Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 3 of 325
Found at i:609541 original size:17 final size:16
Alignment explanation
Indices: 609515--609548 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
609505 AATTTCTCAA
*
609515 TTTTAATTTTTAAATT
1 TTTTAATTTTGAAATT
609531 TTTTAAATTTTGAAATT
1 TTTT-AATTTTGAAATT
609548 T
1 T
609549 CGGTCTCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTAATTTTGAAATT
Found at i:611936 original size:2 final size:2
Alignment explanation
Indices: 611929--611953 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
611919 ATGTTGAATT
611929 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
611954 TTGCATGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:620601 original size:18 final size:18
Alignment explanation
Indices: 620578--620615 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
620568 GTCCTTGTGG
620578 TAAAAATTA-AAAAATATT
1 TAAAAATTATAAAAA-ATT
620596 TAAAAATTATAAAAAATT
1 TAAAAATTATAAAAAATT
620614 TA
1 TA
620616 TTTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAATTATAAAAAATT
Found at i:631306 original size:29 final size:28
Alignment explanation
Indices: 631273--631359 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 28
631263 ATGATTTAAT
631273 GTACAATTGTATACATAAACTTCAATTTA
1 GTACAATTGTATAC-TAAACTTCAATTTA
* *
631302 GTACAATTATACACGTGAAAC-TCTAATTGTA
1 GTACAATTGTATAC-T-AAACTTC-AATT-TA
* * *
631333 GTTCAAATGTATACTAAACTTTAATTT
1 GTACAATTGTATACTAAACTTCAATTT
631360 TGATTTACTC
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
28 1 0.02
29 23 0.50
30 10 0.22
31 12 0.26
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (28 bp):
GTACAATTGTATACTAAACTTCAATTTA
Found at i:636212 original size:26 final size:25
Alignment explanation
Indices: 636175--636224 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
636165 ATTAGTTAAG
636175 CCCCTAATAAAAAATAATTTAATTA
1 CCCCTAATAAAAAATAATTTAATTA
*
636200 CCCCTAATAAAAAATTATTTAATTA
1 CCCCTAATAAAAAATAATTTAATTA
636225 TACTCAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (25 bp):
CCCCTAATAAAAAATAATTTAATTA
Found at i:639902 original size:39 final size:39
Alignment explanation
Indices: 639848--639927 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
639838 CATGAAATTT
*
639848 GGCTTAACTAGAAAAATCGATATTTTATATAGTTTTCAC
1 GGCTTAACTAGAAAAATCGAGATTTTATATAGTTTTCAC
639887 GGCTTAACTAGAAAAATCGAGATTTTATATAGTTTTCAC
1 GGCTTAACTAGAAAAATCGAGATTTTATATAGTTTTCAC
639926 GG
1 GG
639928 ATAAGGAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (39 bp):
GGCTTAACTAGAAAAATCGAGATTTTATATAGTTTTCAC
Found at i:646253 original size:10 final size:10
Alignment explanation
Indices: 646238--646313 Score: 53
Period size: 10 Copynumber: 8.4 Consensus size: 10
646228 TTTATAACGC
646238 TTATAATATT
1 TTATAATATT
646248 TTATAATA-T
1 TTATAATATT
646257 TTATAA-ATT
1 TTATAATATT
*
646266 TATATCA-ATT
1 T-TATAATATT
646276 TT-T-AT-TT
1 TTATAATATT
646283 TT-TAATATT
1 TTATAATATT
*
646292 TTTTAATATT
1 TTATAATATT
*
646302 AT-TAAT-TT
1 TTATAATATT
646310 TTAT
1 TTAT
646314 TTTTTTGATA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
7 6 0.11
8 7 0.12
9 19 0.34
10 24 0.43
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATAATATT
Found at i:646260 original size:19 final size:19
Alignment explanation
Indices: 646214--646280 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
646204 TAGATTTCTT
*
646214 ATATTTTTAATATTTTTATA
1 ATATTTATAATA-TTTTATA
***
646234 ACGCTTATAATATTTTATA
1 ATATTTATAATATTTTATA
646253 ATATTTATAA-ATTTATATCA
1 ATATTTATAATATTT-TAT-A
*
646273 ATTTTTAT
1 ATATTTAT
646281 TTTTTAATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 4 0.11
19 17 0.46
20 16 0.43
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (19 bp):
ATATTTATAATATTTTATA
Found at i:646319 original size:34 final size:34
Alignment explanation
Indices: 646244--646318 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
646234 ACGCTTATAA
* * *
646244 TATTTTATAATATTTATAAATTTATATCAATTTT
1 TATTTTTTAATATTTTTTAATTTATATCAATTTT
646278 TATTTTTTAATATTTTTTAATATTAT-T-AATTTT
1 TATTTTTTAATATTTTTTAAT-TTATATCAATTTT
646311 TATTTTTT
1 TATTTTTT
646319 TGATAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 14 0.38
34 19 0.51
35 4 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (34 bp):
TATTTTTTAATATTTTTTAATTTATATCAATTTT
Found at i:648309 original size:21 final size:21
Alignment explanation
Indices: 648285--648326 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
648275 GTTTGGTTTT
648285 CATACTATTGAGGTTTCATAC
1 CATACTATTGAGGTTTCATAC
*
648306 CATACTATTGAGGTTTTATAC
1 CATACTATTGAGGTTTCATAC
648327 ATAAAATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (21 bp):
CATACTATTGAGGTTTCATAC
Found at i:650397 original size:17 final size:19
Alignment explanation
Indices: 650375--650412 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
650365 TTGATGGTTG
650375 AATTTAACAT-A-TATTTA
1 AATTTAACATAATTATTTA
*
650392 AATTTAATATAATTATTTA
1 AATTTAACATAATTATTTA
650411 AA
1 AA
650413 AATCGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 1 0.06
19 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTAACATAATTATTTA
Found at i:654287 original size:8 final size:8
Alignment explanation
Indices: 654274--654301 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
654264 ACTTGTTTTA
654274 ATATATTT
1 ATATATTT
654282 ATATATTT
1 ATATATTT
654290 ATATATTT
1 ATATATTT
654298 ATAT
1 ATAT
654302 GATTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATATTT
Found at i:658559 original size:6 final size:6
Alignment explanation
Indices: 658542--658576 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
658532 GCGTTTCGCG
658542 AACAAA AA-AAA AACAAA AACAAA AACAAA AACAAA
1 AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA
658577 TCAACATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:660923 original size:30 final size:30
Alignment explanation
Indices: 660870--660928 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
660860 TTTACCTCTC
* * * *
660870 AAAATGATAAAAATTTGATTTAATCTTTTT
1 AAAATGATAAAAATATAAATTAATATTTTT
*
660900 AAAATTATAAAAATATAAATTAATATTTT
1 AAAATGATAAAAATATAAATTAATATTTT
660929 AGTGAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (30 bp):
AAAATGATAAAAATATAAATTAATATTTTT
Found at i:671736 original size:13 final size:13
Alignment explanation
Indices: 671718--671747 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
671708 TAAAAAAGTT
671718 TATCCATCTAAAA
1 TATCCATCTAAAA
671731 TATCCATCTAAAA
1 TATCCATCTAAAA
671744 TATC
1 TATC
671748 TCAACTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (13 bp):
TATCCATCTAAAA
Found at i:676111 original size:16 final size:17
Alignment explanation
Indices: 676099--676130 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
676089 GTTATAAACT
676099 TATAAAT-TTATAAAAA
1 TATAAATATTATAAAAA
676115 TATAAATATTATAAAA
1 TATAAATATTATAAAA
676131 TGAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAATATTATAAAAA
Found at i:676128 original size:17 final size:16
Alignment explanation
Indices: 676060--676130 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 16
676050 TAAAAATCAT
676060 TAAAAATATAAA---A
1 TAAAAATATAAATTTA
676073 TAAAAATATTAAAATTGTTA
1 TAAAAATA-T-AAA-T-TTA
**
676093 TAAACTTATAAATTTA
1 TAAAAATATAAATTTA
676109 TAAAAATATAAATATTA
1 TAAAAATATAAAT-TTA
676126 TAAAA
1 TAAAA
676131 TGAAAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
13 8 0.17
14 1 0.02
15 3 0.07
16 14 0.30
17 9 0.20
18 3 0.07
19 1 0.02
20 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (16 bp):
TAAAAATATAAATTTA
Found at i:676138 original size:17 final size:17
Alignment explanation
Indices: 676118--676166 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
676108 ATAAAAATAT
*
676118 AAATATTATAAAATGAA
1 AAATATTATAAAATAAA
*
676135 AAATATAATAAATTATAAA
1 AAATATTATAAA--ATAAA
676154 AAAT-TTATAAAAT
1 AAATATTATAAAAT
676167 TAATTAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.07
17 11 0.41
18 6 0.22
19 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATATTATAAAATAAA
Found at i:676140 original size:23 final size:24
Alignment explanation
Indices: 676110--676154 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
676100 ATAAATTTAT
*
676110 AAAAATATAA-ATATTATAAAATG
1 AAAAATATAATAAATTATAAAATG
676133 AAAAATATAATAAATTATAAAA
1 AAAAATATAATAAATTATAAAA
676155 AATTTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAAATATAATAAATTATAAAATG
Found at i:676677 original size:10 final size:9
Alignment explanation
Indices: 676653--676703 Score: 52
Period size: 8 Copynumber: 5.7 Consensus size: 9
676643 TGTTTTATAA
*
676653 AATTTTAAAA
1 AATTTT-AAT
676663 AATTTTAAT
1 AATTTTAAT
*
676672 ATATTTTATT
1 A-ATTTTAAT
676682 AATTTT-AT
1 AATTTTAAT
676690 AATTTT-AT
1 AATTTTAAT
676698 AATTTT
1 AATTTT
676704 TATTGTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 15 0.41
9 8 0.22
10 14 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
AATTTTAAT
Found at i:676694 original size:8 final size:8
Alignment explanation
Indices: 676663--676703 Score: 55
Period size: 8 Copynumber: 4.8 Consensus size: 8
676653 AATTTTAAAA
676663 AATTTTAAT
1 AATTTT-AT
676672 ATATTTTATT
1 A-ATTTTA-T
676682 AATTTTAT
1 AATTTTAT
676690 AATTTTAT
1 AATTTTAT
676698 AATTTT
1 AATTTT
676704 TATTGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 15 0.50
9 8 0.27
10 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
AATTTTAT
Found at i:676700 original size:16 final size:19
Alignment explanation
Indices: 676663--676703 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
676653 AATTTTAAAA
676663 AATTTTAATATATTTTATT
1 AATTTTAATATATTTTATT
676682 AATTTT-ATA-ATTTTA-T
1 AATTTTAATATATTTTATT
676698 AATTTT
1 AATTTT
676704 TATTGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 6 0.27
18 3 0.14
19 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTTAATATATTTTATT
Found at i:676704 original size:9 final size:9
Alignment explanation
Indices: 676675--676742 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
676665 TTTTAATATA
676675 TTTTATTAA-
1 TTTTA-TAAT
676684 TTTTATAA-
1 TTTTATAAT
676692 TTTTATAAT
1 TTTTATAAT
**
676701 TTTTATTGT
1 TTTTATAAT
676710 TTTTATAAGT
1 TTTTATAA-T
* *
676720 TTATATCAT
1 TTTTATAAT
676729 TTTT-TATAT
1 TTTTATA-AT
676738 TTTTA
1 TTTTA
676743 AATATCCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 12 0.26
9 28 0.60
10 7 0.15
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:676704 original size:17 final size:19
Alignment explanation
Indices: 676663--676706 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
676653 AATTTTAAAA
*
676663 AATTTTAATATATTTTATT
1 AATTTTTATATATTTTATT
676682 AA-TTTTATA-ATTTTA-T
1 AATTTTTATATATTTTATT
676698 AATTTTTAT
1 AATTTTTAT
676707 TGTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 12 0.52
18 6 0.26
19 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTTTTATATATTTTATT
Found at i:676713 original size:26 final size:26
Alignment explanation
Indices: 676675--676724 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
676665 TTTTAATATA
*
676675 TTTTATTAATTTTATAATTTTATAAT
1 TTTTATTAATTTTATAAGTTTATAAT
**
676701 TTTTATTGTTTTTATAAGTTTATA
1 TTTTATTAATTTTATAAGTTTATA
676725 TCATTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTTATTAATTTTATAAGTTTATAAT
Found at i:679168 original size:22 final size:23
Alignment explanation
Indices: 679141--679183 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
679131 AGCTGGTCAT
679141 AAAACAA-CCAAAACCCAAATAA
1 AAAACAATCCAAAACCCAAATAA
*
679163 AAAACAATCCAAACCCCAAAT
1 AAAACAATCCAAAACCCAAAT
679184 TGGCAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.63, C:0.30, G:0.00, T:0.07
Consensus pattern (23 bp):
AAAACAATCCAAAACCCAAATAA
Found at i:680159 original size:20 final size:20
Alignment explanation
Indices: 680131--680187 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
680121 CTGGTTGGTG
*
680131 TACAAGCATCTGGATCTAAG
1 TACAAGCATCTGGATCTAAC
*
680151 TAGAAGCATCTGGATCTAAC
1 TACAAGCATCTGGATCTAAC
680171 TACAAGCATCTGGATCT
1 TACAAGCATCTGGATCT
680188 TATTTCTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
TACAAGCATCTGGATCTAAC
Found at i:682864 original size:74 final size:75
Alignment explanation
Indices: 682716--682881 Score: 204
Period size: 74 Copynumber: 2.3 Consensus size: 75
682706 GCAAAGTGTG
** *
682716 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
* **
682776 CTGAGCTGTG
66 CCGAGCTGAA
682786 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAATGTAGGTATGGCATT-TCCCAT
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTAT-CCAT
*
682849 ACCGAGTTGAA
65 ACCGAGCTGAA
682860 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
682882 TGAGGAAAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
70 14 0.17
73 9 0.11
74 46 0.55
75 14 0.17
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
CCGAGCTGAA
Found at i:682879 original size:35 final size:35
Alignment explanation
Indices: 682716--682879 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
682706 GCAAAGTGTG
* **
682716 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGAA
* **
682751 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTG
1 AAATGTAGGTATGGTATT-TCCCATACTGAGTTGAA
682786 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TC----CCATACTGAGTTGAA
* *
682825 AAATGTAGGTATGGCATTTCCCATACCGAGTTGAA
1 AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
682860 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
682880 AATGAGGAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
34 11 0.10
35 73 0.64
38 2 0.02
39 17 0.15
40 11 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.34
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
Found at i:690332 original size:75 final size:75
Alignment explanation
Indices: 690213--690383 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
690203 CATGGCAAAG
** *
690213 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
690272 CCATACTGAGC
65 CCATACCGAGC
690283 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
690348 CATACCGAGT
66 CATACCGAGC
***
690358 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
690384 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:690351 original size:35 final size:35
Alignment explanation
Indices: 690216--690381 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
690206 GGCAAAGTGT
* **
690216 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
690251 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
690286 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
690326 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
690361 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
690382 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:693381 original size:35 final size:35
Alignment explanation
Indices: 693337--693503 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
693327 TCCTCATTGA
** *
693337 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* ***
693372 AATGCCATACCTACATTTTTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
693412 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
693447 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
693482 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
693504 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 26 0.22
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:693420 original size:75 final size:73
Alignment explanation
Indices: 693332--693503 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
693322 GGTTTTCCTC
** * * ***
693332 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTTTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
693396 TCAGTATGG
65 TCAGTATGG
*
693405 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
693470 CTCAGTATGG
64 CTCAGTATGG
693480 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
693504 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:695104 original size:75 final size:75
Alignment explanation
Indices: 694985--695156 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
694975 CATGGCAAAG
** *
694985 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
695044 CCATACTGAGC
65 CCATACCGAGC
695055 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
695120 CATACCGAGT
66 CATACCGAGC
***
695130 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
695157 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:695123 original size:35 final size:35
Alignment explanation
Indices: 694988--695154 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
694978 GGCAAAGTGT
* **
694988 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
695023 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
695058 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
695098 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
695134 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
695155 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:695146 original size:36 final size:35
Alignment explanation
Indices: 695084--695154 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
695074 ATTATCAAAT
* *
695084 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
695119 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
695155 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:697332 original size:35 final size:35
Alignment explanation
Indices: 697288--697453 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
697278 TCCTCATTGA
** *
697288 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
697323 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
697362 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
697397 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
697432 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
697454 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:697373 original size:74 final size:73
Alignment explanation
Indices: 697283--697453 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
697273 GGTTTTCCTC
** * * **
697283 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
697346 TCAGTATGG
65 TCAGTATGG
*
697355 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
697420 CTCAGTATGG
64 CTCAGTATGG
697430 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
697454 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:702212 original size:46 final size:46
Alignment explanation
Indices: 702018--702198 Score: 206
Period size: 46 Copynumber: 3.9 Consensus size: 46
702008 TGTAACCCGC
* * * *
702018 CCATAAGTGAGCTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
702064 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * * *
702114 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCAGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
702157 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
702199 AACCATCCTA
Statistics
Matches: 111, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 69 0.62
47 30 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:705412 original size:40 final size:37
Alignment explanation
Indices: 705311--705476 Score: 175
Period size: 35 Copynumber: 4.6 Consensus size: 37
705301 CATGGCAAAG
705311 TGTGAAATGTAGGTATGG--TATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
*
705346 TGTGAAATGTAGGTATGGTAT-T-ATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
705381 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-TATC--ATCCATACTGAGT
*** * *
705421 TAAAAAATGTAGGTATGGCATTTC--CCATA-TCGAGT
1 TGTGAAATGTAGGTATGGTATATCATCCATACT-GAGT
**
705456 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
705477 TTCAATGAGG
Statistics
Matches: 114, Mismatches: 9, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
34 1 0.01
35 78 0.68
36 2 0.02
37 2 0.02
39 3 0.03
40 28 0.25
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
Found at i:705431 original size:75 final size:75
Alignment explanation
Indices: 705311--705481 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
705301 CATGGCAAAG
*** *
705311 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATT-TC
705370 CCATA-CTGAGC
65 CCATATC-GAGC
705381 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTTCC
*
705446 CATATCGAGT
66 CATATCGAGC
**
705456 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
705482 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 59 0.68
76 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTTCC
CATATCGAGC
Found at i:707973 original size:20 final size:21
Alignment explanation
Indices: 707937--707986 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
707927 TCTTTTTTTT
707937 AAAAAAACCAGAAAAATTA-AC
1 AAAAAAACCAGAAAAA-TAGAC
*
707958 AAAAAAACCAG-CAAATAGAC
1 AAAAAAACCAGAAAAATAGAC
*
707978 TAAAAAACC
1 AAAAAAACC
707987 TTGAAAGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
21 11 0.42
ACGTcount: A:0.68, C:0.18, G:0.06, T:0.08
Consensus pattern (21 bp):
AAAAAAACCAGAAAAATAGAC
Found at i:707982 original size:21 final size:22
Alignment explanation
Indices: 707936--707984 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
707926 TTCTTTTTTT
707936 TAAAAAAACCAGAAAAATTAAC
1 TAAAAAAACCAGAAAAATTAAC
*
707958 -AAAAAAACCAG-CAAA-TAGAC
1 TAAAAAAACCAGAAAAATTA-AC
707978 TAAAAAA
1 TAAAAAA
707985 CCTTGAAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 17 0.71
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.10
Consensus pattern (22 bp):
TAAAAAAACCAGAAAAATTAAC
Found at i:712074 original size:89 final size:89
Alignment explanation
Indices: 711894--712160 Score: 410
Period size: 89 Copynumber: 3.0 Consensus size: 89
711884 TTCTATGCTT
* * * ** *
711894 TGCCTCATACGATCTTCGACATGTTGAGGCGTATGCCATTGCAATATG-TTTATCATTTGATCAT
1 TGCCTCATGCGATCTTCTACATGTCGAGATGTATGCCATTGCCATATGTTTTATCATTTGATCAT
711958 GTTTTGTCTAGGTCGATGTGGCTC
66 GTTTTGTCTAGGTCGATGTGGCTC
*
711982 TGCCTCATGCGATCTTCTACATGTCGAGATGTATGCCATTGCCATATGTTTTATCGTTTGATCAT
1 TGCCTCATGCGATCTTCTACATGTCGAGATGTATGCCATTGCCATATGTTTTATCATTTGATCAT
*
712047 GTTTTGTCTAGGTTGATGTGGCTC
66 GTTTTGTCTAGGTCGATGTGGCTC
712071 TGCCTCATGCGATCTTCTACATGTCGAGATGTATGCCATTGCCATATGTTTTATCATTTGATCAT
1 TGCCTCATGCGATCTTCTACATGTCGAGATGTATGCCATTGCCATATGTTTTATCATTTGATCAT
* * * *
712136 GTCTTGTTCCAGGTGGTTGTGGCTC
66 GTTTTG-TCTAGGTCGATGTGGCTC
712161 CGGTTTTGCT
Statistics
Matches: 164, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
88 42 0.26
89 107 0.65
90 15 0.09
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (89 bp):
TGCCTCATGCGATCTTCTACATGTCGAGATGTATGCCATTGCCATATGTTTTATCATTTGATCAT
GTTTTGTCTAGGTCGATGTGGCTC
Found at i:714000 original size:15 final size:15
Alignment explanation
Indices: 713980--714011 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
713970 ATGTTGAATA
713980 CTCTAATGCTAGGCT
1 CTCTAATGCTAGGCT
713995 CTCTAATGCTAGGCT
1 CTCTAATGCTAGGCT
714010 CT
1 CT
714012 TCTATGACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (15 bp):
CTCTAATGCTAGGCT
Found at i:714437 original size:20 final size:21
Alignment explanation
Indices: 714414--714455 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
714404 ATATTATTGA
* *
714414 TAAATTTATTAAATTA-AAAT
1 TAAATTAATAAAATTATAAAT
714434 TAAATTAATAAAATTATAAAT
1 TAAATTAATAAAATTATAAAT
714455 T
1 T
714456 TTGAAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTAATAAAATTATAAAT
Found at i:717684 original size:39 final size:39
Alignment explanation
Indices: 717573--717756 Score: 242
Period size: 39 Copynumber: 4.6 Consensus size: 39
717563 TTCGTGATCT
** * *
717573 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
717612 GAAGCCCGGAGGCTAACTTAACTGAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGG----C-TAACTGAAGCACACAAGTGCTAAACG
*
717656 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
717695 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
717734 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
717757 TCACCAGAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 93 0.73
40 1 0.01
44 33 0.26
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:721784 original size:19 final size:19
Alignment explanation
Indices: 721762--721800 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
721752 TCTGTCCCCC
721762 ATTTG-TATTTGTTATAATA
1 ATTTGTTATTT-TTATAATA
721781 ATTTGTTATTTTTATAATA
1 ATTTGTTATTTTTATAATA
721800 A
1 A
721801 ATAATAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
ATTTGTTATTTTTATAATA
Found at i:726034 original size:29 final size:28
Alignment explanation
Indices: 725988--726124 Score: 101
Period size: 29 Copynumber: 4.8 Consensus size: 28
725978 TTATTGATAT
725988 TATTTTTATGTT-TCTATTTATATTTAT-
1 TATTTTTAT-TTATCTATTTATATTTATC
726015 T-TTTTTATTCTAATACTA-TTATTATTTATC
1 TATTTTTATT-T-AT-CTATTTA-TATTTATC
*
726045 TAATTTTTATTTATCTATTTATATTTCTAC
1 T-ATTTTTATTTATCTATTTATATTTAT-C
*
726075 TATTATTATATT-TCTATTTATTATATT-TC
1 TATTTTTAT-TTATCTATTTA-TAT-TTATC
*
726104 TATTTCTA-TT-TCTATTTATAT
1 TATTTTTATTTATCTATTTATAT
726125 ACTAATATTA
Statistics
Matches: 93, Mismatches: 4, Indels: 27
0.75 0.03 0.22
Matches are distributed among these distances:
25 1 0.01
26 11 0.12
27 11 0.12
28 4 0.04
29 41 0.44
30 14 0.15
31 3 0.03
32 8 0.09
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.66
Consensus pattern (28 bp):
TATTTTTATTTATCTATTTATATTTATC
Found at i:726056 original size:15 final size:14
Alignment explanation
Indices: 725988--726114 Score: 84
Period size: 15 Copynumber: 8.8 Consensus size: 14
725978 TTATTGATAT
725988 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
726002 TATTTATATTTAT-
1 TATTTTTATTTATC
726015 T-TTTTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
726031 TATTATTATTTATC
1 TATTTTTATTTATC
726045 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
726060 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
726075 TATTATTATATT-TC
1 TATTTTTAT-TTATC
726089 TATTTATTATATT-TC
1 TATTT-TTAT-TTATC
*
726104 TATTTCTATTT
1 TATTTTTATTT
726115 CTATTTATAT
Statistics
Matches: 93, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
12 7 0.08
13 6 0.06
14 31 0.33
15 38 0.41
16 4 0.04
17 7 0.08
ACGTcount: A:0.25, C:0.08, G:0.01, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:726066 original size:44 final size:43
Alignment explanation
Indices: 725979--726113 Score: 114
Period size: 44 Copynumber: 3.1 Consensus size: 43
725969 TTTAATATAT
* * * * * * *
725979 TATTGATATTATTTTTATGTTTCTATTTATATTTATTTTTTTA
1 TATTAATACTATTATTATATTTCTATTTTTATTTATCTATTTA
726022 T-TCTAATACTATTATTAT-TTATCTAATTTTTATTTATCTATTTA
1 TAT-TAATACTATTATTATATT-TCT-ATTTTTATTTATCTATTTA
** *
726066 TATTTCTACTATTATTATATTTCTATTTATTATATT-TCTATTTC
1 TATTAATACTATTATTATATTTCTATTT-TTAT-TTATCTATTTA
726110 TATT
1 TATT
726114 TCTATTTATA
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.04
43 20 0.26
44 48 0.63
45 5 0.07
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.65
Consensus pattern (43 bp):
TATTAATACTATTATTATATTTCTATTTTTATTTATCTATTTA
Found at i:726073 original size:12 final size:12
Alignment explanation
Indices: 726058--726124 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
726048 TTTTTATTTA
726058 TCTATTTATATT
1 TCTATTTATATT
*
726070 TCTA-CTAT-TAT
1 TCTATTTATAT-T
* *
726081 TATATTTCTA-T
1 TCTATTTATATT
726092 T-TA-TTATATT
1 TCTATTTATATT
*
726102 TCTATTTCTATT
1 TCTATTTATATT
726114 TCTATTTATAT
1 TCTATTTATAT
726125 ACTAATATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
9 4 0.10
10 5 0.12
11 11 0.26
12 22 0.52
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.64
Consensus pattern (12 bp):
TCTATTTATATT
Found at i:726081 original size:58 final size:57
Alignment explanation
Indices: 725988--726124 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 57
725978 TTATTGATAT
** * *
725988 TATTTTTATGTTTCTATTTATATTTATTTTTTTATTCTAATACTA-TTATTAT-TTATC
1 TATTTTTAT-TTTCTATTTATATTTATACTATTATTATAATACTATTTATTATATT-TC
* * *
726045 TAATTTTTATTTATCTATTTATATTTCTACTATTATTATATTTCTATTTATTATATTTC
1 T-ATTTTTATTT-TCTATTTATATTTATACTATTATTATAATACTATTTATTATATTTC
*
726104 TATTTCTA-TTTCTATTTATAT
1 TATTTTTATTTTCTATTTATAT
726125 ACTAATATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
56 11 0.16
57 5 0.07
58 40 0.59
59 10 0.15
60 2 0.03
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.66
Consensus pattern (57 bp):
TATTTTTATTTTCTATTTATATTTATACTATTATTATAATACTATTTATTATATTTC
Found at i:726116 original size:44 final size:44
Alignment explanation
Indices: 726028--726117 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 44
726018 TTTATTCTAA
726028 TACTATTATTATTTATCTAATTTTTATTTATCTATTTATATTTC
1 TACTATTATTATTTATCTAATTTTTATTTATCTATTTATATTTC
*
726072 TACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTCTATTTC
1 TACTATTATTAT-TTATCTAATTT-TTAT-TTATCTATTTATATTTC
726116 TA
1 TA
726118 TTTATATACT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 4 0.10
44 34 0.81
45 4 0.10
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (44 bp):
TACTATTATTATTTATCTAATTTTTATTTATCTATTTATATTTC
Found at i:726304 original size:25 final size:24
Alignment explanation
Indices: 726243--726341 Score: 74
Period size: 25 Copynumber: 3.9 Consensus size: 24
726233 TATAACGCTC
*
726243 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTTATACATTATAT
* *
726267 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTTATACATTATAT
*
726292 ATTTCAAATTTTTTTTACACATTATAT
1 ATTTCAAA---TTTTTATACATTATAT
** *
726319 ATTTTGAATTGTTTATATATTAT
1 ATTTCAAATT-TTTATACATTAT
726342 TCTTAAAGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
24 9 0.16
25 30 0.52
27 19 0.33
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTTCAAATTTTTATACATTATAT
Found at i:728455 original size:25 final size:25
Alignment explanation
Indices: 728421--728470 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
728411 TCCAAAAGTA
*
728421 GAGATGATGCTGAGCGATGACTAGC
1 GAGATAATGCTGAGCGATGACTAGC
*
728446 GAGATAATGCTGAGGGATGACTAGC
1 GAGATAATGCTGAGCGATGACTAGC
728471 ATTCTGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.36, T:0.20
Consensus pattern (25 bp):
GAGATAATGCTGAGCGATGACTAGC
Found at i:729547 original size:6 final size:6
Alignment explanation
Indices: 729536--729575 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
729526 TAGAAAGATA
*
729536 TTATTT TTATTT TTGTTT TTA--T TTATTT TTA-TT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T
729576 ATTATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
4 4 0.14
5 5 0.17
6 20 0.69
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:729576 original size:16 final size:15
Alignment explanation
Indices: 729534--729578 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
729524 AATAGAAAGA
*
729534 TATTATTTTTATTTT
1 TATTTTTTTTATTTT
*
729549 TGTTTTTATTTATTTT
1 TATTTTT-TTTATTTT
729565 TATTTTATTTTATT
1 TATTTT-TTTTATT
729579 ATTAAATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.20
16 19 0.76
17 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (15 bp):
TATTTTTTTTATTTT
Found at i:729578 original size:10 final size:11
Alignment explanation
Indices: 729536--729575 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
729526 TAGAAAGATA
729536 TTATTTTTATTT
1 TTATTTTTA-TT
*
729548 TTGTTTTTA-T
1 TTATTTTTATT
729558 TTATTTTTATT
1 TTATTTTTATT
729569 TTATTTT
1 TTATTTT
729576 ATTATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.36
11 8 0.32
12 8 0.32
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:730076 original size:29 final size:29
Alignment explanation
Indices: 730038--730156 Score: 100
Period size: 29 Copynumber: 4.1 Consensus size: 29
730028 ATATTATTGC
* *
730038 TATTATTATTATGTTTCTATTTATATTTA
1 TATTGTTATTATATTTCTATTTATATTTA
* * * *
730067 TTTTGTTATTCTAATACTA-TTATTATTTA
1 TATTGTTATTATATTTCTATTTA-TATTTA
* **
730096 TCTAATTATTAT-TTATCTATTTATATTTCA
1 TATTGTTATTATATT-TCTATTTATATTT-A
*
730126 -ACTGTTATTATATTTCTATTTATATTTA
1 TATTGTTATTATATTTCTATTTATATTTA
730154 TAT
1 TAT
730157 ACTAATCATT
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
28 5 0.07
29 56 0.84
30 6 0.09
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (29 bp):
TATTGTTATTATATTTCTATTTATATTTA
Found at i:730105 original size:15 final size:15
Alignment explanation
Indices: 730085--730123 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
730075 TTCTAATACT
730085 ATTATTATTTATCTA
1 ATTATTATTTATCTA
730100 ATTATTATTTATCTA
1 ATTATTATTTATCTA
*
730115 TTTA-TATTT
1 ATTATTATTT
730124 CAACTGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:730145 original size:58 final size:58
Alignment explanation
Indices: 730042--730154 Score: 133
Period size: 58 Copynumber: 1.9 Consensus size: 58
730032 TATTGCTATT
** *
730042 ATTATTATGTTTCTATTTATATTTATTTTGTTATTCTAATACTA-TTATTATTTATCTA
1 ATTATTATGTTTCTATTTATATTTATACTGTTATTATAATACTATTTA-TATTTATCTA
* *
730100 ATTATTAT-TTATCTATTTATATTTCA-ACTGTTATTATATTTCTATTTATATTTAT
1 ATTATTATGTT-TCTATTTATATTT-ATACTGTTATTATAATACTATTTATATTTAT
730155 ATACTAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
57 2 0.04
58 41 0.87
59 4 0.09
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (58 bp):
ATTATTATGTTTCTATTTATATTTATACTGTTATTATAATACTATTTATATTTATCTA
Found at i:730304 original size:25 final size:27
Alignment explanation
Indices: 730276--730342 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 27
730266 TTCGTTTCAA
*
730276 ATTTTTATACATTATTTACTTT-AA-T
1 ATTTTTATACATTATGTACTTTAAACT
* * *
730301 ATTTTCATATATTATGTATTTTAAACT
1 ATTTTTATACATTATGTACTTTAAACT
* *
730328 TTTTTTACACATTAT
1 ATTTTTATACATTAT
730343 ATTTTTGAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 18 0.56
26 2 0.06
27 12 0.38
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.58
Consensus pattern (27 bp):
ATTTTTATACATTATGTACTTTAAACT
Found at i:733891 original size:21 final size:21
Alignment explanation
Indices: 733842--733891 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
733832 CATTATTTAA
* *
733842 AAAATATTTAAATTTTATATT
1 AAAATATTTAAATATCATATT
*
733863 AAATTATTTAAATATCA-ATT
1 AAAATATTTAAATATCATATT
733883 ACAAATATT
1 A-AAATATT
733892 ATTTATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATATTTAAATATCATATT
Found at i:737203 original size:45 final size:43
Alignment explanation
Indices: 737078--737217 Score: 100
Period size: 45 Copynumber: 3.1 Consensus size: 43
737068 TATTGTGCAT
* * * * * *
737078 CCACAACCAAAGGTAGATTCCATCTATCGGTACTTGTTGTCTAT
1 CCACAA-CAGAGGCAGATTCCATCTATGGGTATTTGTTGTGTAC
* * ** **
737122 CCACAACTAGAGGCAAACTCCATCTGCGAGACATTTGTTGTGTAC
1 CCACAAC-AGAGGCAGATTCCATCTATG-GGTATTTGTTGTGTAC
* *
737167 CCACAATCAGAGGCAGATTCCATCTATGGGTTATTTGCTGTGCAAC
1 CCACAA-CAGAGGCAGATTCCATCTATGGG-TATTTGTTGTG-TAC
737213 CCACA
1 CCACA
737218 GCCAAAGGCA
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
43 1 0.01
44 20 0.28
45 42 0.59
46 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
CCACAACAGAGGCAGATTCCATCTATGGGTATTTGTTGTGTAC
Found at i:739336 original size:18 final size:19
Alignment explanation
Indices: 739310--739347 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
739300 TTTTATAATT
**
739310 TTAATATATTTTAAAAAAA
1 TTAATATATAATAAAAAAA
739329 TTAA-ATATAATAAAAAAA
1 TTAATATATAATAAAAAAA
739347 T
1 T
739348 GTTAAGTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAATATATAATAAAAAAA
Found at i:739389 original size:17 final size:17
Alignment explanation
Indices: 739367--739399 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
739357 AACTAATTTT
739367 AAAATTTTAATATATTA
1 AAAATTTTAATATATTA
739384 AAAATTTTAATATATT
1 AAAATTTTAATATATT
739400 CAATATATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATTTTAATATATTA
Found at i:739391 original size:70 final size:69
Alignment explanation
Indices: 739232--739393 Score: 220
Period size: 71 Copynumber: 2.3 Consensus size: 69
739222 TCTTAATATA
* ** *
739232 TTTAAAATTTTAAAAAACTTAAAAAAATTAAATATATTAAAAAATGTTAAGTATAAACAATTTTA
1 TTTAATATTTTAAAAATTTTAAAAAAATTAAATATATAAAAAAATGTTAAGTATAAACAATTTTA
739297 AAAT
66 AAAT
*
739301 TTT-ATAATTTTAATATATTTTAAAAAAATTAAATATAATAAAAAAATGTTAAGTAT-AACTAAT
1 TTTAAT-ATTTTAA-AAATTTTAAAAAAATTAAATAT-ATAAAAAAATGTTAAGTATAAAC-AAT
739364 TTTAAAAT
62 TTTAAAAT
*
739372 TTTAATATATTAAAAATTTTAA
1 TTTAATATTTTAAAAATTTTAA
739394 TATATTCAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
68 1 0.01
69 10 0.12
70 30 0.37
71 38 0.47
72 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (69 bp):
TTTAATATTTTAAAAATTTTAAAAAAATTAAATATATAAAAAAATGTTAAGTATAAACAATTTTA
AAAT
Found at i:739420 original size:41 final size:40
Alignment explanation
Indices: 739371--739448 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
739361 AATTTTAAAA
*
739371 TTTTAATATA-TTAAAAATTTTAATATATTCAATATATATT
1 TTTTAATATATTTAAAAATTTTAAAAT-TTCAATATATATT
* *
739411 TTTTAAATATATTTTAAAATTTTAAAATTTTAATATAT
1 TTTT-AATATATTTAAAAATTTTAAAATTTCAATATAT
739449 TTATTAATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 4 0.12
41 15 0.45
42 14 0.42
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (40 bp):
TTTTAATATATTTAAAAATTTTAAAATTTCAATATATATT
Found at i:741185 original size:14 final size:13
Alignment explanation
Indices: 741151--741196 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
741141 TATTGTAAAA
741151 AAAAATCAAAATAT
1 AAAAAT-AAAATAT
741165 AATAAATAAAATTAT
1 AA-AAATAAAA-TAT
*
741180 AAAAATAAAAAAT
1 AAAAATAAAATAT
741193 AAAA
1 AAAA
741197 CCGCAGTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.21
14 14 0.48
15 9 0.31
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATAAAATAT
Found at i:741472 original size:15 final size:15
Alignment explanation
Indices: 741452--741490 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
741442 AATTTTTTAA
741452 AAATTATAAATATAT-
1 AAATTATAAA-ATATG
741467 AAATTATTAAAATATG
1 AAATTA-TAAAATATG
741483 AAATTATA
1 AAATTATA
741491 TTTTTATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTATAAAATATG
Found at i:741486 original size:16 final size:16
Alignment explanation
Indices: 741452--741489 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
741442 AATTTTTTAA
741452 AAATTA-TAAATATAT
1 AAATTATTAAATATAT
741467 AAATTATTAAA-ATAT
1 AAATTATTAAATATAT
741482 GAAATTAT
1 -AAATTAT
741490 ATTTTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAATTATTAAATATAT
Found at i:744011 original size:11 final size:11
Alignment explanation
Indices: 743995--744037 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
743985 TTTGATAGAG
743995 ATATTAATACA
1 ATATTAATACA
*
744006 ATATTAATGAAA
1 ATATTAAT-ACA
*
744018 AGTATTAATACT
1 A-TATTAATACA
744030 ATATTAAT
1 ATATTAAT
744038 GTAAATATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 15 0.56
12 5 0.19
13 7 0.26
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (11 bp):
ATATTAATACA
Found at i:744706 original size:3 final size:3
Alignment explanation
Indices: 744698--744731 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
744688 AAGGGTCTAA
* *
744698 ATT ATT ATT ATT ATT ATT ACT ATT ATT TTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
744732 AATATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:745233 original size:141 final size:144
Alignment explanation
Indices: 745044--745324 Score: 376
Period size: 145 Copynumber: 2.0 Consensus size: 144
745034 AAATTTTGAT
* *
745044 TTTTTTTAAAAAGAGAAAGTTTAGATTTTAAAAATAAAATTCTATTTTTTTAGTCATTTCAAAGG
1 TTTTTTTAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATCTA-TTTTTTAGACATTTCAAAGG
* * * *
745109 -AAAGTTTAAA-TTTTT-A-AAAGTTTTGATTTTTTTTAACTATTTTAAAACAAAAGCTTTGATT
65 AAAAATTTAAATTTTTTAACAAAGTTTTGA-TTTTTTTAACTATTTCAAAACAAAAACTTTAATT
745170 TTTAAGAAAATAGTGA
129 TTTAAGAAAATAGTGA
* * **
745186 TTTTTTT-AAAGGAGAAAGTTTAGAATTTT-AAAATAAAAATCTGTTTTTTAGACATTTTTAAGG
1 TTTTTTTAAAAAGAGAAAGTTTAG-ATTTTAAAAATAAAAATCTATTTTTTAGACATTTCAAAGG
*
745249 AAAAATTTAAATTTTTTAAAACAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAACTTTAAT
65 AAAAATTTAAATTTTTT--AACAAAGTTTTGATTTTTTTAACTATTTCAAAACAAAAACTTTAAT
745314 TTTTAAGAAAA
128 TTTTAAGAAAA
745325 GTGGTGAATT
Statistics
Matches: 121, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
140 17 0.14
141 36 0.30
142 17 0.14
145 41 0.34
146 10 0.08
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (144 bp):
TTTTTTTAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATCTATTTTTTAGACATTTCAAAGGA
AAAATTTAAATTTTTTAACAAAGTTTTGATTTTTTTAACTATTTCAAAACAAAAACTTTAATTTT
TAAGAAAATAGTGA
Found at i:745831 original size:6 final size:6
Alignment explanation
Indices: 745820--745846 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
745810 CTTATATTAT
745820 TTTGTG TTTGTG TTTGTG TTTGTG TTT
1 TTTGTG TTTGTG TTTGTG TTTGTG TTT
745847 TGTGCTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (6 bp):
TTTGTG
Found at i:745860 original size:2 final size:2
Alignment explanation
Indices: 745853--745883 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
745843 GTTTTGTGCT
745853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
745884 TTTATGTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:753781 original size:17 final size:18
Alignment explanation
Indices: 753759--753798 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
753749 TTTAAAAAAC
753759 AATTAAAATTTTATA-TA
1 AATTAAAATTTTATATTA
*
753776 AATTAATATTTTATATTA
1 AATTAAAATTTTATATTA
753794 AATTA
1 AATTA
753799 TTTAAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTAAAATTTTATATTA
Found at i:754355 original size:24 final size:24
Alignment explanation
Indices: 754328--754375 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
754318 ATAAGAGCTT
754328 CCGTGAGATTAGAATACTAAAACG
1 CCGTGAGATTAGAATACTAAAACG
754352 CCGTGAGATTAGAATACTAAAACG
1 CCGTGAGATTAGAATACTAAAACG
754376 GACCTCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (24 bp):
CCGTGAGATTAGAATACTAAAACG
Found at i:754792 original size:30 final size:29
Alignment explanation
Indices: 754746--754802 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
754736 TCTTATTATA
*
754746 TTAATTTTTTTATAATT-TTTAATAAATTT
1 TTAATTTTTGTATAATTATTTAA-AAATTT
754775 TTAATATTTTGTATAATTATTTAAAAAT
1 TTAAT-TTTTGTATAATTATTTAAAAAT
754803 AATTTTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 5 0.20
30 15 0.60
31 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTAATTTTTGTATAATTATTTAAAAATTT
Found at i:755052 original size:16 final size:16
Alignment explanation
Indices: 755002--755053 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
754992 AATCAAAGTC
*
755002 ATCAAACAAATTATCA
1 ATCAAAAAAATTATCA
*
755018 ATTTCAATAAAAAAT-TCA
1 A--TCAA-AAAAATTATCA
755036 ATCAAAAAAATTATCA
1 ATCAAAAAAATTATCA
755052 AT
1 AT
755054 TCAATCAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
15 6 0.21
16 10 0.34
18 8 0.28
19 5 0.17
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (16 bp):
ATCAAAAAAATTATCA
Found at i:755209 original size:15 final size:15
Alignment explanation
Indices: 755189--755231 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
755179 TATTTAAAAT
*
755189 TTTATATTAATTATA
1 TTTATATCAATTATA
755204 TTTATATCAATTAT-
1 TTTATATCAATTATA
*
755218 TTAAATATCAATTA
1 TT-TATATCAATTA
755232 CAAATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTATATCAATTATA
Found at i:756683 original size:25 final size:27
Alignment explanation
Indices: 756638--756700 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
756628 AAAACAAGTC
*
756638 GAAAT-AATAATATAATGAAAAGGCTT
1 GAAATAAATAATATAATGAAAAAGCTT
*
756664 GAAATAAATAATA-AAT-AAAAAGTTT
1 GAAATAAATAATATAATGAAAAAGCTT
*
756689 GCAATAAATAAT
1 GAAATAAATAAT
756701 GAAAGTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.55
26 8 0.24
27 7 0.21
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (27 bp):
GAAATAAATAATATAATGAAAAAGCTT
Found at i:756924 original size:15 final size:16
Alignment explanation
Indices: 756904--756933 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
756894 CTACATAATG
756904 TATATAA-ATGTAAAA
1 TATATAATATGTAAAA
756919 TATATAATATGTAAA
1 TATATAATATGTAAA
756934 TATTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (16 bp):
TATATAATATGTAAAA
Found at i:757384 original size:26 final size:26
Alignment explanation
Indices: 757342--757392 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
757332 AAGATTTCGT
* *
757342 AATAATACGTATGATAGGC-TAAAATA
1 AATAATACATATAATA-GCTTAAAATA
757368 AATAATACATATAATAGCTTAAAAT
1 AATAATACATATAATAGCTTAAAAT
757393 GTATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (26 bp):
AATAATACATATAATAGCTTAAAATA
Found at i:759990 original size:10 final size:10
Alignment explanation
Indices: 759975--760008 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
759965 TTAGAATCAG
759975 TATATAGCTA
1 TATATAGCTA
759985 TATATAGCTA
1 TATATAGCTA
759995 TATATA--TA
1 TATATAGCTA
760003 TATATA
1 TATATA
760009 TTAGATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (10 bp):
TATATAGCTA
Found at i:760969 original size:12 final size:12
Alignment explanation
Indices: 760952--760976 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
760942 AACCTATTTG
760952 TGTGGTGGACAA
1 TGTGGTGGACAA
760964 TGTGGTGGACAA
1 TGTGGTGGACAA
760976 T
1 T
760977 TCACAACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.40, T:0.28
Consensus pattern (12 bp):
TGTGGTGGACAA
Found at i:767736 original size:46 final size:45
Alignment explanation
Indices: 767680--767855 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
767670 TATTTGGGCA
767680 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *** * *
767726 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAATG
* *
767773 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
767819 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
767856 GCGGCTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:767835 original size:93 final size:93
Alignment explanation
Indices: 767676--767847 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
767666 AGGATATTTG
* *
767676 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
767741 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
767769 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
767834 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
767848 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:770297 original size:20 final size:20
Alignment explanation
Indices: 770272--770310 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
770262 ATTCGAGGTT
770272 AGAAAATTATTTTAATATAC
1 AGAAAATTATTTTAATATAC
770292 AGAAAATTATTTTAATATA
1 AGAAAATTATTTTAATATA
770311 TTTTTTGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
AGAAAATTATTTTAATATAC
Found at i:775344 original size:141 final size:138
Alignment explanation
Indices: 775088--775402 Score: 461
Period size: 141 Copynumber: 2.3 Consensus size: 138
775078 TTTTTACATC
* * * *
775088 AAATCCATGTATATTAAATGATATATATGAAATTTCTTAAGAAAAATCTCATCTTTCTTGCCTAA
1 AAATTCATGTATATTAAATGAAATGTATGAAATTTCTTAAGAAAAATCTCATCTTTCTTACCTAA
*
775153 CTCAAATCCCTAACTTTTTTACATTTCTAAGATGTACTCTTACTAGTTTCACCAAAAACTAATAA
66 CTCAAATCCCTAACTTTTTTACACTTCTAAGATGTACTCTTACTAGTTTCACCAAAAACTAATAA
*
775218 TGCTATGA
131 TGCCATGA
* *
775226 AAATTCATGTATATGAAATGAAATGTATGAAATTTCTTAAG-AAAATCTCGTCTTTCTTACCTTA
1 AAATTCATGTATATTAAATGAAATGTATGAAATTTCTTAAGAAAAATCTCATCTTTCTTACC-TA
* * * * **
775290 CTTACTCATATCCTTAATTTTTTTTCACTTCTAAGATGTACTCTTGTTAGTTTCACCAAAAACTA
65 ---ACTCAAATCCCTAACTTTTTTACACTTCTAAGATGTACTCTTACTAGTTTCACCAAAAACTA
775355 ATAATGCCATGA
127 ATAATGCCATGA
775367 AAATTCATGTATATTAAATGAAATGTATGAAATTTC
1 AAATTCATGTATATTAAATGAAATGTATGAAATTTC
775403 GTTTTTCTTA
Statistics
Matches: 158, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
137 18 0.11
138 39 0.25
141 101 0.64
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (138 bp):
AAATTCATGTATATTAAATGAAATGTATGAAATTTCTTAAGAAAAATCTCATCTTTCTTACCTAA
CTCAAATCCCTAACTTTTTTACACTTCTAAGATGTACTCTTACTAGTTTCACCAAAAACTAATAA
TGCCATGA
Found at i:775839 original size:62 final size:62
Alignment explanation
Indices: 775742--775863 Score: 244
Period size: 62 Copynumber: 2.0 Consensus size: 62
775732 ATTTAAAAAA
775742 CTTACATTATCATGCCATACATACGGCTTCAATGCTATCCATCCTCAACCATTCATTTTTAG
1 CTTACATTATCATGCCATACATACGGCTTCAATGCTATCCATCCTCAACCATTCATTTTTAG
775804 CTTACATTATCATGCCATACATACGGCTTCAATGCTATCCATCCTCAACCATTCATTTTT
1 CTTACATTATCATGCCATACATACGGCTTCAATGCTATCCATCCTCAACCATTCATTTTT
775864 TACTCCCATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.36
Consensus pattern (62 bp):
CTTACATTATCATGCCATACATACGGCTTCAATGCTATCCATCCTCAACCATTCATTTTTAG
Found at i:777770 original size:16 final size:16
Alignment explanation
Indices: 777749--777780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
777739 AAAAAATTGG
*
777749 GGGAGGGGGAGGGGGA
1 GGGAGGGGAAGGGGGA
777765 GGGAGGGGAAGGGGGA
1 GGGAGGGGAAGGGGGA
777781 ATGGGTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.78, T:0.00
Consensus pattern (16 bp):
GGGAGGGGAAGGGGGA
Found at i:783568 original size:17 final size:17
Alignment explanation
Indices: 783548--783581 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
783538 ATTATTTAAA
*
783548 ATTTTAAATTAATTTAT
1 ATTTTAAATTAAATTAT
*
783565 ATTTTATATTAAATTAT
1 ATTTTAAATTAAATTAT
783582 TCAAATATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAAATTAAATTAT
Found at i:786493 original size:42 final size:42
Alignment explanation
Indices: 786434--786561 Score: 229
Period size: 42 Copynumber: 3.0 Consensus size: 42
786424 GTTTTTTCTT
* *
786434 TTCGCTTTGGTGAGAAAATTAAAGAATATGTGAAAAATTGTA
1 TTCGCTTTGTTGGGAAAATTAAAGAATATGTGAAAAATTGTA
*
786476 TTCGCTTTGTTGGGAAAATTAAAGAATATGTGAAAAATCGTA
1 TTCGCTTTGTTGGGAAAATTAAAGAATATGTGAAAAATTGTA
786518 TTCGCTTTGTTGGGAAAATTAAAGAATATGTGAAAAATTGTA
1 TTCGCTTTGTTGGGAAAATTAAAGAATATGTGAAAAATTGTA
786560 TT
1 TT
786562 GTTAGAATTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.35
Consensus pattern (42 bp):
TTCGCTTTGTTGGGAAAATTAAAGAATATGTGAAAAATTGTA
Found at i:791649 original size:2 final size:2
Alignment explanation
Indices: 791636--791690 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
791626 AACCAGAATA
* *
791636 AT AT AA AT AT AT AT AT AT AT AT AC 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
791678 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
791691 ATCTGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:795202 original size:20 final size:20
Alignment explanation
Indices: 795179--795216 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
795169 AAAAAAGGTA
795179 AACATAAAAATATTTAAAAT
1 AACATAAAAATATTTAAAAT
* *
795199 AACATAATACTATTTAAA
1 AACATAAAAATATTTAAA
795217 CGAAACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
AACATAAAAATATTTAAAAT
Found at i:799813 original size:85 final size:85
Alignment explanation
Indices: 799647--799815 Score: 191
Period size: 85 Copynumber: 2.0 Consensus size: 85
799637 AAAACATTAC
* * * *
799647 TGAATCTGAATGTTGGCCTAATAACGAGAGTACTCCTCCACCCAGATGTGATATGAGTTCAAGTT
1 TGAATCTGAATGTTAGCCTAATAACGAAAATACTCCCCCACCCAGATGTGATATGAGTTCAAGTT
* *
799712 GCATTAATCGCATTGTTCTA
66 GCATTAACCCCATTGTTCTA
* *
799732 TGAATCT-ATATGTTAGCCTAATAATGAAAATATTCCCCCACCCAGATGTGATAT-AGGTTCGAA
1 TGAATCTGA-ATGTTAGCCTAATAACGAAAATACTCCCCCACCCAGATGTGATATGA-GTTC-AA
** *
799795 -TTGTGTTAACCCCGTTGTTCT
63 GTTGCATTAACCCCATTGTTCT
799816 TCTCTCAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
84 2 0.03
85 66 0.94
86 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (85 bp):
TGAATCTGAATGTTAGCCTAATAACGAAAATACTCCCCCACCCAGATGTGATATGAGTTCAAGTT
GCATTAACCCCATTGTTCTA
Found at i:803822 original size:27 final size:27
Alignment explanation
Indices: 803765--803823 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
803755 CGAATTTGAT
* *
803765 TATATAGCACTAAGTGTGCGAGCAGAT
1 TATATAGCACTAAGTGTGCGAGCACAC
*
803792 TATATAGCACTAAGTGTGCCGA-CTCAC
1 TATATAGCACTAAGTGTG-CGAGCACAC
803819 TATAT
1 TATAT
803824 GCTTTTGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (27 bp):
TATATAGCACTAAGTGTGCGAGCACAC
Found at i:810964 original size:28 final size:28
Alignment explanation
Indices: 810920--810993 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
810910 TTAAAATTTG
* ***
810920 TATAGCACTAAGCGTGCGAATTTGATTA
1 TATAGCACTAAGTGTGCGAAGCAGATTA
810948 TATAGCACTAAGTGTGCG-AGCAGATTA
1 TATAGCACTAAGTGTGCGAAGCAGATTA
810975 TATAGCACTAAGTGTGCGA
1 TATAGCACTAAGTGTGCGA
810994 CTCACTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAAGCAGATTA
Found at i:814347 original size:2 final size:2
Alignment explanation
Indices: 814340--814384 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
814330 AACTGGAGAA
814340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
814381 AT AT
1 AT AT
814385 TAATGTCCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:815453 original size:58 final size:58
Alignment explanation
Indices: 815388--815526 Score: 183
Period size: 58 Copynumber: 2.4 Consensus size: 58
815378 TTAATTCATA
*
815388 TAATAATAATTATATTAAGAATTTTATTAAAGTATATATTA-TTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATTTGATTAAAGTATATATTATTTTTATTAAATTATATT
* * * * * *
815446 TAGTAATAATTATGTTAAAATATGATTAAATTATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTATATTAAAATTTGATTAAAGTATATATTATTTTTATTAAATTATATT
815504 TAATAATAATCT-TATTAAAATTT
1 TAATAATAAT-TATATTAAAATTT
815527 AATAATAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 18 0.26
58 50 0.72
59 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (58 bp):
TAATAATAATTATATTAAAATTTGATTAAAGTATATATTATTTTTATTAAATTATATT
Found at i:815597 original size:29 final size:29
Alignment explanation
Indices: 815555--815613 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
815545 CATCTACCTA
815555 AAAAAAATTCTGCTAAGGGTATTCTGGTC
1 AAAAAAATTCTGCTAAGGGTATTCTGGTC
815584 AAAAAAATTCTGCTAAGGGTATTCTGGTC
1 AAAAAAATTCTGCTAAGGGTATTCTGGTC
815613 A
1 A
815614 TTTTAGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (29 bp):
AAAAAAATTCTGCTAAGGGTATTCTGGTC
Found at i:815750 original size:16 final size:16
Alignment explanation
Indices: 815728--815772 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
815718 CTGATTATAA
815728 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
* * *
815744 CTTTATTCAATTGCAG
1 CTCTATTCCATTACAG
815760 CTCTATTCCATTA
1 CTCTATTCCATTA
815773 TAGTGAGCCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.42
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:821247 original size:39 final size:39
Alignment explanation
Indices: 821195--821280 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
821185 TCTTAAAGAA
* *
821195 AAAAAGAAAGGGAATAGGAAGATATTAACTGAAGTTTAG
1 AAAAACAAAGGGAATAGGAAGATATTAACTGAAGTTCAG
821234 AAAAACAAAGGGAATAGGAAGATATTAACTGAAGTTCAG
1 AAAAACAAAGGGAATAGGAAGATATTAACTGAAGTTCAG
821273 AAAAACAA
1 AAAAACAA
821281 TTAACTTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.55, C:0.06, G:0.22, T:0.17
Consensus pattern (39 bp):
AAAAACAAAGGGAATAGGAAGATATTAACTGAAGTTCAG
Found at i:821399 original size:29 final size:29
Alignment explanation
Indices: 821357--821415 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
821347 AATAATCGAA
821357 AATATAATTATAAGTTATTGCATACTGAT
1 AATATAATTATAAGTTATTGCATACTGAT
821386 AATATAATTATAAGTTATTGCATACTGAT
1 AATATAATTATAAGTTATTGCATACTGAT
821415 A
1 A
821416 GTTGATTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (29 bp):
AATATAATTATAAGTTATTGCATACTGAT
Found at i:822118 original size:32 final size:29
Alignment explanation
Indices: 822064--822130 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 29
822054 TAAACTATTC
* *
822064 TAAA-AATAATTTAAATTATATTTATATGGAT
1 TAAATAATAATTAAAATCATATTTA-AT--AT
*
822095 TAAATAATAATTAAAATCGTATTTAATAT
1 TAAATAATAATTAAAATCATATTTAATAT
822124 TAAATAA
1 TAAATAA
822131 CAATATAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 9 0.28
31 6 0.19
32 17 0.53
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (29 bp):
TAAATAATAATTAAAATCATATTTAATAT
Found at i:824704 original size:20 final size:21
Alignment explanation
Indices: 824665--824708 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
824655 AGGGACAAAA
824665 AAAATAACCATAAAAATATTT
1 AAAATAACCATAAAAATATTT
* *
824686 AAAATAA-CATAATACTATTT
1 AAAATAACCATAAAAATATTT
824706 AAA
1 AAA
824709 CGAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATAACCATAAAAATATTT
Found at i:830082 original size:28 final size:29
Alignment explanation
Indices: 830042--830097 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
830032 TTAAGTCAAA
* * *
830042 CTCATGTGCCAAATTGGAACAA-AAAAAC
1 CTCAAGTGCCAAATAGGAAAAAGAAAAAC
*
830070 CTCAAGTGTCAAATAGGAAAAAGAAAAA
1 CTCAAGTGCCAAATAGGAAAAAGAAAAA
830098 AAAAAAGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (29 bp):
CTCAAGTGCCAAATAGGAAAAAGAAAAAC
Found at i:832602 original size:14 final size:14
Alignment explanation
Indices: 832583--832613 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
832573 ATTCAAACAA
832583 TAACAACAAAATAG
1 TAACAACAAAATAG
*
832597 TAACAACATAATAG
1 TAACAACAAAATAG
832611 TAA
1 TAA
832614 AATGATAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:833957 original size:6 final size:6
Alignment explanation
Indices: 833946--833970 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
833936 GGAAGTGCAA
833946 CTGAAG CTGAAG CTGAAG CTGAAG C
1 CTGAAG CTGAAG CTGAAG CTGAAG C
833971 CACTGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.16
Consensus pattern (6 bp):
CTGAAG
Found at i:844227 original size:17 final size:17
Alignment explanation
Indices: 844207--844240 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
844197 AGGTTTAGGT
844207 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
**
844224 TTAATTTTTTTAATTAA
1 TTAAAATTTTTAATTAA
844241 AAATCTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:844249 original size:17 final size:17
Alignment explanation
Indices: 844213--844251 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
844203 AGGTTTAAAA
*
844213 TTTTTAATTAATTAATT
1 TTTTTAATTAATAAATT
844230 TTTTTAATTAA-AAATCT
1 TTTTTAATTAATAAAT-T
844247 TTTTT
1 TTTTT
844252 CATCCCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTAATTAATAAATT
Found at i:847132 original size:23 final size:25
Alignment explanation
Indices: 847098--847143 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
847088 TATGAGTATG
847098 TACATATAATATA-ATAT-TAAATA
1 TACATATAATATACATATATAAATA
847121 TACATA-ATATATACATATATAAA
1 TACATATA-ATATACATATATAAA
847144 ACATGTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.05
23 11 0.55
24 4 0.20
25 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (25 bp):
TACATATAATATACATATATAAATA
Found at i:847390 original size:20 final size:19
Alignment explanation
Indices: 847352--847397 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
847342 GAAATACTCA
**
847352 ATATATAATATTTAAAAAT
1 ATATATAATATACAAAAAT
847371 ATATATAATAATACAAAAAT
1 ATATATAAT-ATACAAAAAT
847391 ATATATA
1 ATATATA
847398 GCGTAGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATATAATATACAAAAAT
Found at i:847604 original size:3 final size:3
Alignment explanation
Indices: 847598--847648 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
847588 TTAGAAGTAG
847598 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
847646 TAA
1 TAA
847649 ATTAAAGTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:849566 original size:24 final size:25
Alignment explanation
Indices: 849539--849600 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
849529 GTAGTAAAAT
*
849539 AAAAAGAAGA-AGTA-GAGAAGAAGGA
1 AAAAAGAAGAGAGGAGGAGAAGAA--A
849564 AAAAA-AAGAGGAGGAGGAGAAGAAA
1 AAAAAGAAGA-GAGGAGGAGAAGAAA
849589 AAAAAGAAGAGA
1 AAAAAGAAGAGA
849601 AAAATTCTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 4 0.12
25 13 0.41
26 7 0.22
27 8 0.25
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (25 bp):
AAAAAGAAGAGAGGAGGAGAAGAAA
Found at i:855924 original size:26 final size:26
Alignment explanation
Indices: 855888--855943 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
855878 TGAAATTCCC
*
855888 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
855914 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
855940 ATCA
1 ATCA
855944 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:862952 original size:26 final size:26
Alignment explanation
Indices: 862923--862984 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
862913 ACATGAAATT
862923 CCCATTATCATGGAACATTTACCTAA
1 CCCATTATCATGGAACATTTACCTAA
862949 CCCATTATCATGGAACATTTACCTAA
1 CCCATTATCATGGAACATTTACCTAA
862975 CCCATTATCA
1 CCCATTATCA
862985 ATTTGTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (26 bp):
CCCATTATCATGGAACATTTACCTAA
Found at i:865656 original size:18 final size:19
Alignment explanation
Indices: 865633--865672 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
865623 TATACCAGGA
865633 TATCGTTAAT-AAGACGAC
1 TATCGTTAATAAAGACGAC
865651 TATCGTTAATAAAGACGAC
1 TATCGTTAATAAAGACGAC
865670 TAT
1 TAT
865673 GAACTGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (19 bp):
TATCGTTAATAAAGACGAC
Done.