Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001182.1 Hibiscus syriacus cultivar Beakdansim tig00002348_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: 122981
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:582 original size:18 final size:18
Alignment explanation
Indices: 540--587 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
530 AAATGACCAA
* *
540 CAAATTCGCAATGCGATCT
1 CAAATTCGC-ATGCAAACT
559 CAAATTCGCATGCAAACT
1 CAAATTCGCATGCAAACT
*
577 CCAATTTCGCA
1 -CAAATTCGCA
588 ACCCAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.25
Consensus pattern (18 bp):
CAAATTCGCATGCAAACT
Found at i:626 original size:20 final size:19
Alignment explanation
Indices: 603--689 Score: 68
Period size: 20 Copynumber: 4.4 Consensus size: 19
593 ATTTCCAATT
*
603 TCGCAACGCGCATATGTAAA
1 TCGCAACGCGAAT-TGTAAA
** * *
623 TCGCATTGCG-ATTTTCCAAT
1 TCGCAACGCGAATTGT--AAA
643 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAAT-TGTAAA
*
663 TCGCAACGCGAATTTATAAA
1 TCGCAACGCGAA-TTGTAAA
683 TCGCAAC
1 TCGCAAC
690 ACATAAGTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 44 0.83
21 3 0.06
22 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (19 bp):
TCGCAACGCGAATTGTAAA
Found at i:687 original size:40 final size:40
Alignment explanation
Indices: 603--689 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
593 ATTTCCAATT
* ** * * *
603 TCGCAACGCGCATATGTAAATCGCATTGCGATTTTCCAAT
1 TCGCAACGCGAATATGTAAATCGCAACGCGAATTTACAAA
* *
643 TCGCAACGCGAATCTGTAAATCGCAACGCGAATTTATAAA
1 TCGCAACGCGAATATGTAAATCGCAACGCGAATTTACAAA
683 TCGCAAC
1 TCGCAAC
690 ACATAAGTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
TCGCAACGCGAATATGTAAATCGCAACGCGAATTTACAAA
Found at i:724 original size:19 final size:20
Alignment explanation
Indices: 640--771 Score: 105
Period size: 20 Copynumber: 6.7 Consensus size: 20
630 GCGATTTTCC
*
640 AATTCGCAACGCGAATCTGT-A
1 AATTCGCAACGCG-AT-AGTCA
* *
661 AA-TCGCAACGCGA-ATTTA
1 AATTCGCAACGCGATAGTCA
* *
679 TAAATCGCAACAC-ATAAGTCA
1 -AATTCGCAACGCGAT-AGTCA
*
700 AATTCGCAATGCGATAGTC-
1 AATTCGCAACGCGATAGTCA
* * *
719 AATTCGCAACACAAAAGTCA
1 AATTCGCAACGCGATAGTCA
739 AATTCGCAACGCGATAGTC-
1 AATTCGCAACGCGATAGTCA
758 AATTCGCAACGCGA
1 AATTCGCAACGCGA
772 AACACAATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 33 0.37
20 47 0.53
21 7 0.08
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
AATTCGCAACGCGATAGTCA
Found at i:729 original size:39 final size:39
Alignment explanation
Indices: 683--767 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
673 AATTTATAAA
* *
683 TCGCAACACATAAGTCAAATTCGCAATGCGATAGTCAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAT
722 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAT
1 TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAT
761 TCGCAAC
1 TCGCAAC
768 GCGAAACACA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (39 bp):
TCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAT
Found at i:779 original size:19 final size:19
Alignment explanation
Indices: 739--779 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
729 ACAAAAGTCA
* **
739 AATTCGCAACGCGATAGTC
1 AATTCGCAACGCGAAACAC
758 AATTCGCAACGCGAAACAC
1 AATTCGCAACGCGAAACAC
777 AAT
1 AAT
780 ATTAATTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (19 bp):
AATTCGCAACGCGAAACAC
Found at i:909 original size:22 final size:22
Alignment explanation
Indices: 884--931 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
874 CTACGGTGAC
*
884 ATCCGTCCCCATCTCCGACGAA
1 ATCCATCCCCATCTCCGACGAA
*
906 ATCCATCCCCATCTCCGGCGAA
1 ATCCATCCCCATCTCCGACGAA
928 ATCC
1 ATCC
932 TTCTATCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.46, G:0.12, T:0.19
Consensus pattern (22 bp):
ATCCATCCCCATCTCCGACGAA
Found at i:1317 original size:20 final size:20
Alignment explanation
Indices: 1274--1321 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 20
1264 TTTTGAACTT
1274 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
1294 AAATT-GCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
1313 AAAATCGCA
1 AAATTCGCA
1322 TTGTGAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.52, C:0.19, G:0.15, T:0.15
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:2975 original size:21 final size:21
Alignment explanation
Indices: 2951--3000 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2941 GTTAGGGGAG
2951 TTACGTGATGAGGTCGATACT
1 TTACGTGATGAGGTCGATACT
* *
2972 TTACGTCATGAGGTCGGTACT
1 TTACGTGATGAGGTCGATACT
2993 TTACGTGA
1 TTACGTGA
3001 AGATAATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCGATACT
Found at i:3430 original size:21 final size:21
Alignment explanation
Indices: 3404--3443 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3394 TGCACCTATC
* *
3404 ATCGTTCAAGAGGCGCCTCCT
1 ATCGTTCAAAAGGCCCCTCCT
3425 ATCGTTCAAAAGGCCCCTC
1 ATCGTTCAAAAGGCCCCTC
3444 TCATCATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGTTCAAAAGGCCCCTCCT
Found at i:4949 original size:14 final size:14
Alignment explanation
Indices: 4930--4979 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
4920 ACTTGTTTAA
4930 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
**
4944 TTGATTTGTTTAA-
1 TTGATTTGTAAAAG
4957 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
4971 TTGATTTGT
1 TTGATTTGT
4980 TGTTTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:4960 original size:27 final size:27
Alignment explanation
Indices: 4922--4980 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
4912 TATTTTTTAC
4922 TTGTTTAATTGATTTGTAAAAGTTGAT
1 TTGTTTAATTGATTTGTAAAAGTTGAT
4949 TTGTTTAATTGATTTGTAAAAGTTGAT
1 TTGTTTAATTGATTTGTAAAAGTTGAT
4976 TTGTT
1 TTGTT
4981 GTTTTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (27 bp):
TTGTTTAATTGATTTGTAAAAGTTGAT
Found at i:5412 original size:18 final size:18
Alignment explanation
Indices: 5389--5424 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5379 AAGCCGGTTG
*
5389 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
5407 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
5425 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:7862 original size:12 final size:12
Alignment explanation
Indices: 7841--7874 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7831 GGTTGTGGGT
*
7841 TTTGAGATTGTG
1 TTTGATATTGTG
7853 TTTGATATTGTG
1 TTTGATATTGTG
*
7865 TTTGGTATTG
1 TTTGATATTG
7875 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:8491 original size:16 final size:15
Alignment explanation
Indices: 8469--8507 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
8459 GAAATCATTG
8469 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
8485 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
8500 AAAAATTA
1 AAAAATTA
8508 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:8614 original size:27 final size:27
Alignment explanation
Indices: 8576--8638 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
8566 TGGAGATGAA
8576 ATGAGTTGCGATTTAGGGATTTAGGTT
1 ATGAGTTGCGATTTAGGGATTTAGGTT
8603 ATGAGTTGCGATTTAGGGATTTAGGTT
1 ATGAGTTGCGATTTAGGGATTTAGGTT
8630 ATGAGTTGC
1 ATGAGTTGC
8639 TGCTGCTGCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.05, G:0.33, T:0.40
Consensus pattern (27 bp):
ATGAGTTGCGATTTAGGGATTTAGGTT
Found at i:8749 original size:19 final size:19
Alignment explanation
Indices: 8712--8776 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
8702 ACTTGTGTTA
* *
8712 CGAATTCGAAAATCTAGTTG
1 CGAATTTGAAATTC-AGTTG
8732 CGAATTTGAAATTCAGTTG
1 CGAATTTGAAATTCAGTTG
*
8751 TGAATTTGAAATTCAGTTG
1 CGAATTTGAAATTCAGTTG
8770 CGAATTT
1 CGAATTT
8777 AACTATCGCG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (19 bp):
CGAATTTGAAATTCAGTTG
Found at i:8826 original size:40 final size:40
Alignment explanation
Indices: 8782--8955 Score: 194
Period size: 40 Copynumber: 4.3 Consensus size: 40
8772 AATTTAACTA
* *
8782 TCGCGTTGTGATTTTGACTTATGTGTTGCGATTTACAAAT
1 TCGCGTTGCGATTTTGACTTCTGTGTTGCGATTTACAAAT
* * * *
8822 TCGCGTTGCGATTTACAGA-TTC-GCGTTACGAATTTGAC-TA-
1 TCGCGTTGCGATTT--TGACTTCTGTGTTGCG-ATTT-ACAAAT
* *
8862 TCGCGTTGCGAATTTGACTTCTGTGTTGTGATTTACAAAT
1 TCGCGTTGCGATTTTGACTTCTGTGTTGCGATTTACAAAT
*
8902 TCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAAAT
1 TCGCGTTGCGATTTTGACTTCTGTGTTGCGATTTACAAAT
*
8942 TCACGTTGCGATTT
1 TCGCGTTGCGATTT
8956 ACAGATTCGC
Statistics
Matches: 111, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
38 4 0.04
39 8 0.07
40 88 0.79
41 7 0.06
42 4 0.04
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (40 bp):
TCGCGTTGCGATTTTGACTTCTGTGTTGCGATTTACAAAT
Found at i:8829 original size:20 final size:20
Alignment explanation
Indices: 8806--8968 Score: 126
Period size: 20 Copynumber: 8.2 Consensus size: 20
8796 TGACTTATGT
8806 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
8826 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
* *
8846 GTTACGAATTTGAC-TA-TCGC
1 GTTGCG-ATTT-ACAAATTCGC
*
8866 GTTGCGAATTTGAC---TTCTGT
1 GTTGCG-ATTT-ACAAATTC-GC
*
8886 GTTGTGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
8906 GTTGCGAATTTGAC---TTCTGT
1 GTTGCG-ATTT-ACAAATTC-GC
*
8926 GTTGCGATTTACAAATTCAC
1 GTTGCGATTTACAAATTCGC
*
8946 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
8966 GTT
1 GTT
8969 ACGAATTTGG
Statistics
Matches: 117, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.03
19 13 0.11
20 81 0.69
21 15 0.13
22 4 0.03
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:8846 original size:60 final size:60
Alignment explanation
Indices: 8782--8977 Score: 238
Period size: 60 Copynumber: 3.3 Consensus size: 60
8772 AATTTAACTA
* *
8782 TCGCGTTGTGATTTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCGATTTACAGAT
1 TCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCGATTTACAGAT
* * * * *
8842 TCGCGTTACGAATTTGAC-TATCGCGTTGCGAATTTGAC---TTCTGTGTTGTGATTTACAAAT
1 TCGCGTTGCGAATTTGACTTAT-GTGTTGCG-ATTT-ACAAATTC-GCGTTGCGATTTACAGAT
* *
8902 TCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAAATTCACGTTGCGATTTACAGAT
1 TCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCGATTTACAGAT
*
8962 TCGCGTTACGAATTTG
1 TCGCGTTGCGAATTTG
8978 GAAACTGGAT
Statistics
Matches: 113, Mismatches: 15, Indels: 16
0.78 0.10 0.11
Matches are distributed among these distances:
58 2 0.02
59 10 0.09
60 90 0.80
61 9 0.08
62 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (60 bp):
TCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCGATTTACAGAT
Found at i:20890 original size:16 final size:16
Alignment explanation
Indices: 20869--20899 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20859 CAACTGATTC
*
20869 GATATTGACTCGACCT
1 GATATTGACCCGACCT
20885 GATATTGACCCGACC
1 GATATTGACCCGACC
20900 CGAAATCTAA
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:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (16 bp):
GATATTGACCCGACCT
Found at i:22355 original size:22 final size:22
Alignment explanation
Indices: 22327--22370 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22317 AACAATCGTG
22327 GTCGAAAAATAGCACACTTTTT
1 GTCGAAAAATAGCACACTTTTT
22349 GTCGAAAAATAGCACACTTTTT
1 GTCGAAAAATAGCACACTTTTT
22371 TATAAAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
GTCGAAAAATAGCACACTTTTT
Found at i:24976 original size:38 final size:38
Alignment explanation
Indices: 24917--24990 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
24907 ATGAGTCCAG
* *
24917 CTATGTTAAGGTGTACCCAGGTGATCTTAGTTGCCCAA
1 CTATATTAAGGTGTACCCAGGTGACCTTAGTTGCCCAA
* * *
24955 CTATATTAAGTTGTACTCAGGTTACCTTAGTTGCCC
1 CTATATTAAGGTGTACCCAGGTGACCTTAGTTGCCC
24991 TAGTGGGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (38 bp):
CTATATTAAGGTGTACCCAGGTGACCTTAGTTGCCCAA
Found at i:38439 original size:18 final size:18
Alignment explanation
Indices: 38416--38451 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
38406 CACTTAAATT
38416 TTTTAA-ATTCTTTTATAA
1 TTTTAATATT-TTTTATAA
38434 TTTTAATATTTTTTATAA
1 TTTTAATATTTTTTATAA
38452 CATTTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAATATTTTTTATAA
Found at i:38795 original size:25 final size:25
Alignment explanation
Indices: 38764--38812 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
38754 ATTTGTTTTC
*
38764 TAAAATTTTACAAGGTT-ATTCCTTT
1 TAAAATTATACAA-GTTCATTCCTTT
*
38789 TAAAATTATATAAGTTCATTCCTT
1 TAAAATTATACAAGTTCATTCCTT
38813 CTCACATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (25 bp):
TAAAATTATACAAGTTCATTCCTTT
Found at i:50019 original size:16 final size:16
Alignment explanation
Indices: 49998--50030 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49988 TAATAAATAG
49998 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
50014 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
50030 A
1 A
50031 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:50110 original size:10 final size:10
Alignment explanation
Indices: 50095--50169 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
50085 CATTTAATAA
50095 ATAAACGAAC
1 ATAAACGAAC
50105 ATAAACGAAC
1 ATAAACGAAC
50115 ----ACGAAC
1 ATAAACGAAC
50121 ATAAACGAAC
1 ATAAACGAAC
** *
50131 ACGAAC-ATAA
1 ATAAACGA-AC
50141 ATGAACACGAAC
1 AT-AA-ACGAAC
50153 ATAAACGAAC
1 ATAAACGAAC
50163 ATAAACG
1 ATAAACG
50170 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:50120 original size:16 final size:16
Alignment explanation
Indices: 50099--50163 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
50089 TAATAAATAA
50099 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
50115 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
50131 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
50147 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
50163 A
1 A
50164 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:50925 original size:10 final size:10
Alignment explanation
Indices: 50910--50967 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
50900 TAAATGAATC
50910 AACATAAACG
1 AACATAAACG
*
50920 AACATAATCG
1 AACATAAACG
50930 AACATAATCGAACG
1 AACAT-A---AACG
*
50944 AACATAAACA
1 AACATAAACG
*
50954 AACATAACCG
1 AACATAAACG
50964 AACA
1 AACA
50968 AACATAATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 29 0.74
11 1 0.03
13 1 0.03
14 8 0.21
ACGTcount: A:0.57, C:0.22, G:0.09, T:0.12
Consensus pattern (10 bp):
AACATAAACG
Found at i:50943 original size:24 final size:24
Alignment explanation
Indices: 50916--50980 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
50906 AATCAACATA
*
50916 AACGAACATAATCGAACATAATCG
1 AACGAACATAATCGAACATAACCG
* *
50940 AACGAACATAAACAAACATAACCG
1 AACGAACATAATCGAACATAACCG
*
50964 AACAAACATAATCGAAC
1 AACGAACATAATCGAAC
50981 GTTCACGAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.55, C:0.23, G:0.09, T:0.12
Consensus pattern (24 bp):
AACGAACATAATCGAACATAACCG
Found at i:50947 original size:14 final size:14
Alignment explanation
Indices: 50928--50981 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
50918 CGAACATAAT
50928 CGAACATAATCGAA
1 CGAACATAATCGAA
50942 CGAACAT-A---AA
1 CGAACATAATCGAA
* *
50952 CAAACATAACCGAA
1 CGAACATAATCGAA
*
50966 CAAACATAATCGAA
1 CGAACATAATCGAA
50980 CG
1 CG
50982 TTCACGAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 23 0.70
ACGTcount: A:0.54, C:0.24, G:0.11, T:0.11
Consensus pattern (14 bp):
CGAACATAATCGAA
Found at i:54531 original size:14 final size:14
Alignment explanation
Indices: 54495--54532 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
54485 AGAGAGTGTC
* *
54495 AGAGAGAAAGCTGG
1 AGAGAGAGAGCTAG
54509 AGAGAGAGAGCTAG
1 AGAGAGAGAGCTAG
54523 AGAGAGAGAG
1 AGAGAGAGAG
54533 AGAGTATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.45, T:0.05
Consensus pattern (14 bp):
AGAGAGAGAGCTAG
Found at i:55668 original size:24 final size:24
Alignment explanation
Indices: 55641--55686 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
55631 CGTTCATTTA
*
55641 CGTTCGTGAACGTTCGGTTATGAT
1 CGTTCATGAACGTTCGGTTATGAT
* **
55665 CGTTTATGTTCGTTCGGTTATG
1 CGTTCATGAACGTTCGGTTATG
55687 TTTATTTATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.13, C:0.15, G:0.28, T:0.43
Consensus pattern (24 bp):
CGTTCATGAACGTTCGGTTATGAT
Found at i:55685 original size:14 final size:14
Alignment explanation
Indices: 55668--55716 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
55658 TTATGATCGT
55668 TTATGTTCGTTCGG
1 TTATGTTCGTTCGG
55682 TTATGTT--TAT---
1 TTATGTTCGT-TCGG
55692 TTATGTTCGTTCGG
1 TTATGTTCGTTCGG
55706 TTATGTTCGTT
1 TTATGTTCGTT
55717 TATATTCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
10 7 0.24
11 1 0.03
12 2 0.07
13 1 0.03
14 18 0.62
ACGTcount: A:0.10, C:0.10, G:0.22, T:0.57
Consensus pattern (14 bp):
TTATGTTCGTTCGG
Found at i:55694 original size:24 final size:24
Alignment explanation
Indices: 55651--55736 Score: 109
Period size: 24 Copynumber: 3.6 Consensus size: 24
55641 CGTTCGTGAA
* *
55651 CGTTCGGTTATGATCGTTTATGTT
1 CGTTCGGTTATGTTCATTTATGTT
*
55675 CGTTCGGTTATGTTTATTTATGTT
1 CGTTCGGTTATGTTCATTTATGTT
* *
55699 CGTTCGGTTATGTTCGTTTATATT
1 CGTTCGGTTATGTTCATTTATGTT
**
55723 CGTTCATTTATGTT
1 CGTTCGGTTATGTT
55737 TAACCCAATC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.13, C:0.12, G:0.21, T:0.55
Consensus pattern (24 bp):
CGTTCGGTTATGTTCATTTATGTT
Found at i:65255 original size:17 final size:18
Alignment explanation
Indices: 65229--65264 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
65219 TCAACCCCAA
65229 AAAAGAAAATT-AGGGAT
1 AAAAGAAAATTAAGGGAT
*
65246 AAAAGTAAATTAAGGGAT
1 AAAAGAAAATTAAGGGAT
65264 A
1 A
65265 GAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.22, T:0.19
Consensus pattern (18 bp):
AAAAGAAAATTAAGGGAT
Found at i:69330 original size:6 final size:6
Alignment explanation
Indices: 69316--69353 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
69306 AAGGATTAAA
*
69316 GTGAGT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GT
1 GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GT
69354 ATATGTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (6 bp):
GTGAAT
Found at i:76507 original size:29 final size:29
Alignment explanation
Indices: 76475--76531 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
76465 ATTTCAAAAT
76475 TATAATTATGAAA-AAAATATTAATTTATA
1 TATAATTAT-AAATAAAATATTAATTTATA
* *
76504 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
76532 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:76739 original size:120 final size:120
Alignment explanation
Indices: 76500--76732 Score: 296
Period size: 120 Copynumber: 2.0 Consensus size: 120
76490 AATATTAATT
* * *
76500 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAAAAAAGGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCGAGGTGCCT
* *
76565 TAAGACAGCTCTTTTCTTCGATATTAAAAATTAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAATTAAATAAATAATTAAAACAATTAA
** * * *
76620 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCGAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCA-AAAAAGGACATCGAGGTGC
* *
76684 TTTAAGACTGC-CCTTTCTT-AATATTGAAAAA-TAAATAAAT-ATTAAAACA
64 CTTAAGACAGCTCCTTTCTTCAATATT-AAAAATTAAATAAATAATTAAAACA
76733 TGATTAAAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
118 9 0.09
119 20 0.20
120 46 0.47
121 23 0.23
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCGAGGTGCCT
TAAGACAGCTCCTTTCTTCAATATTAAAAATTAAATAAATAATTAAAACAATTAA
Found at i:78737 original size:137 final size:138
Alignment explanation
Indices: 78589--78946 Score: 495
Period size: 139 Copynumber: 2.6 Consensus size: 138
78579 AATCTAGCAA
* *
78589 AAGGTTGAACAAGTTCTACTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCATCTTCAGATGAGTTCTTCTCATTAT
* *
78654 GAACTCATTCTGGAAATATTGATCCTCAAGAGAGG-T-GTCATTGATTCAACTTCATATGTGATG
66 GAACTC-TTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCATTCATTCAACTTCATAGGTGATG
*
78717 AATTAAGAC
130 AATCAAGAC
* * *
78726 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTCTCTTCATATTCAGATGAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCATCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
78791 GAACTTCCTCTGAAAATGTTGATCCTCAAGTGAGGTTCTTCTTTCATTCAACTTCATAGGTGATG
66 GAAC-TCTTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCATTCATTCAACTTCATAGGTGATG
*
78856 AATCAAGAT
130 AATCAAGAC
* * * * *
78865 AAGGTCGAACAAATTATTCTCATTATGAACTTCTTCTTCATCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCATCTTCAGATGAGTTCTTCTCATTAT
78930 GAACTCTTTCTGGAAAT
66 GAACTC-TTCTGGAAAT
78947 GGCTCTGCTG
Statistics
Matches: 192, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
137 88 0.46
138 5 0.03
139 99 0.52
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (138 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCATCTTCAGATGAGTTCTTCTCATTAT
GAACTCTTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCATTCATTCAACTTCATAGGTGATGA
ATCAAGAC
Found at i:79262 original size:111 final size:112
Alignment explanation
Indices: 79015--79324 Score: 498
Period size: 111 Copynumber: 2.8 Consensus size: 112
79005 ATAGTGTCAT
* * *
79015 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCC-TCTTTAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTC
*
79079 ATTATAAACTCGACCTGGAAATGCTGATCCATCGAGTGATGAATTCAA
65 ATTATGAACTCGACCTGGAAATGCTGATCCATCGAGTGATGAATTCAA
*
79127 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTA
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
** * *
79192 TTATGAACTCTTCC-GGCAATGTTGATCCATCGAGTGATGAATTCAA
66 TTATGAACTCGACCTGGAAATGCTGATCCATCGAGTGATGAATTCAA
*
79238 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCATTCTTCAGATGAGTTCTTCTCA
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
*
79303 TTATGAACTCGACCTGGCAATG
66 TTATGAACTCGACCTGGAAATG
79325 AGATGACCCG
Statistics
Matches: 183, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
111 108 0.59
112 75 0.41
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (112 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGACCTGGAAATGCTGATCCATCGAGTGATGAATTCAA
Found at i:79459 original size:31 final size:31
Alignment explanation
Indices: 79416--79490 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
79406 ACCCTAAGGC
* *
79416 TTTGAAAACATCAAAAAGCTCCCGAAGGCTT
1 TTTGGAAACATCAAAAAGCTCCCGAAGACTT
*
79447 TTTGGAAACATCAAAAAGCTCCTGAAGACTT
1 TTTGGAAACATCAAAAAGCTCCCGAAGACTT
79478 TTTGGAAACATCA
1 TTTGGAAACATCA
79491 TGCACTGCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (31 bp):
TTTGGAAACATCAAAAAGCTCCCGAAGACTT
Found at i:79642 original size:76 final size:76
Alignment explanation
Indices: 79447--79792 Score: 543
Period size: 76 Copynumber: 4.6 Consensus size: 76
79437 CCGAAGGCTT
* * * * * *
79447 TTTGGAAACATCAAAAAGCTCCTGAAGACTTTTTGGAAACATCATGCACTGCAAGTCTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* *
79512 GACCCTGAGGG
66 GACCCTAAGGC
* * *
79523 TTT--AAACATCAAAAGGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
79586 GACCCTAAGGC
66 GACCCTAAGGC
79597 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
79662 GACCCTAAGGC
66 GACCCTAAGGC
* *
79673 TTTAAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTAGAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
79738 GACCCTAAGGC
66 GACCCTAAGGC
* *
79749 TTTGAAAACATCAAAAGGCTCCCGAAGGCTTTTTGGAAACATCA
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCA
79793 AAAAGCTCCT
Statistics
Matches: 251, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
74 65 0.26
76 186 0.74
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
GACCCTAAGGC
Found at i:79792 original size:31 final size:31
Alignment explanation
Indices: 79749--79823 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
79739 ACCCTAAGGC
*
79749 TTTGAAAACATCAAAAGGCTCCCGAAGGCTT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTT
* *
79780 TTTGGAAACATCAAAAAGCTCCTGAAGGCTT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTT
79811 TTTGAAAACATCA
1 TTTGAAAACATCA
79824 TGCACTGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (31 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:79807 original size:107 final size:105
Alignment explanation
Indices: 79678--79897 Score: 332
Period size: 107 Copynumber: 2.1 Consensus size: 105
79668 AAGGCTTTAA
* * * *
79678 AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTAGAGATGACCC
1 AAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTTACAGATAACCC
*
79743 TAAGGCTTTGAAAACATCAAAAGGCTCCCGAAGGCTTTTTGG
66 TAAGGCTTT--AAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* * *
79785 AAACATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTACAGATAACCC
1 AAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTTACAGATAACCC
* *
79850 TGAGGGTTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
66 TAAGGCTTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
79890 AAACATCA
1 AAACATCA
79898 TGCACTGTAG
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
105 38 0.37
107 65 0.63
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (105 bp):
AAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTTACAGATAACCC
TAAGGCTTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:79865 original size:257 final size:254
Alignment explanation
Indices: 79325--79995 Score: 791
Period size: 257 Copynumber: 2.6 Consensus size: 254
79315 CCTGGCAATG
* * * *
79325 AGATGACCCGAAGGTTTTGAAAACATCAAAAAGCA-CCCGAAGCCTTTTTGGAAACATCATGCAC
1 AGATAACCCTAAGGCTTT-AAAACATCAAAAAG-ATCCCGAAGGCTTTTTGGAAACATCATGCAC
79389 TGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
64 TGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
* * * * * * ** * * *
79454 ACATCAAAAAGCTCCTG-AAGACTTTTTG-GA--AACATCATGCACTGCAAGTCTTACAGATGAC
129 ACATC---ATGC-ACTGCAGGAC--TTAGAGATGAACATAAGGCACTGCAAAACATACAAAAGAC
* * * * * *
79515 CCTGAGGGTTTAAACATCAAAAGGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTT
188 CCCGAGGGTTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTT
79580 AC
253 AC
*
79582 AGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACT
1 AGATAACCCTAAGGCTTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACT
* * *
79647 GCAGGACTTACAGATGACCCTAAGGCTTTAAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAA
65 GTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAA
* * ** *
79712 CATCATGCACTGCAGGACTTAGAGATGACCCTAAGGCTTTG-AAAACAT-CAAAAGGCTCCCGAA
130 CATCATGCACTGCAGGACTTAGAGATGAACATAAGGCACTGCAAAACATACAAAAGAC-CCCG-A
* * *
79775 GGCTTTTTGGAAACATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTA
193 GG--GTTT--AAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTTA
79840 C
254 C
* * *
79841 AGATAACCCTGAGGGTTT-AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 AGATAACCCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTG
* *
79905 TAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAAC
66 TAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
* *
79970 ATCATCCACTGCAGGACTTACAGATG
131 ATCATGCACTGCAGGACTTAGAGATG
79996 TGGGAAATAG
Statistics
Matches: 361, Mismatches: 42, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
252 3 0.01
253 10 0.03
254 14 0.04
255 11 0.03
256 1 0.00
257 258 0.71
259 64 0.18
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (254 bp):
AGATAACCCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTG
TAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
ATCATGCACTGCAGGACTTAGAGATGAACATAAGGCACTGCAAAACATACAAAAGACCCCGAGGG
TTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTTAC
Found at i:79914 original size:74 final size:75
Alignment explanation
Indices: 79785--79994 Score: 323
Period size: 74 Copynumber: 2.8 Consensus size: 75
79775 GGCTTTTTGG
* * * *
79785 AAACATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTACAGATAACCC
1 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATAACCC
*
79850 TGAGGGTTT-
66 TGAGGCTTTA
* *
79859 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCC
1 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATAACCC
79924 TGAGGCTTTGA
66 TGAGGCTTT-A
* *
79935 AAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAACATCATCCACTGCAGGACTTACAGAT
1 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
79995 GTGGGAAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
74 67 0.54
76 57 0.46
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (75 bp):
AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATAACCC
TGAGGCTTTA
Found at i:79932 original size:333 final size:333
Alignment explanation
Indices: 79325--79995 Score: 1182
Period size: 333 Copynumber: 2.0 Consensus size: 333
79315 CCTGGCAATG
* *
79325 AGATGACCCGAAGGTTTTGAAAACATCAAAAAGCACCCGAAGCCTTTTTGGAAACATCATGCACT
1 AGATGACCCGAAGGCTTTAAAAACATCAAAAAGCACCCGAAGCCTTTTTGGAAACATCATGCACT
*
79390 GTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAA
66 GCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAA
* *
79455 CATCAAAAAGCTCCTGAAGACTTTTTGGAAACATCATGCACTGCAAGTCTTACAGATGACCCTGA
131 CATCAAAAAGCTCCTGAAGACTTTTTGAAAACATCATGCACTGCAAGTCTTACAGATAACCCTGA
* *
79520 GGGTTTAAACATCAAAAGGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
196 GGGTTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
*
79585 TGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCA
261 TGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATCCACTGCA
79650 GGACTTAC
326 GGACTTAC
* *
79658 AGATGACCCTAAGGCTTTAAAAACATCAAAAAG-ATCCCGAAGGCTTTTTGGAAACATCATGCAC
1 AGATGACCCGAAGGCTTTAAAAACATCAAAAAGCA-CCCGAAGCCTTTTTGGAAACATCATGCAC
* *
79722 TGCAGGACTTAGAGATGACCCTAAGGCTTTGAAAACATCAAAAGGCTCCCGAAGGCTTTTTGGAA
65 TGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
*
79787 ACATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTACAGATAACCCTG
130 ACATCAAAAAGCTCCTGAAGACTTTTTGAAAACATCATGCACTGCAAGTCTTACAGATAACCCTG
79852 AGGGTTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
195 AGGGTTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
* * *
79917 ATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAACATCATCCACTGC
260 ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATCCACTGC
79982 AGGACTTAC
325 AGGACTTAC
79991 AGATG
1 AGATG
79996 TGGGAAATAG
Statistics
Matches: 321, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
332 1 0.00
333 320 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (333 bp):
AGATGACCCGAAGGCTTTAAAAACATCAAAAAGCACCCGAAGCCTTTTTGGAAACATCATGCACT
GCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAA
CATCAAAAAGCTCCTGAAGACTTTTTGAAAACATCATGCACTGCAAGTCTTACAGATAACCCTGA
GGGTTTAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
TGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATCCACTGCA
GGACTTAC
Found at i:79962 original size:181 final size:182
Alignment explanation
Indices: 79597--79973 Score: 603
Period size: 181 Copynumber: 2.1 Consensus size: 182
79587 ACCCTAAGGC
* * *
79597 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGGAAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTTACAGAT
*
79662 GACCCTAAGGCTTTAAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
66 AACCCTAAGGCTTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
* *
79727 GACTTAGAGATGACCCTAAGGCTTTGAAAACATCAAAAGGCTCCCGAAGGCTT
130 GACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
* * *
79780 TTTGGAAACATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTACAGAT
1 TTTGGAAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTTACAGAT
* * * *
79845 AACCCTGAGGGTTT-AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGG
66 AACCCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGG
* *
79909 ACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCTT
131 ACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
79961 TTTGGAAACATCA
1 TTTGGAAACATCA
79974 TCCACTGCAG
Statistics
Matches: 179, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
181 109 0.61
183 70 0.39
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (182 bp):
TTTGGAAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGACTTACAGAT
AACCCTAAGGCTTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGG
ACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:80304 original size:165 final size:166
Alignment explanation
Indices: 79998--80321 Score: 542
Period size: 165 Copynumber: 2.0 Consensus size: 166
79988 TACAGATGTG
*
79998 GGAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
* ** * *
80063 TAGAATAGATTGAATGAGAAACTATGAAAATTGTTTTCTCATTATTTTTCAAAATAACATGTTGA
66 TAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTCGA
*
80128 TTGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
131 TTAGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
*
80164 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATTGTTTTCTTACTTTTCAACAATTTCA-TTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
* **
80228 TAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTGAAATAACATGTCGA
66 TAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTCGA
80293 TTAGGTAACATGCCCCAATCTCAAGATAA
131 TTAGGTAACATGCCCCAATCTCAAGATAA
80322 TGCTCATTTT
Statistics
Matches: 147, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
165 88 0.60
166 59 0.40
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (166 bp):
GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
TAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTCGA
TTAGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
Found at i:80861 original size:22 final size:22
Alignment explanation
Indices: 80836--80895 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
80826 AATAAAGCTT
*
80836 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
80858 TCATCTTTAAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATCTA
80880 TCATCTTTGAAAAGAG
1 TCATCTTTGAAAAGAG
80896 TGTAGATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:87808 original size:15 final size:15
Alignment explanation
Indices: 87790--87828 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
87780 ATAAAAGTAT
87790 AAATGCAAAAATAAA
1 AAATGCAAAAATAAA
* **
87805 AAATGCAAAGATGCA
1 AAATGCAAAAATAAA
87820 AAATGCAAA
1 AAATGCAAA
87829 TGCATGTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.64, C:0.10, G:0.13, T:0.13
Consensus pattern (15 bp):
AAATGCAAAAATAAA
Found at i:89307 original size:21 final size:20
Alignment explanation
Indices: 89244--89307 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
89234 TAATGAAATT
89244 TAATATT-TGAAAATAA-AA
1 TAATATTATGAAAATAATAA
* *
89262 TAATA-AAT-AAAAAATATAA
1 TAATATTATGAAAATA-ATAA
89281 TAAATATTATGAAAATAATAA
1 T-AATATTATGAAAATAATAA
89302 GTAATA
1 -TAATA
89308 AAAATTTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
17 5 0.14
18 7 0.20
19 3 0.09
20 4 0.11
21 10 0.29
22 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
TAATATTATGAAAATAATAA
Found at i:89318 original size:25 final size:23
Alignment explanation
Indices: 89278--89337 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
89268 ATAAAAAATA
*
89278 TAATAAATATTATGAAAATAATAAG
1 TAATAAAAATTATG-AAATAA-AAG
*
89303 TAATAAAAATTTTGAAATAAAAG
1 TAATAAAAATTATGAAATAAAAG
89326 -AATTAAAAATTA
1 TAA-TAAAAATTA
89338 AATAAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 2 0.06
23 11 0.35
24 6 0.19
25 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.32
Consensus pattern (23 bp):
TAATAAAAATTATGAAATAAAAG
Found at i:89825 original size:29 final size:29
Alignment explanation
Indices: 89793--89849 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
89783 ATTTCAAAAT
89793 TATAATTATGAAA-AAAATATTAATTTATA
1 TATAATTAT-AAATAAAATATTAATTTATA
* *
89822 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
89850 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:89944 original size:20 final size:19
Alignment explanation
Indices: 89905--89946 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
89895 TTTCTTCGAT
89905 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
89924 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
89944 ATT
1 ATT
89947 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:90057 original size:120 final size:120
Alignment explanation
Indices: 89818--90050 Score: 312
Period size: 120 Copynumber: 2.0 Consensus size: 120
89808 AATATTAATT
* * *
89818 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTGCCT
* *
89883 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
** * *
89938 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCAGGTGC
* * *
90002 TTTAAGACTGC-CCTTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAACA
64 CTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACA
90051 TGATTAAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
118 9 0.09
119 25 0.25
120 47 0.47
121 18 0.18
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.37
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTGCCT
TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:90147 original size:3 final size:3
Alignment explanation
Indices: 90139--90168 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
90129 TTTATGGCTA
*
90139 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
90169 TAAAAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:98030 original size:32 final size:32
Alignment explanation
Indices: 97994--98067 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
97984 TAAAAATAAT
* *
97994 AAATTTAATAATTATTTTACTA-TAATTGAATA
1 AAATTTAATAATCATTATA-TAGTAATTGAATA
* **
98026 AAATTTAATTATCATTATATAGTAATTTTATA
1 AAATTTAATAATCATTATATAGTAATTGAATA
98058 AAATTTAATA
1 AAATTTAATA
98068 CAAGAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (32 bp):
AAATTTAATAATCATTATATAGTAATTGAATA
Found at i:104566 original size:21 final size:20
Alignment explanation
Indices: 104528--104569 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
104518 TTAGAGGTAA
* *
104528 TAGGGTTATAGTTTAGGGTT
1 TAGGGTTATAATTAAGGGTT
104548 TAGGGTTTATAATTAAGGGTT
1 TAGGG-TTATAATTAAGGGTT
104569 T
1 T
104570 TAAGTTAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (20 bp):
TAGGGTTATAATTAAGGGTT
Found at i:105822 original size:2 final size:2
Alignment explanation
Indices: 105815--105875 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
105805 ACTCATAGTC
105815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105857 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
105876 CTAATTAACT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:107034 original size:20 final size:20
Alignment explanation
Indices: 106989--107040 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
106979 AGATGTTCCC
106989 TGGTATCGATACCCTCCACA
1 TGGTATCGATACCCTCCACA
* *
107009 TAGGTATCGATACCTCTTC-TA
1 T-GGTATCGATACC-CTCCACA
107030 TGGTATCGATA
1 TGGTATCGATA
107041 TTGTTCATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.39
21 14 0.50
22 3 0.11
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (20 bp):
TGGTATCGATACCCTCCACA
Found at i:107554 original size:11 final size:11
Alignment explanation
Indices: 107520--107555 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
107510 GTTTGATGCT
107520 TTCTCT-TTGA
1 TTCTCTCTTGA
*
107530 TTATCTCTTGA
1 TTCTCTCTTGA
107541 TTCTCTCTTGA
1 TTCTCTCTTGA
107552 TTCT
1 TTCT
107556 TGTTTCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 5 0.22
11 18 0.78
ACGTcount: A:0.11, C:0.22, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:107941 original size:20 final size:20
Alignment explanation
Indices: 107916--107953 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
107906 TGAAAAATTA
107916 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
* *
107936 ATTGGTGTATCGGTGCAT
1 ATTGGTGCATCGATGCAT
107954 CACTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.34, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:107947 original size:91 final size:91
Alignment explanation
Indices: 107782--107955 Score: 246
Period size: 91 Copynumber: 1.9 Consensus size: 91
107772 GGTGCACTAA
**
107782 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATGGTC
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATGGTC
* *
107847 TTGTTTATCGATGCATCAAATGCACT
66 TGGTGTATCGATGCATCAAATGCACT
*
107873 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAATTAATTG-GTGCATCGATGCATGG
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAA--AACTGAGTGCATCGATGCATGG
*
107936 AT-TGGTGTATCGGTGCATCA
64 -TCTGGTGTATCGATGCATCA
107956 CTTTGAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
90 9 0.12
91 62 0.84
92 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (91 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATGGTC
TGGTGTATCGATGCATCAAATGCACT
Found at i:113468 original size:21 final size:21
Alignment explanation
Indices: 113443--113499 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
113433 TACCAAGGAA
*
113443 GAGAATACCATTCATAAAGAC
1 GAGAAGACCATTCATAAAGAC
113464 GAGAAGACCATTCATAAAGAC
1 GAGAAGACCATTCATAAAGAC
113485 GAGAAGACCACTTCA
1 GAGAAGACCA-TTCA
113500 CATGGGGGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 30 0.88
22 4 0.12
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.16
Consensus pattern (21 bp):
GAGAAGACCATTCATAAAGAC
Found at i:117345 original size:36 final size:36
Alignment explanation
Indices: 117305--117422 Score: 175
Period size: 36 Copynumber: 3.2 Consensus size: 36
117295 AAAGTTAATT
*
117305 TTAAGCCTTCACCGGAGAGTAGTGAAGTAAA-CTATC
1 TTAAGCCTTCACCGGAGAGTAGTGAAGCAAATC-ATC
117341 TTAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATC
1 TTAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATC
* * *
117377 TTAAGCCTTTACCGAAGAGGAGTGAAGCAAATCATC
1 TTAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATC
117413 TATAAGCCTT
1 T-TAAGCCTT
117423 TAGAGAAAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
36 67 0.88
37 9 0.12
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (36 bp):
TTAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATC
Found at i:118026 original size:213 final size:214
Alignment explanation
Indices: 117408--118936 Score: 2391
Period size: 214 Copynumber: 7.2 Consensus size: 214
117398 GTGAAGCAAA
* *
117408 TCATCTATAAGCCTTTAGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
117473 ATGTTTTCACATGAA-TTGAAAGTGAAAAAAATGATGTTTTTAAGAAGATGAAATTTTTGAAAAC
66 ATGTTTTCACATGAATTTGAAAATG--AAAAATGATG-TTTTAAGAAGATGAAATTTTTGAAAAC
* * *
117537 TAAGAATGCGATTTTTAAAATTTCACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTTGAG
128 TAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
117602 CATGATGCTTAAATCCTTCGGG
193 CATGATGCTTAAATCCTTCGGG
117624 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCC-TCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
** **
117688 ATGTTTTCACATGAATTTGAAAATG-AATTTGAAATTTTAAGAAGAT-AAATTTTTGAAAACTAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* **
117751 GAATACGATTTTCAAAATTTCACAATTTATAAGTCCTTCAAGCCATCAGTAAGTCTTTTCGAGCA
131 GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTC-TTTCGAGCA
* **
117816 TGATGCATAAATTATTCGGG
195 TGATGCTTAAATCCTTCGGG
*
117836 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGAGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
* *
117901 ATGTTTTCATATGAATTTGAAAATGAAAAATGATGTTTT-AGAAGATGAAATTTTTGAAAACTAG
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* *
117965 GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGTGCCATTAGTAAGTCTTTCGAGCAT
131 GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
118030 GATGCTTAAATCCTTCGGG
196 GATGCTTAAATCCTTCGGG
*
118049 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
118114 ATGTTTTCACATGAA-TT-----TG---AA--A--TTTTAAGAAGATGAAATTTTTGAAAACTAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* * * *
118166 GAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATTAGTAAGACTTTTGAGCAT
131 GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
118231 GATGCTTAAATCCTTCGGG
196 GATGCTTAAATCCTTCGGG
* *
118250 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTTGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
118315 ATGTTTTCACATGAATTTGAAAATGAAAAAAGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
*
118380 GAATGCGATTTTCAAAATTTCACAA-TTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
131 GAATGCGATTTTCAAAATTTCACAATTTA-TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* *
118444 TGATGCTTAAATTCTTAGGG
195 TGATGCTTAAATCCTTCGGG
* *
118464 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCAGGTCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
118529 ATGTTTTCAAATGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCACATGAATTTGAAAATGA-AAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
** *
118594 AGAATGCGATTTTCAAAA--TCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTAACCA
130 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
118657 TGATGTTTAAATCCTTCGGG
195 TGATGCTTAAATCCTTCGGG
* * *
118677 TCATCCGTAAACCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
118742 ATGTTTTCACATGAATTTGAAAAT-AGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAGCTA
66 ATGTTTTCACATGAATTTGAAAATGA-AAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* ** *
118806 AGAATGTGATTTTCAAAATTTTGCAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
130 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
118871 TGATGCTTAAATCTTTCGGG
195 TGATGCTTAAATCCTTCGGG
* *
118891 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGACCATC
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATC
118937 AGTAAGTCTT
Statistics
Matches: 1208, Mismatches: 81, Indels: 50
0.90 0.06 0.04
Matches are distributed among these distances:
200 4 0.00
201 181 0.15
202 3 0.00
204 2 0.00
207 4 0.00
210 2 0.00
211 67 0.06
212 131 0.11
213 307 0.25
214 367 0.30
215 99 0.08
216 41 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (214 bp):
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGCTTAAATCCTTCGGG
Found at i:118059 original size:42 final size:41
Alignment explanation
Indices: 117993--118094 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 41
117983 TTCACAATTT
* * * * *
117993 ATAAGTCCTTCGTGCCAT-TAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCT-GTAAGCCTTTAGAGCAAGATG
* *
118034 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATG
*
118076 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
118095 CATAAGACCT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 16 0.33
42 32 0.65
43 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATG
Found at i:118307 original size:42 final size:43
Alignment explanation
Indices: 118194--118307 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 43
118184 TTCACAATTT
* *
118194 ATAAGTCCTTCGGGCCAT-TAGTAAGA-CTTTTGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCTA-TAAGACCTTTAGAGCAAGATGC
* * * *
118236 TTAAATCCTTCGGGTCATCTGTAAG-CCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCTATAAGACCTTTAGAGCAAGATGC
* *
118277 ATAAGTCCTTTGGGCCATCCATAAGACCTTT
1 ATAAGTCCTTCGGGCCATCTATAAGACCTTT
118308 GGGTAGGATG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 19 0.33
42 37 0.65
43 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (43 bp):
ATAAGTCCTTCGGGCCATCTATAAGACCTTTAGAGCAAGATGC
Found at i:118798 original size:427 final size:424
Alignment explanation
Indices: 117408--118936 Score: 2399
Period size: 427 Copynumber: 3.6 Consensus size: 424
117398 GTGAAGCAAA
* *
117408 TCATCTATAAGCCTTTAGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
117473 ATGTTTTCACATGAA-TTGAAAGTGAAAAAAATGATGTTTTTAAGAAGATGAAATTTTTGAAAAC
66 ATGTTTTCACATGAATTTGAAAATG--AAAAATGATG-TTTTAAGAAGATGAAATTTTTGAAAAC
* * * *
117537 TAAGAATGCGATTTTTAAAATTTCACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTTGAG
128 TAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAG
117602 CATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCC-TCGGGCC
193 CATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCC
**
117666 ATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAATTTGAAATTTTAAGAA
258 ATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAATG--ATTTTAAGAA
* **
117731 GAT-AAATTTTTGAAAACTAAGAATACGATTTTCAAAATTTCACAATTTATAAGTCCTTCAAGCC
321 GATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAA-TTCACAATTTATAAGTCCTTCGGGCC
* **
117795 ATCAGTAAGTCTTTTCGAGCATGATGCATAAATTATTCGGG
385 ATCAGTAAGTCTTTT-GAGCATGATGCTTAAATCCTTCGGG
*
117836 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGAGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
* *
117901 ATGTTTTCATATGAATTTGAAAATGAAAAATGATGTTTT-AGAAGATGAAATTTTTGAAAACTAG
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* * *
117965 GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGTGCCATTAGTAAGTCTTTCGAGCAT
131 GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCAT
118030 GATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATC
196 GATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATC
*
118095 CATAAGACCTTCGGGTAAGATGTTTTCACATGAA-TT-----TG--AA--ATTTTAAGAAGATGA
261 CATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAATGATTTTAAGAAGATGA
* *
118150 AATTTTTGAAAACTAAGAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATTAG
326 AATTTTTGAAAACTAAGAATGCGATTTTCAAAA-TTCACAATTTATAAGTCCTTCGGGCCATCAG
*
118215 TAAGACTTTTGAGCATGATGCTTAAATCCTTCGGG
390 TAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGG
* *
118250 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTTGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
118315 ATGTTTTCACATGAATTTGAAAATGAAAAAAGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
118380 GAATGCGATTTTCAAAATTTCACAA-TTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
131 GAATGCGATTTTCAAAATTTCACAATTTA-TAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
* * * *
118444 TGATGCTTAAATTCTTAGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCAGGTCAT
195 TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCAT
*
118509 CCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAGAAAATGATGTTTTAAGAA
260 CCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAAT--GAAAATGA--TTTTAAGAA
118574 GATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAA-TCACAATTTATAAGTCCTTCGGGCCA
321 GATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATTCACAATTTATAAGTCCTTCGGGCCA
* * *
118638 TCAGTAAGTCTTTTAACCATGATGTTTAAATCCTTCGGG
386 TCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGG
* * *
118677 TCATCCGTAAACCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
118742 ATGTTTTCACATGAATTTGAAAAT-AGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAGCTA
66 ATGTTTTCACATGAATTTGAAAATGA-AAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* **
118806 AGAATGTGATTTTCAAAATTTTGCAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
130 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
* * *
118871 TGATGCTTAAATCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGACCAT
195 TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCAT
118936 C
260 C
118937 AGTAAGTCTT
Statistics
Matches: 1019, Mismatches: 61, Indels: 43
0.91 0.05 0.04
Matches are distributed among these distances:
414 137 0.13
415 245 0.24
416 2 0.00
420 2 0.00
421 1 0.00
423 1 0.00
425 142 0.14
426 48 0.05
427 308 0.30
428 79 0.08
429 54 0.05
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (424 bp):
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
GAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCAT
GATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATC
CATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAATGATTTTAAGAAGATGA
AATTTTTGAAAACTAAGAATGCGATTTTCAAAATTCACAATTTATAAGTCCTTCGGGCCATCAGT
AAGTCTTTTGAGCATGATGCTTAAATCCTTCGGG
Found at i:118912 original size:42 final size:41
Alignment explanation
Indices: 118856--118988 Score: 124
Period size: 42 Copynumber: 3.2 Consensus size: 41
118846 GGGCCATCAA
*
118856 TAAGTCTTTCGAGCATGATGCTTAAATCTTTCGGGTCATCTG
1 TAAGCCTTTCGAGCATGATG-TTAAATCTTTCGGGTCATCTG
* * * * ** *
118898 TAAGCCTTTAGAGCAAGATGATAAGTCCTTT-GGACCATCAG
1 TAAGCCTTTCGAGCATGATGTTAAAT-CTTTCGGGTCATCTG
* * * *
118939 TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTG
1 TAAGCCTTTCGAGCATGATG-TTAAATCTTTCGGGTCATCTG
118981 TAAGCCTT
1 TAAGCCTT
118989 CACAGAAGAG
Statistics
Matches: 68, Mismatches: 20, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
41 31 0.46
42 37 0.54
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (41 bp):
TAAGCCTTTCGAGCATGATGTTAAATCTTTCGGGTCATCTG
Found at i:118974 original size:83 final size:83
Alignment explanation
Indices: 118835--118988 Score: 245
Period size: 83 Copynumber: 1.9 Consensus size: 83
118825 TTTGCAATTT
* * * *
118835 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCTTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGACCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTGTA
118900 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
* * *
118918 ATAAGTCCTTTGGACCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTA
1 ATAAGTCCTTCGGACCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTGTA
118983 AGCCTT
66 AGCCTT
118989 CACAGAAGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 64 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (83 bp):
ATAAGTCCTTCGGACCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:120130 original size:21 final size:21
Alignment explanation
Indices: 120100--120326 Score: 197
Period size: 21 Copynumber: 11.0 Consensus size: 21
120090 GATTTACATA
*
120100 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
120121 CTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
120142 TTCGCGTTGCGATTTATTCCAA-
1 TTCGCGTTGCGA--TAGTCCAAG
120164 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
120183 TT--CATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
120202 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
120225 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
120244 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
120267 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
120286 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
120309 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
120327 AATCGCAACG
Statistics
Matches: 169, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
18 7 0.04
19 44 0.26
20 8 0.05
21 76 0.45
22 2 0.01
23 32 0.19
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:120207 original size:60 final size:61
Alignment explanation
Indices: 120106--120246 Score: 239
Period size: 60 Copynumber: 2.3 Consensus size: 61
120096 CATATTCGCA
* *
120106 TTGCGATAGTCCAAGCTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC-AATTCG
1 TTGCGATAGTCCAAG-T-TCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
120168 TTGCGATAGTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
120229 TTGCGATAGTCCAAGTTC
1 TTGCGATAGTCCAAGTTC
120247 GCGTTGCGAT
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
60 36 0.47
61 25 0.33
62 15 0.20
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (61 bp):
TTGCGATAGTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:120233 original size:42 final size:42
Alignment explanation
Indices: 120106--120326 Score: 276
Period size: 42 Copynumber: 5.3 Consensus size: 42
120096 CATATTCGCA
* * * *
120106 TTGCGATAGTCCAAGCTCGCGTTGCGA--TAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT--CG
* * * *
120148 TTGCGATTTATTCCAA-TT--CGTTGCGA--TAGTCCAAGTTCA
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
120187 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
120229 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
120271 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
120313 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
120327 AATCGCAACG
Statistics
Matches: 162, Mismatches: 10, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
37 6 0.04
38 2 0.01
39 7 0.04
40 8 0.05
41 18 0.11
42 113 0.70
43 1 0.01
44 7 0.04
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Done.