Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000754.1 Hibiscus syriacus cultivar Beakdansim tig00001457_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 316703
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1133 original size:29 final size:29
Alignment explanation
Indices: 1081--1160 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
1071 TAATTCACTT
*
1081 ATCACATTTCTCATGTCATATTCTCATATG
1 ATCACA-TACTCATGTCATATTCTCATATG
*
1111 ATCACATACTCATGTCACT-TTCTCATGTG
1 ATCACATACTCATGTCA-TATTCTCATATG
*
1140 GTCACATAGCTCATGTCATAT
1 ATCACATA-CTCATGTCATAT
1161 AATCTCTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
29 27 0.61
30 17 0.39
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (29 bp):
ATCACATACTCATGTCATATTCTCATATG
Found at i:1829 original size:19 final size:20
Alignment explanation
Indices: 1792--1830 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1782 CGATACTACT
* *
1792 AACCCAAAATCCATTCCTTA
1 AACCAAAAATCCATCCCTTA
1812 AACCAAAAAT-CATCCCTTA
1 AACCAAAAATCCATCCCTTA
1831 CCCACTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (20 bp):
AACCAAAAATCCATCCCTTA
Found at i:5580 original size:21 final size:21
Alignment explanation
Indices: 5554--5615 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
5544 TTGGGCAAGG
*
5554 GGTACCGATACCCCATGAATA
1 GGTACCAATACCCCATGAATA
5575 GGTACCAATACCCCATGAATA
1 GGTACCAATACCCCATGAATA
*
5596 TGTACCAATA-CCC-TGAATA
1 GGTACCAATACCCCATGAATA
5615 G
1 G
5616 TATGATACCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 6 0.16
20 3 0.08
21 29 0.76
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.21
Consensus pattern (21 bp):
GGTACCAATACCCCATGAATA
Found at i:17732 original size:13 final size:13
Alignment explanation
Indices: 17716--17753 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
17706 AAATCATATT
*
17716 AAAAATACATACA
1 AAAAATACAAACA
17729 AAAAATA-AAACA
1 AAAAATACAAACA
*
17741 AAAATTACAAACA
1 AAAAATACAAACA
17754 TACATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATACAAACA
Found at i:20010 original size:26 final size:26
Alignment explanation
Indices: 19948--19999 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
19938 ATAGGTGTCG
*
19948 CCACTAAAATAATTGTTAATAAATTA
1 CCACTAAAATAATTGTTAATAAAATA
19974 CCACTAAAATAATTGTTAATAAAATA
1 CCACTAAAATAATTGTTAATAAAATA
20000 TCATTATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (26 bp):
CCACTAAAATAATTGTTAATAAAATA
Found at i:26778 original size:59 final size:59
Alignment explanation
Indices: 26652--26778 Score: 141
Period size: 59 Copynumber: 2.1 Consensus size: 59
26642 AAATGGTCCA
* * * * **
26652 TTGACTATAAGATATTGTTTTGTTGAGTCTCTTGACTATTAAAAGTTACAAAATTTTTC
1 TTGACTATAAGATATTGCTTTATTGAGTCTCATGACTATTAAAAGTTACAAAATGTCAC
* *
26711 TCTAACTATAAGGA-GTTGCTTTATTGAGTC-CATGACTATTAAAAGTTACAAAATAGTCAC
1 T-TGACTATAA-GATATTGCTTTATTGAGTCTCATGACTATTAAAAGTTACAAAAT-GTCAC
26771 TTGACTAT
1 TTGACTAT
26779 TCATTATGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
59 30 0.54
60 24 0.43
61 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (59 bp):
TTGACTATAAGATATTGCTTTATTGAGTCTCATGACTATTAAAAGTTACAAAATGTCAC
Found at i:27093 original size:59 final size:61
Alignment explanation
Indices: 26985--27113 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 61
26975 TCGAGTGAAA
* * *
26985 ATTTTGTA-ACTTTTAATAGTCAGAGGATTCAACAAAGCAATTCCCTATAGTCGA-AGATC
1 ATTTTGTACACTTTTAATAGTCAGAGGACTCAACAAAGCAATTCCCTATAGTCAATAGACC
* * *
27044 ATTTTGTACA-TTTTAATAGT-TGAGGGACTCAACAAAGTAATAT-CTTATAGTCAATAGACC
1 ATTTTGTACACTTTTAATAGTCAGA-GGACTCAACAAAGCAAT-TCCCTATAGTCAATAGACC
27104 ATTTGTGTAC
1 ATTT-TGTAC
27114 TTTACCCTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
58 2 0.03
59 42 0.71
60 10 0.17
61 5 0.08
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (61 bp):
ATTTTGTACACTTTTAATAGTCAGAGGACTCAACAAAGCAATTCCCTATAGTCAATAGACC
Found at i:30993 original size:3 final size:3
Alignment explanation
Indices: 30985--31053 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
30975 AAATAAAATG
30985 TAA TAA TAA TAA TAA TAA TAA T-A 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
31032 TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
31054 TAAACTTTGG
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:31448 original size:134 final size:134
Alignment explanation
Indices: 31208--31976 Score: 987
Period size: 134 Copynumber: 5.7 Consensus size: 134
31198 ACTGTCACTT
* * * *
31208 AGGGAATATCAGATCT-GGGGATGTTGATCCATTCCGCTGACATTGAGGGAAGATTGAATCGGGG
1 AGGGAATATCATATCTGGGGGA-GTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGG
31272 CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAAAGATATATGTTCCTCTTCT
65 CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAAAGATATATGTTCCTCTTCT
31337 TCTGA
130 TCTGA
* *
31342 AGGGAATATCATAT-TGAGGGGAGTTGATCAATTCCGCTGTCACTCAAGGAAGATTGAATCGGGG
1 AGGGAATATCATATCTG-GGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGG
* * * * *
31406 TAGACTTGTTTCGCTGTCAATCAGGGAGTATCAAATCTTGAAAG--AGATGGATTTGTTCCTCTT
65 CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAAAGAT--ATATGTTCCTCTT
31469 CTTCTGA
128 CTTCTGA
* * *
31476 AGGGAATATCATATCTGAGGGAGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATAGGGGC
1 AGGGAATATCATATCTGGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGC
* * *
31541 AGACTTGTTCCGTTGTCACTCAGGGAATATCAAATCTAGAAA-AAGAGAGATATGTT-CTACTTC
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAA-AGATATATGTTCCT-CTTC
31604 TTCTGA
129 TTCTGA
* ** * *
31610 AGGGAATATCATATCTGGAGGAGTTGATCCATTTTGTTGTCACTCAGGGAAGATTGAATCGGGAC
1 AGGGAATATCATATCTGGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGC
* * * * ** * * *
31675 ATACTTGTTCCGCTGTCACTCAAGGAATATCAAATCTAGAAAGAGAGGGATTTTTTCCGCTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAAAGATATATGTTCCTCTTCTT
31740 CTGA
131 CTGA
* * *
31744 AGGGAATATCAGAGCTGGGGG-GTTTATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGC
1 AGGGAATATCATATCTGGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGC
* * * * *
31808 ATACTTGTTCCACTGTCACTCAGGGAATATTAAATCTTGAAAGAGA-ATGATATGTTCCGCTTCT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAAAGAT-ATATGTTCCTCTTCT
31872 TCTGA
130 TCTGA
** * *
31877 AGGGAATATCATATCTGGGGGAGTTGATCCATTTTGCTGTCACTCAGGGAAGATTAAATCGGGGT
1 AGGGAATATCATATCTGGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGC
* * * **
31942 AGACTTGTTTCACTATTTCTCAGGGAATATCAAAT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAAT
31977 TCGCAAATTA
Statistics
Matches: 553, Mismatches: 69, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
132 4 0.01
133 120 0.22
134 417 0.75
135 9 0.02
136 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (134 bp):
AGGGAATATCATATCTGGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGC
AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAAAGATATATGTTCCTCTTCTT
CTGA
Found at i:31971 original size:267 final size:268
Alignment explanation
Indices: 31208--31976 Score: 1114
Period size: 268 Copynumber: 2.9 Consensus size: 268
31198 ACTGTCACTT
* * *
31208 AGGGAATATCAGATCTGGGGATGTTGATCCATTCCGCTGACATTGAGGGAAGATTGAATCGGGGC
1 AGGGAATATCAGATCTGGGGA-GTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGC
* *
31273 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAAAGAT-ATATGTTCCTCTTCT
65 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGATGATATGTTCCACTTCT
* ** *
31337 TCTGAAGGGAATATCATAT-TGAGGGGAGTTGATCAATTCCGCTGTCACTCAAGGAAGATTGAAT
130 TCTGAAGGGAATATCATATCTG-GGGGAGTTGATCCATTTTGCTGTCACTCAGGGAAGATTGAAT
* * * * *
31401 CGGGGTAGACTTGTTTCGCTGTCAATCAGGGAGTATCAAATCTTGAAAGAGATGGATTTGTTCCT
194 CGGGGTAGACTTGTTTCGCTGTCACTCAGGGAATATCAAATCTAGAAAGAGAGGGATTTGTTCCG
31466 CTTCTTCTGA
259 CTTCTTCTGA
* * *
31476 AGGGAATATCATATCTGAGGGAGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATAGGGGC
1 AGGGAATATCAGATCTG-GGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGC
* * * *
31541 AGACTTGTTCCGTTGTCACTCAGGGAATATCAAATCTAGAAAAAGAGA-GATATGTTCTACTTCT
65 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGATGATATGTTCCACTTCT
* *
31605 TCTGAAGGGAATATCATATCTGGAGGAGTTGATCCATTTTGTTGTCACTCAGGGAAGATTGAATC
130 TCTGAAGGGAATATCATATCTGGGGGAGTTGATCCATTTTGCTGTCACTCAGGGAAGATTGAATC
** * * * *
31670 GGGACATACTTGTTCCGCTGTCACTCAAGGAATATCAAATCTAGAAAGAGAGGGATTTTTTCCGC
195 GGGGTAGACTTGTTTCGCTGTCACTCAGGGAATATCAAATCTAGAAAGAGAGGGATTTGTTCCGC
31735 TTCTTCTGA
260 TTCTTCTGA
* * *
31744 AGGGAATATCAGAGCTGGGGGGTTTATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGCA
1 AGGGAATATCAGATCTGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGCA
* * * *
31809 TACTTGTTCCACTGTCACTCAGGGAATATTAAATCTTGAAAGAGA-ATGATATGTTCCGCTTCTT
66 GACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGATGATATGTTCCACTTCTT
*
31873 CTGAAGGGAATATCATATCTGGGGGAGTTGATCCATTTTGCTGTCACTCAGGGAAGATTAAATCG
131 CTGAAGGGAATATCATATCTGGGGGAGTTGATCCATTTTGCTGTCACTCAGGGAAGATTGAATCG
* * **
31938 GGGTAGACTTGTTTCACTATTTCTCAGGGAATATCAAAT
196 GGGTAGACTTGTTTCGCTGTCACTCAGGGAATATCAAAT
31977 TCGCAAATTA
Statistics
Matches: 442, Mismatches: 55, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
266 1 0.00
267 190 0.43
268 245 0.55
269 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (268 bp):
AGGGAATATCAGATCTGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGGCA
GACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGATGATATGTTCCACTTCTT
CTGAAGGGAATATCATATCTGGGGGAGTTGATCCATTTTGCTGTCACTCAGGGAAGATTGAATCG
GGGTAGACTTGTTTCGCTGTCACTCAGGGAATATCAAATCTAGAAAGAGAGGGATTTGTTCCGCT
TCTTCTGA
Found at i:40399 original size:12 final size:12
Alignment explanation
Indices: 40382--40423 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
40372 GTAGGATATC
40382 AAACTAAAACTT
1 AAACTAAAACTT
40394 AAACT-AAACGTT
1 AAACTAAAAC-TT
40406 --ACTAAAACTT
1 AAACTAAAACTT
40416 AAACTAAA
1 AAACTAAA
40424 CGTTAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 5 0.19
11 8 0.31
12 13 0.50
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (12 bp):
AAACTAAAACTT
Found at i:40409 original size:22 final size:22
Alignment explanation
Indices: 40384--40428 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
40374 AGGATATCAA
40384 ACTAAAACTTAAACTAAACGTT
1 ACTAAAACTTAAACTAAACGTT
40406 ACTAAAACTTAAACTAAACGTT
1 ACTAAAACTTAAACTAAACGTT
40428 A
1 A
40429 GATATGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (22 bp):
ACTAAAACTTAAACTAAACGTT
Found at i:43557 original size:36 final size:36
Alignment explanation
Indices: 43327--43549 Score: 297
Period size: 36 Copynumber: 6.2 Consensus size: 36
43317 AAAGATGAAC
**
43327 ACTTGAATCGAAAGTG-CGACGCCTT-CTTCCGTTCG
1 ACTTGAATCGAAAGTGTCGTTG-CTTCCTTCCGTTCG
* * *
43362 TCTTGAATCGAAAGTGTCGATGCTTTCTTCCGTTCG
1 ACTTGAATCGAAAGTGTCGTTGCTTCCTTCCGTTCG
* * *
43398 ACTTGAATCGGAAGTGTCGATGCTTCATTCCGTTCG
1 ACTTGAATCGAAAGTGTCGTTGCTTCCTTCCGTTCG
*
43434 ACTTGAATCGAAAGTGACGTTGCTTCCTTCCGTTCG
1 ACTTGAATCGAAAGTGTCGTTGCTTCCTTCCGTTCG
* * * *
43470 ACTTGAATCGGAAGTGTCATTGCTTCTTTCTGTTCG
1 ACTTGAATCGAAAGTGTCGTTGCTTCCTTCCGTTCG
*
43506 ACTTGAATCGAAAGTGTCGTTGCTTCCTTTCGTTCG
1 ACTTGAATCGAAAGTGTCGTTGCTTCCTTCCGTTCG
43542 ACTTGAAT
1 ACTTGAAT
43550 TAGAAGTGCC
Statistics
Matches: 166, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
35 18 0.11
36 148 0.89
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (36 bp):
ACTTGAATCGAAAGTGTCGTTGCTTCCTTCCGTTCG
Found at i:46595 original size:61 final size:61
Alignment explanation
Indices: 46530--46647 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 61
46520 GGAAATAACA
* * *
46530 TTATAGATAATATTTATAAAATAATATAATTAT-AGAAATAATATTAAATAATTGATACCAT
1 TTATAAATAATATTTATAAAATAATATAATTATAAAAAATAATATGAAATAA-TGATACCAT
* *
46591 TTATAAATAATATTTATAAACTAATATATTTATAAAAAATAATATGAAATAATGATA
1 TTATAAATAATATTTATAAAATAATATAATTATAAAAAATAATATGAAATAATGATA
46648 TTAATCCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 35 0.69
62 16 0.31
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (61 bp):
TTATAAATAATATTTATAAAATAATATAATTATAAAAAATAATATGAAATAATGATACCAT
Found at i:46625 original size:29 final size:29
Alignment explanation
Indices: 46530--46649 Score: 93
Period size: 29 Copynumber: 4.0 Consensus size: 29
46520 GGAAATAACA
*
46530 TTATAGATAATATTTATAAAATAATATAAT
1 TTATAAATAATATTTATAAAATAATAT-AT
* * *
46560 TATAGAAATAATA-TTA-AATAATTGATACCAT
1 T-TATAAATAATATTTATAA-AA-TAATA-TAT
*
46591 TTATAAATAATATTTATAAACTAATATAT
1 TTATAAATAATATTTATAAAATAATATAT
* * *
46620 TTATAAAAAATA-ATATGAAATAATGATAT
1 TTATAAATAATATTTATAAAATAAT-ATAT
46649 T
1 T
46650 AATCCAAACT
Statistics
Matches: 71, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
28 9 0.13
29 20 0.28
30 20 0.28
31 20 0.28
32 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (29 bp):
TTATAAATAATATTTATAAAATAATATAT
Found at i:46635 original size:18 final size:16
Alignment explanation
Indices: 46539--46631 Score: 63
Period size: 16 Copynumber: 6.1 Consensus size: 16
46529 ATTATAGATA
46539 ATATTTATAAAATAAT
1 ATATTTATAAAATAAT
*
46555 ATAATTATAGAAATAAT
1 ATATTTATA-AAATAAT
** * *
46572 AT-TAAAT-AATTGAT
1 ATATTTATAAAATAAT
*
46586 ACCATTTAT-AAAT-A-
1 A-TATTTATAAAATAAT
*
46600 ATATTTATAAACTAAT
1 ATATTTATAAAATAAT
46616 ATATTTATAAAA-AAT
1 ATATTTATAAAATAAT
46631 A
1 A
46632 ATATGAAATA
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
13 6 0.10
14 10 0.17
15 6 0.10
16 27 0.47
17 9 0.16
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (16 bp):
ATATTTATAAAATAAT
Found at i:48708 original size:30 final size:31
Alignment explanation
Indices: 48672--48731 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
48662 ATTTATTTGA
48672 TATTTTATCTAAACTTAAG-GGTCAAATTAG
1 TATTTTATCTAAACTTAAGAGGTCAAATTAG
* *
48702 TATTTTATCTAAACTTCAGAGGTTAAATTA
1 TATTTTATCTAAACTTAAGAGGTCAAATTA
48732 AAAACCAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (31 bp):
TATTTTATCTAAACTTAAGAGGTCAAATTAG
Found at i:51048 original size:17 final size:18
Alignment explanation
Indices: 51020--51054 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
51010 TAAAAATAAA
51020 TTAACGCGATTATTTATT
1 TTAACGCGATTATTTATT
51038 TTAAC-CGATTATTTATT
1 TTAACGCGATTATTTATT
51055 GAGATGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (18 bp):
TTAACGCGATTATTTATT
Found at i:51907 original size:15 final size:15
Alignment explanation
Indices: 51887--51917 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
51877 GTTTGTTAAA
51887 ACTGAATGGTTTAGC
1 ACTGAATGGTTTAGC
51902 ACTGAATGGTTTAGC
1 ACTGAATGGTTTAGC
51917 A
1 A
51918 TACTAAGGCT
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:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (15 bp):
ACTGAATGGTTTAGC
Found at i:52368 original size:18 final size:18
Alignment explanation
Indices: 52321--52404 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
52311 TATTCTTTTG
*
52321 TTCTAATCC--AAAGAAT
1 TTCTAATCCAAAAAGTAT
*
52337 TTCTAATTATCAAAAAGTAT
1 TTCTAA-T-CCAAAAAGTAT
*
52357 TTCTACTCCAAAAAGTAT
1 TTCTAATCCAAAAAGTAT
*
52375 TTCTAATCCAAAGAGTAT
1 TTCTAATCCAAAAAGTAT
52393 TTCTAATCCAAA
1 TTCTAATCCAAA
52405 TTACACATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
16 6 0.10
17 1 0.02
18 39 0.67
19 1 0.02
20 11 0.19
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.35
Consensus pattern (18 bp):
TTCTAATCCAAAAAGTAT
Found at i:52491 original size:14 final size:14
Alignment explanation
Indices: 52474--52502 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
52464 TTTTTAATCC
52474 AAAATACACATTAT
1 AAAATACACATTAT
52488 AAAATACACATTAT
1 AAAATACACATTAT
52502 A
1 A
52503 TTTAGAGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATACACATTAT
Found at i:53755 original size:42 final size:42
Alignment explanation
Indices: 53693--54079 Score: 456
Period size: 42 Copynumber: 9.1 Consensus size: 42
53683 GAACAAAAAT
* * *
53693 GCCGCAATAGATCAAGATCTATAGCGACG-TTTTGGAACAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAAC
* * * *
53735 GCCGCAAAAGGTTGACATCTATAGTGACG-TTTTGAGAACAAAC
1 GCCGCAAAAGG-TCAGATCTATAGCGGCGTTTTTG-GAACAAAC
* * * * * *
53778 GCCACAAAAGGTTGACATCTACAGTGGCATTTTTGGAACAAAC
1 GCCGCAAAAGG-TCAGATCTATAGCGGCGTTTTTGGAACAAAC
*
53821 GCCGCAGAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
* * **
53863 CCCGCAAAAGGTCAGATCTATCGTAGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
* * *
53905 GCCGCAAAAGATCAAGATCTATAACGACG-TTTTGGAACAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAAC
* *
53947 GCCGCAAAAGGTCAAATCTATAGCGGCGTTTTTTGATACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAAC
53990 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
* * *
54032 GCCGCAAAAGGTCAAATCTATAACGGCGTTTTTTGATACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAAC
54075 GCCGC
1 GCCGC
54080 TAATTACCTT
Statistics
Matches: 300, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
41 12 0.04
42 171 0.57
43 112 0.37
44 5 0.02
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
Found at i:53871 original size:85 final size:83
Alignment explanation
Indices: 53722--54079 Score: 430
Period size: 85 Copynumber: 4.2 Consensus size: 83
53712 TATAGCGACG
* * * *
53722 TTTTGGAACAAACGCCGCAAAAGGTTGACATCTATAGTGACGTTTTGAGAACAAACGCCACAAAA
1 TTTTGGAACAAACGCCGCAAAAGG-TCAGATCTATAGCGACGTTTTG-GAACAAACGCCGCAAAA
* * *
53787 GGTTGACATCTACAGTGGCAT
64 GG-TCAAATCTACAGTGGCGT
* * *
53808 TTTTGGAACAAACGCCGCAGAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAACCCCGCAAAAG
1 TTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAGCGACG-TTTTGGAACAAACGCCGCAAAAG
* *
53873 GTCAGATCTATC-GTAGCGT
65 GTCAAATCTA-CAGTGGCGT
* *
53892 TTTTGGAACAAACGCCGCAAAAGATCAAGATCTATAACGACGTTTTGGAACAAACGCCGCAAAAG
1 TTTTGGAACAAACGCCGCAAAAGGTC-AGATCTATAGCGACGTTTTGGAACAAACGCCGCAAAAG
* *
53957 GTCAAATCTATAGCGGCGT
65 GTCAAATCTACAGTGGCGT
* *
53976 TTTTTGATACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAA
1 TTTTGGA-ACAAACGCCGCAAAAGGTCAGATCTATAGCGACG-TTTTGGAACAAACGCCGCAAAA
* **
54041 GGTCAAATCTATAACGGCGT
64 GGTCAAATCTACAGTGGCGT
*
54061 TTTTTGATACAAACGCCGC
1 TTTTGGA-ACAAACGCCGC
54080 TAATTACCTT
Statistics
Matches: 241, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
84 91 0.38
85 122 0.51
86 28 0.12
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (83 bp):
TTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAGCGACGTTTTGGAACAAACGCCGCAAAAGG
TCAAATCTACAGTGGCGT
Found at i:57692 original size:41 final size:41
Alignment explanation
Indices: 57647--57773 Score: 114
Period size: 41 Copynumber: 3.1 Consensus size: 41
57637 GTTTGTATAG
* * *
57647 AAACGCCGCTAAAGTACTATTATGTTGTGGCGTTTATTGAA
1 AAACGCCGCTAAAGTACTAATATGTTGCGGCGTTTATTAAA
* * * * * *
57688 AAACGCCACTATAGGTA--AATACTATTACGGCGTTTGTTTAA
1 AAACGCCGCTA-AAGTACTAATA-TGTTGCGGCGTTTATTAAA
* * *
57729 AAACGCCGCTAAAGTTCTAATCTGTTGCGGCATTTATTAAA
1 AAACGCCGCTAAAGTACTAATATGTTGCGGCGTTTATTAAA
57770 AAAC
1 AAAC
57774 ACCACTATAA
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
40 6 0.09
41 52 0.80
42 7 0.11
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTAAAGTACTAATATGTTGCGGCGTTTATTAAA
Found at i:57719 original size:82 final size:82
Alignment explanation
Indices: 57633--57866 Score: 274
Period size: 82 Copynumber: 2.9 Consensus size: 82
57623 GAGTCTTTAG
* * * * *
57633 CGGCGTTTGTATAGAAACGCCGCTAAAGTACTATTATGTTGTGGCGTTTATTGAAAAACGCCACT
1 CGGCGTTTGTATAAAAACGCCGCTAAAGTACTAATCTGTTGCGGCGTTTATTAAAAAACGCCACT
*
57698 ATAGGTAAAT-ACTATTA
66 ATAGATAAATCA-TATTA
* * * *
57715 CGGCGTTTGTTTAAAAACGCCGCTAAAGTTCTAATCTGTTGCGGCATTTATTAAAAAACACCACT
1 CGGCGTTTGTATAAAAACGCCGCTAAAGTACTAATCTGTTGCGGCGTTTATTAAAAAACGCCACT
* * *
57780 ATAAATGAATCATATTG
66 ATAGATAAATCATATTA
* * * * * *
57797 CGGCATTTGTATAAAAACGACGCTAAA-TACTAATCTGTTACGGCGTTTGTCAAAAAAAGCCACT
1 CGGCGTTTGTATAAAAACGCCGCTAAAGTACTAATCTGTTGCGGCGTTTATTAAAAAACGCCACT
57861 ATAGAT
66 ATAGAT
57867 GAACCCTATT
Statistics
Matches: 127, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
81 35 0.28
82 91 0.72
83 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (82 bp):
CGGCGTTTGTATAAAAACGCCGCTAAAGTACTAATCTGTTGCGGCGTTTATTAAAAAACGCCACT
ATAGATAAATCATATTA
Found at i:57853 original size:40 final size:40
Alignment explanation
Indices: 57712--57853 Score: 103
Period size: 41 Copynumber: 3.5 Consensus size: 40
57702 GTAAATACTA
* * * *
57712 TTACGGCGTTTGTTTAAAAACGCCGCTAAAGTTCTAATCTG
1 TTACGGCATTTGTTAAAAAACGACGCTAAA-TACTAATCTG
* * * *
57753 TTGCGGCATTTATTAAAAAAC-ACCACTATAA-A-TGAATCATA
1 TTACGGCATTTGTTAAAAAACGA-CGCTA-AATACT-AATC-TG
*
57794 TTGCGGCATTTG-TATAAAAACGACGCTAAATACTAATCTG
1 TTACGGCATTTGTTA-AAAAACGACGCTAAATACTAATCTG
* *
57834 TTACGGCGTTTGTCAAAAAA
1 TTACGGCATTTGTTAAAAAA
57854 AGCCACTATA
Statistics
Matches: 78, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
39 1 0.01
40 24 0.31
41 49 0.63
42 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (40 bp):
TTACGGCATTTGTTAAAAAACGACGCTAAATACTAATCTG
Found at i:57869 original size:81 final size:82
Alignment explanation
Indices: 57632--57904 Score: 268
Period size: 82 Copynumber: 3.3 Consensus size: 82
57622 TGAGTCTTTA
* * * * * * * *
57632 GCGGCGTTTGTATAGAAACGCCGCTAAAGTACTATTATGTTGTGGCGTTTATTGAAAAACGCCAC
1 GCGGCATTTGTATAAAAACGACGCTAAAGTACTAATCTGTTGCGGCGTTTATTAAAAAAAGCCAC
* *
57697 TATAGGTAAAT-ACTATT
66 TATAGATGAATCA-TATT
* * * * * *
57714 ACGGCGTTTGTTTAAAAACGCCGCTAAAGTTCTAATCTGTTGCGGCATTTATTAAAAAACA-CCA
1 GCGGCATTTGTATAAAAACGACGCTAAAGTACTAATCTGTTGCGGCGTTTATTAAAAAA-AGCCA
*
57778 CTATAAATGAATCATATT
65 CTATAGATGAATCATATT
* * *
57796 GCGGCATTTGTATAAAAACGACGCTAAA-TACTAATCTGTTACGGCGTTTGTCAAAAAAAGCCAC
1 GCGGCATTTGTATAAAAACGACGCTAAAGTACTAATCTGTTGCGGCGTTTATTAAAAAAAGCCAC
* *
57860 TATAGATGAACCCTATT
66 TATAGATGAATCATATT
*
57877 GTGGCATTTGTA-AATAAAC-ACCGCTAAA
1 GCGGCATTTGTATAA-AAACGA-CGCTAAA
57905 ATTACCATTT
Statistics
Matches: 160, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
80 4 0.03
81 65 0.41
82 90 0.56
83 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (82 bp):
GCGGCATTTGTATAAAAACGACGCTAAAGTACTAATCTGTTGCGGCGTTTATTAAAAAAAGCCAC
TATAGATGAATCATATT
Found at i:57990 original size:12 final size:12
Alignment explanation
Indices: 57973--57998 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57963 TTTTACTCTC
57973 AAAACGCCGCTA
1 AAAACGCCGCTA
57985 AAAACGCCGCTA
1 AAAACGCCGCTA
57997 AA
1 AA
57999 GAACAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:58933 original size:2 final size:2
Alignment explanation
Indices: 58926--58957 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
58916 ATTATTTAAA
58926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58958 GTGTGATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58985 original size:17 final size:17
Alignment explanation
Indices: 58965--58998 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
58955 TATGTGTGAT
58965 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
58982 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
58999 CAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:59023 original size:16 final size:16
Alignment explanation
Indices: 59004--59036 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58994 AATAACAAAT
59004 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
59020 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
59036 T
1 T
59037 TTAAAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:60396 original size:3 final size:3
Alignment explanation
Indices: 60380--60424 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
60370 TTTGGGCTTG
*
60380 TAA TAA TATT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
60425 TTTATATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:60852 original size:113 final size:113
Alignment explanation
Indices: 60658--61179 Score: 784
Period size: 113 Copynumber: 4.7 Consensus size: 113
60648 TGTAACAAAG
* * * *
60658 GTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGAAGAGTTCTTCTCATTGTGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* ** * *
60719 TCTCCTTCTGGAAATA-CTGATCCATCGAGTGATGAATTTAAGCAAAAA
66 ACTTTTTCTGGAAA-AGCTGATCCATCAAATGATGAATTTAAGCAAAAA
* *
60767 GTTGAACAAGTTCTTCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * * *
60832 ACTTTTTCTGGAAAAGCTGATCCATCAAATGACGGATTTGAGCAAAAG
66 ACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAA
* *
60880 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
**
60945 ACTTTTTCTGGAAAAGCTGATCCATCACGTGATGAATTTAAGCAAAAA
66 ACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAA
* *
60993 GTTGAACAAGTTCTTCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* *
61058 ACTTTTTCTGGAAAAGCTGATCCGTCAAATGATGAATTTGAGCAAAAA
66 ACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAA
61106 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
61171 ACTTCTTCT
66 ACTTTTTCT
61180 TCCTTCTTCA
Statistics
Matches: 373, Mismatches: 35, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
109 24 0.06
112 7 0.02
113 342 0.92
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (113 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAA
Found at i:60983 original size:226 final size:225
Alignment explanation
Indices: 60654--61179 Score: 873
Period size: 226 Copynumber: 2.3 Consensus size: 225
60644 GTGATGTAAC
* * * *
60654 AAAGGTTGAACAAGCTCTTCTCATTGTGAA--CTTCTT-CTTCTTCAGAAGAGTTCTTCTCATTG
1 AAAGGTTGAACAAGTTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
60716 TGATCTCCTTCTGGAAATACTGATCCATCGAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCT
66 TGAACTTCTTCTGGAAATACTGATCCATCGAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCT
60781 TCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
131 TCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
*
60846 AGCTGATCCATCAAATGACGGATTTGAGCA
196 AGCTGATCCATCAAATGACGAATTTGAGCA
*
60876 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
60941 ATGAACTTTTTCTGGAAA-AGCTGATCCATC-ACGTGATGAATTTAAGCAAAAAGTTGAACAAGT
65 ATGAACTTCTTCTGGAAATA-CTGATCCATCGA-GTGATGAATTTAAGCAAAAAGTTGAACAAGT
61004 TCTTCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGG
128 TCTTCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGG
* *
61069 AAAAGCTGATCCGTCAAATGATGAATTTGAGCA
193 AAAAGCTGATCCATCAAATGACGAATTTGAGCA
*
61102 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
61167 ATGAACTTCTTCT
65 ATGAACTTCTTCT
61180 TCCTTCTTCA
Statistics
Matches: 283, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
222 27 0.10
225 8 0.03
226 248 0.88
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (225 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTCTTCTGGAAATACTGATCCATCGAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCT
TCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
AGCTGATCCATCAAATGACGAATTTGAGCA
Found at i:61158 original size:40 final size:40
Alignment explanation
Indices: 61113--61214 Score: 195
Period size: 40 Copynumber: 2.5 Consensus size: 40
61103 AAAGTTGAAC
61113 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
*
61153 GAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
61193 AAGTTCTTCTCATTATGAACTT
1 AAGTTCTTCTCATTATGAACTT
61215 TCTCTGGCAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.47
Consensus pattern (40 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:61177 original size:153 final size:154
Alignment explanation
Indices: 61001--61327 Score: 503
Period size: 153 Copynumber: 2.1 Consensus size: 154
60991 AAGTTGAACA
* * * *
61001 AGTTCTTCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
* * * **
61066 TGGAAAAGCTGATCCGTCAAATGATGAATTTGAGCAAAAAGTTGAACAAGTTCTTCTCA-TTATG
66 TGGAAAAGATAATCCATCAAATGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCATTTATG
*
61130 AACTTCTTCTTCCTTCTTCAGATG
131 AACTTCTTATTCCTTCTTCAGATG
61154 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
* * *** *
61219 TGGCAATGATAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCTCATTTATG
66 TGGAAAAGATAATCCATCAAATGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCATTTATG
61284 AACTTCTTATTCCTTCTTCAGATG
131 AACTTCTTATTCCTTCTTCAGATG
61308 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
61328 CTACCTGGTA
Statistics
Matches: 157, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
153 109 0.69
154 48 0.31
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.41
Consensus pattern (154 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGATAATCCATCAAATGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCATTTATG
AACTTCTTATTCCTTCTTCAGATG
Found at i:61271 original size:113 final size:113
Alignment explanation
Indices: 61154--61697 Score: 763
Period size: 113 Copynumber: 4.8 Consensus size: 113
61144 TCTTCAGATG
* * *
61154 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT-TTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTAC-
* **
61218 CTGGCAATGATAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACA
65 CTGGCAATGTTAATCCATCGAATGATGAATTAAAGCAAAAGGTTGAACA
* *
61267 AGTTCTTCTCATTTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC
1 AGTTCTTCTCA-TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTAC
* * *
61332 CTGGTAATGTTGATCCATCAAATGATGAATTCAAA-CAAAAGGTTGAACA
65 CTGGCAATGTTAATCCATCGAATGATGAATT-AAAGCAAAAGGTTGAACA
* * *
61381 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTTATTATGAACT-TTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTAC-
** *
61445 CTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTGGAACA
65 CTGGCAATGTTAATCCATCGAATGATGAATTAAAGCAAAAGGTTGAACA
* * * * *
61494 ATTTCTTCTCATTACGAACTTCTTCTTCTTTCTTCAGATGAGTTTTTCTTATTATGAACTCGACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACC
* *
61559 TGGCAATGTTGATCCATCGAATGATGAATTCAAGCAGAAA-GTTGAACA
66 TGGCAATGTTAATCCATCGAATGATGAATTAAAGCA-AAAGGTTGAACA
* * *
61607 AGTTCTTCTCATTACGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACC
*
61672 TGGCAATGTTGATCCATCGAATGATG
66 TGGCAATGTTAATCCATCGAATGATG
61698 GATTTGAATC
Statistics
Matches: 390, Mismatches: 34, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
112 5 0.01
113 279 0.72
114 101 0.26
115 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACC
TGGCAATGTTAATCCATCGAATGATGAATTAAAGCAAAAGGTTGAACA
Found at i:61437 original size:267 final size:266
Alignment explanation
Indices: 60893--61441 Score: 837
Period size: 267 Copynumber: 2.1 Consensus size: 266
60883 GAACAAATTC
* * *
60893 TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAA
* * * *
60958 AAGCTGATCCATCACGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTCTGAACTTC
66 AAGATAATCCATCACGTGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
* * * ** *
61023 TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCGTCAAAT
131 TTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTGATCCATCAAAT
** *
61088 GATGAATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
196 GATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* *
61153 GAGTTC
261 AAGTTA
*
61159 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGCA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAA
* ** *
61224 ATGATAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCTCATTTATGAACTT
66 AAGATAATCCATCACGTGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCA-TTATGAACTT
* * *
61289 CTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGTAATGTTGATCCATCAAA
130 CTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTGATCCATCAAA
*
61354 TGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
195 TGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
61419 TAAGTTA
260 TAAGTTA
*
61426 TTCTTATTATGAACTT
1 TTCTCATTATGAACTT
61442 TCTCTGGCAA
Statistics
Matches: 254, Mismatches: 28, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
266 108 0.43
267 146 0.57
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (266 bp):
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAA
AAGATAATCCATCACGTGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
TTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTGATCCATCAAAT
GATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
AAGTTA
Found at i:61615 original size:493 final size:490
Alignment explanation
Indices: 60669--61667 Score: 1389
Period size: 493 Copynumber: 2.0 Consensus size: 490
60659 TTGAACAAGC
* * *
60669 TCTTCTCATTGTGAA--CTTCTTCTTCTTCAGAAGAGTTCTTCTCATTGTGATCTCCTTCTGGAA
1 TCTTCTCATTATGAACTCTTCTTCTTCTTCAGAAGAGTTCTTCTCATTATGAACTCCTTCTGGAA
* * *
60732 ATACTGATCCATCGAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTCTGAACTTC
66 ATACTAATCCATCGAGTGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
* * * **
60797 TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
131 TTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTGATCCATCAAAT
* ** * *
60862 GACGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
196 GACGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * * *
60927 GAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCACGTGATGAATTTAAGCAAAA
261 AAGTTATTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCACGTGATGAATTAAAGCAAAA
*
60992 AGTTGAACAAGTTCTTCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATG
326 AGTGGAACAAGTTCTTCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATG
**** * **
61057 AACTTTTTCTGGAAAAGCTGATCCGTCAAATGATGAATTTGAGCAAAAAGTTGAACAAGTTCTTC
391 AACTCGACCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTC
*
61122 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
456 TCATTACGAACTTCTTCTTCCTTCTTCAGATGAGT
*
61157 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATA-AGTTCTTCTCATTATGAACT-TTCTCT
1 TCTTCTCATTATGAAC-TCTTCTT-CTTCTTCAGA-AGAGTTCTTCTCATTATGAACTCCT-TCT
* * *
61220 GGCAATGA-TAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCTCATTTATG
62 GGAAAT-ACTAATCCATCGAGTGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCA-TTATG
* * *
61284 AACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGTAATGTTGATCCA
125 AACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTGATCCA
* *
61349 TCAAATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
190 TCAAATGACGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
* * * * **
61414 TCAGATAAGTTATTCTTATTATGAACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAA
255 TCAGATAAGTTATTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCACGTGATGAATTAAA
* * *
61479 GCAAAAGGTGGAACAATTTCTTCTCATTAC-GAACTTCTTCTTCTTTCTTCAGATGAGTTTTTCT
320 GCAAAAAGTGGAACAAGTTCTTCTCATT-CTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCT
* * * * * *
61543 TATTATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCAGAAAGTTGAACAA
384 CATTATGAACTCGACCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAA
*
61608 GTTCTTCTCATTACGAACTTCTTCTTCTTTCTTCAGATGAGT
449 GTTCTTCTCATTACGAACTTCTTCTTCCTTCTTCAGATGAGT
*
61650 TCTTCTTATTATGAACTC
1 TCTTCTCATTATGAACTC
61668 GACCTGGCAA
Statistics
Matches: 446, Mismatches: 56, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
488 14 0.03
491 7 0.02
492 84 0.19
493 340 0.76
494 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (490 bp):
TCTTCTCATTATGAACTCTTCTTCTTCTTCAGAAGAGTTCTTCTCATTATGAACTCCTTCTGGAA
ATACTAATCCATCGAGTGATGAATTAAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
TTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTGATCCATCAAAT
GACGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
AAGTTATTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCACGTGATGAATTAAAGCAAAA
AGTGGAACAAGTTCTTCTCATTCTGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATG
AACTCGACCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTC
TCATTACGAACTTCTTCTTCCTTCTTCAGATGAGT
Found at i:61658 original size:226 final size:227
Alignment explanation
Indices: 61154--61690 Score: 855
Period size: 226 Copynumber: 2.4 Consensus size: 227
61144 TCTTCAGATG
*
61154 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACTTTCTC
* * *
61219 TGGCAATGATAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCTCATTTATG
66 TGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTGGAACAAGTTCTTCTCATTTACG
* *
61284 AACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGTAATGTTGATCCA
131 AACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCA
61349 TCAAATGATGAATTCAAACAAAAGGTTGAACA
196 TCAAATGATGAATTCAAACAAAAGGTTGAACA
*
61381 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTTATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACTTTCTC
*
61446 TGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTGGAACAATTTCTTCTCA-TTACG
66 TGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTGGAACAAGTTCTTCTCATTTACG
* * * *
61510 AACTTCTTCTTCTTTCTTCAGATGAGTTTTTCTTATTATGAACTCGACCTGGCAATGTTGATCCA
131 AACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCA
* *
61575 TCGAATGATGAATTCAAGCAGAAA-GTTGAACA
196 TCAAATGATGAATTCAAACA-AAAGGTTGAACA
* * * **
61607 AGTTCTTCTCATTACGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACT-TTCT
*
61671 CTGGCAATGTTGATCCATCG
65 CTGGCAATGTTAATCCATCG
61691 AATGATGGAT
Statistics
Matches: 287, Mismatches: 21, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
226 164 0.57
227 123 0.43
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (227 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACTTTCTC
TGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTGGAACAAGTTCTTCTCATTTACG
AACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCA
TCAAATGATGAATTCAAACAAAAGGTTGAACA
Found at i:62130 original size:22 final size:22
Alignment explanation
Indices: 62102--62156 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
62092 GATAAAGCTT
*
62102 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
62124 TCATCTTTTAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
62146 TCATCTTTGAA
1 TCATCTTTGAA
62157 GAAGTAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:64823 original size:114 final size:114
Alignment explanation
Indices: 64623--64845 Score: 374
Period size: 114 Copynumber: 2.0 Consensus size: 114
64613 GATCATGCAG
* * * *
64623 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAAGA
64688 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
64737 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAAATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAAGA
* *
64802 ACACTTTCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGA
64846 TCACATGGCA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:68226 original size:24 final size:24
Alignment explanation
Indices: 68198--68247 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
68188 GCCCAGGATT
68198 TTTATCCTTATTTGCCCACATTTC
1 TTTATCCTTATTTGCCCACATTTC
68222 TTTATCCTTATTTGCCCACATTTC
1 TTTATCCTTATTTGCCCACATTTC
68246 TT
1 TT
68248 GATCATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.28, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTATCCTTATTTGCCCACATTTC
Found at i:70404 original size:14 final size:14
Alignment explanation
Indices: 70370--70423 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
70360 TTGTGCAATA
* *
70370 CAAATGCAAAGATG
1 CAAATGTAAATATG
70384 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
70399 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
70413 TAAATGTAAAT
1 CAAATGTAAAT
70424 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:72803 original size:2 final size:2
Alignment explanation
Indices: 72796--72831 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
72786 ATTATTTAAA
72796 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72832 TTATGTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72861 original size:17 final size:17
Alignment explanation
Indices: 72841--72874 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
72831 TTTATGTGAT
72841 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
72858 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
72875 CAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:72893 original size:40 final size:39
Alignment explanation
Indices: 72839--72914 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
72829 TATTTATGTG
72839 ATTAATATGAAAAT-AATAATAATATAAAAGTAATAACAA
1 ATTAATATGAAAATAAATAAT-ATATAAAAGTAATAACAA
* *
72878 ATTAATATTATAAATAAATAATATTTAAAAGTAATAA
1 ATTAATATGA-AAATAAATAATATATAAAAGTAATAA
72915 TATTAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 9 0.27
40 18 0.55
41 6 0.18
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (39 bp):
ATTAATATGAAAATAAATAATATATAAAAGTAATAACAA
Found at i:74256 original size:3 final size:3
Alignment explanation
Indices: 74240--74281 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
74230 TTTGGGCTTG
*
74240 TAA TAA TATT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
74282 TTTATATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:75644 original size:7 final size:7
Alignment explanation
Indices: 75632--75661 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
75622 TAAGTTTTTG
75632 AGGGTTT
1 AGGGTTT
75639 AGGGTTT
1 AGGGTTT
*
75646 AAGGTTT
1 AGGGTTT
75653 AGGGTTT
1 AGGGTTT
75660 AG
1 AG
75662 AATAATCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (7 bp):
AGGGTTT
Found at i:76172 original size:27 final size:27
Alignment explanation
Indices: 76156--76217 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 27
76146 TGTTAAATTT
76156 TTATTAAATTTTTTAAAATTATAAATA
1 TTATTAAATTTTTTAAAATTATAAATA
** *
76183 TTATTAAATTTATCAAAATATTATAAAAA
1 TTATTAAATTT-TTTAAA-ATTATAAATA
76212 TTATTA
1 TTATTA
76218 CAACATTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 11 0.37
28 4 0.13
29 15 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TTATTAAATTTTTTAAAATTATAAATA
Found at i:76177 original size:18 final size:19
Alignment explanation
Indices: 76156--76217 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
76146 TGTTAAATTT
*
76156 TTATTAAAT-TTTTTAAAA
1 TTATTAAATATTATTAAAA
*
76174 TTA-TAAATATTATTAAAT
1 TTATTAAATATTATTAAAA
* *
76192 TTATCAAAATATTATAAAAA
1 TTAT-TAAATATTATTAAAA
76212 TTATTA
1 TTATTA
76218 CAACATTATC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 5 0.14
18 13 0.37
19 1 0.03
20 16 0.46
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TTATTAAATATTATTAAAA
Found at i:76191 original size:17 final size:19
Alignment explanation
Indices: 76155--76206 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
76145 ATGTTAAATT
* *
76155 TTTATTAAAT-TTTTTAAA
1 TTTATAAAATATTATTAAA
*
76173 ATTAT-AAATATTATTAAA
1 TTTATAAAATATTATTAAA
76191 TTTATCAAAATATTAT
1 TTTAT-AAAATATTAT
76207 AAAAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.14
18 15 0.54
20 9 0.32
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTATAAAATATTATTAAA
Found at i:76308 original size:11 final size:11
Alignment explanation
Indices: 76289--76342 Score: 74
Period size: 11 Copynumber: 4.9 Consensus size: 11
76279 AATTTTTTTT
*
76289 ATTTTATAATA
1 ATTTAATAATA
76300 ATTTAATAA-A
1 ATTTAATAATA
*
76310 ATTTAATAATT
1 ATTTAATAATA
76321 ATTTAATAATA
1 ATTTAATAATA
76332 ATTTTAATAAT
1 A-TTTAATAAT
76343 TTTAATGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.26
11 19 0.50
12 9 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTAATAATA
Found at i:76318 original size:21 final size:22
Alignment explanation
Indices: 76289--76342 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
76279 AATTTTTTTT
*
76289 ATTTTATAATAATTTAATAA-A
1 ATTTAATAATAATTTAATAATA
*
76310 ATTTAATAATTATTTAATAATA
1 ATTTAATAATAATTTAATAATA
76332 ATTTTAATAAT
1 A-TTTAATAAT
76343 TTTAATGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.62
22 2 0.07
23 9 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTAATAATAATTTAATAATA
Found at i:76346 original size:21 final size:19
Alignment explanation
Indices: 76295--76348 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
76285 TTTTATTTTA
76295 TAATAA-TTTAATAAAATT
1 TAATAATTTTAATAAAATT
76313 TAATAATTATTTAATAATAATTT
1 TAATAA-T-TTTAATAA-AA-TT
76336 TAATAATTTTAAT
1 TAATAATTTTAAT
76349 GTTTTAGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 6 0.19
21 14 0.45
22 3 0.10
23 8 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAATTTTAATAAAATT
Found at i:77491 original size:2 final size:2
Alignment explanation
Indices: 77484--77519 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
77474 AATAAAATTA
77484 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77520 TTGTGTCGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85572 original size:20 final size:20
Alignment explanation
Indices: 85547--85594 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
85537 GTCAGAGTGT
*
85547 GGCGGCGGACGGCTGACGGC
1 GGCGGCGGACGGCGGACGGC
* *
85567 GGCGGCAGACGGCGGGCGGC
1 GGCGGCGGACGGCGGACGGC
*
85587 GGCAGCGG
1 GGCGGCGG
85595 CCAGCAGGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.29, G:0.58, T:0.02
Consensus pattern (20 bp):
GGCGGCGGACGGCGGACGGC
Found at i:85584 original size:17 final size:16
Alignment explanation
Indices: 85564--85595 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
85554 GACGGCTGAC
85564 GGCGGCGGCAGACGGCG
1 GGCGGCGGCAG-CGGCG
85581 GGCGGCGGCAGCGGC
1 GGCGGCGGCAGCGGC
85596 CAGCAGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.31, G:0.59, T:0.00
Consensus pattern (16 bp):
GGCGGCGGCAGCGGCG
Found at i:86606 original size:81 final size:81
Alignment explanation
Indices: 86471--86629 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
86461 GAACATACTC
* * * * *
86471 GTCAGACACCTACCGATTTCTGATACTCACACCAGAGGTCAAGTAACATTGGTTGTTTCTATCTT
1 GTCAGACACATACCGATATCTCACACTCACACCAGAAGTCAAGTAACATTGGTTGTTTCTATCTT
86536 TCTAACTAAATTGCTT
66 TCTAACTAAATTGCTT
* * * *
86552 GTCAGACACATACTGATATCTCACACTCACACCCGAATTCAAGTAACATTGGTTGTTTCTTTCTT
1 GTCAGACACATACCGATATCTCACACTCACACCAGAAGTCAAGTAACATTGGTTGTTTCTATCTT
* *
86617 TCTGACTGAATTG
66 TCTAACTAAATTG
86630 TTCAATGTAG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (81 bp):
GTCAGACACATACCGATATCTCACACTCACACCAGAAGTCAAGTAACATTGGTTGTTTCTATCTT
TCTAACTAAATTGCTT
Found at i:88865 original size:28 final size:28
Alignment explanation
Indices: 88812--88865 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
88802 AGAATTTAAT
* *
88812 TTATTTTTAATTAGATAATTAAAAATAA
1 TTATTTTTAATTAAATAAATAAAAATAA
*
88840 TTATTTTT-ATTAAATTAAATATAAAT
1 TTATTTTTAATTAAA-TAAATAAAAAT
88866 TATAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
TTATTTTTAATTAAATAAATAAAAATAA
Found at i:89105 original size:12 final size:12
Alignment explanation
Indices: 89088--89118 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
89078 GACCCCATTT
89088 CTGACTCGCTCG
1 CTGACTCGCTCG
89100 CTGACTCGCTCG
1 CTGACTCGCTCG
89112 CTGACTC
1 CTGACTC
89119 ACTCACTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.42, G:0.23, T:0.26
Consensus pattern (12 bp):
CTGACTCGCTCG
Found at i:103889 original size:21 final size:21
Alignment explanation
Indices: 103847--103899 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
103837 ATTCTGACTA
103847 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
103868 TCGCGTTGCGATTAT-CCTAAT
1 TCGCATTGCGATT-TCCCAAAT
*
103889 TCGCAATGCGA
1 TCGCATTGCGA
103900 ATTTGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:103914 original size:20 final size:20
Alignment explanation
Indices: 103889--104021 Score: 126
Period size: 20 Copynumber: 6.5 Consensus size: 20
103879 TTATCCTAAT
103889 TCGCAATGCGAATTTGTAAA
1 TCGCAATGCGAATTTGTAAA
**
103909 TCGCAATGCGAATACGT-AA
1 TCGCAATGCGAATTTGTAAA
*
103928 TCGCAATTGCGAATTATGAAAA
1 TCGCAA-TGCGAATT-TGTAAA
* **
103950 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATTTGTAAA
* *
103970 TCGCAATGCGAATTAAGAAAA
1 TCGCAATGCGAATT-TGTAAA
* *
103991 TCGCAATGCGAATCTG-ACTA
1 TCGCAATGCGAATTTGTA-AA
104011 TCGCAATGCGA
1 TCGCAATGCGA
104022 TTTACATAGC
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
19 9 0.10
20 51 0.55
21 24 0.26
22 8 0.09
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATTTGTAAA
Found at i:103919 original size:41 final size:40
Alignment explanation
Indices: 103889--104003 Score: 178
Period size: 41 Copynumber: 2.9 Consensus size: 40
103879 TTATCCTAAT
*
103889 TCGCAATGCGAATT-TGTAAATCGCAATGCGAATACGTAA
1 TCGCAATGCGAATTATGAAAATCGCAATGCGAATACGTAA
*
103928 TCGCAATTGCGAATTATGAAAATCGCAACGCGAATACGTAAA
1 TCGCAA-TGCGAATTATGAAAATCGCAATGCGAATACGT-AA
*
103970 TCGCAATGCGAATTAAGAAAATCGCAATGCGAAT
1 TCGCAATGCGAATTATGAAAATCGCAATGCGAAT
104004 CTGACTATCG
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
39 6 0.09
40 8 0.12
41 47 0.68
42 8 0.12
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (40 bp):
TCGCAATGCGAATTATGAAAATCGCAATGCGAATACGTAA
Found at i:104014 original size:41 final size:41
Alignment explanation
Indices: 103889--104021 Score: 143
Period size: 41 Copynumber: 3.3 Consensus size: 41
103879 TTATCCTAAT
*
103889 TCGCAATGCGAATT-TGTAAATCGCAATGCGAA--T-ACGTAA
1 TCGCAATGCGAATTATGAAAATCGCAATGCGAATCTGAC-T-A
* *
103928 TCGCAATTGCGAATTATGAAAATCGCAACGCGAATAC-GTA-AA
1 TCGCAA-TGCGAATTATGAAAATCGCAATGCGAAT-CTG-ACTA
*
103970 TCGCAATGCGAATTAAGAAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCGAATTATGAAAATCGCAATGCGAATCTGACTA
104011 TCGCAATGCGA
1 TCGCAATGCGA
104022 TTTACATAGC
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
39 6 0.08
40 10 0.13
41 55 0.70
42 7 0.09
45 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (41 bp):
TCGCAATGCGAATTATGAAAATCGCAATGCGAATCTGACTA
Found at i:104014 original size:61 final size:61
Alignment explanation
Indices: 103889--104021 Score: 162
Period size: 61 Copynumber: 2.2 Consensus size: 61
103879 TTATCCTAAT
** * *
103889 TCGCAATGCGAATTTGTAAATCGCAATGCGAATACGTAATCGCAATTGCGAATTATGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATAAGAAATCGCAATTGCGAATTATGAAAA
* * **
103950 TCGCAACGCGAATACGTAAATCGCAATGCGAATTAAGAAAATCGCAA-TGCGAA-TCTGACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAA-TAAG-AAATCGCAATTGCGAATTATGAAAA
104011 TCGCAATGCGA
1 TCGCAATGCGA
104022 TTTACATAGC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
61 44 0.72
62 9 0.15
63 8 0.13
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (61 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATAAGAAATCGCAATTGCGAATTATGAAAA
Found at i:104285 original size:27 final size:27
Alignment explanation
Indices: 104228--104280 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
104218 CATCGCCGGC
***
104228 GAAATCCCTCACAATCATTCACGGTCA
1 GAAATCCCTCACAATCATTCAAAATCA
104255 GAAATCCCTCACAATCATTCATAAAT
1 GAAATCCCTCACAATCATTCA-AAAT
104281 GGAAAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.25
Consensus pattern (27 bp):
GAAATCCCTCACAATCATTCAAAATCA
Found at i:104608 original size:19 final size:19
Alignment explanation
Indices: 104544--104628 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 19
104534 TAGTTTCGAG
104544 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
**
104564 AATGACTATCGCAA--CG-
1 AATGAAAATCGCAACGCGA
*
104580 -A-GAGAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
104597 AATGAAAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
**
104616 AACCAAAATCGCA
1 AATGAAAATCGCA
104629 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
14 9 0.17
15 1 0.02
16 2 0.04
17 1 0.02
18 2 0.04
19 26 0.49
20 12 0.23
ACGTcount: A:0.45, C:0.24, G:0.21, T:0.11
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:104665 original size:14 final size:14
Alignment explanation
Indices: 104646--104701 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
104636 TTTCATTTCG
104646 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
104660 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
104679 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
104693 CGTTGCGAT
1 CGTTGCGAT
104702 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:104675 original size:33 final size:33
Alignment explanation
Indices: 104629--104722 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
104619 CAAAATCGCA
*
104629 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
104662 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
104695 TTGCGATAGTCATTTCCGCGTTGCGATT
1 TTGCGATTGTCATTT-CGCGTTGCGATT
104723 TTCATTCTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 46 0.79
34 12 0.21
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (33 bp):
TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
Found at i:104727 original size:20 final size:19
Alignment explanation
Indices: 104624--104750 Score: 103
Period size: 20 Copynumber: 7.1 Consensus size: 19
104614 GAAACCAAAA
*
104624 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
104643 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
104657 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
104676 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
104690 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
104709 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
104729 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
104749 TC
1 TC
104751 AACCAAAAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.24
16 4 0.05
17 5 0.06
19 23 0.27
20 32 0.38
21 1 0.01
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:106645 original size:91 final size:93
Alignment explanation
Indices: 106443--106815 Score: 580
Period size: 94 Copynumber: 4.1 Consensus size: 93
106433 TAAATTGCTT
* * *
106443 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC-TGT-TT-ATTAATACTGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACGTGTATTCTTTAACACTGTGAAGTTAGTA
106505 TTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTC-TTTGTTTTGTCTTTTGGTTGAA
106533 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC-TGT-TTCTTTAACACTGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACGTGTATTCTTTAACACTGTGAAGTTAGTA
106596 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
106624 AGTATATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC-GTGTATTCTTTAACACTGTGAAGTTAGT
106689 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * * *
106718 AGTAAATTTGTTTGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTATGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC-GTGTATTCTTTAACACTGTGAAGTTAGT
106783 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
106811 AGTAA
1 AGTAA
106816 TGCAATCCAT
Statistics
Matches: 268, Mismatches: 10, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
90 60 0.22
91 60 0.22
93 9 0.03
94 139 0.52
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACGTGTATTCTTTAACACTGTGAAGTTAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:106933 original size:19 final size:19
Alignment explanation
Indices: 106906--107015 Score: 78
Period size: 19 Copynumber: 6.3 Consensus size: 19
106896 TCTTTTGGTT
*
106906 GAAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
106925 GAAACGAAAATCGCAA--C
1 GAAACGAAAATCGCAACGC
* * *
106942 G--A-GAGAATCGTAACAC
1 GAAACGAAAATCGCAACGC
*
106958 GAAATGAAAATCGCAA--C
1 GAAACGAAAATCGCAACGC
106975 G--AC-AAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
106991 GAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
*
107011 AAAAC
1 GAAAC
107016 TATAATCTCG
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
14 19 0.26
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 26 0.36
20 16 0.22
ACGTcount: A:0.50, C:0.24, G:0.18, T:0.08
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:106961 original size:33 final size:33
Alignment explanation
Indices: 106912--107014 Score: 136
Period size: 33 Copynumber: 3.1 Consensus size: 33
106902 GGTTGAAATG
*
106912 AAAATCGCAACGCGAAACGAAAATCGCAACGAG
1 AAAATCGCAACGCGAAACGAAAATCGCAACGAC
* * * *
106945 AGAATCGTAACACGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACGAAAATCGCAACGAC
*
106978 AAAATCGCAACGCGAAACCAAAAATCGCAACG-C
1 AAAATCGCAACGCGAAA-CGAAAATCGCAACGAC
107011 AAAA
1 AAAA
107015 CTATAATCTC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 47 0.80
34 12 0.20
ACGTcount: A:0.50, C:0.24, G:0.17, T:0.08
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACGAAAATCGCAACGAC
Found at i:107001 original size:20 final size:20
Alignment explanation
Indices: 106978--107015 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
106968 TCGCAACGAC
*
106978 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCAAAACCA
106998 AAAATCGCAACGCAAAAC
1 AAAATCGCAACGCAAAAC
107016 TATAATCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.29, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGCAAAACCA
Found at i:107063 original size:33 final size:33
Alignment explanation
Indices: 107021--107084 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
107011 AAAACTATAA
107021 TCTCGTTGCGATTTTAATTTCGCATTGCGATTC
1 TCTCGTTGCGATTTTAATTTCGCATTGCGATTC
** *
107054 TCTCGTTGCGATTTTCGTTTCGCGTTGCGAT
1 TCTCGTTGCGATTTTAATTTCGCATTGCGAT
107085 AGTCATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.45
Consensus pattern (33 bp):
TCTCGTTGCGATTTTAATTTCGCATTGCGATTC
Found at i:107585 original size:21 final size:21
Alignment explanation
Indices: 107561--107627 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
107551 TCATTCCTCG
107561 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
107582 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
107603 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
107624 AGAG
1 AGAG
107628 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:108996 original size:14 final size:14
Alignment explanation
Indices: 108977--109012 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
108967 ATTTTTTAAT
108977 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
108991 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
109005 TGATTTGT
1 TGATTTGT
109013 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:109141 original size:19 final size:18
Alignment explanation
Indices: 109119--109177 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
109109 AAAAATGACT
109119 ATCGCAATACGAAATGAAA
1 ATCGCAA-ACGAAATGAAA
*
109138 ATCGC-AACG--A-GAGA
1 ATCGCAAACGAAATGAAA
*
109152 ATCGCAACGCGAAATGAAA
1 ATCGCAA-ACGAAATGAAA
109171 ATCGCAA
1 ATCGCAA
109178 CGCGAAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 2 0.06
17 3 0.09
18 2 0.06
19 15 0.47
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (18 bp):
ATCGCAAACGAAATGAAA
Found at i:109194 original size:19 final size:19
Alignment explanation
Indices: 109128--109184 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
109118 TATCGCAATA
109128 CGAAATGAAAATCGCAA--
1 CGAAATGAAAATCGCAACG
*
109145 CG--A-GAGAATCGCAACG
1 CGAAATGAAAATCGCAACG
109161 CGAAATGAAAATCGCAACG
1 CGAAATGAAAATCGCAACG
109180 CGAAA
1 CGAAA
109185 CTAAATTCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.09
Consensus pattern (19 bp):
CGAAATGAAAATCGCAACG
Found at i:109212 original size:19 final size:19
Alignment explanation
Indices: 109190--109274 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 19
109180 CGAAACTAAA
109190 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
109209 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
109224 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
109242 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
*
109261 TTCCGCGTCGCGAT
1 TT-CGCGTTGCGAT
109275 AGACATTAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
14 9 0.18
16 3 0.06
17 3 0.06
19 27 0.53
20 9 0.18
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.41
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:111740 original size:24 final size:24
Alignment explanation
Indices: 111713--111766 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
111703 TTGAAAAATC
*
111713 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* *
111737 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
111761 ATCAAA
1 ATCAAA
111767 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:112652 original size:20 final size:20
Alignment explanation
Indices: 112629--112695 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
112619 AGAATCTCGT
* *
112629 TGCGATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAA
**
112649 TGCGAACACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
*
112669 TGCGATTACGTAAATCGCAT
1 TGCGATTACGTAAATCGCAA
112689 TGCGATT
1 TGCGATT
112696 TTCCTAATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:112748 original size:20 final size:21
Alignment explanation
Indices: 112663--112755 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
112653 AACACGTAAA
* * *
112663 TCGCAATGCGA-TTACGTAAA
1 TCGCATTGCGATTTACCTAAT
*
112683 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAAT
* * *
112704 TCACATTGTGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAAT
*
112725 TCGCATTGCGATTTACGT-AT
1 TCGCATTGCGATTTACCTAAT
112745 TCGCATTGCGA
1 TCGCATTGCGA
112756 ATTAGGAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 23 0.37
21 39 0.63
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTACCTAAT
Found at i:112770 original size:41 final size:41
Alignment explanation
Indices: 112628--112777 Score: 115
Period size: 41 Copynumber: 3.7 Consensus size: 41
112618 CAGAATCTCG
* ** *
112628 TTGCGATTAGGAAAATCGCAATGCGA-ACACGTAAATCGCA
1 TTGCGATTACGAAAATCGCAATGCGATTTACGTAATTCGCA
* * * * * *
112668 ATGCGATTACGTAAATCGCATTGCGATTTTCCTAATTCACA
1 TTGCGATTACGAAAATCGCAATGCGATTTACGTAATTCGCA
* * ** * *
112709 TTGTGATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCA
1 TTGCGA-TTACGAAAATCGCAATGCGATTTACGTAATTCGCA
*
112750 TTGCGAATTAGGAAAATCGCAATGCGAT
1 TTGCG-ATTACGAAAATCGCAATGCGAT
112778 AGTTAGAATC
Statistics
Matches: 82, Mismatches: 25, Indels: 5
0.73 0.22 0.04
Matches are distributed among these distances:
40 22 0.27
41 37 0.45
42 23 0.28
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (41 bp):
TTGCGATTACGAAAATCGCAATGCGATTTACGTAATTCGCA
Found at i:115000 original size:353 final size:353
Alignment explanation
Indices: 114149--117756 Score: 6864
Period size: 353 Copynumber: 10.2 Consensus size: 353
114139 CATGTGTTTG
114149 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
114214 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
*
114279 TCTCAATGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
114344 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
114409 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTCTCTTTGTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTT-TCTTTGTTT
114474 TGAATGAACCAGCGTGTTATAGAATTGTA
325 TGAATGAACCAGCGTGTTATAGAATTGTA
*
114503 GATATGATACTTTTAGAAACCAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
*
114568 TATGATATCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
114633 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
114698 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
114763 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
114828 GAATGAACCAGCGTGTTATAGAATTGTA
326 GAATGAACCAGCGTGTTATAGAATTGTA
*
114856 GATATGATACTTTTAGAAAACAAAGGGTCAGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
*
114921 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATAAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
114986 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
* *
115051 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCTAGATGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
*
115116 TTGAAGCAGTCACTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
115181 GAATGAACCAGCGTGTTATAGAATTGTA
326 GAATGAACCAGCGTGTTATAGAATTGTA
*
115209 GATATGATACTTTTAGAAAACAAAGGGCCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
115274 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
*
115339 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCACAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
*
115404 TCAAGGTCCGTTGCTCCATGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
*
115469 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATACATTAATAGAGTAGCCTCTTTCTTTGTTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
115534 GAATGAACCAGCGTGTTATAGAATTGTA
326 GAATGAACCAGCGTGTTATAGAATTGTA
* *
115562 GATATGATACTTTTAGAAAAAAAAGGGTCGGTCTAATGTAGGTTTCACCCGTCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
*
115627 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCATATTCATGAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
*
115692 TCTCACTGCCAGAAGGAAAGATGCACGTTTGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
*
115757 TCAAGGTCCGTTGCTCCAAGTACTTGTACACAGTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
*
115822 TTGAAGCAGTCCCTTCCTCTAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
115887 GAATGAACCAGCGTGTTATAGAATTGTA
326 GAATGAACCAGCGTGTTATAGAATTGTA
115915 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTG-GATTTATGG
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCG-TTTATGG
115979 TTATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCC
65 TTATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCC
*
116044 TTCTCACTGCCAGAAGGAAAGATCCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAG
130 TTCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAG
* *
116109 TTCAAGGTCCGTTTCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCAGAGAAGGCTGACAA
195 TTCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAA
116174 GTTGAAGCA-TCCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTCTCTTTGT
260 GTTGAAGCAGT-CCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTT-TCTTTGT
116238 TTTGAATGAACCAGCGTGTTATAGAATTGTA
323 TTTGAATGAACCAGCGTGTTATAGAATTGTA
116269 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCC-TCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
116333 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
116398 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
* * *
116463 TCAAGGTCCGTTGCTCCATGTAATTGTACACAGTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
116528 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
*
116593 GAATGAACCAGCGTGTTATAGAATTATA
326 GAATGAACCAGCGTGTTATAGAATTGTA
*
116621 GATATGATATTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
116686 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
*
116751 TCTCACTGCCAGAAGGAAAGATGCACGTTTGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
* *
116816 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTATGTCCGATGCCAAGAAGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
116881 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
116946 GAATGAACCAGCGTGTTATAGAATTGTA
326 GAATGAACCAGCGTGTTATAGAATTGTA
*
116974 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCATTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
117039 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
117104 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
117169 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
*
117234 TTGAAGCAGTCCCTCCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTCTCTTTGTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTT-TCTTTGTTT
117299 TGAATGAACCAGCGTGTTATAGAATTGTA
325 TGAATGAACCAGCGTGTTATAGAATTGTA
117328 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCC-TCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
117392 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
66 TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
117457 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
131 TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
117522 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
196 TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
117587 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
261 TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
117652 GAATGAACCAGCGTGTTATAGAATTGTA
326 GAATGAACCAGCGTGTTATAGAATTGTA
117680 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
1 GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
117745 TATGATCTCTGA
66 TATGATCTCTGA
117757 ACTTCCTTCT
Statistics
Matches: 3185, Mismatches: 61, Indels: 17
0.98 0.02 0.01
Matches are distributed among these distances:
352 176 0.06
353 2519 0.79
354 490 0.15
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (353 bp):
GATATGATACTTTTAGAAAACAAAGGGTCGGTCTAATGTAGGTGTCACCCGTCTGCGTTTATGGT
TATGATCTCTGATTTACATGTTATGATGCACAGCCTAAGCAAATTCATGAGATCAAAGACTTCCT
TCTCACTGCCAGAAGGAAAGATGCACGTTCGGTGAAGATCAAGAAGAGCAGAGATGTAGTTAAGT
TCAAGGTCCGTTGCTCCAAGTACTTGTACACACTTTGTGTGTCCGATGCCGAGAAGGCTGACAAG
TTGAAGCAGTCCCTTCCTCCAGGTAAATTGTTATGCATTAATAGAGTAGCCTCTTTCTTTGTTTT
GAATGAACCAGCGTGTTATAGAATTGTA
Found at i:128668 original size:26 final size:26
Alignment explanation
Indices: 128638--128782 Score: 179
Period size: 26 Copynumber: 6.0 Consensus size: 26
128628 TAAAACGAAT
128638 CCATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
128664 CCATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
128690 -CAT---T--AAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
128710 CTATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
*
128736 -CATTAA-G--A--CATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
128756 CCATAAATGAAATGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAAGGATG
128782 C
1 C
128783 ATTAGGGCAT
Statistics
Matches: 101, Mismatches: 6, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
20 27 0.27
21 7 0.07
22 3 0.03
24 3 0.03
25 7 0.07
26 54 0.53
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.20
Consensus pattern (26 bp):
CCATAAATGAAATGCATGAAAGGATG
Found at i:128702 original size:20 final size:20
Alignment explanation
Indices: 128677--128821 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
128667 TAAATGAAAT
128677 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
128697 GCATGAAAGGATGCTATAAATGAAAT
1 GCATGAAAGGATGC-AT---T--AAG
128723 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
128743 ACATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
128769 GCATGAAAGGATGCATTAGG
1 GCATGAAAGGATGCATTAAG
*
128789 GCATGAAAGGATGCATTAGG
1 GCATGAAAGGATGCATTAAG
128809 GCATGAAAGGATG
1 GCATGAAAGGATG
128822 TCATAAATGA
Statistics
Matches: 106, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
20 62 0.58
21 5 0.05
22 2 0.02
24 2 0.02
25 5 0.05
26 30 0.28
ACGTcount: A:0.41, C:0.10, G:0.29, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:128718 original size:46 final size:46
Alignment explanation
Indices: 128651--128802 Score: 277
Period size: 46 Copynumber: 3.3 Consensus size: 46
128641 TAAATGAAAT
128651 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
*
128697 GCATGAAAGGATGCTATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
* *
128743 ACATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAGG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
128789 GCATGAAAGGATGC
1 GCATGAAAGGATGC
128803 ATTAGGGCAT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 101 1.00
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.20
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
Found at i:129522 original size:2 final size:2
Alignment explanation
Indices: 129517--129599 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
129507 CCATAAATGA
129517 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
129600 ACAGTGCATA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:133152 original size:17 final size:17
Alignment explanation
Indices: 133130--133163 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
133120 ATAGATGCCA
133130 ATATTT-TTTAAAGATAT
1 ATATTTCTTTAAA-ATAT
133147 ATATTTCTTTAAAATAT
1 ATATTTCTTTAAAATAT
133164 GTTAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATTTCTTTAAAATAT
Found at i:134584 original size:2 final size:2
Alignment explanation
Indices: 134577--134616 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
134567 ATGCATTAGA
134577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134617 GCATCAGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:137118 original size:20 final size:20
Alignment explanation
Indices: 137093--137136 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
137083 TTTGGATTGA
137093 CAAATGCTACAGTTACCTTT
1 CAAATGCTACAGTTACCTTT
137113 CAAATGCTACAGTTACCTTT
1 CAAATGCTACAGTTACCTTT
137133 CAAA
1 CAAA
137137 CACTTATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (20 bp):
CAAATGCTACAGTTACCTTT
Found at i:140996 original size:13 final size:13
Alignment explanation
Indices: 140978--141011 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
140968 TAAGATTTTC
*
140978 TTTGAAAATCATT
1 TTTGAAAATCAAT
140991 TTTG-AAATCAAT
1 TTTGAAAATCAAT
141003 TTTGAAAAT
1 TTTGAAAAT
141012 TACTCCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:142161 original size:15 final size:15
Alignment explanation
Indices: 142141--142169 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
142131 AATCTCTCTT
142141 TCGTTATCTAAACCC
1 TCGTTATCTAAACCC
142156 TCGTTATCTAAACC
1 TCGTTATCTAAACC
142170 AAAGGTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (15 bp):
TCGTTATCTAAACCC
Found at i:143277 original size:23 final size:23
Alignment explanation
Indices: 143250--143327 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 23
143240 CACTCCTGAG
143250 TGTATCGATACACATTCAAGGAA
1 TGTATCGATACACATTCAAGGAA
*
143273 TGTATCGGTACACATTCATA-G--
1 TGTATCGATACACATTCA-AGGAA
* * *
143294 TGTATCGATACATA-GCGAGGAA
1 TGTATCGATACACATTCAAGGAA
143316 -GTATCGATACAC
1 TGTATCGATACAC
143328 TTTGCACAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 23 0.51
23 18 0.40
24 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (23 bp):
TGTATCGATACACATTCAAGGAA
Found at i:143299 original size:21 final size:20
Alignment explanation
Indices: 143248--143305 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 20
143238 TACACTCCTG
143248 AGTGTATCGATACACATTCA
1 AGTGTATCGATACACATTCA
*
143268 AGGAATGTATCGGTACACATTCA
1 A-G--TGTATCGATACACATTCA
143291 TAGTGTATCGATACA
1 -AGTGTATCGATACA
143306 TAGCGAGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.03
21 12 0.38
23 18 0.56
24 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (20 bp):
AGTGTATCGATACACATTCA
Found at i:149257 original size:22 final size:22
Alignment explanation
Indices: 149209--149259 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
149199 CCCTTCGATA
* * * *
149209 AATTCCAGGAGCTTCTTCGACG
1 AATTCCAGAAGCTCCCTCAACG
*
149231 GATTCCAGAAGCTCCCTCAACG
1 AATTCCAGAAGCTCCCTCAACG
149253 AATTCCA
1 AATTCCA
149260 AGAGCCCCCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (22 bp):
AATTCCAGAAGCTCCCTCAACG
Found at i:157528 original size:13 final size:14
Alignment explanation
Indices: 157500--157528 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
157490 ATATTTTATA
157500 ATATTTTTACTATT
1 ATATTTTTACTATT
157514 ATATTTTTACT-TT
1 ATATTTTTACTATT
157527 AT
1 AT
157529 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:158200 original size:94 final size:94
Alignment explanation
Indices: 158034--158219 Score: 363
Period size: 94 Copynumber: 2.0 Consensus size: 94
158024 ACATTCCATC
158034 TTCCATGCGGAGAGTGCACGATCACGCTTGAGGATGTTTCTATGCACCTGGGGCTTCCAGTGGAT
1 TTCCATGCGGAGAGTGCACGATCACGCTTGAGGATGTTTCTATGCACCTGGGGCTTCCAGTGGAT
158099 GGAGATGTGATATCGGGGATAGCTTCCAA
66 GGAGATGTGATATCGGGGATAGCTTCCAA
*
158128 TTCCGTGCGGAGAGTGCACGATCACGCTTGAGGATGTTTCTATGCACCTGGGGCTTCCAGTGGAT
1 TTCCATGCGGAGAGTGCACGATCACGCTTGAGGATGTTTCTATGCACCTGGGGCTTCCAGTGGAT
158193 GGAGATGTGATATCGGGGATAGCTTCC
66 GGAGATGTGATATCGGGGATAGCTTCC
158220 GGTTCTTGGA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (94 bp):
TTCCATGCGGAGAGTGCACGATCACGCTTGAGGATGTTTCTATGCACCTGGGGCTTCCAGTGGAT
GGAGATGTGATATCGGGGATAGCTTCCAA
Found at i:159446 original size:18 final size:18
Alignment explanation
Indices: 159423--159462 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
159413 CCAGAAGCCA
159423 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
159441 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
159459 CCGC
1 CCGC
159463 CGTCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:163771 original size:51 final size:50
Alignment explanation
Indices: 163653--163775 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 50
163643 CTACGTGGCA
* * * * *
163653 TATAGCGCGCTGCAGGGGCCGCGCTATACCCACGTGGCGCCAACTCACCG
1 TATAGCGCGATGCAGGGGGCGCACTATACCCACGTGACGCCAAATCACCG
* * *
163703 TATAGCACGATGTAGGGGGCGCACTATACCCCACGTGACGCCAAATCATCG
1 TATAGCGCGATGCAGGGGGCGCACTATA-CCCACGTGACGCCAAATCACCG
163754 TATAGCGC-AGTGCAGGGGGCGC
1 TATAGCGCGA-TGCAGGGGGCGC
163776 GCTTTACTGC
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 24 0.39
51 37 0.61
ACGTcount: A:0.22, C:0.32, G:0.31, T:0.15
Consensus pattern (50 bp):
TATAGCGCGATGCAGGGGGCGCACTATACCCACGTGACGCCAAATCACCG
Found at i:165515 original size:24 final size:24
Alignment explanation
Indices: 165488--165537 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
165478 TCTAACTGCC
165488 TCTTTAATAGTATTTACAATAGCA
1 TCTTTAATAGTATTTACAATAGCA
165512 TCTTTAATAGTATTTACAATAGCA
1 TCTTTAATAGTATTTACAATAGCA
165536 TC
1 TC
165538 AATCAATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (24 bp):
TCTTTAATAGTATTTACAATAGCA
Found at i:173912 original size:19 final size:19
Alignment explanation
Indices: 173888--173929 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
173878 TGTATCGATG
*
173888 CACTAACTGTGCATTGGTA
1 CACTAACTGTGCATCGGTA
*
173907 CACTAATTGTGCATCGGTA
1 CACTAACTGTGCATCGGTA
173926 CACT
1 CACT
173930 CAAAGCATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (19 bp):
CACTAACTGTGCATCGGTA
Found at i:176746 original size:12 final size:12
Alignment explanation
Indices: 176720--176758 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
176710 ACCTGACTTG
176720 CTCTTCTCGGCTT
1 CTCTTCTC-GCTT
176733 CTCTTCTCGCTT
1 CTCTTCTCGCTT
176745 CTCTTCTCGCTT
1 CTCTTCTCGCTT
176757 CT
1 CT
176759 ATAACCTACG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.69
13 8 0.31
ACGTcount: A:0.00, C:0.41, G:0.10, T:0.49
Consensus pattern (12 bp):
CTCTTCTCGCTT
Found at i:178051 original size:63 final size:62
Alignment explanation
Indices: 177929--178062 Score: 146
Period size: 63 Copynumber: 2.1 Consensus size: 62
177919 TATTTAACAT
* * * * *
177929 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTTGATGTTTTCATTTTAAGGG
1 GTGCATCGATGCACTAACCATGCATCGATACACAAAGCA-CTTCGATGTTTTCATTTTAAAGA
* * *
177992 GTGCATCGATGCACTAACTATGCATCGATACAATCAAAGCA-TTCGGTG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTAACCATGCATCGATAC-A-CAAAGCACTTCGATGTTTTCAT-TTTAAAGA
178055 GTGCATCG
1 GTGCATCG
178063 GTACACATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 5 0.08
63 48 0.80
64 1 0.02
65 6 0.10
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCACTAACCATGCATCGATACACAAAGCACTTCGATGTTTTCATTTTAAAGA
Found at i:182725 original size:22 final size:20
Alignment explanation
Indices: 182699--182744 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
182689 TGGTGAGGTA
182699 GTATCAATACTCTATTCATAGG
1 GTATCAATA--CTATTCATAGG
* *
182721 GTATCGATACTGTTCATAGG
1 GTATCAATACTATTCATAGG
182741 GTAT
1 GTAT
182745 TGATACCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
22 8 0.36
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (20 bp):
GTATCAATACTATTCATAGG
Found at i:182738 original size:20 final size:20
Alignment explanation
Indices: 182713--182750 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
182703 CAATACTCTA
182713 TTCATAGGGTATCGATACTG
1 TTCATAGGGTATCGATACTG
*
182733 TTCATAGGGTATTGATAC
1 TTCATAGGGTATCGATAC
182751 CTAAGTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (20 bp):
TTCATAGGGTATCGATACTG
Found at i:182981 original size:27 final size:27
Alignment explanation
Indices: 182949--183002 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
182939 ATATTGAAAG
*
182949 GTCGATATCGATACTAAAGGGCTTAGT
1 GTCGATATCAATACTAAAGGGCTTAGT
182976 GTCGATATCAATACTAAAGGGCTTAGT
1 GTCGATATCAATACTAAAGGGCTTAGT
183003 ATAGATAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (27 bp):
GTCGATATCAATACTAAAGGGCTTAGT
Found at i:183009 original size:27 final size:27
Alignment explanation
Indices: 182952--183009 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
182942 TTGAAAGGTC
* * *
182952 GATATCGATACTAAAGGGCTTAGTGTC
1 GATATCAATACTAAAGGGCTTAGTATA
182979 GATATCAATACTAAAGGGCTTAGTATA
1 GATATCAATACTAAAGGGCTTAGTATA
183006 GATA
1 GATA
183010 ACATCATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (27 bp):
GATATCAATACTAAAGGGCTTAGTATA
Found at i:185895 original size:13 final size:13
Alignment explanation
Indices: 185877--185906 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
185867 ACTTACTAAT
*
185877 GAGAGAAAATTAG
1 GAGAGAAAACTAG
185890 GAGAGAAAACTAG
1 GAGAGAAAACTAG
185903 GAGA
1 GAGA
185907 ATATTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.33, T:0.10
Consensus pattern (13 bp):
GAGAGAAAACTAG
Found at i:185930 original size:3 final size:3
Alignment explanation
Indices: 185922--185962 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
185912 TTTGTATTGT
*
185922 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
185963 TATTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:185967 original size:3 final size:3
Alignment explanation
Indices: 185961--186041 Score: 155
Period size: 3 Copynumber: 27.3 Consensus size: 3
185951 AATAATAGTA
185961 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
186008 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
186042 CAGTTTCTAA
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:186643 original size:19 final size:19
Alignment explanation
Indices: 186609--186645 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
186599 ATGACCAACA
* *
186609 AAATCGCAATGTGATCTCT
1 AAATCGCAACGCGATCTCT
186628 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
186646 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:186736 original size:21 final size:21
Alignment explanation
Indices: 186690--186745 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
186680 GATTTTGACT
*
186690 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAA
* * *
186711 TTCGCGTTGCGATTTTAGAAA
1 ATCGCATTGCGATTTTACAAA
*
186732 ATCGCAATGCGATT
1 ATCGCATTGCGATT
186746 CTGACTATCG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (21 bp):
ATCGCATTGCGATTTTACAAA
Found at i:186764 original size:41 final size:41
Alignment explanation
Indices: 186729--186827 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
186719 GCGATTTTAG
186729 AAAATCGCAATGCGATTCTGACTATCGCAACGCGATAATAC
1 AAAATCGCAATGCGATTCTGACTATCGCAACGCGATAATAC
* * * ***
186770 ATAATTGCAACGCGATTCTGACTATCGCGTTGCGATAATAC
1 AAAATCGCAATGCGATTCTGACTATCGCAACGCGATAATAC
186811 AAAATCGCAATGCGATT
1 AAAATCGCAATGCGATT
186828 TTCAAAGCGT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (41 bp):
AAAATCGCAATGCGATTCTGACTATCGCAACGCGATAATAC
Found at i:186998 original size:22 final size:22
Alignment explanation
Indices: 186972--187022 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
186962 CTACGGCGAC
186972 ATCCGTCCCCATCTCCGACAAA
1 ATCCGTCCCCATCTCCGACAAA
* *
186994 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACAAA
187016 ATCCGTC
1 ATCCGTC
187023 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.45, G:0.14, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACAAA
Found at i:187420 original size:19 final size:19
Alignment explanation
Indices: 187398--187441 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
187388 AAATCGCAAC
187398 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCA-TTTCGCGTT
187417 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
187436 GCGATT
1 GCGATT
187442 ATCTCATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:190690 original size:2 final size:2
Alignment explanation
Indices: 190678--190720 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
190668 GTATGCGTGG
*
190678 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
190719 AT
1 AT
190721 GAAAGGTGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:195883 original size:31 final size:31
Alignment explanation
Indices: 195799--195891 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 31
195789 GAGTCGAGGG
* *
195799 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTAT-TTCTAAGGAACATATGGACAGTAT
* ***
195831 TACCTATGTCTTTCGAGACATATGGACAGTA-
1 TACCTATTTCTAAGGA-ACATATGGACAGTAT
195862 TACCTATATTCTAAGGAACATATGGACAGT
1 TACCTAT-TTCTAAGGAACATATGGACAGT
195892 TCACCTAGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
31 25 0.50
32 25 0.50
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
TACCTATTTCTAAGGAACATATGGACAGTAT
Done.