Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007880.1 Hibiscus syriacus cultivar Beakdansim tig00110258_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: 1382630
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 3 of 5
Found at i:634445 original size:38 final size:39
Alignment explanation
Indices: 634403--634479 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
634393 TCACAAGCAG
* * *
634403 GCAATTCGAGGTCA-ATTCTTCATTCTTCATGATAAGAA
1 GCAATTCGAGGCCACAATCTTCATTCTTCAAGATAAGAA
*
634441 GCAATTCTAGGCCACAATCTTCATTCTTCAAGATAAGAA
1 GCAATTCGAGGCCACAATCTTCATTCTTCAAGATAAGAA
634480 TACTATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
38 12 0.35
39 22 0.65
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (39 bp):
GCAATTCGAGGCCACAATCTTCATTCTTCAAGATAAGAA
Found at i:635017 original size:17 final size:18
Alignment explanation
Indices: 634975--635012 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
634965 ATTTAAAATC
*
634975 TAGGGATAAGATTTAATT
1 TAGGAATAAGATTTAATT
*
634993 TAGGAATAAGATTTATTT
1 TAGGAATAAGATTTAATT
635011 TA
1 TA
635013 TAATATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (18 bp):
TAGGAATAAGATTTAATT
Found at i:653609 original size:24 final size:24
Alignment explanation
Indices: 653582--653637 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
653572 CAAACACGCT
653582 GATTATGATAAGATAATCGCTTGA
1 GATTATGATAAGATAATCGCTTGA
*
653606 GATTATGATAAGATAATCGTTTGA
1 GATTATGATAAGATAATCGCTTGA
653630 GATTATGA
1 GATTATGA
653638 GATCAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (24 bp):
GATTATGATAAGATAATCGCTTGA
Found at i:654891 original size:2 final size:2
Alignment explanation
Indices: 654884--654922 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
654874 AATAATTTTG
654884 AT AT AT AT -T 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
654923 GTAAGTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:662879 original size:6 final size:6
Alignment explanation
Indices: 662868--663575 Score: 1183
Period size: 6 Copynumber: 117.5 Consensus size: 6
662858 TCAGTGATTT
* *
662868 CATACA CATACA CATACA CATACA CATACACA CACACA CACACA CATACA
1 CATACA CATACA CATACA CATACA CAT--ACA CATACA CATACA CATACA
662918 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
* *
662966 CATACA C--ACA CACACA CATACA CATACA CATACA CATACACA CACACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CAT--ACA CATACA
*
663014 CATACA CATACA CATACA CATACA CATACA CATACA CATATA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
* *
663062 CATACA CATACACA CACACA CACACA CATACA CATACA CATACA CATACA
1 CATACA CAT--ACA CATACA CATACA CATACA CATACA CATACA CATACA
663112 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
* *
663160 CACACA CATACA CATACA CATACA CATACA CATACA C--ACA CACACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
* *
663206 CACACA CACACA CATACA CATACA CATACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
* * *
663254 CATACA CATACA CATACA CACACA TACACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
663302 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
663350 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
663398 CATACA CATACA CATACA CATACA CATACA CATACA CATACACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CAT--ACA CATACA
663448 CATACA CATACA CATACA CATACA CATACA CATACA CAT-CA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
663495 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
663543 CATACA CATACA CATACA CATACA CATACA CAT
1 CATACA CATACA CATACA CATACA CATACA CAT
663576 GATTGTTGCT
Statistics
Matches: 673, Mismatches: 16, Indels: 26
0.94 0.02 0.04
Matches are distributed among these distances:
4 8 0.01
5 5 0.01
6 639 0.95
8 21 0.03
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (6 bp):
CATACA
Found at i:663847 original size:4 final size:4
Alignment explanation
Indices: 663838--665727 Score: 2412
Period size: 4 Copynumber: 474.8 Consensus size: 4
663828 GCTAAATGTC
663838 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
663886 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
663934 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
663982 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664030 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664078 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
*
664126 GATA GATA GATA GATA GATA GATA G--A GATA GATA GATA GATA GAGA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664172 GATA GATA GATA GATA GATA GATA GAT- -ATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664218 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664266 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664314 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664362 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664410 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664458 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GAT-
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664505 -ATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664552 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664600 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664648 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664696 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664744 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664792 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
664840 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * **
664888 GATA GACA GACA GATA GACA GATA GACA GA-C GACA AATA GACG GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * *
664935 GATA GATA GACA GATA GACA GATA GACA GATT GACA AATA GACA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * * *
664983 GACT- GACA GACA GAGA GACA G-TCA GACA GACA GACA G-TCA GACA GACA
1 GA-TA GATA GATA GATA GATA GAT-A GATA GATA GATA GAT-A GATA GATA
* * * * * * * * * * *
665031 GACA GACA GACA GACA GACA GACA GACA G--A GAGA GACA GACA GACA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * * * * *
665077 GACA GACA GACA GACA GACA GACA GACA GACA GAGA GACA GACA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
** * * * * * * *
665125 GATA GACC GATA TATA GATA GACA GACA GATA GACA AACA GATA GACA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * *
665173 GACA GACA GACT- GACA GACA GATA GACA GACA GATA GATA GATA GATA
1 GATA GATA GA-TA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* *
665221 GATA GATA GATA GATA GATA GATA GATA GACA GACA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * *
665269 GACA GACA GATA GACA GACA GATA GACA GACA GACT- GACT- GACA GACA
1 GATA GATA GATA GATA GATA GATA GATA GATA GA-TA GA-TA GATA GATA
* * * * *
665317 GACA GACA GATA GATA GATA GATA GATA GATA GACA GACA GACA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * *
665365 GACA GACA AATA GATA GACA GACA GATA GACA GACA GACA GACT- GACT-
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GA-TA GA-TA
* * * * *
665413 GACT- GACA GATA GACA GATA GATA GACA GAGA GATA GATA GACA GATA
1 GA-TA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * * *
665461 GACA GACA GATA GACA GACA GACA GACA GACA GATA GATA GACA GACA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * *
665509 GATA GATA GATA GACA GACA GATA GATA GATA GACA GACA GATA GACA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * *
665557 GACA GACA GACA GACA GATA GATA GACA GACA GACA GATA GATA GACA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * *
665605 GACA GACA GATC GATA GATA GACA GACA GTTA GACA GACA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
* * * * * * * *
665653 GATA GATA GACA GATA GATA GACA GACA GACA GACA AACA GACA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
665701 GATA GATA GATA GATA GATA GATA GAT
1 GATA GATA GATA GATA GATA GATA GAT
665728 GTAATAATAA
Statistics
Matches: 1747, Mismatches: 118, Indels: 42
0.92 0.06 0.02
Matches are distributed among these distances:
2 8 0.00
3 2 0.00
4 1736 0.99
5 1 0.00
ACGTcount: A:0.49, C:0.07, G:0.25, T:0.19
Consensus pattern (4 bp):
GATA
Found at i:667195 original size:106 final size:105
Alignment explanation
Indices: 666910--667228 Score: 451
Period size: 107 Copynumber: 3.0 Consensus size: 105
666900 TATCTTGATG
* *** *
666910 ATGGAGGGCCTTGTCAACCCCTGAAAATTTTTTTAAAGGCTCAAGTACTCTCTCGACCCTTAGTG
1 ATGGAGAGCCTTGTCAA-CCCTGAAAA--AAATTAAAGGCTCAAGTACTCTCTCGACCCTTATTG
*
666975 GTTTTAAAATAAGGACAATCAAATTGTTATCACCTTTTTTAAA
63 GTTTTAAAATAAGGACAATCAAATTGTTATCACCTTTTTTTAA
* * *
667018 ATGGA-AGGCCTGGTGAAACCCTGAAAAAAAATTAAAGGCTCAAGTACTCTCTCAACCCTTATTG
1 ATGGAGA-GCCTTGT-CAACCCTG-AAAAAAATTAAAGGCTCAAGTACTCTCTCGACCCTTATTG
* *
667082 GTTTTAAAATAAGGACCATCAAATTATTATCACCTTTTTTTAA
63 GTTTTAAAATAAGGACAATCAAATTGTTATCACCTTTTTTTAA
*
667125 ATGGAGAGCCTTGTCAACTCCTGAAAAAAATTAAAGGCTCAAGTACTCTCTCGACCTTTATTGGT
1 ATGGAGAGCCTTGTCAAC-CCTGAAAAAAATTAAAGGCTCAAGTACTCTCTCGACCCTTATTGGT
*
667190 TTTAAAATAAGGGCAATCAAATTGTTATCACCTTTTTTT
65 TTTAAAATAAGGACAATCAAATTGTTATCACCTTTTTTT
667229 TTAAAGGGGT
Statistics
Matches: 188, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
106 79 0.42
107 86 0.46
108 17 0.09
109 6 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (105 bp):
ATGGAGAGCCTTGTCAACCCTGAAAAAAATTAAAGGCTCAAGTACTCTCTCGACCCTTATTGGTT
TTAAAATAAGGACAATCAAATTGTTATCACCTTTTTTTAA
Found at i:667829 original size:63 final size:63
Alignment explanation
Indices: 667757--667881 Score: 250
Period size: 63 Copynumber: 2.0 Consensus size: 63
667747 TCAAAAGCTC
667757 CCCCAAAGACATGCAATCTGTCGTGAAACATGAAGAAATAGGCCCTCAACAACGGTTTGGTTT
1 CCCCAAAGACATGCAATCTGTCGTGAAACATGAAGAAATAGGCCCTCAACAACGGTTTGGTTT
667820 CCCCAAAGACATGCAATCTGTCGTGAAACATGAAGAAATAGGCCCTCAACAACGGTTTGGTT
1 CCCCAAAGACATGCAATCTGTCGTGAAACATGAAGAAATAGGCCCTCAACAACGGTTTGGTT
667882 AAACCATTGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (63 bp):
CCCCAAAGACATGCAATCTGTCGTGAAACATGAAGAAATAGGCCCTCAACAACGGTTTGGTTT
Found at i:672479 original size:14 final size:14
Alignment explanation
Indices: 672416--672480 Score: 69
Period size: 14 Copynumber: 4.7 Consensus size: 14
672406 AAACATCCTC
672416 TTAGGGTTTAAGGT
1 TTAGGGTTTAAGGT
* *
672430 TTA-GGATTAAGAT
1 TTAGGGTTTAAGGT
* *
672443 TTATGGTTTATGGT
1 TTAGGGTTTAAGGT
* *
672457 TTTGAGTTTAAGGT
1 TTAGGGTTTAAGGT
672471 TTAGGGTTTA
1 TTAGGGTTTA
672481 GTACTTGAGA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
13 11 0.28
14 28 0.72
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:672650 original size:21 final size:20
Alignment explanation
Indices: 672615--672653 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
672605 ATTATCTATC
672615 ACATATATGTGTATATTACG
1 ACATATATGTGTATATTACG
*
672635 ACATATTATTTGTATATTA
1 ACATA-TATGTGTATATTA
672654 TATTAGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
ACATATATGTGTATATTACG
Found at i:673798 original size:83 final size:83
Alignment explanation
Indices: 673696--673854 Score: 318
Period size: 83 Copynumber: 1.9 Consensus size: 83
673686 TTCTTAGTAA
673696 ATGTTGATATAGACGTGTAAGTGAATATTATTCGTTATTGTTTATGTTATCGGTAAGCAAATAAT
1 ATGTTGATATAGACGTGTAAGTGAATATTATTCGTTATTGTTTATGTTATCGGTAAGCAAATAAT
673761 TAATGAAAGATATCATAT
66 TAATGAAAGATATCATAT
673779 ATGTTGATATAGACGTGTAAGTGAATATTATTCGTTATTGTTTATGTTATCGGTAAGCAAATAAT
1 ATGTTGATATAGACGTGTAAGTGAATATTATTCGTTATTGTTTATGTTATCGGTAAGCAAATAAT
673844 TAATGAAAGAT
66 TAATGAAAGAT
673855 GATATCATAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.40
Consensus pattern (83 bp):
ATGTTGATATAGACGTGTAAGTGAATATTATTCGTTATTGTTTATGTTATCGGTAAGCAAATAAT
TAATGAAAGATATCATAT
Found at i:677614 original size:5 final size:5
Alignment explanation
Indices: 677604--677642 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
677594 CAGTGTAAAG
* *
677604 ATTTT ATTTT ATTAT ATTTT ATTTT ATGTT AGTTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT ATT
677643 AAAAGGGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:680232 original size:21 final size:23
Alignment explanation
Indices: 680188--680244 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
680178 TCCCAAAATG
680188 ATATTGTAAAAAAATAATTTATTCT
1 ATATTGTAAAAAAATAA--TATTCT
680213 A-ATTGTAAAAAAATAA-ATTCT
1 ATATTGTAAAAAAATAATATTCT
*
680234 ATATTTTAAAA
1 ATATTGTAAAA
680245 TTGAAGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.20
22 8 0.27
24 15 0.50
25 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
ATATTGTAAAAAAATAATATTCT
Found at i:682476 original size:23 final size:24
Alignment explanation
Indices: 682430--682481 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
682420 TGGAACATGC
* *
682430 CACAAGAGCAGAGAAAAAGTGTGT
1 CACAAAAGCAGAGAAAAAGCGTGT
682454 CACAAAAGCAGAG-AAAAGCGTGT
1 CACAAAAGCAGAGAAAAAGCGTGT
682477 CACAA
1 CACAA
682482 GGACATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.48, C:0.17, G:0.25, T:0.10
Consensus pattern (24 bp):
CACAAAAGCAGAGAAAAAGCGTGT
Found at i:685935 original size:20 final size:20
Alignment explanation
Indices: 685901--685951 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
685891 TAATCCCCGC
*
685901 CCCGATTACCAGAATACCAGG
1 CCCGA-TACCCGAATACCAGG
*
685922 CCCGATACCCGAATACCCGG
1 CCCGATACCCGAATACCAGG
685942 CCCGATACCC
1 CCCGATACCC
685952 AGCCCGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.27, C:0.43, G:0.18, T:0.12
Consensus pattern (20 bp):
CCCGATACCCGAATACCAGG
Found at i:690488 original size:122 final size:122
Alignment explanation
Indices: 690333--690576 Score: 488
Period size: 122 Copynumber: 2.0 Consensus size: 122
690323 TTCTTGATCT
690333 CGAATTAGTCAATTATTAAATTAGAAACCAGTAGTTACAAAAAAAAAAAATTTCATACACCAATT
1 CGAATTAGTCAATTATTAAATTAGAAACCAGTAGTTACAAAAAAAAAAAATTTCATACACCAATT
690398 TTATTTTTGATAAATTTTATAAACCGTACACCTAAATCCAAACTTGTTTTCATAAAC
66 TTATTTTTGATAAATTTTATAAACCGTACACCTAAATCCAAACTTGTTTTCATAAAC
690455 CGAATTAGTCAATTATTAAATTAGAAACCAGTAGTTACAAAAAAAAAAAATTTCATACACCAATT
1 CGAATTAGTCAATTATTAAATTAGAAACCAGTAGTTACAAAAAAAAAAAATTTCATACACCAATT
690520 TTATTTTTGATAAATTTTATAAACCGTACACCTAAATCCAAACTTGTTTTCATAAAC
66 TTATTTTTGATAAATTTTATAAACCGTACACCTAAATCCAAACTTGTTTTCATAAAC
690577 AAAAATTTCT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.34
Consensus pattern (122 bp):
CGAATTAGTCAATTATTAAATTAGAAACCAGTAGTTACAAAAAAAAAAAATTTCATACACCAATT
TTATTTTTGATAAATTTTATAAACCGTACACCTAAATCCAAACTTGTTTTCATAAAC
Found at i:693134 original size:2 final size:2
Alignment explanation
Indices: 693129--693168 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
693119 TACGTTTTAT
*
693129 TA TA TA TA TA TA TA TA T- TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
693169 CTCTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:693200 original size:3 final size:3
Alignment explanation
Indices: 693181--693239 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
693171 CTTTTTATAC
* * ** *
693181 TAT T-T TAT TAT TTT TAT TAT TAT TCT TA- TAT TAT CCT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
693227 TAT TAT TAC TAT T
1 TAT TAT TAT TAT T
693240 TTTTTTTACT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:693204 original size:20 final size:20
Alignment explanation
Indices: 693172--693233 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
693162 TATATATCTC
*
693172 TTTTTA-TACTATTTTATTA
1 TTTTTATTATTATTTTATTA
693191 TTTTTATTATTATTCTTA-TA
1 TTTTTATTATTATT-TTATTA
* **
693211 TTATCCTTATTATTTTTATTA
1 TTTTTATTATTA-TTTTATTA
693232 TT
1 TT
693234 ACTATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 6 0.17
20 20 0.57
21 9 0.26
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTATTATTATTTTATTA
Found at i:693506 original size:22 final size:21
Alignment explanation
Indices: 693464--693507 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
693454 TTTTTTCATA
* *
693464 TTTTATTATTTTATTACTATT
1 TTTTATTATCTTATTAATATT
*
693485 TTTTTTTATCTTATTTAATATT
1 TTTTATTATCTTA-TTAATATT
693507 T
1 T
693508 AATATTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTATTATCTTATTAATATT
Found at i:693590 original size:21 final size:20
Alignment explanation
Indices: 693573--693626 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
693563 TAATTTATTG
693573 TTTATTTGTTTATT-TTTAT
1 TTTATTTGTTTATTATTTAT
693592 TTTATTTGTTTATTATCTTAT
1 TTTATTTGTTTATTAT-TTAT
*
693613 TTTATTTTTTTATT
1 TTTATTTGTTTATT
693627 GTTTGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.44
20 1 0.03
21 17 0.53
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTATTTGTTTATTATTTAT
Found at i:693612 original size:27 final size:25
Alignment explanation
Indices: 693566--693620 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
693556 AATTAATTAA
*
693566 TTTATTGTTTATTTGTTTATTTTTAT
1 TTTATTGTTTATTTGCTTA-TTTTAT
693592 TTTATTTGTTTATTAT-CTTATTTTAT
1 TTTA-TTGTTTATT-TGCTTATTTTAT
693618 TTT
1 TTT
693621 TTTATTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 13 0.50
27 12 0.46
28 1 0.04
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.76
Consensus pattern (25 bp):
TTTATTGTTTATTTGCTTATTTTAT
Found at i:693618 original size:32 final size:31
Alignment explanation
Indices: 693581--693647 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
693571 TGTTTATTTG
693581 TTTATTTTTATT-TTATTTGTTTATTATCTTAT
1 TTTATTTTT-TTATTATTTGTTT-TTATCTTAT
* *
693613 TTTATTTTTTTATTGTTTGTTTTTATCTTTT
1 TTTATTTTTTTATTATTTGTTTTTATCTTAT
693644 TTTA
1 TTTA
693648 CTTTCTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 14 0.44
32 18 0.56
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.78
Consensus pattern (31 bp):
TTTATTTTTTTATTATTTGTTTTTATCTTAT
Found at i:693647 original size:23 final size:23
Alignment explanation
Indices: 693617--693660 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
693607 TCTTATTTTA
*
693617 TTTTTTTA-TTGTTTGTTTTTATC
1 TTTTTTTACTT-TCTGTTTTTATC
693640 TTTTTTTACTTTCTGTTTTTA
1 TTTTTTTACTTTCTGTTTTTA
693661 AGTTGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTTTTACTTTCTGTTTTTATC
Found at i:699802 original size:173 final size:173
Alignment explanation
Indices: 699513--699858 Score: 676
Period size: 173 Copynumber: 2.0 Consensus size: 173
699503 GAACCAAAAG
699513 AGAGGTTATTGGCAAGATCGAGGTACCGTTGACCATCGGACCTGCCACCTATGACGTCGAGTTCC
1 AGAGGTTATTGGCAAGATCGAGGTACCGTTGACCATCGGACCTGCCACCTATGACGTCGAGTTCC
699578 TTGTGATGGATATCATGCCGTCCTATAGCTGTCTTTTGGGAAGGCCATGGATTCATCAAGCAGGT
66 TTGTGATGGATATCATGCCGTCCTATAGCTGTCTTTTGGGAAGGCCATGGATTC-TCAAGCAGGT
699643 GCAGTACCCTTCACGCTGCACCAAAAAGTC-AATTTGTTATTGA
130 GCAGTACCCTTCACGCTGCACCAAAAAGTCAAATTTGTTATTGA
699686 AGAGGTTATTGGCAAGATCGAGGTACCGTTGACCATCGGACCTGCCACCTATGACGTCGAGTTCC
1 AGAGGTTATTGGCAAGATCGAGGTACCGTTGACCATCGGACCTGCCACCTATGACGTCGAGTTCC
699751 TTGTGATGGATATCATGCCGTCCTATAGCTGTCTTTTGGGAAGGCCATGGATTCTCAAGCAGGTG
66 TTGTGATGGATATCATGCCGTCCTATAGCTGTCTTTTGGGAAGGCCATGGATTCTCAAGCAGGTG
699816 CAGTACCCTTCACGCTGCACCAAAAAGTCAAATTTGTTATTGA
131 CAGTACCCTTCACGCTGCACCAAAAAGTCAAATTTGTTATTGA
699859 CGGGGCCTTG
Statistics
Matches: 172, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
172 40 0.23
173 132 0.77
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (173 bp):
AGAGGTTATTGGCAAGATCGAGGTACCGTTGACCATCGGACCTGCCACCTATGACGTCGAGTTCC
TTGTGATGGATATCATGCCGTCCTATAGCTGTCTTTTGGGAAGGCCATGGATTCTCAAGCAGGTG
CAGTACCCTTCACGCTGCACCAAAAAGTCAAATTTGTTATTGA
Found at i:704186 original size:18 final size:18
Alignment explanation
Indices: 704149--704186 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
704139 CCTTGTTTCC
*
704149 TTTAATATAAATAAAGAT
1 TTTAATATAAATAAAAAT
704167 TTTAA-ATAAATGAAAAAT
1 TTTAATATAAAT-AAAAAT
704185 TT
1 TT
704187 AAGGGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
TTTAATATAAATAAAAAT
Found at i:707083 original size:13 final size:13
Alignment explanation
Indices: 707065--707090 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
707055 ATTTGAGTAA
707065 GTTTTTGTTTCTC
1 GTTTTTGTTTCTC
707078 GTTTTTGTTTCTC
1 GTTTTTGTTTCTC
707091 CCAACTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (13 bp):
GTTTTTGTTTCTC
Found at i:708360 original size:29 final size:28
Alignment explanation
Indices: 708317--708494 Score: 205
Period size: 29 Copynumber: 6.2 Consensus size: 28
708307 CGTTGGCCGG
*
708317 GTGATATTTTAGTAATTATTTTGAAAAT
1 GTGATATTTTGGTAATTATTTTGAAAAT
*
708345 GATGGTATTTTGGTAATTATTTTGAAAAT
1 G-TGATATTTTGGTAATTATTTTGAAAAT
* * * * *
708374 GATGCTATTTTCGT-ATTTTTTTTAAAAA
1 G-TGATATTTTGGTAATTATTTTGAAAAT
* *
708402 GTAATATTTTGGTTATTATTTTGAAAAAT
1 GTGATATTTTGGTAATTATTTTG-AAAAT
708431 GTGATATTTTGGTAATTATTTTGAAAAT
1 GTGATATTTTGGTAATTATTTTGAAAAT
**
708459 GGTGATATTTTGAAAATTATTTTGAAAAT
1 -GTGATATTTTGGTAATTATTTTGAAAAT
708488 GGTGATA
1 -GTGATA
708495 ATTGTGTAAA
Statistics
Matches: 129, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
27 9 0.07
28 25 0.19
29 95 0.74
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (28 bp):
GTGATATTTTGGTAATTATTTTGAAAAT
Found at i:708411 original size:56 final size:57
Alignment explanation
Indices: 708317--708494 Score: 191
Period size: 57 Copynumber: 3.1 Consensus size: 57
708307 CGTTGGCCGG
* **
708317 GTGATATTTTAGTAATTATTTTGAAAAT-GATGGTATTTTGGTAATTATTTTGAAAAT
1 GTGATATTTTCGTAATTATTTTGAAAATAG-TAATATTTTGGTAATTATTTTGAAAAT
* * * *
708374 GATGCTATTTTCGT-ATTTTTTTTAAAA-AGTAATATTTTGGTTATTATTTTGAAAAAT
1 G-TGATATTTTCGTAATTATTTTGAAAATAGTAATATTTTGGTAATTATTTTG-AAAAT
* * * **
708431 GTGATATTTTGGTAATTATTTTGAAAATGGTGATATTTTGAAAATTATTTTGAAAAT
1 GTGATATTTTCGTAATTATTTTGAAAATAGTAATATTTTGGTAATTATTTTGAAAAT
708488 GGTGATA
1 -GTGATA
708495 ATTGTGTAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
56 29 0.29
57 35 0.35
58 35 0.35
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (57 bp):
GTGATATTTTCGTAATTATTTTGAAAATAGTAATATTTTGGTAATTATTTTGAAAAT
Found at i:708469 original size:17 final size:17
Alignment explanation
Indices: 708447--708509 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
708437 TTTTGGTAAT
708447 TATTTTGAAAATGGTGA
1 TATTTTGAAAATGGTGA
708464 TATTTTGAAAA---T--
1 TATTTTGAAAATGGTGA
708476 TATTTTGAAAATGGTGA
1 TATTTTGAAAATGGTGA
*
708493 TAATTGTGTAAAATGGT
1 T-ATTTTG-AAAATGGT
708510 TGATCATCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
12 11 0.29
14 1 0.03
15 1 0.03
17 12 0.32
18 5 0.13
19 8 0.21
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.43
Consensus pattern (17 bp):
TATTTTGAAAATGGTGA
Found at i:708552 original size:10 final size:10
Alignment explanation
Indices: 708528--708568 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
708518 TATTGATCAC
708528 CTTTGACCAGAA
1 CTTTGACC-G-A
*
708540 CTTTGACTGA
1 CTTTGACCGA
708550 CTTTGACCGA
1 CTTTGACCGA
708560 CTTTGACCG
1 CTTTGACCG
708569 GCCATTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 19 0.70
11 1 0.04
12 7 0.26
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (10 bp):
CTTTGACCGA
Found at i:718044 original size:5 final size:5
Alignment explanation
Indices: 718032--719244 Score: 944
Period size: 5 Copynumber: 242.6 Consensus size: 5
718022 CATAACATAG
* * * * * * * * *
718032 CATGA CATAA CATAA CATAA CATTA CATAA CATAA TATAA CATGA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
*
718082 CATGA CATAA CATGA CAT-A GCATGA CAT-A GCATGA CAT-A TCATGA
1 CATGA CATGA CATGA CATGA -CATGA CATGA -CATGA CATGA -CATGA
* * * * *
718127 CAT-A GCATGA CAT-A GCATGA TATCA CATGA CATAA CATAA CATGA CATCA
1 CATGA -CATGA CATGA -CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * *
718177 CATAA CATCA CATAA CATGA CATGA CATGA CATGA CATGA CATGG CATGG
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * * * * *
718227 CATGG CATGG CATGG CATAA CATGG CATAA CATGG CATAA CATGA CATGA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * *
718277 CATGA CATAA CATGA CATGA CATGA TATGA CATGA CATAA CATAA CATGA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
718327 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * *
718377 CATGA CATGA CATGA CATGA CATGA GATGT CATGA CATGA CATGA CGTGA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* ** * * * * * * * *
718427 CGTGA TGTGA CGTGA CGTGA CGTGA CGTGA CGTGA CGTGA GATGT CATGA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * * * *
718477 CATGA CATGA GATGT CATGA CATGA CGTGA CGTGA CGTGA CGTGA CGTGA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * *
718527 CGTGA CGTGA -AGTGA CATGA CGTGA CATGA CGTGA CTTGA CATGA CATGA
1 CATGA CATGA CA-TGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * *
718577 CATGA CATGA CATGA CATGA CATGA CATAA CATGA CATAA CATGA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * *
718627 CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * *
718677 CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * *
718727 CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * *
718777 CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * *
718827 CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * *
718877 CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA CATGA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * * * * * * *
718927 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * * * * * * *
718977 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * * * * * * *
719027 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * * * * * * *
719077 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * * * * * * *
719127 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * * * * * * * * *
719177 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
1 CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA CATGA
* * *
719227 CATAA CATAA CATAA CAT
1 CATGA CATGA CATGA CAT
719245 AGAAGACAAA
Statistics
Matches: 1069, Mismatches: 127, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
4 5 0.00
5 1058 0.99
6 6 0.01
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.21
Consensus pattern (5 bp):
CATGA
Found at i:719245 original size:10 final size:10
Alignment explanation
Indices: 718026--719245 Score: 1335
Period size: 10 Copynumber: 121.5 Consensus size: 10
718016 GAATATCATA
*
718026 ACATAGCATG
1 ACATAACATG
*
718036 ACATAACATA
1 ACATAACATG
*
718046 ACATAACATT
1 ACATAACATG
*
718056 ACATAACATA
1 ACATAACATG
*
718066 ATATAACATG
1 ACATAACATG
718076 ACATAACATG
1 ACATAACATG
718086 ACATAACATG
1 ACATAACATG
*
718096 ACATAGCATG
1 ACATAACATG
*
718106 ACATAGCATG
1 ACATAACATG
*
718116 ACATATCATG
1 ACATAACATG
*
718126 ACATAGCATG
1 ACATAACATG
*
718136 ACATAGCATG
1 ACATAACATG
* *
718146 ATATCACATG
1 ACATAACATG
*
718156 ACATAACATA
1 ACATAACATG
* *
718166 ACATGACATC
1 ACATAACATG
*
718176 ACATAACATC
1 ACATAACATG
718186 ACATAACATG
1 ACATAACATG
*
718196 ACATGACATG
1 ACATAACATG
*
718206 ACATGACATG
1 ACATAACATG
*
718216 ACATGGCATGGCATG
1 ACAT---A--ACATG
* **
718231 GCATGGCATG
1 ACATAACATG
*
718241 GCATAACATG
1 ACATAACATG
*
718251 GCATAACATG
1 ACATAACATG
*
718261 GCATAACATG
1 ACATAACATG
*
718271 ACATGACATG
1 ACATAACATG
718281 ACATAACATG
1 ACATAACATG
*
718291 ACATGACATG
1 ACATAACATG
* *
718301 ATATGACATG
1 ACATAACATG
*
718311 ACATAACATA
1 ACATAACATG
*
718321 ACATGACATG
1 ACATAACATG
*
718331 ACATGACATG
1 ACATAACATG
*
718341 ACATGACATG
1 ACATAACATG
*
718351 ACATGACATG
1 ACATAACATG
*
718361 ACATGACATG
1 ACATAACATG
*
718371 ACATGACATG
1 ACATAACATG
*
718381 ACATGACATG
1 ACATAACATG
*
718391 ACATGACATG
1 ACATAACATG
* **
718401 AGATGTCATG
1 ACATAACATG
*
718411 ACATGACATG
1 ACATAACATG
* * *
718421 ACGTGACGTG
1 ACATAACATG
** * *
718431 ATGTGACGTG
1 ACATAACATG
* * *
718441 ACGTGACGTG
1 ACATAACATG
* * *
718451 ACGTGACGTG
1 ACATAACATG
* * *
718461 ACGTGAGATG
1 ACATAACATG
* *
718471 TCATGACATG
1 ACATAACATG
* *
718481 ACATGAGATG
1 ACATAACATG
* *
718491 TCATGACATG
1 ACATAACATG
* * *
718501 ACGTGACGTG
1 ACATAACATG
* * *
718511 ACGTGACGTG
1 ACATAACATG
* * *
718521 ACGTGACGTG
1 ACATAACATG
* *
718531 ACGTGAA-GTG
1 ACAT-AACATG
* *
718541 ACATGACGTG
1 ACATAACATG
* *
718551 ACATGACGTG
1 ACATAACATG
* *
718561 ACTTGACATG
1 ACATAACATG
*
718571 ACATGACATG
1 ACATAACATG
*
718581 ACATGACATG
1 ACATAACATG
*
718591 ACATGACATG
1 ACATAACATG
718601 ACATAACATG
1 ACATAACATG
718611 ACATAACATG
1 ACATAACATG
718621 ACATAACATG
1 ACATAACATG
718631 ACATAACATG
1 ACATAACATG
718641 ACATAACATG
1 ACATAACATG
718651 ACATAACATG
1 ACATAACATG
718661 ACATAACATG
1 ACATAACATG
718671 ACATAACATG
1 ACATAACATG
718681 ACATAACATG
1 ACATAACATG
718691 ACATAACATG
1 ACATAACATG
718701 ACATAACATG
1 ACATAACATG
718711 ACATAACATG
1 ACATAACATG
718721 ACATAACATG
1 ACATAACATG
718731 ACATAACATG
1 ACATAACATG
718741 ACATAACATG
1 ACATAACATG
718751 ACATAACATG
1 ACATAACATG
718761 ACATAACATG
1 ACATAACATG
718771 ACATAACATG
1 ACATAACATG
718781 ACATAACATG
1 ACATAACATG
718791 ACATAACATG
1 ACATAACATG
718801 ACATAACATG
1 ACATAACATG
718811 ACATAACATG
1 ACATAACATG
718821 ACATAACATG
1 ACATAACATG
718831 ACATAACATG
1 ACATAACATG
718841 ACATAACATG
1 ACATAACATG
718851 ACATAACATG
1 ACATAACATG
718861 ACATAACATG
1 ACATAACATG
718871 ACATAACATG
1 ACATAACATG
718881 ACATAACATG
1 ACATAACATG
718891 ACATAACATG
1 ACATAACATG
718901 ACATAACATG
1 ACATAACATG
718911 ACATAACATG
1 ACATAACATG
*
718921 ACATAACATA
1 ACATAACATG
*
718931 ACATAACATA
1 ACATAACATG
*
718941 ACATAACATA
1 ACATAACATG
*
718951 ACATAACATA
1 ACATAACATG
*
718961 ACATAACATA
1 ACATAACATG
*
718971 ACATAACATA
1 ACATAACATG
*
718981 ACATAACATA
1 ACATAACATG
*
718991 ACATAACATA
1 ACATAACATG
*
719001 ACATAACATA
1 ACATAACATG
*
719011 ACATAACATA
1 ACATAACATG
*
719021 ACATAACATA
1 ACATAACATG
*
719031 ACATAACATA
1 ACATAACATG
*
719041 ACATAACATA
1 ACATAACATG
*
719051 ACATAACATA
1 ACATAACATG
*
719061 ACATAACATA
1 ACATAACATG
*
719071 ACATAACATA
1 ACATAACATG
*
719081 ACATAACATA
1 ACATAACATG
*
719091 ACATAACATA
1 ACATAACATG
*
719101 ACATAACATA
1 ACATAACATG
*
719111 ACATAACATA
1 ACATAACATG
*
719121 ACATAACATA
1 ACATAACATG
*
719131 ACATAACATA
1 ACATAACATG
*
719141 ACATAACATA
1 ACATAACATG
*
719151 ACATAACATA
1 ACATAACATG
*
719161 ACATAACATA
1 ACATAACATG
*
719171 ACATAACATA
1 ACATAACATG
*
719181 ACATAACATA
1 ACATAACATG
*
719191 ACATAACATA
1 ACATAACATG
*
719201 ACATAACATA
1 ACATAACATG
*
719211 ACATAACATA
1 ACATAACATG
*
719221 ACATAACATA
1 ACATAACATG
*
719231 ACATAACATA
1 ACATAACATG
719241 ACATA
1 ACATA
719246 GAAGACAAAT
Statistics
Matches: 1138, Mismatches: 65, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
9 1 0.00
10 1129 0.99
11 1 0.00
15 7 0.01
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.21
Consensus pattern (10 bp):
ACATAACATG
Found at i:723389 original size:30 final size:31
Alignment explanation
Indices: 723335--723392 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
723325 ATGATAGTAG
723335 AGTGATCATTTTGTTACAAATCGATAACTTA
1 AGTGATCATTTTGTTACAAATCGATAACTTA
723366 AGTGATCATTTTGTTAC-AATCGATAAC
1 AGTGATCATTTTGTTACAAATCGATAAC
723393 ATTAGTAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (31 bp):
AGTGATCATTTTGTTACAAATCGATAACTTA
Found at i:724592 original size:21 final size:21
Alignment explanation
Indices: 724566--724613 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
724556 TAATTTTCAA
724566 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
724587 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
724608 ACATTG
1 ACATTG
724614 CAATATTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:730454 original size:20 final size:20
Alignment explanation
Indices: 730425--730471 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
730415 TCGCTCTTGT
730425 GCTT-GCTTACCACAAACCA
1 GCTTGGCTTACCACAAACCA
730444 GCTTGGCTTACCACAAACCA
1 GCTTGGCTTACCACAAACCA
730464 GCTTGGCT
1 GCTTGGCT
730472 AGCTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (20 bp):
GCTTGGCTTACCACAAACCA
Found at i:733531 original size:5 final size:5
Alignment explanation
Indices: 733523--733548 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
733513 TATTAGGCCA
733523 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
733549 TATAAGGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:733636 original size:29 final size:28
Alignment explanation
Indices: 733604--733677 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
733594 ATAAATAATA
*
733604 AAAATAAATAAAACAAGAGGGACT-AAATT
1 AAAATAAATAAAACAACAGGGA-TGAAA-T
* *
733633 AAAATATATCAAAATC-ACATGGATGAAAT
1 AAAATAAAT-AAAA-CAACAGGGATGAAAT
733662 AAAATAAATAAAACAA
1 AAAATAAATAAAACAA
733678 AATATAGTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
27 1 0.03
28 5 0.14
29 18 0.49
30 12 0.32
31 1 0.03
ACGTcount: A:0.64, C:0.08, G:0.09, T:0.19
Consensus pattern (28 bp):
AAAATAAATAAAACAACAGGGATGAAAT
Found at i:734006 original size:2 final size:2
Alignment explanation
Indices: 733999--734029 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
733989 AAAACTAAGA
733999 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
734030 ATCTCATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:737281 original size:18 final size:18
Alignment explanation
Indices: 737258--737303 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
737248 ACCGGTCATA
737258 ACCCGACCCGACAAGTTG
1 ACCCGACCCGACAAGTTG
*
737276 ACCCGACCCGACCAGTTG
1 ACCCGACCCGACAAGTTG
737294 ACCCGACCCG
1 ACCCGACCCG
737304 TTGACCCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.46, G:0.22, T:0.09
Consensus pattern (18 bp):
ACCCGACCCGACAAGTTG
Found at i:737296 original size:13 final size:13
Alignment explanation
Indices: 737280--737311 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
737270 AAGTTGACCC
737280 GACCCGACCAGTT
1 GACCCGACCAGTT
*
737293 GACCCGACCCGTT
1 GACCCGACCAGTT
737306 GACCCG
1 GACCCG
737312 TTGACCGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.44, G:0.25, T:0.12
Consensus pattern (13 bp):
GACCCGACCAGTT
Found at i:739898 original size:24 final size:24
Alignment explanation
Indices: 739776--739891 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
739766 TTCGATTTAA
739776 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
739800 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
739824 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* * *
739848 ATTATGATCTGTTACTTGAC-TTG
1 ATTCTGATCTGATACTTGACATGG
*
739871 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
739892 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 4 0.05
24 77 0.94
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:739908 original size:24 final size:24
Alignment explanation
Indices: 739828--739901 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
739818 ACATGGATTC
*
739828 TGATCTGATACTTGACTTGGA-TTA
1 TGATATGATACTTGACTT-GATTTA
* * *
739852 TGATCTGTTACTTGACTTGATTTC
1 TGATATGATACTTGACTTGATTTA
*
739876 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACTTGATTTA
739900 TG
1 TG
739902 TTTTGATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.45
Consensus pattern (24 bp):
TGATATGATACTTGACTTGATTTA
Found at i:745809 original size:26 final size:25
Alignment explanation
Indices: 745760--745810 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
745750 ATAGATAACT
*
745760 AATATTCATAATAAAAATATGAGAA
1 AATATTCATAATAAAAATAAGAGAA
745785 AATATTCATTAA-AAAAATAAAGAGAA
1 AATATTCA-TAATAAAAAT-AAGAGAA
745811 TCTCAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (25 bp):
AATATTCATAATAAAAATAAGAGAA
Found at i:746215 original size:16 final size:16
Alignment explanation
Indices: 746196--746230 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
746186 TATACAATTT
*
746196 ATATATTGCCACTAGG
1 ATATAATGCCACTAGG
*
746212 ATATAATGCCACTTGG
1 ATATAATGCCACTAGG
746228 ATA
1 ATA
746231 ATGCACTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (16 bp):
ATATAATGCCACTAGG
Found at i:746301 original size:2 final size:2
Alignment explanation
Indices: 746294--746344 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
746284 CTTGTTTTTA
746294 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
746336 AT AT AT AT A
1 AT AT AT AT A
746345 ATGTTTAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:746929 original size:37 final size:36
Alignment explanation
Indices: 746888--747042 Score: 171
Period size: 33 Copynumber: 4.4 Consensus size: 36
746878 TATTTTAGAA
*
746888 ATTAGGTAGTACATAGGTATATATTATATTATACTAG
1 ATTAGGTAGTACATAGGTATATA-TATATTAGACTAG
* *
746925 ATTAGGTAGTACATA-G-CTA-ATATGTTAGACT-G
1 ATTAGGTAGTACATAGGTATATATATATTAGACTAG
*
746957 AATTAGGTAGTACATAGATATATATTATATTAGACTAG
1 -ATTAGGTAGTACATAGGTATATA-TATATTAGACTAG
* *
746995 ATTAGGTAGTACATAGCTA-ATAT-T-TTAGACTAA
1 ATTAGGTAGTACATAGGTATATATATATTAGACTAG
*
747028 ATTAAGTAGTACATA
1 ATTAGGTAGTACATA
747043 TGTTACGTTC
Statistics
Matches: 103, Mismatches: 9, Indels: 16
0.80 0.07 0.12
Matches are distributed among these distances:
32 1 0.01
33 46 0.45
34 2 0.02
35 5 0.05
36 5 0.05
37 43 0.42
38 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (36 bp):
ATTAGGTAGTACATAGGTATATATATATTAGACTAG
Found at i:746985 original size:70 final size:70
Alignment explanation
Indices: 746886--747042 Score: 269
Period size: 70 Copynumber: 2.2 Consensus size: 70
746876 AATATTTTAG
* *
746886 AAATTAGGTAGTACATAGGTATATATTATATTATACTAGATTAGGTAGTACATAGCTAATATGTT
1 AAATTAGGTAGTACATAGATATATATTATATTAGACTAGATTAGGTAGTACATAGCTAATATGTT
746951 AGACT
66 AGACT
* *
746956 GAATTAGGTAGTACATAGATATATATTATATTAGACTAGATTAGGTAGTACATAGCTAATATTTT
1 AAATTAGGTAGTACATAGATATATATTATATTAGACTAGATTAGGTAGTACATAGCTAATATGTT
747021 AGACT
66 AGACT
*
747026 AAATTAAGTAGTACATA
1 AAATTAGGTAGTACATA
747043 TGTTACGTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 81 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (70 bp):
AAATTAGGTAGTACATAGATATATATTATATTAGACTAGATTAGGTAGTACATAGCTAATATGTT
AGACT
Found at i:747413 original size:107 final size:106
Alignment explanation
Indices: 747226--747439 Score: 356
Period size: 107 Copynumber: 2.0 Consensus size: 106
747216 TATCTTGATG
*
747226 ATGGAGGGCCTTGTCAACCCCTGAAAAAAATTAAAGGCTCAAGTACTCTCTCGACCCTTATTGGT
1 ATGGAGGGCCTTGTCAACCCCTGAAAAAAATTAAAGGCTCAAGTACTCTCTCGACCCTTATTAGT
*
747291 TTTAAAATAAAGGCAATCAAATTGTTATTACCTTTTTTTAA
66 TTTAAAATAAAGGCAATCAAATTGTTATCACCTTTTTTTAA
* * * *
747332 ATGGAGGGCCTTGTCAACCCTTGAAAAAAAATTAAAGGCTCTAGTACTTTTTCGACCCTTATTAG
1 ATGGAGGGCCTTGTCAACCCCTG-AAAAAAATTAAAGGCTCAAGTACTCTCTCGACCCTTATTAG
*
747397 TTTTAAAATAAGGGCAATCAAATTGTTATCACCTTTTTTTAA
65 TTTTAAAATAAAGGCAATCAAATTGTTATCACCTTTTTTTAA
747439 A
1 A
747440 GAGGTTTTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
106 22 0.22
107 78 0.78
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (106 bp):
ATGGAGGGCCTTGTCAACCCCTGAAAAAAATTAAAGGCTCAAGTACTCTCTCGACCCTTATTAGT
TTTAAAATAAAGGCAATCAAATTGTTATCACCTTTTTTTAA
Found at i:756927 original size:17 final size:17
Alignment explanation
Indices: 756901--756945 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
756891 TTCACTTATT
*
756901 TTTGGATCATAAGGGTA
1 TTTGGGTCATAAGGGTA
756918 TTTGGGTCATAAGGGTA
1 TTTGGGTCATAAGGGTA
*
756935 TTTAGGTCATA
1 TTTGGGTCATA
756946 TAAGTACTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (17 bp):
TTTGGGTCATAAGGGTA
Found at i:758229 original size:17 final size:17
Alignment explanation
Indices: 758203--758247 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
758193 TTCACTTATT
*
758203 TTTGGATCATAAGGGTA
1 TTTGGGTCATAAGGGTA
758220 TTTGGGTCATAAGGGTA
1 TTTGGGTCATAAGGGTA
*
758237 TTTAGGTCATA
1 TTTGGGTCATA
758248 TAAGTACTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (17 bp):
TTTGGGTCATAAGGGTA
Found at i:759534 original size:17 final size:17
Alignment explanation
Indices: 759512--759550 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
759502 TATTTTTTGA
*
759512 TCATAAGGGTATTTGGG
1 TCATAAGGGTATTTAGG
759529 TCATAAGGGTATTTAGG
1 TCATAAGGGTATTTAGG
759546 TCATA
1 TCATA
759551 TAAGTACTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (17 bp):
TCATAAGGGTATTTAGG
Found at i:764625 original size:30 final size:30
Alignment explanation
Indices: 764589--764661 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
764579 GGACTATTTC
*
764589 ATAAAATTAAAAATATAAAGACATTTAATA
1 ATAAAATTAAAAATATAAAGACACTTAATA
* * *
764619 ATAAAATTAAAAATTTAAGGACCCTTAATA
1 ATAAAATTAAAAATATAAAGACACTTAATA
764649 ATAAAATTAAAAA
1 ATAAAATTAAAAA
764662 GTAGGGCACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (30 bp):
ATAAAATTAAAAATATAAAGACACTTAATA
Found at i:764747 original size:19 final size:20
Alignment explanation
Indices: 764708--764747 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
764698 CGGCACTAAT
*
764708 TTTAAAATTTTAAATATTAA
1 TTTAAAATTTCAAATATTAA
764728 TTTAAAATTTCAAA-ATTAA
1 TTTAAAATTTCAAATATTAA
764747 T
1 T
764748 AAAACAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAAATTTCAAATATTAA
Found at i:766553 original size:31 final size:31
Alignment explanation
Indices: 766516--766608 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
766506 TTCACCATTT
766516 CGGTGCCTCCTTGTTTGACAAATGCAATGTG
1 CGGTGCCTCCTTGTTTGACAAATGCAATGTG
*
766547 TGGTGCCTCCTTGTTTGACAAATGCAATGTG
1 CGGTGCCTCCTTGTTTGACAAATGCAATGTG
*
766578 CGGTGCCTCCTTGTTTGACAAATGCCATGTG
1 CGGTGCCTCCTTGTTTGACAAATGCAATGTG
766609 AAAGCATGAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (31 bp):
CGGTGCCTCCTTGTTTGACAAATGCAATGTG
Found at i:769361 original size:16 final size:17
Alignment explanation
Indices: 769340--769373 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
769330 CCGACCAAAT
769340 TTCACTATTCATG-AAA
1 TTCACTATTCATGTAAA
769356 TTCACTATTCATGTAAA
1 TTCACTATTCATGTAAA
769373 T
1 T
769374 AGTAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
TTCACTATTCATGTAAA
Found at i:769777 original size:18 final size:18
Alignment explanation
Indices: 769754--769789 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
769744 ATTTCGGTGC
769754 CTCCTTGTTTGACAAATG
1 CTCCTTGTTTGACAAATG
769772 CTCCTTGTTTGACAAATG
1 CTCCTTGTTTGACAAATG
769790 TCATGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (18 bp):
CTCCTTGTTTGACAAATG
Found at i:770170 original size:20 final size:20
Alignment explanation
Indices: 770147--770200 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
770137 TTTTGAAATT
*
770147 CGCAACTCGAATTTCTTTTC
1 CGCAACTCGAATATCTTTTC
*
770167 CGCAACTCGAATATCTTTTT
1 CGCAACTCGAATATCTTTTC
*
770187 CGCAACGCGAATAT
1 CGCAACTCGAATAT
770201 GTAAATCGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (20 bp):
CGCAACTCGAATATCTTTTC
Found at i:770224 original size:19 final size:19
Alignment explanation
Indices: 770186--770251 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
770176 AATATCTTTT
770186 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAAT-TGTAAA
770206 TCGCAACGCGAATTGTAAA
1 TCGCAACGCGAATTGTAAA
*
770225 TCGCAACGCAAATT-TACAA
1 TCGCAACGCGAATTGTA-AA
770244 TTCGCAAC
1 -TCGCAAC
770252 ACAGAAGTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
18 2 0.05
19 21 0.49
20 20 0.47
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (19 bp):
TCGCAACGCGAATTGTAAA
Found at i:770451 original size:22 final size:22
Alignment explanation
Indices: 770423--770467 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
770413 CTCTAAGGCA
770423 AAATCCGTCCCCATATCCGGCG
1 AAATCCGTCCCCATATCCGGCG
*
770445 AAATCCGTCCCCATATCTGGCG
1 AAATCCGTCCCCATATCCGGCG
770467 A
1 A
770468 CCCCCCTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.20
Consensus pattern (22 bp):
AAATCCGTCCCCATATCCGGCG
Found at i:770830 original size:20 final size:20
Alignment explanation
Indices: 770814--770852 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
770804 TTTGAAACAT
770814 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
770834 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
770853 CGCAACGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.21, G:0.13, T:0.15
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:770898 original size:20 final size:20
Alignment explanation
Indices: 770859--770925 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
770849 AAATCGCAAC
*
770859 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
770878 GCGATTTTCATTTTTGCGTT
1 GCGATTTTCATTTTCGCGTT
*
770898 GCCATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
770918 GCGATTTT
1 GCGATTTT
770926 AAGTTTCAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 8 0.19
20 34 0.81
ACGTcount: A:0.10, C:0.18, G:0.21, T:0.51
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:772459 original size:42 final size:42
Alignment explanation
Indices: 772400--772498 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
772390 CCTCCCACTT
* * *
772400 CGAGAGCCATCACCTGATTGAGCCGATTCTACAGCTCGACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCGACAC
*
772442 CGAGAACCATCACCTGATCGAGCCGATTATACACCTCGACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCGACAC
*
772484 CGAGAGTCATCACCT
1 CGAGAGCCATCACCT
772499 ATTCCATCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.18
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCGACAC
Found at i:772894 original size:4 final size:4
Alignment explanation
Indices: 772885--772930 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
772875 TTTTTCGGTA
* * * *
772885 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
772931 TTAGCGACTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:773125 original size:21 final size:21
Alignment explanation
Indices: 773078--773150 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
773068 CACCTGTCAT
* ** *
773078 CGTTCAAGAGGCCTCTCTTAT
1 CGTTCAAGAGGCCCCTCCCAC
*
773099 CATTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
**
773120 CGTTCAAGAGATCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
773141 CGTTCAAGAG
1 CGTTCAAGAG
773151 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:774648 original size:20 final size:20
Alignment explanation
Indices: 774620--774700 Score: 91
Period size: 20 Copynumber: 4.3 Consensus size: 20
774610 AAGGTACACT
* *
774620 TTCGTAACGCGAAAATCAAA
1 TTCGCAACGCGAAAGTCAAA
774640 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
774660 TT--C-A--CGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
774675 TTCGCAACACGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
774695 TTCGCA
1 TTCGCA
774701 TTGCGATTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
15 12 0.23
17 2 0.04
18 2 0.04
20 36 0.69
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:776723 original size:21 final size:21
Alignment explanation
Indices: 776699--776741 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
776689 CCCAGAATAG
*
776699 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
776720 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
776741 A
1 A
776742 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:776972 original size:29 final size:31
Alignment explanation
Indices: 776940--776999 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
776930 AAATTTTGAA
*
776940 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
776969 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
777000 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:779121 original size:20 final size:20
Alignment explanation
Indices: 779089--779267 Score: 94
Period size: 20 Copynumber: 8.9 Consensus size: 20
779079 TGTCGAAATT
779089 AAAATTCGTGTTGCGAATTCG
1 AAAA-TCGTGTTGCGAATTCG
* **
779110 AAAATCGAGTTGCGAAAAC-
1 AAAATCGTGTTGCGAATTCG
* *
779129 AAAATTCGTGTTGCGATTTAG
1 AAAA-TCGTGTTGCGAATTCG
* ***
779150 AAAATCTTGTTGCGAAAAGG
1 AAAATCGTGTTGCGAATTCG
* * ***
779170 AAACTTGTGTTGCGAAAAAG
1 AAAATCGTGTTGCGAATTCG
* ** *
779190 AAATTCACGTTGTGAATTC-
1 AAAATCGTGTTGCGAATTCG
*
779209 AGAAATCGAGTTGCGAATT-G
1 A-AAATCGTGTTGCGAATTCG
* *
779229 AAATTACGTGTTGCGAATTTG
1 AAAAT-CGTGTTGCGAATTCG
* *
779250 GAAATCGCGTTGCGAATT
1 AAAATCGTGTTGCGAATT
779268 TGGAAATTCG
Statistics
Matches: 118, Mismatches: 34, Indels: 13
0.72 0.21 0.08
Matches are distributed among these distances:
19 8 0.07
20 98 0.83
21 12 0.10
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (20 bp):
AAAATCGTGTTGCGAATTCG
Found at i:779133 original size:40 final size:41
Alignment explanation
Indices: 779089--779185 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
779079 TGTCGAAATT
*
779089 AAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAAAA-C
1 AAAATTCGTGTTGCGAATTAGAAAATCGAGTTGCGAAAAGC
* ** *
779129 AAAATTCGTGTTGCGATTTAGAAAATCTTGTTGCGAAAAGG
1 AAAATTCGTGTTGCGAATTAGAAAATCGAGTTGCGAAAAGC
*
779170 AAACTT-GTGTTGCGAA
1 AAAATTCGTGTTGCGAA
779186 AAAGAAATTC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
40 44 0.90
41 5 0.10
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (41 bp):
AAAATTCGTGTTGCGAATTAGAAAATCGAGTTGCGAAAAGC
Found at i:779268 original size:20 final size:20
Alignment explanation
Indices: 779210--779370 Score: 93
Period size: 20 Copynumber: 8.0 Consensus size: 20
779200 TGTGAATTCA
*
779210 GAAATCGAGTTGCGAA-TT-
1 GAAATCGCGTTGCGAATTTG
*
779228 GAAATTACGTGTTGCGAATTTG
1 GAAA-T-CGCGTTGCGAATTTG
779250 GAAATCGCGTTGCGAATTTG
1 GAAATCGCGTTGCGAATTTG
****
779270 GAAATTCGCGTTGC-AAGAAA
1 GAAA-TCGCGTTGCGAATTTG
779290 GAAATTCGCGTTGCG-A-TTG
1 GAAA-TCGCGTTGCGAATTTG
*
779309 CAGAAA-CTGAGTTGCGAATTTG
1 --GAAATC-GCGTTGCGAATTTG
* * *
779331 GAAA-CTGTGTTGTGAAATTG
1 GAAATC-GCGTTGCGAATTTG
**
779351 GAGTTCGCGTTGCGAATTTG
1 GAAATCGCGTTGCGAATTTG
779371 TTGGTCATTT
Statistics
Matches: 113, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
18 4 0.04
19 2 0.02
20 82 0.73
21 18 0.16
22 7 0.06
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.30
Consensus pattern (20 bp):
GAAATCGCGTTGCGAATTTG
Found at i:779323 original size:101 final size:101
Alignment explanation
Indices: 779178--779370 Score: 243
Period size: 101 Copynumber: 1.9 Consensus size: 101
779168 GGAAACTTGT
*
779178 GTTGCGAAAAAGAAATTCACGTTGTGAATTCAGAAATCGAGTTGCGAA-TTGAAATTAC-GTGTT
1 GTTGCGAAAAAGAAATTCACGTTGCGAATTCAGAAATCGAGTTGCGAATTTGAAA--ACTGTGTT
*
779241 GCGAATTTGGAAATCGCGTTGCGAATTTGGAAATTCGC
64 GCGAAATTGGAAATCGCGTTGCGAATTTGGAAATTCGC
* *
779279 GTTGC-AAGAAAGAAATTCGCGTTGCG-ATTGCAGAAA-CTGAGTTGCGAATTTGGAAACTGTGT
1 GTTGCGAA-AAAGAAATTCACGTTGCGAATT-CAGAAATC-GAGTTGCGAATTTGAAAACTGTGT
* **
779341 TGTGAAATTGGAGTTCGCGTTGCGAATTTG
63 TGCGAAATTGGAAATCGCGTTGCGAATTTG
779371 TTGGTCATTT
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
100 8 0.10
101 67 0.84
102 5 0.06
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (101 bp):
GTTGCGAAAAAGAAATTCACGTTGCGAATTCAGAAATCGAGTTGCGAATTTGAAAACTGTGTTGC
GAAATTGGAAATCGCGTTGCGAATTTGGAAATTCGC
Found at i:783144 original size:21 final size:22
Alignment explanation
Indices: 783118--783160 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
783108 GGTGGCCTTG
783118 ATGGAAGATGGT-TGATGTTGA
1 ATGGAAGATGGTGTGATGTTGA
783139 ATGGAAGATGGTGGTGATGTTG
1 ATGGAAGATGGT-GTGATGTTG
783161 TATCTCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.33
Consensus pattern (22 bp):
ATGGAAGATGGTGTGATGTTGA
Found at i:783185 original size:20 final size:20
Alignment explanation
Indices: 783160--783199 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
783150 TGGTGATGTT
783160 GTATCTCAAACACGCCAAAG
1 GTATCTCAAACACGCCAAAG
783180 GTATCTCAAACACGCCAAAG
1 GTATCTCAAACACGCCAAAG
783200 AAGAAACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.30, G:0.15, T:0.15
Consensus pattern (20 bp):
GTATCTCAAACACGCCAAAG
Found at i:785204 original size:21 final size:22
Alignment explanation
Indices: 785178--785220 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
785168 GGTGGCCTTG
785178 ATGGAAGATGGT-TGATGTTGA
1 ATGGAAGATGGTGTGATGTTGA
785199 ATGGAAGATGGTGGTGATGTTG
1 ATGGAAGATGGT-GTGATGTTG
785221 TATCTCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.33
Consensus pattern (22 bp):
ATGGAAGATGGTGTGATGTTGA
Found at i:794283 original size:32 final size:32
Alignment explanation
Indices: 794239--794310 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
794229 TCTCATGATT
* *
794239 TACCCAAGAAAGTGCCTTGGGGCCTAAGAGCC
1 TACCCAATAAAGTGCCTCGGGGCCTAAGAGCC
** *
794271 TACCCAATAAAGTTTCTCGGGGCCTTAGAGCC
1 TACCCAATAAAGTGCCTCGGGGCCTAAGAGCC
794303 TACCCAAT
1 TACCCAAT
794311 GGTCACCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (32 bp):
TACCCAATAAAGTGCCTCGGGGCCTAAGAGCC
Found at i:812968 original size:22 final size:22
Alignment explanation
Indices: 812940--813042 Score: 127
Period size: 22 Copynumber: 4.7 Consensus size: 22
812930 ACTTTTTGGT
812940 CAAAGTCAACGGTCAGACTAGA
1 CAAAGTCAACGGTCAGACTAGA
*
812962 CAAAGTCAACGGTCATACTAGA
1 CAAAGTCAACGGTCAGACTAGA
* * *
812984 CAAAGTCAACGGTCATAC-CGTT
1 CAAAGTCAACGGTCAGACTAG-A
** *
813006 CAAAGTCAACGGTCAGACCGGT
1 CAAAGTCAACGGTCAGACTAGA
813028 CAAAGTCAACGGTCA
1 CAAAGTCAACGGTCA
813043 ACGGGTCGGG
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
21 1 0.01
22 72 0.97
23 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (22 bp):
CAAAGTCAACGGTCAGACTAGA
Found at i:815923 original size:2 final size:2
Alignment explanation
Indices: 815916--815987 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
815906 AGAGTTTATG
815916 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
815958 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
815988 TACGTTTGAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:820082 original size:15 final size:15
Alignment explanation
Indices: 820064--820111 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
820054 TTAATTCATT
820064 ATACATTAATTATAC
1 ATACATTAATTATAC
820079 ATACA-TACATTATAC
1 ATACATTA-ATTATAC
*
820094 ATACATATCATTATAC
1 ATACAT-TAATTATAC
820110 AT
1 AT
820112 TATACATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.07
15 17 0.59
16 9 0.31
17 1 0.03
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (15 bp):
ATACATTAATTATAC
Found at i:820093 original size:11 final size:11
Alignment explanation
Indices: 820079--820122 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
820069 TTAATTATAC
820079 ATACATACATT
1 ATACATACATT
820090 ATACATACA-T
1 ATACATACATT
*
820100 ATCATTATACATT
1 AT-A-CATACATT
820113 ATACATACAT
1 ATACATACAT
820123 ATCAATTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 3 0.11
11 16 0.57
12 6 0.21
13 3 0.11
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (11 bp):
ATACATACATT
Found at i:820135 original size:14 final size:14
Alignment explanation
Indices: 820093--820180 Score: 66
Period size: 14 Copynumber: 6.6 Consensus size: 14
820083 ATACATTATA
820093 CATACATATC-ATT
1 CATACATATCAATT
*
820106 -ATACAT-T--ATA
1 CATACATATCAATT
820116 CATACATATCAATT
1 CATACATATCAATT
*
820130 CATACATA-CGTTATAT
1 CATACATATC--AAT-T
*
820146 -ATAGATATCAATT
1 CATACATATCAATT
820159 CATACATATCAATT
1 CATACATATCAATT
820173 CATA-ATAT
1 CATACATAT
820181 ATCATACTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
10 2 0.03
11 7 0.12
12 7 0.12
13 6 0.10
14 28 0.47
15 8 0.13
16 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (14 bp):
CATACATATCAATT
Found at i:820143 original size:29 final size:28
Alignment explanation
Indices: 820078--820166 Score: 107
Period size: 29 Copynumber: 3.3 Consensus size: 28
820068 ATTAATTATA
820078 CATACATACATTATACATACATATC-ATT
1 CATACATAC-TTATACATACATATCAATT
820106 -ATAC--A-TTATACATACATATCAATT
1 CATACATACTTATACATACATATCAATT
* *
820130 CATACATACGTTATATATAGATATCAATT
1 CATACATAC-TTATACATACATATCAATT
820159 CATACATA
1 CATACATA
820167 TCAATTCATA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
23 15 0.28
24 3 0.06
25 5 0.09
27 5 0.09
29 25 0.47
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (28 bp):
CATACATACTTATACATACATATCAATT
Found at i:827928 original size:14 final size:14
Alignment explanation
Indices: 827909--827937 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
827899 TTACAAACAC
827909 TATCAATATAGCTT
1 TATCAATATAGCTT
827923 TATCAATATAGCTT
1 TATCAATATAGCTT
827937 T
1 T
827938 GCTAAGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TATCAATATAGCTT
Found at i:831585 original size:13 final size:13
Alignment explanation
Indices: 831567--831662 Score: 79
Period size: 13 Copynumber: 6.9 Consensus size: 13
831557 TTAACTTTTT
*
831567 CGGTCAAAGTTAA
1 CGGTCAAAGTCAA
*
831580 CGGTCAACGATCAGA
1 CGGTCAAAG-TCA-A
831595 TCGGTCAAAGTCAA
1 -CGGTCAAAGTCAA
831609 CGGTCAACAGTCAAA
1 CGGTCAA-AGTC-AA
831624 CTGGTCAAAGTCAA
1 C-GGTCAAAGTCAA
*
831638 TGGTCAATGAGTC-A
1 CGGTCAA--AGTCAA
831652 -GGTCAAAGTCA
1 CGGTCAAAGTCA
831663 TCGGGTCGGG
Statistics
Matches: 70, Mismatches: 4, Indels: 19
0.75 0.04 0.20
Matches are distributed among these distances:
11 4 0.06
13 27 0.39
14 10 0.14
15 15 0.21
16 14 0.20
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (13 bp):
CGGTCAAAGTCAA
Found at i:831610 original size:29 final size:28
Alignment explanation
Indices: 831566--831644 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
831556 TTTAACTTTT
*
831566 TCGGTCAAAGTTAACGGTCAAC-GATCAGA
1 TCGGTCAAAGTCAACGGTCAACAG-TCA-A
831595 TCGGTCAAAGTCAACGGTCAACAGTCAA
1 TCGGTCAAAGTCAACGGTCAACAGTCAA
* *
831623 ACTGGTCAAAGTCAATGGTCAA
1 TC-GGTCAAAGTCAACGGTCAA
831645 TGAGTCAGGT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 2 0.04
29 42 0.93
30 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (28 bp):
TCGGTCAAAGTCAACGGTCAACAGTCAA
Found at i:834265 original size:15 final size:15
Alignment explanation
Indices: 834245--834273 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
834235 ATAGAAACAT
834245 GTATATAGTTAAGTA
1 GTATATAGTTAAGTA
834260 GTATATAGTTAAGT
1 GTATATAGTTAAGT
834274 TTGTAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (15 bp):
GTATATAGTTAAGTA
Found at i:837217 original size:22 final size:21
Alignment explanation
Indices: 837192--837251 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
837182 CAGTCATATT
* *
837192 GGTCAAAGTCAACGGTCAGACC
1 GGTCAAAGTCAACAGTCA-ACA
*
837214 GGTCAAAGTAAACAGTCAACA
1 GGTCAAAGTCAACAGTCAACA
837235 GGTC-AAGTCAA-AGTCAA
1 GGTCAAAGTCAACAGTCAA
837252 TGGGTTGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.18
20 6 0.18
21 6 0.18
22 16 0.47
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (21 bp):
GGTCAAAGTCAACAGTCAACA
Found at i:837235 original size:51 final size:51
Alignment explanation
Indices: 837139--837235 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
837129 ACTTAATTTT
** *
837139 TTGGTCAAAGTCAACGGTCAGACCGGTCAAAGACAATGGTTAACAGTCATA
1 TTGGTCAAAGTCAACGGTCAGACCGGTCAAAGACAACAGTCAACAGTCATA
837190 TTGGTCAAAGTCAACGGTCAGACCGGTCAAAGTA-AACAGTCAACAG
1 TTGGTCAAAGTCAACGGTCAGACCGGTCAAAG-ACAACAGTCAACAG
837236 GTCAAGTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (51 bp):
TTGGTCAAAGTCAACGGTCAGACCGGTCAAAGACAACAGTCAACAGTCATA
Found at i:841102 original size:13 final size:13
Alignment explanation
Indices: 841084--841126 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
841074 CGGTCAGACC
*
841084 GGTCAAAGACAAT
1 GGTCAAAGTCAAT
841097 GGTCAACAGTCATACT
1 GGTCAA-AGTCA-A-T
841113 GGTCAAAGTCAAT
1 GGTCAAAGTCAAT
841126 G
1 G
841127 ATCAGACTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.31
14 5 0.19
15 6 0.23
16 7 0.27
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (13 bp):
GGTCAAAGTCAAT
Found at i:841116 original size:29 final size:29
Alignment explanation
Indices: 841069--841126 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
841059 TTTGGTCAAA
*
841069 GTCAACGGTCAGACCGGTCAAAGACAATG
1 GTCAACAGTCAGACCGGTCAAAGACAATG
* * *
841098 GTCAACAGTCATACTGGTCAAAGTCAATG
1 GTCAACAGTCAGACCGGTCAAAGACAATG
841127 ATCAGACTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (29 bp):
GTCAACAGTCAGACCGGTCAAAGACAATG
Found at i:841123 original size:22 final size:20
Alignment explanation
Indices: 841098--841178 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 20
841088 AAAGACAATG
841098 GTCAACAGTCATACTGGTCAAA
1 GTCAA-AGTCA-ACTGGTCAAA
*
841120 GTCAATGATCAGACTGGTCAAA
1 GTCAAAG-TCA-ACTGGTCAAA
* *
841142 GTCAACAATCAACAGGTC-AA
1 GTCAA-AGTCAACTGGTCAAA
*
841162 GTCAAAGTCAACGGGTC
1 GTCAAAGTCAACTGGTC
841179 GGGTTGGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.20
20 7 0.14
21 7 0.14
22 26 0.52
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (20 bp):
GTCAAAGTCAACTGGTCAAA
Found at i:849502 original size:212 final size:213
Alignment explanation
Indices: 849115--849621 Score: 579
Period size: 212 Copynumber: 2.4 Consensus size: 213
849105 TACAAATAAT
* * * * * *
849115 ATTCCTTGAATTTTAGAACGAAAAAC-AGTAATATTTAATTATTTTCCATCGAGAAGAATTGACA
1 ATTCTTTGAATTTTAGGACGAAAAACGA-CAATATTTAATTATTTTCTATCGAGAAGAAATGACC
* ** *
849179 TCTCATGCCTTAAAGTAACCAATTCCTACTGCAATTGAAATAAAGAAATATTACAATTTTATTCT
65 TCTCATGCCTTAAAGCAACCAATTCCTACTGCAATCAAAATAAAGAAATATTACAATTTCATTCT
* * * * *
849244 AAAGTTCATTATTAATTTCAAATTCAAATGTATAAATAACAATAAAATAAAATAAAATAAATT-T
130 AAAATTCATTATTAATTCCAAATTCAAATGCAGAAATAACAATAAAATAAAATAAAACAAATTAT
* *
849308 AAGATTTCTTTTTAAACAC
195 AAGACTCCTTTTTAAACAC
* * * *
849327 ATTCTTTGATTTTTATGACGAAAAACGACAATATTTAATTATTTTCTATCAAGAAGAACTGACCT
1 ATTCTTTGAATTTTAGGACGAAAAACGACAATATTTAATTATTTTCTATCGAGAAGAAATGACCT
** * ** ** *
849392 CTCATGCCTTAAAGCAGTCATTTTTTACT-CTAATCAAAATAAAGAAATATTATTATTTCGTTCT
66 CTCATGCCTTAAAGCAACCAATTCCTACTGC-AATCAAAATAAAGAAATATTACAATTTCATTCT
* *
849456 AAAATTCATTATTAATTCCAAATTCACATGCAGAAATAATAATAAAATAAAATAAAACAAATTAA
130 AAAATTCATTATTAATTCCAAATTCAAATGCAGAAATAACAATAAAATAAAATAAAACAAATT--
*
849521 AACTAAGGCTCCTTTTTAAACAC
193 -A-TAAGACTCCTTTTTAAACAC
* * ** * **
849544 GTTCTTTGAATTTTAGGATGGGAAACGACAATATTTAATTATTTCCTATCGAGAAGAAAAAACCT
1 ATTCTTTGAATTTTAGGACGAAAAACGACAATATTTAATTATTTTCTATCGAGAAGAAATGACCT
*
849609 CTCATACCTTAAA
66 CTCATGCCTTAAA
849622 ACAATAATTT
Statistics
Matches: 245, Mismatches: 43, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
211 1 0.00
212 160 0.65
213 1 0.00
217 83 0.34
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (213 bp):
ATTCTTTGAATTTTAGGACGAAAAACGACAATATTTAATTATTTTCTATCGAGAAGAAATGACCT
CTCATGCCTTAAAGCAACCAATTCCTACTGCAATCAAAATAAAGAAATATTACAATTTCATTCTA
AAATTCATTATTAATTCCAAATTCAAATGCAGAAATAACAATAAAATAAAATAAAACAAATTATA
AGACTCCTTTTTAAACAC
Found at i:849651 original size:217 final size:212
Alignment explanation
Indices: 849210--849655 Score: 532
Period size: 217 Copynumber: 2.1 Consensus size: 212
849200 ATTCCTACTG
* * * * *
849210 CAATTGAAATAAAGAAATATTACAATTTTATTCTAAAGTTCATTATTAATTTCAAATTCAAATGT
1 CAATCGAAATAAAGAAATATTACAATTTCATTCTAAAATTCATTATTAATTCCAAATTCAAATGC
* * * * *
849275 ATAAATAACAATAAAATAAAATAAAATAAATTTAAGATTTCTTTTTAAACACATTCTTTGATTTT
66 AGAAATAACAATAAAATAAAATAAAACAAATTTAAGACTCCTTTTTAAACACATTCTTTGAATTT
* * *** *
849340 TATGACGAAAAACGACAATATTTAATTATTTTCTATCAAGAAGAACTGACCTCTCATGCCTTAAA
131 TAGGACGAAAAACGACAATATTTAATTATTTCCTATCAAGAAGAAAAAACCTCTCATACCTTAAA
* * * * * *
849405 GCAGTCATTTTTTACTC
196 ACAATAATTTATGAATC
* * ** * *
849422 TAATCAAAATAAAGAAATATTATTATTTCGTTCTAAAATTCATTATTAATTCCAAATTCACATGC
1 CAATCGAAATAAAGAAATATTACAATTTCATTCTAAAATTCATTATTAATTCCAAATTCAAATGC
* * *
849487 AGAAATAATAATAAAATAAAATAAAACAAATTAAAACTAAGGCTCCTTTTTAAACACGTTCTTTG
66 AGAAATAACAATAAAATAAAATAAAACAAATT-----TAAGACTCCTTTTTAAACACATTCTTTG
* ** *
849552 AATTTTAGGATGGGAAACGACAATATTTAATTATTTCCTATCGAGAAGAAAAAACCTCTCATACC
126 AATTTTAGGACGAAAAACGACAATATTTAATTATTTCCTATCAAGAAGAAAAAACCTCTCATACC
849617 TTAAAACAATAATTTATGAATC
191 TTAAAACAATAATTTATGAATC
849639 CAATCGAAATAAAGAAA
1 CAATCGAAATAAAGAAA
849656 CACTCTACAT
Statistics
Matches: 192, Mismatches: 37, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
212 83 0.43
217 109 0.57
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (212 bp):
CAATCGAAATAAAGAAATATTACAATTTCATTCTAAAATTCATTATTAATTCCAAATTCAAATGC
AGAAATAACAATAAAATAAAATAAAACAAATTTAAGACTCCTTTTTAAACACATTCTTTGAATTT
TAGGACGAAAAACGACAATATTTAATTATTTCCTATCAAGAAGAAAAAACCTCTCATACCTTAAA
ACAATAATTTATGAATC
Found at i:850304 original size:22 final size:22
Alignment explanation
Indices: 850279--850527 Score: 220
Period size: 22 Copynumber: 11.0 Consensus size: 22
850269 ATAATTTATG
* *
850279 GTTTTTGAAAATATATAGAATA
1 GTTTTTGAAAACATATAGTATA
* *
850301 GTTTTTTAAAACATATGGTATA
1 GTTTTTGAAAACATATAGTATA
850323 GTTTTTGAAAACATATTA-TATA
1 GTTTTTGAAAACATA-TAGTATA
** *
850345 GTTTTAAAAAAAACATATAATATATA
1 GTTTT--TGAAAACATAT-A-GTATA
*
850371 GTTTTTGAAAATATATAGTATA
1 GTTTTTGAAAACATATAGTATA
*
850393 G-TTTTAAAAACATATAGTATA
1 GTTTTTGAAAACATATAGTATA
850414 GTTTTTGAAAACATATTA-TATA
1 GTTTTTGAAAACATA-TAGTATA
** *
850436 GTTTTAAAAAACATATAATATATA
1 GTTTTTGAAAACATAT-A-GTATA
*
850460 GTTTTTGAAAATATATAGTATA
1 GTTTTTGAAAACATATAGTATA
*
850482 GTTTTTAAAAACATATTTTTA-TATA
1 GTTTTTGAAAACATA----TAGTATA
*
850507 G-TTTTGAAAACATATAATATA
1 GTTTTTGAAAACATATAGTATA
850528 TATAATTTTT
Statistics
Matches: 187, Mismatches: 24, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
20 2 0.01
21 24 0.13
22 93 0.50
23 6 0.03
24 46 0.25
25 5 0.03
26 11 0.06
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (22 bp):
GTTTTTGAAAACATATAGTATA
Found at i:850402 original size:46 final size:46
Alignment explanation
Indices: 850269--850527 Score: 282
Period size: 46 Copynumber: 5.7 Consensus size: 46
850259 TGTCAAAAAA
* * * * **
850269 ATAATTTATGGTTTTTGAAAATATATAGAATAGTTTTTTAAAACAT
1 ATAATATATAGTTTTTGAAAACATATAGTATAGTTTTAAAAAACAT
**
850315 AT--GGTATAGTTTTTGAAAACATATTA-TATAGTTTTAAAAAAAACAT
1 ATAATATATAGTTTTTGAAAACATA-TAGTATAGTTTT--AAAAAACAT
*
850361 ATAATATATAGTTTTTGAAAATATATAGTATAGTTTT-AAAAACAT
1 ATAATATATAGTTTTTGAAAACATATAGTATAGTTTTAAAAAACAT
*
850406 AT-A-GTATAGTTTTTGAAAACATATTA-TATAGTTTTAAAAAACAT
1 ATAATATATAGTTTTTGAAAACATA-TAGTATAGTTTTAAAAAACAT
* *
850450 ATAATATATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAACAT
1 ATAATATATAGTTTTTGAAAACATATAGTATAGTTTTAAAAAACAT
** *
850496 ATTTTTATATAG-TTTTGAAAACATATAATATA
1 A-TAATATATAGTTTTTGAAAACATATAGTATA
850528 TATAATTTTT
Statistics
Matches: 182, Mismatches: 19, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
43 27 0.15
44 38 0.21
45 15 0.08
46 65 0.36
47 10 0.05
48 27 0.15
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (46 bp):
ATAATATATAGTTTTTGAAAACATATAGTATAGTTTTAAAAAACAT
Found at i:850435 original size:91 final size:90
Alignment explanation
Indices: 850269--850527 Score: 389
Period size: 92 Copynumber: 2.8 Consensus size: 90
850259 TGTCAAAAAA
* * * * *
850269 ATAATTTATGGTTTTTGAAAATATATAGAATAGTTTTTTAAAACATATGGTATAGTTTTTGAAAA
1 ATAATATATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAACATATAGTATAGTTTTTGAAAA
850334 CATATTATATAGTTTTAAAAAAAACAT
66 CATATTATATAGTTTT--AAAAAACAT
850361 ATAATATATAGTTTTTGAAAATATATAGTATAG-TTTTAAAAACATATAGTATAGTTTTTGAAAA
1 ATAATATATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAACATATAGTATAGTTTTTGAAAA
850425 CATATTATATAGTTTTAAAAAACAT
66 CATATTATATAGTTTTAAAAAACAT
850450 ATAATATATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAACATATTTTTA-TATAG-TTTTG
1 ATAATATATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAACATA----TAGTATAGTTTTTG
*
850513 AAAACATATAATATA
62 AAAACATATTATATA
850528 TATAATTTTT
Statistics
Matches: 156, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
89 42 0.27
90 13 0.08
91 45 0.29
92 49 0.31
93 5 0.03
94 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (90 bp):
ATAATATATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAACATATAGTATAGTTTTTGAAAA
CATATTATATAGTTTTAAAAAACAT
Found at i:850476 original size:113 final size:110
Alignment explanation
Indices: 850281--850497 Score: 256
Period size: 113 Copynumber: 1.9 Consensus size: 110
850271 AATTTATGGT
* * * * **
850281 TTTTGAAAATATATAGAATAGTTTTTTAAAACATATGGTATAGTTTTTGAAAACATATTATATAG
1 TTTTAAAAACATATAGAATAGTTTTTGAAAACATATGATATAGTTTTAAAAAACATATTATATAG
* *
850346 TTTTAAAAAAAACATATAATATATAGTTTTTGAAAATATATAGTATAG
66 TTTT-AAAAAAACATAT-A-ATATAGTTTTTAAAAACATATAGTATAG
* *
850394 TTTTAAAAACATATAGTATAGTTTTTGAAAACATATTATATAGTTTTAAAAAACATATAATATAT
1 TTTTAAAAACATATAGAATAGTTTTTGAAAACATATGATATAGTTTTAAAAAACATAT--TATAT
** * *
850459 AGTTTT-TGAAAATATATAGTATAGTTTTTAAAAACATAT
64 AGTTTTAAAAAAACATATAATATAGTTTTTAAAAACATAT
850498 TTTTATATAG
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
111 18 0.20
112 1 0.01
113 58 0.66
115 11 0.12
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (110 bp):
TTTTAAAAACATATAGAATAGTTTTTGAAAACATATGATATAGTTTTAAAAAACATATTATATAG
TTTTAAAAAAACATATAATATAGTTTTTAAAAACATATAGTATAG
Found at i:850589 original size:21 final size:20
Alignment explanation
Indices: 850552--850607 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
850542 AACATATGTA
850552 ATATATATATATATTGAAAAC
1 ATAT-TATATATATTGAAAAC
* *
850573 ATATTATATGATTTTGAAAAT
1 ATATTATAT-ATATTGAAAAC
*
850594 ATAATATATTATAT
1 ATATTATA-TATAT
850608 AGTTATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 5 0.17
21 23 0.79
22 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATTATATATATTGAAAAC
Found at i:850595 original size:19 final size:19
Alignment explanation
Indices: 850551--850602 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
850541 AAACATATGT
850551 AATATATATATATATTGAAA
1 AATAT-TATATATATTGAAA
*
850571 ACATATTATATGATTTTG-AA
1 A-ATATTATAT-ATATTGAAA
*
850591 AATATAATATAT
1 AATATTATATAT
850603 TATATAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 2 0.07
19 8 0.29
20 9 0.32
21 9 0.32
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (19 bp):
AATATTATATATATTGAAA
Found at i:851525 original size:24 final size:22
Alignment explanation
Indices: 851475--851562 Score: 113
Period size: 22 Copynumber: 3.9 Consensus size: 22
851465 AATATTAAGA
851475 AGTACCAATACCCCTATGAATG
1 AGTACCAATACCCCTATGAATG
* *
851497 GGTACCGATACCCCTATATGAATG
1 AGTACCAATACCCC--TATGAATG
851521 AGTACCAATACCCCTATGAATG
1 AGTACCAATACCCCTATGAATG
* * *
851543 TGTATCGATACCCCTATGAA
1 AGTACCAATACCCCTATGAA
851563 GACTCAAACA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
22 37 0.65
24 20 0.35
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (22 bp):
AGTACCAATACCCCTATGAATG
Found at i:854813 original size:18 final size:19
Alignment explanation
Indices: 854790--854846 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 19
854780 TACATTTTCC
854790 AACAATTTGTATCTTTTT-
1 AACAATTTGTATCTTTTTA
854808 AACAA-TTGATATCCTTTTGTA
1 AACAATTTG-TAT-CTTTT-TA
*
854829 AACAATTGGTATCTTTTT
1 AACAATTTGTATCTTTTT
854847 CATTAAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 3 0.09
18 8 0.24
19 6 0.18
20 6 0.18
21 8 0.24
22 2 0.06
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (19 bp):
AACAATTTGTATCTTTTTA
Found at i:855089 original size:22 final size:22
Alignment explanation
Indices: 855058--855121 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
855048 AATATTAAGA
*
855058 GGTACTGATACCCCTATGAATG
1 GGTACCGATACCCCTATGAATG
855080 GGTACCGATACCCCTATGAATG
1 GGTACCGATACCCCTATGAATG
* * *
855102 TGTATCAATACCCCTATGAA
1 GGTACCGATACCCCTATGAA
855122 GGCTCAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (22 bp):
GGTACCGATACCCCTATGAATG
Found at i:856415 original size:9 final size:9
Alignment explanation
Indices: 856390--856428 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
856380 TTTTCTTCTA
856390 TTTATTTAAT
1 TTTATTT-AT
856400 ATTTATTTAT
1 -TTTATTTAT
856410 TTTATTTAT
1 TTTATTTAT
856419 TTTA-TTAT
1 TTTATTTAT
856427 TT
1 TT
856429 AACATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 6 0.21
9 13 0.46
10 2 0.07
11 7 0.25
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:857279 original size:4 final size:4
Alignment explanation
Indices: 857270--857713 Score: 822
Period size: 4 Copynumber: 111.8 Consensus size: 4
857260 TGAATAAATT
* * *
857270 ATAC ATAC ATAC AT-G ATAC ATAA ATAA ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
857317 ATAC ATAC ATAC ATGC ATGC ATAC AT-- ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
857363 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
857411 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
857459 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
857507 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
857555 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
857603 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
857651 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
857699 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
857714 TATTATGCAT
Statistics
Matches: 431, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
2 2 0.00
3 2 0.00
4 427 0.99
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:857790 original size:4 final size:4
Alignment explanation
Indices: 857783--857826 Score: 61
Period size: 4 Copynumber: 10.5 Consensus size: 4
857773 TAAATTAATT
*
857783 ATAC ATAC ATAC ATAC ATAC ATAC ATATC AATTC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA-C -ATAC ATAC ATAC AT
857827 TATATATAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 32 0.89
5 2 0.06
6 2 0.06
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:857847 original size:29 final size:30
Alignment explanation
Indices: 857786--857852 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
857776 ATTAATTATA
857786 CATACATACATACATACATACATATCAATT
1 CATACATACATACATACATACATATCAATT
* * * *
857816 CATACATACAT-TATATATAGATATCAGTT
1 CATACATACATACATACATACATATCAATT
857845 CATACATA
1 CATACATA
857853 TCAATTCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (30 bp):
CATACATACATACATACATACATATCAATT
Found at i:861528 original size:14 final size:14
Alignment explanation
Indices: 861509--861537 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
861499 TTACAAACAC
861509 TATCAATATAGCTT
1 TATCAATATAGCTT
861523 TATCAATATAGCTT
1 TATCAATATAGCTT
861537 T
1 T
861538 GTTAAGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TATCAATATAGCTT
Found at i:870221 original size:29 final size:30
Alignment explanation
Indices: 870173--870256 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
870163 ATTTTGATTA
* *
870173 GTGACTAAAATGTAAGTTTTGAAAGTTT-G
1 GTGACTAAAATATAAATTTTGAAAGTTTAG
*
870202 GTGACTAAAGTATAAATTTTGTAAAAGTTTAG
1 GTGACTAAAATATAAATTTTG--AAAGTTTAG
*
870234 G-GATCAAAAATAT-AATTTTGAAA
1 GTGA-CTAAAATATAAATTTTGAAA
870257 AATTATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
29 21 0.46
31 16 0.35
32 9 0.20
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.36
Consensus pattern (30 bp):
GTGACTAAAATATAAATTTTGAAAGTTTAG
Found at i:880979 original size:490 final size:482
Alignment explanation
Indices: 880068--881039 Score: 1840
Period size: 490 Copynumber: 2.0 Consensus size: 482
880058 TCTGAATTAC
880068 ATTTTATTCGTATAAGTTATTTTACATACTAACTTATTTCTTCTCTTTTGTTTGTGTCATTTGCA
1 ATTTTATTCGTATAAGTTATTTTACATACTAACTTATTTCTTCTCTTTTGTTTGTGTCATTTGCA
880133 TGGCATTGCATTGCATCATCATAATGCAAAGTGTTCCGTAAGGGATATTCGAGAGAAAATTTTCA
66 TGGCATTGCATTGCATCATCATAATGCAAAGTGTTCCGTAAGGGATATTCGAGAGAAAATTTTCA
880198 CAAGAAGAGATAAAGTTTTCAACCAAGCATCGCGTACACAGACATGCCACCGAAGGCTAAAAAAA
131 CAAGAAGAGATAAAGTTTTCAACCAAGCATCGCGTACACAGACATGCCACCGAAGGCTAAAAAAA
880263 TGCACAGAGTACGAGAAGGAGACTTGCTCAAGATGATCGGGCAACGTTCGAGAATAAATGATGAG
196 TGCACAGAGTACGAGAAGGAGACTTGCTCAAGATGATCGGGCAACGTTCGAGAATAAATGATGAG
880328 CCACTGATCCGATGAGTGATCCAGCAGTCGATTTTTATCTACGATCATTTCATCGCTATTTATCA
261 CCACTGATCCGATGAGTGATCCAGCAGTCGATTTTTATCTACGATCATTTCATCGCTATTTATCA
880393 AGGAGCGGCACACTGACTTCCGCACCACTGGGGCATTAACAGAGTTAGGTTACAGAATGTTTTAG
326 AGGAGCGGCACACTGACTTCCGCACCACTGGGGCATTAACAGAGTTAGGTTACAGAATGTTTTAG
880458 GGGCATCAGTTCCAAATACAAAGATCCGAGACAAAGCAGTGAGCTCGAAGATCT-GGGATTAATC
391 GGGCATCAGTTCCAAATACAAAGATCCGAGACAAAGCAGTGAGCTCGAAGATCTGGGGATTAATC
880522 CAGCAGTAGATTATATTTTACGATCGT
456 CAGCAGTAGATTATATTTTACGATCGT
880549 ATTTTATTCGTATAAGTTATTTTACATACTAACTTATTTCTTCTCTTTTGTTTGTGTCATTTGCA
1 ATTTTATTCGTATAAGTTATTTTACATACTAACTTATTTCTTCTCTTTTGTTTGTGTCATTTGCA
880614 TGGCATTGCATTGCATCATCATAATGCAAAAGTGTTGATCCGTAAGGGGATATTCGAGAGAAAAT
66 TGGCATTGCATTGCATCATCATAATGC-AAAGTG-T--TCCGTAA-GGGATATTCGAGAGAAAAT
880679 TTTCACAAGAAGAGATAAAAGTTTTCAACCAAGCAGTCGCGTACACAGACATG-CACCGAAGGCT
126 TTTCACAAGAAGAGAT-AAAGTTTTCAACCAAGCA-TCGCGTACACAGACATGCCACCGAAGGCT
880743 AAAAAGAAATGCACAGAGTACGAGAAGGAGACTTGCTCAAGATGATCGGGCAACGTTCGAGAATA
189 -AAAA-AAATGCACAGAGTACGAGAAGGAGACTTGCTCAAGATGATCGGGCAACGTTCGAGAAT-
880808 AAATGATGAGCCACTGATCCGATGAGTGATCCAGCAGTCGATTTTTATCTACGATCATTTCATCG
251 AAATGATGAGCCACTGATCCGATGAGTGATCCAGCAGTCGATTTTTATCTACGATCATTTCATCG
880873 CTATTTATCAAGGAGCGGCACACTGACTTCCGCACCACTGGGGCATTAACAGAGTTAGGTTACAG
316 CTATTTATCAAGGAGCGGCACACTGACTTCCGCACCACTGGGGCATTAACAGAGTTAGGTTACAG
880938 AATGTTTTAGGGGCATCAGTTCCAAATACAAAGATCCGAGACAAAGCAGTGAGCTCGAAGATCTG
381 AATGTTTTAGGGGCATCAGTTCCAAATACAAAGATCCGAGACAAAGCAGTGAGCTCGAAGATCTG
881003 GGGATTAATCCAGCAGTAGATTATATTTTACGATCGT
446 GGGATTAATCCAGCAGTAGATTATATTTTACGATCGT
881040 TCCGACGTTG
Statistics
Matches: 480, Mismatches: 0, Indels: 12
0.98 0.00 0.02
Matches are distributed among these distances:
481 92 0.19
482 6 0.01
483 1 0.00
485 7 0.01
486 35 0.07
487 29 0.06
488 21 0.04
489 58 0.12
490 194 0.40
491 37 0.08
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (482 bp):
ATTTTATTCGTATAAGTTATTTTACATACTAACTTATTTCTTCTCTTTTGTTTGTGTCATTTGCA
TGGCATTGCATTGCATCATCATAATGCAAAGTGTTCCGTAAGGGATATTCGAGAGAAAATTTTCA
CAAGAAGAGATAAAGTTTTCAACCAAGCATCGCGTACACAGACATGCCACCGAAGGCTAAAAAAA
TGCACAGAGTACGAGAAGGAGACTTGCTCAAGATGATCGGGCAACGTTCGAGAATAAATGATGAG
CCACTGATCCGATGAGTGATCCAGCAGTCGATTTTTATCTACGATCATTTCATCGCTATTTATCA
AGGAGCGGCACACTGACTTCCGCACCACTGGGGCATTAACAGAGTTAGGTTACAGAATGTTTTAG
GGGCATCAGTTCCAAATACAAAGATCCGAGACAAAGCAGTGAGCTCGAAGATCTGGGGATTAATC
CAGCAGTAGATTATATTTTACGATCGT
Found at i:882935 original size:26 final size:25
Alignment explanation
Indices: 882906--882983 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
882896 AATTTTTGAC
882906 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
882932 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
882952 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
882978 ATTCTT
1 ATTCTT
882984 TCCACTTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:883636 original size:11 final size:11
Alignment explanation
Indices: 883608--883645 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
883598 AAGAGCAAAG
883608 AGAAAAATCAA
1 AGAAAAATCAA
883619 AGCAAAAATCAA
1 AG-AAAAATCAA
*
883631 AGAAAAAGCAA
1 AGAAAAATCAA
883642 AGAA
1 AGAA
883646 CAAAAGAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:884833 original size:14 final size:14
Alignment explanation
Indices: 884814--884841 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
884804 CAGATTGAGA
884814 ACACATACATACAT
1 ACACATACATACAT
884828 ACACATACATACAT
1 ACACATACATACAT
884842 GATACATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
ACACATACATACAT
Found at i:885227 original size:36 final size:36
Alignment explanation
Indices: 885163--885271 Score: 110
Period size: 38 Copynumber: 2.9 Consensus size: 36
885153 ATCTTATTAA
* * * * *
885163 AAAAACAAAGTGTCGTCTCACTAGAGACAGTTTTCTT
1 AAAAACAAATTAT-GTCTCGCTTGAGACACTTTTCTT
* *
885200 AAAAACAAATTTTGTCTCGCTTTAGACAACTTTCTCTT
1 AAAAACAAATTATGTCTCGCTTGAGAC-ACTTT-TCTT
* *
885238 TAAAACAAATTATGTCTCGCTTGAGACATTTTTC
1 AAAAACAAATTATGTCTCGCTTGAGACACTTTTC
885272 CACAAATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
36 13 0.22
37 19 0.32
38 28 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (36 bp):
AAAAACAAATTATGTCTCGCTTGAGACACTTTTCTT
Found at i:885530 original size:36 final size:34
Alignment explanation
Indices: 885488--885601 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 34
885478 AAGTTGATCA
*
885488 CTTGAGATCGTTTTCTCAAAAACAAACTTTGTCTCG
1 CTTGAGA-C-TTTTCTCAAAAACAAATTTTGTCTCG
* *
885524 CTTGAGACAATTTCTCTAAAAACAAATTTTGTCTCA
1 CTTGAGAC-TTTTCTC-AAAAACAAATTTTGTCTCG
* * * *
885560 TTTGAGACTATATCT-TAAAGCAAATTTTGTCTCG
1 CTTGAGACT-TTTCTCAAAAACAAATTTTGTCTCG
885594 CTTGAGAC
1 CTTGAGAC
885602 ATCATTTTCT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
34 23 0.35
35 7 0.11
36 35 0.54
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (34 bp):
CTTGAGACTTTTCTCAAAAACAAATTTTGTCTCG
Found at i:885589 original size:34 final size:36
Alignment explanation
Indices: 885501--885602 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
885491 GAGATCGTTT
* *
885501 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
885536 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
885572 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
885603 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:885908 original size:58 final size:57
Alignment explanation
Indices: 885843--886002 Score: 216
Period size: 57 Copynumber: 2.8 Consensus size: 57
885833 CTCTTGAGAC
*
885843 AGTTTCTCTTGAAAAAATCTTTGAGTTTGTTTCTTTTGGAAAAAAAAATCTTTGAGTT
1 AGTTTCTCTTGAAAAAATCTTTGAGTTTGTTTCTTTT-GAAAAAAAAATCTTGGAGTT
* *
885901 AGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTG-AATAAAAATCTTGGAGTT
1 AGTTTCTCTTG-AAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAAAATCTTGGAGTT
* * *
885958 TGTTCCTTTTGAATAAATATCTTTGAG-TTGTTTCTTTTGAAAAAA
1 AGTTTCTCTTGAA-AAA-ATCTTTGAGTTTGTTTCTTTTGAAAAAA
886003 TCTTTGAGTC
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
56 2 0.02
57 38 0.42
58 25 0.28
59 25 0.28
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (57 bp):
AGTTTCTCTTGAAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAAAATCTTGGAGTT
Found at i:885915 original size:29 final size:29
Alignment explanation
Indices: 885854--886291 Score: 251
Period size: 29 Copynumber: 15.0 Consensus size: 29
885844 GTTTCTCTTG
885854 AAAAAATCTTTGAGTTTGTTTCTTTTGGAAA
1 AAAAAATCTTTGAGTTTGTTTCTTTT-G-AA
* *
885885 AAAAAATCTTTGAGTTAGTTTCTCTTG-A
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
*
885913 AAAAAATCTTTGAGTTTGTTCCTTTTGAA
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
* * *
885942 TAAAAATCTTGGAGTTTGTTCCTTTTGAA
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
* *
885971 TAAATATCTTTGAG-TTGTTTCTTTTG--
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
* * *
885997 AAAAAATCTTTGAGTCTATTTATTTTGAA
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
** *** *
886026 ACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG--
1 A-AAA------AATCT-TTGAGTTTGTTTCTTTTGAA
*
886061 AAAAAATCTTTGAGTTTGTTCCTTTTGAA
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
* * *
886090 TAAAAATCTTGGAGTTTGTTCCTTTTGAA
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
* *
886119 TAAATATCTTTGAG-TTGTTTCTTTTG--
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
* * *
886145 -AAAAATCTTTGAGTCTATTTATTTTGAA
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
** *** *
886173 ACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT--A
1 A-AAA------AATCT-TTGAGTTTGTTTCTTTTGAA
*
886208 AAAAAATCTTTGAGTTTGTTCCTTTTGAA
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
* * *
886237 TAAATATTTTTGAG-TTGTTTCTTTTG--
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
* * *
886263 -AAAAATCTTTGAGTCTATTTATTTTGAA
1 AAAAAATCTTTGAGTTTGTTTCTTTTGAA
886291 A
1 A
886292 CAAAGTTTTG
Statistics
Matches: 314, Mismatches: 61, Indels: 66
0.71 0.14 0.15
Matches are distributed among these distances:
25 23 0.07
26 30 0.10
27 34 0.11
28 64 0.20
29 92 0.29
30 7 0.02
31 24 0.08
34 6 0.02
35 3 0.01
36 6 0.02
37 25 0.08
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.47
Consensus pattern (29 bp):
AAAAAATCTTTGAGTTTGTTTCTTTTGAA
Found at i:886107 original size:148 final size:148
Alignment explanation
Indices: 885901--886291 Score: 666
Period size: 147 Copynumber: 2.7 Consensus size: 148
885891 TCTTTGAGTT
885901 AGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTT
1 AGTTTCTCTTG-AAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTT
885966 TTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAATCTTTGAGTCTATTTATTTTGAAACAAA
65 TTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAATCTTTGAGTCTATTTATTTTGAAACAAA
886031 GTTTTGTCTCTCTTGAGAC
130 GTTTTGTCTCTCTTGAGAC
886050 AGTTTCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTT
1 AGTTTCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTT
886115 TGAATAAATATCTTTGAGTTGTTTCTTTTG-AAAAATCTTTGAGTCTATTTATTTTGAAACAAAG
66 TGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAG
886179 TTTTGTCTCTCTTGAGAC
131 TTTTGTCTCTCTTGAGAC
* * * * *
886197 AGTTTCTCTTAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAATATTTTTGAG-TTGTTTCTTT
1 AGTTTCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTT
* *
886261 TG-A-AAA-ATCTTTGAGTCTATTTATTTTGAAA
66 TGAATAAATATCTTTGAGT-TGTTTCTTTTGAAA
886292 CAAAGTTTTG
Statistics
Matches: 233, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
143 10 0.04
144 12 0.05
145 3 0.01
146 11 0.05
147 102 0.44
148 84 0.36
149 11 0.05
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (148 bp):
AGTTTCTCTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTT
TGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAG
TTTTGTCTCTCTTGAGAC
Found at i:886227 original size:118 final size:118
Alignment explanation
Indices: 886091--886320 Score: 433
Period size: 118 Copynumber: 1.9 Consensus size: 118
886081 CCTTTTGAAT
886091 AAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAATCTTTG
1 AAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAATCTTTG
*
886156 AGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAA
66 AGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTAA
* *
886209 AAAAATCTTTGAGTTTGTTCCTTTTGAATAAATATTTTTGAGTTGTTTCTTTTGAAAAATCTTTG
1 AAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAATCTTTG
886274 AGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTC
66 AGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTC
886321 GTGAAAAATC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.47
Consensus pattern (118 bp):
AAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAATCTTTG
AGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTAA
Found at i:886349 original size:52 final size:53
Alignment explanation
Indices: 886287--886389 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 53
886277 CTATTTATTT
*
886287 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTCTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
* *
886339 TGAAACAAAGTCTTGTCTCTCTTGATACAATTTTGTGAAAAAATCTTTGAG
1 TGAAACAAAGTCTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
886390 ATTGTTTCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 34 0.72
53 13 0.28
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (53 bp):
TGAAACAAAGTCTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Done.