Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006609.1 Hibiscus syriacus cultivar Beakdansim tig00016221_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: 86130
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:9534 original size:9 final size:9
Alignment explanation
Indices: 9520--9551 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
9510 TCCACCATTT
9520 TTCTTTTTC
1 TTCTTTTTC
9529 TTCTTTTTC
1 TTCTTTTTC
9538 TTCTTTTTC
1 TTCTTTTTC
9547 TTCTT
1 TTCTT
9552 GCATGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:10591 original size:40 final size:40
Alignment explanation
Indices: 10535--10630 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
10525 TCTCAAAATT
* * * *
10535 CAAACCACAATATTAAGTCTAGAATAATAAAATTCATAAA
1 CAAACCATAATATTAAGTCTAAAACAATAAAATCCATAAA
*
10575 TAAACCATAATATTAAGTCTAAAACAATAAAATCCATAAA
1 CAAACCATAATATTAAGTCTAAAACAATAAAATCCATAAA
10615 CAAACCATAATATTAA
1 CAAACCATAATATTAA
10631 AGTGCCAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (40 bp):
CAAACCATAATATTAAGTCTAAAACAATAAAATCCATAAA
Found at i:15083 original size:8 final size:8
Alignment explanation
Indices: 15052--15092 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
15042 ATTTTGTAAA
15052 AAAATTTT
1 AAAATTTT
15060 ATAAATTTT
1 A-AAATTTT
**
15069 ATGATTTT
1 AAAATTTT
15077 AAAATTTT
1 AAAATTTT
15085 AAAATTTT
1 AAAATTTT
15093 TAAAGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (8 bp):
AAAATTTT
Found at i:17851 original size:20 final size:20
Alignment explanation
Indices: 17817--17861 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
17807 AAGTCATTGC
*
17817 TTTTATTGAATAAAAAT-AT
1 TTTTTTTGAATAAAAATAAT
17836 TTTTTTTGAATAAAAATAAT
1 TTTTTTTGAATAAAAATAAT
17856 TTTTTT
1 TTTTTT
17862 ATTATTTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTTTTGAATAAAAATAAT
Found at i:18069 original size:15 final size:16
Alignment explanation
Indices: 18040--18069 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18030 ATTTATTAGT
18040 TTCTCTTTCAATTTTA
1 TTCTCTTTCAATTTTA
18056 TTCTCTTT-AATTTT
1 TTCTCTTTCAATTTT
18070 CATGTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTCTTTCAATTTTA
Found at i:18247 original size:11 final size:11
Alignment explanation
Indices: 18213--18247 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
18203 TTAAAATTAC
18213 TATATATTTTA
1 TATATATTTTA
*
18224 CATATATTTTTA
1 TATATA-TTTTA
18236 TATATATTTTA
1 TATATATTTTA
18247 T
1 T
18248 GTTGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TATATATTTTA
Found at i:20714 original size:18 final size:17
Alignment explanation
Indices: 20674--20719 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
20664 TAAATCAATT
*
20674 CATGCATGCATGCGATG
1 CATGCATGCATACGATG
* *
20691 CTTGCATGTATACAGATG
1 CATGCATGCATAC-GATG
20709 CATGCATGCAT
1 CATGCATGCAT
20720 GTAACAACCA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (17 bp):
CATGCATGCATACGATG
Found at i:21770 original size:227 final size:228
Alignment explanation
Indices: 21370--21854 Score: 868
Period size: 227 Copynumber: 2.1 Consensus size: 228
21360 GTAAATTATC
* * *
21370 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
21435 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
21500 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
*
21565 AAACATAAATTACATAACTTT-CAAAAAGTATA
196 AAACATAAATTACATAACTTTAAAAAAAGTATA
*
21597 TATCATTTTTAT-AAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
21661 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAT-TT
*
21726 TTT-TGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
21790 TGAAACATAAATTACATAACTTTAAAAAAAGTATA
194 TGAAACATAAATTACATAACTTTAAAAAAAGTATA
21825 TATCATTTTTATAAAAGTGTCCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
21855 AAAAGTAGGT
Statistics
Matches: 247, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
226 24 0.10
227 179 0.72
228 27 0.11
229 17 0.07
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAAGTATA
Found at i:22155 original size:20 final size:19
Alignment explanation
Indices: 22132--22178 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
22122 CGATATACCA
22132 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
22152 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
22172 GGTAAAA
1 GGTAAAA
22179 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:22218 original size:181 final size:181
Alignment explanation
Indices: 21921--22389 Score: 658
Period size: 181 Copynumber: 2.6 Consensus size: 181
21911 GATCCAAATT
* * * *
21921 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATAGAAATGAT-
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAATGATA
* * * * * *
21985 AAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
65 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
22050 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
*
22102 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAAC-AAATGATA
* *
22167 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
65 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
22231 GTGAATTTAAAAGAGAAGCAGTTATATCGCCTATAATGTGTCGATACTTTAA
130 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
** * *
22283 AAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGAT-AAACCGGTATCAAATGATAA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAATGATAA
* * *
22347 AACCGGTAAAATGATACC-GATATATTGAAAGTGTCGACACTTT
66 AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
22390 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 27, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
178 23 0.09
179 25 0.10
180 11 0.04
181 161 0.62
182 39 0.15
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAATGATAA
AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:22360 original size:17 final size:18
Alignment explanation
Indices: 22322--22362 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
22312 AGGTAAAAAT
22322 ATGAT-AAACCGGTATCAA
1 ATGATAAAACCGGTA-CAA
22340 ATGATAAAACCGGTA-AA
1 ATGATAAAACCGGTACAA
22357 ATGATA
1 ATGATA
22363 CCGATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 5 0.23
19 9 0.41
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (18 bp):
ATGATAAAACCGGTACAA
Found at i:24611 original size:21 final size:21
Alignment explanation
Indices: 24584--24648 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
24574 AAGACAATCA
*
24584 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
24605 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
24626 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
24647 AG
1 AG
24649 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:24723 original size:33 final size:33
Alignment explanation
Indices: 24681--24746 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
24671 AAATAGATGG
*
24681 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
24714 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
24747 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:29445 original size:43 final size:40
Alignment explanation
Indices: 29375--29611 Score: 133
Period size: 40 Copynumber: 5.5 Consensus size: 40
29365 GGTGATAACT
* *
29375 CGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGGGGTGACA
1 CGGTTCCTACGTGATGAGGA-GTCTGG--ATCTAGGGGTGACA
* *
29418 CGGTTCCTACGCGATGAGGAGATCTGG-TC-GGGGGATGACA
1 CGGTTCCTACGTGATGAGGAG-TCTGGATCTAGGGG-TGACA
* *
29458 C--TTCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACT
1 CGGTTC-C-TACGTGATGAGGAG-TCTGG--ATC--TA-G--GGGTG---ACA
* * *
29509 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACC
1 CGGTTCCTACGTGATGAGGA-GTCTGG--ATCTAGGGGTGACA
* * *
29552 CGGCTCCTACGTGATGAGGAGGTCTGG-TCGAGGGATGACA
1 CGGTTCCTACGTGATGAGGA-GTCTGGATCTAGGGGTGACA
29592 CGGTTCCTACGTGATGAGGA
1 CGGTTCCTACGTGATGAGGA
29612 TGACTGGCCA
Statistics
Matches: 154, Mismatches: 21, Indels: 41
0.71 0.10 0.19
Matches are distributed among these distances:
38 3 0.02
39 5 0.03
40 53 0.34
42 1 0.01
43 52 0.34
46 5 0.03
47 1 0.01
48 2 0.01
49 5 0.03
51 22 0.14
52 2 0.01
53 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (40 bp):
CGGTTCCTACGTGATGAGGAGTCTGGATCTAGGGGTGACA
Found at i:29549 original size:134 final size:134
Alignment explanation
Indices: 29269--29629 Score: 557
Period size: 134 Copynumber: 2.7 Consensus size: 134
29259 AGTTCGGGTC
* * *
29269 ATCTAAGGGTGACACGGTTCCTACATGATGAGGAAATATGGTCGAGGGATGACACTTCTCATACG
1 ATCTAAGGGTGACACGGTTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACTTCTCATACG
29334 TGATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGGC
66 TGATGAAGAGTTC-TGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGGC
29399 TGGTT
130 TGGTT
* * *
29404 ATCTAGGGGTGACACGGTTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACTTCTCATACG
1 ATCTAAGGGTGACACGGTTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACTTCTCATACG
*
29469 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCT
66 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGGCT
29534 GGTT
131 GGTT
* * *
29538 ATCTAAGGGTGACCCGGCTCCTACGTGATGAGGAGGTCTGGTCGAGGGATGACACGGTTC-C-TA
1 ATCTAAGGGTGACACGGTTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACAC--TTCTCATA
* *
29601 CGTGATGAGGA-TGACTGGCCATCTTTAGG
64 CGTGATGAAGAGT-TCTGGCCATCTTTAGG
29630 GATCATGGTT
Statistics
Matches: 208, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
133 1 0.00
134 131 0.63
135 73 0.35
136 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (134 bp):
ATCTAAGGGTGACACGGTTCCTACGTGATGAGGAGATCTGGTCGAGGGATGACACTTCTCATACG
TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGGCT
GGTT
Found at i:29730 original size:31 final size:28
Alignment explanation
Indices: 29637--29733 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 28
29627 AGGGATCATG
* *
29637 GTTTCAAGAGAAATC-GATTCAAAGATTT
1 GTTTCAAAAGAAA-CAGACTCAAAGATTT
29665 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
29693 GTTTCAAGAA-AAACA-AGCTCAAAGATAATGT
1 GTTTCAA-AAGAAACAGA-CTCAAAGAT--T-T
29724 GTTTCAAAAG
1 GTTTCAAAAG
29734 CAACTGTCTC
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.03
28 45 0.75
29 2 0.03
30 3 0.05
31 8 0.13
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:30832 original size:29 final size:29
Alignment explanation
Indices: 30745--30877 Score: 211
Period size: 29 Copynumber: 4.7 Consensus size: 29
30735 AGAGAAACCT
30745 ACTCAAAGATTTTT-TTCAAAA-GAA-ATA
1 ACTCAAAGATTTTTATTCAAAAGGAACA-A
*
30772 ACTCAAAGATTTTTATTCAAAAGAAAC-A
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
30800 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
30829 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
30858 ACTCAAAGATTTTTTTTCAA
1 ACTCAAAGATTTTTATTCAA
30878 GAGAATCTGT
Statistics
Matches: 99, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
27 14 0.14
28 34 0.34
29 51 0.52
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (29 bp):
ACTCAAAGATTTTTATTCAAAAGGAACAA
Found at i:30841 original size:57 final size:56
Alignment explanation
Indices: 30745--30882 Score: 208
Period size: 57 Copynumber: 2.4 Consensus size: 56
30735 AGAGAAACCT
30745 ACTCAAAGATTTTTTTCAAAAGAAATAACTCAAAGATTTTTATTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTTCAAAAGAAATAACTCAAAGATTTTTATTCAAAAGAAACAA
*
30800 ACTCAAAGATTTTTATTCAAAAGGAACA-AACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAA-GAA-ATAACTCAAAGATTTTTATTCAAAAGAAACAA
*
30858 ACTCAAAGATTTTTTTTCAAGAGAA
1 ACTCAAAGA-TTTTTTTCAAAAGAA
30883 TCTGTCTCAA
Statistics
Matches: 76, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
55 14 0.18
56 7 0.09
57 33 0.43
58 17 0.22
59 5 0.07
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.30
Consensus pattern (56 bp):
ACTCAAAGATTTTTTTCAAAAGAAATAACTCAAAGATTTTTATTCAAAAGAAACAA
Found at i:31208 original size:36 final size:36
Alignment explanation
Indices: 31124--31227 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
31114 GAGAAAATGA
* *
31124 TGTCTCAAGCGAGACAAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
31158 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
31194 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
31228 ACGATCTCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 20 0.34
35 10 0.17
36 29 0.49
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:31255 original size:36 final size:36
Alignment explanation
Indices: 31125--31243 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
31115 AGAAAATGAT
* * *
31125 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
31159 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
31195 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
31230 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
31244 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 20 0.29
35 12 0.17
36 38 0.54
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:31374 original size:105 final size:101
Alignment explanation
Indices: 31195--31427 Score: 292
Period size: 105 Copynumber: 2.3 Consensus size: 101
31185 TAGAGAAATT
*
31195 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
31259 GTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
64 GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
31297 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
31361 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
31402 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
31428 AAAATTCTCA
Statistics
Matches: 115, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 4 0.03
105 78 0.68
106 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:31907 original size:14 final size:14
Alignment explanation
Indices: 31888--31920 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
31878 TTATGTATCA
*
31888 TGTATGTATGTGTG
1 TGTATGTATGTATG
31902 TGTATGTATGTATG
1 TGTATGTATGTATG
31916 TGTAT
1 TGTAT
31921 ACTTTTCTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (14 bp):
TGTATGTATGTATG
Found at i:33109 original size:11 final size:11
Alignment explanation
Indices: 33090--33139 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
33080 TTTGTCCTCT
33090 TTTTGTTCTTTG
1 TTTT-TTCTTTG
33102 TTTTTTCTTTG
1 TTTTTTCTTTG
*
33113 TTGTTGT-TTT-
1 TT-TTTTCTTTG
*
33123 TTTTTGCTTTG
1 TTTTTTCTTTG
33134 TTTTTT
1 TTTTTT
33140 TTCTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
9 2 0.06
10 5 0.16
11 17 0.55
12 7 0.23
ACGTcount: A:0.00, C:0.06, G:0.14, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTG
Found at i:33121 original size:17 final size:18
Alignment explanation
Indices: 33099--33145 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
33089 TTTTTGTTCT
33099 TTGTTTTTTCTTTG-TTG
1 TTGTTTTTTCTTTGCTTG
33116 TTGTTTTTT-TTTGCTTTG
1 TTGTTTTTTCTTTGC-TTG
33134 TT-TTTTTTCTTT
1 TTGTTTTTTCTTT
33146 ATTTCTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
17 15 0.56
18 8 0.30
ACGTcount: A:0.00, C:0.06, G:0.13, T:0.81
Consensus pattern (18 bp):
TTGTTTTTTCTTTGCTTG
Found at i:33126 original size:21 final size:20
Alignment explanation
Indices: 33087--33151 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
33077 TTCTTTGTCC
*
33087 TCTTT-TTGTTCTTTGTTTTT
1 TCTTTGTTGTT-TTTTTTTTT
33107 TCTTTGTTGTTGTTTTTTTTT
1 TCTTTGTTGTT-TTTTTTTTT
*
33128 GCTTTGTT-TTTTTTCTTTATT
1 TCTTTGTTGTTTTTT-TTT-TT
33149 TCT
1 TCT
33152 CTTTTTCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 4 0.11
20 10 0.26
21 24 0.63
ACGTcount: A:0.02, C:0.09, G:0.11, T:0.78
Consensus pattern (20 bp):
TCTTTGTTGTTTTTTTTTTT
Found at i:33140 original size:18 final size:17
Alignment explanation
Indices: 33091--33166 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 17
33081 TTGTCCTCTT
*
33091 TTTGTTCTTTGTTTTTTC
1 TTTGTT-TTTTTTTTTTC
* *
33109 TTTGTTGTTGTTTTTT-
1 TTTGTTTTTTTTTTTTC
*
33125 TTTGCTTTGTTTTTTTTC
1 TTTG-TTTTTTTTTTTTC
* * *
33143 TTT-ATTTCTCTTTTTC
1 TTTGTTTTTTTTTTTTC
33159 TTTGTTTT
1 TTTGTTTT
33167 AATTGGATCT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
16 16 0.35
17 21 0.46
18 9 0.20
ACGTcount: A:0.01, C:0.09, G:0.11, T:0.79
Consensus pattern (17 bp):
TTTGTTTTTTTTTTTTC
Found at i:33871 original size:46 final size:45
Alignment explanation
Indices: 33779--33872 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
33769 ATAAATGCAG
* * * *
33779 TGTTTCAAAGTGGAAAGAATGTTTCAAGGTCTTAAAGAGAGGGAA
1 TGTTTCAAAGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
* *
33824 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAAGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
33870 TGT
1 TGT
33873 CAAAATTTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 10 0.24
46 32 0.76
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.28
Consensus pattern (45 bp):
TGTTTCAAAGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:35117 original size:31 final size:32
Alignment explanation
Indices: 35061--35122 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
35051 TGACAAAATG
35061 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
35093 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
35123 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:38925 original size:3 final size:3
Alignment explanation
Indices: 38917--38962 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
38907 ACATATATTA
*
38917 AAT AAT AAT AAT AAT AAT AAT -AT AGTT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
38962 A
1 A
38963 TTAAAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:39423 original size:19 final size:19
Alignment explanation
Indices: 39399--39447 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
39389 AATGTAGGGT
39399 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
39418 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
**
39437 TCTTTTTGTAT
1 TAATTTTGTAT
39448 GTGAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:39949 original size:200 final size:199
Alignment explanation
Indices: 39566--40738 Score: 2134
Period size: 199 Copynumber: 5.9 Consensus size: 199
39556 CAATATGGCC
* * *
39566 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* *
39631 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
* * * *
39696 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCATAATGAA
130 TAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
39761 TGGAA
195 TGGAA
39766 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
39831 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
39896 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAA
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAA
39961 TGGAA
195 TGGAA
*
39966 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
40031 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
40096 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAA
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAA
40161 TGGAA
195 TGGAA
40166 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
40231 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
40296 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCAAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
40361 GGAA
196 GGAA
40365 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
40430 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAGAA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
40495 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
40560 GGAA
196 GGAA
40564 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
40629 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
40694 AATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
131 AATATGTATAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
40739 CTAATTTAAA
Statistics
Matches: 950, Mismatches: 21, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
198 17 0.02
199 479 0.50
200 454 0.48
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:40369 original size:399 final size:399
Alignment explanation
Indices: 39566--40738 Score: 2145
Period size: 399 Copynumber: 2.9 Consensus size: 399
39556 CAATATGGCC
* * *
39566 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC-AAAC
* *
39631 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
* * *
39696 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCATAATGAA
130 AAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
39761 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
39826 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
260 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
*
39891 GAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGA
325 GAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCAAGA
39956 ATGAATGGAA
390 ATGAATGGAA
39966 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAACC
*
40031 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAA
*
40096 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAA
40161 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
*
40226 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTAT
260 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
40291 GAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCAAGA
325 GAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCAAGA
40355 ATGAATGGAA
390 ATGAATGGAA
*
40365 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAACC
*
40430 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAGAA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAA
40495 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
40560 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
40625 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
* *
40690 AGAGAATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
326 AGATAATATGTATAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
40739 CTAATTTAAA
Statistics
Matches: 752, Mismatches: 19, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
397 17 0.02
398 175 0.23
399 306 0.41
400 254 0.34
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (399 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAA
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
AGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCAAGAA
TGAATGGAA
Found at i:42227 original size:18 final size:18
Alignment explanation
Indices: 42206--42267 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
42196 AGCGGTCGCA
42206 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
42224 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
42242 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
42260 GAAGATGA
1 GAAGATGA
42268 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:42230 original size:6 final size:6
Alignment explanation
Indices: 42206--42297 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
42196 AGCGGTCGCA
* * * * * *
42206 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
42254 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
42298 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:42241 original size:3 final size:3
Alignment explanation
Indices: 42221--42301 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
42211 TGAAGCTGAC
* * * * * ** *
42221 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
42269 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
42302 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:42260 original size:36 final size:36
Alignment explanation
Indices: 42209--42285 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
42199 GGTCGCAGAA
*
42209 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
42245 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
42281 GATGA
1 GATGA
42286 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:42301 original size:12 final size:12
Alignment explanation
Indices: 42209--42297 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
42199 GGTCGCAGAA
*
42209 GATGAAGCTGAC
1 GATGAAGATGAC
42221 GATGAAGATGAC
1 GATGAAGATGAC
*
42233 GATGATGATGAC
1 GATGAAGATGAC
* *
42245 GATGAAGCTGGC
1 GATGAAGATGAC
*
42257 GATGAAGATGAT
1 GATGAAGATGAC
* * *
42269 GACGATGATGAT
1 GATGAAGATGAC
* *
42281 GATGATGATGAA
1 GATGAAGATGAC
42293 GATGA
1 GATGA
42298 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:42301 original size:18 final size:18
Alignment explanation
Indices: 42206--42297 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
42196 AGCGGTCGCA
*
42206 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
42224 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
42242 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
42260 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
42278 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
42296 GA
1 GA
42298 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:43996 original size:183 final size:182
Alignment explanation
Indices: 43757--44249 Score: 887
Period size: 183 Copynumber: 2.7 Consensus size: 182
43747 GTAATGCTAT
*
43757 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
43822 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
43887 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
43940 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
44005 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
44070 TTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
44123 TGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
44188 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
44250 GTAATTTTAA
Statistics
Matches: 298, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
183 294 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:46742 original size:25 final size:25
Alignment explanation
Indices: 46714--46778 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
46704 ATATCATTAA
46714 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
46739 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
46764 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
46779 TCTTTGAGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:47153 original size:23 final size:23
Alignment explanation
Indices: 47118--47190 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
47108 ATAGGTAAAC
*
47118 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * * *
47141 ATATAATGCAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
47164 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
47187 ATAT
1 ATAT
47191 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:47640 original size:18 final size:18
Alignment explanation
Indices: 47619--47655 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47609 GTAATTGGAG
47619 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
47637 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
47655 T
1 T
47656 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:47663 original size:24 final size:24
Alignment explanation
Indices: 47611--47657 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
47601 TTTCATATGT
* *
47611 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
47635 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
47658 ATATTTCGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:47957 original size:39 final size:39
Alignment explanation
Indices: 47914--48000 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
47904 TCCGATGCTC
*
47914 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
47953 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
47992 ATCAAAATC
1 ATCAAAATC
48001 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:48449 original size:23 final size:23
Alignment explanation
Indices: 48418--48490 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
48408 ATAGGTAAAA
* *
48418 ATATGATGTAAAAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
48441 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
48464 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
48487 ATAT
1 ATAT
48491 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:48975 original size:23 final size:23
Alignment explanation
Indices: 48905--48966 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
48895 AAATAGGTAA
*
48905 ATATAAGCGTTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
48928 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
48951 ATATAAGCGCTACCTA
1 ATATAAGCGCTACCTA
48967 GTATGTTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:57819 original size:23 final size:20
Alignment explanation
Indices: 57793--57870 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 20
57783 TTTGTTATTA
57793 TTATTATTATTATTATGTTTGTT
1 TTATTATT-TTATTAT-TTT-TT
*
57816 TTATTA-TTTATTATTTATT
1 TTATTATTTTATTATTTTTT
57835 TTATTATATATGTATT-TATTTTT
1 TTATTAT-T-T-TATTAT-TTTTT
57858 TTATTATTTTATT
1 TTATTATTTTATT
57871 TAACCCTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
19 8 0.17
20 6 0.12
21 9 0.19
22 4 0.08
23 21 0.44
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (20 bp):
TTATTATTTTATTATTTTTT
Found at i:57821 original size:20 final size:19
Alignment explanation
Indices: 57790--57998 Score: 85
Period size: 21 Copynumber: 10.4 Consensus size: 19
57780 CCTTTTGTTA
57790 TTATTATTATTATTATTATGT
1 TTATT-TTATTATTATTAT-T
*
57811 TTGTTTTATTATTTATTA-T
1 TTATTTTATTA-TTATTATT
57830 TTATTTTATTATATATGTA-T
1 TTATTTTATTAT-TAT-TATT
57850 TTA-TTT-TT-TTATTATT
1 TTATTTTATTATTATTATT
*
57866 TTATTTAACCCTTATTATTATT
1 TTATTTTA---TTATTATTATT
* *
57888 ATATATATATTTAATTA-TATTT
1 TTAT-TTTA-TT-ATTATTA-TT
*
57910 TTATATTTATT-TTCTATATTT
1 TTAT-TTTATTATTAT-TA-TT
** *
57931 TTATTTT-TGGTTTTTA-T
1 TTATTTTATTATTATTATT
*
57948 TTATTTATATTATATTTTACTT
1 TTATTT-TATTAT-TATTA-TT
*
57970 TTTTTCTTATTATTATTATT
1 TTATT-TTATTATTATTATT
57990 ATTATTTTA
1 -TTATTTTA
57999 CTTTACTAAA
Statistics
Matches: 148, Mismatches: 17, Indels: 47
0.70 0.08 0.22
Matches are distributed among these distances:
15 2 0.01
16 7 0.05
17 10 0.07
18 4 0.03
19 24 0.16
20 28 0.19
21 35 0.24
22 35 0.24
23 3 0.02
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (19 bp):
TTATTTTATTATTATTATT
Found at i:57881 original size:54 final size:50
Alignment explanation
Indices: 57823--57921 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 50
57813 GTTTTATTAT
* * *
57823 TTATTATTTATTTTATTATATATGTATTTATTTTTTTATTATTTTATTTAACCC
1 TTATTA-TTATTATA-TATATATGTAATTATATTTTTA-TA-TTTATTTAACCC
*
57877 TTATTATTATTATATATATATTTAATTATATTTTTATATTTATTT
1 TTATTATTATTATATATATATGTAATTATATTTTTATATTTATTT
57922 TCTATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 7 0.17
51 2 0.05
52 19 0.46
53 7 0.17
54 6 0.15
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (50 bp):
TTATTATTATTATATATATATGTAATTATATTTTTATATTTATTTAACCC
Found at i:57889 original size:3 final size:3
Alignment explanation
Indices: 57787--57870 Score: 61
Period size: 3 Copynumber: 27.7 Consensus size: 3
57777 AATCCTTTTG
*
57787 TTA TTA TTA TTA TTA TTA TTA TGT- TTG TT- TTA TTA TTTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA -TTA
*
57833 TT- TTA TTA TATA TGTA TTTA TT- TTT TTA TTA TT- TTA TT
1 TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA TTA TTA TTA TT
57871 TAACCCTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
2 9 0.13
3 45 0.65
4 14 0.20
5 1 0.01
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:57929 original size:13 final size:12
Alignment explanation
Indices: 57880--57930 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
57870 TTAACCCTTA
*
57880 TTATTATTATAT
1 TTATTTTTATAT
* *
57892 ATATATTTA-AT
1 TTATTTTTATAT
57903 TATATTTTTATAT
1 T-TATTTTTATAT
57916 TTATTTTCTATAT
1 TTATTTT-TATAT
57929 TT
1 TT
57931 TTATTTTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.06
12 19 0.61
13 10 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTTTATAT
Found at i:57952 original size:87 final size:88
Alignment explanation
Indices: 57790--57958 Score: 197
Period size: 87 Copynumber: 1.9 Consensus size: 88
57780 CCTTTTGTTA
** * *
57790 TTATTATTATTATTATTATGTTTGTTTTATTATTTATTATTTATTTTATTATATATGTATTTATT
1 TTATTATTATTATTATTATGTTAATTATATTATTTATTATTTATTTTACTATATATGTATTTATT
57855 TTTTTATTATTT-TATTTAACCC
66 TTTTTATTATTTATATTTAACCC
* *
57877 TTATTATTATTATATATATAT-TTAATTATATT-TTTA-TATTTATTTT-CTATATTTTTATTT-
1 TTATTATTATTAT-TAT-TATGTTAATTATATTATTTATTATTTATTTTACTATATATGTATTTA
57937 TTGGTTTTTATTTATTTATATT
64 TT--TTTTTA-TTATTTATATT
57959 ATATTTTACT
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
84 2 0.03
85 11 0.16
86 16 0.23
87 23 0.33
88 15 0.21
89 3 0.04
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (88 bp):
TTATTATTATTATTATTATGTTAATTATATTATTTATTATTTATTTTACTATATATGTATTTATT
TTTTTATTATTTATATTTAACCC
Found at i:58216 original size:20 final size:20
Alignment explanation
Indices: 58174--58301 Score: 150
Period size: 20 Copynumber: 6.3 Consensus size: 20
58164 GTTTCCAATT
58174 TCGCAACGTGAATAGTAAAAA
1 TCGCAACGTGAATAGT-AAAA
*
58195 TCGCAACATGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
*
58215 TCGTAACGTGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
*
58235 TCACAACGTGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
** * *
58255 TCGCAACGCAAATTGGAAAA
1 TCGCAACGTGAATAGTAAAA
*
58275 TCGCAACGCGAATTTAG-AAAA
1 TCGCAACGTGAA--TAGTAAAA
58296 TCGCAA
1 TCGCAA
58302 AATCGCGTTG
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
20 66 0.71
21 25 0.27
22 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (20 bp):
TCGCAACGTGAATAGTAAAA
Found at i:58686 original size:21 final size:20
Alignment explanation
Indices: 58652--58720 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
58642 CATATAGATT
58652 CGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
58672 CGTTGCGATTTTTACTATTCA
1 CGTTGCGA-TTTTACTATTCA
* *
58693 CGTTGCGAATTTGACTA-TCG
1 CGTTGCG-ATTTTACTATTCA
58713 CGTTGCGA
1 CGTTGCGA
58721 ATTTGACTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
19 1 0.02
20 17 0.38
21 26 0.58
22 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (20 bp):
CGTTGCGATTTTACTATTCA
Found at i:58721 original size:20 final size:20
Alignment explanation
Indices: 58652--58867 Score: 95
Period size: 20 Copynumber: 10.7 Consensus size: 20
58642 CATATAGATT
* *
58652 CGTTGCG-ATTTTACTATTCA
1 CGTTGCGAATTTGACTA-TCG
* * *
58672 CGTTGCGATTTTTACTATTCA
1 CGTTGCGAATTTGACTA-TCG
58693 CGTTGCGAATTTGACTATCG
1 CGTTGCGAATTTGACTATCG
58713 CGTTGCGAATTTGACTTAT-G
1 CGTTGCGAATTTGAC-TATCG
* * *
58733 TGTTG-TAATTT-ACAGATTCG
1 CGTTGCGAATTTGAC-TA-TCG
** *
58753 CGTTGCGAATTTGGAAAATTG
1 CGTTGCGAATTT-GACTATCG
*** *
58774 CAACGCGAATTT-ACATATTTG
1 CGTTGCGAATTTGAC-TA-TCG
* * *
58795 CGTTGCGAAATTGGA-AATTG
1 CGTTGCG-AATTTGACTATCG
* * *
58815 GGTTGCGAAATTGGAGT-TCG
1 CGTTGCG-AATTTGACTATCG
*
58835 CGTTGCGAATTTGACTTTCG
1 CGTTGCGAATTTGACTATCG
58855 CGTTGCGAATTTG
1 CGTTGCGAATTTG
58868 TTGGTCATTT
Statistics
Matches: 154, Mismatches: 29, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
18 3 0.02
19 14 0.09
20 76 0.49
21 54 0.35
22 5 0.03
23 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGAATTTGACTATCG
Found at i:59219 original size:21 final size:21
Alignment explanation
Indices: 59181--59224 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
59171 TAATTATTAA
*
59181 TTATTAATTTTTAGTTTTTTAT
1 TTATTAATTTTTA-CTTTTTAT
*
59203 TTATT-ATTTTTCCTTTTTAT
1 TTATTAATTTTTACTTTTTAT
59223 TT
1 TT
59225 CTTTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (21 bp):
TTATTAATTTTTACTTTTTAT
Found at i:59242 original size:9 final size:9
Alignment explanation
Indices: 59218--59420 Score: 74
Period size: 9 Copynumber: 20.9 Consensus size: 9
59208 ATTTTTCCTT
59218 TTTA-TTTC
1 TTTATTTTC
59226 TTTCATTTTC
1 TTT-ATTTTC
59236 TTTATTTTC
1 TTTATTTTC
* *
59245 TGTAGTTT-
1 TTTATTTTC
*
59253 TATATTTTC
1 TTTATTTTC
59262 ATTTATATTTTC
1 --TT-TATTTTC
59274 TTTATCTTTAC
1 TTTAT-TTT-C
59285 -TTATTTTC
1 TTTATTTTC
* *
59293 TATTCCCTTTATA
1 T-TT--ATTT-TC
*
59306 TTTATTTTG
1 TTTATTTTC
*
59315 TTTATTTGTT
1 TTTATTT-TC
59325 TATTATATTAT-
1 T-TTAT-TT-TC
*
59336 TATTATGTTC
1 T-TTATTTTC
*
59346 TTTATTTTAT
1 TTTATTTT-C
*
59356 TTTATTTATT
1 TTTATTT-TC
*
59366 TTTACTTTTA
1 TTTA-TTTTC
*
59376 TTTATTTTA
1 TTTATTTTC
*
59385 TTTATTTTA
1 TTTATTTTC
59394 TTTATTTT-
1 TTTATTTTC
59402 TTTATCTTTAC
1 TTTAT-TTT-C
59413 TTTATTTT
1 TTTATTTT
59421 TTATCTCATT
Statistics
Matches: 157, Mismatches: 15, Indels: 44
0.73 0.07 0.20
Matches are distributed among these distances:
8 15 0.10
9 59 0.38
10 45 0.29
11 21 0.13
12 15 0.10
13 2 0.01
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTATTTTC
Found at i:59354 original size:5 final size:5
Alignment explanation
Indices: 59346--59420 Score: 72
Period size: 5 Copynumber: 15.6 Consensus size: 5
59336 TATTATGTTC
59346 TTTAT TTTAT TTTA- TTTATT TTTACT TTTA- TTTAT TTTA- TTTAT TTTA-
1 TTTAT TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT
*
59394 TTTA- TTT-T TTTAT CTTTAC TTTAT TTT
1 TTTAT TTTAT TTTAT -TTTAT TTTAT TTT
59421 TTATCTCATT
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
4 22 0.37
5 25 0.42
6 13 0.22
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:59355 original size:14 final size:14
Alignment explanation
Indices: 59327--59420 Score: 63
Period size: 14 Copynumber: 6.8 Consensus size: 14
59317 TATTTGTTTA
59327 TTATATTATTATTATG
1 TTAT-TTATT-TTATG
* *
59343 TTCTTTATTTTATT
1 TTATTTATTTTATG
*
59357 TTATTTATTTT-TA
1 TTATTTATTTTATG
* *
59370 CT-TTTA-TTTATT
1 TTATTTATTTTATG
59382 TTATTTATTTTAT-
1 TTATTTATTTTATG
*
59395 TTATTT-TTTTATCT
1 TTATTTATTTTAT-G
59409 TTACTTTATTTT
1 TTA-TTTATTTT
59421 TTATCTCATT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
11 3 0.05
12 12 0.19
13 12 0.19
14 22 0.34
15 8 0.12
16 7 0.11
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (14 bp):
TTATTTATTTTATG
Found at i:59423 original size:30 final size:30
Alignment explanation
Indices: 59346--59424 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
59336 TATTATGTTC
*
59346 TTTATTTTATTTTATTTATT-TTTACTTTTA
1 TTTATTTTA-TTTATTTTTTATTTACTTTTA
59376 TTTATTTTATTTA--TTTTATTTA-TTTT-
1 TTTATTTTATTTATTTTTTATTTACTTTTA
59402 TTTATCTTTACTTTATTTTTTAT
1 TTTAT-TTTA-TTTATTTTTTAT
59425 CTCATTTTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
26 5 0.12
27 11 0.26
28 8 0.19
29 4 0.09
30 15 0.35
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTATTTTATTTATTTTTTATTTACTTTTA
Found at i:62548 original size:28 final size:28
Alignment explanation
Indices: 62519--62580 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
62509 GAAAAAAGAG
* *
62519 AGAGAAAAACAAAG-GAAA-AAAAGCAA
1 AGAGAAAAAAAAAGAGAAACAAAAACAA
*
62545 AGAGAATAAAAAAGAGAAACAAAAACAA
1 AGAGAAAAAAAAAGAGAAACAAAAACAA
62573 AG-GAAAAA
1 AGAGAAAAA
62581 GAAGACAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 12 0.40
27 9 0.30
28 9 0.30
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.02
Consensus pattern (28 bp):
AGAGAAAAAAAAAGAGAAACAAAAACAA
Found at i:63670 original size:32 final size:32
Alignment explanation
Indices: 63634--63709 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
63624 AGGGACAATG
*
63634 GGGGCATCTTTGAAGATTCAACATCAAATGTT
1 GGGGCATCTTTGAAGATTCAACATCAAATATT
* *
63666 GGGGCAT-TGTTGGAGATTCAACATCGAATATT
1 GGGGCATCT-TTGAAGATTCAACATCAAATATT
*
63698 GGGCCATCTTTG
1 GGGGCATCTTTG
63710 GGGATTTAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 1 0.03
32 36 0.95
33 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (32 bp):
GGGGCATCTTTGAAGATTCAACATCAAATATT
Found at i:64001 original size:64 final size:64
Alignment explanation
Indices: 63900--64066 Score: 298
Period size: 64 Copynumber: 2.6 Consensus size: 64
63890 TGCAGCTTTT
* * *
63900 AGAGTCAATTTCAACTTCACAACGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAAAAAACAACTTTCCAATTTCATTC
63964 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAAAAAACAACTTTCCAATTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAAAAAACAACTTTCCAATTTCATTC
*
64028 AGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTC
64067 GAAGCAATGC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 99 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAAAAAACAACTTTCCAATTTCATTC
Found at i:64579 original size:84 final size:84
Alignment explanation
Indices: 64378--64610 Score: 244
Period size: 84 Copynumber: 2.8 Consensus size: 84
64368 CCAAGTACAT
*
64378 CATAACTCAAAGGCGAG-AAGAGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGC
1 CATAACTC-AAGGCGAGAAAG-GGTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
* *
64441 TCAAAGGCATATCATTTGCAG
64 TCAAAGGAACATCATTTGCAG
** * *
64462 TTTAACTCAAGGC-A-ATAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTCAGC
1 CATAACTCAAGGCGAGA-AAGGG-TATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
* *
64525 TCAAAGGAACATTATTTTCAG
64 TCAAAGGAACATCATTTGCAG
* * * * *
64546 CATAGCTCAAGGCGAGAAAGGGTATTTGTCAACAGGAA-A-CTGTCGAGTTCGATTCCATTCAGC
1 CATAACTCAAGGCGAGAAAGGGTATCTGTCAACA-AAAGACCT-TCGAGTTCGATTACACTCAGC
64609 TC
64 TC
64611 GATGACATAT
Statistics
Matches: 123, Mismatches: 18, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
82 2 0.02
83 20 0.16
84 92 0.75
85 8 0.07
86 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (84 bp):
CATAACTCAAGGCGAGAAAGGGTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTC
AAAGGAACATCATTTGCAG
Found at i:66322 original size:28 final size:28
Alignment explanation
Indices: 66290--66346 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
66280 CAATTTAATC
66290 ATTTTATTAT-TAT-TATGTTTTATTATTT
1 ATTTTATTATATATGTAT-TTTT-TTATTT
*
66318 ATTTTGTTATATATGTATTTTTTTATTT
1 ATTTTATTATATATGTATTTTTTTATTT
66346 A
1 A
66347 ACCCTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 16 0.62
29 7 0.27
30 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (28 bp):
ATTTTATTATATATGTATTTTTTTATTT
Found at i:66325 original size:17 final size:17
Alignment explanation
Indices: 66291--66338 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
66281 AATTTAATCA
*
66291 TTTTATTA-TTATTATG
1 TTTTATTATTTATTTTG
66307 TTTTATTATTTATTTTG
1 TTTTATTATTTATTTTG
* *
66324 TTATA-TATGTATTTT
1 TTTTATTATTTATTTT
66339 TTTATTTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 17 0.61
17 11 0.39
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTATTATTTATTTTG
Found at i:66383 original size:12 final size:13
Alignment explanation
Indices: 66352--66400 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
66342 ATTTAACCCT
*
66352 TATTATTATA-TA
1 TATTTTTATATTA
*
66364 TATATTTA-ATTA
1 TATTTTTATATTA
66376 TATTTTTATATT-
1 TATTTTTATATTA
66388 TATTTTCTATATT
1 TATTTT-TATATT
66401 TTTATTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 1 0.03
12 21 0.68
13 9 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TATTTTTATATTA
Found at i:66385 original size:22 final size:21
Alignment explanation
Indices: 66360--66405 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
66350 CTTATTATTA
66360 TATATATATTTAAT-TATATTTT
1 TATATATATTT--TCTATATTTT
*
66382 TATATTTATTTTCTATATTTT
1 TATATATATTTTCTATATTTT
66403 TAT
1 TAT
66406 TTTTGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 11 0.50
22 10 0.45
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATATATTTTCTATATTTT
Found at i:67278 original size:4 final size:4
Alignment explanation
Indices: 67256--67404 Score: 53
Period size: 4 Copynumber: 35.8 Consensus size: 4
67246 ATTCCCTTTA
* * *
67256 TATT TATTT TGTT TCTT TATT TA-T T-TT TATTT TATT T-CT TATAT TA-T
1 TATT TA-TT TATT TATT TATT TATT TATT TA-TT TATT TATT TAT-T TATT
*
67303 TA-T TATGT TCTT TATTT TATT TATT T-TAT TACTT T-TT T-TT TATCTT
1 TATT TAT-T TATT TA-TT TATT TATT TAT-T TA-TT TATT TATT TA--TT
* * *
67349 TACTT TATT TTTT TAATCT CATTT TACT TATT TATTT TATT TATT TATT
1 TA-TT TATT TATT T-AT-T TA-TT TATT TATT TA-TT TATT TATT TATT
67398 TATT TAT
1 TATT TAT
67405 GTACTTTCAT
Statistics
Matches: 113, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
3 19 0.17
4 55 0.49
5 32 0.28
6 7 0.06
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:67278 original size:23 final size:22
Alignment explanation
Indices: 67256--67329 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 22
67246 ATTCCCTTTA
67256 TATTTATTTTGTTTCTTTATTT
1 TATTTATTTTGTTTCTTTATTT
* * *
67278 ATTTTTATTTTATTTC-TTATAT
1 -TATTTATTTTGTTTCTTTATTT
*
67300 TA-TTATTATG-TTCTTTATTT
1 TATTTATTTTGTTTCTTTATTT
67320 TATTTATTTT
1 TATTTATTTT
67330 ATTACTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 3 0.07
20 13 0.32
21 7 0.17
22 5 0.12
23 13 0.32
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (22 bp):
TATTTATTTTGTTTCTTTATTT
Found at i:67325 original size:9 final size:9
Alignment explanation
Indices: 67256--67402 Score: 74
Period size: 9 Copynumber: 16.0 Consensus size: 9
67246 ATTCCCTTTA
67256 TATTTATTT
1 TATTTATTT
* *
67265 TGTTT-CTT
1 TATTTATTT
67273 TATTTATTTT
1 TATTTA-TTT
67283 TATTTTATTT
1 TA-TTTATTT
*
67293 CT-TATATTAT
1 -TATTTATT-T
*
67303 TA-TTATGT
1 TATTTATTT
*
67311 TCTTTATTT
1 TATTTATTT
67320 TATTTATTT
1 TATTTATTT
67329 TA-TTACTTTT
1 TATTTA--TTT
*
67339 TTTTTATCTT
1 TATTTAT-TT
67349 TACTTTATTT
1 TA-TTTATTT
*
67359 T-TTTAATCT
1 TATTT-ATTT
* *
67368 CATTT-TACT
1 TATTTAT-TT
67377 TATTTATTT
1 TATTTATTT
67386 TATTTA-TT
1 TATTTATTT
67394 TATTTATTT
1 TATTTATTT
67403 ATGTACTTTC
Statistics
Matches: 105, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
8 23 0.22
9 47 0.45
10 22 0.21
11 13 0.12
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (9 bp):
TATTTATTT
Found at i:67331 original size:23 final size:23
Alignment explanation
Indices: 67271--67404 Score: 81
Period size: 23 Copynumber: 6.0 Consensus size: 23
67261 ATTTTGTTTC
* *
67271 TTTATTTATTTTTATTTTATTTCT
1 TTTATTTA-TTTTATGTTATTTAT
* *
67295 TATA-TTATTATTATGTTCTTTAT
1 TTTATTTATT-TTATGTTATTTAT
*
67318 TTTATTTATTTTA--TTACTT-T
1 TTTATTTATTTTATGTTATTTAT
67338 TTT-TTTATCTTTACT-TTATTT-T
1 TTTATTTAT-TTTA-TGTTATTTAT
* *
67360 TTTAATCTCATTTTA-CTTATTTAT
1 TTT-AT-TTATTTTATGTTATTTAT
67384 TTTATTTA-TTTAT-TTATTTAT
1 TTTATTTATTTTATGTTATTTAT
67405 GTACTTTCAT
Statistics
Matches: 89, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
19 5 0.06
20 8 0.09
21 16 0.18
22 13 0.15
23 27 0.30
24 17 0.19
25 3 0.03
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (23 bp):
TTTATTTATTTTATGTTATTTAT
Found at i:68081 original size:20 final size:20
Alignment explanation
Indices: 68056--68109 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
68046 GACCAACAAA
68056 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
68076 TTCGCAACAC-AGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
*
68096 TTCGCAATGCGAAT
1 TTCGCAACGCGAAT
68110 ATGTAAATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:68931 original size:12 final size:12
Alignment explanation
Indices: 68910--68943 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
68900 ACCACATTTC
*
68910 CAATACCAAACA
1 CAATATCAAACA
68922 CAATATCAAACA
1 CAATATCAAACA
*
68934 CAATCTCAAA
1 CAATATCAAA
68944 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:69096 original size:24 final size:24
Alignment explanation
Indices: 69069--69122 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
69059 GTATTAAAAA
*
69069 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTAAATACCCGGAC
* *
69093 TTTGATCTTGGTAAATACTCGGAT
1 TTTGATCTTGGTAAATACCCGGAC
69117 TTTGAT
1 TTTGAT
69123 GATGTGATGG
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:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTAAATACCCGGAC
Found at i:71414 original size:18 final size:18
Alignment explanation
Indices: 71380--71415 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
71370 AAGCAAAAGG
*
71380 AAATCAAAATCGCAATCA
1 AAATCAAAATCACAATCA
*
71398 AAATCAAAATCATAATCA
1 AAATCAAAATCACAATCA
71416 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.19, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCACAATCA
Found at i:71736 original size:20 final size:20
Alignment explanation
Indices: 71709--71802 Score: 143
Period size: 20 Copynumber: 4.7 Consensus size: 20
71699 AAAATAAGCA
* *
71709 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCACG
* *
71729 TAGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCACG
71749 TTGCGAATTTGACTTTCACG
1 TTGCGAATTTGACTTTCACG
*
71769 TTGCGAATTTAACTTTCACG
1 TTGCGAATTTGACTTTCACG
71789 TTGCGAATTTGACT
1 TTGCGAATTTGACT
71803 ATCTCAACGC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCACG
Found at i:71956 original size:25 final size:25
Alignment explanation
Indices: 71918--71969 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
71908 AAATCAATTA
*
71918 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
71943 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
71968 AA
1 AA
71970 AAAATAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:72373 original size:24 final size:24
Alignment explanation
Indices: 72346--72410 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
72336 TTTCATATGT
*
72346 AATTGGATTTTGAATTTAAATTTC
1 AATTGGAGTTTGAATTTAAATTTC
*
72370 AATTTGAGTTTGAATTTAAATTTC
1 AATTGGAGTTTGAATTTAAATTTC
* * *
72394 ATTTTGAGTTTGGATTT
1 AATTGGAGTTTGAATTT
72411 CAATATAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.52
Consensus pattern (24 bp):
AATTGGAGTTTGAATTTAAATTTC
Found at i:72375 original size:18 final size:18
Alignment explanation
Indices: 72354--72392 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
72344 GTAATTGGAT
*
72354 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTAAA
* *
72372 TTTGAGTTTGAATTTAAA
1 TTTGAATTTAAATTTAAA
72390 TTT
1 TTT
72393 CATTTTGAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (18 bp):
TTTGAATTTAAATTTAAA
Found at i:72768 original size:39 final size:39
Alignment explanation
Indices: 72725--72811 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
72715 TCCGATGCTC
*
72725 ATCAAAATCCAAAGCTCATATGGTGTCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
72764 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
72803 ATCAAAATC
1 ATCAAAATC
72812 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:73107 original size:20 final size:20
Alignment explanation
Indices: 73082--73119 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
73072 GCAACGCTTA
73082 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
73102 TTTCGCGTTGCGAATTTG
1 TTTCGCGTTGCGAATTTG
73120 TACCTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.42
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:73299 original size:61 final size:63
Alignment explanation
Indices: 73169--73307 Score: 176
Period size: 61 Copynumber: 2.2 Consensus size: 63
73159 TTTTAGAAAC
* *
73169 AACAAATCAACTTTTACAAATCAATTAAACAAGTAAAAATAATTCTTATTTACAAATCGAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAG-AAAAATAAATATTATTTACAAATCGAATTA
* * ** *
73233 AACAAATCAACTTTTACAAATCAATTAATC-A-AAAAATAAATATTATTTCCTCATC-AATTGT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAATAAATATTATTTACAAATCGAATT-A
73294 AACAAATCAACTTT
1 AACAAATCAACTTT
73308 CAATGTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 4 0.06
61 33 0.49
63 1 0.01
64 29 0.43
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAATAAATATTATTTACAAATCGAATTA
Found at i:74093 original size:21 final size:21
Alignment explanation
Indices: 74069--74164 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
74059 GGCGGGACCA
* *
74069 CTTGAATGATGACAGGAGCCT
1 CTTGAATGATGAGAGGGGCCT
* * * *
74090 CTTGAACGGTGGGAGGGGCTT
1 CTTGAATGATGAGAGGGGCCT
74111 CTTCG-ATGATGAGAGGGGCCT
1 CTT-GAATGATGAGAGGGGCCT
**
74132 CTTGAATGAT-AGGAGTCGCCT
1 CTTGAATGATGA-GAGGGGCCT
74153 CTTGAATGATGA
1 CTTGAATGATGA
74165 TAGGTGCATC
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.03
21 55 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (21 bp):
CTTGAATGATGAGAGGGGCCT
Found at i:74162 original size:42 final size:42
Alignment explanation
Indices: 74069--74164 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
74059 GGCGGGACCA
* * * *
74069 CTTGAATGATGACAGGAGCCTCTTGAACGGTGGGAGGGGCTT
1 CTTGAATGATGACAGGAGCCTCTTGAACGATAGGAGGCGCCT
* * * *
74111 CTTCG-ATGATGAGAGGGGCCTCTTGAATGATAGGAGTCGCCT
1 CTT-GAATGATGACAGGAGCCTCTTGAACGATAGGAGGCGCCT
74153 CTTGAATGATGA
1 CTTGAATGATGA
74165 TAGGTGCATC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 42 0.95
43 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (42 bp):
CTTGAATGATGACAGGAGCCTCTTGAACGATAGGAGGCGCCT
Found at i:74340 original size:4 final size:4
Alignment explanation
Indices: 74308--74353 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
74298 GGCCCGCTGA
* * * *
74308 AAAT AAAT TAAT ATAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
74354 TACCGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:75358 original size:13 final size:12
Alignment explanation
Indices: 75333--75367 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
75323 TTTTATTATA
75333 TTTAGT-ATTTT
1 TTTAGTAATTTT
75344 TTTAGTAATTTT
1 TTTAGTAATTTT
*
75356 TTTAGTTATTTT
1 TTTAGTAATTTT
75368 AATTGTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (12 bp):
TTTAGTAATTTT
Found at i:77845 original size:19 final size:20
Alignment explanation
Indices: 77818--77862 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
77808 AAATGGAGAA
*
77818 AGAAAAAAACCAAAAACCAG
1 AGAAAAAACCCAAAAACCAG
77838 AGAAAAAACCCAAAAACCAG
1 AGAAAAAACCCAAAAACCAG
77858 AGAAA
1 AGAAA
77863 TTCAAAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.69, C:0.20, G:0.11, T:0.00
Consensus pattern (20 bp):
AGAAAAAACCCAAAAACCAG
Found at i:80709 original size:3 final size:3
Alignment explanation
Indices: 80703--80732 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
80693 TTAATTTCTG
*
80703 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
80733 ATAATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:82548 original size:16 final size:16
Alignment explanation
Indices: 82508--82548 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
82498 AAATGATAAT
* *
82508 TTTTTATTTCTTTTTA
1 TTTTTATGTCATTTTA
82524 TTTTT-TGTCATTTTA
1 TTTTTATGTCATTTTA
82539 TTTTTATGTC
1 TTTTTATGTC
82549 GTCTTAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTTTATGTCATTTTA
Found at i:84641 original size:55 final size:55
Alignment explanation
Indices: 84571--84992 Score: 582
Period size: 55 Copynumber: 7.7 Consensus size: 55
84561 AAGTGTGAAA
* *
84571 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCTTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
*
84626 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGTACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* *
84681 AAAATTAAGAAATTCATACAAAGTGGATGAATTTCCGTATGGGC-CTTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCAC-TTTATGTGT
* *
84736 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGCAG-ACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG-GGCACTTTATGTGT
* * *
84791 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATAGGTACTTTATGAGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* * * *
84846 AAACTTAAGAAATTTATACTTAGTGGATAAATTTTCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* * * * *
84901 AAACTTAAGAAATTCATACTAAGTGGATGAATTGCTGTATGGACACTTTATATGAA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTG-T
* * *
84957 AAAC-TAGGAAATTCATAGC-AAGTGTATAAATTTCCG
1 AAACTTAAGAAATTCATA-CTAAGTGGATGAATTTCCG
84993 CATTGGTAGT
Statistics
Matches: 326, Mismatches: 35, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
54 2 0.01
55 317 0.97
56 7 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
Done.