--79195 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
79126 ACATCCATCT
79136 TTGTATCGATACA
1 TTGTATCGATACA
79149 TTGTATCGATAC-
1 TTGTATCGATACA
* *
79161 ----ATCCAT-CT
1 TTGTATCGATACA
79169 TTGTATCGATACA
1 TTGTATCGATACA
79182 TTGTATCGATACA
1 TTGTATCGATACA
79195 T
1 T
79196 CCATCTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 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:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:81676 original size:51 final size:51
Alignment explanation
Indices: 81615--81782 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
81605 AATTTTTCTT
* * *
81615 AATCGAGGATACTCTAACTCCGATTTTA-TTTCTAAAGCAT-C-GATTTACCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAA--ATACTAATTTACCAC
* *
81666 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATACTAATTTTCCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATACTAATTTACCAC
* * **
81717 AATCAGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATACTAATTTACCAC
* *
81768 AATTGAGGATACTCC
1 AATCGGGGATACTCC
81783 GACCCTGTTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.02
50 1 0.01
51 95 0.93
52 4 0.04
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATACTAATTTACCAC
Found at i:81833 original size:28 final size:27
Alignment explanation
Indices: 81772--81844 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
81762 TTTCACAATT
* *
81772 GAGGATACTCCGACCCTGTTATTTCATC
1 GAGGATACTCCAACCCCGTTATTT-ATC
81800 GAGGATACTCCAACCCCGTTATTT-TC
1 GAGGATACTCCAACCCCGTTATTTATC
81826 GAAGGGATACTCCAACCCC
1 G-A-GGATACTCCAACCCC
81845 AATTTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 37 0.90
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (27 bp):
GAGGATACTCCAACCCCGTTATTTATC
Found at i:86575 original size:15 final size:15
Alignment explanation
Indices: 86557--86585 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
86547 TAATTTTTAG
86557 ATTTTATTTTTTATA
1 ATTTTATTTTTTATA
86572 ATTTTATTTTTTAT
1 ATTTTATTTTTTAT
86586 TTATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTATTTTTTATA
Found at i:87543 original size:22 final size:22
Alignment explanation
Indices: 87491--87535 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
87481 GATAGCAACT
* *
87491 ACAGAAGCAGGAAGCAACGCAA
1 ACAGAAACCGGAAGCAACGCAA
* *
87513 ACAGTAACCGGAAGCAATGCAA
1 ACAGAAACCGGAAGCAACGCAA
87535 A
1 A
87536 TGGAAACCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.22, G:0.24, T:0.04
Consensus pattern (22 bp):
ACAGAAACCGGAAGCAACGCAA
Found at i:87655 original size:17 final size:16
Alignment explanation
Indices: 87633--87667 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
87623 GCAAATTCAT
*
87633 GAGAAGAAGAAGGAAAA
1 GAGAAGAA-AAAGAAAA
87650 GAGAAGAAAAAGAAAA
1 GAGAAGAAAAAGAAAA
87666 GA
1 GA
87668 TTTTTGGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GAGAAGAAAAAGAAAA
Found at i:89459 original size:156 final size:156
Alignment explanation
Indices: 89236--89732 Score: 535
Period size: 156 Copynumber: 3.2 Consensus size: 156
89226 TTTATTGAGA
* * * * *
89236 TATCCCCTAGGGGTATTTTCATAATTTTTCTAGAATCAACTCCTAGGTTGCCATCGGGTCTGCTT
1 TATCGCCTAGGGGTATTTTCATAATTTTT-TAGAACCAAGTCCTAGGTTGTCATCGGGTCCGCTT
*
89301 TTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCTATTCAT-GTCCTTTTTAAGTCCTTTAGG
65 TTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCTATTCATAATCCTTTTTAAGTCCTTTAGG
* *
89365 GGTACCGAGATACTTTTACGTCGAAAG
130 GGTATCGAGGTACTTTTACGTCGAAAG
** * * * * * *
89392 TATCTTCTAGGGGCATTTTCATAATTTTTGAAAACCAAGTCCTAGGTTATAATCGAGTCCGCTTT
1 TATCGCCTAGGGGTATTTTCATAATTTTTTAGAACCAAGTCCTAGGTTGTCATCGGGTCCGC-TT
* * *
89457 TTATGCCGAATGTGGGTATTTAGGATAGGTTCATTCCT-TTTATATTCCTTTTTAAGTCCTTTAG
65 TTATGCCAAATGTGGGTATTTAGGATAGGTTCA-TCCTATTCATAATCCTTTTTAAGTCCTTTAG
* * * *
89521 AGGTATC-AGGTACTTTTATGTTGAAGG
129 GGGTATCGAGGTACTTTTACGTCGAAAG
* * * ** ** *
89548 TGTCGCCTAAGGGTAGTTTGGTAATTTTTTAGAACTGAGTCTTAGGTTGTCA-CTGGGTCCGCTT
1 TATCGCCTAGGGGTATTTTCATAATTTTTTAGAACCAAGTCCTAGGTTGTCATC-GGGTCCGCTT
* *
89612 TTATGCCAAAGGTGGGTATTTAGGATAGGTTCAT-CTCA-TCGATAATCCTTTTTAAGTTCTTTA
65 TTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCT-ATTC-ATAATCCTTTTTAAGTCCTTTA
*
89675 GGGGTATCG-GGTACTTTTACGACG-AAG
128 GGGGTATCGAGGTACTTTTACGTCGAAAG
* * *
89702 TTATCCCCTA-AGGTATTTTCGTAATTTTTTA
1 -TATCGCCTAGGGGTATTTTCATAATTTTTTA
89733 AAAACTTAGC
Statistics
Matches: 280, Mismatches: 52, Indels: 20
0.80 0.15 0.06
Matches are distributed among these distances:
153 2 0.01
154 22 0.08
155 104 0.37
156 124 0.44
157 28 0.10
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (156 bp):
TATCGCCTAGGGGTATTTTCATAATTTTTTAGAACCAAGTCCTAGGTTGTCATCGGGTCCGCTTT
TATGCCAAATGTGGGTATTTAGGATAGGTTCATCCTATTCATAATCCTTTTTAAGTCCTTTAGGG
GTATCGAGGTACTTTTACGTCGAAAG
Found at i:90774 original size:13 final size:13
Alignment explanation
Indices: 90756--90781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90746 ACATTTGGTC
90756 ATGTATCGATACA
1 ATGTATCGATACA
90769 ATGTATCGATACA
1 ATGTATCGATACA
90782 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:90776 original size:33 final size:32
Alignment explanation
Indices: 90734--90801 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
90724 CGTTACAAGC
90734 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
90767 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
90799 CAA
1 CAA
90802 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:90881 original size:20 final size:20
Alignment explanation
Indices: 90831--90903 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
90821 GCCAATCACT
*
90831 TGTATCGATACATTCTTTGT-A
1 TGTATCGATACA-T-TTGGTCA
*
90852 AGTATCGATACATTTGGTCA
1 TGTATCGATACATTTGGTCA
*
90872 TGTATTGATACATTTGGTCA
1 TGTATCGATACATTTGGTCA
90892 TGTATCGATACA
1 TGTATCGATACA
90904 ATGTATCGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.09
20 31 0.67
21 11 0.24
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTGGTCA
Found at i:90909 original size:13 final size:13
Alignment explanation
Indices: 90891--90915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90881 ACATTTGGTC
90891 ATGTATCGATACA
1 ATGTATCGATACA
90904 ATGTATCGATAC
1 ATGTATCGATAC
90916 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:94636 original size:13 final size:13
Alignment explanation
Indices: 94618--94643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94608 CAATTATTTG
94618 TGTATCGATACAT
1 TGTATCGATACAT
94631 TGTATCGATACAT
1 TGTATCGATACAT
94644 ACTTGCTGTA
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:94659 original size:32 final size:33
Alignment explanation
Indices: 94598--94661 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
94588 TACAAGCCAA
*
94598 TGTATCGATACAATTATTTGTGTATCGATACAT
1 TGTATCGATACAATTACTTGTGTATCGATACAT
94631 TGTATCGATAC-A-TACTTGCTGTATCGATACA
1 TGTATCGATACAATTACTTG-TGTATCGATACA
94662 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 13 0.45
33 11 0.38
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATTACTTGTGTATCGATACAT
Found at i:97204 original size:13 final size:13
Alignment explanation
Indices: 97186--97224 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
97176 ATAATCACCC
*
97186 TGTATCGATACAG
1 TGTATCGATACAA
97199 TGTATCGATACAA
1 TGTATCGATACAA
97212 TGTATCGATACAA
1 TGTATCGATACAA
97225 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:97235 original size:20 final size:20
Alignment explanation
Indices: 97210--97288 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
97200 GTATCGATAC
97210 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
97230 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
97255 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
97275 CATGTATCGATACA
1 AATGTATCGATACA
97289 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:99322 original size:15 final size:15
Alignment explanation
Indices: 99302--99332 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99292 ATTTCGTTTG
*
99302 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
99317 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
99332 G
1 G
99333 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:101165 original size:21 final size:21
Alignment explanation
Indices: 101136--101180 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
101126 AAGTTTTCAT
*
101136 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
101156 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
101178 TTT
1 TTT
101181 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:103415 original size:13 final size:13
Alignment explanation
Indices: 103397--103422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103387 CAATTATTTG
103397 TGTATCGATACAT
1 TGTATCGATACAT
103410 TGTATCGATACAT
1 TGTATCGATACAT
103423 ACTTGCTGTA
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:103438 original size:32 final size:33
Alignment explanation
Indices: 103377--103440 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
103367 TACAAGCCAA
*
103377 TGTATCGATACAATTATTTGTGTATCGATACAT
1 TGTATCGATACAATTACTTGTGTATCGATACAT
103410 TGTATCGATAC-A-TACTTGCTGTATCGATACA
1 TGTATCGATACAATTACTTG-TGTATCGATACA
103441 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 13 0.45
33 11 0.38
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATTACTTGTGTATCGATACAT
Found at i:103473 original size:85 final size:85
Alignment explanation
Indices: 103375--103582 Score: 373
Period size: 85 Copynumber: 2.4 Consensus size: 85
103365 GTTACAAGCC
103375 AATGTATCGATACAATTATTTGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATAC
1 AATGTATCGATACAATTATTTGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATAC
103440 AAGTTTGGCTACTGCCAAGA
66 AAGTTTGGCTACTGCCAAGA
103460 AATGTATCGATACAATTATTTGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATAC
1 AATGTATCGATACAATTATTTGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATAC
103525 AAGTTTGGCTACTGCCAAGA
66 AAGTTTGGCTACTGCCAAGA
* *
103545 AATGTATCGATAC-ATCTTTTTCATGTATCGATACATTG
1 AATGTATCGATACAAT-TATTT-GTGTATCGATACATTG
103583 CAACATGTAT
Statistics
Matches: 119, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
84 2 0.02
85 102 0.86
86 15 0.13
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (85 bp):
AATGTATCGATACAATTATTTGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATAC
AAGTTTGGCTACTGCCAAGA
Found at i:103500 original size:13 final size:13
Alignment explanation
Indices: 103482--103507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103472 CAATTATTTG
103482 TGTATCGATACAT
1 TGTATCGATACAT
103495 TGTATCGATACAT
1 TGTATCGATACAT
103508 ACTTGCTGTA
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:103523 original size:32 final size:33
Alignment explanation
Indices: 103462--103525 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
103452 TGCCAAGAAA
*
103462 TGTATCGATACAATTATTTGTGTATCGATACAT
1 TGTATCGATACAATTACTTGTGTATCGATACAT
103495 TGTATCGATAC-A-TACTTGCTGTATCGATACA
1 TGTATCGATACAATTACTTG-TGTATCGATACA
103526 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 13 0.45
33 11 0.38
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATTACTTGTGTATCGATACAT
Found at i:103591 original size:20 final size:20
Alignment explanation
Indices: 103566--103618 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
103556 ACATCTTTTT
103566 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
103586 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
103606 CATGTATCGATAC
1 CATGTATCGATAC
103619 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:108801 original size:155 final size:155
Alignment explanation
Indices: 108476--108823 Score: 434
Period size: 155 Copynumber: 2.2 Consensus size: 155
108466 GGTGTAAGAC
* * * **
108476 TGACAACCTAGGACTCGATTCTAGAAAATTACGAAAATATCTTTAAGGGGTACCTTCGACGTAAA
1 TGACAACATAGGACTCGTTTCTAGAAAATTACGAAAATACCTTTAAGGGACACCTTCGACGTAAA
* *
108541 AGTACTCGATACTCCTAAAGGACTTAAACAGAATTATAGATGGGATGAACCTATCCTAAATACCC
66 AGTACTCGATACTCCTAAAGAACTTAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACCC
108606 ACCTTTGGCATAAAAGCAGACCCGA
131 ACCTTTGGCATAAAAGCAGACCCGA
* * ** *
108631 TGACAACATAAGACTCGTTTCTAGAAAATTACGAAAATACCTTTTAGGGACATTTTTGACGTAAA
1 TGACAACATAGGACTCGTTTCTAGAAAATTACGAAAATACCTTTAAGGGACACCTTCGACGTAAA
* * *
108696 AGTGC-CTGATACTCCTAAAGAACTTAAAAAGGATTATAGATGGGATGAACCTATTCTAAATACC
66 AGTACTC-GATACTCCTAAAGAACTTAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACC
* * *
108760 CACTTTTGTCATAGAAGC-GAACCC-A
130 CACCTTTGGCATAAAAGCAG-ACCCGA
* * * *
108785 GTGATAACTTAGGACTCAGTTT-TAAAAAATTACAAAAAT
1 -TGACAACATAGGACTC-GTTTCTAGAAAATTACGAAAAT
108824 GCCCCTAGGG
Statistics
Matches: 166, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
154 3 0.02
155 159 0.96
156 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (155 bp):
TGACAACATAGGACTCGTTTCTAGAAAATTACGAAAATACCTTTAAGGGACACCTTCGACGTAAA
AGTACTCGATACTCCTAAAGAACTTAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACCC
ACCTTTGGCATAAAAGCAGACCCGA
Found at i:108876 original size:155 final size:155
Alignment explanation
Indices: 108476--108880 Score: 390
Period size: 155 Copynumber: 2.6 Consensus size: 155
108466 GGTGTAAGAC
* * * * * * * ** *
108476 TGACAACCTAGGACTCGATTCTAGAAAATTACGAAAATATCT-TTAAGGGGTACCTTCGACGTAA
1 TGACAACATAAGACTCGTTTCTAAAAAATTACAAAAATACCTCCT-AGGGACACTTTCGACGTAA
* * * *
108540 AAGTACTCGATACTCCTAAAGGACTTAAACAGAATTATAGATGGGATGAACCTATCCTAAATACC
65 AAGTGCCCAATACTCCTAAAGGACTTAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACC
108605 CACCTTTGGCATAAAAGCAGACCCGA
130 CACCTTTGGCATAAAAGCAGACCCGA
* * ** * *
108631 TGACAACATAAGACTCGTTTCTAGAAAATTACGAAAATACCTTTTAGGGACATTTTTGACGTAAA
1 TGACAACATAAGACTCGTTTCTAAAAAATTACAAAAATACCTCCTAGGGACACTTTCGACGTAAA
** * * *
108696 AGTGCCTGATACTCCTAAAGAACTTAAAAAGGATTATAGATGGGATGAACCTATTCTAAATACCC
66 AGTGCCCAATACTCCTAAAGGACTTAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACCC
* * *
108761 ACTTTTGTCATAGAAGC-GAACCC-A
131 ACCTTTGGCATAAAAGCAG-ACCCGA
* * * * * *
108785 GTGATAACTTAGGACTCAGTTT-TAAAAAATTACAAAAATGCC-CCTAGGGGATACTTTCGATGT
1 -TGACAACATAAGACTC-GTTTCTAAAAAATTACAAAAATACCTCCTA-GGGACACTTTCGACGT
* *
108848 AAAAGTGCCCAATA-TCCCTCATGGACTTAAAAA
63 AAAAGTGCCCAATACT-CCTAAAGGACTTAAAAA
108881 TGATCAATAA
Statistics
Matches: 208, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
154 5 0.02
155 197 0.95
156 6 0.03
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (155 bp):
TGACAACATAAGACTCGTTTCTAAAAAATTACAAAAATACCTCCTAGGGACACTTTCGACGTAAA
AGTGCCCAATACTCCTAAAGGACTTAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACCC
ACCTTTGGCATAAAAGCAGACCCGA
Found at i:111845 original size:31 final size:29
Alignment explanation
Indices: 111808--111868 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
111798 AAAATTTAGG
* *
111808 TTTTTTTATGAAAAATGAGGTTAGAGTATC
1 TTTTTTT-TAAAAAATGAGGTTAAAGTATC
* *
111838 TTTTTTTTAAGAAATGGGGTTAAAGTATC
1 TTTTTTTTAAAAAATGAGGTTAAAGTATC
111867 TT
1 TT
111869 CGAGAAAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (29 bp):
TTTTTTTTAAAAAATGAGGTTAAAGTATC
Found at i:112189 original size:81 final size:79
Alignment explanation
Indices: 111883--112213 Score: 321
Period size: 81 Copynumber: 4.1 Consensus size: 79
111873 AAAGCATTTT
* * * *
111883 AAAAAAATAG-GTTAGAATGTTTCCCTTTTTAGATAGATGGGGTTAGAGTATCCCCAAGAATGTA
1 AAAAAAATAGAGTTAG-A-GTATCCC-TTTTAGAAAGATAGGGTTGGAGTAT-CCCAAGAATGTA
111947 AATTCAAGATTTTTTGTA
62 AATTCAAGATTTTTTGTA
* * * * * * * *
111965 AAAAAAAAATGAAGTTAGACTATCCTTTTTTAAAAAACATGGGGTTGGAGTATTTCCAAGAATAT
1 AAAAAAATA-G-AGTTAGAGTATCC-CTTTT-AGAAAGATAGGGTTGGAGTA-TCCCAAGAATGT
*
112030 -AATTCTAGATTTTTTGTA
61 AAATTCAAGATTTTTTGTA
* *
112048 AGAAAAGT-GAGGTTAGAGTATCGCC--TTAGAAAGATAGGGTTGGAGTATCTCCAAGAATGTAA
1 AAAAAAATAGA-GTTAGAGTATC-CCTTTTAGAAAGATAGGGTTGGAGTATC-CCAAGAATGTAA
112110 ATTCAAGATTTTTTGTA
63 ATTCAAGATTTTTTGTA
* * * *
112127 AAAAAAATAGAGTTAGAGTGTCCCTTTTGAGAGAGATAAGGTTGGAGTATACCCAAGGATGTAAA
1 AAAAAAATAGAGTTAGAGTATCCCTTTT-AGAAAGATAGGGTTGGAGTAT-CCCAAGAATGTAAA
112192 TTCAAGATTTTTTGTA
64 TTCAAGATTTTTTGTA
*
112208 AGAAAA
1 AAAAAA
112214 GTGGGGTTGG
Statistics
Matches: 205, Mismatches: 29, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
77 1 0.00
78 28 0.14
79 35 0.17
80 5 0.02
81 63 0.31
82 10 0.05
83 31 0.15
84 26 0.13
85 6 0.03
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (79 bp):
AAAAAAATAGAGTTAGAGTATCCCTTTTAGAAAGATAGGGTTGGAGTATCCCAAGAATGTAAATT
CAAGATTTTTTGTA
Found at i:112229 original size:160 final size:162
Alignment explanation
Indices: 111911--112229 Score: 419
Period size: 162 Copynumber: 2.0 Consensus size: 162
111901 GTTTCCCTTT
* *
111911 TTAGATAGATGGGGTTAGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAATG
1 TTAGAAAGATAGGGTTAGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAATG
* ** ** *
111976 AAGTTAGACTATCCTTTTTTAAAAAACATGGGGTTGGAGTATTTCCAAGAATATAATTCTAGATT
66 AAGTTAGACTATCCTCTTTTAAAAAACATAAGGTTGGAGTATACCCAAGAATATAATTCAAGATT
112041 TTTTGTAAGAAAAGTGAGGTTAGAGTATCGCC
131 TTTTGTAAGAAAAGTGAGGTTAGAGTATCGCC
* * *
112073 TTAGAAAGATAGGGTTGGAGTATCTCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAATA-G
1 TTAGAAAGATAGGGTTAGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAATG
* * * * * * * *
112137 -AGTTAGAGTGTCC-CTTTTGAGAGAGATAAGGTTGGAGTATACCCAAGGATGTAAATTCAAGAT
66 AAGTTAGACTATCCTCTTTTAAAAAACATAAGGTTGGAGTATACCCAAGAATAT-AATTCAAGAT
* *
112200 TTTTTGTAAGAAAAGTGGGGTTGGAGTATC
130 TTTTTGTAAGAAAAGTGAGGTTAGAGTATC
112230 TTTTCAAAGA
Statistics
Matches: 135, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
159 28 0.21
160 48 0.36
161 1 0.01
162 58 0.43
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.32
Consensus pattern (162 bp):
TTAGAAAGATAGGGTTAGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAATG
AAGTTAGACTATCCTCTTTTAAAAAACATAAGGTTGGAGTATACCCAAGAATATAATTCAAGATT
TTTTGTAAGAAAAGTGAGGTTAGAGTATCGCC
Found at i:112241 original size:81 final size:77
Alignment explanation
Indices: 111909--112273 Score: 257
Period size: 81 Copynumber: 4.5 Consensus size: 77
111899 ATGTTTCCCT
* ** * * *
111909 TTTTAGATAGATGGGGTTAGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAA
1 TTTTAGAGAGATAAGGTTGGAGTAT-CCCAAGAATGTAAATTCAAGATTTTTTGT--AAGAAAAG
** *
111974 TGAAGTTAGACTATCC
63 TGGGGTTAGAGTAT-C
* * * ** * * *
111990 TTTTTTAAAAAACATGGGGTTGGAGTATTTCCAAGAATAT-AATTCTAGATTTTTTGTAAGAAAA
1 --TTTT-AGAGAGATAAGGTTGGAGTA-TCCCAAGAATGTAAATTCAAGATTTTTTGTAAGAAAA
*
112054 GTGAGGTTAGAGTATC
62 GTGGGGTTAGAGTATC
** * * * *
112070 GCCTTAGAAAGATAGGGTTGGAGTATCTCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAT
1 -TTTTAGAGAGATAAGGTTGGAGTATC-CCAAGAATGTAAATTCAAGATTTTTTGTAAGAAAAGT
* * *
112135 AGAGTTAGAGTGTCCC
64 GGGGTTAGAGTAT--C
*
112151 TTTTGAGAGAGATAAGGTTGGAGTATACCCAAGGATGTAAATTCAAGATTTTTTGTAAGAAAAGT
1 TTTT-AGAGAGATAAGGTTGGAGTAT-CCCAAGAATGTAAATTCAAGATTTTTTGTAAGAAAAGT
*
112216 GGGGTTGGAGTATC
64 GGGGTTAGAGTATC
* * * *
112230 TTTTCAAAGAGAT-GGAGTTGGAGTAGTCCCCAAGGATGAAAATT
1 TTTT-AGAGAGATAAG-GTTGGAGTA-T-CCCAAGAATGTAAATT
112274 TTGATGTTTT
Statistics
Matches: 230, Mismatches: 42, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
77 1 0.00
78 27 0.12
79 55 0.24
80 19 0.08
81 81 0.35
82 1 0.00
83 20 0.09
84 25 0.11
85 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (77 bp):
TTTTAGAGAGATAAGGTTGGAGTATCCCAAGAATGTAAATTCAAGATTTTTTGTAAGAAAAGTGG
GGTTAGAGTATC
Found at i:112252 original size:160 final size:161
Alignment explanation
Indices: 111911--112273 Score: 412
Period size: 160 Copynumber: 2.2 Consensus size: 161
111901 GTTTCCCTTT
* *
111911 TTAGATAGATGGGGTTAGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAATG
1 TTAGAAAGAT-GGGTTGGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAATG
* ** ** *
111976 AAGTTAGACTATCCTTTTTTAAAAAACATGGGGTTGGAGTATTTCCAAGAATATAATTCTAGATT
65 AAGTTAGACTATCCTCTTTTAAAAAACATAAGGTTGGAGTATACCCAAGAATATAATTCAAGATT
112041 TTTTGTAAGAAAAGTGAGGTTAGAGTATCGCC
130 TTTTGTAAGAAAAGTGAGGTTAGAGTATCGCC
* *
112073 TTAGAAAGATAGGGTTGGAGTATCTCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAATA-G
1 TTAGAAAGAT-GGGTTGGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAATG
* * * * * * * *
112137 -AGTTAGAGTGTCC-CTTTTGAGAGAGATAAGGTTGGAGTATACCCAAGGATGTAAATTCAAGAT
65 AAGTTAGACTATCCTCTTTTAAAAAACATAAGGTTGGAGTATACCCAAGAATAT-AATTCAAGAT
* * **
112200 TTTTTGTAAGAAAAGTGGGGTTGGAGTATC-TT
129 TTTTTGTAAGAAAAGTGAGGTTAGAGTATCGCC
* *
112232 TTCA-AAGAGATGGAGTTGGAGTAGTCCCCAAGGATGAAAATT
1 TT-AGAA-AGATGG-GTTGGAGTA-TCCCCAAGAATGTAAATT
112274 TTGATGTTTT
Statistics
Matches: 170, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
159 34 0.20
160 62 0.36
161 16 0.09
162 58 0.34
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (161 bp):
TTAGAAAGATGGGTTGGAGTATCCCCAAGAATGTAAATTCAAGATTTTTTGTAAAAAAAAAATGA
AGTTAGACTATCCTCTTTTAAAAAACATAAGGTTGGAGTATACCCAAGAATATAATTCAAGATTT
TTTGTAAGAAAAGTGAGGTTAGAGTATCGCC
Found at i:118561 original size:16 final size:17
Alignment explanation
Indices: 118536--118568 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
118526 AGAAAAAAAC
118536 AAAAATATTAATTAATT
1 AAAAATATTAATTAATT
118553 AAAAA-ATTAATTAATT
1 AAAAATATTAATTAATT
118569 TGATAGCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAATATTAATTAATT
Found at i:130296 original size:20 final size:20
Alignment explanation
Indices: 130271--130347 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
130261 GTAAAAAGAC
130271 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
130291 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
130311 TA-CATGTATCGATAGATTGA
1 -AGAATGTATCGATACATTGA
130331 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
130348 CTGGGTACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:131150 original size:165 final size:164
Alignment explanation
Indices: 130836--131563 Score: 831
Period size: 165 Copynumber: 4.4 Consensus size: 164
130826 GGTGTCTACA
* * *
130836 GAAATGAATGACTTTTTTAAAACTGAATTAATATGAAATAAATAATAATATTTTATGAATTTTAA
1 GAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAATATTTTATGAATTTTAA
*
130901 AAATCAAAAAACAAGAAAAATCC-CCCTGAAAAAATTTAC-GAAGTAGAAAACTCCGTATTTCGA
66 AAAT-AAAAAA-AAGAAAAATCCTCCC-GAAAAAATTTACAG-AGTAGAAAACTTCGTATTTCGA
*
130964 AAAAAAGAAAATTTCAAGGAAAAAATTCAAAATTTATG
127 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAATTTATG
*
131002 GAAATGAATGAATTTTTGAAAAATTAATTAATATGAAATAAATAATAATATTTTATGAATTTTAA
1 GAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAATATTTTATGAATTTTAA
** *
131067 AAATAAAAAAAAGGAAAAAT-CTCCCCGAAAAAATTTATGGAGTAGAAAACTTCGCATTTCGAAA
66 AAATAAAAAAAA-GAAAAATCCT-CCCGAAAAAATTTACAGAGTAGAAAACTTCGTATTTCGAAA
*
131131 AAAGGAGAATTTCAAGGAAAAAATTCAAAATTTATG
129 AAAAGAGAATTTCAAGGAAAAAATTCAAAATTTATG
* * * * * *
131167 AAAATGAATGAATTTTTCAAAATTGAATTAATTTGAAATAAATAATAATAATTGATGAATTTTAA
1 GAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAATATTTTATGAATTTTAA
* * ** * * *
131232 AAATCAAAAAAAGGAAAAATTCTCTTGAAAAAATTTACAGTGTAAAAAACTTCATATTTC-AAAA
66 AAAT-AAAAAAAAGAAAAATCCTCCCGAAAAAATTTACAGAGTAGAAAACTTCGTATTTCGAAAA
* * * *
131296 AAAAAGAATTTCAAGAAAAAAAATCAATATTTATG
130 AAAGAGAATTTCAAGGAAAAAATTCAAAATTTATG
* *
131331 GAAATGAATGAATTTTTG-AAAATAAATTAATATAAAATAAATAATAATATTTTATGAATTTTAA
1 GAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAATATTTTATGAATTTTAA
* * ** ** *
131395 AAGTTAAAAACTAAGAAAAATCCTTTCGAAAAAATTTACAGTTTAGAAAAC-TCGATTTTTCG-A
66 AA-ATAAAAA-AAAGAAAAATCCTCCCGAAAAAATTTACAGAGTAGAAAACTTCG-TATTTCGAA
** * * * * * *
131458 GGAAAGGGCATCTCAAAGAAAAAATCCAAAACTTATG
128 AAAAAGAGAATTTCAAGGAAAAAATTCAAAATTTATG
* * * * * * * * * *
131495 AAAATAAATTAATTTTTTAAAACTGATTTAATATGAATTAAATGATGATATTTGATGAATTTTAA
1 GAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAATATTTTATGAATTTTAA
131560 AAAT
66 AAAT
131564 TTTAAACGCT
Statistics
Matches: 478, Mismatches: 73, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
163 49 0.10
164 133 0.28
165 218 0.46
166 78 0.16
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (164 bp):
GAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAATATTTTATGAATTTTAA
AAATAAAAAAAAGAAAAATCCTCCCGAAAAAATTTACAGAGTAGAAAACTTCGTATTTCGAAAAA
AAGAGAATTTCAAGGAAAAAATTCAAAATTTATG
Found at i:131180 original size:18 final size:19
Alignment explanation
Indices: 131159--131200 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
131149 AAAAATTCAA
*
131159 AATTTATGAAAA-TGAATG
1 AATTTATCAAAATTGAATG
* *
131177 AATTTTTCAAAATTGAATT
1 AATTTATCAAAATTGAATG
131196 AATTT
1 AATTT
131201 GAAATAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (19 bp):
AATTTATCAAAATTGAATG
Found at i:131511 original size:328 final size:331
Alignment explanation
Indices: 130837--131563 Score: 952
Period size: 328 Copynumber: 2.2 Consensus size: 331
130827 GTGTCTACAG
* * *
130837 AAATGAATGACTTTTTTAAAACTGAATTAATATGAAATAAATAATAATATTTTATGAATTTTAAA
1 AAATAAATGAATTTTTTAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
* *
130902 AATCAAAAAACAAGAAAAATCCCCCTGAAAAAATTTACGAAGTAGAAAACTCCGTATTTCGAAAA
66 AATCAAAAAACAAGAAAAATCCCCCTGAAAAAATTTACGAAGTAAAAAACTCCATATTTCGAAAA
* * *
130967 AAAGAAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAATTAATTA
131 AAAGAAAATTTCAAGAAAAAAAATCAAAATTTATGGAAATGAATGAATTTTTGAAAAATAAATTA
*
131032 ATATGAAATAAATAATAATATTTTATGAATTTTAAAAATAAAAAAAAGGAAAAATCTCCCCGAAA
196 ATATAAAATAAATAATAATATTTTATGAATTTTAAAAATAAAAAAAAGGAAAAATCTCCCCGAAA
** * * * *
131097 AAATTTATGGAGTAGAAAACTTCGCATTTCGAAAAAAGGAGAATTTCAAGGAAAAAATTCAAAAT
261 AAATTTACAGAGTAGAAAACTTCGCATTTCGAAAAAAGGAGAATCTCAAAGAAAAAATCCAAAAC
131162 TTATGA
326 TTATGA
* * * * *
131168 AAATGAATGAATTTTTCAAAATTGAATTAATTTGAAATAAATAATAATAATTGATGAATTTTAAA
1 AAATAAATGAATTTTTTAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
* * * * * *
131233 AATCAAAAAA-AGGAAAAATTCTCTTGAAAAAATTTAC-AGTGTAAAAAACTTCATATTTC-AAA
66 AATCAAAAAACAAGAAAAATCCCCCTGAAAAAATTTACGA-AGTAAAAAACTCCATATTTCGAAA
*
131295 AAAA-AAGAATTTCAAGAAAAAAAATCAATATTTATGGAAATGAATGAATTTTTG-AAAATAAAT
130 AAAAGAA-AATTTCAAGAAAAAAAATCAAAATTTATGGAAATGAATGAATTTTTGAAAAATAAAT
* * **
131358 TAATATAAAATAAATAATAATATTTTATGAATTTTAAAAGTTAAAAACTAA-GAAAAATC-CTTT
194 TAATATAAAATAAATAATAATATTTTATGAATTTTAAAA-ATAAAAA-AAAGGAAAAATCTC-CC
** ** *
131421 CGAAAAAATTTACAGTTTAGAAAAC-TCG-ATTTTTCGAGGAAAGG-GCATCTCAAAGAAAAAAT
256 CGAAAAAATTTACAGAGTAGAAAACTTCGCA--TTTCGAAAAAAGGAGAATCTCAAAGAAAAAAT
131483 CCAAAACTTATGA
319 CCAAAACTTATGA
* * * * *
131496 AAATAAATTAATTTTTTAAAACTGATTTAATATGAATTAAATGATGATATTTGATGAATTTTAAA
1 AAATAAATGAATTTTTTAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
131561 AAT
66 AAT
131564 TTTAAACGCT
Statistics
Matches: 345, Mismatches: 44, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
327 1 0.00
328 136 0.39
329 98 0.28
330 41 0.12
331 69 0.20
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (331 bp):
AAATAAATGAATTTTTTAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
AATCAAAAAACAAGAAAAATCCCCCTGAAAAAATTTACGAAGTAAAAAACTCCATATTTCGAAAA
AAAGAAAATTTCAAGAAAAAAAATCAAAATTTATGGAAATGAATGAATTTTTGAAAAATAAATTA
ATATAAAATAAATAATAATATTTTATGAATTTTAAAAATAAAAAAAAGGAAAAATCTCCCCGAAA
AAATTTACAGAGTAGAAAACTTCGCATTTCGAAAAAAGGAGAATCTCAAAGAAAAAATCCAAAAC
TTATGA
Found at i:135463 original size:28 final size:28
Alignment explanation
Indices: 135430--135631 Score: 118
Period size: 28 Copynumber: 6.8 Consensus size: 28
135420 TTCCTTTTAA
*
135430 AAGTCCACAACTCCATGGCACCCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTT
* ** *
135458 AAGTCCATAACTCTATAGCACCCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTT
* ** * *
135486 ACGTCCACAACTCTATGACACCTTTTCCTTTTAA
1 AAGTCCACAACTCCGTGGCA-C----CCTTTT-T
* *
135520 AAGTCTACAACTCCGTGGTGGAACCCTTTTT
1 AAGTCCACAACTCC---GTGGCACCCTTTTT
* *
135551 AAGTCTACAACTCCGTGGCACCTTTTCTTTTAA
1 AAGTCCACAACTCCGTGGCACC----CTTTT-T
* *
135584 AAGTCTACAACTCCGTAGCACCC-TTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTT
*
135611 AGGTCCACAACTCCGTGGCAC
1 AAGTCCACAACTCCGTGGCAC
135632 TTTTTTTTTA
Statistics
Matches: 138, Mismatches: 22, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
27 18 0.13
28 51 0.37
29 2 0.01
31 14 0.10
32 11 0.08
33 27 0.20
34 11 0.08
36 1 0.01
37 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (28 bp):
AAGTCCACAACTCCGTGGCACCCTTTTT
Found at i:135546 original size:65 final size:64
Alignment explanation
Indices: 135477--135644 Score: 193
Period size: 65 Copynumber: 2.7 Consensus size: 64
135467 ACTCTATAGC
* *
135477 ACCCTTTTTACGTCCACAACTCTATGACACCTTTTCCTTTTAAAAGTCTACAACTCCGTGGTGGA
1 ACCCTTTTTAAGTCCACAACTCCATGACACCTTTT-CTTTTAAAAGTCTACAACTCCGTGGTGGA
* * * * *
135542 ACCCTTTTTAAGTCTACAACTCCGTGGCACCTTTTCTTTTAAAAGTCTACAACTCC---GTAGC
1 ACCCTTTTTAAGTCCACAACTCCATGACACCTTTTCTTTTAAAAGTCTACAACTCCGTGGTGGA
* * * *
135603 ACCC-TTTTAGGTCCACAACTCCGTGGCA-CTTTTTTTTTAAAA
1 ACCCTTTTTAAGTCCACAACTCCATGACACCTTTTCTTTTAAAA
135645 AAAAGTCCAC
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
59 13 0.14
60 22 0.24
61 7 0.08
64 21 0.23
65 30 0.32
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (64 bp):
ACCCTTTTTAAGTCCACAACTCCATGACACCTTTTCTTTTAAAAGTCTACAACTCCGTGGTGGA
Found at i:135593 original size:33 final size:33
Alignment explanation
Indices: 135504--135644 Score: 108
Period size: 33 Copynumber: 4.5 Consensus size: 33
135494 AACTCTATGA
135504 CACCTTTTCCTTTTAAAAGTCTACAACTCCGTGGTGG
1 CACCTTTT-CTTTTAAAAGTCTACAACTCC---GTGG
* *
135541 AACC----CTTTT-TAAGTCTACAACTCCGTGG
1 CACCTTTTCTTTTAAAAGTCTACAACTCCGTGG
*
135569 CACCTTTTCTTTTAAAAGTCTACAACTCCGTAG
1 CACCTTTTCTTTTAAAAGTCTACAACTCCGTGG
* *
135602 CACC----CTTTT--AGGTCCACAACTCCGTGG
1 CACCTTTTCTTTTAAAAGTCTACAACTCCGTGG
*
135629 CA-CTTTTTTTTTAAAA
1 CACCTTTTCTTTTAAAA
135645 AAAAGTCCAC
Statistics
Matches: 83, Mismatches: 10, Indels: 27
0.69 0.08 0.22
Matches are distributed among these distances:
26 1 0.01
27 17 0.20
28 7 0.08
29 5 0.06
30 4 0.05
31 14 0.17
32 11 0.13
33 21 0.25
37 3 0.04
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (33 bp):
CACCTTTTCTTTTAAAAGTCTACAACTCCGTGG
Found at i:135724 original size:31 final size:30
Alignment explanation
Indices: 135689--135969 Score: 224
Period size: 31 Copynumber: 9.0 Consensus size: 30
135679 ACATCTTTTC
*
135689 TAAAGCTCACACAAGTTGGTGGCAACCCTTT
1 TAAAGC-CACACAAGTCGGTGGCAACCCTTT
* * *
135720 TAAAGCCTACACAAATTGGTGGCAACCCTCT
1 TAAAGCC-ACACAAGTCGGTGGCAACCCTTT
* * * *
135751 TAAAGCCTACACTAAATTGGTGGCAACTCTTC
1 TAAAGCC-ACAC-AAGTCGGTGGCAACCCTTT
*
135783 TAAAGGCCACACAAGTCGGTGACAACCCTTT
1 TAAA-GCCACACAAGTCGGTGGCAACCCTTT
* *
135814 TAAAGCCCACACAAGTCGAT-GCAACTCTTCT
1 TAAAG-CCACACAAGTCGGTGGCAACCCTT-T
* * * * *
135845 CAAAAGCCCACACAAGTTGGTAGCAACTCTTC
1 -TAAAG-CCACACAAGTCGGTGGCAACCCTTT
* * *
135877 TAAAGCCCACAAAAGTCGGTGGCAACCCATC
1 TAAAG-CCACACAAGTCGGTGGCAACCCTTT
* *
135908 TAAAGTCCATACAAGTCGATGGCAA-CCTTT
1 TAAAG-CCACACAAGTCGGTGGCAACCCTTT
**
135938 CTAAAGTCCACACAAGTCAATGGCAACCCTTT
1 -TAAAG-CCACACAAGTCGGTGGCAACCCTTT
135970 CTAAGCCCAA
Statistics
Matches: 210, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
30 12 0.06
31 140 0.67
32 46 0.22
33 12 0.06
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (30 bp):
TAAAGCCACACAAGTCGGTGGCAACCCTTT
Found at i:135787 original size:63 final size:61
Alignment explanation
Indices: 135689--135952 Score: 212
Period size: 63 Copynumber: 4.2 Consensus size: 61
135679 ACATCTTTTC
* * * * *
135689 TAAAGCTCACACAAGTTGGTGGCAACCCTTTTAAAGCCTACACAAATTGGTGGCAACCCTCT
1 TAAAGCCCACACAAATTGGTGGCAACTCTTCTAAAGCC-ACACAAGTTGGTGGCAACCCTCT
* * * *
135751 TAAAGCCTACACTAAATTGGTGGCAACTCTTCTAAAGGCCACACAAGTCGGTGACAACCCTTT
1 TAAAGCCCACAC-AAATTGGTGGCAACTCTTCTAAA-GCCACACAAGTTGGTGGCAACCCTCT
* * * * *
135814 TAAAGCCCACACAAGTCGAT-GCAACTCTTCTCAAAAGCCCACACAAGTTGGTAGCAACTCT-T
1 TAAAGCCCACACAAATTGGTGGCAACTCTTCT--AAAG-CCACACAAGTTGGTGGCAACCCTCT
* * * * * * *
135876 CTAAAGCCCACA-AAAGTCGGTGGCAACCCATCTAAAGTCCATACAAGTCGATGGCAA-CCTTT
1 -TAAAGCCCACACAAA-TTGGTGGCAACTCTTCTAAAG-CCACACAAGTTGGTGGCAACCCTCT
*
135938 CTAAAGTCCACACAA
1 -TAAAGCCCACACAA
135953 GTCAATGGCA
Statistics
Matches: 164, Mismatches: 28, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
61 13 0.08
62 50 0.30
63 89 0.54
64 12 0.07
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (61 bp):
TAAAGCCCACACAAATTGGTGGCAACTCTTCTAAAGCCACACAAGTTGGTGGCAACCCTCT
Found at i:135865 original size:94 final size:94
Alignment explanation
Indices: 135686--135954 Score: 321
Period size: 94 Copynumber: 2.9 Consensus size: 94
135676 ATGACATCTT
* * * * * *
135686 TTCTAAA-GCTCACACAAGTTGGTGGCAACCCTTTTAAAGCCTACACAAATTGGTGGCAACCCTC
1 TTCTAAAGGC-CACACAAGTCGGTGGCAACCCTTTTAAAGCCCACACAAGTCGATGGCAACCTTC
* * *
135750 T-TAAAGCCTACACTAAATTGGTGGCAACTC
65 TCTAAAGCCCACAC-AAGTTGGTAGCAACTC
*
135780 TTCTAAAGGCCACACAAGTCGGTGACAACCCTTTTAAAGCCCACACAAGTCGAT-GCAACTCTTC
1 TTCTAAAGGCCACACAAGTCGGTGGCAACCCTTTTAAAGCCCACACAAGTCGATGGCAAC-CTTC
*
135844 TCAAAAGCCCACACAAGTTGGTAGCAACTC
65 TCTAAAGCCCACACAAGTTGGTAGCAACTC
* * * * * *
135874 TTCTAAAGCCCACAAAAGTCGGTGGCAACCCATCTAAAGTCCATACAAGTCGATGGCAACCTT-T
1 TTCTAAAGGCCACACAAGTCGGTGGCAACCCTTTTAAAGCCCACACAAGTCGATGGCAACCTTCT
*
135938 CTAAAGTCCACACAAGT
66 CTAAAGCCCACACAAGT
135955 CAATGGCAAC
Statistics
Matches: 151, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
93 21 0.14
94 113 0.75
95 17 0.11
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (94 bp):
TTCTAAAGGCCACACAAGTCGGTGGCAACCCTTTTAAAGCCCACACAAGTCGATGGCAACCTTCT
CTAAAGCCCACACAAGTTGGTAGCAACTC
Found at i:135972 original size:94 final size:94
Alignment explanation
Indices: 135771--135978 Score: 251
Period size: 94 Copynumber: 2.2 Consensus size: 94
135761 ACTAAATTGG
* * * *
135771 TGGCAACTCTTCTAAAGGCCACACAAGTCGGTGACAACCCTTTTAAAGCCCACACAAGTCGATGC
1 TGGCAACTCTTCTAAAGCCCACAAAAGTCGGTGACAACCCATCTAAAGCCCACACAAGTCGATGC
***
135836 AACTCTTCTCAAAAGCCCACACAAGTTGG
66 AACTCTTCTCAAAAGCCCACACAAGTCAA
* * * *
135865 TAGCAACTCTTCTAAAGCCCACAAAAGTCGGTGGCAACCCATCTAAAGTCCATACAAGTCGATGG
1 TGGCAACTCTTCTAAAGCCCACAAAAGTCGGTGACAACCCATCTAAAGCCCACACAAGTCGAT-G
* *
135930 CAAC-CTT-TCTAAAGTCCACACAAGTCAA
65 CAACTCTTCTCAAAAGCCCACACAAGTCAA
*
135958 TGGCAACCCTTTCT-AAGCCCA
1 TGGCAACTC-TTCTAAAGCCCA
135979 ATGTCATTAG
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 30 0.31
94 62 0.64
95 5 0.05
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.21
Consensus pattern (94 bp):
TGGCAACTCTTCTAAAGCCCACAAAAGTCGGTGACAACCCATCTAAAGCCCACACAAGTCGATGC
AACTCTTCTCAAAAGCCCACACAAGTCAA
Found at i:136197 original size:104 final size:102
Alignment explanation
Indices: 136087--136648 Score: 448
Period size: 104 Copynumber: 5.4 Consensus size: 102
136077 TTCTCTAAAC
* * * * * *
136087 CCAATGTCGCTGGCCTTGAATCAGCATGTTGGAACCCTTGTCATTTATAAGTCCATTGTCACTAG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGAACCCTTATCATTT-TAAGCCCAATGTCACTGG
* *
136152 CCTTGAATCAACACATTGGCATTCTTATCATCTTTAAGC
65 CCTTGAATCAACACATTGGCATT-TTATCATTTTTAAGT
* ** * * * ** * * * * *
136191 CCAATGTCATTGGCCTTGAATCAGCACATTAGCATTCTTCTCATCTTTAAGTCTAATATCATTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGAACCCTTATCAT-TTTAAGCCCAATGTCACTGG
* * * * *
136256 CCGTGAGTCAACATATTGACACTTTTAACATTTTTAAGT
65 CCTTGAATCAACACATTGGCA-TTTTATCATTTTTAAGT
* * ** * ** *
136295 CCGATATCGCTGGCCTTGAATCAGCATATTGGCACCCTTATTTTCTTTAAACCCAATGTTGCTGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGAACCCTTATCAT-TTTAAGCCCAATGTCACTGG
* *
136360 CCTTGAATCAACACATTGGCA---CACTCATCTTTAAGT
65 CCTTGAATCAACACATTGGCATTTTA-TCATTTTTAAGT
* * * ** * *
136396 CCAATATTGCTAGCCTTGAATTAGCATATTGGAACTTATTATCATCTTTAAGACCAATGTCGCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGAAC-CCTTATCAT-TTTAAGCCCAATGTCACTG
* *
136461 GCCTTGAATCAGCACATTAGCATTTT-TCTGATTTTTAAGT
64 GCCTTGAATCAACACATTGGCATTTTATC--ATTTTTAAGT
** * * ** * *
136501 CCAATATCATTGGCCGTGAGTCAATATATTGGTACCTTTATCATTTTTAAGCCCAATGTCACTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGAACCCTTATCA-TTTTAAGCCCAATGTCACTGG
* *
136566 CCTTGAATCGACACATTAGCACTTTTATCATTTTTAAGT
65 CCTTGAATCAACACATTGGCA-TTTTATCATTTTTAAGT
* * * * *
136605 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTATCAT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGAACCCTTATCAT
136649 CCTTATCAAC
Statistics
Matches: 356, Mismatches: 90, Indels: 25
0.76 0.19 0.05
Matches are distributed among these distances:
100 1 0.00
101 40 0.11
102 41 0.12
103 3 0.01
104 226 0.63
105 43 0.12
106 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (102 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGAACCCTTATCATTTTAAGCCCAATGTCACTGGC
CTTGAATCAACACATTGGCATTTTATCATTTTTAAGT
Found at i:136199 original size:52 final size:52
Alignment explanation
Indices: 136087--136649 Score: 368
Period size: 52 Copynumber: 10.9 Consensus size: 52
136077 TTCTCTAAAC
* * ** * ** *
136087 CCAATGTCGCTGGCCTTGAATCAGCATGTTGGAACCCTTGTCAT-TTATAAGT
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTTATCATCTT-TAAGT
* * *
136139 CCATTGTCACTAGCCTTGAATCAACACATTGGCATTCTTATCATCTTTAAGC
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTTATCATCTTTAAGT
* * * *
136191 CCAATGTCATTGGCCTTGAATCAGCACATTAGCATTCTTCTCATCTTTAAGT
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTTATCATCTTTAAGT
* * * * * * * * *
136243 CTAATATCATTGGCCGTGAGTCAACATATTGACACTT-TTAACATTTTTAAGT
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCA-TTCTTATCATCTTTAAGT
* * * * * ** ** **
136295 CCGATATCGCTGGCCTTGAATCAGCATATTGGCACCCTTATTTTCTTTAAAC
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTTATCATCTTTAAGT
** *
136347 CCAATGTTGCTGACCTTGAATCAACACATTGGCA--C--ACTCATCTTTAAGT
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTTA-TCATCTTTAAGT
* ** * * * * * * *
136396 CCAATATTGCTAGCCTTGAATTAGCATATTGGAACTTATTATCATCTTTAAGA
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCA-TTCTTATCATCTTTAAGT
* * * * * * *
136449 CCAATGTCGCTGGCCTTGAATCAGCACATTAGCATTTTTCTGATTTTTAAGT
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTTATCATCTTTAAGT
* * * * * * * * * *
136501 CCAATATCATTGGCCGTGAGTCAATATATTGGTA-CCTTTATCATTTTTAAGC
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCATTC-TTATCATCTTTAAGT
* * *
136553 CCAATGTCACTGGCCTTGAATCGACACATTAGCACTT-TTATCATTTTTAAGT
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCA-TTCTTATCATCTTTAAGT
** * *
136605 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTCTTATCATC
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTTATCATC
136650 CTTATCAACT
Statistics
Matches: 389, Mismatches: 109, Indels: 26
0.74 0.21 0.05
Matches are distributed among these distances:
48 1 0.00
49 35 0.09
50 1 0.00
51 1 0.00
52 308 0.79
53 42 0.11
54 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (52 bp):
CCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTTATCATCTTTAAGT
Found at i:136500 original size:258 final size:258
Alignment explanation
Indices: 136038--136636 Score: 695
Period size: 258 Copynumber: 2.3 Consensus size: 258
136028 TTTAAGTTTG
* * * *
136038 ATATCATTGGCATTGAATCAGCATATTAGCACCTTTATTTTCTCTAAACCCAATGTCGCTGGCCT
1 ATATCACTGGCCTTGAATCAGCATATTAGCACCCTTATTTTCTCTAAACCCAATGTCGCTGACCT
* ** * * *
136103 TGAATCAGCATGTTGGAACCCTTGTCATTTATAAGTCCATTGTCACTAGCCTTGAATCAACACAT
66 TGAATCAACACATTGGAACAC-T-TCATTTATAAGTCCAATATCACTAGCCTTGAATCAACACAT
* * * *
136168 TGGCATTCTTATCATCTTTAAGCCCAATGTCATTGGCCTTGAATCAGCACATTAGCATTCTTCTC
129 TGGAATTATTATCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTAGCATTCTTCTC
* * * *
136233 ATCTTTAAGTCTAATATCATTGGCCGTGAGTCAACATATTGACACTTTTAACATTTTTAAGTCCG
194 ATCTTTAAGTCCAATATCATTGGCCGTGAGTCAACATATTGACACCTTTAACATTTTTAAGCCCA
* * * *
136298 ATATCGCTGGCCTTGAATCAGCATATTGGCACCCTTATTTTCTTTAAACCCAATGTTGCTGACCT
1 ATATCACTGGCCTTGAATCAGCATATTAGCACCCTTATTTTCTCTAAACCCAATGTCGCTGACCT
* ** * * *
136363 TGAATCAACACATTGGCACAC-TCATCTT-TAAGTCCAATATTGCTAGCCTTGAATTAGCATATT
66 TGAATCAACACATTGGAACACTTCAT-TTATAAGTCCAATATCACTAGCCTTGAATCAACACATT
* * *
136426 GGAACTTATTATCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATTTTTCTG
130 GGAA-TTATTATCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTAGCATTCTTCTC
* * ** *
136491 ATTTTTAAGTCCAATATCATTGGCCGTGAGTCAATATATTGGTACCTTTATCATTTTTAAGCCCA
194 ATCTTTAAGTCCAATATCATTGGCCGTGAGTCAACATATTGACACCTTTAACATTTTTAAGCCCA
* * ** ** * *
136556 ATGTCACTGGCCTTGAATC-GACACATTAGCACTTTTATCATTT-T-TAAGTCCAATGTCGTTGG
1 ATATCACTGGCCTTGAATCAG-CATATTAGCACCCTTAT--TTTCTCTAAACCCAATGTCGCTGA
*
136618 CCTTGAATCAGCACATTGG
63 CCTTGAATCAACACATTGG
136637 CACTCTTATC
Statistics
Matches: 286, Mismatches: 48, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
257 36 0.13
258 173 0.60
259 1 0.00
260 76 0.27
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (258 bp):
ATATCACTGGCCTTGAATCAGCATATTAGCACCCTTATTTTCTCTAAACCCAATGTCGCTGACCT
TGAATCAACACATTGGAACACTTCATTTATAAGTCCAATATCACTAGCCTTGAATCAACACATTG
GAATTATTATCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTAGCATTCTTCTCAT
CTTTAAGTCCAATATCATTGGCCGTGAGTCAACATATTGACACCTTTAACATTTTTAAGCCCA
Found at i:137871 original size:20 final size:20
Alignment explanation
Indices: 137846--137905 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
137836 CCATGTATTA
137846 ATGTATCGATATAATTCATC
1 ATGTATCGATATAATTCATC
137866 ATGTATC-A-AT-A--CA--
1 ATGTATCGATATAATTCATC
137879 ATGTATCGATATAATTCATC
1 ATGTATCGATATAATTCATC
137899 ATGTATC
1 ATGTATC
137906 AATACAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 7 0.21
14 1 0.03
15 4 0.12
16 1 0.03
17 1 0.03
18 4 0.12
19 1 0.03
20 14 0.42
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGTATCGATATAATTCATC
Found at i:137882 original size:33 final size:33
Alignment explanation
Indices: 137845--137922 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
137835 ACCATGTATT
137845 AATGTATCGATATAATTCATCATGTATCAATAC
1 AATGTATCGATATAATTCATCATGTATCAATAC
137878 AATGTATCGATATAATTCATCATGTATCAATAC
1 AATGTATCGATATAATTCATCATGTATCAATAC
*
137911 AATATATCGATA
1 AATGTATCGATA
137923 CAAAGTGAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (33 bp):
AATGTATCGATATAATTCATCATGTATCAATAC
Found at i:138564 original size:20 final size:20
Alignment explanation
Indices: 138522--138575 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
138512 TTCAACAATT
138522 TGTATCGATACAGTAAGGTAA
1 TGTATCGATACA-TAAGGTAA
138543 TGTATCGATACATAA-GTAAA
1 TGTATCGATACATAAGGT-AA
*
138563 TGTATCAATACAT
1 TGTATCGATACAT
138576 GCCTGAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 2 0.06
20 17 0.55
21 12 0.39
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGGTAA
Found at i:138673 original size:39 final size:39
Alignment explanation
Indices: 138580--138673 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 39
138570 ATACATGCCT
*
138580 GAAA-TGTATCGATATAGGACCATATGGCATTCTGGAAG
1 GAAATTGTATCGATACAGGACCATATGGCATTCTGGAAG
* ** *
138618 GAAATTGCATTAATACAGGACCATGTGGCATTCTGGAAG
1 GAAATTGTATCGATACAGGACCATATGGCATTCTGGAAG
138657 GAAATTGTATCGATACA
1 GAAATTGTATCGATACA
138674 TTTCTCATTG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 4 0.09
39 43 0.91
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (39 bp):
GAAATTGTATCGATACAGGACCATATGGCATTCTGGAAG
Found at i:139250 original size:141 final size:141
Alignment explanation
Indices: 138996--139269 Score: 458
Period size: 141 Copynumber: 1.9 Consensus size: 141
138986 ACTAACCTTA
* * * * *
138996 TTTTGATCATTCAACTCAACACTCATGATCTGCTGCAGTGCATCATGCTGCCAGCAACTTTTCTT
1 TTTTGATCATTCAACTCAACACTCATGATCTGCTGCAATGCATCATACTGCCAACAACATTTCCT
* *
139061 GCAATTGGAAGAGAAAAAATGACCAAAACACCACCCTTTTGGCTCCAAAATTTTGGCTTTAAATA
66 ACAATTGGAAGAGAAAAAATGACCAAAACACCACCCTTTTGGCTCCAAAATTTTGGCTATAAATA
139126 GGCCAACCCTC
131 GGCCAACCCTC
* *
139137 TTTTGATCATTCAACTCAACACTCATGATCTGTTGCAATGCATCATACTGCCAACAGCATTTCCT
1 TTTTGATCATTCAACTCAACACTCATGATCTGCTGCAATGCATCATACTGCCAACAACATTTCCT
*
139202 ACAATTGGAAGGGAAAAAATGACCAAAACACCACCCTTTTGGCTCCAAAATTTTGGCTATAAATA
66 ACAATTGGAAGAGAAAAAATGACCAAAACACCACCCTTTTGGCTCCAAAATTTTGGCTATAAATA
139267 GGC
131 GGC
139270 TAATCCAATT
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 123 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (141 bp):
TTTTGATCATTCAACTCAACACTCATGATCTGCTGCAATGCATCATACTGCCAACAACATTTCCT
ACAATTGGAAGAGAAAAAATGACCAAAACACCACCCTTTTGGCTCCAAAATTTTGGCTATAAATA
GGCCAACCCTC
Found at i:143655 original size:18 final size:18
Alignment explanation
Indices: 143632--143668 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
143622 GCATTAAATG
143632 AGAATACCACAAAGGAGT
1 AGAATACCACAAAGGAGT
143650 AGAATACCACAAAGGAGT
1 AGAATACCACAAAGGAGT
143668 A
1 A
143669 AGAGGCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (18 bp):
AGAATACCACAAAGGAGT
Found at i:145526 original size:21 final size:20
Alignment explanation
Indices: 145497--145553 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
145487 AAAACCCTGA
**
145497 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
145517 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
145538 ATAGTATCGATACACA
1 AAAGTATCGATACACA
145554 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:145624 original size:53 final size:53
Alignment explanation
Indices: 145541--145677 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
145531 AGATTGCATA
*
145541 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
145595 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
145648 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
145678 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Done.