Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold182_ERROPOS6753793
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: 99999
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:393 original size:73 final size:73
Alignment explanation
Indices: 210--631 Score: 400
Period size: 73 Copynumber: 5.5 Consensus size: 73
200 CTACTTTTTC
* * *
210 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTTAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTTAATT
* *
274 TTTGTTCGTAAAAAA
63 TCTGTTC----ATAA
** *
289 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
354 GTTCATAA
66 GTTCATAA
* * ** *
362 AAAATTAGCTCATATTGTAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGT-ATTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTT-AAT
**
425 TTCTGGTTTTCAATTTCTGTTTTT
62 TTCT-G--TTC-A--------TAA
*
449 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
** *
514 GTTTGTCA
66 GTTCATAA
* *
522 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
** *
587 GTTTGTCA
66 GTTCATAA
595 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
632 GGCTCACATG
Statistics
Matches: 298, Mismatches: 26, Indels: 44
0.81 0.07 0.12
Matches are distributed among these distances:
72 2 0.01
73 145 0.49
74 4 0.01
75 18 0.06
76 1 0.00
77 25 0.08
78 3 0.01
79 37 0.12
80 2 0.01
82 2 0.01
84 1 0.00
85 19 0.06
86 4 0.01
87 33 0.11
88 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
GTTCATAA
Found at i:448 original size:14 final size:14
Alignment explanation
Indices: 417--447 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
407 CGCTGAGGTA
417 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
431 TTTTCAATTTCT-G
1 TTTTCAATTTCTGG
444 TTTT
1 TTTT
448 TAAAATCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:731 original size:92 final size:90
Alignment explanation
Indices: 577--849 Score: 430
Period size: 92 Copynumber: 3.1 Consensus size: 90
567 CTGAGGTAAT
* *
577 TTCAATTTCTGTTTGT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
*
641 GCTGAGGTCTTTTCAATTTTTGTTC
66 GCTGAGGTCTTTTCAATTTCTGTTC
666 TTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
1 TTCAATTTCTGTTCGT--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
731 ATGCTGAGGTCTTTTCAATTTCTGTTC
64 ATGCTGAGGTCTTTTCAATTTCTGTTC
758 TTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
1 TTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACA
* * *
820 CGCTGAGGTATTTTAAATTTCTGTT-
65 TGCTGAGGTCTTTTCAATTTCTGTTC
845 TTCAA
1 TTCAA
850 AAATCGACTC
Statistics
Matches: 174, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
87 5 0.03
88 25 0.14
89 15 0.09
90 40 0.23
91 2 0.01
92 87 0.50
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (90 bp):
TTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
GCTGAGGTCTTTTCAATTTCTGTTC
Found at i:763 original size:14 final size:14
Alignment explanation
Indices: 744--771 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
734 CTGAGGTCTT
744 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
758 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
772 GTAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:910 original size:238 final size:238
Alignment explanation
Indices: 686--1722 Score: 1879
Period size: 238 Copynumber: 4.4 Consensus size: 238
676 GTTCGTAAAA
*
686 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
751 TCTGTTCTTCAATTTCTGTTCGT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 TCTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
815 GGACACGCTGAGGTA-TTTTAAATTTCTG-TTTTCAAAAATCGACTCATATTGCGAGAGGTGAGT
131 GCACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
878 TGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
196 TGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
921 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
986 TCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TCTGTTCTTCAATTTCTGTTCGT--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
1051 CAGCACACGCTGAGGTATTTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
129 CAGCACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
*
1116 GTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
194 GTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
1161 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1226 TCTGTTCTTCAATTTCTGTTCGT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 TCTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * *
1289 GGACACGCTGAGGTATTTTTAAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGA
131 GCACACGCTGAGGTATTTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGA
1354 GTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
194 GTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
1399 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1464 TCTGTTCTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 TCTGTTCTTCAATTTCTGTTCGT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
1529 AGCACACGCTGAGGTATTTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
130 AGCACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
1594 TTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
195 TTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
* *
1638 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1703 TCTGCTT-TTCAATTTCTGTT
66 TCTG-TTCTTCAATTTCTGTT
1723 TTTTCAATTT
Statistics
Matches: 775, Mismatches: 16, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
235 87 0.11
236 72 0.09
238 214 0.28
239 164 0.21
240 166 0.21
241 72 0.09
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (238 bp):
AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
TCTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GCACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
Found at i:957 original size:73 final size:73
Alignment explanation
Indices: 758--991 Score: 344
Period size: 72 Copynumber: 3.2 Consensus size: 73
748 ATTTCTGTTC
* * *
758 TTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTCAATTTCTGTTTGT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
823 TGAGGTATT
65 TGAGGTATT
* *
832 TTAAATTTCTGTTT-TCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
*
896 GAGGTAAT
66 GAGGTATT
* * *
904 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACG
*
969 CTGAGGTCTT
64 CTGAGGTATT
979 TTCAATTTCTGTT
1 TTCAATTTCTGTT
992 CTTCAATTTC
Statistics
Matches: 144, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
72 66 0.46
73 41 0.28
74 12 0.08
75 25 0.17
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (73 bp):
TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
GAGGTATT
Found at i:998 original size:14 final size:14
Alignment explanation
Indices: 979--1006 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
969 CTGAGGTCTT
979 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
993 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
1007 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:1193 original size:73 final size:74
Alignment explanation
Indices: 1014--1714 Score: 430
Period size: 73 Copynumber: 9.0 Consensus size: 74
1004 TTCGTAAAAA
*
1014 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCACACGCTGAGGTATTTTTAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCTGAGGTA-TTTTCAATT
* *
1078 TTTGTTTTTC
65 TCTGTTTGTC
*
1088 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-ACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCTGAGGTATTTTCAATTT
1152 CTGTTTGTC
66 CTGTTTGTC
* * *
1161 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG--CACACGCTGAGGTATTTTCAAT
1225 TTCTGTTCT-TC
64 TTCTGTT-TGTC
*** * * * * * *
1236 AATTTCTGTTCGTAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAG--TTGAGCCTCAGGACACG
1 AA----AAATC-----AACTCATATTGCGAGA--G-GTGAGTTGAGCCTCGAG---C---ACACG
* * *
1296 CTGAGGTATTTTTAAATTTCTATTTTTC
48 CTGAGGTA-TTTTCAATTTCTGTTTGTC
* * *
1324 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCG-GGACACGCTGAGGTAATTTCAAT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCTGAGGTATTTTCAAT
1388 TTCTGTTTGTC
64 TTCTGTTTGTC
* * *
1399 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG--CACACGCTGAGGTATTTTCAAT
1463 TTCTGTTCTTCAATTTCTGTTC
64 TTCTG---------TT-TG-TC
* ** * * * * *
1485 GTAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTC-AGCACACGCTGAGGTAT
1 -AAAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCGAGCACACGCTGAGGTA-
* * *
1546 TTTTAAATTTTTGTTTTTC
56 TTTTCAATTTCTGTTTGTC
* *
1565 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCTGAGGTATTTTCAATTT
1629 CTGTTTGTC
66 CTGTTTGTC
* * * * *
1638 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG-GCTCACATGCTGAGGTCTTTTTAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG--CACACGCTGAGGTATTTTCAAT
1702 TTCTGCTTT-TC
64 TTCTG-TTTGTC
1713 AA
1 AA
1715 TTTCTGTTTT
Statistics
Matches: 490, Mismatches: 75, Indels: 123
0.71 0.11 0.18
Matches are distributed among these distances:
72 1 0.00
73 144 0.29
74 69 0.14
75 95 0.19
76 17 0.03
79 18 0.04
80 5 0.01
81 17 0.03
82 11 0.02
83 7 0.01
84 22 0.04
85 3 0.01
86 7 0.01
87 29 0.06
88 15 0.03
90 14 0.03
91 11 0.02
92 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCACACGCTGAGGTATTTTCAATTT
CTGTTTGTC
Found at i:1238 original size:14 final size:14
Alignment explanation
Indices: 1219--1246 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1209 CTGAGGTCTT
1219 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
1233 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
1247 GTAAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:1360 original size:76 final size:74
Alignment explanation
Indices: 1236--1436 Score: 289
Period size: 76 Copynumber: 2.7 Consensus size: 74
1226 TCTGTTCTTC
* *
1236 AATTTCTGTTCGT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 AATTTCTATTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
1300 GGTATTTTTA
66 GGTA-ATTTA
* * *
1310 AATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTG
1 AATTTCTATTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
1375 AGGTAATTTC
65 AGGTAATTTA
* *
1385 AATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AATTTCTATTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1437 GGCTCACATG
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
73 36 0.32
74 10 0.09
75 15 0.13
76 53 0.46
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (74 bp):
AATTTCTATTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTA
Found at i:1476 original size:14 final size:14
Alignment explanation
Indices: 1457--1484 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1447 CTGAGGTCTT
1457 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
1471 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
1485 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:1598 original size:74 final size:73
Alignment explanation
Indices: 1491--1714 Score: 322
Period size: 74 Copynumber: 3.0 Consensus size: 73
1481 GTTCGTAAAA
*
1491 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATTTTT-AATTT
*
1556 TTGTTTTTC
65 CTGTTTTTC
* * *
1565 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATTTTTAATTTC
*
1630 TGTTTGTC
66 TGTTTTTC
* * * *
1638 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTATTTTTAATT
*
1703 TCTGCTTTTC
64 TCTGTTTTTC
1713 AA
1 AA
1715 TTTCTGTTTT
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
73 50 0.38
74 55 0.41
75 28 0.21
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATTTTTAATTTC
TGTTTTTC
Found at i:1655 original size:477 final size:475
Alignment explanation
Indices: 521--1722 Score: 2009
Period size: 477 Copynumber: 2.5 Consensus size: 475
511 TCTGTTTGTC
* *
521 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGCTGAGGTA-ATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCACACGCTGAGGTATTTTTAAATT
* * * *
584 TCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT
65 TTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGG-
* * *
649 CTTTTCAATTTTTGTTCTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGA
127 ----T-AA-------T-TTCAATTTCTGTTTGT---CAAAAATTAACTCATATTGCGAGAGGTGA
714 GTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
176 GTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
779 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTCTGT
241 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTCTGT
* *
844 TTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
306 TTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
909 TTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAG
371 TTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAG
974 GTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
436 GTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
1014 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTTAAATTT
*
1079 TTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAAT
66 TTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
1144 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
1209 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGT-AAAAAATCAACTCATATTGCGAGA
196 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGA
*
1273 GGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTTCAAAAAAATCAACTC
261 GGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTAAATTTCT-GTTTTC--AAAAATCAACTC
1338 ATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
322 ATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
1403 ATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTG
387 ATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTG
1468 TTCTTCAATTTCTGTTCGT-AAAA
452 TTCTTCAATTTCTGTTCGTAAAAA
1491 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTTAAATTT
1556 TTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 TTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
*
1621 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
*
1686 CTGAGGTCTTTTTAATTTCTGCTT-TTCAATTTCTGTT
196 CTGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCTGTT
1723 TTTTCAATTT
Statistics
Matches: 686, Mismatches: 16, Indels: 30
0.94 0.02 0.04
Matches are distributed among these distances:
474 55 0.08
475 99 0.14
476 5 0.01
477 230 0.34
478 176 0.26
479 1 0.00
486 2 0.00
487 1 0.00
492 12 0.02
493 51 0.07
494 54 0.08
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (475 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTTAAATTT
TTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATTTCTGTTTTCAAAAATCAACTCATAT
TGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTA
ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCT
TCAATTTCTGTTCGTAAAAA
Found at i:1716 original size:14 final size:14
Alignment explanation
Indices: 1693--1743 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1683 ATGCTGAGGT
*
1693 CTTTTTAATTTCTG
1 CTTTTCAATTTCTG
1707 CTTTTCAATTTCTG
1 CTTTTCAATTTCTG
*
1721 TTTTTTCAATTTCTG
1 -CTTTTCAATTTCTG
*
1736 TTTTTCAA
1 CTTTTCAA
1744 AAATCAACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.16, C:0.16, G:0.06, T:0.63
Consensus pattern (14 bp):
CTTTTCAATTTCTG
Found at i:1728 original size:15 final size:15
Alignment explanation
Indices: 1694--1740 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
1684 TGCTGAGGTC
1694 TTTTT-AATTTCTG-
1 TTTTTCAATTTCTGT
*
1707 CTTTTCAATTTCTGT
1 TTTTTCAATTTCTGT
1722 TTTTTCAATTTCTGT
1 TTTTTCAATTTCTGT
1737 TTTT
1 TTTT
1741 CAAAAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 4 0.13
14 8 0.27
15 18 0.60
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTTCAATTTCTGT
Found at i:2526 original size:30 final size:30
Alignment explanation
Indices: 2490--2604 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
2480 ACTTTTCTCA
* *
2490 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACATTTTCCACCACCAACTCC
2520 ACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACACATTTTCCACCACCAACTCC
* *
2550 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACATTTTCCACCACCAACTCC
*
2580 ACTAGCCACACATTCTCCACCACCA
1 ACTAGCCACACATTTTCCACCACCA
2605 CTTGTACCTA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.27, C:0.48, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACATTTTCCACCACCAACTCC
Found at i:2555 original size:60 final size:60
Alignment explanation
Indices: 2490--2604 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
2480 ACTTTTCTCA
*
2490 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTCTCCACCACCAACTCC
*
2550 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACATTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTCTCCACCACCA
2605 CTTGTACCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.27, C:0.48, G:0.03, T:0.22
Consensus pattern (60 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTCTCCACCACCAACTCC
Found at i:3222 original size:25 final size:25
Alignment explanation
Indices: 3101--3313 Score: 120
Period size: 25 Copynumber: 8.5 Consensus size: 25
3091 TTGTTATTAT
*
3101 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATACTATATTATGTA
* *
3125 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATACTATATTATGTA
* * *
3147 TACATTTTAAATTCTATATTACGTGTA
1 TATATTTTTAATACTATATTA--TGTA
* *
3174 TATATATATTTTATACTATTTTATGTA
1 TATAT-T-TTTAATACTATATTATGTA
* * *
3201 TATATCTTTAATATTATATTATTTATA
1 TATATTTTTAATACTATATTA--TGTA
** *
3228 TATATTTTTACATGTTATCTTATGTA
1 TATATTTTTA-ATACTATATTATGTA
*
3254 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
* *
3276 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
3301 CATATTTTTAATA
1 TATATTTTTAATA
3314 TTATCACGTA
Statistics
Matches: 143, Mismatches: 30, Indels: 31
0.70 0.15 0.15
Matches are distributed among these distances:
21 2 0.01
22 27 0.19
23 12 0.08
24 9 0.06
25 39 0.27
26 8 0.06
27 25 0.17
28 10 0.07
29 11 0.08
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:3489 original size:16 final size:15
Alignment explanation
Indices: 3465--3512 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3455 TAATTATTAT
*
3465 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3481 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3496 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3512 T
1 T
3513 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3500 original size:7 final size:8
Alignment explanation
Indices: 3465--3516 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3455 TAATTATTAT
*
3465 TATTCTAA
1 TATTTTAA
*
3473 TATTTTGA
1 TATTTTAA
3481 TATTTTAA
1 TATTTTAA
3489 TATTTT-A
1 TATTTTAA
3496 TATTTTATA
1 TATTTTA-A
*
3505 TATTTTAT
1 TATTTTAA
3513 TATT
1 TATT
3517 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:9381 original size:6 final size:6
Alignment explanation
Indices: 9372--9397 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9362 TCACCACCAG
9372 CAGCAT CAGCAT CAGCAT CAGCAT CA
1 CAGCAT CAGCAT CAGCAT CAGCAT CA
9398 ACAACAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (6 bp):
CAGCAT
Found at i:11632 original size:15 final size:15
Alignment explanation
Indices: 11571--11633 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
11561 TAACCTTTTA
*
11571 TATTA-TAAAACATT
1 TATTATTAAAATATT
*
11585 TATTATTAATATATT
1 TATTATTAAAATATT
*
11600 TATAATTGTACTAAATATT
1 TATTA-T-TA--AAATATT
11619 TATTATTAAAATATT
1 TATTATTAAAATATT
11634 AATATTGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 5 0.13
15 18 0.46
16 1 0.03
17 4 0.10
18 1 0.03
19 10 0.26
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTATTAAAATATT
Found at i:11754 original size:22 final size:22
Alignment explanation
Indices: 11714--11769 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
11704 AATAAAATTG
*
11714 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
11734 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
11756 TATTAATAATTTAT
1 AAATAATAAATTAT
11770 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:13080 original size:12 final size:12
Alignment explanation
Indices: 13065--13092 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13055 TTTTTATTTA
13065 TTTATTTTGAAT
1 TTTATTTTGAAT
13077 TTTATTTTGAAT
1 TTTATTTTGAAT
13089 TTTA
1 TTTA
13093 GTTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (12 bp):
TTTATTTTGAAT
Found at i:13750 original size:26 final size:26
Alignment explanation
Indices: 13720--13785 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
13710 GGAATGTATG
13720 TTTATCTCTTGTGATTTAGCAATGGA
1 TTTATCTCTTGTGATTTAGCAATGGA
13746 TTTATCTCTTGTGATTTAGCAATGGA
1 TTTATCTCTTGTGATTTAGCAATGGA
13772 TTTATCTCTTGTGA
1 TTTATCTCTTGTGA
13786 AGGCCCAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.48
Consensus pattern (26 bp):
TTTATCTCTTGTGATTTAGCAATGGA
Found at i:13966 original size:265 final size:261
Alignment explanation
Indices: 13494--13988 Score: 954
Period size: 265 Copynumber: 1.9 Consensus size: 261
13484 TTATTTGTAC
13494 TGTGATTTAGCAATGGATTTATCTCTTGTGAAGGCCCAGTAAACCAATAGACGTAGGTTTACACC
1 TGTGATTTAGCAATGGATTTATCTCTTGTGAAGGCCCAGTAAACCAATAGACGTAGGTTTACACC
13559 AAACTACATAAAAATTTGTTAGTGTTCTTTCCTTTTTTTTTTTTTGTTTGTCACCATAGCTTGCT
66 AAACTACATAAAAATTTGTTAGTGTTCTTTCCTTTTTTTTTTTTTGTTTGTCACCATAGCTTGCT
13624 TCGACAAGTACACCCAATAAGTTCATACCAGACACACTTTTAGGGAGGACTAGATAATAAGAAAA
131 TCGACAAGTACACCCAATAAGTTCATACCAGACACACTTTTAGGGAGGACTAGATAATAAGAAAA
13689 AAATGAATTTAGTTAATTAGAGGAATGTATGTTTATCTCTTGTGATTTAGCAATGGATTTATCTC
196 AAATGAATTTAGTTAATTAGAGGAATGTATGTTTATCTCTTGTGATTTAGCAATGGATTTATCTC
13754 T
261 T
13755 TGTGATTTAGCAATGGATTTATCTCTTGTGAAGGCCCAGTAAACCAATAGACGTAGGTTTACACC
1 TGTGATTTAGCAATGGATTTATCTCTTGTGAAGGCCCAGTAAACCAATAGACGTAGGTTTACACC
13820 AAACTACATAAAAATTTGTTAGTGTTCTTTCCTTTTTCTTTTTTTTTTTGTTTGTCACCATAGCT
66 AAACTACATAAAAATTTGTTAGTGTTCTTTCC---TT-TTTTTTTTTTTGTTTGTCACCATAGCT
13885 TGCTTCGACAAGTACACCCAATAAGTTCATACCAGACACACTTTTAGGGAGGACTAGATAATAAG
127 TGCTTCGACAAGTACACCCAATAAGTTCATACCAGACACACTTTTAGGGAGGACTAGATAATAAG
13950 AAAAAAATGAATTTAGTTAATTAGAGGAATGTATGTTTA
192 AAAAAAATGAATTTAGTTAATTAGAGGAATGTATGTTTA
13989 AGCAAGAAAG
Statistics
Matches: 230, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
261 97 0.42
264 2 0.01
265 131 0.57
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (261 bp):
TGTGATTTAGCAATGGATTTATCTCTTGTGAAGGCCCAGTAAACCAATAGACGTAGGTTTACACC
AAACTACATAAAAATTTGTTAGTGTTCTTTCCTTTTTTTTTTTTTGTTTGTCACCATAGCTTGCT
TCGACAAGTACACCCAATAAGTTCATACCAGACACACTTTTAGGGAGGACTAGATAATAAGAAAA
AAATGAATTTAGTTAATTAGAGGAATGTATGTTTATCTCTTGTGATTTAGCAATGGATTTATCTC
T
Found at i:14954 original size:215 final size:215
Alignment explanation
Indices: 14583--15013 Score: 713
Period size: 215 Copynumber: 2.0 Consensus size: 215
14573 TGCCTTCTTG
* * *
14583 AAAACTCGAGATTTACGGCGGTCGGTGGTCCCGACATGCTCTACGATGTAAATGGAAGCCCTTTT
1 AAAACTCGAGATTTACGGCGGTCGATGGTCCCGACATGCTCCACGATGTAAATGGAAGACCTTTT
* * *
14648 GGACCCTTCGGTCTTGAGTTCTCCTTGATAACAGGCTTGTAGGTTGTGAGTACAACAACTTGGGA
66 GGACCCTTCGATCTTGACTTCTCCTTGATAACAGGCTTGTAGGTCGTGAGTACAACAACTTGGGA
* * *
14713 TTGTGGTTCTCGTTTTCTCTCATCATCCCACTGCAGTTTATGACAACAAATGGAAAGTGGTCAAA
131 TTGTGGTTCTCGTTTTCTCTCATCATCCCACTGCAGCTTACGACAACAAATGGAAAGTAGTCAAA
14778 CTAGGGTTTGTCTCCTCTCA
196 CTAGGGTTTGTCTCCTCTCA
*
14798 AAAACTCGAGATTTATGGCGGTCGATGG-CCTCGACATGCTCCACGATGTAAATGGCAA-ACCTT
1 AAAACTCGAGATTTACGGCGGTCGATGGTCC-CGACATGCTCCACGATGTAAATGG-AAGACCTT
14861 TTGGACCCTTCGATCTTGACTTCTCCTTGATAACAGGCTTGTAGGTCGTGAGTACAACAACTTGG
64 TTGGACCCTTCGATCTTGACTTCTCCTTGATAACAGGCTTGTAGGTCGTGAGTACAACAACTTGG
* * *
14926 GATTGTGGTTCTTGTTTTCTCTCATCATCCCATTGCAGCTTACGACAACAAATGGAAAGTAGTCG
129 GATTGTGGTTCTCGTTTTCTCTCATCATCCCACTGCAGCTTACGACAACAAATGGAAAGTAGTCA
14991 AACTAGGGTTTGTCTCCTCTCA
194 AACTAGGGTTTGTCTCCTCTCA
15013 A
1 A
15014 GTTGGGCTAG
Statistics
Matches: 201, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
214 2 0.01
215 197 0.98
216 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (215 bp):
AAAACTCGAGATTTACGGCGGTCGATGGTCCCGACATGCTCCACGATGTAAATGGAAGACCTTTT
GGACCCTTCGATCTTGACTTCTCCTTGATAACAGGCTTGTAGGTCGTGAGTACAACAACTTGGGA
TTGTGGTTCTCGTTTTCTCTCATCATCCCACTGCAGCTTACGACAACAAATGGAAAGTAGTCAAA
CTAGGGTTTGTCTCCTCTCA
Found at i:21484 original size:6 final size:6
Alignment explanation
Indices: 21473--21500 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21463 ACAATTTTAC
21473 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
21501 GCCCGTTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:21774 original size:19 final size:20
Alignment explanation
Indices: 21739--21776 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21729 TCATATTTCA
21739 ATATTTAAAATATAATTTTT
1 ATATTTAAAATATAATTTTT
*
21759 ATATTTAAATTA-AATTTT
1 ATATTTAAAATATAATTTT
21777 ACAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTTAAAATATAATTTTT
Found at i:24020 original size:12 final size:12
Alignment explanation
Indices: 24003--24027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23993 AAAATTTATT
24003 TGATAGGTAATA
1 TGATAGGTAATA
24015 TGATAGGTAATA
1 TGATAGGTAATA
24027 T
1 T
24028 TAATTTAGTC
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:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TGATAGGTAATA
Found at i:26878 original size:11 final size:11
Alignment explanation
Indices: 26864--26904 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
26854 TGTTTTCTCC
26864 CTATTTTGCTA
1 CTATTTTGCTA
*
26875 CTATTTTACTA
1 CTATTTTGCTA
* *
26886 TTATATTGCTA
1 CTATTTTGCTA
26897 CTATTTTG
1 CTATTTTG
26905 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:28347 original size:3 final size:3
Alignment explanation
Indices: 28339--28364 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
28329 AAGTAAAAGA
28339 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
28365 ATGTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:29433 original size:29 final size:31
Alignment explanation
Indices: 29367--29434 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 31
29357 TGTATTACTG
*
29367 TGAAAATTG-ATCGAAATAATAAATTATAAT
1 TGAAAATTGAATCGAAATAAGAAATTATAAT
* * *
29397 T-AATATTGAATCGAAAT-GGAAATTGT-AT
1 TGAAAATTGAATCGAAATAAGAAATTATAAT
29425 TGAAAATTGA
1 TGAAAATTGA
29435 TTTGAATACC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.10
29 19 0.61
30 9 0.29
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.34
Consensus pattern (31 bp):
TGAAAATTGAATCGAAATAAGAAATTATAAT
Found at i:29554 original size:6 final size:6
Alignment explanation
Indices: 29543--29576 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
29533 TATGTGCCGA
* *
29543 TTACTG TTACTG TTACTA TTACCG TTACTG TTAC
1 TTACTG TTACTG TTACTG TTACTG TTACTG TTAC
29577 CGATTCGGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (6 bp):
TTACTG
Found at i:29569 original size:18 final size:18
Alignment explanation
Indices: 29542--29576 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29532 TTATGTGCCG
*
29542 ATTACTGTTACTGTTACT
1 ATTACCGTTACTGTTACT
29560 ATTACCGTTACTGTTAC
1 ATTACCGTTACTGTTAC
29577 CGATTCGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (18 bp):
ATTACCGTTACTGTTACT
Found at i:29637 original size:35 final size:35
Alignment explanation
Indices: 29587--29655 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
29577 CGATTCGGCA
29587 CTTTGTGTGTCGAATACTGTTACTGTTACCGTTAT
1 CTTTGTGTGTCGAATACTGTTACTGTTACCGTTAT
* * *
29622 CTTTGTGTGTTGAATACTGTTATTGTTACTGTTA
1 CTTTGTGTGTCGAATACTGTTACTGTTACCGTTA
29656 CTACTACCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.49
Consensus pattern (35 bp):
CTTTGTGTGTCGAATACTGTTACTGTTACCGTTAT
Found at i:30316 original size:9 final size:9
Alignment explanation
Indices: 30302--30329 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30292 GTATGTGAAA
30302 TGAATTGGT
1 TGAATTGGT
30311 TGAATTGGT
1 TGAATTGGT
30320 TGAATTGGT
1 TGAATTGGT
30329 T
1 T
30330 ATGTTTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.46
Consensus pattern (9 bp):
TGAATTGGT
Found at i:40541 original size:15 final size:15
Alignment explanation
Indices: 40521--40551 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
40511 CCATATCTTA
40521 GAGATTTTGATCCTC
1 GAGATTTTGATCCTC
40536 GAGATTTTGATCCTC
1 GAGATTTTGATCCTC
40551 G
1 G
40552 GTAGCGGTTC
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:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (15 bp):
GAGATTTTGATCCTC
Found at i:49019 original size:19 final size:21
Alignment explanation
Indices: 48985--49028 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
48975 TAGGTGCCTG
48985 CTTCAAGCCATATAGAGCTT-T
1 CTTCAAGCCATATAGA-CTTAT
49006 CTTC-AGCC-TATAGACTTAT
1 CTTCAAGCCATATAGACTTAT
49025 CTTC
1 CTTC
49029 TTCTTCTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.14
19 11 0.50
20 4 0.18
21 4 0.18
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.36
Consensus pattern (21 bp):
CTTCAAGCCATATAGACTTAT
Found at i:54290 original size:51 final size:51
Alignment explanation
Indices: 54214--54318 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
54204 CGAATTATGT
54214 TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
1 TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
54265 TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
1 TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
54316 TAA
1 TAA
54319 TTCTTGTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.19, C:0.25, G:0.10, T:0.47
Consensus pattern (51 bp):
TAACTAAATTACTGCGTTGATCTTCTTACTCTCTTTGCTATCTCGTTTTCC
Found at i:57367 original size:21 final size:23
Alignment explanation
Indices: 57341--57382 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
57331 GACTAATTTT
57341 TTATGTT-TATA-ATATATTATA
1 TTATGTTATATATATATATTATA
57362 TTATGTTATATATATATATTA
1 TTATGTTATATATATATATTA
57383 AAATTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TTATGTTATATATATATATTATA
Found at i:60415 original size:30 final size:30
Alignment explanation
Indices: 60379--60438 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
60369 CAGAACTAGA
60379 ACAATTCTCTGTTGGTGTACTCGAATTATC
1 ACAATTCTCTGTTGGTGTACTCGAATTATC
60409 ACAATTCTCTGTTGGTGTACTCGAATTATC
1 ACAATTCTCTGTTGGTGTACTCGAATTATC
60439 CTCTAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (30 bp):
ACAATTCTCTGTTGGTGTACTCGAATTATC
Found at i:66595 original size:30 final size:30
Alignment explanation
Indices: 66498--66597 Score: 75
Period size: 30 Copynumber: 3.3 Consensus size: 30
66488 CGTCAATAAT
66498 ATATTAAA-TATTTTTAAATTAAA-AATTA
1 ATATTAAATTATTTTTAAATTAAATAATTA
* * * *
66526 GTTTTTAGAAAATATTTTTAAAATTACTATACA--A
1 -ATATT--AAATTATTTTT-AAATTA-AATA-ATTA
66560 A-ATTAAATTATTTTTAAATTAAATAATTA
1 ATATTAAATTATTTTTAAATTAAATAATTA
66589 ATATTAAAT
1 ATATTAAAT
66598 ACAATTAACC
Statistics
Matches: 54, Mismatches: 7, Indels: 19
0.68 0.09 0.24
Matches are distributed among these distances:
27 1 0.02
28 3 0.06
29 11 0.20
30 17 0.31
31 3 0.06
32 9 0.17
33 6 0.11
34 2 0.04
35 1 0.02
36 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (30 bp):
ATATTAAATTATTTTTAAATTAAATAATTA
Found at i:71586 original size:16 final size:16
Alignment explanation
Indices: 71561--71609 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
71551 AGTTCAAAGG
71561 TTTA-TTTATTTTTGT
1 TTTATTTTATTTTTGT
71576 TTT-TGTTTATTTATT-T
1 TTTAT-TTTATTT-TTGT
71592 TTTATTTTA-TTTTGT
1 TTTATTTTATTTTTGT
71607 TTT
1 TTT
71610 GAACCTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 15 0.52
17 3 0.10
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (16 bp):
TTTATTTTATTTTTGT
Found at i:72271 original size:3 final size:3
Alignment explanation
Indices: 72263--72444 Score: 118
Period size: 3 Copynumber: 59.7 Consensus size: 3
72253 ATATAAGATG
* * *
72263 TTA TTA TTA CTC TTA TT- TTCA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
72308 TTA CTA TTA TTA TTT TTCA TGTA TATA TTA GTA TT- TATA TTA TTG CTA
1 TTA TTA TTA TTA TTA TT-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA
* * * * * * * * *
72356 TTA TTA CTA TTG TTA ATA TTC TTA TTA TTA CTA TCA TTT TTA TTC TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
72404 TTA TTA TTTA TTA TTA TCA ATA -TA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
72445 GTTGTTGTTG
Statistics
Matches: 134, Mismatches: 37, Indels: 16
0.72 0.20 0.09
Matches are distributed among these distances:
2 5 0.04
3 116 0.87
4 12 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:72449 original size:3 final size:3
Alignment explanation
Indices: 72443--72477 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
72433 ATTATTATTA
*
72443 TTG TTG TTG TTG TTG ATG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
72478 ATTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.31, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:75784 original size:22 final size:22
Alignment explanation
Indices: 75756--75808 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
75746 TAATACCAAA
75756 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
75778 CCCCATACCTCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
75800 TCCCATACC
1 CCCCATACC
75809 GTCTGACACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:76913 original size:16 final size:16
Alignment explanation
Indices: 76894--76924 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76884 TATTGTTATC
*
76894 TATTTATTTATATTTA
1 TATTTATTTAAATTTA
76910 TATTTATTTAAATTT
1 TATTTATTTAAATTT
76925 TCGGTACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATTTAAATTTA
Found at i:83427 original size:46 final size:46
Alignment explanation
Indices: 83251--83849 Score: 228
Period size: 46 Copynumber: 13.4 Consensus size: 46
83241 TTGAAGTTAT
* * * * *
83251 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * **
83297 CAGATTTTACCTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * *
83339 -ATAACTCTATCTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTG
1 CAGATCT-TACCTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGG
* * * *
83385 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * * **
83431 TAGATTTTACCTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * **
83473 -ATAACTCTATCTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTA
1 CAGATCT-TACCTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGG
* * * *
83519 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * **
83565 CAGATTTTACCTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * *
83607 -ATAACTCTATCTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTG
1 CAGATCT-TACCTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGG
** * * *
83653 CAGATCTCGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * **
83699 CAGATTTTACCTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * *
83741 -ATAACTCTATCTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTG
1 CAGATCT-TACCTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGG
* * * * *
83787 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
*
83833 CAGATTTTACCTCCCTG
1 CAGATCTTACCTCCCTG
83850 ACTACAATGG
Statistics
Matches: 384, Mismatches: 129, Indels: 80
0.65 0.22 0.13
Matches are distributed among these distances:
41 12 0.03
42 40 0.10
43 56 0.15
44 4 0.01
45 75 0.20
46 181 0.47
47 16 0.04
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (46 bp):
CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
Found at i:83481 original size:134 final size:134
Alignment explanation
Indices: 83251--83928 Score: 1257
Period size: 134 Copynumber: 5.1 Consensus size: 134
83241 TTGAAGTTAT
*
83251 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
83316 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
83381 ATTG
131 ATTG
*
83385 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
83450 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
*
83515 ATTA
131 ATTG
83519 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
83584 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
83649 ATTG
131 ATTG
*
83653 CAGATCTCGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
83718 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
83783 ATTG
131 ATTG
*
83787 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
* * * *
83852 TACAATGGAGTACATTGAAGCCGATGACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
*
83917 ATTT
131 ATTG
*
83921 CAGGTCTT
1 CAGATCTT
83929 ATCTCCCTAA
Statistics
Matches: 530, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 530 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (134 bp):
CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
ATTG
Found at i:83515 original size:88 final size:89
Alignment explanation
Indices: 83418--83784 Score: 203
Period size: 88 Copynumber: 4.1 Consensus size: 89
83408 GCAGCGAAGC
* **
83418 AGATCGAAGATGGTAGATTTTACCTCCCTG-ACTACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATTGAAGATGACAGATTTTACCTCCCTGTACTACAGTGGAGTACATTGAAGCCGATAACTCTA
*
83482 TCTCCCTGTATCTGGCAGTGGAAT
66 CCTCCCTGTATCTGGCAGTGGAAT
* * * * * * * * * * ** ** *
83506 AGATTGAAGATTACAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATT
1 AGATTGAAGATGACAGATTTTACCTCCCTGTACTA--CAGTGGAGTACATTGAAGCCGATA-ACT
* * *
83571 TTACCTCCCTG-A-CT-ACAGTGGAGT
63 CTACCTCCCTGTATCTGGCAGTGGAAT
* ** * * * * * * * ** * *
83595 ACATTGAAGCCGATA-ACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATC
1 AGATTGAAGATGACAGATTTTACCTCCCTGTA-CT-ACAGTGGAGTACATTGAAG-CCG-ATAAC
* * * *
83659 TC-GCCTTCCTGTAT-TAGGCAG-CGAAGC
62 TCTACCTCCCTGTATCT-GGCAGTGGAA-T
* *
83686 AGATCGAAGATGGCAGATTTTACCTCCCTG-ACTACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATTGAAGATGACAGATTTTACCTCCCTGTACTACAGTGGAGTACATTGAAGCCGATAACTCTA
*
83750 TCTCCCTGTATCTGGCAGTGGAAT
66 CCTCCCTGTATCTGGCAGTGGAAT
83774 AGATTGAAGAT
1 AGATTGAAGAT
83785 TGCAGATCTT
Statistics
Matches: 188, Mismatches: 74, Indels: 34
0.64 0.25 0.11
Matches are distributed among these distances:
87 5 0.03
88 78 0.41
89 47 0.25
90 7 0.04
91 29 0.15
92 22 0.12
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (89 bp):
AGATTGAAGATGACAGATTTTACCTCCCTGTACTACAGTGGAGTACATTGAAGCCGATAACTCTA
CCTCCCTGTATCTGGCAGTGGAAT
Found at i:84010 original size:43 final size:40
Alignment explanation
Indices: 83925--84010 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
83915 AGATTTCAGG
* * * *
83925 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCCAA
1 TCTTATCTCCCTAAATAGTAGTGGAGCAGATAAAACCAAA
83965 TCTTATCTCCCTAAATAGTAGTGGAGCAGACTAAAAACACAAA
1 TCTTATCTCCCTAAATAGTAGTGGAGCAGA-T-AAAAC-CAAA
84008 TCT
1 TCT
84011 CACCCCCATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
40 29 0.74
41 1 0.03
42 3 0.08
43 6 0.15
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
TCTTATCTCCCTAAATAGTAGTGGAGCAGATAAAACCAAA
Found at i:84290 original size:22 final size:22
Alignment explanation
Indices: 84262--84314 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
84252 TAATACCAAA
84262 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
84284 CCCCATACCTCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
84306 TCCCATACC
1 CCCCATACC
84315 GTCTGACACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:85418 original size:16 final size:16
Alignment explanation
Indices: 85399--85429 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85389 TATTGTTATC
*
85399 TATTTATTTATATTTA
1 TATTTATTTAAATTTA
85415 TATTTATTTAAATTT
1 TATTTATTTAAATTT
85430 TCGGTACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATTTAAATTTA
Found at i:89526 original size:19 final size:19
Alignment explanation
Indices: 89502--89560 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
89492 ACTTTATATG
*
89502 CACACATGATTTCACTAAT
1 CACACATGATTCCACTAAT
*
89521 CACACATGGTTCCACTAAT
1 CACACATGATTCCACTAAT
* **
89540 CAGACACAATTCCACTAAT
1 CACACATGATTCCACTAAT
89559 CA
1 CA
89561 AACACCATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.31, G:0.07, T:0.25
Consensus pattern (19 bp):
CACACATGATTCCACTAAT
Found at i:90945 original size:3 final size:3
Alignment explanation
Indices: 90939--90985 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
90929 ATTCAACTGC
90939 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
90986 GATGATGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.