Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002986.1 Hibiscus syriacus cultivar Beakdansim tig00006175_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: 103555
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:5309 original size:7 final size:7
Alignment explanation
Indices: 5299--5328 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5289 AAAATGAAAA
5299 AAAATGC
1 AAAATGC
5306 AAAATGC
1 AAAATGC
5313 AAAATGC
1 AAAATGC
5320 -AAATGC
1 AAAATGC
5326 AAA
1 AAA
5329 TATAAATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAATGC
Found at i:5318 original size:14 final size:13
Alignment explanation
Indices: 5299--5328 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
5289 AAAATGAAAA
5299 AAAATGCAAAATGC
1 AAAATGC-AAATGC
5313 AAAATGCAAATGC
1 AAAATGCAAATGC
5326 AAA
1 AAA
5329 TATAAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGCAAATGC
Found at i:5409 original size:20 final size:20
Alignment explanation
Indices: 5371--5408 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5361 AATTATGCAA
5371 TACAAAAGCAAACATAAAAG
1 TACAAAAGCAAACATAAAAG
*
5391 TACAAATGCAAA-ATAAAA
1 TACAAAAGCAAACATAAAA
5409 ATGTAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.66, C:0.13, G:0.08, T:0.13
Consensus pattern (20 bp):
TACAAAAGCAAACATAAAAG
Found at i:5573 original size:43 final size:44
Alignment explanation
Indices: 5509--5595 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
5499 CCGTGCATCA
* * *
5509 AACAAAACTTTTACATGTAGGGGACAGCTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
5553 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
5596 TCTAAAGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 30 0.79
44 8 0.21
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:7018 original size:29 final size:27
Alignment explanation
Indices: 6973--7032 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
6963 TACTTGAAAA
*
6973 AAAAATAATATACATATAAATATTATG
1 AAAAATAATATACATATAAAAATTATG
* *
7000 AAAAATAATAAGTATATATAAAAATTTTG
1 AAAAATAAT-A-TACATATAAAAATTATG
7029 AAAA
1 AAAA
7033 GAAAGAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 9 0.32
28 1 0.04
29 18 0.64
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAAATAATATACATATAAAAATTATG
Found at i:8003 original size:21 final size:21
Alignment explanation
Indices: 7979--8018 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7969 AGTGACTAAA
*
7979 ATAAATAAAAT-TAAGAATAAC
1 ATAAACAAAATGTAA-AATAAC
8000 ATAAACAAAATGTAAAATA
1 ATAAACAAAATGTAAAATA
8019 TCAAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAAACAAAATGTAAAATAAC
Found at i:9039 original size:16 final size:15
Alignment explanation
Indices: 9014--9043 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9004 CGCCACCACG
9014 TGATCCCTAGGGTTA
1 TGATCCCTAGGGTTA
9029 TGATACCCTAGGGTT
1 TGAT-CCCTAGGGTT
9044 TCAAACTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
TGATCCCTAGGGTTA
Found at i:9241 original size:3 final size:3
Alignment explanation
Indices: 9233--9312 Score: 79
Period size: 3 Copynumber: 26.3 Consensus size: 3
9223 GCTTGTAATT
* * *
9233 TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TTA TAT TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * *
9279 TAA TTA TAA TTA TAA TTA TTA TTA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9313 TTTAAATATA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
3 62 0.97
4 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (3 bp):
TAA
Found at i:9248 original size:12 final size:12
Alignment explanation
Indices: 9233--9313 Score: 99
Period size: 12 Copynumber: 6.7 Consensus size: 12
9223 GCTTGTAATT
*
9233 TAATAATAATAA
1 TAATAATTATAA
*
9245 TAATAATAATAA
1 TAATAATTATAA
*
9257 TAATATATTATAT
1 TAATA-ATTATAA
9270 TAATAATTATAA
1 TAATAATTATAA
*
9282 TTATAATTATAA
1 TAATAATTATAA
* *
9294 TTATTATTATAA
1 TAATAATTATAA
9306 TAATAATT
1 TAATAATT
9314 TTAAATATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
12 51 0.84
13 10 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATAATTATAA
Found at i:9322 original size:18 final size:18
Alignment explanation
Indices: 9228--9323 Score: 83
Period size: 18 Copynumber: 5.5 Consensus size: 18
9218 ATTGAGCTTG
**
9228 TAATT-TAATAATAATAA
1 TAATTATAATAATAATTT
* *
9245 TAATAATAATAATAA-TA
1 TAATTATAATAATAATTT
* *
9262 T-ATTATATTAATAATTA
1 TAATTATAATAATAATTT
*
9279 TAATTATAATTATAATTAT
1 TAATTATAATAATAATT-T
9298 T-ATTATAATAATAATTT
1 TAATTATAATAATAATTT
*
9315 TAAATATAA
1 TAATTATAA
9324 AATGAAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
16 11 0.17
17 11 0.17
18 42 0.65
19 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTATAATAATAATTT
Found at i:9323 original size:12 final size:12
Alignment explanation
Indices: 9272--9323 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
9262 TATTATATTA
*
9272 ATAATTATAATT
1 ATAATTATAAAT
*
9284 ATAATTATAATT
1 ATAATTATAAAT
*
9296 ATTATTAT-AAT
1 ATAATTATAAAT
*
9307 AATAATTTTAAAT
1 -ATAATTATAAAT
9320 ATAA
1 ATAA
9324 AATGAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 2 0.06
12 29 0.85
13 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAATTATAAAT
Found at i:13608 original size:161 final size:159
Alignment explanation
Indices: 13280--13609 Score: 352
Period size: 161 Copynumber: 2.1 Consensus size: 159
13270 ATTTACTTAG
*
13280 AAATATCAGAAAAAGACTTGTAGTTGCTTTAAGACAATCATTTTCTTAATATTAAAAAATAAATA
1 AAATATCAGAAAAAGACTTCTAGTTGCTTTAAGACAATCATTTTCTTAATATTAAAAAATAAATA
* * *
13345 AATATTAATAAAACATTTCTCTAAAAATAATTAAAATAAATTAAATTAATATATATATATATATA
66 AATATT-ATAAAACATTTCTATAAAAATAATTAAAATAAATTAAATTAAAATAGATATATATATA
* ** * *
13410 ATTTATAAAAATAGGATATTTAGTTATTTAA
130 ATTTATAAAAATA-GATATATAGAAAATAAA
*
13441 AAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAA-CTATTTTCTTAATATTAAAAAATAAAT
1 AAATATCAGAAAAAGACTTCTAGTTGCTTTAAGACAATC-ATTTTCTTAATATTAAAAAATAAAT
* * * * *
13505 AAATA-T-TAAAATATGTT-TATAAAAATAATTTATATTAAATTAAATTTATAAATAGGATTTTT
65 AAATATTATAAAACAT-TTCTATAAAAATAA-TTAAAATAAATTAAA-TTA-AAATA-GATATAT
*
13567 ATTTAATATATATAAAAAATA-A-A-ATA-AAAATAAA
125 ATATAAT-T-TAT-AAAAATAGATATATAGAAAATAAA
13601 TAAATATCA
1 -AAATATCA
13610 CTTATTATAT
Statistics
Matches: 143, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
158 17 0.12
159 15 0.10
160 9 0.06
161 79 0.55
162 11 0.08
163 2 0.01
164 3 0.02
165 7 0.05
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (159 bp):
AAATATCAGAAAAAGACTTCTAGTTGCTTTAAGACAATCATTTTCTTAATATTAAAAAATAAATA
AATATTATAAAACATTTCTATAAAAATAATTAAAATAAATTAAATTAAAATAGATATATATATAA
TTTATAAAAATAGATATATAGAAAATAAA
Found at i:14974 original size:3 final size:3
Alignment explanation
Indices: 14966--15018 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
14956 TTTGGGCCTG
*
14966 TAA TAA TAA T-T TAA TTAA TAA TAA TAA TAA TAAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
15011 TAA -AA TAA
1 TAA TAA TAA
15019 AATGAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
2 5 0.12
3 32 0.74
4 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:15016 original size:16 final size:16
Alignment explanation
Indices: 14982--15030 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
14972 TAATTTAATT
14982 AATAATAATAATAAT-A
1 AATAATAATAA-AATAA
14998 AATAATAATAAAATAA
1 AATAATAATAAAATAA
*
15014 AATAA-AATGAAA-AA
1 AATAATAATAAAATAA
15028 AAT
1 AAT
15031 TGATGTCTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 17 0.55
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AATAATAATAAAATAA
Found at i:15018 original size:13 final size:16
Alignment explanation
Indices: 14967--15014 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
14957 TTGGGCCTGT
* *
14967 AATAATAAT-TTAATT
1 AATAATAATAATAATA
14982 AATAATAATAATAATA
1 AATAATAATAATAATA
14998 AATAATAATAA-AATA
1 AATAATAATAATAATA
15013 AA
1 AA
15015 ATAAAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.50
16 15 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:15020 original size:10 final size:11
Alignment explanation
Indices: 14966--15021 Score: 62
Period size: 10 Copynumber: 5.1 Consensus size: 11
14956 TTTGGGCCTG
**
14966 TAATAATAATT
1 TAATAATAAAA
14977 TAATTAATAATAA
1 TAA-TAATAA-AA
14990 TAATAAT-AAA
1 TAATAATAAAA
15000 TAATAATAAAA
1 TAATAATAAAA
15011 TAA-AATAAAA
1 TAATAATAAAA
15021 T
1 T
15022 GAAAAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 17 0.43
11 10 0.25
12 10 0.25
13 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:24382 original size:2 final size:2
Alignment explanation
Indices: 24375--24415 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
24365 TTTATTTTTG
24375 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24416 TTGAGTTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27998 original size:3 final size:3
Alignment explanation
Indices: 27990--28014 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27980 ATATGAACTT
27990 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
28015 CAAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:28996 original size:2 final size:2
Alignment explanation
Indices: 28989--29016 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
28979 TGTGAAAATA
28989 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
29017 TACATGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30745 original size:33 final size:33
Alignment explanation
Indices: 30703--30797 Score: 190
Period size: 33 Copynumber: 2.9 Consensus size: 33
30693 AGTTGACAAG
30703 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
30736 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
30769 TTGGAAATTTCATCTTGGTTGGTGGCCAA
1 TTGGAAATTTCATCTTGGTTGGTGGCCAA
30798 ACTTTGAACA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (33 bp):
TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
Found at i:32633 original size:21 final size:21
Alignment explanation
Indices: 32591--32633 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32581 TTTCTGGGCT
*
32591 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
32612 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
32633 A
1 A
32634 ACGAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:32706 original size:23 final size:22
Alignment explanation
Indices: 32664--32706 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32654 TGCCAGAGGG
*
32664 GAACCGATACCCCCACAGGAGA
1 GAACCGATACCCCCAAAGGAGA
*
32686 GAACCGATTCCCCCTAAAGGA
1 GAACCGATACCCCC-AAAGGA
32707 AAATTGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.35, C:0.35, G:0.21, T:0.09
Consensus pattern (22 bp):
GAACCGATACCCCCAAAGGAGA
Found at i:34507 original size:103 final size:103
Alignment explanation
Indices: 34179--34499 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
34169 GTCGAGGGTC
*
34179 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
34244 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
34282 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
34347 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
34385 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* ** *
34450 TTGATCCTTAGTGTATATATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
34488 TGTGTGGTCCTT
1 TATGTGGTCCTT
34500 ATGGACATTA
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:34551 original size:23 final size:24
Alignment explanation
Indices: 34521--34575 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
34511 TATATGGAAC
34521 TACGGTGCAATTCTACGCGGCA-T
1 TACGGTGCAATTCTACGCGGCACT
* *
34544 TACGGTGCAATTCTATGTGGCACT
1 TACGGTGCAATTCTACGCGGCACT
34568 T-CGGTGCA
1 TACGGTGCA
34576 TTTATATGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 27 0.93
24 2 0.07
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (24 bp):
TACGGTGCAATTCTACGCGGCACT
Found at i:36478 original size:103 final size:103
Alignment explanation
Indices: 36299--36619 Score: 615
Period size: 103 Copynumber: 3.1 Consensus size: 103
36289 GTCGAGGGTT
36299 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
36364 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
36402 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
36467 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
36505 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
36570 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
36608 TATGTGGTCCTT
1 TATGTGGTCCTT
36620 ATGGGCATTA
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 215 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:36703 original size:23 final size:23
Alignment explanation
Indices: 36635--36695 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
36625 CATTATTATA
*
36635 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
36658 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
36681 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
36696 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:39450 original size:21 final size:21
Alignment explanation
Indices: 39408--39450 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
39398 TTTCTGGGCT
*
39408 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
39429 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
39450 A
1 A
39451 ACGAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:39967 original size:2 final size:2
Alignment explanation
Indices: 39960--39995 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
39950 AAGATCTTTG
39960 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
39996 TACTACGTGA
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:41334 original size:103 final size:103
Alignment explanation
Indices: 41006--41326 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
40996 GTCGAGGGTC
*
41006 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
41071 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
41109 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
41174 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
41212 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
41277 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
41315 TATGTGGTCCTT
1 TATGTGGTCCTT
41327 ATGGACATTA
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 214 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:41410 original size:23 final size:23
Alignment explanation
Indices: 41342--41402 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
41332 CATTATTATA
*
41342 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
41365 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
41388 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
41403 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:48314 original size:22 final size:22
Alignment explanation
Indices: 48286--48339 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
48276 CTCTGCATGT
48286 AAAATATGAACCTTTGAAACCG
1 AAAATATGAACCTTTGAAACCG
48308 AAAATATGAACCTTTGAAACCG
1 AAAATATGAACCTTTGAAACCG
48330 AAAATATGAA
1 AAAATATGAA
48340 AATCAACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (22 bp):
AAAATATGAACCTTTGAAACCG
Found at i:52932 original size:15 final size:15
Alignment explanation
Indices: 52912--52947 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
52902 TATAATCATT
52912 AATAAATAAATATAA
1 AATAAATAAATATAA
*
52927 AATAAATAAATTTAA
1 AATAAATAAATATAA
*
52942 TATAAA
1 AATAAA
52948 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAAATAAATATAA
Found at i:53783 original size:14 final size:15
Alignment explanation
Indices: 53687--53789 Score: 100
Period size: 15 Copynumber: 6.5 Consensus size: 15
53677 TAATAAGGTT
53687 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
53702 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
53717 AATTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
53732 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
53751 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
53769 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
53783 ATTTATT
1 ATTTATT
53790 AGTATGGATT
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 12 0.16
15 43 0.57
16 4 0.05
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 6 0.08
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:53820 original size:22 final size:22
Alignment explanation
Indices: 53740--53834 Score: 82
Period size: 22 Copynumber: 4.2 Consensus size: 22
53730 TAAATTATTA
*
53740 TAAAATATGGATTGATTTATTT
1 TAAAATATGGATTGATTTAATT
** * **
53762 TAAAATAATTTATTTTAAATAATT
1 TAAAAT-ATGGA-TTGATTTAATT
* *
53786 TATTAGTATGGATTGATTTAATT
1 TA-AAATATGGATTGATTTAATT
*
53809 TAAAATATGGATTGATTTATTT
1 TAAAATATGGATTGATTTAATT
53831 TAAA
1 TAAA
53835 TAATTTATTA
Statistics
Matches: 54, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
22 27 0.50
23 13 0.24
24 12 0.22
25 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (22 bp):
TAAAATATGGATTGATTTAATT
Found at i:53834 original size:54 final size:54
Alignment explanation
Indices: 53769--54987 Score: 606
Period size: 54 Copynumber: 22.4 Consensus size: 54
53759 TTTTAAAATA
53769 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
* *
53823 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
*
53877 ATTTATTTTAAA-AATTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAA-TTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
* * * * * * *
53931 ATTTATTATT--GTAGTTGTA-T-GAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATT-TTAAATAATT-TATTAGTATGGATTGA--TT---TAATTTA-AAATATGGATTG
** ** * ** * *
53989 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTAATTTA-AAATATGGATTG
* *
54043 ATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTAATTTAAAATATGGATTG
* *
54101 ATTTA--TT--AT--TTTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTAATTT-AA-AA--TA-T-G---G-ATTG
** ** * ** * *
54159 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTAATTTA-AAATATGGATTG
** ** * ** * *
54213 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTAATTTA-AAATATGGATTG
* * * *
54267 ATTTATTTTAAATAATTTTATTTGTACGGATTGATTTATTTTAAAATATGTATTG
1 ATTTATTTTAAATAA-TTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
* * * * ** * ** * *
54322 ATTTATTATT--GTAGTTGTATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATT-TTAAATAATT-TAT-TAGT-ATGGA-TTGATTTAATTTA-AAATATGGATTG
* * ***
54380 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TT-ATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATT-TA-AAATATGGATTG
*
54428 ATTTA---T---TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
*
54476 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
*
54530 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
* ** * ** * * ** * *
54584 ATTTATTGTAGTTGTATGGATT-G-AT-TATTTTAAATAATTTATTAGTATGGA-TG
1 ATTTATTTTAAAT-AATTTATTAGTATGGA-TTGATTTAATTTA-AAATATGGATTG
*
54637 ATTTATTTTAAATAATTTATTAGTATGGATTGATTT-ATTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
* * * * * * ***
54686 ATTAGTATGGATTGATTTATTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATT--TAT--TTTAAATAATTTATTAGTATGGATTGATTTA--ATT-TA-AAATATGGATTG
*
54747 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
*
54801 A-TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTTAATAATTTATTTGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-ATTTAA-AA--TA--TG----GATTG
* * ***
54864 ATTTATTTT-AA-AA--TATT-G-ATTGATTTA-TT-ATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATT-TA-AAATATGGATTG
* *
54912 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
54966 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
54988 TTGTAGTTGT
Statistics
Matches: 916, Mismatches: 140, Indels: 218
0.72 0.11 0.17
Matches are distributed among these distances:
44 2 0.00
45 1 0.00
46 2 0.00
47 6 0.01
48 69 0.08
49 16 0.02
50 10 0.01
51 8 0.01
52 45 0.05
53 83 0.09
54 406 0.44
55 46 0.05
56 25 0.03
57 36 0.04
58 87 0.09
59 23 0.03
60 9 0.01
61 6 0.01
62 8 0.01
63 19 0.02
64 9 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTG
Found at i:53852 original size:32 final size:31
Alignment explanation
Indices: 53814--53921 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 31
53804 TAATTTAAAA
53814 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAA-AATTTATTAG
53846 TATGGATTGATTTATTTT-AAAA--TA-T-G
1 TATGGATTGATTTATTTTAAAAATTTATTAG
53872 -A---ATTGATTTATTTTAAAAATTTTATTAG
1 TATGGATTGATTTATTTTAAAAA-TTTATTAG
53900 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
53922 TATGGATTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 20
0.77 0.00 0.23
Matches are distributed among these distances:
22 13 0.20
23 4 0.06
25 1 0.02
26 3 0.05
27 2 0.03
28 3 0.05
29 1 0.02
30 2 0.03
31 2 0.03
32 35 0.53
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (31 bp):
TATGGATTGATTTATTTTAAAAATTTATTAG
Found at i:53871 original size:22 final size:22
Alignment explanation
Indices: 53846--53889 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
53836 AATTTATTAG
*
53846 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
53868 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
53890 ATTTTATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:53968 original size:80 final size:80
Alignment explanation
Indices: 53868--54648 Score: 478
Period size: 80 Copynumber: 9.7 Consensus size: 80
53858 TATTTTAAAA
53868 TATGAATTGATTTATTTTAAA-AATTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 TATGAATTGATTTATTTTAAATAA-TTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
*
53932 TTTATTATTGTAGTTG
65 TTTATTATTTTAGTTG
53948 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
54013 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TTTAGTT-G
* *
54034 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAATATGGAT
54099 TGATTTATTATTTTAGTTG
62 TGATTTATTATTTTAGTTG
* * *
54118 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTTATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
54183 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TTTAGTT-G
* ** ** * ** * * *
54204 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGAATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
*
54266 GATTTATTTTAAATAATTTTATTTG
63 GATTTA---T---T-ATTTTAGTTG
* * * * * *** *
54291 TACGGATTGATTTATTTT-AA-AA--TA-T-GTATTGATTTA-TTATTGTAGTTGTATGGATTAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGA
54349 TTTATTTTAAATAATTTA-TTAG
65 TTTA--TT--AT--TTTAGTT-G
* * * * ***
54371 TATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATGGATTGA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGA
*
54429 TTTATTAATTTA-TTAG
65 TTTATTATTTTAGTT-G
* ** ** * ** * * *
54445 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGAATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
***
54507 GA--T-TTATTTTA-AAA
63 GATTTATTATTTTAGTTG
*
54521 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA-
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
54585 -T-TTATTGTAGTTG
66 TTATTATTTTAGTTG
*
54598 TATGGATTGA-TTATTTTAAATAATTTATTAGTATGGA-TGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
54649 TAATTTATTA
Statistics
Matches: 604, Mismatches: 52, Indels: 95
0.80 0.07 0.13
Matches are distributed among these distances:
74 26 0.04
75 17 0.03
76 74 0.12
77 29 0.05
78 15 0.02
79 7 0.01
80 178 0.29
81 23 0.04
82 10 0.02
83 6 0.01
84 46 0.08
85 19 0.03
86 88 0.15
87 26 0.04
88 4 0.01
89 3 0.00
90 33 0.05
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (80 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTTTAGTTG
Found at i:53989 original size:32 final size:32
Alignment explanation
Indices: 53947--54713 Score: 428
Period size: 32 Copynumber: 25.8 Consensus size: 32
53937 TATTGTAGTT
*
53947 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
53979 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54002 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
54033 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
54065 GTATGGATTGATTGA-TTT--AT--TTTA-AA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
54091 ATATGGATTGATTTA--TT--AT--TTTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
54117 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
54149 GTAT-GA---ATTTA-TTT--AT--TTTA-AA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
54171 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54203 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54226 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
54257 GTATGGATTGATTTATTTTAAATAATTTTATTT
1 GTATGGATTGATTTATTTTAAATAA-TTTATTA
* *
54290 GTACGGATTGATTTATTTTAAA-ATATGTATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * *
54321 G-ATTTATT-ATTGTAGTTGTATGGATTAATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAATAATTTATTA
* * * * * *
54355 -T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
* * *
54392 ATATAGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
54418 GTATGGATTGATTTA---T---TAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54444 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54467 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54498 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54521 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
54552 GTATGGATTGATTTATTTTAAAATATGGATTGATTTA
1 GTATGGATTGATTTATTTT-AAATA---ATTTA-TTA
* *
54589 TTGTAGTTGTATGGATTGATTATTTTAAATAATTTATTA
1 --GTA--TGGATTGA-T--TTATTTTAAATAATTTATTA
54628 GTATGGA-TGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54659 GTATGGATTGATTTA-TTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
54690 GTATGGATTGATTTATTTAAAATA
1 GTATGGATTGATTTATTTTAAATA
54714 TGGATTGATT
Statistics
Matches: 597, Mismatches: 41, Indels: 194
0.72 0.05 0.23
Matches are distributed among these distances:
22 60 0.10
23 22 0.04
24 1 0.00
25 17 0.03
26 75 0.13
27 10 0.02
28 20 0.03
29 13 0.02
30 11 0.02
31 87 0.15
32 177 0.30
33 39 0.07
34 11 0.02
35 5 0.01
36 5 0.01
37 6 0.01
38 1 0.00
39 7 0.01
40 11 0.02
41 6 0.01
42 1 0.00
43 5 0.01
44 7 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:54005 original size:22 final size:22
Alignment explanation
Indices: 53980--54022 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
53970 AATTTATTAG
53980 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
54002 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
54023 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:54175 original size:22 final size:22
Alignment explanation
Indices: 54150--54192 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
54140 AATTTATTAG
*
54150 TATGAATTTATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
54172 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
54193 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:54229 original size:22 final size:22
Alignment explanation
Indices: 54204--54246 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
54194 AATTTATTAG
54204 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
54226 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
54247 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:54298 original size:33 final size:32
Alignment explanation
Indices: 54229--54311 Score: 139
Period size: 33 Copynumber: 2.6 Consensus size: 32
54219 TTTAAAATAT
*
54229 GGATTGATTTATTTTAAATAATTTATTAGTAT
1 GGATTGATTTATTTTAAATAATTTATTAGTAC
*
54261 GGATTGATTTATTTTAAATAATTTTATTTGTAC
1 GGATTGATTTATTTTAAATAA-TTTATTAGTAC
54294 GGATTGATTTATTTTAAA
1 GGATTGATTTATTTTAAA
54312 ATATGTATTG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 21 0.44
33 27 0.56
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (32 bp):
GGATTGATTTATTTTAAATAATTTATTAGTAC
Found at i:54484 original size:22 final size:22
Alignment explanation
Indices: 54371--54487 Score: 108
Period size: 22 Copynumber: 5.0 Consensus size: 22
54361 AATTTATTAG
54371 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* ***
54393 TATAGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
* *
54419 TATGGATTGATTTATTAATTTATTAG
1 TATGGATTGATTTA-T--TTTA-AAA
54445 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
54467 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
54488 TAATTTATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
22 35 0.43
23 5 0.06
24 2 0.02
25 3 0.04
26 33 0.41
27 3 0.04
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:54524 original size:22 final size:22
Alignment explanation
Indices: 54499--54541 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
54489 AATTTATTAG
54499 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
54521 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
54542 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:54578 original size:22 final size:22
Alignment explanation
Indices: 54553--54617 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
54543 AATTTATTAG
54553 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* ***
54575 TATGGATTGATTTATTGTAGTTG
1 TATGGATTGATTTATTTTA-AAA
54598 TATGGATTGA-TTATTTTAAA
1 TATGGATTGATTTATTTTAAA
54618 TAATTTATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
22 25 0.71
23 10 0.29
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:54635 original size:31 final size:32
Alignment explanation
Indices: 54597--54713 Score: 204
Period size: 31 Copynumber: 3.8 Consensus size: 32
54587 TATTGTAGTT
54597 GTATGGATTGA-TTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54628 GTATGGA-TGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
54659 GTATGGATTGATTTA-TTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
54690 GTATGGATTGATTTATTTAAAATA
1 GTATGGATTGATTTATTTTAAATA
54714 TGGATTGATT
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
30 3 0.04
31 65 0.79
32 14 0.17
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:54807 original size:21 final size:22
Alignment explanation
Indices: 54770--54811 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
54760 AATTTATTAG
54770 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
54792 TATGGATTGA-TTATTTTAAA
1 TATGGATTGATTTATTTTAAA
54812 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:54846 original size:32 final size:32
Alignment explanation
Indices: 54792--54875 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
54782 TATTTTAAAA
54792 TATGGATTGA-TTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
54823 TATGGATTGATTTATTTTTAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
54855 TATAGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
54876 ATATTGATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
31 10 0.21
32 38 0.79
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:54867 original size:18 final size:18
Alignment explanation
Indices: 54814--54871 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
54804 ATTTTAAATA
* *
54814 ATTTATTAGTATGGATTG
1 ATTTATTTGTATAGATTG
*
54832 ATTTATTT-T-TA-A-TA
1 ATTTATTTGTATAGATTG
54846 ATTTATTTGTATAGATTG
1 ATTTATTTGTATAGATTG
54864 ATTTATTT
1 ATTTATTT
54872 TAAAATATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
16 3 0.09
17 2 0.06
18 16 0.50
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (18 bp):
ATTTATTTGTATAGATTG
Found at i:54960 original size:22 final size:22
Alignment explanation
Indices: 54935--54977 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
54925 AATTTATTAG
54935 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
54957 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
54978 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:55037 original size:31 final size:31
Alignment explanation
Indices: 55002--55060 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
54992 AGTTGTATGG
* * *
55002 ATTATTTAAATTTCATTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
55033 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
55061 CTTTTCAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:58654 original size:20 final size:21
Alignment explanation
Indices: 58629--58669 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
58619 GATAATGATT
58629 AGTTT-GAT-TATTTTTATTTA
1 AGTTTGGATGTATTTTT-TTTA
58649 AGTTTGGATGTATTTTTTTTA
1 AGTTTGGATGTATTTTTTTTA
58670 TTAATATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (21 bp):
AGTTTGGATGTATTTTTTTTA
Found at i:59156 original size:257 final size:256
Alignment explanation
Indices: 58700--59213 Score: 920
Period size: 257 Copynumber: 2.0 Consensus size: 256
58690 ATTTCACCCG
* *
58700 ACGAAAACAAGTGTCGTTGCTTTCTAAATCTCTTCTCGAAAAAGTTAGTGTTTTTCCTCTGGTAT
1 ACGAAAACAAGTGTCGTTGCTTTCTAAATCTCGTCTCGAAAAAGTGAGTGTTTTTCCTCTGGTAT
*
58765 AAGATAAAACACAATTTGTAGAGTCACCACCAATCATTTTATTAAGGTGTGATTGGTCACCAAAA
66 AAGATAAAACACAATTTGTAGAGTCACCACCAATCATTTTATTAAGGTGTGATTGGTCACAAAAA
* * *
58830 ATGTTATGTTATTTTAATAAAATTTATAAAAATAATATTAAAATAACACAAAAGGGTCTTCTTAC
131 ATATTATGTTATTTTAATAAAATTTATAAAAATAATATTAAAATAACACAAAAGGGTCTGCGTAC
58895 CAGAAAATGAGTTCGGGAGTCGGTTACGTATGGGGAAGGATTAGCACCCCCCACAACGCCCA
196 CAGAAAATGAGTTCGGGAGTCGGTTACGTATGGGGAAGGATTAGCA-CCCCCACAACGCCCA
* *
58957 ACGAAAACAAGTTTCGTTGCTTTCTAAATCTCGTCTCGAAAAAGTGAGTGTTTTTCTTCTGGTAT
1 ACGAAAACAAGTGTCGTTGCTTTCTAAATCTCGTCTCGAAAAAGTGAGTGTTTTTCCTCTGGTAT
* *
59022 AAGATAAAACACAATTTGTAGAGTCGCCACCAATCATTTTATTAAGGTGTTATTGGTCACAAAAA
66 AAGATAAAACACAATTTGTAGAGTCACCACCAATCATTTTATTAAGGTGTGATTGGTCACAAAAA
59087 ATATTATGTTATTTTAATAAAATTTATAAAAATAATATTAAAATAACACAAAAGGGTCTGCGTAC
131 ATATTATGTTATTTTAATAAAATTTATAAAAATAATATTAAAATAACACAAAAGGGTCTGCGTAC
*
59152 CAGAAAATGAGTTCGGGAGTCGGTTACGTGTGGGGAAGGATTAGCACCCCCACAACGCCCA
196 CAGAAAATGAGTTCGGGAGTCGGTTACGTATGGGGAAGGATTAGCACCCCCACAACGCCCA
59213 A
1 A
59214 AATTGGTACA
Statistics
Matches: 246, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
256 16 0.07
257 230 0.93
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (256 bp):
ACGAAAACAAGTGTCGTTGCTTTCTAAATCTCGTCTCGAAAAAGTGAGTGTTTTTCCTCTGGTAT
AAGATAAAACACAATTTGTAGAGTCACCACCAATCATTTTATTAAGGTGTGATTGGTCACAAAAA
ATATTATGTTATTTTAATAAAATTTATAAAAATAATATTAAAATAACACAAAAGGGTCTGCGTAC
CAGAAAATGAGTTCGGGAGTCGGTTACGTATGGGGAAGGATTAGCACCCCCACAACGCCCA
Found at i:59719 original size:119 final size:119
Alignment explanation
Indices: 59482--59722 Score: 263
Period size: 119 Copynumber: 2.0 Consensus size: 119
59472 ACAATAATAT
* ** *
59482 TAAATAATTCTAAAAATAATATTTAAAATTATTATTTTAAAACTAAAGGATTAAAATTGTAAAAT
1 TAAATAATCCTAAAAATAATATTTAAAATTAAAATATTAAAACTAAAGGATTAAAATTGTAAAAT
* * * * * *
59547 ATCAAAATTAAAAATCTTAATTCTAAATATCATGAAATCTAGGTATTATTAGTG
66 ATCAAAATTAAAAATCTTAATTCAAAATATCATAAAATATAAGTACTAATAGTG
* * * *
59601 TAAATAATCCT-AAAATATTATTTAAAATTAAAATATTAAACCTCAATGATT-AAATTGTAAAAA
1 TAAATAATCCTAAAAATAATATTTAAAATTAAAATATTAAAACTAAAGGATTAAAATTGT--AAA
*** * *
59664 ATAT-ATAAATTAATGGTCTTAATTCAAAATATTATAAAATATAATTACTAATAGTG
64 ATATCA-AAATTAAAAATCTTAATTCAAAATATCATAAAATATAAGTACTAATAGTG
59720 TAA
1 TAA
59723 TTTAACCCTA
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
117 7 0.07
118 34 0.34
119 59 0.59
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (119 bp):
TAAATAATCCTAAAAATAATATTTAAAATTAAAATATTAAAACTAAAGGATTAAAATTGTAAAAT
ATCAAAATTAAAAATCTTAATTCAAAATATCATAAAATATAAGTACTAATAGTG
Found at i:61142 original size:137 final size:136
Alignment explanation
Indices: 60890--61548 Score: 813
Period size: 137 Copynumber: 4.8 Consensus size: 136
60880 AGATCCAATT
* * *
60890 GGTGTATGACATTGTTCCTTCATGATGAGGACGTCTGACCATCTTTGAAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTG-CCATCTTTAAAGATATTTGAGATAACA
* * * * * * *
60955 AGGTTCTTTTGTGATGAGGACGTCTAGTTATCTGAGGATGACTCG--GCTCCTACGTGATGAGGA
65 CGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGA-T-GTTGCTCCTTCGTGATGAGGA
61018 GTTCT-AGTC
128 GTTCTGA-TC
* *
61027 AGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAATATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCT-GCCATCTTTAAAGATATTTGAGATAACA
** * * * *
61092 CGGTTCCTTCGTGATGAGGATATCTGGCTACCTAAGAATGATGTTTCTCCTTCGTGACGAGGAGT
65 CGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGTTGCTCCTTCGTGATGAGGAGT
61157 TCTGATC
130 TCTGATC
61164 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGACCATCTTTAAAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTG-CCATCTTTAAAGATATTTGAGATAACA
* ** * ** * * *
61229 CTGTTTTTTCATGATGAGGATATCTGGTTATCTAAGAATGATATTGCTCCTTCGTGATGAGGAGT
65 CGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGTTGCTCCTTCGTGATGAGGAGT
61294 TCTGATC
130 TCTGATC
* * * * *
61301 GATGTATGACATTGTTCCTTTGTGATGAGAACGTCTGGCCATCTTTGAAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCT-GCCATCTTTAAAGATATTTGAGATAACA
* * * * * *
61366 CAGTTCCTTCGTGATGAGGACGTCTGACTGTTTAAGGATGATG-TGACTCTTTCGTGATAAGGAG
65 CGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGTTG-CTCCTTCGTGATGAGGAG
* *
61430 TTTTGATT
129 TTCTGATC
* * * *
61438 GGTAGATGACATTGTTCCTTCGTGATGAGGCCATCTGGCCATCTTTAAAGATATATGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCT-GCCATCTTTAAAGATATTTGAGATAACA
61503 CGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGTTG
65 CGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGTTG
61549 ATGGACACGA
Statistics
Matches: 451, Mismatches: 63, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
135 1 0.00
136 4 0.01
137 441 0.98
138 5 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (136 bp):
GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGCCATCTTTAAAGATATTTGAGATAACAC
GGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGTTGCTCCTTCGTGATGAGGAGTT
CTGATC
Found at i:67703 original size:42 final size:42
Alignment explanation
Indices: 67644--67727 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
67634 TTAGTTTTGT
* * * * *
67644 CATTTGCTCTTTTGAATCATCTTGGAATTTTTTTTCTTGATC
1 CATTTGCTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
*
67686 CATTTGTTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
1 CATTTGCTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
67728 AATCATCTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (42 bp):
CATTTGCTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
Found at i:70238 original size:28 final size:28
Alignment explanation
Indices: 70197--70264 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
70187 CTTCATTTTG
*
70197 CTTCTCTATAAAGAGAGAGAAGCTCTC-
1 CTTCTCTCTAAAGAGAGAGAAGCTCTCT
70224 CATTCTCTCTAAAGAGAGAGAAGCTCTCT
1 C-TTCTCTCTAAAGAGAGAGAAGCTCTCT
*
70253 CTTTTCTCTAAA
1 CTTCTCTCTAAA
70265 CTCCCTCACC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 35 0.95
29 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (28 bp):
CTTCTCTCTAAAGAGAGAGAAGCTCTCT
Found at i:70917 original size:3 final size:3
Alignment explanation
Indices: 70911--70936 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
70901 TATTATTTAT
70911 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
70937 TAAAAAGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:71214 original size:24 final size:24
Alignment explanation
Indices: 71181--71250 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
71171 TGATGAAAAT
71181 TTTTTAAAAAAAGTTATAATTTT-TA
1 TTTTT-AAAAAA-TTATAATTTTATA
*
71206 TTTTT-AAAAATTATTATTTTCATA
1 TTTTTAAAAAATTATAATTTT-ATA
*
71230 TATTTAAAAAATCTA-AATTTT
1 TTTTTAAAAAAT-TATAATTTT
71251 TTAATTTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 9 0.24
23 5 0.13
24 6 0.16
25 16 0.42
26 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (24 bp):
TTTTTAAAAAATTATAATTTTATA
Found at i:71219 original size:22 final size:24
Alignment explanation
Indices: 71188--71239 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
71178 AATTTTTTAA
*
71188 AAAAAGTTATAATTTT-TATTTTT
1 AAAAAGTTATAATTTTATATATTT
*
71211 AAAAA-TTATTATTTTCATATATTT
1 AAAAAGTTATAATTTT-ATATATTT
71235 AAAAA
1 AAAAA
71240 ATCTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 5 0.20
24 11 0.44
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
AAAAAGTTATAATTTTATATATTT
Found at i:81823 original size:13 final size:13
Alignment explanation
Indices: 81805--81831 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
81795 AGTTGCGATT
81805 TTGCTCTATCCGA
1 TTGCTCTATCCGA
81818 TTGCTCTATCCGA
1 TTGCTCTATCCGA
81831 T
1 T
81832 AGCCGTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGCTCTATCCGA
Found at i:87467 original size:21 final size:24
Alignment explanation
Indices: 87443--87500 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 24
87433 CTGAAAAAGG
87443 TAAACAAAAATAT-GTACAA-AA-
1 TAAACAAAAATATAGTACAATAAC
* *
87464 TAAAGAAATAAAATAGTACAATAAC
1 TAAACAAA-AATATAGTACAATAAC
87489 TAAACATAAAAT
1 TAAACA-AAAAT
87501 CACCAATTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 7 0.25
22 4 0.14
23 6 0.21
24 2 0.07
25 7 0.25
26 2 0.07
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.21
Consensus pattern (24 bp):
TAAACAAAAATATAGTACAATAAC
Found at i:88464 original size:18 final size:18
Alignment explanation
Indices: 88441--88482 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
88431 TAGGGTTTTG
88441 TGCCCTCATTTTAATTTA
1 TGCCCTCATTTTAATTTA
*
88459 TGCCCTCATTTTAATTTG
1 TGCCCTCATTTTAATTTA
88477 TGCCCT
1 TGCCCT
88483 AGGGAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.48
Consensus pattern (18 bp):
TGCCCTCATTTTAATTTA
Found at i:90182 original size:16 final size:17
Alignment explanation
Indices: 90161--90192 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
90151 ACTGTTCACG
90161 TGAATAGT-AAATTTTA
1 TGAATAGTGAAATTTTA
90177 TGAATAGTGAAATTTT
1 TGAATAGTGAAATTTT
90193 GTCGGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (17 bp):
TGAATAGTGAAATTTTA
Found at i:98703 original size:31 final size:31
Alignment explanation
Indices: 98665--98725 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
98655 CGGTCGGGTT
*
98665 GGGTCGGGTCGGGTCAATGGGTCGGGTCAAC
1 GGGTCGGGTCGGGTCAACGGGTCGGGTCAAC
*
98696 GGGTCGGGTCGGGTCAACGGGTTGGGTCAA
1 GGGTCGGGTCGGGTCAACGGGTCGGGTCAA
98726 AACCCGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.13, C:0.18, G:0.49, T:0.20
Consensus pattern (31 bp):
GGGTCGGGTCGGGTCAACGGGTCGGGTCAAC
Found at i:98704 original size:18 final size:18
Alignment explanation
Indices: 98665--98723 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
98655 CGGTCGGGTT
98665 GGGTCGGGTCGGGTCAA-
1 GGGTCGGGTCGGGTCAAC
98682 ---T-GGGTCGGGTCAAC
1 GGGTCGGGTCGGGTCAAC
98696 GGGTCGGGTCGGGTCAAC
1 GGGTCGGGTCGGGTCAAC
*
98714 GGGTTGGGTC
1 GGGTCGGGTC
98724 AAAACCCGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 12 0.33
14 1 0.03
17 1 0.03
18 22 0.61
ACGTcount: A:0.10, C:0.19, G:0.51, T:0.20
Consensus pattern (18 bp):
GGGTCGGGTCGGGTCAAC
Found at i:98725 original size:13 final size:13
Alignment explanation
Indices: 98669--98705 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
98659 CGGGTTGGGT
98669 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
98682 TGGGTCGGGTCAA
1 CGGGTCGGGTCAA
98695 CGGGTCGGGTC
1 CGGGTCGGGTC
98706 GGGTCAACGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Done.