Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005983.1 Hibiscus syriacus cultivar Beakdansim tig00014064_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 781742
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 5
Found at i:6938 original size:11 final size:11
Alignment explanation
Indices: 6922--6947 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6912 GAGACATTAC
6922 CCGCCCCGCAT
1 CCGCCCCGCAT
6933 CCGCCCCGCAT
1 CCGCCCCGCAT
6944 CCGC
1 CCGC
6948 TTGCCCCGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.65, G:0.19, T:0.08
Consensus pattern (11 bp):
CCGCCCCGCAT
Found at i:12579 original size:2 final size:2
Alignment explanation
Indices: 12572--12608 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
12562 CCGACCACCC
*
12572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12609 AGCCAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23788 original size:21 final size:21
Alignment explanation
Indices: 23671--23806 Score: 73
Period size: 21 Copynumber: 6.6 Consensus size: 21
23661 ACGCGAAATA
**
23671 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
23691 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
23711 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* ** *
23732 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
23753 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
23774 AGAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
23794 AAAATCGCAACGC
1 AAAATCGCAACGC
23807 AAACACATAA
Statistics
Matches: 85, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 36 0.42
21 46 0.54
22 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:23837 original size:20 final size:20
Alignment explanation
Indices: 23814--23948 Score: 182
Period size: 20 Copynumber: 6.7 Consensus size: 20
23804 CGCAAACACA
23814 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
23834 TAAACCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
23854 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
23874 TATATCGCAACGCATATCCG
1 TAAATCGCAACGCGTATCCG
* *
23894 TAAATCGCAACGAC-AATACG
1 TAAATCGCAACG-CGTATCCG
23914 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
23935 TAAATCGCAACGCG
1 TAAATCGCAACGCG
23949 ATTTTTAAAG
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
20 82 0.83
21 17 0.17
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:23843 original size:40 final size:39
Alignment explanation
Indices: 23776--23948 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
23766 GATTTTCCAG
* ** * * *
23776 AATCGCAACGCGAATATGAAAATCGCAACGCAAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCAATC-CGTA
* **
23816 AATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CAATCCGTA
* *
23856 AATCGCAATGCGTATCCGTATATCGCAACGCATATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCA-ATCCGTA
* * *
23896 AATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGTA
1 AATCGCAACG-CGTATCCGT-AAATCGCAACGC-AATCCGTA
23937 AATCGCAACGCG
1 AATCGCAACGCG
23949 ATTTTTAAAG
Statistics
Matches: 108, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
40 77 0.71
41 31 0.29
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCAATCCGTA
Found at i:23921 original size:21 final size:20
Alignment explanation
Indices: 23776--23947 Score: 141
Period size: 20 Copynumber: 8.6 Consensus size: 20
23766 GATTTTCCAG
* *
23776 AATCGCAACGCGA-ATATGAA
1 AATCGCAACGC-ATATACGTA
* * *
23796 AATCGCAACGCAAACACATA
1 AATCGCAACGCATATACGTA
* *
23816 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCATATACGTA
* ** *
23836 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCATATACGTA
* * *
23856 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCATATACGTA
* *
23876 TATCGCAACGCATATCCGTA
1 AATCGCAACGCATATACGTA
23896 AATCGCAACGACA-ATACGTAA
1 AATCGCAACG-CATATACGT-A
* *
23917 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCATATACGTA
23937 AATCGCAACGC
1 AATCGCAACGC
23948 GATTTTTAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
19 1 0.01
20 108 0.85
21 18 0.14
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCATATACGTA
Found at i:24472 original size:21 final size:21
Alignment explanation
Indices: 24446--24522 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
24436 TGCAGAAGAG
24446 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* **
24467 TCGCAACGTGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
*
24487 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
24509 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
24523 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.19
21 29 0.62
22 9 0.19
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:24526 original size:14 final size:14
Alignment explanation
Indices: 24507--24563 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
24497 GAAAAATGAA
24507 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
24521 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
24540 AATCGCAACGAGAG
1 AATCGCAACGAGAG
24554 AATCGCAACG
1 AATCGCAACG
24564 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:24538 original size:33 final size:33
Alignment explanation
Indices: 24500--24579 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
24490 GCAACGAGAA
24500 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
24533 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
24566 AAACCAAAATCGCA
1 AAATGAAAATCGCA
24580 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:24631 original size:21 final size:21
Alignment explanation
Indices: 24605--24669 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
24595 CGCGTTGCGA
24605 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* ***
24626 TTCTCTCATTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
24646 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
24667 TTC
1 TTC
24670 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:24666 original size:20 final size:20
Alignment explanation
Indices: 24604--24667 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
24594 TCGCGTTGCG
24604 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* ***
24624 ATTTCTCTCATTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
24645 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
24665 ATT
1 ATT
24668 TCAACCAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:26513 original size:93 final size:93
Alignment explanation
Indices: 26354--26576 Score: 419
Period size: 93 Copynumber: 2.4 Consensus size: 93
26344 TAGATTGCTT
* *
26354 AGTAAACTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
26419 TTTATCTTTGTTTTGTCTTTTGGTTGAA
66 TTTATCTTTGTTTTGTCTTTTGGTTGAA
26447 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
26512 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTATCTTTGTTTTGTCTTTTGGTTGAA
26540 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
26577 AATACCCTGA
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 127 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTATCTTTGTTTTGTCTTTTGGTTGAA
Found at i:26730 original size:19 final size:19
Alignment explanation
Indices: 26706--26764 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
26696 GCAACGAGAG
26706 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
26725 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
26739 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
26758 AATCGCA
1 AATCGCA
26765 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.31
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.51
ACGTcount: A:0.47, C:0.31, G:0.15, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:26732 original size:33 final size:33
Alignment explanation
Indices: 26674--26764 Score: 137
Period size: 33 Copynumber: 2.7 Consensus size: 33
26664 TAGTTTACTT
* * * *
26674 TCGCAACACGAAACATAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAAAA
26708 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
26741 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
26765 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 40 0.75
34 13 0.25
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.08
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAAAA
Found at i:26741 original size:14 final size:14
Alignment explanation
Indices: 26690--26748 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
26680 CACGAAACAT
*
26690 AAAATCGCAACGAG
1 AAAATCGCAACGAC
*
26704 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
26723 AAAATCGCAACGAC
1 AAAATCGCAACGAC
26737 AAAATCGCAACG
1 AAAATCGCAACG
26749 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 9 0.24
ACGTcount: A:0.47, C:0.27, G:0.19, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:26782 original size:19 final size:19
Alignment explanation
Indices: 26760--26894 Score: 92
Period size: 19 Copynumber: 7.6 Consensus size: 19
26750 GAAACCAAAA
*
26760 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26779 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
26793 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
26812 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
**
26828 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
26845 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
* *
26864 TCGCGTTGCAATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
26884 TCGTGTTGCGA
1 TCGCGTTGCGA
26895 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 17, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
14 17 0.19
16 7 0.08
17 8 0.09
19 45 0.51
20 11 0.12
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:26801 original size:14 final size:14
Alignment explanation
Indices: 26782--26838 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
26772 TTTCATTTCG
26782 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
26796 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
26813 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
26829 CGTTGCGATT
1 CGTTGCGATT
26839 TTGGTTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:26807 original size:33 final size:33
Alignment explanation
Indices: 26765--26860 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
26755 CAAAATCGCA
26765 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
26798 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
26831 TTGCGATTTTGGTTTCTCGTTGCGATTCTC
1 TTGCGATTTTCATTTCGCGTTGCGATTCTC
26861 ATTTCGCGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:30228 original size:24 final size:24
Alignment explanation
Indices: 30188--30234 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30178 CTGAAACATC
*
30188 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGTGTATTAACCAAT
*
30212 ATCAAAGTCCG-GATATTAACCAA
1 ATCAAAATCCGTG-TATTAACCAA
30235 GACCAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGTGTATTAACCAAT
Found at i:31019 original size:20 final size:20
Alignment explanation
Indices: 30927--31077 Score: 157
Period size: 20 Copynumber: 7.5 Consensus size: 20
30917 AAATTTCAGT
* * *
30927 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTATC
*
30947 GTTACGATTTACGGATTATC
1 GTTGCGATTTACGGATTATC
*
30967 GTTGCGATTTACAGATTATC
1 GTTGCGATTTACGGATTATC
30987 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTATC
*
31007 GTTGCGATTTACGGA-TACGC
1 GTTGCGATTTACGGATTA-TC
*
31027 GTTGCGATATACGGA-TA-C
1 GTTGCGATTTACGGATTATC
* *
31045 GCATTGCGGTTTACGGA-TACGC
1 G--TTGCGATTTACGGATTA-TC
31067 GTTGCGATTTA
1 GTTGCGATTTA
31078 TGTGTTCGCG
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
18 2 0.02
19 2 0.02
20 108 0.95
22 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATTATC
Found at i:31030 original size:40 final size:40
Alignment explanation
Indices: 30927--31118 Score: 176
Period size: 40 Copynumber: 4.8 Consensus size: 40
30917 AAATTTCAGT
* * * *
30927 GTTGTGATTTACAGATTCTCGTTACGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
*
30967 GTTGCGATTTACAGATTA-TCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGA-TACGCGTTGCGATTTACGGATTATC
* *
31007 GTTGCGATTTACGGATACGCGTTGCGATATACGGA-TA-C
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
* * * **
31045 GCATTGCGGTTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 G--TTGCGATTTACAGATACGCGTTGCGATTTACG-GATTATC
* * *
31087 GTTGCGATTTTCATATTCGCGTTTGCGATTTA
1 GTTGCGATTTACAGATACGCG-TTGCGATTTA
31119 TGTGTTCGCG
Statistics
Matches: 129, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 4 0.03
40 108 0.84
41 13 0.10
42 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.39
Consensus pattern (40 bp):
GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTATC
Found at i:31030 original size:60 final size:58
Alignment explanation
Indices: 30927--31096 Score: 157
Period size: 60 Copynumber: 2.9 Consensus size: 58
30917 AAATTTCAGT
* * * * *
30927 GTTGTGATTTACAGATTCTCGTTACGATTTACGGATTA-TCGTTGCGATTTACAGATTATC
1 GTTGCGATTTACGGATTATCGTTGCGATTTACGGA-TACGCGTTGCGATTTACAGA-TA-C
* *
30987 GTTGCGATTTACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATATACGGATAC
1 GTTGCGATTTACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTACAGATAC
* * * *
31045 GCATTGCGGTTTACGGA-TACGCGTTGCGATTTATGTG-TTCGCGTTGCGATTT
1 G--TTGCGATTTACGGATTA-TCGTTGCGATTTACG-GATACGCGTTGCGATTT
31097 TCATATTCGC
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
58 2 0.02
59 6 0.06
60 84 0.90
61 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (58 bp):
GTTGCGATTTACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTACAGATAC
Found at i:31126 original size:21 final size:20
Alignment explanation
Indices: 31064--31136 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
31054 TTTACGGATA
31064 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTTATGTGTT
* *
31084 CGCGTTGCGATTT-TCATATT
1 CGCGTTGCGATTTAT-GTGTT
31104 CGCGTTTGCGATTTATGTGTT
1 CGCG-TTGCGATTTATGTGTT
31125 CGCGTTGCGATT
1 CGCGTTGCGATT
31137 CTGGAAAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.02
20 28 0.61
21 16 0.35
22 1 0.02
ACGTcount: A:0.11, C:0.18, G:0.27, T:0.44
Consensus pattern (20 bp):
CGCGTTGCGATTTATGTGTT
Found at i:31148 original size:21 final size:21
Alignment explanation
Indices: 31124--31239 Score: 53
Period size: 21 Copynumber: 5.6 Consensus size: 21
31114 ATTTATGTGT
31124 TCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGATTCTGGAAAA
** * **
31145 TCGCAATGCGAATT-TGTACTA
1 TCGCGTTGCG-ATTCTGGAAAA
* *
31166 TCGCATTGCGATTTTCAGG--AA
1 TCGCGTTGCGA--TTCTGGAAAA
* *
31187 TCGCGTTGCGATTTTGGAAAC
1 TCGCGTTGCGATTCTGGAAAA
** **
31208 T-GATTTGCGATTCTGG-GGA
1 TCGCGTTGCGATTCTGGAAAA
31227 TCGCGTTGCGATT
1 TCGCGTTGCGATT
31240 TTGTTGGTCA
Statistics
Matches: 67, Mismatches: 21, Indels: 15
0.65 0.20 0.15
Matches are distributed among these distances:
19 5 0.07
20 22 0.33
21 34 0.51
22 5 0.07
23 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATTCTGGAAAA
Found at i:31155 original size:41 final size:41
Alignment explanation
Indices: 31069--31155 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
31059 GGATACGCGT
* * * **
31069 TGCGATTTATGTGTTCGCGTTGCGATTTTCATATTCGCGTT
1 TGCGATTTATGTGTTCGCGTTGCGATTTGCAAAATCGCGAA
*
31110 TGCGATTTATGTGTTCGCGTTGCGATTCTGGAAAATCGC-AA
1 TGCGATTTATGTGTTCGCGTTGCGATT-TGCAAAATCGCGAA
31151 TGCGA
1 TGCGA
31156 ATTTGTACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 32 0.82
42 7 0.18
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.39
Consensus pattern (41 bp):
TGCGATTTATGTGTTCGCGTTGCGATTTGCAAAATCGCGAA
Found at i:36926 original size:2 final size:2
Alignment explanation
Indices: 36919--36946 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36909 AATCAGAATT
36919 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36947 CAAGGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39427 original size:27 final size:26
Alignment explanation
Indices: 39366--39431 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
39356 TATGCCCTTG
*
39366 TTTTAAAGGAATATTAATATGATTTG
1 TTTTAAAGGAATATTAATATGATTTC
* *
39392 TGTTTAAAGGAATATTAATGTGGTTTC
1 T-TTTAAAGGAATATTAATATGATTTC
39419 TTTTGAAAGGAAT
1 TTTT-AAAGGAAT
39432 TCAAAAGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.44
Consensus pattern (26 bp):
TTTTAAAGGAATATTAATATGATTTC
Found at i:39712 original size:17 final size:19
Alignment explanation
Indices: 39675--39714 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
39665 ATATTTTATT
39675 TAAAGTTCAGGGATCAAAC
1 TAAAGTTCAGGGATCAAAC
*
39694 TAAAGTTTA-GGAT-AAAC
1 TAAAGTTCAGGGATCAAAC
39711 TAAA
1 TAAA
39715 ATTAACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.25
Consensus pattern (19 bp):
TAAAGTTCAGGGATCAAAC
Found at i:42307 original size:84 final size:84
Alignment explanation
Indices: 42166--42358 Score: 370
Period size: 84 Copynumber: 2.3 Consensus size: 84
42156 AGAAAATACC
42166 CAAAATTAAGGTGGGTTTGATAAATAATTAAAAAATCTTTTTTTTATTAAAACAAAATTTTGTAT
1 CAAAATTAAGGTGGGTTTGATAAATAATTAAAAAATCTTTTTTTTATTAAAACAAAATTTTGTAT
42231 GACTTAATTTTTATTAAAA
66 GACTTAATTTTTATTAAAA
42250 CAAAATTAAGGTGGGTTTGATAAATAATTAAAAAAATC-TTTTTTTATTAAAACAAAATTTTGTA
1 CAAAATTAAGGTGGGTTTGATAAATAATT-AAAAAATCTTTTTTTTATTAAAACAAAATTTTGTA
42314 TGACTTAATTTTTATTAAAA
65 TGACTTAATTTTTATTAAAA
42334 CAAAATTAAGGTGGGTTTGATAAAT
1 CAAAATTAAGGTGGGTTTGATAAAT
42359 TTTTACTATG
Statistics
Matches: 108, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 100 0.93
85 8 0.07
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (84 bp):
CAAAATTAAGGTGGGTTTGATAAATAATTAAAAAATCTTTTTTTTATTAAAACAAAATTTTGTAT
GACTTAATTTTTATTAAAA
Found at i:59337 original size:12 final size:14
Alignment explanation
Indices: 59306--59339 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
59296 AGATTATTAA
59306 AAAAAATTATAAAG
1 AAAAAATTATAAAG
59320 AAAAAATTA-AAAGG
1 AAAAAATTATAAA-G
59334 AAAAAA
1 AAAAAA
59340 AGTTATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AAAAAATTATAAAG
Found at i:59529 original size:11 final size:11
Alignment explanation
Indices: 59513--59538 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59503 GATTAATTTT
59513 TAAAATTAAAA
1 TAAAATTAAAA
59524 TAAAATTAAAA
1 TAAAATTAAAA
59535 TAAA
1 TAAA
59539 CTATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAATTAAAA
Found at i:70283 original size:5 final size:5
Alignment explanation
Indices: 70274--70309 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
70264 AAAAAGACTA
* *
70274 ATAAA ATAAA ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
70310 GGAGTCTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
ATAAT
Found at i:70297 original size:15 final size:15
Alignment explanation
Indices: 70252--70309 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
70242 AACTTATCCT
70252 AATAATATAA-ATAA
1 AATAATATAATATAA
*
70266 AA-AGACTAATAAAATAA
1 AATA-A-T-ATAATATAA
70283 AATAATATAATATAA
1 AATAATATAATATAA
*
70298 TATAATATAATA
1 AATAATATAATA
70310 GGAGTCTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 1 0.03
14 3 0.08
15 20 0.54
16 5 0.14
17 7 0.19
18 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AATAATATAATATAA
Found at i:71183 original size:22 final size:22
Alignment explanation
Indices: 71155--71210 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
71145 GCCTCTGTGG
71155 AAGAATCAAAATACACAGGCTT
1 AAGAATCAAAATACACAGGCTT
71177 AAGAATCAAAATACACAGGCTT
1 AAGAATCAAAATACACAGGCTT
71199 AAGAATCAAAAT
1 AAGAATCAAAAT
71211 TTTATTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.54, C:0.16, G:0.12, T:0.18
Consensus pattern (22 bp):
AAGAATCAAAATACACAGGCTT
Found at i:77343 original size:22 final size:24
Alignment explanation
Indices: 77317--77369 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
77307 ACATGTCGTA
*
77317 TTTATATTTTTAAA-AAT-TTATT
1 TTTATATTTATAAATAATATTATT
*
77339 TTTATTATTTATAAATATTATTATT
1 TTTA-TATTTATAAATAATATTATT
77364 TTTATA
1 TTTATA
77370 AAAAATAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 4 0.15
23 9 0.35
24 4 0.15
25 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTATATTTATAAATAATATTATT
Found at i:77362 original size:19 final size:18
Alignment explanation
Indices: 77321--77371 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
77311 GTCGTATTTA
* *
77321 TATTTTTAAAAATTTATTTT
1 TATTTTTATAAA--TATTAT
77341 TATTATTTATAAATATTAT
1 TATT-TTTATAAATATTAT
77360 TATTTTTATAAA
1 TATTTTTATAAA
77372 AAATAAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
19 9 0.32
20 4 0.14
21 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTTATAAATATTAT
Found at i:78300 original size:6 final size:6
Alignment explanation
Indices: 78248--78335 Score: 56
Period size: 6 Copynumber: 15.0 Consensus size: 6
78238 GTTAACAAAC
* * * * * *
78248 ATGTAT ATGTAT ATTTGT ATGTGT ATATAT ATGTGCG A-GTGT ATGTGT
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTG-T ATGTGT ATGTGT
* * * *
78296 TTGTGT A--TGT ATATGT ATGTGT ATGTGC ATGTGC ATGTGT
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT
78336 CGTTGTACAT
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
4 4 0.06
5 1 0.02
6 58 0.91
7 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.48
Consensus pattern (6 bp):
ATGTGT
Found at i:78321 original size:40 final size:41
Alignment explanation
Indices: 78263--78354 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 41
78253 TATGTATATT
* * **
78263 TGTATGTGTATATATATGTGCGA-GTGTATGTGT-TTGTGTA
1 TGTATATGTATATATATGTGC-ATGTGCATGTGTCTTGTACA
* *
78303 TGTATATGTATGTGTATGTGCATGTGCATGTGTCGTTGTACA
1 TGTATATGTATATATATGTGCATGTGCATGTGTC-TTGTACA
78345 TGTATATGTA
1 TGTATATGTA
78355 CAACTATCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.02
40 27 0.63
42 15 0.35
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.46
Consensus pattern (41 bp):
TGTATATGTATATATATGTGCATGTGCATGTGTCTTGTACA
Found at i:80387 original size:2 final size:2
Alignment explanation
Indices: 80380--80410 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
80370 TAATCCACTT
80380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
80411 GAAGAGCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81054 original size:34 final size:33
Alignment explanation
Indices: 80996--81080 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 33
80986 CGCCCCGATT
80996 ATATATATATAATATTTTTATATTTTTTATATTA
1 ATATATATATAATA-TTTTATATTTTTTATATTA
81030 ATTATATATATAATATTTTATATTTTTTATATTA
1 A-TATATATATAATATTTTATATTTTTTATATTA
*
81064 AT-CATATATAATATTTT
1 ATATATATATAATATTTT
81081 CGGATTTGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
32 14 0.29
33 1 0.02
34 21 0.43
35 13 0.27
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (33 bp):
ATATATATATAATATTTTATATTTTTTATATTA
Found at i:81120 original size:25 final size:27
Alignment explanation
Indices: 81070--81121 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
81060 ATTAATCATA
*
81070 TATAATATTTTCGGATTTGGGTTCGGG
1 TATAATATTTTCGGAGTTGGGTTCGGG
81097 TATAATATTTT-GG-GTTGGGTTCGGG
1 TATAATATTTTCGGAGTTGGGTTCGGG
81122 GACGGGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 11 0.46
26 2 0.08
27 11 0.46
ACGTcount: A:0.17, C:0.06, G:0.33, T:0.44
Consensus pattern (27 bp):
TATAATATTTTCGGAGTTGGGTTCGGG
Found at i:87904 original size:12 final size:12
Alignment explanation
Indices: 87887--87930 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
87877 ATTGTCATAG
87887 TATTATTTTTTA
1 TATTATTTTTTA
87899 TATTATTTTTTCA
1 TATTATTTTTT-A
87912 -ATTATCTTTTTA
1 TATTAT-TTTTTA
*
87924 TTTTATT
1 TATTATT
87931 AAATAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:88818 original size:218 final size:214
Alignment explanation
Indices: 88369--88932 Score: 697
Period size: 218 Copynumber: 2.6 Consensus size: 214
88359 GATTCGGCAT
* * * * *
88369 AAATTAAGGACCTAATT-AAAAGC-ACTACATAGA-GGGGTATTATAAAAATTATCCATAAGTTT
1 AAATTAAGGACCTAATTAAAAAACTA-TAGAGAGATGGGGTATTATAAGAATTATCCATAAATTT
* *
88431 ATATGAAAAATTACTATACTACCCTCGGATCGGGTTGGGTCAGAAGTTTTTCACCCTCCACCGGA
65 ATAT-AAAAAATACT-TACTA-CCTCGGGTCGGGTTGGGTC-GAAGTTTTTCACCCTCCACCGGA
* *
88496 CCCAACCCGACCCGAAAAATATATGTCCACTCGAACTTAATCTAATCCGATTTTTTTGGACTACA
126 CCCAACCCGACCCGAAAAATATATATCCACTCGAACTTAATCTAATCCGA-TTTTTTAGACTACA
* *
88561 AACCCAACCTAATCGGATTCGACAC
190 AACCCAACCTAATCAGATCCGACAC
88586 AAATTAAGGACCTAATTAAAAAACTATAGAGAGATGGGGTATTATAAGAATTATCCATAAATTTA
1 AAATTAAGGACCTAATTAAAAAACTATAGAGAGATGGGGTATTATAAGAATTATCCATAAATTTA
* * *
88651 TAT-AAAAATACTTACTACACTCGGGTTGGGTTGGGTCGGAGGTTTTTCACCCTCCACTGGAACC
66 TATAAAAAATACTTACTAC-CTCGGGTCGGGTTGGGTC-GAAGTTTTTCACCCTCCACCGG-ACC
* * * *
88715 CGACCCGACCCGAAAAATATATATTATCCACTCGAATTTAATCTATTTCGA-TTTTTAGACTACA
128 CAACCCGACCCG-AAAA-ATATA-TATCCACTCGAACTTAATCTAATCCGATTTTTTAGACTACA
*
88779 AACTCAACCTAATCAGATCCGACAC
190 AACCCAACCTAATCAGATCCGACAC
* * * *
88804 AAATTAAGGACCTAATTAAAGAAATACTATAGAGACATGAGGTATTATAAGGATTATCCATAAAA
1 AAATTAAGGACCTAATT-AA-AAA-ACTATAGAGAGATGGGGTATTATAAGAATTATCCATAAAT
* *
88869 TTATATAAAAATATATTTTACTATCCTCGGGTCGGGTTGGGTCAAAGTCTTTTCACCCTCCACC
63 TTATATAAAAA-ATA-CTTACTA-CCTCGGGTCGGGTTGGGTCGAAGT-TTTTCACCCTCCACC
88933 CAAACTTAAC
Statistics
Matches: 302, Mismatches: 29, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
215 1 0.00
216 41 0.14
217 39 0.13
218 66 0.22
219 39 0.13
220 26 0.09
221 42 0.14
222 4 0.01
223 6 0.02
224 37 0.12
225 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (214 bp):
AAATTAAGGACCTAATTAAAAAACTATAGAGAGATGGGGTATTATAAGAATTATCCATAAATTTA
TATAAAAAATACTTACTACCTCGGGTCGGGTTGGGTCGAAGTTTTTCACCCTCCACCGGACCCAA
CCCGACCCGAAAAATATATATCCACTCGAACTTAATCTAATCCGATTTTTTAGACTACAAACCCA
ACCTAATCAGATCCGACAC
Found at i:103461 original size:12 final size:12
Alignment explanation
Indices: 103444--103470 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
103434 ATTTTGAAAT
103444 ATAGATTATAAG
1 ATAGATTATAAG
103456 ATAGATTATAAG
1 ATAGATTATAAG
103468 ATA
1 ATA
103471 AATTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (12 bp):
ATAGATTATAAG
Found at i:103632 original size:217 final size:216
Alignment explanation
Indices: 103239--103666 Score: 761
Period size: 217 Copynumber: 2.0 Consensus size: 216
103229 TTTACTCATA
*
103239 ATAGATTATAAGATAAATTTAAATTCGAGTTTGAAATTCCCTCATGTAGTATGAACGAATGTGGT
1 ATAGATTATAAGATAAATTTAAATTCGAGTTTAAAATTCCCTCATGTAGTATGAACGAATGTGGT
**
103304 AAGATTTTTGACCGGATAAAAAGGTGATTTTTATCATCTCACTTTAAATTTTGACCAAGTCGGCT
66 AAGATTTCCGACCGGATAAAAAGGTGATTTTTATCATCTCACTTTAAATTTTGACCAAGTCGGCT
* *
103369 TGAAGTAACATGAGTAGTCTTATATGAGCAGATAAATTTAAATTTTGTAGTATTTTGAAAATGAG
131 TGAAGTAACACGAGTAGTCCTATAT-AGCAGATAAATTTAAATTTTGTAGTATTTTGAAAATGAG
103434 ATTTTGAAATATAGATTATAAG
195 ATTTTGAAATATAGATTATAAG
103456 ATAGATTATAAGATAAATTTAAATTCGAGTTTAAAATTCCCTCATTGTGTAGTATGAACGAATGT
1 ATAGATTATAAGATAAATTTAAATTCGAGTTTAAAATTCCCTCA---TGTAGTATGAACGAATGT
103521 GGTAAGATTTCCGACCGGAT-AAAAGGTGATTTTTATCATCTCACTTTAAATTTTGACCAAGTCG
63 GGTAAGATTTCCGACCGGATAAAAAGGTGATTTTTATCATCTCACTTTAAATTTTGACCAAGTCG
103585 GCTTGAAGTAACACGAGTAGTCCTATAT-GCAGATAAATTTAAATTTTGTAGTATTTTGAAAATG
128 GCTTGAAGTAACACGAGTAGTCCTATATAGCAGATAAATTTAAATTTTGTAGTATTTTGAAAATG
103649 AGATTTTGAAATATAGAT
193 AGATTTTGAAATATAGAT
103667 GATATATCTA
Statistics
Matches: 203, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
217 97 0.48
219 70 0.34
220 36 0.18
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (216 bp):
ATAGATTATAAGATAAATTTAAATTCGAGTTTAAAATTCCCTCATGTAGTATGAACGAATGTGGT
AAGATTTCCGACCGGATAAAAAGGTGATTTTTATCATCTCACTTTAAATTTTGACCAAGTCGGCT
TGAAGTAACACGAGTAGTCCTATATAGCAGATAAATTTAAATTTTGTAGTATTTTGAAAATGAGA
TTTTGAAATATAGATTATAAG
Found at i:107864 original size:2 final size:2
Alignment explanation
Indices: 107857--107885 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
107847 AGAATGTGAA
107857 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107886 TGTTAGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:108015 original size:14 final size:14
Alignment explanation
Indices: 107996--108026 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
107986 AAAATTTTAA
*
107996 ATAAAATTTAATTT
1 ATAAAATGTAATTT
108010 ATAAAATGTAATTT
1 ATAAAATGTAATTT
108024 ATA
1 ATA
108027 TAACTCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATAAAATGTAATTT
Found at i:109243 original size:28 final size:29
Alignment explanation
Indices: 109187--109245 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
109177 TATGATTCTC
*
109187 ATTTTAAATTAATCCCTAAATATTTAAAT
1 ATTTTAAATTAATCCCTAAATATATAAAT
* *
109216 ATTTTAATTTCATCCCTAAAT-TATAAAT
1 ATTTTAAATTAATCCCTAAATATATAAAT
109244 AT
1 AT
109246 CATTCTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (29 bp):
ATTTTAAATTAATCCCTAAATATATAAAT
Found at i:109286 original size:60 final size:60
Alignment explanation
Indices: 109185--109366 Score: 163
Period size: 60 Copynumber: 3.0 Consensus size: 60
109175 AGTATGATTC
* * * * * ** *
109185 TCATTTTAAATTAATCCCTAAATA-TTTAAATATTTTAATTTCATCCCTAAATTATAAATA
1 TCATTCTAAATTAGTCCCCAAACATTTTAAACATTCCAATTTCATCCC-AAACTATAAATA
* * * * *
109245 TCATTCTAAATTAGTCCTCAATC-TTTTAAACATTTCGATTTCATCCCCAAACTATGAAGT-
1 TCATTCTAAATTAGTCCCCAAACATTTTAAACATTCCAATTTCAT-CCCAAACTAT-AAATA
* * *
109305 GCATTCTAAATTGGTCCCCAAACATTTTGAACATTCCAATTTCATCCCAAACTATAATATA
1 TCATTCTAAATTAGTCCCCAAACATTTTAAACATTCCAATTTCATCCCAAACTATAA-ATA
109366 T
1 T
109367 ACTAGTCCCA
Statistics
Matches: 96, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
59 2 0.02
60 70 0.73
61 24 0.25
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.39
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCCCAAACATTTTAAACATTCCAATTTCATCCCAAACTATAAATA
Found at i:116758 original size:150 final size:150
Alignment explanation
Indices: 116487--116787 Score: 545
Period size: 150 Copynumber: 2.0 Consensus size: 150
116477 AGAAGGCACC
116487 TTAGTTATTCTTAGACGGGCATAGTTTCAGACTCACTTCGATATGCAATCAGAACAATGGTATTT
1 TTAGTTATTCTTAGACGGGCATAGTTTCAGACTCACTTCGATATGCAATCA-AACAATGGTATTT
116552 GAATGGAACCTTTTCTTACATATTAAACTCATTCATGAAATTTGTGTCAAATTTTATTCTTGTTT
65 GAATGGAACCTTTTCTTACATATTAAACTCATTCATGAAATTTGTGTCAAATTTTATTCTTGTTT
116617 TGA-AGAATAATTAATCAATG
130 TGATAGAATAATTAATCAATG
116637 TTAGTTATTCTTAGACGGGCATAGTTTCAGACTCACTTCGATATGCAATC-AA-AATGGTATTTG
1 TTAGTTATTCTTAGACGGGCATAGTTTCAGACTCACTTCGATATGCAATCAAACAATGGTATTTG
116700 AATGGAACCTTTTCTTACATATTAAAAACTCATTCATGAAATTTGTGTCCAAATTTTATTCTTGT
66 AATGGAACCTTTTCTTACATATT--AAACTCATTCATGAAATTTGTGT-CAAATTTTATTCTTGT
116765 TTTGATAGAATAATTAATCAATG
128 TTTGATAGAATAATTAATCAATG
116788 GAAAGGATTC
Statistics
Matches: 147, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
147 34 0.23
148 2 0.01
149 23 0.16
150 71 0.48
151 17 0.12
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (150 bp):
TTAGTTATTCTTAGACGGGCATAGTTTCAGACTCACTTCGATATGCAATCAAACAATGGTATTTG
AATGGAACCTTTTCTTACATATTAAACTCATTCATGAAATTTGTGTCAAATTTTATTCTTGTTTT
GATAGAATAATTAATCAATG
Found at i:125009 original size:18 final size:18
Alignment explanation
Indices: 124986--125025 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
124976 CAAAGTTACA
* *
124986 AACACGATCATGAACACG
1 AACACGAACATAAACACG
*
125004 AACACGAACATAAACATG
1 AACACGAACATAAACACG
125022 AACA
1 AACA
125026 GGAAAGAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.25, G:0.12, T:0.10
Consensus pattern (18 bp):
AACACGAACATAAACACG
Found at i:134939 original size:27 final size:27
Alignment explanation
Indices: 134909--134961 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
134899 ACAAGAAATA
*
134909 CACAAATTATAGAAAGAAACCCTAAAC
1 CACAAATTACAGAAAGAAACCCTAAAC
*
134936 CACAAATTACAGAGAGAAACCCTAAA
1 CACAAATTACAGAAAGAAACCCTAAA
134962 AAAGATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.55, C:0.23, G:0.09, T:0.13
Consensus pattern (27 bp):
CACAAATTACAGAAAGAAACCCTAAAC
Found at i:135824 original size:24 final size:25
Alignment explanation
Indices: 135781--135830 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
135771 GAGTTGGATT
135781 TTTATCGTTATTTATTATACTTTTA
1 TTTATCGTTATTTATTATACTTTTA
135806 TTTATCGTTA-TTATTATACTTTTA
1 TTTATCGTTATTTATTATACTTTTA
135830 T
1 T
135831 AAATGTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTATCGTTATTTATTATACTTTTA
Found at i:170378 original size:42 final size:42
Alignment explanation
Indices: 170324--170423 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
170314 AAATATTATA
*
170324 TTTAGAATAATATA-TTTAT-AATTATTTATTATATTTTAA-AAT
1 TTTAAAATAATATATTTTATAAATT-TTT-TTAT-TTTTAACAAT
170366 TTTAAAATAATATATTTTATAAATTTTTTTATTTTTAACAA-
1 TTTAAAATAATATATTTTATAAATTTTTTTATTTTTAACAAT
*
170407 -TT-AAACAATATATTTTA
1 TTTAAAATAATATATTTTA
170424 ATAATACAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
39 14 0.26
40 2 0.04
41 6 0.11
42 19 0.36
43 8 0.15
44 4 0.08
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (42 bp):
TTTAAAATAATATATTTTATAAATTTTTTTATTTTTAACAAT
Found at i:172624 original size:17 final size:17
Alignment explanation
Indices: 172602--172670 Score: 120
Period size: 17 Copynumber: 4.1 Consensus size: 17
172592 AAGATCGATT
*
172602 TTGAGCTCGATTCAAGC
1 TTGAGCTCGGTTCAAGC
172619 TTGAGCTCGGTTCAAGC
1 TTGAGCTCGGTTCAAGC
172636 TTGAGCTCGGTTCAAGC
1 TTGAGCTCGGTTCAAGC
*
172653 TTGAACTCGGTTCAAGC
1 TTGAGCTCGGTTCAAGC
172670 T
1 T
172671 CGAATTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.30
Consensus pattern (17 bp):
TTGAGCTCGGTTCAAGC
Found at i:173209 original size:2 final size:2
Alignment explanation
Indices: 173202--173237 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
173192 CAATAACAAC
173202 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
173238 GACGAAATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:173300 original size:2 final size:2
Alignment explanation
Indices: 173293--173317 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
173283 ATATAACTTT
173293 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
173318 TTAGTAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:174138 original size:35 final size:35
Alignment explanation
Indices: 174087--174198 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
174077 AAAATAGTCC
* *
174087 TCAATTTCATTATAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
* *
174122 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
** * * *
174157 TCAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
174192 TCAATTT
1 TCAATTT
174199 AAGGTTTAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
Found at i:174262 original size:35 final size:35
Alignment explanation
Indices: 174194--174268 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
174184 AAAATACTTC
* * *
174194 AATTTAAGGTTTAGAATGTAATTGAATTATTTTGG
1 AATTTAAGGTTTAGAATGAAATTGAAGTATTTTGA
*
174229 AATTTAAGGTTTAGAATGAAATT-AAGGTGTTTTGA
1 AATTTAAGGTTTAGAATGAAATTGAA-GTATTTTGA
174264 AATTT
1 AATTT
174269 TGAACATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 33 0.94
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTGAAGTATTTTGA
Found at i:183783 original size:35 final size:30
Alignment explanation
Indices: 183758--183889 Score: 177
Period size: 28 Copynumber: 4.4 Consensus size: 30
183748 AACACTGAAG
183758 AAGATATTACAAAAATTAACAGCAAAACACTGAA
1 AAGATATTACAAAAATTAACAGCAAAA-A---AA
183792 GAAGATATTACAAAAATTAACAGC--AAAAA
1 -AAGATATTACAAAAATTAACAGCAAAAAAA
183821 AAGATATTACAAAAATTAACAGC--AAAAA
1 AAGATATTACAAAAATTAACAGCAAAAAAA
183849 AAGATATTACAAAAATTAACAGC--AAAAA
1 AAGATATTACAAAAATTAACAGCAAAAAAA
183877 AAGATATTACAAA
1 AAGATATTACAAA
183890 GATGAGGGGA
Statistics
Matches: 97, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
28 69 0.71
29 2 0.02
32 1 0.01
33 2 0.02
35 23 0.24
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.18
Consensus pattern (30 bp):
AAGATATTACAAAAATTAACAGCAAAAAAA
Found at i:183824 original size:28 final size:28
Alignment explanation
Indices: 183793--183889 Score: 194
Period size: 28 Copynumber: 3.5 Consensus size: 28
183783 AACACTGAAG
183793 AAGATATTACAAAAATTAACAGCAAAAA
1 AAGATATTACAAAAATTAACAGCAAAAA
183821 AAGATATTACAAAAATTAACAGCAAAAA
1 AAGATATTACAAAAATTAACAGCAAAAA
183849 AAGATATTACAAAAATTAACAGCAAAAA
1 AAGATATTACAAAAATTAACAGCAAAAA
183877 AAGATATTACAAA
1 AAGATATTACAAA
183890 GATGAGGGGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.64, C:0.10, G:0.07, T:0.19
Consensus pattern (28 bp):
AAGATATTACAAAAATTAACAGCAAAAA
Found at i:187712 original size:29 final size:29
Alignment explanation
Indices: 187680--187788 Score: 182
Period size: 29 Copynumber: 3.8 Consensus size: 29
187670 ATACGTCCGG
187680 CGTCCTTATAGGTCGCCATGCAAGCCCGA
1 CGTCCTTATAGGTCGCCATGCAAGCCCGA
** * *
187709 CGTCCTTATAGGTCGCCATATACGCCCGG
1 CGTCCTTATAGGTCGCCATGCAAGCCCGA
187738 CGTCCTTATAGGTCGCCATGCAAGCCCGA
1 CGTCCTTATAGGTCGCCATGCAAGCCCGA
187767 CGTCCTTATAGGTCGCCATGCA
1 CGTCCTTATAGGTCGCCATGCA
187789 CACCGGTCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.19, C:0.34, G:0.24, T:0.23
Consensus pattern (29 bp):
CGTCCTTATAGGTCGCCATGCAAGCCCGA
Found at i:187748 original size:58 final size:58
Alignment explanation
Indices: 187658--187785 Score: 247
Period size: 58 Copynumber: 2.2 Consensus size: 58
187648 ACGAACCACC
*
187658 ATAGGTCGCCATATACGTCCGGCGTCCTTATAGGTCGCCATGCAAGCCCGACGTCCTT
1 ATAGGTCGCCATATACGCCCGGCGTCCTTATAGGTCGCCATGCAAGCCCGACGTCCTT
187716 ATAGGTCGCCATATACGCCCGGCGTCCTTATAGGTCGCCATGCAAGCCCGACGTCCTT
1 ATAGGTCGCCATATACGCCCGGCGTCCTTATAGGTCGCCATGCAAGCCCGACGTCCTT
187774 ATAGGTCGCCAT
1 ATAGGTCGCCAT
187786 GCACACCGGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 69 1.00
ACGTcount: A:0.20, C:0.33, G:0.24, T:0.23
Consensus pattern (58 bp):
ATAGGTCGCCATATACGCCCGGCGTCCTTATAGGTCGCCATGCAAGCCCGACGTCCTT
Found at i:199994 original size:495 final size:487
Alignment explanation
Indices: 199064--200046 Score: 1878
Period size: 495 Copynumber: 2.0 Consensus size: 487
199054 ACATTGCCTT
199064 CAATGCCATGGCAGAAATCACGAGTGTTGAAGCAATTACAGGCCATGAAGCAATCTCCATAATGA
1 CAATGCCATGGCAGAAATCACGAGTGTTGAAGCAATTACAGGCCATGAAGCAATCTCCATAATGA
199129 AGGGAATTTTCTCCGTCCTGATTAAGTGGTAATCAGGGTCTGCATCAGAAGCCCTTCAATGAAAT
66 AGGGAATTTTCTCCGTCCTGATTAAGTGGTAATCAGGGTCTGCATCAGAAGCCCTTCAATGAAAT
199194 AAGCTGACGGAAGAAAGTTGAACTCAACTGGCTACCAGAACTGTAATAAACCAGACAAACAAAAG
131 AAGCTGACGGAAGAAAGTTGAACTCAACTGGCTACCAGAACTGTAATAAACCAGACAAACAAAAG
199259 AGTGGCTACATCACAGAGTGGCAGACGGGACCGTTCCAAGGATGAACATCGGCAAACCTTTGGTA
196 AGTGGCTACATCACAGAGTGGCAGACGGGACCGTTCCAAGGATGAACATCGGCAAACCTTTGGTA
199324 GACCATTTTGTGGAATTCTGACATAATCTTCTTCCATTTTGTCCCATGGAATGCAATCTGACCTA
261 GACCATTTTGTGGAATTCTGACATAATCTTCTTCCATTTTGTCCCATGGAATGCAATCTGACCTA
199389 CACTATACAAGAAGTTCTGCACAAGGAGTTGCTTCGGGGTCAATGGCTCAAATCTGAGTAAAAGT
326 CACTATACAAGAAGTTCTGCACAAGGAGTTGCTTCGGGGTCAATGGCTCAAATCTGAGTAAAAGT
199454 GTTGCAATGAAGAGTGAAAGAACGCTCCTAGATTAGCAAATGACTGAAAGTTTAATGTATTTCAT
391 GTTGCAATGAAGAGTGAAAGAACGCTCCTAGATTAGCAAATGACTGAAAGTTTAATGTATTTCAT
199519 TGTGTTGCCGAATGTGAGACGACCTTGCTCAA
456 TGTGTTGCCGAATGTGAGACGACCTTGCTCAA
199551 CAATGCCAATGGCAGAAATCACGAGTGTTGAAGCAATTACAGGCCATGAAGCAATCTCCATAATG
1 CAATGCC-ATGGCAGAAATCACGAGTGTTGAAGCAATTACAGGCCATGAAGCAATCTCCATAATG
199616 AAGGGAATTTTCTCCGTCCTGATTAAGTGGTAAATCAGGGTCTGCATCAGAAGCCCTTCAATGAA
65 AAGGGAATTTTCTCCGTCCTGATTAAGTGGT-AATCAGGGTCTGCATCAGAAGCCCTTCAATGAA
199681 ATAAGCTGAACGGAAGAAAGTTGAACTCAACTGGCTACCAGAACTGTAATAAAACCAGACAAACA
129 ATAAGCTG-ACGGAAGAAAGTTGAACTCAACTGGCTACCAGAACTGTAAT-AAACCAGACAAACA
199746 AAAGAGTGGCTACATCACAGAGTGTGCAGACGGGACCGTTCCATAGGATGAACATCGGCAAACCT
192 AAAGAGTGGCTACATCACAGAGTG-GCAGACGGGACCGTTCCA-AGGATGAACATCGGCAAACCT
199811 TTGGTAGACCATTTTTGTGGAATTCTGACATAATCTTCTTCCATTTTGTCCCATGGAATTGCAAT
255 TTGGTAGACCA-TTTTGTGGAATTCTGACATAATCTTCTTCCATTTTGTCCCATGGAA-TGCAAT
199876 CTGACCTACACTATACAAGAAGTTCTGCACAAGGAGTTGCTTCGGGGTCAATGGCTCAAATCTGA
318 CTGACCTACACTATACAAGAAGTTCTGCACAAGGAGTTGCTTCGGGGTCAATGGCTCAAATCTGA
199941 GTAAAAGTGTTGCAATGAAGAGTGAAAGAACGCTCCCTAGATTAGC-AATGACTGAAAGTTTAAT
383 GTAAAAGTGTTGCAATGAAGAGTGAAAGAACGCT-CCTAGATTAGCAAATGACTGAAAGTTTAAT
200005 GTATTTCATTGTGTTGCCGAATGTGAGACGACCTTGCTCAA
447 GTATTTCATTGTGTTGCCGAATGTGAGACGACCTTGCTCAA
200046 C
1 C
200047 TCCGGCAACA
Statistics
Matches: 487, Mismatches: 0, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
487 7 0.01
488 88 0.18
489 41 0.08
490 41 0.08
491 38 0.08
492 18 0.04
493 32 0.07
494 46 0.09
495 165 0.34
496 11 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (487 bp):
CAATGCCATGGCAGAAATCACGAGTGTTGAAGCAATTACAGGCCATGAAGCAATCTCCATAATGA
AGGGAATTTTCTCCGTCCTGATTAAGTGGTAATCAGGGTCTGCATCAGAAGCCCTTCAATGAAAT
AAGCTGACGGAAGAAAGTTGAACTCAACTGGCTACCAGAACTGTAATAAACCAGACAAACAAAAG
AGTGGCTACATCACAGAGTGGCAGACGGGACCGTTCCAAGGATGAACATCGGCAAACCTTTGGTA
GACCATTTTGTGGAATTCTGACATAATCTTCTTCCATTTTGTCCCATGGAATGCAATCTGACCTA
CACTATACAAGAAGTTCTGCACAAGGAGTTGCTTCGGGGTCAATGGCTCAAATCTGAGTAAAAGT
GTTGCAATGAAGAGTGAAAGAACGCTCCTAGATTAGCAAATGACTGAAAGTTTAATGTATTTCAT
TGTGTTGCCGAATGTGAGACGACCTTGCTCAA
Found at i:208145 original size:60 final size:59
Alignment explanation
Indices: 208081--208211 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 59
208071 GAATTAAAAT
* * *
208081 ATATTCAAAAGTCT-GATGACTAATTTAAAAAAATAATCATAGTTTGAGGATGAAATTGGA
1 ATATTCAAAAGTCTGGA-GAATAATTTAAAAAAAGAATCATAG-TTGAGGATGAAATTAGA
* * *
208141 ATATTCAAAAGTCTGGAGAATAATTTTAAAAAAGGATCATAGTTGAGGATGCAATTAGA
1 ATATTCAAAAGTCTGGAGAATAATTTAAAAAAAGAATCATAGTTGAGGATGAAATTAGA
* *
208200 ATGTTCACAAGT
1 ATATTCAAAAGT
208212 TTAAAGACTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 25 0.40
60 35 0.56
61 2 0.03
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (59 bp):
ATATTCAAAAGTCTGGAGAATAATTTAAAAAAAGAATCATAGTTGAGGATGAAATTAGA
Found at i:219145 original size:29 final size:29
Alignment explanation
Indices: 219113--219174 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
219103 TTAATTTAAA
* * **
219113 AAAATAAAATTATTTTAAATTTTAAATAT
1 AAAATAAAAATATTTAAAAGATTAAATAT
219142 AAAATAAAAATATTTAAAAGATTAAATAT
1 AAAATAAAAATATTTAAAAGATTAAATAT
219171 AAAA
1 AAAA
219175 CTACTAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATAAAAATATTTAAAAGATTAAATAT
Found at i:219156 original size:22 final size:23
Alignment explanation
Indices: 219131--219174 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
219121 ATTATTTTAA
* *
219131 ATTTTAAATATAAAATA-AAAAT
1 ATTTAAAAGATAAAATATAAAAT
*
219153 ATTTAAAAGATTAAATATAAAA
1 ATTTAAAAGATAAAATATAAAA
219175 CTACTAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATTTAAAAGATAAAATATAAAAT
Found at i:229000 original size:5 final size:5
Alignment explanation
Indices: 228990--229015 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
228980 TCTGTCTCAT
228990 CAAAA CAAAA CAAAA CAAAA CAAAA C
1 CAAAA CAAAA CAAAA CAAAA CAAAA C
229016 TCTGTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:235862 original size:24 final size:24
Alignment explanation
Indices: 235835--235884 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
235825 AGCTACCCCC
235835 ACACCGACACCAACGCCAACACCG
1 ACACCGACACCAACGCCAACACCG
* * * *
235859 ACACCGTCTCCATCGCCAACCCCG
1 ACACCGACACCAACGCCAACACCG
235883 AC
1 AC
235885 TCCGTCTCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.52, G:0.12, T:0.06
Consensus pattern (24 bp):
ACACCGACACCAACGCCAACACCG
Found at i:235889 original size:24 final size:24
Alignment explanation
Indices: 235848--235894 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
235838 CCGACACCAA
235848 CGCCAACACCGACACCGTCTCCAT
1 CGCCAACACCGACACCGTCTCCAT
* *
235872 CGCCAACCCCGACTCCGTCTCCA
1 CGCCAACACCGACACCGTCTCCA
235895 ACACCATCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.53, G:0.13, T:0.13
Consensus pattern (24 bp):
CGCCAACACCGACACCGTCTCCAT
Found at i:236395 original size:2 final size:2
Alignment explanation
Indices: 236388--236420 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
236378 CTGTTACGTT
236388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
236421 TTTATCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:239014 original size:16 final size:16
Alignment explanation
Indices: 238993--239026 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
238983 AACCATTCTT
238993 TTAAACATTAAAGCGC
1 TTAAACATTAAAGCGC
239009 TTAAACATTAAAGCGC
1 TTAAACATTAAAGCGC
239025 TT
1 TT
239027 CAAAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (16 bp):
TTAAACATTAAAGCGC
Found at i:239036 original size:16 final size:16
Alignment explanation
Indices: 238993--239036 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
238983 AACCATTCTT
*
238993 TTAAACATTAAAGCGC
1 TTAAACAGTAAAGCGC
*
239009 TTAAACATTAAAGCGC
1 TTAAACAGTAAAGCGC
239025 TTCAAA-AGTAAA
1 TT-AAACAGTAAA
239037 TCAAGTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (16 bp):
TTAAACAGTAAAGCGC
Found at i:239117 original size:27 final size:27
Alignment explanation
Indices: 239056--239117 Score: 63
Period size: 27 Copynumber: 2.2 Consensus size: 27
239046 AATTAATATA
* *
239056 ATATTAAAATATTAATGGTTAAATTTTT
1 ATATT-AAATATTAAAGATTAAATTTTT
*
239084 AGAATTAAA-ATTAAAGATTAAATTTATT
1 A-TATTAAATATTAAAGATTAAATTT-TT
239112 ATATTA
1 ATATTA
239118 TTGTTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
27 18 0.64
28 7 0.25
29 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (27 bp):
ATATTAAATATTAAAGATTAAATTTTT
Found at i:239236 original size:127 final size:127
Alignment explanation
Indices: 239009--239258 Score: 464
Period size: 127 Copynumber: 2.0 Consensus size: 127
238999 ATTAAAGCGC
239009 TTAAACATTAAAGCGCTTCAAAAGTAAATCAAGTTTAAATTAATATAATATTAAAATATTAATGG
1 TTAAACATTAAAGCGCTTCAAAAGTAAATCAAGTTTAAATTAATATAATATTAAAATATTAATGG
239074 TTAAATTTTTAGAATTAAAATTAAAGATTAAATTTATTATATTATTGTTTTTATTATTATTT
66 TTAAATTTTTAGAATTAAAATTAAAGATTAAATTTATTATATTATTGTTTTTATTATTATTT
* * *
239136 TTAAACATTAAGGCGCTTCAAAAGTAGATCAAGTTTAAATTAATGTAATATTAAAATATTAATGG
1 TTAAACATTAAAGCGCTTCAAAAGTAAATCAAGTTTAAATTAATATAATATTAAAATATTAATGG
*
239201 TTAAATTTTTAGAATTAAAATTAAAGATTATATTTATTATATTATTGTTTTTATTATT
66 TTAAATTTTTAGAATTAAAATTAAAGATTAAATTTATTATATTATTGTTTTTATTATT
239259 TATTATTATT
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 119 1.00
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (127 bp):
TTAAACATTAAAGCGCTTCAAAAGTAAATCAAGTTTAAATTAATATAATATTAAAATATTAATGG
TTAAATTTTTAGAATTAAAATTAAAGATTAAATTTATTATATTATTGTTTTTATTATTATTT
Found at i:239264 original size:19 final size:20
Alignment explanation
Indices: 239234--239271 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
239224 AAGATTATAT
*
239234 TTATTATATTATTGTTTTTA
1 TTATTATATTATTATTTTTA
239254 TTATT-TATTATTATTTTT
1 TTATTATATTATTATTTTT
239272 TAAACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTATTATATTATTATTTTTA
Found at i:241492 original size:77 final size:77
Alignment explanation
Indices: 241365--241520 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 77
241355 TTTTTTTATT
241365 TGGGTTTGTTTGTCTGCATCGAATAATCTAGTATGAATGCTCTAGATTGGTGGATTGTGTTTGCA
1 TGGGTTTGTTTGTCTGCATCGAATAATCTAGTATGAATGCTCTAGATTGGTGGATTGTGTTTGCA
*
241430 TCACAAGCGTCG
66 TCACAAGAGTCG
* *
241442 TGGGTTTGTTTGTCTGCATCGAATAGTCTAGTATGAATGCTCTAGATTGGTGGCTTGTGTTTGCA
1 TGGGTTTGTTTGTCTGCATCGAATAATCTAGTATGAATGCTCTAGATTGGTGGATTGTGTTTGCA
241507 TCACAAGAGTCG
66 TCACAAGAGTCG
241519 TG
1 TG
241521 TCAAAATGCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.38
Consensus pattern (77 bp):
TGGGTTTGTTTGTCTGCATCGAATAATCTAGTATGAATGCTCTAGATTGGTGGATTGTGTTTGCA
TCACAAGAGTCG
Found at i:243820 original size:26 final size:27
Alignment explanation
Indices: 243781--243833 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
243771 ATTTTATATC
* *
243781 AGAGAAGCAAACTTTTAAAATTTTAGG
1 AGAGAAGCAAACTTATAAAATTATAGG
243808 AGAGAA-CAAACTTATAAAATTATAGG
1 AGAGAAGCAAACTTATAAAATTATAGG
243834 GGTGAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (27 bp):
AGAGAAGCAAACTTATAAAATTATAGG
Found at i:247987 original size:79 final size:79
Alignment explanation
Indices: 247856--248015 Score: 284
Period size: 79 Copynumber: 2.0 Consensus size: 79
247846 TGGGTGTTTG
*
247856 AGAATACTGTAAATCAGAGTCCCTAAAAATATATGTTAAAATAAGGAGGAGATAGAGGCAGAAAG
1 AGAATACTGTAAATCAGAGGCCCTAAAAATATATGTTAAAATAAGGAGGAGATAGAGGCAGAAAG
247921 AGATGTATATTAAA
66 AGATGTATATTAAA
* * *
247935 AGAATATTGTAAATCAGAGGCCCTAAAAATATATGTTAAAATGAGGAGGAGATAGAGGCGGAAAG
1 AGAATACTGTAAATCAGAGGCCCTAAAAATATATGTTAAAATAAGGAGGAGATAGAGGCAGAAAG
248000 AGATGTATATTAAA
66 AGATGTATATTAAA
248014 AG
1 AG
248016 TCTCTCCGTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.23
Consensus pattern (79 bp):
AGAATACTGTAAATCAGAGGCCCTAAAAATATATGTTAAAATAAGGAGGAGATAGAGGCAGAAAG
AGATGTATATTAAA
Found at i:255047 original size:26 final size:26
Alignment explanation
Indices: 255011--255060 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
255001 TAGTGGAGTA
255011 ACTAATTCAGCATGTTCTACATACTC
1 ACTAATTCAGCATGTTCTACATACTC
255037 ACTAATTCAGCATGTTCTACATAC
1 ACTAATTCAGCATGTTCTACATAC
255061 ACTTTTCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (26 bp):
ACTAATTCAGCATGTTCTACATACTC
Found at i:258377 original size:2 final size:2
Alignment explanation
Indices: 258370--258402 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
258360 AGTATGAACT
258370 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
258403 CAGAAAACCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:260232 original size:30 final size:30
Alignment explanation
Indices: 260198--260259 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
260188 TTTGGGTAAA
* * *
260198 AATTTAACTAAAATTTCATTTTGGTCCTCG
1 AATTTAACTAAAATTCCAATTTAGTCCTCG
*
260228 AATTTAATTAAAATTCCAATTTAGTCCTCG
1 AATTTAACTAAAATTCCAATTTAGTCCTCG
260258 AA
1 AA
260260 ATTTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.40
Consensus pattern (30 bp):
AATTTAACTAAAATTCCAATTTAGTCCTCG
Found at i:260578 original size:32 final size:32
Alignment explanation
Indices: 260537--260605 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
260527 TGTATTCTAC
* *
260537 TACTTATTTAATTAGGAGATTAGTTAGAATAT
1 TACTAATTTAATTAGGAGATTAGATAGAATAT
* *
260569 TACTAATTTAATTAGGTGATTAGATAGGATAT
1 TACTAATTTAATTAGGAGATTAGATAGAATAT
260601 TACTA
1 TACTA
260606 CTACTTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (32 bp):
TACTAATTTAATTAGGAGATTAGATAGAATAT
Found at i:284450 original size:27 final size:25
Alignment explanation
Indices: 284403--284464 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
284393 CAAATTAATA
*
284403 AAAAAAATAACTAATTTAATTTGATC
1 AAAAAATTAACTAATTTAATTT-ATC
*
284429 ATAAAAATTAA-TAATTTAAATTTATT
1 A-AAAAATTAACTAATTT-AATTTATC
284455 AAAAAATTAA
1 AAAAAATTAA
284465 AATGATTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 9 0.28
26 10 0.31
27 13 0.41
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAAAATTAACTAATTTAATTTATC
Found at i:286954 original size:24 final size:24
Alignment explanation
Indices: 286927--286975 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
286917 TATTATAGTT
*
286927 CTTTTCATCGTCAGAAGAAGAGAG
1 CTTTTCATCATCAGAAGAAGAGAG
**
286951 CTTTTCATCATCATCAGAAGAGAG
1 CTTTTCATCATCAGAAGAAGAGAG
286975 C
1 C
286976 GCTCTTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (24 bp):
CTTTTCATCATCAGAAGAAGAGAG
Found at i:286987 original size:24 final size:26
Alignment explanation
Indices: 286932--286987 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
286922 TAGTTCTTTT
* *
286932 CATCGTCAGAAGAAGAGAGCTTTTCA
1 CATCATCAGAAGAAGAGAGCTCTTCA
*
286958 TCATCATCAGAAG-AGAGCGCTCTTCA
1 -CATCATCAGAAGAAGAGAGCTCTTCA
286984 -ATCA
1 CATCA
286988 CCTATTAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
26 11 0.42
27 11 0.42
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (26 bp):
CATCATCAGAAGAAGAGAGCTCTTCA
Found at i:286987 original size:27 final size:27
Alignment explanation
Indices: 286931--286983 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
286921 ATAGTTCTTT
* *
286931 TCATCGTCAGAAGAAGAGAGCTTTTCA
1 TCATCATCAGAAGAAGAGAGCTCTTCA
*
286958 TCATCATCAGAAG-AGAGCGCTCTTCA
1 TCATCATCAGAAGAAGAGAGCTCTTCA
286984 ATCACCTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (27 bp):
TCATCATCAGAAGAAGAGAGCTCTTCA
Found at i:288693 original size:12 final size:12
Alignment explanation
Indices: 288676--288700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
288666 ATATTTTTAA
288676 TAAAATATTATT
1 TAAAATATTATT
288688 TAAAATATTATT
1 TAAAATATTATT
288700 T
1 T
288701 TTATCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:288763 original size:33 final size:33
Alignment explanation
Indices: 288726--288790 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
288716 ATATTAGACG
288726 TTACTTAAAATATTTAAAATTTTCGGTAAAACT
1 TTACTTAAAATATTTAAAATTTTCGGTAAAACT
* *
288759 TTACTTAAAATGTTTAATATTTTCGGTAAAAC
1 TTACTTAAAATATTTAAAATTTTCGGTAAAAC
288791 GTTGCCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (33 bp):
TTACTTAAAATATTTAAAATTTTCGGTAAAACT
Found at i:288801 original size:33 final size:33
Alignment explanation
Indices: 288723--288801 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
288713 TTAATATTAG
*
288723 ACGTTACTTAAAATATTTAAAATTTTCGGTAAA
1 ACGTTACCTAAAATATTTAAAATTTTCGGTAAA
* * * *
288756 ACTTTACTTAAAATGTTTAATATTTTCGGTAAA
1 ACGTTACCTAAAATATTTAAAATTTTCGGTAAA
*
288789 ACGTTGCCTAAAA
1 ACGTTACCTAAAA
288802 CATTATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (33 bp):
ACGTTACCTAAAATATTTAAAATTTTCGGTAAA
Found at i:289575 original size:19 final size:19
Alignment explanation
Indices: 289551--289603 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
289541 ACTAACAAAA
289551 TCGCAATGCGATCTCTAAT
1 TCGCAATGCGATCTCTAAT
*
289570 TCGCAATGTGATCTCTAAT
1 TCGCAATGCGATCTCTAAT
*
289589 TCGCATTGCGATCTC
1 TCGCAATGCGATCTC
289604 CACTATCGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (19 bp):
TCGCAATGCGATCTCTAAT
Found at i:289645 original size:20 final size:20
Alignment explanation
Indices: 289616--289733 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
289606 CTATCGCAAA
*
289616 TTCGCATTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
* ** *
289636 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGAT-TTTCCAT
*
289657 ATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
* ** *
289677 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGAT-TTTCCAT
* * *
289698 ATCGCGTTACGATTTTTCAT
1 TTCGCGTTGCGATTTTCCAT
*
289718 TTCGCGTCGCGATTTT
1 TTCGCGTTGCGATTTT
289734 ACAAATTCGT
Statistics
Matches: 72, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 43 0.60
21 29 0.40
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCCAT
Found at i:289663 original size:21 final size:21
Alignment explanation
Indices: 289637--289710 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
289627 ATTTTCCATT
289637 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
289658 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
289678 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
289699 TCGCGTTACGAT
1 TCGCGTTGCGAT
289711 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.37
21 26 0.63
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:289679 original size:41 final size:41
Alignment explanation
Indices: 289617--289730 Score: 192
Period size: 41 Copynumber: 2.8 Consensus size: 41
289607 TATCGCAAAT
*
289617 TCGCATTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
289658 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* * *
289699 TCGCGTTACGATTTTTCATTTCGCGTCGCGAT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
289731 TTTACAAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:289877 original size:6 final size:6
Alignment explanation
Indices: 289866--289898 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
289856 AGACACGTAT
289866 GACCAC GACCAC GACCAC GACCAC GACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
289899 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.30, C:0.52, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:290761 original size:2 final size:2
Alignment explanation
Indices: 290754--290779 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
290744 TTGATTATTG
290754 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
290780 CTCGCTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:295521 original size:61 final size:61
Alignment explanation
Indices: 295447--295570 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
295437 CGTAAATGTC
295447 ATATTTAAACTCGAAACTACTAAGACTAATAACTATTCTTTTAATAACTATTAAGATTTTA
1 ATATTTAAACTCGAAACTACTAAGACTAATAACTATTCTTTTAATAACTATTAAGATTTTA
295508 ATATTTAAACTCGAAACTACTAAGACTAATAACTATTCTTTTAATAACTATTAAGATTTTA
1 ATATTTAAACTCGAAACTACTAAGACTAATAACTATTCTTTTAATAACTATTAAGATTTTA
295569 AT
1 AT
295571 CTGATATAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.40
Consensus pattern (61 bp):
ATATTTAAACTCGAAACTACTAAGACTAATAACTATTCTTTTAATAACTATTAAGATTTTA
Found at i:311721 original size:26 final size:26
Alignment explanation
Indices: 311692--311768 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
311682 TGTGCTAATT
* *
311692 AATATACTTATAATATTAATAATAAG
1 AATATACTTATAATATCAATTATAAG
* *
311718 AATATAGC-TATAACATCAATTATAAT
1 AATATA-CTTATAATATCAATTATAAG
* *
311744 AATAAATTTATAATATCAATTATAA
1 AATATACTTATAATATCAATTATAA
311769 ATATTATAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 41 0.98
27 1 0.02
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (26 bp):
AATATACTTATAATATCAATTATAAG
Found at i:311768 original size:12 final size:12
Alignment explanation
Indices: 311726--311768 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
311716 AGAATATAGC
*
311726 TATAACATCAAT
1 TATAATATCAAT
*
311738 TATAATAATAAATT
1 TATAAT-ATCAA-T
311752 TATAATATCAAT
1 TATAATATCAAT
311764 TATAA
1 TATAA
311769 ATATTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 11 0.42
13 8 0.31
14 7 0.27
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (12 bp):
TATAATATCAAT
Found at i:315709 original size:21 final size:22
Alignment explanation
Indices: 315687--315738 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
315677 TTGGATGCAT
315687 AAAAAGGGCCCCTTGATATATA
1 AAAAAGGGCCCCTTGATATATA
*
315709 AAAAAGGG-TCCTTGATATATA
1 AAAAAGGGCCCCTTGATATATA
315730 AAAAAGGGC
1 AAAAAGGGC
315739 ATATAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (22 bp):
AAAAAGGGCCCCTTGATATATA
Found at i:321889 original size:20 final size:21
Alignment explanation
Indices: 321842--321890 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
321832 CCACCAAACC
321842 GAGGAACAAATATAAAAAGTT
1 GAGGAACAAATATAAAAAGTT
* *
321863 TA-TAACAAATAT-AAAAGTT
1 GAGGAACAAATATAAAAAGTT
321882 GAGGAACAA
1 GAGGAACAA
321891 GCGAGGCGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.35
20 14 0.61
21 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.20
Consensus pattern (21 bp):
GAGGAACAAATATAAAAAGTT
Found at i:325147 original size:22 final size:20
Alignment explanation
Indices: 325121--325163 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
325111 CTTTTTCAGG
*
325121 TAATTGGGTTTTAAATACTTAT
1 TAATT-GGTCTTAAAT-CTTAT
*
325143 TAATTTGTCTTAAATCTTAT
1 TAATTGGTCTTAAATCTTAT
325163 T
1 T
325164 CACCAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.53
Consensus pattern (20 bp):
TAATTGGTCTTAAATCTTAT
Found at i:325491 original size:31 final size:31
Alignment explanation
Indices: 325443--325503 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
325433 TTCCATGGAC
325443 GGGGACCATATTGCAAACAGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATGTTG
* *
325474 GGGGGCCATTTTGCAAACAGACTAAATGTT
1 GGGGACCATATTGCAAACAGACTAAATGTT
325504 TGGGACTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATGTTG
Found at i:329059 original size:19 final size:20
Alignment explanation
Indices: 329022--329059 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
329012 AGTTTAAGGT
* *
329022 TAAGAATAAAACTTTACTTG
1 TAAGAATAAAAATTAACTTG
329042 TAAGAA-AAAAATTAACTT
1 TAAGAATAAAAATTAACTT
329060 TGTTTGCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAGAATAAAAATTAACTTG
Found at i:334619 original size:24 final size:23
Alignment explanation
Indices: 334586--334630 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 23
334576 ATTGAAAATC
334586 TTAGTAAGAGGTCTAACTTTTTAAG
1 TTAGTAAGAGG--TAACTTTTTAAG
334611 TTAG-AAGAGGTAACTTTTTA
1 TTAGTAAGAGGTAACTTTTTA
334631 GGTAGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
24 6 0.30
25 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (23 bp):
TTAGTAAGAGGTAACTTTTTAAG
Found at i:336193 original size:2 final size:2
Alignment explanation
Indices: 336186--336219 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
336176 ACATTTCAAC
336186 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
336220 CCTTTAACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:344131 original size:14 final size:15
Alignment explanation
Indices: 344103--344131 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
344093 CCCAGGGTAG
344103 CATGTTGGAGGGCAA
1 CATGTTGGAGGGCAA
344118 CATGTTGG-GGGCAA
1 CATGTTGGAGGGCAA
344132 TTTTCTAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.21
Consensus pattern (15 bp):
CATGTTGGAGGGCAA
Found at i:346776 original size:2 final size:2
Alignment explanation
Indices: 346769--346805 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
346759 AGCGCATTGT
346769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
346806 GGATGAATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:351431 original size:24 final size:24
Alignment explanation
Indices: 351399--351451 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
351389 TGGGAAGATA
351399 GTCTGTGGTTTCTCTTAGAATTGG
1 GTCTGTGGTTTCTCTTAGAATTGG
351423 GTCTGTGGTTTCTCTTAGAATTGG
1 GTCTGTGGTTTCTCTTAGAATTGG
351447 GTCTG
1 GTCTG
351452 GCTTTTTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.11, C:0.13, G:0.30, T:0.45
Consensus pattern (24 bp):
GTCTGTGGTTTCTCTTAGAATTGG
Found at i:352348 original size:162 final size:162
Alignment explanation
Indices: 352071--352408 Score: 651
Period size: 162 Copynumber: 2.1 Consensus size: 162
352061 AGTATGCGGG
* *
352071 TGAAACATTG-ATGAAATTCAAGTTATGTTACATTATTGGTACGCCATTATATAATATGTATGCT
1 TGAAACTTTGAATGAAATTCAAGTTATGTTACATTATTGGTACACCATTATATAATATGTATGCT
352135 GCATATAGTATAGGCCAAGTTCGATGCACTTTTGAGCATGTTTGATATAAGATTTTGACTAATTG
66 GCATATAGTATAGGCCAAGTTCGATGCACTTTTGAGCATGTTTGATATAAGATTTTGACTAATTG
352200 GTGCATATGGTATTGATATCATAGGCTAAATA
131 GTGCATATGGTATTGATATCATAGGCTAAATA
352232 TGAAACTTTGAATGAAATTCAAGTTATGTTACATTATTGGTACACCATTATATAATATGTATGCT
1 TGAAACTTTGAATGAAATTCAAGTTATGTTACATTATTGGTACACCATTATATAATATGTATGCT
352297 GCATATAGTATAGGCCAAGTTCGATGCACTTTTGAGCATGTTTGATATAAGATTTTGACTAATTG
66 GCATATAGTATAGGCCAAGTTCGATGCACTTTTGAGCATGTTTGATATAAGATTTTGACTAATTG
352362 GTGCATATGGTATTGATATCATAGGCTAAATA
131 GTGCATATGGTATTGATATCATAGGCTAAATA
352394 TGAAACTTTGAATGA
1 TGAAACTTTGAATGA
352409 TTATTTGGTA
Statistics
Matches: 174, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
161 9 0.05
162 165 0.95
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (162 bp):
TGAAACTTTGAATGAAATTCAAGTTATGTTACATTATTGGTACACCATTATATAATATGTATGCT
GCATATAGTATAGGCCAAGTTCGATGCACTTTTGAGCATGTTTGATATAAGATTTTGACTAATTG
GTGCATATGGTATTGATATCATAGGCTAAATA
Found at i:355969 original size:57 final size:58
Alignment explanation
Indices: 355860--355972 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 58
355850 CTAATGTAAG
*
355860 AGAAAAATGAATGAAATAAAAAACTCAATTTTAAATTGATATTTCATCAAAAGTTGAA
1 AGAAAAATGAATGAAATAAAAAACTCAAGTTTAAATTGATATTTCATCAAAAGTTGAA
* * * * *
355918 AGAAAAGTGAATGAAAT-AAAGATTCAGGTTTAAATTGATATTTCATTAAAAGTTG
1 AGAAAAATGAATGAAATAAAAAACTCAAGTTTAAATTGATATTTCATCAAAAGTTG
355973 TATTAGAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 33 0.67
58 16 0.33
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (58 bp):
AGAAAAATGAATGAAATAAAAAACTCAAGTTTAAATTGATATTTCATCAAAAGTTGAA
Found at i:357106 original size:16 final size:16
Alignment explanation
Indices: 357082--357112 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
357072 TGTTCGAGTC
357082 AAAAAAATTTAAATAT
1 AAAAAAATTTAAATAT
*
357098 AAAATAATTTAAATA
1 AAAAAAATTTAAATA
357113 AACTATGACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAAAATTTAAATAT
Found at i:364023 original size:17 final size:19
Alignment explanation
Indices: 363981--364018 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
363971 TTGGACCCTT
*
363981 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
*
364000 AGTGCATCGATGCATTAAG
1 AGTGCATCGATGCACTAAG
364019 TGCATTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAG
Found at i:370789 original size:22 final size:21
Alignment explanation
Indices: 370747--370786 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
370737 GAGTTTATTT
*
370747 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
370768 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
370787 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:371250 original size:6 final size:6
Alignment explanation
Indices: 371239--371264 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
371229 TCCAATATTT
371239 TTCTCC TTCTCC TTCTCC TTCTCC TT
1 TTCTCC TTCTCC TTCTCC TTCTCC TT
371265 TGGTGTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
TTCTCC
Found at i:372677 original size:8 final size:8
Alignment explanation
Indices: 372666--372693 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
372656 GCATACCCTA
372666 GGTGCATC
1 GGTGCATC
372674 GGTGCATC
1 GGTGCATC
372682 GGTGCATC
1 GGTGCATC
372690 GGTG
1 GGTG
372694 TAAAATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.43, T:0.25
Consensus pattern (8 bp):
GGTGCATC
Found at i:372768 original size:17 final size:19
Alignment explanation
Indices: 372726--372763 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
372716 TTGGACCCTT
*
372726 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
*
372745 AGTGCATCGATGCATTAAG
1 AGTGCATCGATGCACTAAG
372764 TGCATTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAG
Found at i:372879 original size:65 final size:65
Alignment explanation
Indices: 372745--372905 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 65
372735 GTGCACTAAG
* * * *
372745 AGTGCATCGATGCATTAAGTGCATTCGATG-TTTCAAAATAGCTAGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACAGTGCATCGATGCATGGCT
*
372809 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCT-CAGTGCATCGGTGCATGG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATA-CCTACAGTGCATCGATGCATGG
372872 -T
64 CT
* *
372873 GTGTGCATCGATGCATGAAATGCATTCGATGTT
1 -AGTGCATCGATGCATCAAATGCATTCGATGTT
372906 CAATTTAATT
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 29 0.34
65 52 0.60
66 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACAGTGCATCGATGCATGGCT
Found at i:372944 original size:65 final size:63
Alignment explanation
Indices: 372746--372955 Score: 194
Period size: 65 Copynumber: 3.3 Consensus size: 63
372736 TGCACTAAGA
* * * ** *
372746 GTGCATCGATGCATTAAGTGCATTCGATGTTTCAAAATAGCT-AGAGTGCATCGATGCATGGCTA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCAT-GCTG
* * *
372810 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGCT
372873 G
63 G
* * *
372874 TGTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATTGAT
1 -GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCA-TG-C
372938 TG
62 TG
*
372940 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
372956 CACTAAAAAT
Statistics
Matches: 120, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 49 0.41
65 61 0.51
66 3 0.03
67 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGCTG
Found at i:384012 original size:65 final size:65
Alignment explanation
Indices: 383930--384062 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 65
383920 TAAATTTGGT
*
383930 AATTATAATCGATAAATTAATTTTTTAATATATATTATCTTGTAATTACTCGTTATATCATATTA
1 AATTATAATAGATAAATTAATTTTTTAATATATATTATCTTGTAATTACTCGTTATATCATATTA
383995 AATTATAATAGATAAATTAATTTTTTAATATATATTATCTTGTAATTACTCGTTATATCATATTA
1 AATTATAATAGATAAATTAATTTTTTAATATATATTATCTTGTAATTACTCGTTATATCATATTA
384060 AAT
1 AAT
384063 GATTTTAACA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (65 bp):
AATTATAATAGATAAATTAATTTTTTAATATATATTATCTTGTAATTACTCGTTATATCATATTA
Done.