Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_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: 3548142
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 17
Found at i:675690 original size:59 final size:59
Alignment explanation
Indices: 675598--675724 Score: 236
Period size: 59 Copynumber: 2.2 Consensus size: 59
675588 GGCCAATTTT
*
675598 GGTACCGATACTCATAGGAGTATCGATACCAAGGGTTGAGTATCGATACTCCCCATAAG
1 GGTACCAATACTCATAGGAGTATCGATACCAAGGGTTGAGTATCGATACTCCCCATAAG
*
675657 GGTACCAATACTCATGGGAGTATCGATACCAAGGGTTGAGTATCGATACTCCCCATAAG
1 GGTACCAATACTCATAGGAGTATCGATACCAAGGGTTGAGTATCGATACTCCCCATAAG
675716 GGTACCAAT
1 GGTACCAAT
675725 GCTACCCCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (59 bp):
GGTACCAATACTCATAGGAGTATCGATACCAAGGGTTGAGTATCGATACTCCCCATAAG
Found at i:677011 original size:77 final size:77
Alignment explanation
Indices: 676828--676999 Score: 263
Period size: 77 Copynumber: 2.2 Consensus size: 77
676818 ATAAACTCTA
*
676828 ATAACATTTTAGGAGCAATCTAAAATGTTAATAATATTCATAACATTCACCGTTTATAACTTATT
1 ATAACATTTTAGGAGCAATCTAAAATATTAATAATATTCATAACATTCACCGTTTATAACTTATT
**
676893 TTCTTATTGTTT
66 TTCTTACAGTTT
* * * * *
676905 ATATCATTTTAGGCGCAATCTAAAATATTAATAATATTCATAATATTTACTGTTTATAACTTATT
1 ATAACATTTTAGGAGCAATCTAAAATATTAATAATATTCATAACATTCACCGTTTATAACTTATT
676970 TTCTTACAGTTT
66 TTCTTACAGTTT
*
676982 ATAACATTTTAGGTGCAA
1 ATAACATTTTAGGAGCAA
677000 CCTGTTATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 85 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (77 bp):
ATAACATTTTAGGAGCAATCTAAAATATTAATAATATTCATAACATTCACCGTTTATAACTTATT
TTCTTACAGTTT
Found at i:677509 original size:15 final size:15
Alignment explanation
Indices: 677489--677520 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
677479 AAAAACAAGT
*
677489 ATATACGTATACATG
1 ATATACGAATACATG
677504 ATATACGAATACATG
1 ATATACGAATACATG
677519 AT
1 AT
677521 GGGTCGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (15 bp):
ATATACGAATACATG
Found at i:679577 original size:14 final size:14
Alignment explanation
Indices: 679558--679587 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
679548 TTTAGATTTT
*
679558 TTAAAATTACATTA
1 TTAAAAATACATTA
679572 TTAAAAATACATTA
1 TTAAAAATACATTA
679586 TT
1 TT
679588 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:679675 original size:7 final size:7
Alignment explanation
Indices: 679658--679762 Score: 104
Period size: 7 Copynumber: 15.1 Consensus size: 7
679648 AAATATGTGA
*
679658 TAGGGTC
1 TAGGGTT
*
679665 TAGGATT
1 TAGGGTT
679672 TAGGGTT
1 TAGGGTT
679679 TAGGGTT
1 TAGGGTT
* *
679686 TATGTTT
1 TAGGGTT
*
679693 TAGTGTT
1 TAGGGTT
679700 TAGGGTT
1 TAGGGTT
*
679707 TAGTGTT
1 TAGGGTT
*
679714 TGGGGTT
1 TAGGGTT
*
679721 TGGGGTT
1 TAGGGTT
*
679728 TGGGGTT
1 TAGGGTT
*
679735 TGGGGTT
1 TAGGGTT
679742 T-GGGTT
1 TAGGGTT
*
679748 TGGGGTT
1 TAGGGTT
679755 TAGGGTT
1 TAGGGTT
679762 T
1 T
679763 TAGTTATGAA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
6 6 0.07
7 78 0.93
ACGTcount: A:0.10, C:0.01, G:0.43, T:0.47
Consensus pattern (7 bp):
TAGGGTT
Found at i:680094 original size:17 final size:17
Alignment explanation
Indices: 680065--680097 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
680055 AATTAAAATT
680065 ACAAGACACAATTGAAA
1 ACAAGACACAATTGAAA
680082 ACAAGTACA-AATTGAA
1 ACAAG-ACACAATTGAA
680098 GGAACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
ACAAGACACAATTGAAA
Found at i:681594 original size:12 final size:12
Alignment explanation
Indices: 681574--681612 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
681564 TGTAGGTTCA
*
681574 AATTTGAGTTTG
1 AATTCGAGTTTG
681586 AATTCGAGTTTG
1 AATTCGAGTTTG
* *
681598 AGTTCGAGCTTG
1 AATTCGAGTTTG
681610 AAT
1 AAT
681613 CGATTTCGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (12 bp):
AATTCGAGTTTG
Found at i:681622 original size:17 final size:17
Alignment explanation
Indices: 681600--681632 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
681590 CGAGTTTGAG
681600 TTCGAGCTTGAATCGAT
1 TTCGAGCTTGAATCGAT
681617 TTCGAGCTTGAATCGA
1 TTCGAGCTTGAATCGA
681633 GCTCAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (17 bp):
TTCGAGCTTGAATCGAT
Found at i:692164 original size:21 final size:21
Alignment explanation
Indices: 692139--692191 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
692129 CCTAATGTCG
692139 GTATCGATACTGACAGGATC-
1 GTATCGATACTGACAGGATCA
*
692159 GATATCGATATTGACAGGATCA
1 G-TATCGATACTGACAGGATCA
692181 GTATCGATACT
1 GTATCGATACT
692192 AGCATCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (21 bp):
GTATCGATACTGACAGGATCA
Found at i:693124 original size:29 final size:29
Alignment explanation
Indices: 693082--693139 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
693072 ATCAAAACCA
693082 TGATAAACAATATCATACATAATAGTCAT
1 TGATAAACAATATCATACATAATAGTCAT
693111 TGATAAACAATATCATACATAATAGTCAT
1 TGATAAACAATATCATACATAATAGTCAT
693140 ATCATATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (29 bp):
TGATAAACAATATCATACATAATAGTCAT
Found at i:697988 original size:150 final size:148
Alignment explanation
Indices: 697714--698012 Score: 548
Period size: 150 Copynumber: 2.0 Consensus size: 148
697704 CATATCAAGG
697714 AATCTCTACCCTGTTTTCCTTCAATCTCTGCAGCAAGTTATATGCAAATTACATGAAGCCAGCTT
1 AATCTCTACCCTGTTTTCCTTCAATCTCTGCAGCAAGTTATATGCAAATTACATGAAGCCAGCTT
697779 ATTGCTCCATGTCTGGCTAAACCTTTGTACCGCCTTACCCAAGATGGTATAATAAAAGGGTCTTT
66 ATTGCTCCATGTCTGGCTAAACCTTTGTACCGCCTTACCCAAGATGGTATAATAAAAGGGTCTTT
697844 TGTGAGTATC-TG-TGGA
131 TGTGAGTATCATGCTGGA
697860 AATCTCTACCCTGTTTTCCTTCAATCTCATGCAGCAAGTTATATGCCAAATTACATGAAGCCCAG
1 AATCTCTACCCTGTTTTCCTTCAATCTC-TGCAGCAAGTTATATG-CAAATTACATGAAG-CCAG
697925 CTTATTGCTCCATGTCTGGCTAAACCTTTGGTACCGCCTTACCCAAGATGGTATAATAAAAGGGT
63 CTTATTGCTCCATGTCTGGCTAAACCTTT-GTACCGCCTTACCCAAGATGGTATAATAAAAGGGT
697990 CTTTTGTGAGTATCATGCTGGA
127 CTTTTGTGAGTATCATGCTGGA
698012 A
1 A
698013 TCCGAGGAAA
Statistics
Matches: 147, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
146 28 0.19
147 16 0.11
148 14 0.10
149 33 0.22
150 49 0.33
151 2 0.01
152 5 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (148 bp):
AATCTCTACCCTGTTTTCCTTCAATCTCTGCAGCAAGTTATATGCAAATTACATGAAGCCAGCTT
ATTGCTCCATGTCTGGCTAAACCTTTGTACCGCCTTACCCAAGATGGTATAATAAAAGGGTCTTT
TGTGAGTATCATGCTGGA
Found at i:703779 original size:25 final size:27
Alignment explanation
Indices: 703733--703788 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
703723 ATTTAATTTT
* * *
703733 TATATTTATATTTTAGTCATT-ATTATA
1 TATATATACATTTTAG-CATTAATTACA
703760 TATATATACATTTTAG-ATTAATTACA
1 TATATATACATTTTAGCATTAATTACA
703786 TAT
1 TAT
703789 TTTGTCCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 3 0.12
26 8 0.32
27 14 0.56
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (27 bp):
TATATATACATTTTAGCATTAATTACA
Found at i:703918 original size:15 final size:15
Alignment explanation
Indices: 703891--703931 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
703881 TCAAATTAGG
703891 TTATTTA-ATTTT-A
1 TTATTTATATTTTAA
703904 TTACTTTATATTTTAA
1 TTA-TTTATATTTTAA
*
703920 TTATTAATATTT
1 TTATTTATATTT
703932 AGTATATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.12
14 4 0.17
15 13 0.54
16 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTATATTTTAA
Found at i:703959 original size:27 final size:24
Alignment explanation
Indices: 703910--703975 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
703900 TTTATTACTT
703910 TATATTTTAATTATTAATATTTAG
1 TATATTTTAATTATTAATATTTAG
*
703934 TATATTATATAATTAATTAATGTTTA-
1 TATATT-T-TAATT-ATTAATATTTAG
703960 TAT-TTTTAGATTATTA
1 TATATTTTA-ATTATTA
703976 TTTTACCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 6 0.16
24 10 0.27
25 3 0.08
26 8 0.22
27 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (24 bp):
TATATTTTAATTATTAATATTTAG
Found at i:703972 original size:24 final size:23
Alignment explanation
Indices: 703908--703972 Score: 62
Period size: 27 Copynumber: 2.7 Consensus size: 23
703898 ATTTTATTAC
703908 TTTATA-TTTTAATT-ATTAATA
1 TTTATATTTTTAATTAATTAATA
*
703929 TTTAGTATATTATATAATTAATTAATG
1 TTTA-TAT-TT-T-TAATTAATTAATA
703956 TTTATATTTTTAGATTA
1 TTTATATTTTTA-ATTA
703973 TTATTTTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
21 4 0.11
22 2 0.06
23 2 0.06
24 7 0.19
25 3 0.08
26 8 0.22
27 10 0.28
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTATATTTTTAATTAATTAATA
Found at i:710770 original size:137 final size:137
Alignment explanation
Indices: 710524--710797 Score: 539
Period size: 137 Copynumber: 2.0 Consensus size: 137
710514 ATGTTAAAAT
710524 GACATATTTCGATGTTAGAAAATCCCATAAAACTTAACAAACCTTTGGTATCCTTAGAGGACTTA
1 GACATATTTCGATGTTAGAAAATCCCATAAAACTTAACAAACCTTTGGTATCCTTAGAGGACTTA
710589 TGAGAGGCTTTAAGGGACCATTTTCGTACTTAAACAAAGCACTCCGAACCATCGGTATCGGTACT
66 TGAGAGGCTTTAAGGGACCATTTTCGTACTTAAACAAAGCACTCCGAACCATCGGTATCGGTACT
710654 ATAAGAA
131 ATAAGAA
710661 GACATATTTCGATGTTAGAAAATCCCATAAAACTTAACAAACCTTTGGTATCCTTAGAGGACTTA
1 GACATATTTCGATGTTAGAAAATCCCATAAAACTTAACAAACCTTTGGTATCCTTAGAGGACTTA
*
710726 TGAGAGGCTTTAAGGGACCATTTTCGTACTTAAACAAAGCACTCCGAACCATCGGTATCTGTACT
66 TGAGAGGCTTTAAGGGACCATTTTCGTACTTAAACAAAGCACTCCGAACCATCGGTATCGGTACT
710791 ATAAGAA
131 ATAAGAA
710798 CAGTACCAAT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 136 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (137 bp):
GACATATTTCGATGTTAGAAAATCCCATAAAACTTAACAAACCTTTGGTATCCTTAGAGGACTTA
TGAGAGGCTTTAAGGGACCATTTTCGTACTTAAACAAAGCACTCCGAACCATCGGTATCGGTACT
ATAAGAA
Found at i:717935 original size:18 final size:21
Alignment explanation
Indices: 717912--717957 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
717902 TGGTAGGTAC
717912 CGATACTCA-T-GG-GAGTAT
1 CGATACTCATTGGGCGAGTAT
717930 CGATAC-CATTGGGCGAGTAT
1 CGATACTCATTGGGCGAGTAT
*
717950 CAATACTC
1 CGATACTC
717958 TATATCAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 7 0.30
19 2 0.09
20 11 0.48
21 1 0.04
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (21 bp):
CGATACTCATTGGGCGAGTAT
Found at i:718038 original size:18 final size:18
Alignment explanation
Indices: 718011--718075 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 18
718001 TCTCAAACTG
* *
718011 GTATCAATACTAAGGCCA
1 GTATCGATACTAAGACCA
*
718029 GTATCGATACCCTAAGACTA
1 GTATCGATA--CTAAGACCA
718049 GTATCGATACT--GA-CA
1 GTATCGATACTAAGACCA
718064 GGTATCGATACT
1 -GTATCGATACT
718076 GACAGGCTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.03
16 13 0.32
18 10 0.25
20 16 0.40
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (18 bp):
GTATCGATACTAAGACCA
Found at i:718070 original size:16 final size:16
Alignment explanation
Indices: 718049--718081 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
718039 CCTAAGACTA
718049 GTATCGATACTGACAG
1 GTATCGATACTGACAG
718065 GTATCGATACTGACAG
1 GTATCGATACTGACAG
718081 G
1 G
718082 CTCAATGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (16 bp):
GTATCGATACTGACAG
Found at i:719686 original size:22 final size:22
Alignment explanation
Indices: 719658--719706 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
719648 GACGTCGTCT
719658 GGTTCTTCCGACCGATCGGACC
1 GGTTCTTCCGACCGATCGGACC
719680 GGTTCTTCCGACCGATCGGACC
1 GGTTCTTCCGACCGATCGGACC
719702 GGTTC
1 GGTTC
719707 GACCGGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (22 bp):
GGTTCTTCCGACCGATCGGACC
Found at i:729558 original size:19 final size:20
Alignment explanation
Indices: 729495--729582 Score: 58
Period size: 20 Copynumber: 4.3 Consensus size: 20
729485 TAAAAGTTCG
* *
729495 ATAATATAATAATTATTTT-
1 ATAATTTAATAAGTATTTTA
*
729514 ATAGTATTTAGATAAAT-TTATTA
1 ATA--ATTTA-ATAAGTATT-TTA
* *
729537 ATAATTTCATAA-TCTTTTA
1 ATAATTTAATAAGTATTTTA
729556 ATAAATTTAATAAGTATTTT-
1 AT-AATTTAATAAGTATTTTA
729576 ATAATTT
1 ATAATTT
729583 TTTAAACTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
19 14 0.25
20 17 0.30
21 15 0.27
22 7 0.12
23 3 0.05
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (20 bp):
ATAATTTAATAAGTATTTTA
Found at i:729563 original size:31 final size:31
Alignment explanation
Indices: 729520--729587 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
729510 TTTTATAGTA
*
729520 TTTAGATAAATTTATTAA-TAATTTCATAATCT
1 TTTA-ATAAATTTAATAAGT-ATTTCATAATCT
* *
729552 TTTAATAAATTTAATAAGTATTTTATAATTT
1 TTTAATAAATTTAATAAGTATTTCATAATCT
729583 TTTAA
1 TTTAA
729588 ACTTTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 27 0.84
32 5 0.16
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTAATAAATTTAATAAGTATTTCATAATCT
Found at i:730133 original size:31 final size:30
Alignment explanation
Indices: 730091--730177 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
730081 TCAATAAAAT
730091 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
730122 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
730153 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
730178 TATTATAGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:732276 original size:20 final size:20
Alignment explanation
Indices: 732251--732450 Score: 102
Period size: 20 Copynumber: 9.9 Consensus size: 20
732241 GATTTTCTAT
732251 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
*
732271 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * *
732291 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAATATGAA
* * *
732311 TATCGCAACGAGTATCCAT-AA
1 AATCGCAACGCGAAT--ATGAA
* * *
732332 AATCGCAATGCGTAT-TCGTA
1 AATCGCAACGCGAATAT-GAA
*
732352 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
* ** *
732373 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
* * * ** *
732393 AATCGCAATGTGTATCCGTA
1 AATCGCAACGCGAATATGAA
* * *
732413 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATATGAA
732433 AATCGCAACGCGAATATG
1 AATCGCAACGCGAATATG
732451 CGAATACGTA
Statistics
Matches: 141, Mismatches: 29, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 108 0.77
21 30 0.21
22 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:732338 original size:21 final size:20
Alignment explanation
Indices: 732312--732442 Score: 118
Period size: 20 Copynumber: 6.5 Consensus size: 20
732302 GATTCTGACT
*
732312 ATCGCAACGAGTATCCATAAA
1 ATCGCAACGAGTATCCGT-AA
* * *
732333 ATCGCAATGCGTATTCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
732353 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
732374 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* *
732394 ATCGCAATGTGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* * * *
732414 ATCGCAATGCGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
732434 ATCGCAACG
1 ATCGCAACG
732443 CGAATATGCG
Statistics
Matches: 90, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
20 60 0.67
21 30 0.33
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:732354 original size:61 final size:60
Alignment explanation
Indices: 732289--732442 Score: 177
Period size: 61 Copynumber: 2.5 Consensus size: 60
732279 CGCGAACATA
* ** *
732289 TAAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCATAAAATCGCAATGCGTATTCG
1 TAAATCGCAACGCGATACGT-AAAATCGCAACGAGTATCCAT-AAATCGCAATGCGTATCCG
* * * *
732350 TAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAATGTGTATCCG
1 TAAATCGCAACG-CGATACGTAAAATCGCAACGAGTATCCATAAATCGCAATGCGTATCCG
*
732411 TAAATCGCAATGCGAATACGT-AAATCGCAACG
1 TAAATCGCAACGCG-ATACGTAAAATCGCAACG
732443 CGAATATGCG
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
60 12 0.15
61 46 0.57
62 21 0.26
63 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (60 bp):
TAAATCGCAACGCGATACGTAAAATCGCAACGAGTATCCATAAATCGCAATGCGTATCCG
Found at i:732357 original size:41 final size:41
Alignment explanation
Indices: 732312--732442 Score: 165
Period size: 41 Copynumber: 3.2 Consensus size: 41
732302 GATTCTGACT
* *
732312 ATCGCAACGAGTATCCATAAAATCGCAATGCGTATTCGTAA
1 ATCGCAACGAGTATCCGTAAAATCGCAATGCGTATACGTAA
** * * *
732353 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAAAATCGCAATGCGTATACGTAA
* * *
732394 ATCGCAATGTGTATCCGT-AAATCGCAATGCGAATACGTAA
1 ATCGCAACGAGTATCCGTAAAATCGCAATGCGTATACGTAA
732434 ATCGCAACG
1 ATCGCAACG
732443 CGAATATGCG
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 27 0.36
41 48 0.64
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
ATCGCAACGAGTATCCGTAAAATCGCAATGCGTATACGTAA
Found at i:732460 original size:28 final size:28
Alignment explanation
Indices: 732420--732487 Score: 129
Period size: 27 Copynumber: 2.5 Consensus size: 28
732410 GTAAATCGCA
732420 ATGCGAATACGTAAATCGCAACGCGAAT
1 ATGCGAATACGTAAATCGCAACGCGAAT
732448 ATGCGAATACGT-AATCGCAACGCGAAT
1 ATGCGAATACGTAAATCGCAACGCGAAT
732475 ATGCGAATACGTA
1 ATGCGAATACGTA
732488 TTCGCGTTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 27 0.69
28 12 0.31
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (28 bp):
ATGCGAATACGTAAATCGCAACGCGAAT
Found at i:732530 original size:20 final size:20
Alignment explanation
Indices: 732482--732527 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
732472 AATATGCGAA
*
732482 TACGTATTCGCGTTGCGATT
1 TACGTAATCGCGTTGCGATT
732502 TACGTAATCGCGTTGCGATT
1 TACGTAATCGCGTTGCGATT
732522 TA-GTAA
1 TACGTAA
732528 ATCACAACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (20 bp):
TACGTAATCGCGTTGCGATT
Found at i:735985 original size:33 final size:33
Alignment explanation
Indices: 735943--736088 Score: 166
Period size: 33 Copynumber: 4.2 Consensus size: 33
735933 CTTAATGTCT
*
735943 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* *
735976 ATCGCAATGCGAAATAAAAATCGCAACGTGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* * * *
736009 ATCGCAACGGGAATATGAATATCGCAACGCGGAAATGA
1 ATCGCAATGCGAA-ATGAAAATCGCAACG-AG-AA--A
736047 CTATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 --ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
736082 ATCGCAA
1 ATCGCAA
736089 AGCGCAAAGC
Statistics
Matches: 94, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
33 48 0.51
34 13 0.14
35 2 0.02
36 2 0.02
37 2 0.02
38 2 0.02
39 14 0.15
40 11 0.12
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:736027 original size:20 final size:19
Alignment explanation
Indices: 736004--736081 Score: 84
Period size: 20 Copynumber: 4.0 Consensus size: 19
735994 AATCGCAACG
736004 TGAAAATCGCAACGGGAATA
1 TGAAAATCGCAACGGGAA-A
*
736024 TGAATATCGCAACGCGGAAA
1 TGAAAATCGCAACG-GGAAA
** * *
736044 TGACTATCGCAATGCGAAA
1 TGAAAATCGCAACGGGAAA
*
736063 TGAAAATCGCAACGAGAAA
1 TGAAAATCGCAACGGGAAA
736082 ATCGCAAAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 19 0.39
20 26 0.53
21 4 0.08
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
TGAAAATCGCAACGGGAAA
Found at i:736127 original size:18 final size:18
Alignment explanation
Indices: 736101--736141 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
736091 CGCAAAGCGA
*
736101 ATTTAGTTTCGCGTTGCG
1 ATTTTGTTTCGCGTTGCG
736119 ATTTTGTTTCGCGTTGCG
1 ATTTTGTTTCGCGTTGCG
736137 ATTTT
1 ATTTT
736142 CATTGCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (18 bp):
ATTTTGTTTCGCGTTGCG
Found at i:736153 original size:11 final size:12
Alignment explanation
Indices: 736132--736184 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
736122 TTGTTTCGCG
736132 TTGCGATTTTCA
1 TTGCGATTTTCA
736144 TTGC-ATTTTCA
1 TTGCGATTTTCA
*
736155 TTTCGCGATTCTCTCG
1 -TT-GCGATT-T-TCA
736171 TTGCGATTTTCA
1 TTGCGATTTTCA
736183 TT
1 TT
736185 TTGCATTGCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
11 7 0.21
12 10 0.29
13 3 0.09
14 9 0.26
15 3 0.09
16 2 0.06
ACGTcount: A:0.13, C:0.21, G:0.15, T:0.51
Consensus pattern (12 bp):
TTGCGATTTTCA
Found at i:736188 original size:14 final size:14
Alignment explanation
Indices: 736132--736188 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
736122 TTGTTTCGCG
736132 TTGCGATTTTCA--
1 TTGCGATTTTCATT
736144 TTGC-ATTTTCATT
1 TTGCGATTTTCATT
* * *
736157 TCGCGATTCTC-TCG
1 TTGCGATTTTCAT-T
736171 TTGCGATTTTCATT
1 TTGCGATTTTCATT
736185 TTGC
1 TTGC
736189 ATTGCGATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
11 7 0.21
12 4 0.12
13 4 0.12
14 18 0.53
15 1 0.03
ACGTcount: A:0.12, C:0.21, G:0.16, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTCATT
Found at i:736322 original size:14 final size:14
Alignment explanation
Indices: 736303--736339 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
736293 CATCAATTAA
736303 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
736317 ACAAATCATCTTTT
1 ACAAATCAACTTTT
736331 ACAAATCAA
1 ACAAATCAA
736340 TTAAGCAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:737712 original size:21 final size:21
Alignment explanation
Indices: 737688--737748 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
737678 GTGAATCGGG
*
737688 CTCTTGAATGGTGAGAGGGAC
1 CTCTTGAACGGTGAGAGGGAC
* * * *
737709 CTCTTCAACGATGACAGTGAC
1 CTCTTGAACGGTGAGAGGGAC
*
737730 CTCTTGAACGGTGGGAGGG
1 CTCTTGAACGGTGAGAGGG
737749 GACTCTCGAG
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGAGAGGGAC
Found at i:738253 original size:19 final size:19
Alignment explanation
Indices: 738231--738357 Score: 104
Period size: 19 Copynumber: 7.5 Consensus size: 19
738221 AATGACTATT
738231 GCAACGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
* *
738250 GCAA--TG--A-GAGAATC
1 GCAACGCGAAATGAAAATC
738264 GCAACGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
*
738283 GCAA--CG--A-GAGAATC
1 GCAACGCGAAATGAAAATC
738297 GCAACGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
*
738316 GCAA--CG--A-GAGAATC
1 GCAACGCGAAATGAAAATC
*
738330 GCAATGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
738349 GCAACGCGA
1 GCAACGCGA
738358 TTATAGTTTC
Statistics
Matches: 84, Mismatches: 9, Indels: 30
0.68 0.07 0.24
Matches are distributed among these distances:
14 30 0.36
15 3 0.04
16 5 0.06
17 5 0.06
18 3 0.04
19 38 0.45
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (19 bp):
GCAACGCGAAATGAAAATC
Found at i:738268 original size:33 final size:33
Alignment explanation
Indices: 738231--738354 Score: 230
Period size: 33 Copynumber: 3.8 Consensus size: 33
738221 AATGACTATT
*
738231 GCAACGCGAAATGAAAATCGCAATGAGAGAATC
1 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
738264 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
738297 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
*
738330 GCAATGCGAAATGAAAATCGCAACG
1 GCAACGCGAAATGAAAATCGCAACG
738355 CGATTATAGT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GCAACGCGAAATGAAAATCGCAACGAGAGAATC
Found at i:738298 original size:14 final size:14
Alignment explanation
Indices: 738246--738333 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
738236 GCGAAATGAA
*
738246 AATCGCAATGAGAG
1 AATCGCAACGAGAG
*
738260 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
738279 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
738293 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
738312 AATCGCAACGAGAG
1 AATCGCAACGAGAG
738326 AATCGCAA
1 AATCGCAA
738334 TGCGAAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 28 0.47
15 2 0.03
16 3 0.05
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:738376 original size:19 final size:19
Alignment explanation
Indices: 738354--738397 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
738344 AAATCGCAAC
738354 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
* *
738373 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
738392 GCGATT
1 GCGATT
738398 TTGTCGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.30, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:738427 original size:16 final size:16
Alignment explanation
Indices: 738406--738438 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
738396 TTTTGTCGTT
738406 GCGATTTTCATTTCGC
1 GCGATTTTCATTTCGC
738422 GCGATTTTCATTTCGC
1 GCGATTTTCATTTCGC
738438 G
1 G
738439 TTGCGATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (16 bp):
GCGATTTTCATTTCGC
Found at i:738446 original size:19 final size:19
Alignment explanation
Indices: 738364--738446 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 19
738354 GCGATTATAG
**
738364 TTTCGCGTTGCGATTTTGG
1 TTTCGCGTTGCGATTTTCA
738383 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
738399 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
738416 TTTCGC---GCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
738432 TTTCGCGTTGCGATT
1 TTTCGCGTTGCGATT
738447 CTCGTTGCGA
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
16 18 0.33
17 2 0.04
18 3 0.06
19 20 0.37
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:738454 original size:12 final size:12
Alignment explanation
Indices: 738437--738470 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
738427 TTTCATTTCG
738437 CGTTGCGAT-TCT
1 CGTTGCGATAT-T
738449 CGTTGCGATATT
1 CGTTGCGATATT
738461 CGTTGCGATA
1 CGTTGCGATA
738471 GTCATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (12 bp):
CGTTGCGATATT
Found at i:738703 original size:94 final size:94
Alignment explanation
Indices: 738557--738936 Score: 649
Period size: 94 Copynumber: 4.1 Consensus size: 94
738547 ATGGATTGCA
* *
738557 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
738621 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
738650 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
738715 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
738744 TTACTTTCAACCAAAAGGA-AAAATAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
1 TTACTTTCAACCAAAA-GACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
738808 TTTAGCAAAATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
*
738838 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
738902 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
738932 TTACT
1 TTACT
738937 AAGCAATCTA
Statistics
Matches: 273, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
92 2 0.01
93 19 0.07
94 250 0.92
95 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:740658 original size:20 final size:20
Alignment explanation
Indices: 740635--740690 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
740625 TGAAATGAAA
740635 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
740655 ATCGCAACGCG-GAAATGACT
1 ATCGCAACGAGAG-AATGACT
740675 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
740691 CGCAACGCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:740712 original size:19 final size:19
Alignment explanation
Indices: 740626--740771 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
740616 TCTTTTGGTT
*
740626 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
**
740645 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
740665 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
740683 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
740699 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
* *
740718 GAAATTAAAATTGCAA--C
1 GAAATGAAAATCGCAACGC
*
740735 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
740751 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
740770 GA
1 GA
740772 TTTTGGTTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 17 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 42 0.42
20 28 0.28
21 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:740783 original size:19 final size:19
Alignment explanation
Indices: 740767--740819 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
740757 AAAATCGCAA
**
740767 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
740786 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
740805 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
740820 TCTCGTTACG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.09, C:0.19, G:0.23, T:0.49
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:741425 original size:20 final size:20
Alignment explanation
Indices: 741397--741546 Score: 176
Period size: 20 Copynumber: 7.4 Consensus size: 20
741387 ACGTATTGTT
*
741397 GTTGTGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * * *
741417 ATTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGC
*
741437 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATACGC
*
741457 GTTTCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
741477 GTTGCGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
741498 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
741518 GTTGCGATTTTACGGATACTC
1 GTTGCGA-TTTACGGATACGC
741539 GTTGCGAT
1 GTTGCGAT
741547 AGTCAGAATC
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
20 72 0.67
21 36 0.33
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:741433 original size:40 final size:40
Alignment explanation
Indices: 741377--741486 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
741367 AAAAATCACG
* * * *
741377 TTGCGATTTTACGTATTGTTGTTGTGATTTACGGATACGCA
1 TTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATACGCA
*
741418 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCA
* * * *
741458 TTTCGATTTACGGATACGCGTTGCGATTT
1 TTGCGATTTACGTATTCTCGTTGCGATTT
741487 TACGTATTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 54 0.90
41 6 0.10
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (40 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCA
Found at i:741493 original size:61 final size:61
Alignment explanation
Indices: 741397--741546 Score: 230
Period size: 61 Copynumber: 2.5 Consensus size: 61
741387 ACGTATTGTT
* *
741397 GTTGTGATTTACGGATACGCATTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGC
* * *
741457 GTTTCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGC
*
741518 GTTGCGATTTTACGGATACTCGTTGCGAT
1 GTTGCGA-TTTACGGATACGCGTTGCGAT
741547 AGTCAGAATC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
60 24 0.30
61 37 0.46
62 20 0.25
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (61 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGC
Found at i:741506 original size:41 final size:40
Alignment explanation
Indices: 741418--741546 Score: 154
Period size: 41 Copynumber: 3.2 Consensus size: 40
741408 CGGATACGCA
* * *
741418 TTGCGATTTACGTATTCTCGTTGCGA-TTTACAGATACG-CG
1 TTGCGATTTACGGATACGCGTTGCGATTTTAC-GATA-GTCG
* *
741458 TTTCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACG-ATAGTCG
*
741499 TTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTAC-GATAGTCG
741540 TTGCGAT
1 TTGCGAT
741547 AGTCAGAATC
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
40 24 0.31
41 52 0.68
42 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (40 bp):
TTGCGATTTACGGATACGCGTTGCGATTTTACGATAGTCG
Found at i:741560 original size:41 final size:41
Alignment explanation
Indices: 741404--741569 Score: 140
Period size: 41 Copynumber: 4.1 Consensus size: 41
741394 GTTGTTGTGA
* * * * * *
741404 TTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGA-
1 TTTACGGATACTCGTTGCGATTCACGAATACGCGTTGCGAT
* * * * *
741444 TTTACAGATACGCGTTTCGATTTACGGATACGCGTTGCGAT
1 TTTACGGATACTCGTTGCGATTCACGAATACGCGTTGCGAT
* ** * *
741485 TTTACGTATTGTCGTTGCGATTTACGGATACGCGTTGCGAT
1 TTTACGGATACTCGTTGCGATTCACGAATACGCGTTGCGAT
*
741526 TTTACGGATACTCGTTGCGATAGTCA-GAAT-CGCGTTGTGAT
1 TTTACGGATACTCGTTGCGAT--TCACGAATACGCGTTGCGAT
741567 TTT
1 TTT
741570 CATATTCGCG
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 34 0.32
41 66 0.63
42 3 0.03
43 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (41 bp):
TTTACGGATACTCGTTGCGATTCACGAATACGCGTTGCGAT
Found at i:741562 original size:61 final size:62
Alignment explanation
Indices: 741404--741587 Score: 189
Period size: 61 Copynumber: 3.0 Consensus size: 62
741394 GTTGTTGTGA
* * * *
741404 TTTACGGATACGCATTGCGAT-TTACGTATTC-TCGTTGCGATTTACAGATACGCGTTTCGA-
1 TTTACGGATACGCGTTGCGATGTCACG-AATCGTCGTTGCGATTTACAGATACGCGTTGCGAT
* * * * *
741464 TTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCGTTGCGAT
1 TTTACGGATACGCGTTGCGATGTCACGAATCGTCGTTGCGATTTACAGATACGCGTTGCGAT
* * * * *
741526 TTTACGGATACTCGTTGCGATAGTCA-GAATCG-CGTTGTGATTTTCATATTCGCGTTGCGAT
1 TTTACGGATACGCGTTGCGAT-GTCACGAATCGTCGTTGCGATTTACAGATACGCGTTGCGAT
741587 T
1 T
741588 CTGGAAAATC
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
60 21 0.20
61 57 0.55
62 24 0.23
63 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (62 bp):
TTTACGGATACGCGTTGCGATGTCACGAATCGTCGTTGCGATTTACAGATACGCGTTGCGAT
Found at i:741686 original size:20 final size:19
Alignment explanation
Indices: 741637--741690 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
741627 ATTCTTCATA
741637 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
741656 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
741677 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
741691 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:750002 original size:23 final size:21
Alignment explanation
Indices: 749941--750013 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 21
749931 CGATGCACAG
* * *
749941 GTATCGACACCCCTTG-CTAT
1 GTATCGATACACCTTGAATAT
749961 GTATCGATACACCTTGAATAT
1 GTATCGATACACCTTGAATAT
* *
749982 GTACCGATACATTCCTTGAATGT
1 GTATCGATACA--CCTTGAATAT
750005 GTATCGATA
1 GTATCGATA
750014 GCCCTATAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.32
21 13 0.30
23 17 0.39
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (21 bp):
GTATCGATACACCTTGAATAT
Found at i:750472 original size:20 final size:19
Alignment explanation
Indices: 750427--750477 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
750417 TAAAATAAAA
*
750427 AAATT-TTGTTTTTGTTTT
1 AAATTGTTGTTTTTGATTT
750445 AAATTGTTGTTTTTGATTT
1 AAATTGTTGTTTTTGATTT
*
750464 AATTATGTTGTTTT
1 AAAT-TGTTGTTTT
750478 AATGAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 5 0.17
19 15 0.52
20 9 0.31
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.67
Consensus pattern (19 bp):
AAATTGTTGTTTTTGATTT
Found at i:752338 original size:13 final size:13
Alignment explanation
Indices: 752309--752343 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
752299 GGGGAGTAAT
*
752309 TTTTCAAAATTGA
1 TTTTCAAAAATGA
752322 -TTTCAAAAATGA
1 TTTTCAAAAATGA
752334 TTTTCAAAAA
1 TTTTCAAAAA
752344 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAATGA
Found at i:760461 original size:22 final size:22
Alignment explanation
Indices: 760436--760490 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
760426 AAGCATAACA
760436 TAAAATGTTATTATTCAGAACT
1 TAAAATGTTATTATTCAGAACT
760458 TAAAATGTTATTATTCAGAACT
1 TAAAATGTTATTATTCAGAACT
760480 TAAAATGTTAT
1 TAAAATGTTAT
760491 CAATCATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (22 bp):
TAAAATGTTATTATTCAGAACT
Found at i:760907 original size:77 final size:75
Alignment explanation
Indices: 760793--761029 Score: 275
Period size: 76 Copynumber: 3.1 Consensus size: 75
760783 TGAATATATA
* * ** *
760793 TAATAAATATGGTTGCGCCCAAGAATGTTAT-AGTTCACTGGGAAATAGATTGTGATCTGGAATG
1 TAATAAA-ATGGTTGCG-CCAAAAATGTCATGA-TTCACTAAGAAATAGGTTGTGATCTGGAATG
760857 TTAATATTTTTAT
63 TTAATATTTTTAT
*
760870 TAATAAAATGGGTTGCGTCCAAAAATGTCATGATTCACTAAGAAATAGGTTGTTG-TCTAGAATG
1 TAATAAAAT-GGTTGCG-CCAAAAATGTCATGATTCACTAAGAAATAGGTTG-TGATCTGGAATG
760934 TTAATATTTTTAT
63 TTAATATTTTTAT
* * * * *
760947 TAA-AAAATAGGTTGTGCCAAAAAATGTCATGGTTCACTAAGAAATAGGTTGTAATGTGGAACGT
1 TAATAAAAT-GGTTGCGCC-AAAAATGTCATGATTCACTAAGAAATAGGTTGTGATCTGGAATGT
761011 TAATATTTTTAT
64 TAATATTTTTAT
761023 T-ATAAAA
1 TAATAAAA
761030 GATTTGAAAG
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
75 4 0.03
76 68 0.49
77 65 0.46
78 3 0.02
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (75 bp):
TAATAAAATGGTTGCGCCAAAAATGTCATGATTCACTAAGAAATAGGTTGTGATCTGGAATGTTA
ATATTTTTAT
Found at i:760921 original size:37 final size:37
Alignment explanation
Indices: 760875--760998 Score: 101
Period size: 37 Copynumber: 3.3 Consensus size: 37
760865 TTTATTAATA
* *
760875 AAATGGGTTGCGTCCAAAAATGTCATGATTCACTAAG
1 AAATAGGTTGTGTCCAAAAATGTCATGATTCACTAAG
* * * * * *
760912 AAATAGGTTGTTGT-CTAGAATGTTAAT-ATTTTTATTAAA
1 AAATAGGTTG-TGTCCAAAAATG-TCATGA--TTCACTAAG
*
760951 AAATAGGTTGTG-CCAAAAAATGTCATGGTTCACTAAG
1 AAATAGGTTGTGTCC-AAAAATGTCATGATTCACTAAG
760988 AAATAGGTTGT
1 AAATAGGTTGT
760999 AATGTGGAAC
Statistics
Matches: 65, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
37 33 0.51
38 11 0.17
39 21 0.32
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (37 bp):
AAATAGGTTGTGTCCAAAAATGTCATGATTCACTAAG
Found at i:760973 original size:39 final size:38
Alignment explanation
Indices: 760853--760969 Score: 96
Period size: 39 Copynumber: 3.1 Consensus size: 38
760843 TGTGATCTGG
* *
760853 AATGTTAATATTTTTATTAATAAAATGGGTTGCGTCCAAA
1 AATGTTAATATTTTTATTAA-AAAATAGGTTGTG-CCAAA
* * * * * * *
760893 AATG-TCATGA--TTCACTAAGAAATAGGTTGTTGTCTAG
1 AATGTTAAT-ATTTTTATTAAAAAATAGGTTG-TGCCAAA
760930 AATGTTAATATTTTTATTAAAAAATAGGTTGTGCCAAA
1 AATGTTAATATTTTTATTAAAAAATAGGTTGTGCCAAA
760968 AA
1 AA
760970 ATGTCATGGT
Statistics
Matches: 56, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
37 16 0.29
38 16 0.29
39 19 0.34
40 5 0.09
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (38 bp):
AATGTTAATATTTTTATTAAAAAATAGGTTGTGCCAAA
Found at i:761562 original size:77 final size:76
Alignment explanation
Indices: 761367--761587 Score: 236
Period size: 77 Copynumber: 2.9 Consensus size: 76
761357 CTTTCAAATT
* * * * *
761367 TTAA-AAAAATATTAACA-TT--GATCACAACCTATTTCTTAGT-AAGACATGATATTCTTAGAC
1 TTAATAAAAATATTAACATTTCATATCGCAA-CTATTTCTTAGTGAA-CCATGAAATTCTTGGAC
* *
761427 ACAACCCATTTTA
64 GCGACCCATTTTA
* * * * *
761440 TTAATAAAAAATATTAAAATTTCATATTGTAACTTATTTTTTAGTGAACCATGAAATTCTTGGGC
1 TTAAT-AAAAATATTAACATTTCATATCGCAAC-TATTTCTTAGTGAACCATGAAATTCTTGGAC
761505 GCGACCCATTTTA
64 GCGACCCATTTTA
* *
761518 TTAATAAAAATATTAACATTTCATATCGCAATCTATTTCTTAGTGAACCATTACATTCTTGGACG
1 TTAATAAAAATATTAACATTTCATATCGCAA-CTATTTCTTAGTGAACCATGAAATTCTTGGACG
761583 CGACC
65 CGACC
761588 ATATTTCTTA
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
73 4 0.03
75 12 0.10
76 2 0.02
77 57 0.47
78 44 0.36
79 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (76 bp):
TTAATAAAAATATTAACATTTCATATCGCAACTATTTCTTAGTGAACCATGAAATTCTTGGACGC
GACCCATTTTA
Found at i:764964 original size:39 final size:39
Alignment explanation
Indices: 764920--764995 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
764910 TGGAGAATAT
*
764920 TCATTTGGTGCAGAAACAAGAGCATAACATGGTAAATGA
1 TCATTTGGTGCAAAAACAAGAGCATAACATGGTAAATGA
* *
764959 TCATTTGGTGCAAAAACAAGGGCATAACTTGGTAAAT
1 TCATTTGGTGCAAAAACAAGAGCATAACATGGTAAAT
764996 ATTATGCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (39 bp):
TCATTTGGTGCAAAAACAAGAGCATAACATGGTAAATGA
Found at i:769706 original size:18 final size:18
Alignment explanation
Indices: 769683--769742 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
769673 TTTAATATTA
*
769683 TATATATTTATGAAAATT
1 TATATATTTATGAAAAAT
*
769701 TATATATATAT-AATAAAT
1 TATATATTTATGAA-AAAT
769719 TATA-ATTTAATGAAATAA-
1 TATATATTT-ATGAAA-AAT
769737 TATATA
1 TATATA
769743 AAAAATTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TATATATTTATGAAAAAT
Found at i:770045 original size:21 final size:20
Alignment explanation
Indices: 770007--770046 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
769997 CTAATTTAAG
* *
770007 ATTAAATATGTTTTAATTGA
1 ATTAAATATGATTAAATTGA
770027 ATTAAATTATGATTAAATTG
1 ATTAAA-TATGATTAAATTG
770047 TTAGAATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (20 bp):
ATTAAATATGATTAAATTGA
Found at i:770159 original size:122 final size:123
Alignment explanation
Indices: 769958--770202 Score: 386
Period size: 122 Copynumber: 2.0 Consensus size: 123
769948 GTGTCCACTT
* *
769958 TATTTTTCTCTTTAATAGGATGGTGACACGAGTCATCATCTAATTTAAGATTAAATATGTTTTAA
1 TATTTTTCTCTTTAATAGGATGGTGACACGAGCCATCATCTAATTTAAGATCAAATATGTTTTAA
* *
770023 TTGAATTAAATTATGATTAAATTGTTAGAATGTATAAAGATTGAAGACCAAATGTATA
66 TTGAATTAAATTATGATTAAATTGTTAGAATATATAAAGAATGAAGACCAAATGTATA
* * *
770081 TATTTTTCTCTTTAATAGGGTGGTGACAC-TGCCATCATCTAA-TTAGAGATCAAATGTGTTTTA
1 TATTTTTCTCTTTAATAGGATGGTGACACGAGCCATCATCTAATTTA-AGATCAAATATGTTTTA
* *
770144 ATTGAATTAAATTATGATTAAATTGTTAGAATATATAAAGAATGAGGACCATATGTATA
65 ATTGAATTAAATTATGATTAAATTGTTAGAATATATAAAGAATGAAGACCAAATGTATA
770203 AATATGCTAA
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
121 3 0.03
122 81 0.72
123 28 0.25
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (123 bp):
TATTTTTCTCTTTAATAGGATGGTGACACGAGCCATCATCTAATTTAAGATCAAATATGTTTTAA
TTGAATTAAATTATGATTAAATTGTTAGAATATATAAAGAATGAAGACCAAATGTATA
Found at i:770972 original size:36 final size:36
Alignment explanation
Indices: 770874--771036 Score: 195
Period size: 36 Copynumber: 4.5 Consensus size: 36
770864 GAAAACATTT
* * *
770874 TTTTTAAACTATATATAATATATAGTTTTGAAAACA
1 TTTTAAAAATATATATAATATATAGTTTTTAAAACA
* *
770910 TGTTTGAAAACATTTATATATTATATAGTTTTTAAAACA
1 T-TTT-AAAA-ATATATATAATATATAGTTTTTAAAACA
* *
770949 TTTTAAAAATAAATATAATATATAGTTTTTAAAGCA
1 TTTTAAAAATATATATAATATATAGTTTTTAAAACA
*
770985 TTTTTGAAAATATATAT--TATATAGTTTTTAAAACA
1 -TTTTAAAAATATATATAATATATAGTTTTTAAAACA
*
771020 TTTTGAAAATATATATA
1 TTTTAAAAATATATATA
771037 GTTTTTAAAG
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
34 16 0.15
35 17 0.15
36 25 0.23
37 21 0.19
38 6 0.05
39 25 0.23
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTAAAAATATATATAATATATAGTTTTTAAAACA
Found at i:771064 original size:29 final size:29
Alignment explanation
Indices: 771003--771065 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
770993 AATATATATT
* *
771003 ATATAGTTTTTAAAACATTTTGAAAATAT
1 ATATAGTTTTTAAAACATTTTGAAAACAC
* *
771032 ATATAGTTTTTAAAGCATTTTTAAAACAC
1 ATATAGTTTTTAAAACATTTTGAAAACAC
771061 ATATA
1 ATATA
771066 TATTATATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (29 bp):
ATATAGTTTTTAAAACATTTTGAAAACAC
Found at i:771102 original size:67 final size:64
Alignment explanation
Indices: 770966--771095 Score: 188
Period size: 67 Copynumber: 2.0 Consensus size: 64
770956 AATAAATATA
* *
770966 ATATATAGTTTTTAAAGCATTTTTGAAAATATATATTATATAGTTTTTAAAACATTTTGAAAAT
1 ATATATAGTTTTTAAAGCATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTTGAAAAT
* **
771030 ATATATAGTTTTTAAAGCATTTTTAAAACACATATATATTATATAGTTTTGACATTATTTTGAAA
1 ATATATAGTTTTTAAAGCATTTTT-AAA-A-ATATATATTATATAGTTTTGAAAACATTTTGAAA
771095 A
63 A
771096 CTTATATGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
64 24 0.41
65 2 0.03
66 1 0.02
67 31 0.53
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.46
Consensus pattern (64 bp):
ATATATAGTTTTTAAAGCATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTTGAAAAT
Found at i:771174 original size:103 final size:101
Alignment explanation
Indices: 770931--771156 Score: 237
Period size: 103 Copynumber: 2.2 Consensus size: 101
770921 ATTTATATAT
* * * * * * * **
770931 TATATAGTTTTTAAAACA-TTTTAAAA-ATAAATATAATATATAGTTTTTAAAGCATTTTTGAAA
1 TATATAATTTTGAAAACATTTTTAAAACACATATATATTATATAGTTTTGACATTA-TTTTGAAA
*
770994 ATATATATTATATAGTTTTTAAAACATTTTGAAAATA
65 ATATATATTATATAGATTTTAAAACATTTTGAAAATA
* * *
771031 TATATAGTTTTTAAAGCATTTTTAAAACACATATATATTATATAGTTTTGACATTATTTTGAAAA
1 TATATAATTTTGAAAACATTTTTAAAACACATATATATTATATAGTTTTGACATTATTTTGAAAA
*
771096 CT-TATATGATATATA-ATTTTAAGAACATTTTTAAAA-A
66 -TATATAT--TATATAGATTTTAA-AACATTTTGAAAATA
771133 CTATATAATTTTGAAAACATTTTT
1 -TATATAATTTTGAAAACATTTTT
771157 TTATAATAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
100 17 0.16
101 22 0.21
102 29 0.27
103 38 0.36
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (101 bp):
TATATAATTTTGAAAACATTTTTAAAACACATATATATTATATAGTTTTGACATTATTTTGAAAA
TATATATTATATAGATTTTAAAACATTTTGAAAATA
Found at i:772681 original size:13 final size:13
Alignment explanation
Indices: 772663--772692 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
772653 CGAACCAAAT
772663 TTTTAAATTTCAA
1 TTTTAAATTTCAA
*
772676 TTTTAAATTTTAA
1 TTTTAAATTTCAA
772689 TTTT
1 TTTT
772693 CGCAACTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAAATTTCAA
Found at i:778081 original size:84 final size:83
Alignment explanation
Indices: 777809--778753 Score: 899
Period size: 84 Copynumber: 11.4 Consensus size: 83
777799 GCTCAAGGCC
* * *
777809 AGAAGGGCTACCTGCC-ACCAAA-ACCTTCGAGTTCGACTACGTTCAGCTCTAAGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC-AAGGCACATCATT
* *
777872 TGCAGAATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * * *
777891 AGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAGGGCATAACAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCAT
** * * *
777952 TTATAGCATAACTCAAGGCT
64 TTGCAGCATAACTTAAGTCG
* * *
777972 AGAAGGGTTATATGTCAA-CACAAGACCGTCGAGTTCGACTACGCTCAGCTCAACGGCACATCAT
1 AGAAGGGTTATCTGCCAACCA-AAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCAT
778036 TTGCAGCATAACTTAAGTCG
64 TTGCAGCATAACTTAAGTCG
* *
778056 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
* * *
778121 TGTAGCACAACTTAAGTCT
65 TGCAGCATAACTTAAGTCG
* * *
778140 AGAAGGGTTGTCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
* *
778205 TGCAGAATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * * * * *
778224 ATAAGGGCTATCTG----CCAAAGACCCTT-AAGTTTGATTACACTCAGCTTCAAGGGCATAACA
1 AGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCAA-GGCACATCA
* * * *
778284 TTTACAGCATAACTCAAGGCT
63 TTTGCAGCATAACTTAAGTCG
** * *
778305 AGAAGGGTTATCTG-TTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
* * *
778369 TGCAGAATAGCTTGAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * * *
778388 AGAAGGGCTATCTG----CCAAAGA-CTCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCA
1 AGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCA
778448 TTTGCAGCATAACTTAAGTCG
63 TTTGCAGCATAACTTAAGTCG
*
778469 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
* *
778534 TGCAGCACAACTTAAGTCT
65 TGCAGCATAACTTAAGTCG
* * * * * *
778553 ACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACGATCAGCTCAACGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATT
*
778618 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* ** * * *
778637 AGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCAT
* *
778698 TTGCAGCACAACTTAAGTCT
64 TTGCAGCATAACTTAAGTCG
* * *
778718 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTC
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTC
778754 AATTACACTC
Statistics
Matches: 702, Mismatches: 127, Indels: 65
0.79 0.14 0.07
Matches are distributed among these distances:
79 7 0.01
80 94 0.13
81 158 0.23
82 14 0.02
83 43 0.06
84 314 0.45
85 70 0.10
86 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (83 bp):
AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTT
GCAGCATAACTTAAGTCG
Found at i:778736 original size:249 final size:248
Alignment explanation
Indices: 777809--778753 Score: 1100
Period size: 249 Copynumber: 3.8 Consensus size: 248
777799 GCTCAAGGCC
* * * * *
777809 AGAAGGGCTACCTGCCACCAAA-ACCTTCGAGTTCGACTACGTTCAGCTCTAAGGCACATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* **
777873 GCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTT
66 GCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTT
* * ** * * * * * *
777938 CGAGGGCATAACATTTATAGCATAACTCAAGGCTAGAAGGGTTATATGTCAA-CACAAGACCGTC
131 CGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA-AAGACCTTC
* *
778002 GAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCG
195 GAGTTCGACTACGCTCAGCTCAACGGCATATCATTTGCAGCATAACTTAAGTCT
* *
778056 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * * * * ** *
778121 TGTAGCACAACTTAAGTCTAGAAGGGTTGTCTACCAACAAAAGACCTTCGAGTTCGACTACGCTC
65 TGCAGAATAGCTTAAGTCGAGAAGGGCTATCT-GC--C-AAAGACCCCCGAGTTCGACTACACTC
* * * * * *
778186 AGC-TCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGATAAGGGCTATCTG----CCAAAGAC
126 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGA-
* * * * * * * * *
778246 CCTT-AAGTTTGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCT
190 CCTTCGAGTTCGACTACGCTCAGC-TCAACGGCATATCATTTGCAGCATAACTTAAGTCT
** * *
778305 AGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * * *
778370 GCAGAATAGCTTGAGTCGAGAAGGGCTATCTGCCAAAGACTCCCAAGTTCGATTACACTCAGCTT
66 GCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTT
778435 CGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCG
131 CGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCG
*
778500 AGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCACAACTTAAGTCT
196 AGTTCGACTACGCTCAGCT-CAACGGCATATCATTTGCAGCATAACTTAAGTCT
* * * * *
778553 ACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACGATCAGCT-CAACGGCACATCAT
1 AGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
* *
778617 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGC
64 TTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGC
* * * *
778682 TTCGAGGGCACATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTT
129 TTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTT
*
778747 TGAGTTC
194 CGAGTTC
778754 AATTACACTC
Statistics
Matches: 585, Mismatches: 95, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
244 23 0.04
245 44 0.08
247 16 0.03
248 137 0.23
249 301 0.51
250 1 0.00
252 36 0.06
253 27 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (248 bp):
AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTT
CGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCG
AGTTCGACTACGCTCAGCTCAACGGCATATCATTTGCAGCATAACTTAAGTCT
Found at i:779494 original size:36 final size:36
Alignment explanation
Indices: 779396--779558 Score: 195
Period size: 36 Copynumber: 4.5 Consensus size: 36
779386 GAAAACATTT
* * *
779396 TTTTTAAACTATATATAATATATAGTTTTGAAAACA
1 TTTTAAAAATATATATAATATATAGTTTTTAAAACA
* *
779432 TGTTTGAAAACATTTATATATTATATAGTTTTTAAAACA
1 T-TTT-AAAA-ATATATATAATATATAGTTTTTAAAACA
* *
779471 TTTTAAAAATAAATATAATATATAGTTTTTAAAGCA
1 TTTTAAAAATATATATAATATATAGTTTTTAAAACA
*
779507 TTTTTGAAAATATATAT--TATATAGTTTTTAAAACA
1 -TTTTAAAAATATATATAATATATAGTTTTTAAAACA
*
779542 TTTTGAAAATATATATA
1 TTTTAAAAATATATATA
779559 GTTTTTAAAG
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
34 16 0.15
35 17 0.15
36 25 0.23
37 21 0.19
38 6 0.05
39 25 0.23
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTAAAAATATATATAATATATAGTTTTTAAAACA
Found at i:779586 original size:29 final size:29
Alignment explanation
Indices: 779525--779587 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
779515 AATATATATT
* *
779525 ATATAGTTTTTAAAACATTTTGAAAATAT
1 ATATAGTTTTTAAAACATTTTGAAAACAC
* *
779554 ATATAGTTTTTAAAGCATTTTTAAAACAC
1 ATATAGTTTTTAAAACATTTTGAAAACAC
779583 ATATA
1 ATATA
779588 TATTATATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (29 bp):
ATATAGTTTTTAAAACATTTTGAAAACAC
Found at i:779624 original size:67 final size:64
Alignment explanation
Indices: 779488--779617 Score: 188
Period size: 67 Copynumber: 2.0 Consensus size: 64
779478 AATAAATATA
* *
779488 ATATATAGTTTTTAAAGCATTTTTGAAAATATATATTATATAGTTTTTAAAACATTTTGAAAAT
1 ATATATAGTTTTTAAAGCATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTTGAAAAT
* **
779552 ATATATAGTTTTTAAAGCATTTTTAAAACACATATATATTATATAGTTTTGACATTATTTTGAAA
1 ATATATAGTTTTTAAAGCATTTTT-AAA-A-ATATATATTATATAGTTTTGAAAACATTTTGAAA
779617 A
63 A
779618 CTTATATGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
64 24 0.41
65 2 0.03
66 1 0.02
67 31 0.53
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.46
Consensus pattern (64 bp):
ATATATAGTTTTTAAAGCATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTTGAAAAT
Found at i:780927 original size:21 final size:21
Alignment explanation
Indices: 780882--780928 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
780872 ATTTTATTTC
*
780882 ATTTATTTATTATTATCATGT
1 ATTTTTTTATTATTATCATGT
*
780903 -TTTTTTTAATTATTATTA-GT
1 ATTTTTTT-ATTATTATCATGT
780923 ATTTTT
1 ATTTTT
780929 ACCTCATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (21 bp):
ATTTTTTTATTATTATCATGT
Found at i:781198 original size:13 final size:13
Alignment explanation
Indices: 781180--781209 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
781170 GAACCGAATT
781180 TTTTAAATTTCAA
1 TTTTAAATTTCAA
*
781193 TTTTAAATTTTAA
1 TTTTAAATTTCAA
781206 TTTT
1 TTTT
781210 CGCAACTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAAATTTCAA
Found at i:781742 original size:59 final size:59
Alignment explanation
Indices: 781618--781740 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 59
781608 CTCGGTGACA
* * * * *
781618 ATTTTATAACTTTTAATAGTCGAGAGATTAACAAAGTAACACTTTATAGTCAGATGATC
1 ATTTTATAACTTTTAATAGCCGAGAAATTAACAAAGTAACACTTTATAATCAGATAACC
* ** *
781677 ATTTTATAACTTTTAATAGCCGAGAAACTTAATAAAGTAGTATTTTATAATC-GATAAACC
1 ATTTTATAACTTTTAATAGCCGAGAAA-TTAACAAAGTAACACTTTATAATCAGAT-AACC
781737 ATTT
1 ATTT
781741 ATGTACTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
59 28 0.53
60 25 0.47
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (59 bp):
ATTTTATAACTTTTAATAGCCGAGAAATTAACAAAGTAACACTTTATAATCAGATAACC
Found at i:786194 original size:9 final size:9
Alignment explanation
Indices: 786180--786209 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
786170 GTTCATTTTA
786180 TAATCGTGT
1 TAATCGTGT
786189 TAATCGTGT
1 TAATCGTGT
786198 TAATCGTGT
1 TAATCGTGT
786207 TAA
1 TAA
786210 ATAAAAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (9 bp):
TAATCGTGT
Found at i:789435 original size:25 final size:25
Alignment explanation
Indices: 789401--789475 Score: 141
Period size: 25 Copynumber: 3.0 Consensus size: 25
789391 CATCCTATGC
789401 ATGGATGACTAACTCAGATCTTACT
1 ATGGATGACTAACTCAGATCTTACT
*
789426 ATGGATGACTAACTCAGATTTTACT
1 ATGGATGACTAACTCAGATCTTACT
789451 ATGGATGACTAACTCAGATCTTACT
1 ATGGATGACTAACTCAGATCTTACT
789476 TTGTTAGGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (25 bp):
ATGGATGACTAACTCAGATCTTACT
Found at i:794149 original size:8 final size:8
Alignment explanation
Indices: 794136--794160 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
794126 ATCAAGTTTA
794136 TTCAAAAT
1 TTCAAAAT
794144 TTCAAAAT
1 TTCAAAAT
794152 TTCAAAAT
1 TTCAAAAT
794160 T
1 T
794161 AAAAGTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (8 bp):
TTCAAAAT
Found at i:797508 original size:33 final size:32
Alignment explanation
Indices: 797463--797539 Score: 127
Period size: 33 Copynumber: 2.4 Consensus size: 32
797453 TTAAACTTTG
*
797463 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTATTTAAGTA
*
797495 TTTGAATTTATCGAACTTGGAAGTATTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTATTTAAGTA
797528 TTTCAATTATCG
1 TTTCAATTATCG
797540 TAAACTTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 11 0.27
33 30 0.73
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTATTTAAGTA
Found at i:798435 original size:36 final size:36
Alignment explanation
Indices: 798357--798518 Score: 140
Period size: 36 Copynumber: 4.6 Consensus size: 36
798347 TGATAAACCT
* ** * *
798357 TTGAGACTGTTTCTCTCAAAATAAAGTTTTATCTCGC
1 TTGAGACAGTTTCTCTTGAAACAAA-TTTTGTCTCGC
798394 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCGC
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCGC
* *
798430 TTGAGACAGTTTCTCTTGAAACATAA-----AC-C-T
1 TTGAGACAGTTTCTCTTGAAACA-AATTTTGTCTCGC
* * *
798460 TTGAGATAGTTTCTCTTGAAACAAAGTTTGTCTCTC
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCGC
* * *
798496 TTGAGATATTTTCTCTTAAAACA
1 TTGAGACAGTTTCTCTTGAAACA
798519 TAAACAATTG
Statistics
Matches: 105, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.02
30 22 0.21
31 1 0.01
32 1 0.01
34 1 0.01
35 1 0.01
36 54 0.51
37 23 0.22
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCGC
Found at i:798500 original size:66 final size:66
Alignment explanation
Indices: 798394--798582 Score: 288
Period size: 66 Copynumber: 2.9 Consensus size: 66
798384 TTTATCTCGC
* *
798394 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACC
1 TTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACA
*
798459 T
66 A
* * * * *
798460 TTGAGATAGTTTCTCTTGAAACAAAGTTTGTCTCTCTTGAGATATTTTCTCTTAAAACATAAACA
1 TTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACA
798525 A
66 A
* *
798526 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
1 TTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
798583 AAAAGTTTTG
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 108 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (66 bp):
TTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACA
A
Found at i:798601 original size:37 final size:37
Alignment explanation
Indices: 798534--798639 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
798524 AATTGAGATT
* *
798534 GTTTCCCTTGAAACAAA-TTTTGTCTCGCTTGAGACA
1 GTTTCTCTTGAAAAAAAGTTTTGTCTCGCTTGAGACA
*
798570 GTTTCTCTTGAAAAAAAGTTTTGTCTCGCTTGAGATA
1 GTTTCTCTTGAAAAAAAGTTTTGTCTCGCTTGAGACA
* *
798607 GTTTCTCTTGAAATAAAGTTTTGTCTCTCTTGA
1 GTTTCTCTTGAAAAAAAGTTTTGTCTCGCTTGA
798640 AACATAAACA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
36 15 0.23
37 49 0.77
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (37 bp):
GTTTCTCTTGAAAAAAAGTTTTGTCTCGCTTGAGACA
Found at i:805812 original size:3 final size:3
Alignment explanation
Indices: 805806--805845 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
805796 ATTTTAATAA
805806 TAT TAT TAT TAT T-T TAAT TA- TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
805846 CAGGCCCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:805820 original size:20 final size:20
Alignment explanation
Indices: 805790--805838 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
805780 CTAATTTTTT
805790 TTATATATTTTAATAATATTA
1 TTAT-TATTTTAATAATATTA
*
805811 TTATTATTTTAATTATATTA
1 TTATTATTTTAATAATATTA
805831 TTATTATT
1 TTATTATT
805839 ATTATTACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTTTAATAATATTA
Found at i:807079 original size:28 final size:28
Alignment explanation
Indices: 807033--807095 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
807023 GTTTTAAATA
*
807033 ATTTTTATTTTCAACCATA-AATTTTATT
1 ATTTTTAATTTCAACCATATAATTTTA-T
*
807061 ACTTTTTAATTT-AATCATATAATTTTAT
1 A-TTTTTAATTTCAACCATATAATTTTAT
807089 ATTTTTA
1 ATTTTTA
807096 GGTATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 6 0.19
28 9 0.29
29 16 0.52
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTTAATTTCAACCATATAATTTTAT
Found at i:809091 original size:40 final size:40
Alignment explanation
Indices: 809046--809184 Score: 145
Period size: 40 Copynumber: 3.4 Consensus size: 40
809036 CGACTAGACG
*
809046 TCCTCATCACATAGAAACAATGTCGTCCACCGACCAGATC
1 TCCTCATCACATAGGAACAATGTCGTCCACCGACCAGATC
* * * * * * * *
809086 TCCTCATAACGTAGGAGCAACGACATCCTCAGATAACCAGA-C
1 TCCTCATCACATAGGAACAATGTCGTCCACCG---ACCAGATC
809128 TTCCTCATCACATAGGAACAATGTCGTCCACCGACCAGATC
1 -TCCTCATCACATAGGAACAATGTCGTCCACCGACCAGATC
*
809169 TCCTCATCACGTAGGA
1 TCCTCATCACATAGGA
809185 GCAACGACAT
Statistics
Matches: 76, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
40 44 0.58
41 1 0.01
42 1 0.01
43 30 0.39
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.20
Consensus pattern (40 bp):
TCCTCATCACATAGGAACAATGTCGTCCACCGACCAGATC
Found at i:809144 original size:43 final size:43
Alignment explanation
Indices: 809078--809225 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
809068 TCGTCCACCG
*
809078 ACCAGATCTCCTCATAACGTAGGAGCAACGACATCCTCAGATA
1 ACCAGATCTCCTCATCACGTAGGAGCAACGACATCCTCAGATA
* * * * * * *
809121 ACCAGA-CTTCCTCATCACATAGGAACAATGTCGTCCACCG---
1 ACCAGATC-TCCTCATCACGTAGGAGCAACGACATCCTCAGATA
809161 ACCAGATCTCCTCATCACGTAGGAGCAACGACATCCTCAGATA
1 ACCAGATCTCCTCATCACGTAGGAGCAACGACATCCTCAGATA
809204 ACCAGA-CTTCCTCATCACGTAG
1 ACCAGATC-TCCTCATCACGTAG
809226 TGTTGTCTCC
Statistics
Matches: 84, Mismatches: 15, Indels: 12
0.76 0.14 0.11
Matches are distributed among these distances:
40 31 0.37
41 1 0.01
42 2 0.02
43 50 0.60
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (43 bp):
ACCAGATCTCCTCATCACGTAGGAGCAACGACATCCTCAGATA
Found at i:809185 original size:83 final size:83
Alignment explanation
Indices: 809041--809221 Score: 335
Period size: 83 Copynumber: 2.2 Consensus size: 83
809031 AAAGACGACT
*
809041 AGACGTCCTCATCACATAGAAACAATGTCGTCCACCGACCAGATCTCCTCATAACGTAGGAGCAA
1 AGACTTCCTCATCACATAGAAACAATGTCGTCCACCGACCAGATCTCCTCATAACGTAGGAGCAA
809106 CGACATCCTCAGATAACC
66 CGACATCCTCAGATAACC
* *
809124 AGACTTCCTCATCACATAGGAACAATGTCGTCCACCGACCAGATCTCCTCATCACGTAGGAGCAA
1 AGACTTCCTCATCACATAGAAACAATGTCGTCCACCGACCAGATCTCCTCATAACGTAGGAGCAA
809189 CGACATCCTCAGATAACC
66 CGACATCCTCAGATAACC
809207 AGACTTCCTCATCAC
1 AGACTTCCTCATCAC
809222 GTAGTGTTGT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 95 1.00
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.19
Consensus pattern (83 bp):
AGACTTCCTCATCACATAGAAACAATGTCGTCCACCGACCAGATCTCCTCATAACGTAGGAGCAA
CGACATCCTCAGATAACC
Found at i:809428 original size:139 final size:139
Alignment explanation
Indices: 809124--809927 Score: 994
Period size: 139 Copynumber: 5.8 Consensus size: 139
809114 TCAGATAACC
* * * * *
809124 AGACTTCCTCATCACATAGGAACAATGTCGTCCACCGACCAGATCTCCTCATCACGTAGGAGCAA
1 AGACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCAACACGTAGGAGCAG
*
809189 CGA-CATCCTCAGATAACCAGACTTCCTCATCACGT----A--GTGTTGTCTCCAATTTATCCCT
66 C-ATCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTTCAATTTATCCCT
**
809247 AAAGATAGCT
130 AAAGACGGCT
* * * *
809257 AGACATCCTCATCACGTAGGAATAATGTCATCCACCGACCATATCTTCTCAACACGTAGGAGCAG
1 AGACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCAACACGTAGGAGCAG
** * *
809322 CATCATCCTCAGATAAGTAGACTTCCTCATCATGTAGGAACTGTGTTGTCTTCAATTTATCCCTA
66 CATCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTTCAATTTATCCCTA
809387 AAGACGGCT
131 AAGACGGCT
* * * * *
809396 AGACGTCCTCATCATGTAGGAGA-AATGCCATCCACAGACCAGATCTCCTTAACACGTAGGAACA
1 AGACGTCCTCATCACGTAGGA-ACAATGTCATCCACCGACCAGATCTCCTCAACACGTAGGAGCA
** * * * * **
809460 GTGTCATCCTCATATAACCAGACCTCATCATCACGTAGGAACCGTGTTATCTTTGATTTATCCCT
65 GCATCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTTCAATTTATCCCT
*
809525 AAATACGGCT
130 AAAGACGGCT
* *
809535 AGACGTCCTCATCATGTAGGAACAATGTCATCCACCGACCACATCTCCTCAACACGTAGGAGCAG
1 AGACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCAACACGTAGGAGCAG
** * * * * **
809600 TGTCATCCTCATATAACCAGACCTCATCATCACGTAGGAACCGTGTTATCTTTGATTTATCCCTA
66 CATCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTTCAATTTATCCCTA
* *
809665 AATACGTCT
131 AAGACGGCT
* * * *
809674 AGACGTCCTCATCACGTAGGAACAATGTCATCCACCAACCATATCTCCTCAACACATAGGAGCAA
1 AGACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCAACACGTAGGAGCAG
** * * * * * *
809739 TGTCATCCTCAGATAATCAAACTTCCTCATCATGTAGAAACTGTGTTGTCTCCAATTTATCCCTA
66 CATCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTTCAATTTATCCCTA
809804 AAGACGGCT
131 AAGACGGCT
* * * * *
809813 ATACATCCTCGTCACGTAGGAACAATGTCGTCCACCGACCAGATCTCCTCAACACGTAGGAGTAG
1 AGACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCAACACGTAGGAGCAG
*
809878 CATCATCCTCAGATAACTAGACTTCCTCATCACGTAGGAACCGTGTTGTC
66 CATCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTGTC
809928 CCCAAATTAT
Statistics
Matches: 585, Mismatches: 77, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
132 1 0.00
133 87 0.15
137 1 0.00
138 1 0.00
139 494 0.84
140 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (139 bp):
AGACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCAGATCTCCTCAACACGTAGGAGCAG
CATCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTGTCTTCAATTTATCCCTA
AAGACGGCT
Found at i:809910 original size:417 final size:411
Alignment explanation
Indices: 809124--809924 Score: 1097
Period size: 417 Copynumber: 1.9 Consensus size: 411
809114 TCAGATAACC
* * * *
809124 AGACTTCCTCATCACATAGGAACAATGTCGTCCACCGACCAGATCTCCTCATCACGTAGGAGCAA
1 AGACGTCCTCATCACATAGGAACAATGTCATCCACCGACCACATCTCCTCAACACGTAGGAGCAA
* * *
809189 CGACATCCTCAGATAACCAGACTTCCTCATCACGTAGTGTTGTCTCCAATTTATCCCTAAAGATA
66 CGACATCCTCAGATAACCAGACCTCATCATCACGTAGTGTTATCTCCAATTTATCCCTAAAGATA
* * * *
809254 GCTAGACATCCTCATCACGTAGGAATAATGTCATCCACCGACCATATCTTCTCAACACGTAGGAG
131 GCTAGACATCCTCATCACGTAGGAACAATGTCATCCACCAACCATATCTCCTCAACACATAGGAG
* * * *
809319 CAGCATCATCCTCAGATAAGTAGACTTCCTCATCATGTAGGAACTGTGTTGTCTTCAATTTATCC
196 CAACATCATCCTCAGATAAGTAAACTTCCTCATCATGTAGAAACTGTGTTGTCTCCAATTTATCC
* * *
809384 CTAAAGACGGCTAGACGTCCTCATCATGTAGGAGAAATGCCATCCACAGACCAGATCTCCTTAAC
261 CTAAAGACGGCTAGACATCCTCATCACGTAGGAGAAATGCCATCCACAGACCAGATCTCCTCAAC
** *
809449 ACGTAGGAACAGTGTCATCCTCATATAACCAGACCTCATCATCACGTAGGAACCGTGTTATCTTT
326 ACGTAGGAACAGCATCATCCTCAGATAACCAGACCTCATCATCACGTAGGAACCGTGTTATCTTT
809514 GATTTATCCCTAAATACGGCT
391 GATTTATCCCTAAATACGGCT
** *
809535 AGACGTCCTCATCATGTAGGAACAATGTCATCCACCGACCACATCTCCTCAACACGTAGGAGCAG
1 AGACGTCCTCATCACATAGGAACAATGTCATCCACCGACCACATCTCCTCAACACGTAGGAGCAA
* * * ***
809600 TGTCATCCTCATATAACCAGACCTCATCATCACGTAGGAACCGTGTTATCTTTGATTTATCCCT-
66 CGACATCCTCAGATAACCAGACCTCATCATCACGT----A--GTGTTATCTCCAATTTATCCCTA
*
809664 AA-ATACGTCTAGACGTCCTCATCACGTAGGAACAATGTCATCCACCAACCATATCTCCTCAACA
125 AAGATA-G-CTAGACATCCTCATCACGTAGGAACAATGTCATCCACCAACCATATCTCCTCAACA
**
809728 CATAGGAGCAATGTCATCCTCAGATAA-TCAAACTTCCTCATCATGTAGAAACTGTGTTGTCTCC
188 CATAGGAGCAACATCATCCTCAGATAAGT-AAACTTCCTCATCATGTAGAAACTGTGTTGTCTCC
* * * * *
809792 AATTTATCCCTAAAGACGGCTATACATCCTCGTCACGTAGGA-ACAATGTCGTCCACCGACCAGA
252 AATTTATCCCTAAAGACGGCTAGACATCCTCATCACGTAGGAGA-AATGCCATCCACAGACCAGA
** * * *
809856 TCTCCTCAACACGTAGGAGTAGCATCATCCTCAGATAACTAGACTTCCTCATCACGTAGGAACCG
316 TCTCCTCAACACGTAGGAACAGCATCATCCTCAGATAACCAGACCTCATCATCACGTAGGAACCG
809921 TGTT
381 TGTT
809925 GTCCCCAAAT
Statistics
Matches: 337, Mismatches: 43, Indels: 14
0.86 0.11 0.04
Matches are distributed among these distances:
411 88 0.26
415 4 0.01
416 5 0.01
417 240 0.71
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (411 bp):
AGACGTCCTCATCACATAGGAACAATGTCATCCACCGACCACATCTCCTCAACACGTAGGAGCAA
CGACATCCTCAGATAACCAGACCTCATCATCACGTAGTGTTATCTCCAATTTATCCCTAAAGATA
GCTAGACATCCTCATCACGTAGGAACAATGTCATCCACCAACCATATCTCCTCAACACATAGGAG
CAACATCATCCTCAGATAAGTAAACTTCCTCATCATGTAGAAACTGTGTTGTCTCCAATTTATCC
CTAAAGACGGCTAGACATCCTCATCACGTAGGAGAAATGCCATCCACAGACCAGATCTCCTCAAC
ACGTAGGAACAGCATCATCCTCAGATAACCAGACCTCATCATCACGTAGGAACCGTGTTATCTTT
GATTTATCCCTAAATACGGCT
Found at i:814578 original size:39 final size:39
Alignment explanation
Indices: 814524--814609 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
814514 CAAGTTGTAG
*
814524 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
814563 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
814602 ATTTTGAT
1 ATTTTGAT
814610 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:814889 original size:18 final size:18
Alignment explanation
Indices: 814866--814902 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
814856 CGAAATATAT
814866 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
814884 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
814902 A
1 A
814903 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:815355 original size:28 final size:26
Alignment explanation
Indices: 815323--815384 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
815313 GATAGATACT
*
815323 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
815351 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
815374 TTACATTATAT
1 TTACAATATAT
815385 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:815362 original size:23 final size:23
Alignment explanation
Indices: 815332--815385 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
815322 TTTACAATAT
* *
815332 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
815355 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
815378 ATTATATA
1 ATTATATA
815386 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:816323 original size:183 final size:183
Alignment explanation
Indices: 816015--816625 Score: 1143
Period size: 183 Copynumber: 3.3 Consensus size: 183
816005 CGACACATTT
* *
816015 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
816080 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
816145 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* *
816198 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
816263 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
816328 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* *
816381 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
816446 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
816511 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* *
816564 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC-GTTATATTGCAAATTTAT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTAT
816626 TTTATTATAA
Statistics
Matches: 420, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
182 16 0.04
183 404 0.96
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (183 bp):
TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:817579 original size:198 final size:198
Alignment explanation
Indices: 817235--817773 Score: 1035
Period size: 198 Copynumber: 2.7 Consensus size: 198
817225 ACATAAATGG
817235 ATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
1 ATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
817300 ATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGTTAGAT
66 ATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGTTAGAT
817365 TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATA
131 TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATA
817430 TGA
196 TGA
* *
817433 ATCGATACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAATAAATATCGACACAAACTA
1 ATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTA
817497 TATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGTTAGA
65 TATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGTTAGA
817562 TTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATAT
130 TTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATAT
*
817627 ATGG
195 ATGA
817631 ATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
1 ATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
817696 ATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGTTAGAT
66 ATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGTTAGAT
817761 TGAAAAATTACAT
131 TGAAAAATTACAT
817774 CCTTTTGGCC
Statistics
Matches: 334, Mismatches: 5, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
197 28 0.08
198 278 0.83
199 28 0.08
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (198 bp):
ATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
ATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGTTAGAT
TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATA
TGA
Found at i:817929 original size:19 final size:19
Alignment explanation
Indices: 817898--817946 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
817888 TTATATTCAC
817898 ATACGAAAA-TATAAATCGT
1 ATAC-AAAATTATAAATCGT
*
817917 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
817936 ATACAAAATTA
1 ATACAAAATTA
817947 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:819192 original size:21 final size:21
Alignment explanation
Indices: 819152--819216 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
819142 CCCCTTATGC
* *
819152 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
819173 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
819194 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
819215 CT
1 CT
819217 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:821463 original size:17 final size:18
Alignment explanation
Indices: 821441--821483 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
821431 ATATATCCGG
821441 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
821458 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
821478 TATCAT
1 TATCAT
821484 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:821501 original size:20 final size:19
Alignment explanation
Indices: 821446--821492 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
821436 TCCGGTATCA
821446 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
821465 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
821486 TTTTACC
1 TTTTACC
821493 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:821645 original size:20 final size:20
Alignment explanation
Indices: 821615--821673 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
821605 ACTTTTAAAT
821615 TTACC-GTTTTATCATTTTG
1 TTACCGGTTTTATCATTTTG
821634 TTACCGGTTTTATCATATTT-
1 TTACCGGTTTTATCAT-TTTG
*
821654 TTACCTGG-TATATCATTTTG
1 TTACC-GGTTTTATCATTTTG
821674 GATCGATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 8 0.23
20 22 0.63
21 5 0.14
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (20 bp):
TTACCGGTTTTATCATTTTG
Found at i:823115 original size:2 final size:2
Alignment explanation
Indices: 823104--823133 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
823094 CTGAGTAATC
823104 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
823134 GTTTCTACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:823256 original size:51 final size:50
Alignment explanation
Indices: 823165--823274 Score: 130
Period size: 51 Copynumber: 2.2 Consensus size: 50
823155 ACTTCGGTAT
* * ** *
823165 AAGTGAATAAAATAAAAAGTATAGTATTTAACACATACTTACACCAATGA
1 AAGTAAATAAAATAAAAAATATAACACTTAACACATACTTACACCAATGA
* * * *
823215 AAGTAAATAAAATAAAAAAATATAACACTTAATACATACTTATACCGATGT
1 AAGTAAATAAAAT-AAAAAATATAACACTTAACACATACTTACACCAATGA
823266 AAGTAAATA
1 AAGTAAATA
823275 CATCTCACAA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 12 0.24
51 38 0.76
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (50 bp):
AAGTAAATAAAATAAAAAATATAACACTTAACACATACTTACACCAATGA
Found at i:823531 original size:39 final size:39
Alignment explanation
Indices: 823488--823574 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
823478 TTTATTAACA
* *
823488 GTTAACTATTTATTAAAATTTTTAACTGTAATCTTAATC
1 GTTAACTATTTATTAAAATTTGTAACGGTAATCTTAATC
*
823527 GTTAATTATTTATTAAAATTTGTAACGGTAATCTTAATC
1 GTTAACTATTTATTAAAATTTGTAACGGTAATCTTAATC
823566 GTTAACTAT
1 GTTAACTAT
823575 CATTTTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (39 bp):
GTTAACTATTTATTAAAATTTGTAACGGTAATCTTAATC
Found at i:824151 original size:2 final size:2
Alignment explanation
Indices: 824146--824192 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
824136 TTTTAATAAA
824146 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
824188 AT AT A
1 AT AT A
824193 AACTTTTTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:826052 original size:18 final size:18
Alignment explanation
Indices: 826029--826063 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
826019 TGTTAAGTTT
826029 ATATTTTTTAAAAATAAA
1 ATATTTTTTAAAAATAAA
826047 ATATTTTTTAAAAATAA
1 ATATTTTTTAAAAATAA
826064 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTTTTTAAAAATAAA
Found at i:827330 original size:15 final size:15
Alignment explanation
Indices: 827318--827348 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
827308 ATACATAAAT
827318 TTAATAATAATAAGA
1 TTAATAATAATAAGA
827333 TTAATAATAATAAGA
1 TTAATAATAATAAGA
827348 T
1 T
827349 AAATTACGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
TTAATAATAATAAGA
Found at i:837337 original size:60 final size:58
Alignment explanation
Indices: 837264--837428 Score: 183
Period size: 57 Copynumber: 2.8 Consensus size: 58
837254 AAAATACACC
** *
837264 CCTAAACTATGACTCTTATTCTAAATTAGTCCCTAAACTTTTGAACATTTTA-ATTGTAT
1 CCTAAACTATGACTCTTATTCTAAATTAGTCCC-AAACTTTTGAACATTAAACATT-CAT
** * * *
837323 CACTAAACTATGACTCCAATTCTAAACTGGTCCC-AA-TTTCGAACATTAAACATTCAT
1 C-CTAAACTATGACTCTTATTCTAAATTAGTCCCAAACTTTTGAACATTAAACATTCAT
*
837380 CCTCAAACTATGATTCTTATTCTAAATTAGTCTCCAAACTTTTGAACAT
1 CCT-AAACTATGACTCTTATTCTAAATTAGTC-CCAAACTTTTGAACAT
837429 CCAATAATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
56 2 0.02
57 37 0.43
58 7 0.08
59 3 0.03
60 37 0.43
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (58 bp):
CCTAAACTATGACTCTTATTCTAAATTAGTCCCAAACTTTTGAACATTAAACATTCAT
Found at i:839724 original size:35 final size:35
Alignment explanation
Indices: 839673--839744 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
839663 CCAACAAAGA
*
839673 AGAGTTGAATTGGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGAATTAGGACTCAAATACTAGTCTAAAAT
* *
839708 AGAGTTGGATTAGGACTTAAATACTAGTCTAAAAT
1 AGAGTTGAATTAGGACTCAAATACTAGTCTAAAAT
839743 AG
1 AG
839745 GGCTTTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (35 bp):
AGAGTTGAATTAGGACTCAAATACTAGTCTAAAAT
Found at i:843697 original size:13 final size:12
Alignment explanation
Indices: 843655--843705 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
843645 CAATCAGAAT
843655 AAAAAGAG--AA
1 AAAAAGAGAAAA
843665 AAAAAGAGAAAA
1 AAAAAGAGAAAA
843677 AAGCAAAGAGAAAA
1 AA--AAAGAGAAAA
843691 TAAAAAGAGAAAA
1 -AAAAAGAGAAAA
843704 AA
1 AA
843706 CAATGGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.22
12 6 0.17
13 10 0.28
14 10 0.28
15 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:844046 original size:179 final size:180
Alignment explanation
Indices: 843746--844106 Score: 715
Period size: 179 Copynumber: 2.0 Consensus size: 180
843736 GATGCATATG
843746 CAAAGGTTCTCTCGATTCAAATGACGCATCGAGATTCAAACTATGAGATTGATCAAGCACAATCA
1 CAAAGGTTCTCTCGATTCAAATGACGCATCGAGATTCAAACTATGAGATTGATCAAGCACAATCA
843811 TTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCATCAAATGAGATTGATCAAGCACA
66 TTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCATCAAATGAGATTGATCAAGCACA
843876 A-TATTTCTGAATCACTCCACTTGAAGATCATAGAGCATCAAGAGAGAGA
131 ATTATTTCTGAATCACTCCACTTGAAGATCATAGAGCATCAAGAGAGAGA
843925 CAAAGGTTCTCTCGATTCAAATGACGCATCGAGATTCAAACTATGAGATTGATCAAGCACAATCA
1 CAAAGGTTCTCTCGATTCAAATGACGCATCGAGATTCAAACTATGAGATTGATCAAGCACAATCA
843990 TTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCATCAAATGAGATTGATCAAGCACA
66 TTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCATCAAATGAGATTGATCAAGCACA
844055 ATTATTTCTGAATCACTCCACTTGAAGATCATAGAGCATCAAGAGAGAGA
131 ATTATTTCTGAATCACTCCACTTGAAGATCATAGAGCATCAAGAGAGAGA
844105 CA
1 CA
844107 CATACGAGCA
Statistics
Matches: 181, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
179 131 0.72
180 50 0.28
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (180 bp):
CAAAGGTTCTCTCGATTCAAATGACGCATCGAGATTCAAACTATGAGATTGATCAAGCACAATCA
TTTTCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCATCAAATGAGATTGATCAAGCACA
ATTATTTCTGAATCACTCCACTTGAAGATCATAGAGCATCAAGAGAGAGA
Found at i:845497 original size:37 final size:37
Alignment explanation
Indices: 845445--845516 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
845435 TAAAAAGAAG
* *
845445 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
* * *
845482 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGCAACA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA
845517 TAAACATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:845571 original size:65 final size:64
Alignment explanation
Indices: 845466--845784 Score: 253
Period size: 65 Copynumber: 4.8 Consensus size: 64
845456 CTTGAGATAG
* *
845466 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGCAACATAAACATTGAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAACATTGAATAC
845531 A
64 A
* * ** **
845532 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTATTTGAATATG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACA-TTGAATACA
*** ** * * ** *
845597 TTTTATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTTTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AA-------AAC-AT
*
845662 TG-AGACA
57 TGAATACA
* * * * **
845669 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 -TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAA-CATTGAATAC
845734 A
64 A
* * *
845735 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
845785 CAAAAGTTTC
Statistics
Matches: 196, Mismatches: 44, Indels: 27
0.73 0.16 0.10
Matches are distributed among these distances:
64 3 0.02
65 127 0.65
66 18 0.09
72 4 0.02
73 44 0.22
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (64 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACATTGAATACA
Found at i:845579 original size:36 final size:36
Alignment explanation
Indices: 845532--845721 Score: 180
Period size: 36 Copynumber: 5.4 Consensus size: 36
845522 ATTGAAAACA
845532 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
845568 TTTCCCTTGAAACAAA-----T-TAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
*** ** *
845597 TTTTATTTGAAACAAATTTCATCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
** * * *
845633 TTTCTTTTGGAACTAAGTTTTTTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
845670 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
845706 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
845722 ATCTTTGAAT
Statistics
Matches: 124, Mismatches: 20, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.02
29 18 0.15
30 2 0.02
31 1 0.01
34 1 0.01
35 1 0.01
36 67 0.54
37 32 0.26
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:845863 original size:67 final size:67
Alignment explanation
Indices: 845679--845848 Score: 195
Period size: 65 Copynumber: 2.6 Consensus size: 67
845669 GTTTCTCTTG
* * * * ** *
845679 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCTTT-GAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCCTGAGACAGTTTCTCATGAAACACAAAAGTTTCAAATTTATTTCCCC
845742 TA
66 TA
* * * *
845744 AAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACACAAAAGTTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCCTGAGACAGTTTCTCATGAAACACAAAAGTTTCAAATTTATTTCCCC
845809 TA
66 TA
* *
845811 AAACAAATTTTTTC-CCCCTGAGACCGTTT-TCATGAAAC
1 AAACAAATTTTGTCTCCCCTGAGACAGTTTCTCATGAAAC
845849 GACAGATATA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 46 0.51
66 18 0.20
67 27 0.30
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCCTGAGACAGTTTCTCATGAAACACAAAAGTTTCAAATTTATTTCCCC
TA
Found at i:846766 original size:110 final size:106
Alignment explanation
Indices: 846557--846823 Score: 349
Period size: 110 Copynumber: 2.5 Consensus size: 106
846547 ACGAAGGGGC
* * *
846557 TTCCCAGTTTCAAAGCCAATTTCAACTTCACATCGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTCCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACACAAGCT
*
846622 CAACTTCACAACGAAGGGGCGACTGATTGTCAACAAACAAAT
66 CAACTTCACAACGAAGGGGCGACTGACTGTCAACAAAC-AAT
* * * *
846664 TT-TCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGAACTCGAGACAACACA
1 TTCCCAG-TTC---CAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACACA
* * * *
846728 AGCTTAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAACAAT
62 AGCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACAAT
*
846773 TTCCCAGTTCCAGAGCCAATTTCAACTTCACGA-CGGAGGATATTGGACTCA
1 TTCCCAGTTCCAGAGCCAATTTCAACTTCAC-ATCGAAGGATATTGGACTCA
846824 GAACAATACT
Statistics
Matches: 137, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
106 38 0.28
107 5 0.04
109 8 0.06
110 86 0.63
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
TTCCCAGTTCCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACACAAGCT
CAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACAAT
Done.