Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003661.1 Hibiscus syriacus cultivar Beakdansim tig00007796_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: 117694
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:4443 original size:18 final size:18
Alignment explanation
Indices: 4420--4456 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4410 GTTCTTAAGG
*
4420 AGTGGTCTTTCAGGACAT
1 AGTGGTCCTTCAGGACAT
*
4438 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCAGGACAT
4456 A
1 A
4457 TGCGTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:4503 original size:23 final size:23
Alignment explanation
Indices: 4469--4528 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
4459 CGTTATATGT
*
4469 GGTCATTCGGGACATTTCTACGC
1 GGTCATTCGGGACATTTCTACAC
* *
4492 GGTCCTTTGGGACATTTCTACAC
1 GGTCATTCGGGACATTTCTACAC
4515 GGTCATTCGGGACA
1 GGTCATTCGGGACA
4529 AAGTCTAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (23 bp):
GGTCATTCGGGACATTTCTACAC
Found at i:11632 original size:24 final size:24
Alignment explanation
Indices: 11580--11639 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
11570 TTCTGTTATA
*
11580 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
* *
11604 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
*
11628 ATACTTAACCTG
1 ATACTTGACCTG
11640 AATTATGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:11653 original size:24 final size:24
Alignment explanation
Indices: 11587--11646 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
11577 ATAATACCTG
* * * *
11587 ACCTGGATTCTGATCGGATACTTG
1 ACCTGAATTATGATCTGATACTTA
* *
11611 ACCTGGATTTTGATCTGATACTTA
1 ACCTGAATTATGATCTGATACTTA
11635 ACCTGAATTATG
1 ACCTGAATTATG
11647 TTTTGATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
ACCTGAATTATGATCTGATACTTA
Found at i:16174 original size:24 final size:25
Alignment explanation
Indices: 16147--16210 Score: 96
Period size: 24 Copynumber: 2.6 Consensus size: 25
16137 TTCTGTTATA
*
16147 ATACCTGACCTGGATTCTGATC-GG
1 ATACTTGACCTGGATTCTGATCTGG
*
16171 ATACTTGACCTGGATTTTGATCTGG
1 ATACTTGACCTGGATTCTGATCTGG
16196 -TACTTGACCTGGATT
1 ATACTTGACCTGGATT
16211 ATATTTTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 35 0.95
25 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (25 bp):
ATACTTGACCTGGATTCTGATCTGG
Found at i:16340 original size:35 final size:35
Alignment explanation
Indices: 16293--16390 Score: 169
Period size: 35 Copynumber: 2.8 Consensus size: 35
16283 ACCTGGAGGG
16293 TCCTCGGCTTTGTGCTCAGGGCCTTACTTACCAGC
1 TCCTCGGCTTTGTGCTCAGGGCCTTACTTACCAGC
* *
16328 TCCTCGGGTTTGTGCTCAGGACCTTACTTACCAGC
1 TCCTCGGCTTTGTGCTCAGGGCCTTACTTACCAGC
*
16363 TCCTCAGCTTTGTGCTCAGGGCCTTACT
1 TCCTCGGCTTTGTGCTCAGGGCCTTACT
16391 GGACTTGACG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.12, C:0.33, G:0.22, T:0.33
Consensus pattern (35 bp):
TCCTCGGCTTTGTGCTCAGGGCCTTACTTACCAGC
Found at i:17866 original size:18 final size:18
Alignment explanation
Indices: 17843--17879 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17833 GTTATTAAGG
* *
17843 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGAACAT
17861 AGTGGTCATTCGGAACAT
1 AGTGGTCATTCGGAACAT
17879 A
1 A
17880 TGTGTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (18 bp):
AGTGGTCATTCGGAACAT
Found at i:21141 original size:20 final size:20
Alignment explanation
Indices: 21114--21159 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
21104 CTATTTTTTT
* *
21114 CAAAAAAAAAACAAAAAAAGG
1 CAAAAAAAAAA-ACAAAAAGC
21135 CAAAAAAAAAAACAAAAAGC
1 CAAAAAAAAAAACAAAAAGC
21155 CAAAA
1 CAAAA
21160 TTTCAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.80, C:0.13, G:0.07, T:0.00
Consensus pattern (20 bp):
CAAAAAAAAAAACAAAAAGC
Found at i:25810 original size:10 final size:10
Alignment explanation
Indices: 25795--25829 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
25785 TTTTTTTCAA
25795 AAAAAAAAAC
1 AAAAAAAAAC
**
25805 AAAAAAAGGC
1 AAAAAAAAAC
25815 AAAAAAAAAC
1 AAAAAAAAAC
25825 AAAAA
1 AAAAA
25830 GCCAAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.86, C:0.09, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:25820 original size:18 final size:18
Alignment explanation
Indices: 25795--25836 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
25785 TTTTTTTCAA
*
25795 AAAAAAAAACAAAAAAAGGC
1 AAAAAAAAAC--AAAAAGCC
25815 AAAAAAAAACAAAAAGCC
1 AAAAAAAAACAAAAAGCC
25833 AAAA
1 AAAA
25837 TTTCAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
20 10 0.48
ACGTcount: A:0.81, C:0.12, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAAAAGCC
Found at i:30516 original size:19 final size:19
Alignment explanation
Indices: 30490--30533 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
30480 TTTTTTCAAA
*
30490 AAAAAAAAAACAAAAAAAGGC
1 AAAAAAAAAAC--AAAAAGCC
30511 AAAAAAAAAACAAAAAGCC
1 AAAAAAAAAACAAAAAGCC
30530 AAAA
1 AAAA
30534 TTTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.82, C:0.11, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAGCC
Found at i:35209 original size:19 final size:19
Alignment explanation
Indices: 35183--35226 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35173 CTATTTTTTT
* *
35183 CAAAAAAAAACAAAAAAAGG
1 CAAAAAAAAA-ACAAAAAGC
35203 CAAAAAAAAAACAAAAAGC
1 CAAAAAAAAAACAAAAAGC
35222 CAAAA
1 CAAAA
35227 TTTCAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.80, C:0.14, G:0.07, T:0.00
Consensus pattern (19 bp):
CAAAAAAAAAACAAAAAGC
Found at i:40725 original size:21 final size:21
Alignment explanation
Indices: 40701--40742 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
40691 TATAAACATT
*
40701 TTTATATTTTAGTT-TTTTATA
1 TTTATAATTTA-TTATTTTATA
40722 TTTATAATTTATTATTTTATA
1 TTTATAATTTATTATTTTATA
40743 AATTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTATAATTTATTATTTTATA
Found at i:40747 original size:16 final size:16
Alignment explanation
Indices: 40698--40743 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
40688 CTTTATAAAC
40698 ATTT-TTATATTT-TA
1 ATTTATTATATTTATA
* *
40712 GTTTTTTATATTTATA
1 ATTTATTATATTTATA
40728 ATTTATTAT-TTTATA
1 ATTTATTATATTTATA
40743 A
1 A
40744 ATTTTCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 15 0.56
16 9 0.33
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
ATTTATTATATTTATA
Found at i:40819 original size:37 final size:38
Alignment explanation
Indices: 40740--40821 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
40730 TTATTATTTT
* * * * *
40740 ATAA-ATTTTCAATATTTTCATTTTCATAAAATTTTAT
1 ATAATATTTTCAATATTCTAATTTTAATAAAATTATAG
*
40777 TTAATATTTT-AATATTCTAATTTTAATAAAATTATAG
1 ATAATATTTTCAATATTCTAATTTTAATAAAATTATAG
40814 ATAATATT
1 ATAATATT
40822 AATTAAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
37 32 0.86
38 5 0.14
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.52
Consensus pattern (38 bp):
ATAATATTTTCAATATTCTAATTTTAATAAAATTATAG
Found at i:44315 original size:29 final size:29
Alignment explanation
Indices: 44247--44337 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
44237 TTAACGGAGA
* * *
44247 GTGGTTTGATTGAATCAATTAAAAAGTTTA
1 GTGGTTTGATTGATTCAATT-GAAAGTTTG
* *
44277 GTAGTCTGATTGATTCAATTGAAAGTTTG
1 GTGGTTTGATTGATTCAATTGAAAGTTTG
*
44306 GTGGTTTGATTGATTCAATTGAAAGTTCG
1 GTGGTTTGATTGATTCAATTGAAAGTTTG
44335 GTG
1 GTG
44338 ATCAAATTGA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 36 0.68
30 17 0.32
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.41
Consensus pattern (29 bp):
GTGGTTTGATTGATTCAATTGAAAGTTTG
Found at i:44346 original size:29 final size:29
Alignment explanation
Indices: 44285--44349 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
44275 TAGTAGTCTG
* * ***
44285 ATTGATTCAATTGAAAGTTTGGTGGTTTG
1 ATTGATTCAATTGAAAGTTCGGTGATCAA
44314 ATTGATTCAATTGAAAGTTCGGTGATCAA
1 ATTGATTCAATTGAAAGTTCGGTGATCAA
44343 ATTGATT
1 ATTGATT
44350 TTCGACCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (29 bp):
ATTGATTCAATTGAAAGTTCGGTGATCAA
Found at i:45506 original size:95 final size:95
Alignment explanation
Indices: 45374--45553 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 95
45364 ACAAAGGAAA
* * *
45374 GTATCGATACCATGGATCCAGAATGTCAAAATGGTATCGATA-CTGAAA-GGGAGTATCGATACC
1 GTATCGATACCATGCAACCAGAATATCAAAATGGTATCGATATC-GAAAGGGGAGTATCGATACC
*
45437 ATAGTATAGTAGTATCGATACTGAAAGAAGG
65 ATAGTATAGAAGTATCGATACTGAAAGAAGG
* *
45468 GTATCGATACCATGCAACACAGAATAT-AGAGATGGTATCGATATCGAAAGGGGGGTATCGATAC
1 GTATCGATACCATGCAAC-CAGAATATCA-AAATGGTATCGATATCGAAAGGGGAGTATCGATAC
45532 CATAGTATAGAAGTATCGATAC
64 CATAGTATAGAAGTATCGATAC
45554 CAGAGTAGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
94 17 0.22
95 24 0.32
96 35 0.46
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (95 bp):
GTATCGATACCATGCAACCAGAATATCAAAATGGTATCGATATCGAAAGGGGAGTATCGATACCA
TAGTATAGAAGTATCGATACTGAAAGAAGG
Found at i:45814 original size:45 final size:45
Alignment explanation
Indices: 45762--46130 Score: 535
Period size: 45 Copynumber: 8.1 Consensus size: 45
45752 AACGAATGAA
* *
45762 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
45807 CGAAATAATAATGCATATGGGTGCATTATATGG-ATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATA-GGCATGAAAGGATGC
* * *
45852 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGAATAC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
45897 CAAAATAATAATGCATATGGGTGCATTATAGGCCTGAAAAGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
45942 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
45987 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
46032 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * * *
46077 CACAACTAAAAATGCATGAACGGATGCATTA-AGGCATGAAAGGATGC
1 CA-AAATAATAATGCAT--ATGGGTGCATTATAGGCATGAAAGGATGC
46124 CATAAAT
1 CA-AAAT
46131 GAAATTAACG
Statistics
Matches: 291, Mismatches: 28, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
44 2 0.01
45 246 0.85
46 14 0.05
47 19 0.07
48 10 0.03
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
Found at i:52498 original size:21 final size:21
Alignment explanation
Indices: 52468--52580 Score: 115
Period size: 21 Copynumber: 5.5 Consensus size: 21
52458 TTTGCTGGGT
*
52468 AGTATAGATACTGATTCAATC
1 AGTATCGATACTGATTCAATC
* **
52489 AGTATCGATA-TCG-TTGAGGC
1 AGTATCGATACT-GATTCAATC
52509 AGTATCGATACTGATTCAATC
1 AGTATCGATACTGATTCAATC
* * **
52530 AGTATCGATACCG-TTGAGGC
1 AGTATCGATACTGATTCAATC
52550 AGTATCGATACTGATTCAATC
1 AGTATCGATACTGATTCAATC
*
52571 AATATCGATA
1 AGTATCGATA
52581 TCGTTGAGGC
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
20 32 0.44
21 40 0.56
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (21 bp):
AGTATCGATACTGATTCAATC
Found at i:52513 original size:20 final size:19
Alignment explanation
Indices: 52488--52601 Score: 93
Period size: 20 Copynumber: 5.6 Consensus size: 19
52478 CTGATTCAAT
52488 CAGTATCGATATCGTTGAGG
1 CAGTATCGATA-CGTTGAGG
* **
52508 CAGTATCGATACTGATTCAAT
1 CAGTATCGATAC-G-TTGAGG
52529 CAGTATCGATACCGTTGAGG
1 CAGTATCGATA-CGTTGAGG
* **
52549 CAGTATCGATACTGATTCAAT
1 CAGTATCGATAC-G-TTGAGG
*
52570 CAATATCGATATCGTTGAGG
1 CAGTATCGATA-CGTTGAGG
*
52590 CAATATCGATAC
1 CAGTATCGATAC
52602 CATTAAAAGG
Statistics
Matches: 75, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.04
20 41 0.55
21 29 0.39
22 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (19 bp):
CAGTATCGATACGTTGAGG
Found at i:52519 original size:41 final size:41
Alignment explanation
Indices: 52468--52601 Score: 232
Period size: 41 Copynumber: 3.3 Consensus size: 41
52458 TTTGCTGGGT
*
52468 AGTATAGATACTGATTCAATCAGTATCGATATCGTTGAGGC
1 AGTATCGATACTGATTCAATCAGTATCGATATCGTTGAGGC
*
52509 AGTATCGATACTGATTCAATCAGTATCGATACCGTTGAGGC
1 AGTATCGATACTGATTCAATCAGTATCGATATCGTTGAGGC
*
52550 AGTATCGATACTGATTCAATCAATATCGATATCGTTGAGGC
1 AGTATCGATACTGATTCAATCAGTATCGATATCGTTGAGGC
*
52591 AATATCGATAC
1 AGTATCGATAC
52602 CATTAAAAGG
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (41 bp):
AGTATCGATACTGATTCAATCAGTATCGATATCGTTGAGGC
Found at i:52767 original size:95 final size:96
Alignment explanation
Indices: 52593--52771 Score: 256
Period size: 95 Copynumber: 1.9 Consensus size: 96
52583 GTTGAGGCAA
* ** *
52593 TATCGATACCATTAAAAGGGTATCGATACCAAGCAAACATCGAATTTAATTTTGGTACCGATATC
1 TATCGATACCAATAAAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTACCGATATA
*
52658 GTAAGGGAGTATCGGTACCATAGAAGGGTAG
66 GGAAGGGAGTATCGGTACCATAGAAGGGTAG
* *
52689 TATCGATACCACAT-AAAGGGTATCGATACCATG-AAACATCGAACCTAATTTTGGTATCGATAC
1 TATCGATACCA-ATAAAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTACCGATA-
52752 TAGGAAGGG-GTATCGGTACC
64 TAGGAAGGGAGTATCGGTACC
52772 CTAGTGTAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
95 37 0.50
96 36 0.49
97 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (96 bp):
TATCGATACCAATAAAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTACCGATATA
GGAAGGGAGTATCGGTACCATAGAAGGGTAG
Found at i:52786 original size:95 final size:96
Alignment explanation
Indices: 52593--52792 Score: 246
Period size: 95 Copynumber: 2.1 Consensus size: 96
52583 GTTGAGGCAA
* ** *
52593 TATCGATACCATTAAAAGGGTATCGATACCAAGCAAACATCGAATTTAATTTTGGTACCGATATC
1 TATCGATACCAATAAAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTACCGATATA
* * *
52658 GTAAGGGAGTATCGGTACCATAGAAGGGTAG
66 GGAAGGGAGTATCGGTACCATAGAAGAGAAG
* *
52689 TATCGATACCACAT-AAAGGGTATCGATACCATG-AAACATCGAACCTAATTTTGGTATCGATAC
1 TATCGATACCA-ATAAAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTACCGATA-
* *
52752 TAGGAAGGG-GTATCGGTACCCTAG-TGTAGAAG
64 TAGGAAGGGAGTATCGGTACCATAGAAG-AGAAG
52784 TATCGATAC
1 TATCGATAC
52793 TAGGTAGTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
94 1 0.01
95 52 0.58
96 36 0.40
97 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (96 bp):
TATCGATACCAATAAAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTACCGATATA
GGAAGGGAGTATCGGTACCATAGAAGAGAAG
Found at i:53352 original size:79 final size:79
Alignment explanation
Indices: 53216--53570 Score: 507
Period size: 79 Copynumber: 4.5 Consensus size: 79
53206 ACGAATGAAA
* * *
53216 ATAGATGAAATGTATATGAGTACATTGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTGG
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATGGGTGCATTATTGG
*
53281 CATGAAAGGATGCC
66 CATGAAAAGATGCC
*
53295 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAAAATAATGCATATGGGTGCATTATTGG
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATGGGTGCATTATTGG
*
53360 CATAAAAAGATGCC
66 CATGAAAAGATGCC
* *
53374 ATAGCTGAAATGTATATGGATACATTGCCAGCATAAAAGAATAATGCATATGGGTGCATTATTGG
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATGGGTGCATTATTGG
**
53439 CATGAATGGATGACC
66 CATGAAAAGATG-CC
* *
53454 -TAGCTGAAATGTATATAGGTACATTGTCAGCACAAAAGAATAATGCATATGGG-GACATTATTG
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATGGGTG-CATTATTG
* *
53517 ACATGAAAAGATGTC
65 GCATGAAAAGATGCC
* * * * *
53532 ATCGCTGAAATGCATATGGGTGCATTATCAACATAAAAG
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAG
53571 TATATTTTAC
Statistics
Matches: 246, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
78 2 0.01
79 242 0.98
80 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATGGGTGCATTATTGG
CATGAAAAGATGCC
Found at i:55075 original size:32 final size:32
Alignment explanation
Indices: 55039--55106 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
55029 TTTTGGTTAT
* *
55039 ATGAAAGAAGTTTGTTGTGTAAGAGATAGAAG
1 ATGAAAGAAGTATGTTATGTAAGAGATAGAAG
* *
55071 ATGAAAGGAGTATGTTATGTAAGAGATTGAAG
1 ATGAAAGAAGTATGTTATGTAAGAGATAGAAG
55103 ATGA
1 ATGA
55107 TATGCACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (32 bp):
ATGAAAGAAGTATGTTATGTAAGAGATAGAAG
Found at i:55769 original size:15 final size:15
Alignment explanation
Indices: 55745--55787 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
55735 GTATTATTAA
*
55745 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
55760 GTTAAATTATAAAAT
1 ATTAAATTATAAAAT
55775 ATTAAATGTATAA
1 ATTAAAT-TATAA
55788 TTATAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:55789 original size:22 final size:23
Alignment explanation
Indices: 55756--55803 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
55746 TTAATTTATA
55756 AAATGTTAAATTATAAAATA-TT
1 AAATGTTAAATTATAAAATAGTT
*
55778 AAATG-TATAATTATAAATTAGTT
1 AAATGTTA-AATTATAAAATAGTT
55801 AAA
1 AAA
55804 ATTTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (23 bp):
AAATGTTAAATTATAAAATAGTT
Found at i:56514 original size:5 final size:6
Alignment explanation
Indices: 56499--56529 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
56489 CATTTTAATG
56499 AAAAAT AAAAAT -AAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
56530 TTTTAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:56516 original size:11 final size:11
Alignment explanation
Indices: 56500--56525 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56490 ATTTTAATGA
56500 AAAATAAAAAT
1 AAAATAAAAAT
56511 AAAATAAAAAT
1 AAAATAAAAAT
56522 AAAA
1 AAAA
56526 ATAATTTTAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:57480 original size:23 final size:25
Alignment explanation
Indices: 57424--57483 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
57414 TAAAAAATAT
* *
57424 TTTATAATTATTATATTTTAATTAA
1 TTTATAATTATAATATTTTAACTAA
* *
57449 ATTACAATTA-AAT-TTTTAACTAA
1 TTTATAATTATAATATTTTAACTAA
57472 TTTATAATTATA
1 TTTATAATTATA
57484 TGTTTAGTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 17 0.61
24 3 0.11
25 8 0.29
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTATAATTATAATATTTTAACTAA
Found at i:57489 original size:23 final size:22
Alignment explanation
Indices: 57433--57489 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
57423 TTTTATAATT
*
57433 ATTATATTTTAATTAAATTACA
1 ATTATATTTTAACTAAATTACA
* * *
57455 ATTAAATTTTTAACTAATTTATA
1 ATTATA-TTTTAACTAAATTACA
57478 ATTATATGTTTA
1 ATTATAT-TTTA
57490 GTACTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTATATTTTAACTAAATTACA
Found at i:57629 original size:128 final size:130
Alignment explanation
Indices: 57459--57719 Score: 483
Period size: 128 Copynumber: 2.0 Consensus size: 130
57449 ATTACAATTA
57459 AATTTTTAACTAATTTATAATTATATGTTTAGTACTTATAATTTAACATTTTATAATTAATATAG
1 AATTTTTAACTAATTTATAA-TATATGTTTAGTACTTATAATTTAACATTTT-TAATTAATATAG
57524 TGGTGTTCA-TTATTAACGGTGTTCATCTGTACTCGTGAGTGTGGCAGCATCATCTAATAAGAAA
64 TGGTGTTCATTTATTAACGGTGTTCATCTGTACTCGTGAGTGTGGCAGCATCATCTAATAAGAAA
57588 AT
129 AT
57590 AATTTTTAACTAATTTAT-A-ATATGTTTAGTACTTATAATTTAACATTTTTAATTAATATAGTG
1 AATTTTTAACTAATTTATAATATATGTTTAGTACTTATAATTTAACATTTTTAATTAATATAGTG
57653 GTGTTCATTTATTAACGGTGTTCATCTGTACTCGTGAGTGTGGCAGCATCATCTAATAAGAAAAT
66 GTGTTCATTTATTAACGGTGTTCATCTGTACTCGTGAGTGTGGCAGCATCATCTAATAAGAAAAT
57718 AA
1 AA
57720 AAAATTTAAC
Statistics
Matches: 129, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
127 21 0.16
128 89 0.69
130 1 0.01
131 18 0.14
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (130 bp):
AATTTTTAACTAATTTATAATATATGTTTAGTACTTATAATTTAACATTTTTAATTAATATAGTG
GTGTTCATTTATTAACGGTGTTCATCTGTACTCGTGAGTGTGGCAGCATCATCTAATAAGAAAAT
Found at i:57750 original size:98 final size:96
Alignment explanation
Indices: 57626--57820 Score: 356
Period size: 98 Copynumber: 2.0 Consensus size: 96
57616 TAGTACTTAT
57626 AATTTAACATTTTTAATTAATATAGTGGTGTTCATTTATTAACGGTGTTCATCTGTACTCG-TGA
1 AATTTAACATTTTTAATTAATATAGTGGTGTTCA-TTATTAACGGTGTTCATCTGTACTCGTTGA
57690 GTGTGGCAGCATCATCTAATAAGAAAATAAAA
65 GTGTGGCAGCATCATCTAATAAGAAAATAAAA
57722 AATTTAACATTTTATAAATTAATATAGTGGTGTTCATTATTAACGGTGTTCATCTGTACTCGTTG
1 AATTTAACATTTT-T-AATTAATATAGTGGTGTTCATTATTAACGGTGTTCATCTGTACTCGTTG
57787 AGTGTGGCAGCATCATCTAATAAGAAAATAAAA
64 AGTGTGGCAGCATCATCTAATAAGAAAATAAAA
57820 A
1 A
57821 TAGAAAGAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
96 13 0.14
97 27 0.28
98 56 0.58
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (96 bp):
AATTTAACATTTTTAATTAATATAGTGGTGTTCATTATTAACGGTGTTCATCTGTACTCGTTGAG
TGTGGCAGCATCATCTAATAAGAAAATAAAA
Found at i:61275 original size:3 final size:3
Alignment explanation
Indices: 61261--61332 Score: 64
Period size: 3 Copynumber: 25.0 Consensus size: 3
61251 CAAAGCCAAA
* * *
61261 AAT AAT ATT AAT AAT -GT AAT -AT AAAT AAT -AT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
61304 ATAT AAT -AT AAT AAT AAT AAT -AT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
61333 TAAAATATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 9 0.16
3 42 0.75
4 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:61280 original size:14 final size:14
Alignment explanation
Indices: 61262--61353 Score: 75
Period size: 14 Copynumber: 6.6 Consensus size: 14
61252 AAAGCCAAAA
*
61262 ATAATATTAATAAT
1 ATAATATAAATAAT
*
61276 GTAATATAAATAAT
1 ATAATATAAATAAT
61290 ATAATAATACTAAT-AT
1 ATAAT-ATA--AATAAT
61306 ATAATAT-AATAAT
1 ATAATATAAATAAT
61319 AATAATAT-AATAAT
1 -ATAATATAAATAAT
* * *
61333 -TAAAATATATTAT
1 ATAATATAAATAAT
61346 ATAATATA
1 ATAATATA
61354 TATTACCATA
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
12 8 0.12
13 6 0.09
14 35 0.55
15 5 0.08
16 7 0.11
17 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (14 bp):
ATAATATAAATAAT
Found at i:61323 original size:35 final size:36
Alignment explanation
Indices: 61271--61351 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 36
61261 AATAATATTA
* *
61271 ATAATGTAAT-ATAAATAATATAATAA-TACTAATAT
1 ATAATATAATAATAAATAATATAATAATTA-AAATAT
61306 ATAATATAATAAT-AATAATATAATAATTAAAATAT
1 ATAATATAATAATAAATAATATAATAATTAAAATAT
*
61341 ATTATATAATA
1 ATAATATAATA
61352 TATATTACCA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (36 bp):
ATAATATAATAATAAATAATATAATAATTAAAATAT
Found at i:61480 original size:14 final size:14
Alignment explanation
Indices: 61455--61573 Score: 92
Period size: 14 Copynumber: 8.7 Consensus size: 14
61445 ATACTATGTA
61455 ATATAA-ATATACT
1 ATATAATATATACT
61468 ATATAATATATACT
1 ATATAATATATACT
61482 ATATAA-A-ATACT
1 ATATAATATATACT
* *
61494 ATAT--TATA-CCA
1 ATATAATATATACT
*
61505 ATAT-ATAAATACT
1 ATATAATATATACT
61518 ATATAATACCATATACT
1 ATATAAT---ATATACT
*
61535 ATATAAAATATACT
1 ATATAATATATACT
*
61549 ATATACTATATA-T
1 ATATAATATATACT
61562 AATATAAGTATA
1 -ATATAA-TATA
61574 AATAAAAGTC
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
11 6 0.07
12 13 0.15
13 13 0.15
14 37 0.44
15 4 0.05
17 12 0.14
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (14 bp):
ATATAATATATACT
Found at i:61547 original size:21 final size:21
Alignment explanation
Indices: 61523--61567 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
61513 ATACTATATA
61523 ATACCATATACTATATAAAAT
1 ATACCATATACTATATAAAAT
* *
61544 ATACTATATACTATATATAAT
1 ATACCATATACTATATAAAAT
61565 ATA
1 ATA
61568 AGTATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (21 bp):
ATACCATATACTATATAAAAT
Found at i:62616 original size:51 final size:51
Alignment explanation
Indices: 62556--62658 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 51
62546 ATTCATGTAT
* *
62556 TGGCTCACAATATTAACAGAGAAGGTTATGTCTAG-CCTAGTTAGTGATAGA
1 TGGCTCACAATACTAACAGAGAAGGCTATGT-TAGACCTAGTTAGTGATAGA
* * *
62607 TGGCTCACAATACTGACAGAGAAGGCTATGTTTGACTTAGTTAGTGATAGA
1 TGGCTCACAATACTAACAGAGAAGGCTATGTTAGACCTAGTTAGTGATAGA
62658 T
1 T
62659 AAATGAGCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 2 0.04
51 44 0.96
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
TGGCTCACAATACTAACAGAGAAGGCTATGTTAGACCTAGTTAGTGATAGA
Found at i:66412 original size:23 final size:23
Alignment explanation
Indices: 66376--66466 Score: 116
Period size: 23 Copynumber: 4.0 Consensus size: 23
66366 CACCGAAGTG
66376 CCACATA--TTTGTCCCAAAGGA
1 CCACATAGGTTTGTCCCAAAGGA
**
66397 CCACATAGGTTTGTCCTGAAGGA
1 CCACATAGGTTTGTCCCAAAGGA
* *
66420 CGACATAGGTTTGTCACAAAGGA
1 CCACATAGGTTTGTCCCAAAGGA
66443 CCACATAGGTTTGT-CCAGAAGGA
1 CCACATAGGTTTGTCCCA-AAGGA
66466 C
1 C
66467 TACAAAAAAC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 7 0.12
22 2 0.03
23 50 0.85
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (23 bp):
CCACATAGGTTTGTCCCAAAGGA
Found at i:77932 original size:22 final size:22
Alignment explanation
Indices: 77907--78025 Score: 118
Period size: 23 Copynumber: 5.3 Consensus size: 22
77897 CATCACAACT
* *
77907 CACATAATTTG-CACTGAAGTAC
1 CACATAATTTGTC-CCGAAGGAC
77929 CACAT-ATTTGTCCCGAAGGAC
1 CACATAATTTGTCCCGAAGGAC
*
77950 CACATAGGA-TTGTCTCGAAGGAC
1 CACATA--ATTTGTCCCGAAGGAC
*
77973 CACATATATTTGTCCTGAAGGAC
1 CACATA-ATTTGTCCCGAAGGAC
* *
77996 CACATAGGTTTGACCCGAAGGAC
1 CACATA-ATTTGTCCCGAAGGAC
78019 CACATAA
1 CACATAA
78026 AATCCTCTAC
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
21 17 0.21
22 7 0.09
23 56 0.69
24 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (22 bp):
CACATAATTTGTCCCGAAGGAC
Found at i:77986 original size:46 final size:46
Alignment explanation
Indices: 77932--78024 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
77922 GAAGTACCAC
* *
77932 ATATTTGTCCCGAAGGACCACATAGGATTGTCTCGAAGGACCACAT
1 ATATTTGTCCCGAAGGACCACATAGGATTGACCCGAAGGACCACAT
* *
77978 ATATTTGTCCTGAAGGACCACATAGGTTTGACCCGAAGGACCACAT
1 ATATTTGTCCCGAAGGACCACATAGGATTGACCCGAAGGACCACAT
78024 A
1 A
78025 AAATCCTCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (46 bp):
ATATTTGTCCCGAAGGACCACATAGGATTGACCCGAAGGACCACAT
Found at i:80452 original size:16 final size:16
Alignment explanation
Indices: 80431--80461 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
80421 CCCCTTTTAT
80431 TGTCTTAATCAAGTTG
1 TGTCTTAATCAAGTTG
*
80447 TGTCTTAATCGAGTT
1 TGTCTTAATCAAGTT
80462 AAGAGGGGAT
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:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (16 bp):
TGTCTTAATCAAGTTG
Found at i:83298 original size:17 final size:17
Alignment explanation
Indices: 83276--83324 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
83266 TTGAGAGAGT
83276 TTTTGGGATACATCGGG
1 TTTTGGGATACATCGGG
* *
83293 TTTTGGTATCTATATCGGG
1 TTTTGGGA--TACATCGGG
83312 TTTTGGGATACAT
1 TTTTGGGATACAT
83325 GTAAAGTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.42
19 15 0.58
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (17 bp):
TTTTGGGATACATCGGG
Found at i:87388 original size:20 final size:20
Alignment explanation
Indices: 87365--87407 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
87355 TTTTCTCTAG
*
87365 AAAGAAAAATTG-GATTTTGA
1 AAAGAAAAA-TGAAATTTTGA
*
87385 AAAGCAAAATGAAATTTTGA
1 AAAGAAAAATGAAATTTTGA
87405 AAA
1 AAA
87408 ATGATTTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAGAAAAATGAAATTTTGA
Found at i:87810 original size:123 final size:122
Alignment explanation
Indices: 87672--87953 Score: 289
Period size: 122 Copynumber: 2.3 Consensus size: 122
87662 CATTTTATGC
* * * * * * * *
87672 ACAAACGCCGCTAAATGCTTGTATTTTAGTGGTGTTTTTGTATAAACACCGCTAAATAT-TATAC
1 ACAAACGCCGCTAAATACCTGTACTTTAGTGGCGTTTCTATACAAACACCGCTAAATATCCATAC
* * **
87736 TTTAGTGGCGTTTTAAGCACAAACGCCGCCAAAGAGTCATACTTTAGTGGCGTTTCTAT
66 TTTAGTGGCGTTTT-A-CACAAACACCACCAAAGACCCATACTTTAGTGGCGTTTCTAT
* ****
87795 ACAAACGCCGTTAAATACCTGTACTTTAGTGGCGTTTCTATACAAATGTTGCTAAATATCCATAC
1 ACAAACGCCGCTAAATACCTGTACTTTAGTGGCGTTTCTATACAAACACCGCTAAATATCCATAC
* * * * * *
87860 TTTAGTGGCGTTTTATACAAACATCACCAAAGACCCGTACTTTAGTGGTGTTTTTTT
66 TTTAGTGGCGTTTTACACAAACACCACCAAAGACCCATACTTTAGTGGCGTTTCTAT
* * *
87917 ACAAACGCCGCCAAAGA-CTCGTACTTTAGTGGAGTTT
1 ACAAACGCCGCTAAATACCT-GTACTTTAGTGGCGTTT
87954 TTTGAATAAA
Statistics
Matches: 130, Mismatches: 27, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
121 2 0.02
122 62 0.48
123 48 0.37
124 18 0.14
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (122 bp):
ACAAACGCCGCTAAATACCTGTACTTTAGTGGCGTTTCTATACAAACACCGCTAAATATCCATAC
TTTAGTGGCGTTTTACACAAACACCACCAAAGACCCATACTTTAGTGGCGTTTCTAT
Found at i:87820 original size:41 final size:39
Alignment explanation
Indices: 87470--87954 Score: 349
Period size: 41 Copynumber: 11.9 Consensus size: 39
87460 GTTTTTTTGA
* * * *
87470 ACAAACACCGGTAAATACTGTGCTTTAGTGGTGTTATTAT
1 ACAAACGCCGCTAAATACTGTACTTTAGTGGCGTT-TTAT
* * * *
87510 ATAAACGTCGCTAAATACTGTACTTTAGTGGCATTTTTGT
1 ACAAACGCCGCTAAATACTGTACTTTAGTGGC-GTTTTAT
* * * * *
87550 ATAAACGTCGCTAAATAATGTACTTTAGTGGCATTTTAAGC
1 ACAAACGCCGCTAAATACTGTACTTTAGTGGCGTTTT-A-T
* * *
87591 ACAAAAGCCGCTAAATGCTCTACTTTAGTGGCGTTTCTAT
1 ACAAACGCCGCTAAATACTGTACTTTAGTGGCGTTT-TAT
* * * *
87631 ATAAACGCCGCTAAATATTGTACTTTAATGGCATTTTAT
1 ACAAACGCCGCTAAATACTGTACTTTAGTGGCGTTTTAT
* * * *
87670 GCACAAACGCCGCTAAATGCTTGTATTTTAGTGGTGTTTTTGT
1 --ACAAACGCCGCTAAATAC-TGTACTTTAGTGGCG-TTTTAT
* * * * *
87713 ATAAACACCGCTAAATATTATACTTTAGTGGCGTTTTAAGC
1 ACAAACGCCGCTAAATACTGTACTTTAGTGGCGTTTT-A-T
* * * *
87754 ACAAACGCCGCCAAAGAGTCATACTTTAGTGGCGTTTCTAT
1 ACAAACGCCGCTAAATACT-GTACTTTAGTGGCGTTT-TAT
*
87795 ACAAACGCCGTTAAATACCTGTACTTTAGTGGCGTTTCTAT
1 ACAAACGCCGCTAAATA-CTGTACTTTAGTGGCGTTT-TAT
* ** **
87836 ACAAATGTTGCTAAATATCCATACTTTAGTGGCGTTTTAT
1 ACAAACGCCGCTAAATA-CTGTACTTTAGTGGCGTTTTAT
** * * * * * *
87876 ACAAACATCACCAAAGACCCGTACTTTAGTGGTGTTTTTTT
1 ACAAACGCCGCTAAATA-CTGTACTTTAGTGGCG-TTTTAT
* * *
87917 ACAAACGCCGCCAAAGACTCGTACTTTAGTGGAGTTTT
1 ACAAACGCCGCTAAATACT-GTACTTTAGTGGCGTTTT
87955 TTGAATAAAT
Statistics
Matches: 353, Mismatches: 77, Indels: 30
0.77 0.17 0.07
Matches are distributed among these distances:
39 11 0.03
40 134 0.38
41 171 0.48
42 31 0.09
43 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (39 bp):
ACAAACGCCGCTAAATACTGTACTTTAGTGGCGTTTTAT
Found at i:87840 original size:82 final size:80
Alignment explanation
Indices: 87470--87953 Score: 332
Period size: 81 Copynumber: 6.0 Consensus size: 80
87460 GTTTTTTTGA
* * * * * * * *
87470 ACAAACACCGGTAAATACTGTGCTTTAGTGGTGTTATTATATAAACGTCGCTAAATACT-GTACT
1 ACAAACACCGCTAAATACTGTACTTTAGTGGCGTT-TTATACAAACGCCGCCAAAGACTCATACT
* * *
87534 TTAGTGGCATTTTTGT
65 TTAGTGGCGTTTCTAT
* ** * * * * *
87550 ATAAACGTCGCTAAATAATGTACTTTAGTGGCATTTTAAGCACAAAAGCCGCTAAATG-CTC-TA
1 ACAAACACCGCTAAATACTGTACTTTAGTGGCGTTTT-A-TACAAACGCCGCCAAA-GACTCATA
87613 CTTTAGTGGCGTTTCTAT
63 CTTTAGTGGCGTTTCTAT
* * * * * * **
87631 ATAAACGCCGCTAAATATTGTACTTTAATGGCATTTTATGCACAAACGCCGCTAAATG-CTTGTA
1 ACAAACACCGCTAAATACTGTACTTTAGTGGCGTTTTAT--ACAAACGCCGCCAAA-GACTCATA
* * * *
87695 TTTTAGTGGTGTTTTTGT
63 CTTTAGTGGCGTTTCTAT
* * * * *
87713 ATAAACACCGCTAAATATTATACTTTAGTGGCGTTTTAAGCACAAACGCCGCCAAAGAGTCATAC
1 ACAAACACCGCTAAATACTGTACTTTAGTGGCGTTTT-A-TACAAACGCCGCCAAAGACTCATAC
87778 TTTAGTGGCGTTTCTAT
64 TTTAGTGGCGTTTCTAT
* * * ** * *
87795 ACAAACGCCGTTAAATACCTGTACTTTAGTGGCGTTTCTATACAAATGTTGCTAAATA-TCCATA
1 ACAAACACCGCTAAATA-CTGTACTTTAGTGGCGTTT-TATACAAACGCCGCCAAAGACT-CATA
87859 CTTTAGTGGCGTTT-TAT
63 CTTTAGTGGCGTTTCTAT
* * * * * * * *
87876 ACAAACATCACCAAAGACCCGTACTTTAGTGGTGTTTTTTTACAAACGCCGCCAAAGACTCGTAC
1 ACAAACACCGCTAAATA-CTGTACTTTAGTGGCG-TTTTATACAAACGCCGCCAAAGACTCATAC
*
87941 TTTAGTGGAGTTT
64 TTTAGTGGCGTTT
87954 TTTGAATAAA
Statistics
Matches: 323, Mismatches: 66, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
79 2 0.01
80 29 0.09
81 144 0.45
82 128 0.40
83 19 0.06
84 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (80 bp):
ACAAACACCGCTAAATACTGTACTTTAGTGGCGTTTTATACAAACGCCGCCAAAGACTCATACTT
TAGTGGCGTTTCTAT
Found at i:87923 original size:122 final size:123
Alignment explanation
Indices: 87722--87953 Score: 290
Period size: 122 Copynumber: 1.9 Consensus size: 123
87712 TATAAACACC
* * * **
87722 GCTAAATATTATACTTTAGTGGCGTTTTAAGCACAAACGCCGCCAAAGAGTCATACTTTAGTGGC
1 GCTAAATATCATACTTTAGTGGCGTTTTAAGCACAAACACCACCAAAGACCCATACTTTAGTGGC
** * *
87787 GTTTCTATACAAACGCCGTTAAATAC-CTGTACTTTAGTGGCGTTTCTATACAAATGTT
66 GTTTCTATACAAACGCCGCCAAAGACTC-GTACTTTAGTGGAGTTTCTATACAAATGTT
* * *
87845 GCTAAATATCCATACTTTAGTGGCGTTTT-A-TACAAACATCACCAAAGACCCGTACTTTAGTGG
1 GCTAAATAT-CATACTTTAGTGGCGTTTTAAGCACAAACACCACCAAAGACCCATACTTTAGTGG
* * *
87908 TGTTTTTTTACAAACGCCGCCAAAGACTCGTACTTTAGTGGAGTTT
65 CGTTTCTATACAAACGCCGCCAAAGACTCGTACTTTAGTGGAGTTT
87954 TTTGAATAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
122 63 0.68
123 11 0.12
124 18 0.20
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (123 bp):
GCTAAATATCATACTTTAGTGGCGTTTTAAGCACAAACACCACCAAAGACCCATACTTTAGTGGC
GTTTCTATACAAACGCCGCCAAAGACTCGTACTTTAGTGGAGTTTCTATACAAATGTT
Found at i:88337 original size:15 final size:16
Alignment explanation
Indices: 88307--88341 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
88297 CTCTCTTCAA
*
88307 TTCCTTTCCAATTCCC
1 TTCCCTTCCAATTCCC
88323 TTCCCTTCC-ATTCCC
1 TTCCCTTCCAATTCCC
88338 TTCC
1 TTCC
88342 AACCTTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.09, C:0.49, G:0.00, T:0.43
Consensus pattern (16 bp):
TTCCCTTCCAATTCCC
Found at i:91960 original size:43 final size:43
Alignment explanation
Indices: 91877--91960 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
91867 GTGTTTTAAA
*
91877 GAAAAACGCCGCTATAGAGTTGGACTTTTTGCTGCATTTTTCT
1 GAAAAACGCCGCTATAGAGTTGGACTTTTTGCGGCATTTTTCT
*
91920 GAAAAACGCCGCTATAGAGTTGGACTTTTTGCGGCTTTTTT
1 GAAAAACGCCGCTATAGAGTTGGACTTTTTGCGGCATTTTT
91961 ATTCACAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
GAAAAACGCCGCTATAGAGTTGGACTTTTTGCGGCATTTTTCT
Found at i:93485 original size:20 final size:20
Alignment explanation
Indices: 93460--93510 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
93450 AGGTAGAAGA
93460 AGTATCGATACTCTCTAGGT
1 AGTATCGATACTCTCTAGGT
93480 AGTATCGATACTCTCTAGGT
1 AGTATCGATACTCTCTAGGT
93500 AGTATCGATAC
1 AGTATCGATAC
93511 AACCAGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTCTCTAGGT
Found at i:103815 original size:94 final size:97
Alignment explanation
Indices: 103648--103854 Score: 305
Period size: 94 Copynumber: 2.2 Consensus size: 97
103638 CGAATTAGCT
* * * *
103648 GAGTACTATCGATACAATGGAAAGGGTATCGATACCAGGAAACATCAAATCTAAAATTGGTATCG
1 GAGTAGTATCGATACAATGGAAAGGGTATCAATACCAGGAAACATCAAACCTAAAATGGGTATCG
103713 ATACC-AAAAGGGGTATCGGTA-TCATAGTAT-
66 ATACCAAAAAGGGGTATCGGTACT-ATAGTATA
* * *
103743 G-GTAGTATCGATACCATGGTAAGGGTATCAATACCAGGCAACATCAAACCTAAAATGGGTATCG
1 GAGTAGTATCGATACAATGGAAAGGGTATCAATACCAGGAAACATCAAACCTAAAATGGGTATCG
103807 ATACCAAAAAGGGGTATCGGTACTATAGTATA
66 ATACCAAAAAGGGGTATCGGTACTATAGTATA
103839 GTAGTAGTATCGATAC
1 G-AGTAGTATCGATAC
103855 TATTGAGCTT
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
94 61 0.61
95 24 0.24
96 2 0.02
98 13 0.13
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (97 bp):
GAGTAGTATCGATACAATGGAAAGGGTATCAATACCAGGAAACATCAAACCTAAAATGGGTATCG
ATACCAAAAAGGGGTATCGGTACTATAGTATA
Found at i:104266 original size:54 final size:54
Alignment explanation
Indices: 104173--104401 Score: 323
Period size: 54 Copynumber: 4.2 Consensus size: 54
104163 TTACCAAATT
104173 GGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATA
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATA
* * * * * * *
104227 TGCATTAAATATGCATTTCACAGAATTCATCATGAGTTGATGAATATCCATATA
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATA
* * * *
104281 GGCACTAAGTGTGCATTTCATGGAATTCATCATGAGTAGATGAATAACTGTACA
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATA
* *
104335 GGCACTAAGTGTGCATTTCACGGAATTCATCATGCGTTGATGAATAACCGTACA
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATA
* *
104389 AGCACTATGTGTG
1 GGCACTAAGTGTG
104402 TAAATCCACG
Statistics
Matches: 151, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 151 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTATA
Found at i:104500 original size:93 final size:93
Alignment explanation
Indices: 104331--104512 Score: 285
Period size: 93 Copynumber: 2.0 Consensus size: 93
104321 TGAATAACTG
* * *
104331 TACAGGCACTAAGTGTGCATTTCACGGAATTCATCATGCGTTGATGAATAACCGTACAAGCACTA
1 TACAGGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAAAAACCGTACAAGCACTA
*
104396 TGTGTGTAAATCCACGAAATTCATACCA
66 TGTGTGCAAATCCACGAAATTCATACCA
*
104424 TACATGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAAAAACCGTAC-AGTCACT
1 TACAGGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAAAAACCGTACAAG-CACT
* *
104488 ATGTGTGCAAATCCATGGAATTCAT
65 ATGTGTGCAAATCCACGAAATTCAT
104513 CATGAGTTGA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 2 0.02
93 79 0.98
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (93 bp):
TACAGGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAAAAACCGTACAAGCACTA
TGTGTGCAAATCCACGAAATTCATACCA
Found at i:104517 original size:55 final size:55
Alignment explanation
Indices: 104424--104770 Score: 423
Period size: 55 Copynumber: 6.3 Consensus size: 55
104414 ATTCATACCA
* * * * * *
104424 TACATGCACTAAGTGTGC-ATTTCACGAAATTCATCATGAGTTGATGAAAAACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * *
104478 TACAGTCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAATCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * * *
104533 TACATGTACTATGTGTGC-ATTTCAAGGAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * *
104587 TATAGGCACAATGTGTTCAAATCCACGGAATTCATCATGAGTTGATGAATAACCA
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
**
104642 TACAGGCACTATGTGTGCAAATCCACATAATTCATCATGAGTTGATGAAT-ACCTG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACC-G
* * *
104697 TACAGACACTCTGTGTACAAATCCACGGAATTCATCATGAGTTGATGAACT-ACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCG
* *
104752 TATAGGCACTACGTGTGCA
1 TACAGGCACTATGTGTGCA
104771 TCTTAATAAA
Statistics
Matches: 248, Mismatches: 41, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
54 63 0.25
55 181 0.73
56 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
Found at i:104566 original size:147 final size:147
Alignment explanation
Indices: 104282--104549 Score: 392
Period size: 147 Copynumber: 1.8 Consensus size: 147
104272 ATCCATATAG
* * * *
104282 GCACTAAGTGTGCATTTCATGGAATTCATCATGAGTAGATGAATAACTGTACAGGCACTAAGTGT
1 GCACTAAGTGTGCATTTCACGAAATTCATCATGAGTAGATGAAAAACCGTACAGGCACTAAGTGT
* * * *
104347 GCATTTCACGGAATTCATCATGCGTTGATGAATAACCGTACAAGCACTATGTGTGTAAATCCACG
66 GCAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGTAAATCCAAG
104412 AAATTCATACCATACAT
131 AAATTCATACCATACAT
* * *
104429 GCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAAAAACCGTACAGTCACTATGTGT
1 GCACTAAGTGTGCATTTCACGAAATTCATCATGAGTAGATGAAAAACCGTACAGGCACTAAGTGT
* * * *
104494 GCAAATCCATGGAATTCATCATGAGTTGATGAATAATCGTACATGTACTATGTGTG
66 GC-AATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTG
104550 CATTTCAAGG
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
147 60 0.57
148 46 0.43
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (147 bp):
GCACTAAGTGTGCATTTCACGAAATTCATCATGAGTAGATGAAAAACCGTACAGGCACTAAGTGT
GCAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTGTAAATCCAAG
AAATTCATACCATACAT
Found at i:104583 original size:202 final size:201
Alignment explanation
Indices: 104238--104621 Score: 549
Period size: 202 Copynumber: 1.9 Consensus size: 201
104228 GCATTAAATA
* * * * *
104238 TGCATTTCACAGAATTCATCATGAGTTGATGAATATCCATATAGGCACTAAGTGTGCATTTCATG
1 TGCATTTCACAGAATTCATCATGAGTTGATGAAAAACCATACAGGCACTAAGTGTGCAATCCATG
*
104303 GAATTCATCATGAGTAGATGAATAACTGTACAGGCACTAAGTGTGCATTTCACGGAATTCATCAT
66 GAATTCATCATGAGTAGATGAATAACTGTACAGGCACTAAGTGTGCATTTCAAGGAATTCATCAT
* *
104368 GCGTTGATGAATAACCGTACAAGCACTATGTGTGT-AAATCCACGAAATTCATACCATACATGCA
131 GAGTTGATGAATAACCGTACAAGCACAATGTGT-TCAAATCCACGAAATTCATACCATACATGCA
104432 CTAAGTG
195 CTAAGTG
* * *
104439 TGCATTTCAC-GAAATTCATCATGAGTTGATGAAAAACCGTACAGTCACTATGTGTGCAAATCCA
1 TGCATTTCACAG-AATTCATCATGAGTTGATGAAAAACCATACAGGCACTAAGTGTGC-AATCCA
* * * *
104503 TGGAATTCATCATGAGTTGATGAATAA-TCGTACATGTACTATGTGTGCATTTCAAGGAATTCAT
64 TGGAATTCATCATGAGTAGATGAATAACT-GTACAGGCACTAAGTGTGCATTTCAAGGAATTCAT
* * *
104567 CATGAGTTGATGAATAACCGTATAGGCACAATGTGTTCAAATCCACGGAATTCAT
128 CATGAGTTGATGAATAACCGTACAAGCACAATGTGTTCAAATCCACGAAATTCAT
104622 CATGAGTTGA
Statistics
Matches: 161, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
200 1 0.01
201 51 0.32
202 109 0.68
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (201 bp):
TGCATTTCACAGAATTCATCATGAGTTGATGAAAAACCATACAGGCACTAAGTGTGCAATCCATG
GAATTCATCATGAGTAGATGAATAACTGTACAGGCACTAAGTGTGCATTTCAAGGAATTCATCAT
GAGTTGATGAATAACCGTACAAGCACAATGTGTTCAAATCCACGAAATTCATACCATACATGCAC
TAAGTG
Found at i:104617 original size:109 final size:109
Alignment explanation
Indices: 104420--104771 Score: 447
Period size: 109 Copynumber: 3.2 Consensus size: 109
104410 CGAAATTCAT
* * * *
104420 ACCATACATGCACTAAGTGTGCATTTCACGAAATTCATCATGAGTTGATGAAAAACCGTACAGTC
1 ACCATACATGCACTATGTGTGCATTTCAAGAAATTCATCATGAGTTGATGAATAACCGTACAGAC
* *
104485 ACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATA
66 ACTATGTGTACAAATCCACGGAATTCATCATGAGTTGATGAATA
* * * * * *
104529 ATCGTACATGTACTATGTGTGCATTTCAAGGAATTCATCATGAGTTGATGAATAACCGTATAGGC
1 ACCATACATGCACTATGTGTGCATTTCAAGAAATTCATCATGAGTTGATGAATAACCGTACAGAC
* *
104594 ACAATGTGTTCAAATCCACGGAATTCATCATGAGTTGATGAATA
66 ACTATGTGTACAAATCCACGGAATTCATCATGAGTTGATGAATA
* ** * *
104638 ACCATACAGGCACTATGTGTGCAAATCCACATAATTCATCATGAGTTGATGAAT-ACCTGTACAG
1 ACCATACATGCACTATGTGTGCATTTCAAGA-AATTCATCATGAGTTGATGAATAACC-GTACAG
*
104702 ACACTCTGTGTACAAATCCACGGAATTCATCATGAGTTGATGAACT-
64 ACACTATGTGTACAAATCCACGGAATTCATCATGAGTTGATGAA-TA
* * * *
104748 ACCGTATAGGCACTACGTGTGCAT
1 ACCATACATGCACTATGTGTGCAT
104772 CTTAATAAAT
Statistics
Matches: 210, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
109 122 0.58
110 87 0.41
111 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (109 bp):
ACCATACATGCACTATGTGTGCATTTCAAGAAATTCATCATGAGTTGATGAATAACCGTACAGAC
ACTATGTGTACAAATCCACGGAATTCATCATGAGTTGATGAATA
Found at i:105008 original size:81 final size:81
Alignment explanation
Indices: 104909--105238 Score: 405
Period size: 81 Copynumber: 4.1 Consensus size: 81
104899 GTCCAAAAAA
* * * *
104909 TAAAAGAATAATGACCTAACTGTGTAATTGGCATAAATGTGTCAATTATGAAAGTTAAATGAATG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGCATAAATGTGTCAATTATGCAAGTTAGATGAATG
* *
104974 GTTAGAGACCGTTGAG
66 GTTAAAGACTGTTGAG
* ** *
104990 TAAAAGAATAAAGGCCTAACTGTAG-AATTGATAGAAATGTGTCAATTATGTC-AGTTAGATGAA
1 TAAAAGAATAATGGCCTAACTGT-GCAATTGGCATAAATGTGTCAATTATG-CAAGTTAGATGAA
**
105053 TATTTAAAGACTGTTGAG
64 TGGTTAAAGACTGTTGAG
* * * *
105071 TAAAAGAATAATGGCCTAACTGTGCAATTGGCATAAAGGTGTCAAATATGCCAGTTAGGTGAATG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGCATAAATGTGTCAATTATGCAAGTTAGATGAATG
**
105136 GTTAAAGACAATTGAG
66 GTTAAAGACTGTTGAG
* * * * *
105152 TAAAAGAATAATGGCCTAACTCTGCAATTGGCAAAAATGTGTCAATTTTTCAA-TTAGATGAACG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGCATAAATGTGTCAATTATGCAAGTTAGATGAATG
*
105216 GTTAAATACTGTTGAG
66 GTTAAAGACTGTTGAG
105232 TAAAAGA
1 TAAAAGA
105239 TGAAAAGTCA
Statistics
Matches: 211, Mismatches: 34, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
80 31 0.15
81 179 0.85
82 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (81 bp):
TAAAAGAATAATGGCCTAACTGTGCAATTGGCATAAATGTGTCAATTATGCAAGTTAGATGAATG
GTTAAAGACTGTTGAG
Found at i:107562 original size:18 final size:18
Alignment explanation
Indices: 107539--107573 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
107529 ACTATATTAA
*
107539 CATGGTATCGATACCATG
1 CATGGTATCAATACCATG
107557 CATGGTATCAATACCAT
1 CATGGTATCAATACCAT
107574 TTTGAGGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (18 bp):
CATGGTATCAATACCATG
Found at i:111425 original size:40 final size:40
Alignment explanation
Indices: 111365--111452 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
111355 ATTTAACACT
* * ** * *
111365 TTAATATTATGGTTTGTTTATGGATTTTATTGTTTTAGAC
1 TTAATATTATGATTTATTTATACATTTTATTATTCTAGAC
*
111405 TTAATATTATGATTTATTTATACATTTTATTATTCTAGAG
1 TTAATATTATGATTTATTTATACATTTTATTATTCTAGAC
111445 TTAATATT
1 TTAATATT
111453 GTGGTTTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.57
Consensus pattern (40 bp):
TTAATATTATGATTTATTTATACATTTTATTATTCTAGAC
Found at i:111484 original size:75 final size:74
Alignment explanation
Indices: 111404--111703 Score: 275
Period size: 75 Copynumber: 3.9 Consensus size: 74
111394 TTGTTTTAGA
* * *
111404 CTTAATATTATGATTTATTTATACATTTTATTATTCTAGAGTTAATATTGTGGTTTGAATCTTGA
1 CTTAATATTATGGTTTATTTAT-GATTTTATTATTCTAGACTTAATATTGTGGTTTGAATCTTGA
111469 GATTTGACAT
65 GATTTGACAT
* * * * * *
111479 TTTAATATGATGGTTTGTTTATGGATTTT-TTCATTCTAGATTTAATATTGTGATTTGAGTCTTG
1 CTTAATATTATGGTTTATTTAT-GATTTTATT-ATTCTAGACTTAATATTGTGGTTTGAATCTTG
111543 AGATTTGACAT
64 AGATTTGACAT
* * * * *
111554 CTTAATATTGTGGTTTATTTATGATTTTATTGTTCTAAACTTAATATTATGGTTT--ATTTATG-
1 CTTAATATTATGGTTTATTTATGATTTTATTATTCTAGACTTAATATTGTGGTTTGAATCT-TGA
* *
111616 GATTTTATTGTTCTAAA
65 GA---T-TTG-AC--AT
* * * **
111633 CGTAATATTATGGTTTATTTATGGATTTTATTGTTCTAAACTTAATATTGTGGTTTGAGGCTTGA
1 CTTAATATTATGGTTTATTTAT-GATTTTATTATTCTAGACTTAATATTGTGGTTTGAATCTTGA
111698 GATTTG
65 GATTTG
111704 TTTATGGTTT
Statistics
Matches: 183, Mismatches: 28, Indels: 25
0.78 0.12 0.11
Matches are distributed among these distances:
72 4 0.02
73 2 0.01
74 27 0.15
75 84 0.46
76 3 0.02
77 1 0.01
78 3 0.02
79 22 0.12
80 32 0.17
81 2 0.01
82 3 0.02
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (74 bp):
CTTAATATTATGGTTTATTTATGATTTTATTATTCTAGACTTAATATTGTGGTTTGAATCTTGAG
ATTTGACAT
Found at i:111533 original size:115 final size:115
Alignment explanation
Indices: 111325--111534 Score: 323
Period size: 115 Copynumber: 1.8 Consensus size: 115
111315 AATATTGTTA
* *
111325 TAGACTTAATATTGTGGTTTGAGTCTTGAGATTTAACACTTTAATATTATGGTTTGTTTATGGAT
1 TAGACTTAATATTGTGGTTTGAATCTTGAGATTTAACACTTTAATATGATGGTTTGTTTATGGAT
* *
111390 TTTATTGTTTTAGACTTAATATTATGATTTATTTATACATTTTATTATTC
66 TTTATTATTCTAGACTTAATATTATGATTTATTTATACATTTTATTATTC
* * *
111440 TAGAGTTAATATTGTGGTTTGAATCTTGAGATTTGACATTTTAATATGATGGTTTGTTTATGGAT
1 TAGACTTAATATTGTGGTTTGAATCTTGAGATTTAACACTTTAATATGATGGTTTGTTTATGGAT
* *
111505 TTT-TTCATTCTAGATTTAATATTGTGATTT
66 TTTATT-ATTCTAGACTTAATATTATGATTT
111535 GAGTCTTGAG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 2 0.02
115 83 0.98
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.52
Consensus pattern (115 bp):
TAGACTTAATATTGTGGTTTGAATCTTGAGATTTAACACTTTAATATGATGGTTTGTTTATGGAT
TTTATTATTCTAGACTTAATATTATGATTTATTTATACATTTTATTATTC
Found at i:111631 original size:40 final size:40
Alignment explanation
Indices: 111554--111688 Score: 236
Period size: 40 Copynumber: 3.4 Consensus size: 40
111544 GATTTGACAT
*
111554 CTTAATATTGTGGTTTATTTAT-GATTTTATTGTTCTAAA
1 CTTAATATTATGGTTTATTTATGGATTTTATTGTTCTAAA
111593 CTTAATATTATGGTTTATTTATGGATTTTATTGTTCTAAA
1 CTTAATATTATGGTTTATTTATGGATTTTATTGTTCTAAA
*
111633 CGTAATATTATGGTTTATTTATGGATTTTATTGTTCTAAA
1 CTTAATATTATGGTTTATTTATGGATTTTATTGTTCTAAA
*
111673 CTTAATATTGTGGTTT
1 CTTAATATTATGGTTT
111689 GAGGCTTGAG
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 21 0.23
40 70 0.77
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (40 bp):
CTTAATATTATGGTTTATTTATGGATTTTATTGTTCTAAA
Found at i:117234 original size:3 final size:3
Alignment explanation
Indices: 117226--117304 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
117216 TATATATTCC
117226 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
117274 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
117305 GATTTATTGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:117384 original size:3 final size:3
Alignment explanation
Indices: 117369--117417 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
117359 TATATATTCC
* * *
117369 CTT CTT TTT CTT CTT CTT CTT CTT GTT CTT CTT CTT ATT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
117417 C
1 C
117418 GGATAATTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:117500 original size:3 final size:3
Alignment explanation
Indices: 117494--117534 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
117484 ATAATAGATA
117494 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
117535 GGATAATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:117517 original size:117 final size:117
Alignment explanation
Indices: 117377--117625 Score: 471
Period size: 117 Copynumber: 2.1 Consensus size: 117
117367 CCCTTCTTTT
*
117377 TCTTCTTCTTCTTCTTGTTCTTCTTCTTATTCTTCTTCTTCGGATAATTGTTATAATACCTATCT
1 TCTTCTTCTTCTTCTTCTTCTTCTTCTTATTCTTCTTCTTCGGATAATTGTTATAATACCTATCT
117442 ATCTATATATTTTTAATTAGATCACTATTTTACCTAATAAAAATAATAGATA
66 ATCTATATATTTTTAATTAGATCACTATTTTACCTAATAAAAATAATAGATA
*
117494 TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCGGATAATTGTTATAATACCTATCT
1 TCTTCTTCTTCTTCTTCTTCTTCTTCTTATTCTTCTTCTTCGGATAATTGTTATAATACCTATCT
*
117559 ATCTATATATTTTTAATTAGATCACTATTTTACCTAATTAAAATAATAGATA
66 ATCTATATATTTTTAATTAGATCACTATTTTACCTAATAAAAATAATAGATA
117611 TCTTCTTCTTCTTCT
1 TCTTCTTCTTCTTCT
117626 CTCCTCCTCC
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 129 1.00
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (117 bp):
TCTTCTTCTTCTTCTTCTTCTTCTTCTTATTCTTCTTCTTCGGATAATTGTTATAATACCTATCT
ATCTATATATTTTTAATTAGATCACTATTTTACCTAATAAAAATAATAGATA
Found at i:117632 original size:3 final size:3
Alignment explanation
Indices: 117626--117691 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
117616 TTCTTCTTCT
117626 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
117674 CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC
117692 TTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Done.