Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008751.1 Hibiscus syriacus cultivar Beakdansim tig00111842_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: 806611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:162523 original size:21 final size:21
Alignment explanation
Indices: 162465--162524 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
162455 CAGCAGCGAA
* * *
162465 AGCAGAGAAAGAAGCAGCGGC
1 AGCACAGAGAGAAGCAACGGC
162486 AGCACAGAGAGAAGCAACGGC
1 AGCACAGAGAGAAGCAACGGC
* *
162507 AGCATAGAGGGAAGCAAC
1 AGCACAGAGAGAAGCAAC
162525 ATATCAGCAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.43, C:0.20, G:0.35, T:0.02
Consensus pattern (21 bp):
AGCACAGAGAGAAGCAACGGC
Found at i:162913 original size:44 final size:43
Alignment explanation
Indices: 162863--162945 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 43
162853 TTTGTTAAAA
162863 AAACGCCGCAATATACC-ATACATTTAGCGGCGTTTGTATACTAT
1 AAACGCCGCAATATACCGA-AC-TTTAGCGGCGTTTGTATACTAT
* *
162907 AAACGCCGCGATATACCGAACTTTAGCGGCGTTTTTATA
1 AAACGCCGCAATATACCGAACTTTAGCGGCGTTTGTATA
162946 AAAAATGCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 17 0.47
44 18 0.50
45 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGCAATATACCGAACTTTAGCGGCGTTTGTATACTAT
Found at i:162979 original size:43 final size:43
Alignment explanation
Indices: 162932--163244 Score: 188
Period size: 43 Copynumber: 7.3 Consensus size: 43
162922 CCGAACTTTA
* *
162932 GCGGCGTTTTTATAAAAAATGCCGCTAAAGCTCAACACCTATT
1 GCGGCGTTTTTATAAAAAACGCCGCTAAATCTCAACACCTATT
* * * *
162975 GCGGCATTTTCA-ATAGAAACGCCGCTAATTCTCAAC-CCTTATT
1 GCGGCGTTTTTATA-AAAAACGCCGCTAAATCTCAACACC-TATT
** * * * * * * *
163018 GCATCGTTTTCGAT-ACAAACACCGCTTAATCTGAAAACCTACT
1 GCGGCGTTTT-TATAAAAAACGCCGCTAAATCTCAACACCTATT
* * *** * *
163061 GCGACGTTTGTGGGAGAAACGCCGCTAAA-CATCATCACCTATT
1 GCGGCGTTTTTATAAAAAACGCCGCTAAATC-TCAACACCTATT
* * *
163104 GCGGCGTTTTT-TGAAAAAAACGTCGCAAAATATCAACACCTATT
1 GCGGCGTTTTTAT--AAAAAACGCCGCTAAATCTCAACACCTATT
* *** *
163148 GCGGCGTTTGTAGGGAAAACGCCGCTAAA-CATCAAAACCTATT
1 GCGGCGTTTTTATAAAAAACGCCGCTAAATC-TCAACACCTATT
* * * * **
163191 GCGGTGTTTTTGTGACAAACGCCGCTAAATAACAACACCTATT
1 GCGGCGTTTTTATAAAAAACGCCGCTAAATCTCAACACCTATT
*
163234 GCGGCATTTTT
1 GCGGCGTTTTT
163245 TTGTTAAAAA
Statistics
Matches: 199, Mismatches: 58, Indels: 26
0.70 0.20 0.09
Matches are distributed among these distances:
42 4 0.02
43 159 0.80
44 36 0.18
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTTTATAAAAAACGCCGCTAAATCTCAACACCTATT
Found at i:163174 original size:87 final size:86
Alignment explanation
Indices: 163054--163238 Score: 248
Period size: 87 Copynumber: 2.1 Consensus size: 86
163044 TAATCTGAAA
* * **
163054 ACCTACTGCGACGTTTGTGGGAGAAACGCCGCTAAACATCATCACCTATTGCGGCGTTTTT-TGA
1 ACCTATTGCGGCGTTTGTGGGAGAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTTTGTG-
* *
163118 AAAAAACGTCGCAAAATATCAAC
65 -AAAAACGCCGCAAAATAACAAC
*
163141 ACCTATTGCGGCGTTTGTAGGGA-AAACGCCGCTAAACATCAAAACCTATTGCGGTGTTTTTGTG
1 ACCTATTGCGGCGTTTGT-GGGAGAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTTTGTG
* *
163205 ACAAACGCCGCTAAATAACAAC
65 AAAAACGCCGCAAAATAACAAC
163227 ACCTATTGCGGC
1 ACCTATTGCGGC
163239 ATTTTTTTGT
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
86 30 0.34
87 51 0.59
88 6 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (86 bp):
ACCTATTGCGGCGTTTGTGGGAGAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTTTGTGA
AAAACGCCGCAAAATAACAAC
Found at i:185706 original size:70 final size:71
Alignment explanation
Indices: 185581--185714 Score: 193
Period size: 70 Copynumber: 1.9 Consensus size: 71
185571 AATAAAAATT
* * *
185581 TTATCTCATTGGAGATAGTTTTTCTTAAAACAAATAGTCTCACTCGGGACAATTTCTCTTGAAAA
1 TTATCTCATTGGAGATAGTTTTCCTTAAAACAAATAGTCTCACTCGAGACAATTTCTCTCGAAAA
185646 TTTTTG
66 TTTTTG
*
185652 TTATCTCACTT-GATATAGTTTTCCTTAAAA-AAATTA-TCTCACTCGAGACAATTTCTCTCGAA
1 TTATCTCA-TTGGAGATAGTTTTCCTTAAAACAAA-TAGTCTCACTCGAGACAATTTCTCTCGAA
185714 A
64 A
185715 CAAAATTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
70 28 0.49
71 27 0.47
72 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (71 bp):
TTATCTCATTGGAGATAGTTTTCCTTAAAACAAATAGTCTCACTCGAGACAATTTCTCTCGAAAA
TTTTTG
Found at i:185726 original size:70 final size:70
Alignment explanation
Indices: 185574--185728 Score: 190
Period size: 70 Copynumber: 2.2 Consensus size: 70
185564 CCCTTAAAAT
* *
185574 AAAAATTTTATCTCATTGGAGATAGTTTTTCTTAAAACAAATAGTCTCACTCGGGACAATTTCTC
1 AAAAATTTTATCTCATTGGAGATAGTTTTCCTTAAAACAAATAGTCTCACTCGAGACAATTTCTC
*
185639 TTGAA
66 TCGAA
*** *
185644 AATTTTTGTTATCTCACTT-GATATAGTTTTCCTTAAAA-AAATTA-TCTCACTCGAGACAATTT
1 AAAAATT-TTATCTCA-TTGGAGATAGTTTTCCTTAAAACAAA-TAGTCTCACTCGAGACAATTT
185706 CTCTCGAA
63 CTCTCGAA
185714 ACAAAATTTTATCTC
1 A-AAAATTTTATCTC
185729 GTTTATTTTC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
70 39 0.55
71 30 0.42
72 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (70 bp):
AAAAATTTTATCTCATTGGAGATAGTTTTCCTTAAAACAAATAGTCTCACTCGAGACAATTTCTC
TCGAA
Found at i:185889 original size:70 final size:71
Alignment explanation
Indices: 185776--186188 Score: 270
Period size: 70 Copynumber: 5.8 Consensus size: 71
185766 GGTAATATTA
* * ** * * *
185776 AAAATTTCATCTCACTTGGGATATTTTCCAGTGAAA-GTTTTGTCTCACTCGAGACAGTTTCACT
1 AAAATTTCATCTCACTTGAGATAGTTTCCCTTGAAATATTTTGTCTCACTTGAGATAGTTTCACT
*
185840 GGAAAC
66 CGAAAC
* * *
185846 AAAATTGCATCTCATTTGAGATA-TTTCCCTTGAAATATTTTGTCTCACTTGAGATAATTTCACT
1 AAAATTTCATCTCACTTGAGATAGTTTCCCTTGAAATATTTTGTCTCACTTGAGATAGTTTCACT
185910 CGAAAC
66 CGAAAC
* * * **
185916 -AAATTTCATCTAACTTGAGATAGTTTCTCTTGAAATAAATTTTCTCTCACTTGAGATAGTTTTT
1 AAAATTTCATCTCACTTGAGATAGTTTCCCTTGAAAT--ATTTTGTCTCACTTGAGATAGTTTCA
*
185980 CTCAAAAAC
64 CTC-GAAAC
* * * * * *
185989 AATAATTT--TCTCACTTGAGAAATTTTCTCTTGAAAT-TTTTCGTCAT-ACTCGAGACATTTTC
1 AA-AATTTCATCTCACTTGAGATAGTTTCCCTTGAAATATTTT-GTC-TCACTTGAGATAGTTTC
* * *
186050 TCTCAAAATA
63 ACTCGAAA-C
* ** * * * * *
186060 AAAATTTTATCTCACTTGAGATAGTTTTTCTTAAAATAATTTTTTTGTCTCACTCGAAACAATTT
1 AAAATTTCATCTCACTTGAGATAGTTTCCCTTGAAAT-A---TTTTGTCTCACTTGAGATAGTTT
*
186125 CTCTC-AAA-
62 CACTCGAAAC
* * * * * *
186133 AAATATTTCA-CATCACTTGAGATATTTTCTCTTAAAATATTATGTTTCACTCGAGA
1 AAA-ATTTCATC-TCACTTGAGATAGTTTCCCTTGAAATATTTTGTCTCACTTGAGA
186189 CATTGTCTTG
Statistics
Matches: 283, Mismatches: 40, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
69 29 0.10
70 88 0.31
71 19 0.07
72 50 0.18
73 34 0.12
74 30 0.11
75 9 0.03
76 20 0.07
77 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (71 bp):
AAAATTTCATCTCACTTGAGATAGTTTCCCTTGAAATATTTTGTCTCACTTGAGATAGTTTCACT
CGAAAC
Found at i:185974 original size:36 final size:36
Alignment explanation
Indices: 185813--186171 Score: 166
Period size: 36 Copynumber: 9.9 Consensus size: 36
185803 CCAGTGAAAG
* * * * * *
185813 TTTTGTCTCACTCGAGACAGTTTCACTGGAAACAAA
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * * *
185849 ATTGCATCTCATTTGAGATA-TTTCCCTTGAAAT--A
1 TTTTC-TCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * * * *
185883 TTTTGTCTCACTTGAGATAATTTCACTCGAAACAAA
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
*
185919 -TTTCATCTAACTTGAGATAGTTTCTCTTGAAATAAA
1 TTTTC-TCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * *
185955 TTTTCTCTCACTTGAGATAGTTTTTC-TCAAAAACAA
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATA-AA
* *
185991 TAATTT-TCTCACTTGAGAAATTTTCTCTTGAAAT---
1 T--TTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * * **
186025 TTTTCGTCAT-ACTCGAGACATTTTCTCTCAAAATAAAAA
1 TTTTC-TC-TCACTTGAGATAGTTTCTCTTGAAAT--AAA
* * * *
186064 TTTTATCTCACTTGAGATAGTTTTTCTTAAAATAATTT
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAA--A
* * * * * *
186102 TTTTGTCTCACTCGAAACAATTTCTC-TCAAA-AAA
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * *
186136 TATTTCACATCACTTGAGATATTTTCTCTTAAAATA
1 T-TTTCTC-TCACTTGAGATAGTTTCTCTTGAAATA
186172 TTATGTTTCA
Statistics
Matches: 241, Mismatches: 57, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
32 3 0.01
33 13 0.05
34 37 0.15
35 13 0.05
36 80 0.33
37 42 0.17
38 49 0.20
39 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (36 bp):
TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
Found at i:201450 original size:13 final size:13
Alignment explanation
Indices: 201432--201457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
201422 GTATGAATTT
201432 GACTAGATTCAGG
1 GACTAGATTCAGG
201445 GACTAGATTCAGG
1 GACTAGATTCAGG
201458 TCGATCCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
GACTAGATTCAGG
Found at i:205927 original size:149 final size:152
Alignment explanation
Indices: 205562--205970 Score: 413
Period size: 149 Copynumber: 2.7 Consensus size: 152
205552 ATTTAAAAGA
* * * * * *
205562 AAAAAAATCATTTCTCAGTGACCATTGAATGAACAATGAC-AAAACTTTTCAGTGCTCAATCAAA
1 AAAAACATCATTTCTCAGTGATCATTTAATGAACAATAACAAAAACTTTT-AGTGCCCAATCAAT
* * *
205626 TCATTTTTCAACTTTTCAGTGATATATCACTTC-A-TCACATATGAGCATATCAAACCATTGAAT
65 TCATTTTTGAACTTTTCAGTGATATATCACTTCAATTCA-GTGTGAGCA-ATCAAACCATTGAAT
205689 GATGTTTTCAACCAATGCTTTAATG
128 GATGTTTTCAACCAATGCTTTAATG
* * *
205714 AAAAACATCATTTTTCTTAGTGATCATTTAATGCACAATAACAAAAACTTTTTAGTGCCTAATCA
1 AAAAACATCA--TTTCTCAGTGATCATTTAATGAACAATAACAAAAAC-TTTTAGTGCCCAATCA
* * * * *
205779 TTTCGTTTTTGAACTTTTCAGTGACATATCACTTCAATTCAGTGTTA-C-ATCAGACCATTGAAT
63 ATTCATTTTTGAACTTTTCAGTGATATATCACTTCAATTCAGTGTGAGCAATCAAACCATTGAAT
** * *
205842 GATGTTTTTGA-CTAT-TTTTAATG
128 GATGTTTTCAACCAATGCTTTAATG
** * * * *
205865 AAAAATGTCATTTCTCATTGATCATTTAATGAACAATAATAGAAAAGTTTTAGTGCCCAATCACT
1 AAAAACATCATTTCTCAGTGATCATTTAATGAACAATAACA-AAAACTTTTAGTGCCCAATCAAT
* * *
205930 TCATTTCTGAA-TTTTTAGTGATAAATCAAC-TCAATTCAGTG
65 TCATTTTTGAACTTTTCAGTGATATATC-ACTTCAATTCAGTG
205971 ACATATCAAA
Statistics
Matches: 214, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
148 24 0.11
149 54 0.25
150 4 0.02
151 15 0.07
152 12 0.06
153 23 0.11
154 25 0.12
155 46 0.21
156 8 0.04
157 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (152 bp):
AAAAACATCATTTCTCAGTGATCATTTAATGAACAATAACAAAAACTTTTAGTGCCCAATCAATT
CATTTTTGAACTTTTCAGTGATATATCACTTCAATTCAGTGTGAGCAATCAAACCATTGAATGAT
GTTTTCAACCAATGCTTTAATG
Found at i:206680 original size:26 final size:26
Alignment explanation
Indices: 206651--206711 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
206641 TATTGTATTA
*
206651 TAATGTAATATAATAGTTAATGTTTC
1 TAATGTAATATAAGAGTTAATGTTTC
* * *
206677 TAATGTAACATAGGAGTTATTGTTTC
1 TAATGTAATATAAGAGTTAATGTTTC
*
206703 TGATGTAAT
1 TAATGTAAT
206712 GCATGCGTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.44
Consensus pattern (26 bp):
TAATGTAATATAAGAGTTAATGTTTC
Found at i:209368 original size:15 final size:15
Alignment explanation
Indices: 209350--209379 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
209340 AAAACCATGT
209350 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
209365 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
209380 GAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:209386 original size:15 final size:15
Alignment explanation
Indices: 209353--209387 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
209343 ACCATGTTAG
* *
209353 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
209368 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
209383 ATAAA
1 ATAAA
209388 TAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:209537 original size:8 final size:8
Alignment explanation
Indices: 209508--209585 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
209498 AAAAAGAAAA
209508 AAAAT-AT
1 AAAATAAT
*
209515 AGAAATAAA
1 A-AAATAAT
209524 ACAAATAAT
1 A-AAATAAT
209533 AAAATAAT
1 AAAATAAT
*
209541 AATAAAAAGT
1 AA-AATAA-T
209551 AAAATAAT
1 AAAATAAT
*
209559 -ATATATAT
1 AAAATA-AT
*
209567 AAAATAAA
1 AAAATAAT
209575 AAAATAA-
1 AAAATAAT
209582 AAAA
1 AAAA
209586 AAGTATATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
7 9 0.16
8 24 0.42
9 21 0.37
10 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:209573 original size:39 final size:37
Alignment explanation
Indices: 209526--209626 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 37
209516 GAAATAAAAC
209526 AAATAATAAAATAATAATAAAAAGTAAAATAATATATAT
1 AAATAATAAAATAATAATAAAAAGT-AAAT-ATATATAT
* * *
209565 ATAA-AATAAAAAAATAAAAAAAAGTATATATATATAT
1 A-AATAATAAAATAATAATAAAAAGTAAATATATATAT
*
209602 AAATTAATAAAACTGATAATAAAAA
1 AAA-TAATAAAA-TAATAATAAAAA
209627 AATAATTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
36 2 0.04
37 9 0.17
38 10 0.19
39 29 0.56
40 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (37 bp):
AAATAATAAAATAATAATAAAAAGTAAATATATATAT
Found at i:209574 original size:21 final size:18
Alignment explanation
Indices: 209507--209627 Score: 68
Period size: 18 Copynumber: 6.3 Consensus size: 18
209497 GAAAAAGAAA
*
209507 AAAAATATAGAAATAA-AAC
1 AAAAA-ATA-AAATAATAAT
*
209526 AAATAATAAAATAATAAT
1 AAAAAATAAAATAATAAT
*
209544 AAAAAGTAAAATAATATAT
1 AAAAAATAAAATAATA-AT
*
209563 ATATAAAATAAAAAAATAA-
1 A-A-AAAATAAAATAATAAT
*
209582 AAAAAAGT-ATATATATATAT
1 AAAAAA-TAAAATA-ATA-AT
* *
209602 AAATTAATAAAACTGATAAT
1 AAA-AAATAAAA-TAATAAT
209622 AAAAAA
1 AAAAAA
209628 ATAATTTTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
17 13 0.16
18 24 0.30
19 11 0.14
20 11 0.14
21 19 0.24
22 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAAATAAAATAATAAT
Found at i:209576 original size:29 final size:31
Alignment explanation
Indices: 209536--209603 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 31
209526 AAATAATAAA
* *
209536 ATAATAATAAAAAGT-AAAATAA-TATATAT
1 ATAATAATAAAAAATAAAAAAAAGTATATAT
209565 ATAA-AATAAAAAAATAAAAAAAAGTATATAT
1 ATAATAAT-AAAAAATAAAAAAAAGTATATAT
209596 ATATATAA
1 ATA-ATAA
209604 ATTAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.09
29 10 0.31
30 6 0.19
31 10 0.31
32 1 0.03
33 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (31 bp):
ATAATAATAAAAAATAAAAAAAAGTATATAT
Found at i:209577 original size:23 final size:21
Alignment explanation
Indices: 209504--209577 Score: 53
Period size: 23 Copynumber: 3.4 Consensus size: 21
209494 GAAGAAAAAG
*
209504 AAAAAAAAT-ATAGAA-ATAA
1 AAAAAAAATAATATAATATAA
* *
209523 AACAAATAATAAAATAATAATAA
1 AA-AAAAAATAATATAAT-ATAA
*
209546 AAAGTAAAATAATATATATATAA
1 AAA-AAAAATAATATA-ATATAA
209569 AATAAAAAA
1 AA-AAAAAA
209578 ATAAAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 2 0.05
20 6 0.15
21 4 0.10
22 1 0.02
23 25 0.61
24 3 0.07
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (21 bp):
AAAAAAAATAATATAATATAA
Found at i:209585 original size:77 final size:76
Alignment explanation
Indices: 209498--209669 Score: 170
Period size: 77 Copynumber: 2.2 Consensus size: 76
209488 GAAAAAGAAG
*
209498 AAAAAGAAAAAAAATATAGAAATA-AAACAAATAATAAAA-TAATAATAAAAAGTAA-AATAATA
1 AAAAAAAAAAAAAATATAGAAATATAAA-AAATAATAAAACTAATAATAAAAA--AATAATAATA
209560 TATATATAAAATAA
63 TATATATAAAATAA
* * * * * * **
209574 AAAAATAAAAAAAAGTATATATATATATAAATTAATAAAACTGATAATAAAAAAATAATTTTATA
1 AAAAA-AAAAAAAAATATAGAAATATAAAAAATAATAAAACTAATAATAAAAAAATAATAATATA
**
209639 TATATAATCTAA
65 TATATAAAATAA
*
209651 AAAAAAATAAAAATATATA
1 AAAAAAA-AAAAAAATATA
209670 TTAAAGTAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
76 9 0.12
77 56 0.72
78 13 0.17
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (76 bp):
AAAAAAAAAAAAAATATAGAAATATAAAAAATAATAAAACTAATAATAAAAAAATAATAATATAT
ATATAAAATAA
Found at i:209586 original size:9 final size:9
Alignment explanation
Indices: 209466--209587 Score: 68
Period size: 9 Copynumber: 13.0 Consensus size: 9
209456 AAATAGTAAG
*
209466 TAAAATAAA
1 TAAAAAAAA
*
209475 TATAAAAAA
1 TAAAAAAAA
209484 TAAAGAAAAA
1 TAAA-AAAAA
* *
209494 GAAGAAAAA
1 TAAAAAAAA
*
209503 GAAAAAAAA
1 TAAAAAAAA
* *
209512 T-ATAGAAA
1 TAAAAAAAA
*
209520 TAAAACAAA
1 TAAAAAAAA
209529 TAATAAAATAA
1 TAA-AAAA-AA
*
209540 TAATAAAAAG
1 TAA-AAAAAA
209550 TAAAATAATATA
1 TAAAA-AA-A-A
* *
209562 TATATAAAA
1 TAAAAAAAA
209571 T-AAAAAAA
1 TAAAAAAAA
209579 TAAAAAAAA
1 TAAAAAAAA
209588 GTATATATAT
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
8 12 0.14
9 42 0.48
10 17 0.20
11 13 0.15
12 3 0.03
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:210075 original size:34 final size:34
Alignment explanation
Indices: 210032--210100 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
210022 GAATCCTAGC
210032 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
210066 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
210100 A
1 A
210101 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:210949 original size:105 final size:105
Alignment explanation
Indices: 210649--211411 Score: 1024
Period size: 105 Copynumber: 7.3 Consensus size: 105
210639 CATTGTTCCA
* * * * ** * * *
210649 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * *
210714 CAGTC-GTCCCTTCGTTGTAAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
210755 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
210815 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
210855 AATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
210920 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
210960 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAA---GTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
211022 AGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
211062 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
211127 AGCGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
211167 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
211232 AGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
211272 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * *
211337 CAGTC-GTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
211378 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
211412 CGCAGATGGC
Statistics
Matches: 589, Mismatches: 54, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
99 1 0.00
100 80 0.14
101 1 0.00
102 98 0.17
103 4 0.01
104 3 0.01
105 297 0.50
106 80 0.14
107 4 0.01
109 21 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:211083 original size:207 final size:208
Alignment explanation
Indices: 210648--211411 Score: 1013
Period size: 207 Copynumber: 3.7 Consensus size: 208
210638 GCATTGTTCC
* * * * ** * *
210648 AAGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * * ** *
210713 CCAGTCGTCCCTTCGTTGTAAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
66 CCAGTCGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
** * *
210778 GTTGAAATTGAATCTGAA-T-GAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GTTGAAATTGGCTCTGAATTGGGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
210841 CTTGCGTTGTCTGG
196 CTTGCGTTGTCT-G
* * *
210855 AA-TCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * *
210918 GCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGGAGTCCAATATCCTTCGTTGTGA
66 CCAGTC-GTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGA
*
210982 AGTTGAAATTGGCTCTGAGATTGGGAA-GTTGTTGACAAGCAGCGGTCCTTTCGTCGTGAAGTTG
130 AGTTGAAATTGGCTCTGA-ATTGGGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
211046 AACTTGCGTTGTCTG
194 AACTTGCGTTGTCTG
* *
211061 AAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTG-TTGTTGACAA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
211125 GCAG-CGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGA
66 CCAGTC-GTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * * *
211189 AGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGCCGTGAAGT
130 AGTTGAAATTGGCTCTG-AATTGGGAA--TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
211254 TGAACTTGCGTTGTCTG
192 TGAACTTGCGTTGTCTG
* *
211271 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* ** * * *
211336 CCAGTCGTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTCGAGTGCCACGATATCCTCCGTCGT
66 CCAGTCGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTGGAGT-CCA--ATATCCTTCGTTGT
*
211401 GGAGTTGAAAT
128 GAAGTTGAAAT
211412 CGCAGATGGC
Statistics
Matches: 497, Mismatches: 46, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
204 1 0.00
205 81 0.16
206 46 0.09
207 193 0.39
208 4 0.01
210 99 0.20
211 48 0.10
212 4 0.01
214 21 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (208 bp):
AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGTCGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAATTGGGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTG
Found at i:211202 original size:312 final size:309
Alignment explanation
Indices: 210649--211411 Score: 1068
Period size: 312 Copynumber: 2.4 Consensus size: 309
210639 CATTGTTCCA
* * * **
210649 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGG-AA-TGTTTGTTGACAA
*
210713 CCAGTCGTCCCTTCGTTGTAAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
63 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
*
210778 GTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
128 GTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTAAACT
* * * *
210843 TGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTG
193 TGCATTGTCTGGAATCCAATATCCTTCGTTGTGAAATTAAAATTGGCTCTGAAATTGAGAAGTTG
*
210908 TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGG
258 TTGTTGACAAGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCATTGTATGG
*
210960 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAA-G-TTGTTGACAAGCA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAATGTTTGTTGACAACCA
* * * *
211023 G-CGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTTGTTGTGAAG
66 GTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG-AGTCCAATATCCTTCGTTGTGAAG
** *
211086 TTGAAATTGGCTCTGAAATTAAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTA
129 TTGAAATTGAATCTG-AA-T--GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTA
* *
211151 AACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAA
189 AACTTGCATTGTCTGGAATCCAATATCCTTCGTTGTGAAATTAAAATTGGCTCTGAAATTGAGAA
* * *
211216 GTTGTTGTTGACAGGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
254 GTTGTTGTTGACAAGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCATTGTATGG
* * *
211272 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAA--TGTTTGTTGACAAC
* * *
211337 CAGTCGTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTCGAGTGCCACGATATCCTCCGTCGTG
64 CAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-CCA--ATATCCTTCGTTGTG
*
211402 GAGTTGAAAT
126 AAGTTGAAAT
211412 CGCAGATGGC
Statistics
Matches: 398, Mismatches: 37, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
306 2 0.01
307 79 0.20
308 3 0.01
309 1 0.00
310 2 0.01
311 45 0.11
312 193 0.48
315 1 0.00
316 46 0.12
317 5 0.01
319 21 0.05
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (309 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAATGTTTGTTGACAACCA
GTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGC
ATTGTCTGGAATCCAATATCCTTCGTTGTGAAATTAAAATTGGCTCTGAAATTGAGAAGTTGTTG
TTGACAAGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCATTGTATGG
Found at i:212298 original size:65 final size:65
Alignment explanation
Indices: 212194--212373 Score: 306
Period size: 65 Copynumber: 2.8 Consensus size: 65
212184 GACAAAATTT
212194 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
212259 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
212324 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAA
212374 CTATCTCAAG
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 107 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:212374 original size:36 final size:37
Alignment explanation
Indices: 212324--212630 Score: 198
Period size: 36 Copynumber: 8.9 Consensus size: 37
212314 TCAATGTTTA
* *
212324 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
212361 T-TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
212396 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* **
212424 ATGTTTCAAGAGAAACTGTCTCAATG-GAGACGGAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* *
212462 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA--C
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
212497 TCATTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
212525 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
212563 TGTTTCAAGGGAAACTGTCTCAACAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
212599 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
212631 TGGTGAGCAC
Statistics
Matches: 204, Mismatches: 35, Indels: 62
0.68 0.12 0.21
Matches are distributed among these distances:
28 2 0.01
29 28 0.14
30 6 0.03
32 3 0.01
33 2 0.01
34 3 0.01
35 19 0.09
36 79 0.39
37 56 0.27
38 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:212374 original size:101 final size:102
Alignment explanation
Indices: 212259--212612 Score: 577
Period size: 101 Copynumber: 3.5 Consensus size: 102
212249 TCAATGTTTA
* **
212259 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
212324 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
212361 T-TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
212425 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
212462 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCA-TTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
212526 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * **
212563 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
212613 CTGTCTCAAG
Statistics
Matches: 233, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
101 186 0.80
102 47 0.20
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:212456 original size:166 final size:169
Alignment explanation
Indices: 212159--212475 Score: 543
Period size: 166 Copynumber: 1.9 Consensus size: 169
212149 AAGATGATGC
*
212159 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
212224 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
212289 GGAA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
131 GGAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
*
212327 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTT-TTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
212390 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAATG-GAGA
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAA-GAGAGA
**
212454 CGGAATTTTGTTTCAAGGGAAA
130 CGGAATTTCATTTCAAGGGAAA
212476 CTATCTCAAG
Statistics
Matches: 141, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
166 91 0.65
167 42 0.30
168 8 0.06
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
GGAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:212476 original size:37 final size:36
Alignment explanation
Indices: 212425--212630 Score: 148
Period size: 37 Copynumber: 5.9 Consensus size: 36
212415 TCAATGTTTA
* *
212425 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
1 TGTTTCAAGGGAAACTGTCTCAATGGAGAC-AAATTT
* **
212462 TGTTTCAAGGGAAACTATCTCAA-GAGAGACAAA-AC
1 TGTTTCAAGGGAAACTGTCTCAATG-GAGACAAATTT
** *
212497 TCATTCAAGGGAAA-TGTTTTCAAT---G-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAATGGAGACAAATTT
* * *
212525 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAATGGAG-ACAAATTT
** *
212563 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAATGGAGACAAATTT
212599 TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAATG-GAGACAA
212631 TGGTGAGCAC
Statistics
Matches: 131, Mismatches: 22, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
29 16 0.12
30 2 0.02
32 2 0.02
34 1 0.01
35 17 0.13
36 39 0.30
37 51 0.39
38 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAATGGAGACAAATTT
Found at i:213516 original size:22 final size:22
Alignment explanation
Indices: 213491--213541 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
213481 TTGTGTTTGG
213491 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
213513 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
213535 TCAAAGG
1 TCAAAGG
213542 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:214173 original size:19 final size:20
Alignment explanation
Indices: 214148--214193 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
214138 GTTTTTGTTC
*
214148 CCTTTTTATTTTTGTTCTTT
1 CCTTTTTATTCTTGTTCTTT
* *
214168 -CTTTTTGTTCTTGTTTTTT
1 CCTTTTTATTCTTGTTCTTT
214187 CCTTTTT
1 CCTTTTT
214194 TGCTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.02, C:0.15, G:0.07, T:0.76
Consensus pattern (20 bp):
CCTTTTTATTCTTGTTCTTT
Found at i:214200 original size:22 final size:21
Alignment explanation
Indices: 214169--214215 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
214159 TTGTTCTTTC
214169 TTTTTGTTCTTGTT-TTTTCCT
1 TTTTTGTTCTT-TTCTTTTCCT
*
214190 TTTTTGCTTCTTTTCTTTTTCT
1 TTTTTG-TTCTTTTCTTTTCCT
214212 TTTT
1 TTTT
214216 GCCCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (21 bp):
TTTTTGTTCTTTTCTTTTCCT
Found at i:217806 original size:15 final size:15
Alignment explanation
Indices: 217788--217817 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
217778 AAAACCATGT
217788 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
217803 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
217818 GAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:217824 original size:15 final size:15
Alignment explanation
Indices: 217791--217825 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
217781 ACCATGTTAG
* *
217791 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
217806 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
217821 ATAAA
1 ATAAA
217826 TAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:217975 original size:28 final size:28
Alignment explanation
Indices: 217914--217989 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 28
217904 TAAAATAAAT
*
217914 ATAAAAAATAAAGAAAAAGAAGAAAAAG
1 ATAAAAAATAAAGAAAAAGAACAAAAAG
* *
217942 AAAAAAAATATAGAAATAA-AACAAATAA-
1 ATAAAAAATAAAGAAA-AAGAACAAA-AAG
217970 ATAAAATAATAATA-AAAAAG
1 ATAAAA-AATAA-AGAAAAAG
217990 TAAAATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
28 26 0.68
29 11 0.29
30 1 0.03
ACGTcount: A:0.78, C:0.01, G:0.08, T:0.13
Consensus pattern (28 bp):
ATAAAAAATAAAGAAAAAGAACAAAAAG
Found at i:217995 original size:24 final size:22
Alignment explanation
Indices: 217904--218022 Score: 70
Period size: 22 Copynumber: 5.4 Consensus size: 22
217894 AAATAGTAAG
217904 TAAAATAAATATAAAAAATAAAGA
1 TAAAAT-AATATAAAAAATAAA-A
* * * *
217928 -AAAAGAAGAAAAAGAAAAAAAA
1 TAAAATAATATAAA-AAATAAAA
*
217950 TATAGA-AATA-AAACAAAT-AAA
1 TA-AAATAATATAAA-AAATAAAA
217971 TAAAATAATAATAAAAAAGTAAAA
1 TAAAATAAT-ATAAAAAA-TAAAA
* *
217995 TAATAT-ATATATAAAATAAAA
1 TAAAATAATATAAAAAATAAAA
218016 -AAAATAA
1 TAAAATAA
218023 AAAAGTAAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
20 6 0.08
21 14 0.19
22 24 0.32
23 20 0.27
24 10 0.14
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (22 bp):
TAAAATAATATAAAAAATAAAA
Found at i:217998 original size:16 final size:15
Alignment explanation
Indices: 217955--218024 Score: 54
Period size: 16 Copynumber: 4.5 Consensus size: 15
217945 AAAAATATAG
*
217955 AAATAAAACAAATAAA
1 AAATAAAA-TAATAAA
*
217971 TAAA-ATAATAATAAA
1 -AAATAAAATAATAAA
*
217986 AAAGTAAAATAATATAT
1 AAA-TAAAATAATA-AA
*
218003 ATATAAAATAA-AAA
1 AAATAAAATAATAAA
218017 AAATAAAA
1 AAATAAAA
218025 AAGTAAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
14 11 0.26
15 7 0.16
16 19 0.44
17 6 0.14
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (15 bp):
AAATAAAATAATAAA
Found at i:218021 original size:9 final size:9
Alignment explanation
Indices: 217904--218026 Score: 68
Period size: 9 Copynumber: 12.8 Consensus size: 9
217894 AAATAGTAAG
*
217904 TAAAATAAA
1 TAAAAAAAA
*
217913 TATAAAAAA
1 TAAAAAAAA
217922 TAAAGAAAAA
1 TAAA-AAAAA
* *
217932 GAAGAAAAA
1 TAAAAAAAA
*
217941 GAAAAAAAA
1 TAAAAAAAA
* *
217950 T-ATAGAAA
1 TAAAAAAAA
*
217958 TAAAACAAA
1 TAAAAAAAA
217967 TAAATAAAATAA
1 T-AA-AAAA-AA
217979 TAATAAAAAA
1 TAA-AAAAAA
217989 GTAAAATAATATA
1 -TAAAA-AA-A-A
* *
218002 TATATAAAA
1 TAAAAAAAA
218011 TAAAAAAAA
1 TAAAAAAAA
218020 TAAAAAA
1 TAAAAAA
218027 GTAAATATAT
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
8 6 0.07
9 44 0.49
10 14 0.16
11 17 0.19
12 7 0.08
13 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:218022 original size:38 final size:36
Alignment explanation
Indices: 217968--218103 Score: 121
Period size: 36 Copynumber: 3.5 Consensus size: 36
217958 TAAAACAAAT
217968 AAATAAAATAATAATAAAAAAGTAAAATAATATATATATA
1 AAATAAAA-AA-AATAAAAAAGT-AAAT-ATATATATATA
218008 AAATAAAAAAAATAAAAAAGTAAATATATATATATAA
1 AAATAAAAAAAATAAAAAAGTAAATATATATATAT-A
* * *
218045 ATTAATAAAACTGATAATAAAAAA-TATATATTTATATATA
1 A--AATAAAA---AAAATAAAAAAGTAAATATATATATATA
* *
218085 TAATCTAAAAAAATAAAAA
1 AAAT-AAAAAAAATAAAAA
218104 TATATACTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
36 19 0.23
37 6 0.07
38 14 0.17
39 12 0.14
40 9 0.11
41 13 0.16
42 10 0.12
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (36 bp):
AAATAAAAAAAATAAAAAAGTAAATATATATATATA
Found at i:218153 original size:22 final size:21
Alignment explanation
Indices: 218099--218159 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
218089 CTAAAAAAAT
218099 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
218119 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
218142 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
218160 AAAAATAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 10 0.31
23 12 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:218515 original size:34 final size:34
Alignment explanation
Indices: 218474--218539 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
218464 GAATCATAGC
218474 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
218508 AAAATTCTATCCTATTTTTAGGAGTTTGAATC
1 AAAATTCTATCATATCTTTAGGAGTTTGAATC
218540 ATAGTAGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:219659 original size:15 final size:15
Alignment explanation
Indices: 219641--219670 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
219631 TGGTAGAGCT
219641 TGGAATGGCCACTGC
1 TGGAATGGCCACTGC
219656 TGGAATGGCCACTGC
1 TGGAATGGCCACTGC
219671 AGCAGTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.33, T:0.20
Consensus pattern (15 bp):
TGGAATGGCCACTGC
Found at i:224089 original size:16 final size:16
Alignment explanation
Indices: 224054--224110 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
224044 GTTTACTTCA
*
224054 GAATGATT-AAGTGCT
1 GAATGATTCAAATGCT
*
224069 GAATGATTCAAATGTT
1 GAATGATTCAAATGCT
*
224085 GAATGATTCAAAGGCT
1 GAATGATTCAAATGCT
*
224101 GAATAATTCA
1 GAATGATTCA
224111 GAGGCTCTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 8 0.22
16 28 0.78
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAATGCT
Found at i:224115 original size:16 final size:16
Alignment explanation
Indices: 224066--224116 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
224056 ATGATTAAGT
* *
224066 GCTGAATGATTCAAAT
1 GCTGAATAATTCAAAG
* *
224082 GTTGAATGATTCAAAG
1 GCTGAATAATTCAAAG
*
224098 GCTGAATAATTCAGAG
1 GCTGAATAATTCAAAG
224114 GCT
1 GCT
224117 CTGGATGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (16 bp):
GCTGAATAATTCAAAG
Found at i:225361 original size:21 final size:21
Alignment explanation
Indices: 225337--225397 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
225327 TTCAAAGAAA
225337 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
225358 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
225372 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
225393 CATTT
1 CATTT
225398 TCAAAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:225364 original size:35 final size:35
Alignment explanation
Indices: 225298--225403 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
225288 AACATCTACC
*
225298 AAAC-TTTACCAAACTTTGAAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCA-TTTTCAAAG
225334 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
225369 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
225404 TTGGTTGCCA
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 44 0.65
36 10 0.15
37 14 0.21
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:229983 original size:35 final size:35
Alignment explanation
Indices: 229917--230018 Score: 159
Period size: 35 Copynumber: 2.9 Consensus size: 35
229907 TCTACTAAAC
*
229917 TTTAACAAACTTTGAAAAAACATTTTACAAAGAAATA
1 TTTAACAAACTTTG-AAAACCATTTT-CAAAGAAATA
*
229954 TTTACCAAACTTTGAAAACCATTTTCAAAGAAATA
1 TTTAACAAACTTTGAAAACCATTTTCAAAGAAATA
*
229989 TTTATCAAACTTTGAAAACCATTTTCAAAG
1 TTTAACAAACTTTGAAAACCATTTTCAAAG
230019 TTGGTTGCCA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 39 0.63
36 10 0.16
37 13 0.21
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (35 bp):
TTTAACAAACTTTGAAAACCATTTTCAAAGAAATA
Found at i:232564 original size:30 final size:30
Alignment explanation
Indices: 232528--232598 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
232518 CCGAAGGACT
* *
232528 TATCCAGAGGTCACAAGGAACCTCGGTAAC
1 TATCCAGAGGTCACAAAGAACCTCGGCAAC
* *
232558 TATCCAGAGGTCATAAAGATCCTCGGCAAC
1 TATCCAGAGGTCACAAAGAACCTCGGCAAC
* *
232588 TGTCCATAGGT
1 TATCCAGAGGT
232599 TCCGAAGAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (30 bp):
TATCCAGAGGTCACAAAGAACCTCGGCAAC
Found at i:232623 original size:31 final size:31
Alignment explanation
Indices: 232585--232772 Score: 204
Period size: 31 Copynumber: 6.0 Consensus size: 31
232575 GATCCTCGGC
* *
232585 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
232616 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
*
232647 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
232678 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
*
232710 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
232741 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
232773 TACTCTCAAC
Statistics
Matches: 131, Mismatches: 16, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
30 6 0.05
31 73 0.56
32 46 0.35
33 6 0.05
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:232701 original size:63 final size:63
Alignment explanation
Indices: 232610--232776 Score: 309
Period size: 63 Copynumber: 2.7 Consensus size: 63
232600 CCGAAGAACC
* *
232610 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
232672 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
232735 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACT
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACT
232777 CTCAACTCTT
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
62 7 0.07
63 95 0.93
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
Found at i:235677 original size:16 final size:17
Alignment explanation
Indices: 235653--235688 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
235643 TAGATCAATG
235653 TTACGTTAGTTAACATA
1 TTACGTTAGTTAACATA
*
235670 TTAC-TTAGTTAACGTA
1 TTACGTTAGTTAACATA
235686 TTA
1 TTA
235689 TTGAGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (17 bp):
TTACGTTAGTTAACATA
Found at i:236860 original size:16 final size:16
Alignment explanation
Indices: 236839--236883 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
236829 GACCCGACCC
*
236839 GTTGACTTTGACTAGA
1 GTTGACTTTGACCAGA
*
236855 GTTGACTTTAACCAGA
1 GTTGACTTTGACCAGA
236871 GTTGACTTTGACC
1 GTTGACTTTGACC
236884 CAAAAAGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (16 bp):
GTTGACTTTGACCAGA
Found at i:241823 original size:17 final size:17
Alignment explanation
Indices: 241784--241833 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
241774 ATTAGTAAAC
* *
241784 TGCATGGTTATATGAAA
1 TGCATGCTTAAATGAAA
* *
241801 TACATGCTTAAATGCAA
1 TGCATGCTTAAATGAAA
*
241818 TGCATGCTTTAATGAA
1 TGCATGCTTAAATGAA
241834 CAAAAAACTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (17 bp):
TGCATGCTTAAATGAAA
Found at i:251466 original size:23 final size:23
Alignment explanation
Indices: 251440--251487 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
251430 TTATTTTAGG
*
251440 TTAAG-GGACAAATTTATAATATT
1 TTAAGTGG-CAAATTTATAAAATT
*
251463 TTAAGTGGTAAATTTATAAAATT
1 TTAAGTGGCAAATTTATAAAATT
251486 TT
1 TT
251488 CGATATCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (23 bp):
TTAAGTGGCAAATTTATAAAATT
Found at i:251834 original size:18 final size:21
Alignment explanation
Indices: 251811--251854 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
251801 ATTTAAAGAT
251811 GAAAAT-ATAT-TAT-TAATA
1 GAAAATAATATATATATAATA
251829 GAAAATAATATATATATAATA
1 GAAAATAATATATATATAATA
*
251850 AAAAA
1 GAAAA
251855 AAATTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 3 0.14
21 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
GAAAATAATATATATATAATA
Found at i:254220 original size:18 final size:18
Alignment explanation
Indices: 254194--254248 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
254184 CAATACTAAT
254194 TCATACAGAGCCTCTGAA
1 TCATACAGAGCCTCTGAA
*
254212 TCATTCAGAG---CT-AA
1 TCATACAGAGCCTCTGAA
254226 CTCATACAGAGCCTCTGAA
1 -TCATACAGAGCCTCTGAA
254245 TCAT
1 TCAT
254249 TTAGCATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 2 0.07
15 11 0.37
18 15 0.50
19 2 0.07
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (18 bp):
TCATACAGAGCCTCTGAA
Found at i:254878 original size:8 final size:7
Alignment explanation
Indices: 254859--254922 Score: 69
Period size: 7 Copynumber: 9.0 Consensus size: 7
254849 ATATGGTTAC
254859 TCTTTTT
1 TCTTTTT
254866 TCTTTTT
1 TCTTTTT
254873 TACTTTTTT
1 T-C-TTTTT
254882 TCTTTTT
1 TCTTTTT
254889 TC-TTTT
1 TCTTTTT
*
254895 TCTTCTT
1 TCTTTTT
254902 TC-TTTT
1 TCTTTTT
*
254908 TCTCTCTT
1 TCT-TTTT
254916 TCTTTTT
1 TCTTTTT
254923 CTCGTCCCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
6 11 0.23
7 23 0.48
8 8 0.17
9 6 0.12
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (7 bp):
TCTTTTT
Found at i:254882 original size:16 final size:16
Alignment explanation
Indices: 254855--254902 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 16
254845 TTTAATATGG
254855 TTACTCTTTTTTCTTTT
1 TTACT-TTTTTTCTTTT
254872 TTACTTTTTTTCTTTT
1 TTACTTTTTTTCTTTT
254888 TT-CTTTTTCTTCTTT
1 TTACTTTTT-TTCTTT
254903 CTTTTTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.20
16 19 0.63
17 5 0.17
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (16 bp):
TTACTTTTTTTCTTTT
Found at i:254887 original size:6 final size:6
Alignment explanation
Indices: 254878--254924 Score: 58
Period size: 6 Copynumber: 7.2 Consensus size: 6
254868 TTTTTTACTT
254878 TTTTTC TTTTTTC TTTTTC TTCTTTC TTTTTC TCTCTTTC TTTTTC T
1 TTTTTC -TTTTTC TTTTTC TT-TTTC TTTTTC T-T-TTTC TTTTTC T
254925 CGTCCCAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 18 0.49
7 14 0.38
8 5 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:254925 original size:14 final size:13
Alignment explanation
Indices: 254878--254924 Score: 76
Period size: 13 Copynumber: 3.5 Consensus size: 13
254868 TTTTTTACTT
*
254878 TTTTTCTTTTTTC
1 TTTTTCTTCTTTC
254891 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
254904 TTTTTCTCTCTTTC
1 TTTTTCT-TCTTTC
254918 TTTTTCT
1 TTTTTCT
254925 CGTCCCAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 19 0.59
14 13 0.41
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:255511 original size:19 final size:18
Alignment explanation
Indices: 255474--255518 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
255464 ATATTCAATG
* *
255474 ATATATAATAATAATAAT
1 ATATATAATAAAAAAAAT
255492 ATATAATAATAAAAAAAAT
1 ATAT-ATAATAAAAAAAAT
*
255511 ATTTATAA
1 ATATATAA
255519 AATATTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATATAATAAAAAAAAT
Found at i:258692 original size:37 final size:37
Alignment explanation
Indices: 258616--258692 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
258606 TTTTTATATT
* *
258616 TTTAATTTTGTAAAAAAATTTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATATATATAAATATTATCAA
* *
258653 TTTAATTTTTTTAAAGAAAATATATA-AAATTTTA-CAA
1 TTTAA-TTTTGTAAA-AAAATATATATAAATATTATCAA
258690 TTT
1 TTT
258693 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
37 10 0.29
38 15 0.44
39 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAATATATATAAATATTATCAA
Found at i:258855 original size:18 final size:19
Alignment explanation
Indices: 258832--258875 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
258822 CTAGTAATCC
258832 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTT
258850 TATTCCCACTGGTAATCTTT
1 TATT-CCACTGGTAATCTTT
258870 TATTCC
1 TATTCC
258876 GTGAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:258863 original size:20 final size:20
Alignment explanation
Indices: 258838--258875 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
258828 ATCCTATTCC
258838 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
258858 CTGGTAATCTTTTATTCC
1 CTGGTAATCTTTTATTCC
258876 GTGAACCAAA
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:0.18, C:0.24, G:0.11, T:0.47
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:262948 original size:55 final size:55
Alignment explanation
Indices: 262825--263302 Score: 604
Period size: 55 Copynumber: 8.7 Consensus size: 55
262815 TCTTCAAATG
* *
262825 ACGGGT-CTCTCCCTATTC-TTCAGGAAGTATAAGACTC-AACAATCTTCAGCAA
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
** * * * *
262877 ACATGTCTGCTCCCTATTCGTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* *
262932 ACGGGTCCGCTTCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAACAA
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
262987 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* *
263042 ACGGGTTCGCTCCCTATTTTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* **
263097 ACGGGTTCGCTCCCTATTCTTTCAGGGAGTAT-AGAACTCGAACAATCTTCAGTGA
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAG-ACTCGAACAATCTTCAGCAA
* * * * *
263152 ACGTGTCTGCTCCCTATTCATTCATGGAGTATAAGACTCGAACAATCTTCAGCGA
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* ** * * ****
263207 ACGTGTCTACTCCCTATTCATTCAGGGAGTATAAGAATCGAACAATCTTCAATTT
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* * * * * *
263262 ACGTGTCTGTTCCCTATTCCTTCAGAGAGTATATGACTCGA
1 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGA
263303 TCTTCATAAA
Statistics
Matches: 382, Mismatches: 39, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
52 4 0.01
53 10 0.03
54 19 0.05
55 347 0.91
56 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (55 bp):
ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
Found at i:263426 original size:37 final size:37
Alignment explanation
Indices: 263319--263426 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
263309 TAAAATGAGT
*
263319 TTGCTTCACTACTCTTCCATGAAGGCTTATAGA-TGAT
1 TTGCTTCACTACTCTTCCATGAAGGCTTA-AGATTGAA
*
263356 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGAA
1 TTGCTTCACTACTCTTCCATGAAGGCTTAAGATTGAA
* *
263393 TTGCTTCACTGCTCTTTCATGAAGGCTTAAGATT
1 TTGCTTCACTACTCTTCCATGAAGGCTTAAGATT
263427 AACTTGTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 3 0.05
37 62 0.95
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (37 bp):
TTGCTTCACTACTCTTCCATGAAGGCTTAAGATTGAA
Found at i:263677 original size:17 final size:17
Alignment explanation
Indices: 263645--263679 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
263635 TATCTTCATC
263645 TCAATGCTTCAATATCT
1 TCAATGCTTCAATATCT
263662 TCAAT-CTTCAACTATCT
1 TCAATGCTTCAA-TATCT
263679 T
1 T
263680 TGGGAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (17 bp):
TCAATGCTTCAATATCT
Found at i:264761 original size:24 final size:24
Alignment explanation
Indices: 264712--264832 Score: 69
Period size: 23 Copynumber: 5.1 Consensus size: 24
264702 CTTTTATTTC
* ***
264712 TTTTTCTTTTTCTTTTTTCAACAT
1 TTTTTCATTTTCTTTTTTCTTTAT
264736 TTTTTC-TTTTCTTTTTTCCTTTAT
1 TTTTTCATTTTCTTTTTT-CTTTAT
**
264760 TTTCCCATTTTCTATTTTTC-TT-T
1 TTTTTCATTTTCT-TTTTTCTTTAT
264783 TTTTTCA--TTCATTTTTTCATTT-T
1 TTTTTCATTTTC-TTTTTTC-TTTAT
*
264806 CTTTTCATTTT-TTTCTTT-TTTCAT
1 TTTTTCATTTTCTTT-TTTCTTT-AT
264830 TTT
1 TTT
264833 ATTTCTTTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
21 9 0.12
22 4 0.05
23 29 0.38
24 21 0.27
25 9 0.12
26 5 0.06
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTTCATTTTCTTTTTTCTTTAT
Found at i:264778 original size:8 final size:7
Alignment explanation
Indices: 264767--264863 Score: 58
Period size: 7 Copynumber: 13.3 Consensus size: 7
264757 TATTTTCCCA
264767 TTTTCTAT
1 TTTTCT-T
264775 TTTTCTT
1 TTTTCTT
264782 TTTT-TT
1 TTTTCTT
**
264788 CATTCATT
1 TTTTC-TT
*
264796 TTTTC-A
1 TTTTCTT
264802 TTTTCTT
1 TTTTCTT
*
264809 TTCAT-TT
1 TT-TTCTT
264816 TTTTCTT
1 TTTTCTT
264823 TTTTCATTT
1 TTTTC--TT
264832 TATTTCTT
1 T-TTTCTT
264840 TTTT-TAT
1 TTTTCT-T
264847 TTTTCTCT
1 TTTTCT-T
264855 TTTTCTT
1 TTTTCTT
264862 TT
1 TT
264864 GTCATCATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
6 11 0.16
7 29 0.41
8 23 0.33
9 3 0.04
10 4 0.06
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTCTT
Found at i:264798 original size:21 final size:21
Alignment explanation
Indices: 264774--264844 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 21
264764 CCATTTTCTA
264774 TTTTTCTTTTTTTTCATTCAT
1 TTTTTCTTTTTTTTCATTCAT
* *
264795 TTTTTCATTTTCTT--TTCAT
1 TTTTTCTTTTTTTTCATTCAT
*
264814 TTTTT-TCTTTTTTCATT--T
1 TTTTTCTTTTTTTTCATTCAT
*
264832 TATTTCTTTTTTT
1 TTTTTCTTTTTTT
264845 ATTTTTCTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
18 10 0.25
19 16 0.40
20 2 0.05
21 12 0.30
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTCTTTTTTTTCATTCAT
Found at i:264805 original size:19 final size:20
Alignment explanation
Indices: 264783--264830 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
264773 ATTTTTCTTT
264783 TTTTTCATTCA-TTTTTTCA
1 TTTTTCATTCATTTTTTTCA
* *
264802 -TTTTCTTTTCATTTTTTTCT
1 TTTTTC-ATTCATTTTTTTCA
264822 TTTTTCATT
1 TTTTTCATT
264831 TTATTTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 5 0.22
19 4 0.17
20 9 0.39
21 5 0.22
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTCATTCATTTTTTTCA
Found at i:264819 original size:35 final size:34
Alignment explanation
Indices: 264737--264832 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 34
264727 TTTCAACATT
* *
264737 TTTTCTTTTCTTTTTTCCTTTATTTTCCCATTTTC
1 TTTTCTTTT-TTTTTTCATTCATTTTCCCATTTTC
**
264772 TATTT-TTCTTTTTTTTCATTCATTTTTTCATTTTC
1 T-TTTCTT-TTTTTTTTCATTCATTTTCCCATTTTC
*
264807 TTTTCATTTTTTTCTTT-TTTCATTTT
1 TTTTC-TTTTTTT-TTTCATTCATTTT
264833 ATTTCTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
34 3 0.06
35 38 0.75
36 10 0.20
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (34 bp):
TTTTCTTTTTTTTTTCATTCATTTTCCCATTTTC
Found at i:264821 original size:14 final size:14
Alignment explanation
Indices: 264802--264841 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 14
264792 CATTTTTTCA
264802 TTTTCTTTTCATTT
1 TTTTCTTTTCATTT
264816 TTTTCTTTTTTCATTT
1 TTTTC--TTTTCATTT
264832 TATTTCTTTT
1 T-TTTCTTTT
264842 TTTATTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 4 0.17
16 10 0.43
17 4 0.17
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTCATTT
Found at i:264824 original size:26 final size:25
Alignment explanation
Indices: 264793--264850 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
264783 TTTTTCATTC
*
264793 ATTTTTTCATTTTCTTTTCATTTTTTT
1 ATTTTTTCATTTT-ATTTC-TTTTTTT
*
264820 CTTTTTTCATTTTATTTCTTTTTTT
1 ATTTTTTCATTTTATTTCTTTTTTT
264845 ATTTTT
1 ATTTTT
264851 CTCTTTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.43
26 4 0.14
27 12 0.43
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (25 bp):
ATTTTTTCATTTTATTTCTTTTTTT
Found at i:264824 original size:27 final size:26
Alignment explanation
Indices: 264775--264863 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 26
264765 CATTTTCTAT
*
264775 TTTTCTTTT-TTTTCATTCATTTTTTCA
1 TTTTCTTTTCTTTT--TTTATTTTTTCA
*
264802 TTTTCTTTTCATTTTTTTCTTTTTTCA
1 TTTTCTTTTC-TTTTTTTATTTTTTCA
* *
264829 TTTT-ATTTCTTTTTTTATTTTTCTCT
1 TTTTCTTTTCTTTTTTTATTTTT-TCA
264855 TTTTCTTTT
1 TTTTCTTTT
264864 GTCATCATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
25 12 0.23
26 10 0.19
27 26 0.50
29 4 0.08
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTCTTTTCTTTTTTTATTTTTTCA
Found at i:264838 original size:31 final size:31
Alignment explanation
Indices: 264803--264863 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
264793 ATTTTTTCAT
264803 TTTCTTTTCATT-TTTTTCT-TTTTTCATTTTA
1 TTTCTTTT-ATTATTTTTCTCTTTTTC-TTTTA
*
264834 TTTCTTTTTTTATTTTTCTCTTTTTCTTTT
1 TTTCTTTTATTATTTTTCTCTTTTTCTTTT
264864 GTCATCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 2 0.07
31 19 0.70
32 6 0.22
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (31 bp):
TTTCTTTTATTATTTTTCTCTTTTTCTTTTA
Found at i:264839 original size:17 final size:16
Alignment explanation
Indices: 264807--264858 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
264797 TTTCATTTTC
264807 TTTTCATTTTTTTCTT
1 TTTTCATTTTTTTCTT
264823 TTTTCATTTTATTTCTT
1 TTTTCATTTT-TTTCTT
* *
264840 TTTTTATTTTTCTCTT
1 TTTTCATTTTTTTCTT
264856 TTT
1 TTT
264859 CTTTTGTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 18 0.55
17 15 0.45
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCATTTTTTTCTT
Found at i:277635 original size:21 final size:21
Alignment explanation
Indices: 277609--277666 Score: 79
Period size: 17 Copynumber: 3.0 Consensus size: 21
277599 TATGGGCAAA
277609 GTGTATCGATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
277630 GTG--T--ATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
*
277647 GTGTATCGATGCACTTTCAA
1 GTGTATCGATGCACATTCAA
277667 ATAAATGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 16 0.50
19 2 0.06
21 14 0.44
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (21 bp):
GTGTATCGATGCACATTCAAT
Found at i:279283 original size:23 final size:23
Alignment explanation
Indices: 279253--279313 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
279243 ATATTTTATA
*
279253 TGGCACTTCAGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
279276 TGGCACTTCGGTGTAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
*
279299 TGGTACTTCGGTGCA
1 TGGCACTTCGGTGCA
279314 TTTATACTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:280915 original size:22 final size:22
Alignment explanation
Indices: 280887--280929 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
280877 TCACATTAAG
*
280887 TATTTTTAGTGACCAAATGTTT
1 TATTTTTAGTGACAAAATGTTT
280909 TATTTTTAGTGACAAAATGTT
1 TATTTTTAGTGACAAAATGTT
280930 CAATATTATT
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:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (22 bp):
TATTTTTAGTGACAAAATGTTT
Found at i:281632 original size:22 final size:22
Alignment explanation
Indices: 281593--281634 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
281583 TTATGCTAAG
281593 AAAAAAATATTTATTGTTAACA
1 AAAAAAATATTTATTGTTAACA
281615 AAAAATAATATTTA-TGTTAA
1 AAAAA-AATATTTATTGTTAA
281635 AATATTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (22 bp):
AAAAAAATATTTATTGTTAACA
Found at i:281747 original size:43 final size:44
Alignment explanation
Indices: 281695--281778 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
281685 TATTATAATA
*
281695 ATATATTAAATTTTATATGA-TTTCTCATATGAAATACGTTATT
1 ATATATTAAAGTTTATATGATTTTCTCATATGAAATACGTTATT
* *
281738 ATATATTAAAGTTTCTATGATTTTTTCATATGAAATACGTT
1 ATATATTAAAGTTTATATGATTTTCTCATATGAAATACGTT
281779 CTTGGAAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 18 0.49
44 19 0.51
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (44 bp):
ATATATTAAAGTTTATATGATTTTCTCATATGAAATACGTTATT
Found at i:283374 original size:23 final size:22
Alignment explanation
Indices: 283330--283375 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
283320 AAAACTCAAT
**
283330 AAAAAATAAAAGAAAATGAAAA
1 AAAAAATAAAAGAAAAACAAAA
*
283352 AAAAAATTACAAGAAAAACAAAA
1 AAAAAA-TAAAAGAAAAACAAAA
283375 A
1 A
283376 TAATTAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (22 bp):
AAAAAATAAAAGAAAAACAAAA
Found at i:288404 original size:21 final size:20
Alignment explanation
Indices: 288372--288411 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
288362 GTATGAACAG
288372 TGCTACGTGCATCGATGCAT
1 TGCTACGTGCATCGATGCAT
288392 TGCTACAGTGCATCGATGCA
1 TGCTAC-GTGCATCGATGCA
288412 CCAAAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (20 bp):
TGCTACGTGCATCGATGCAT
Found at i:291158 original size:41 final size:41
Alignment explanation
Indices: 291083--291178 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
291073 TGATAAGAAT
* **
291083 AATTGT-AGTCACAAATCACCAATTAAAATTAGTGACAAAAA
1 AATTGTCA-TCACAAATCACCAACTAAAACAAGTGACAAAAA
* * *
291124 AATTGTCATTACAAATCACCAACTAAGACAAGTGATAAAAA
1 AATTGTCATCACAAATCACCAACTAAAACAAGTGACAAAAA
* *
291165 TATTTTCATCACAA
1 AATTGTCATCACAA
291179 TTATGAATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26
Consensus pattern (41 bp):
AATTGTCATCACAAATCACCAACTAAAACAAGTGACAAAAA
Found at i:294007 original size:19 final size:19
Alignment explanation
Indices: 293983--294027 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
293973 TCCTCGTCTG
293983 ATTCCTCTCGTCGATTGGA
1 ATTCCTCTCGTCGATTGGA
294002 ATTCCTCTCGTCGATTGGA
1 ATTCCTCTCGTCGATTGGA
294021 ATTCCTC
1 ATTCCTC
294028 CATAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.38
Consensus pattern (19 bp):
ATTCCTCTCGTCGATTGGA
Found at i:295031 original size:39 final size:39
Alignment explanation
Indices: 294946--295049 Score: 102
Period size: 39 Copynumber: 2.7 Consensus size: 39
294936 CCTGTACACC
* * *
294946 CAGTAAGGGCTTACCCTGTGCACAAAGCAGATGAGCCTG
1 CAGTAAGGGCTTACCCTATGCACAAACCAGAGGAGCCTG
* * * * *
294985 TAATAAGGTCTTATCCTATGCACAAACCAGAGGATCCTG
1 CAGTAAGGGCTTACCCTATGCACAAACCAGAGGAGCCTG
**
295024 CAGTAAGGATTTACCCTGA-GCACAAA
1 CAGTAAGGGCTTACCCT-ATGCACAAA
295050 GTTGAGGAGT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
39 50 0.98
40 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (39 bp):
CAGTAAGGGCTTACCCTATGCACAAACCAGAGGAGCCTG
Found at i:295057 original size:39 final size:39
Alignment explanation
Indices: 294946--295108 Score: 96
Period size: 39 Copynumber: 4.2 Consensus size: 39
294936 CCTGTACACC
* ** ** * *
294946 CAGTAAGGGCTTACCCTGTGCACAAAGCAGATGAGCCTG
1 CAGTAAGGACTTACCCTAAGCACAAAGTTGAGGATCCTG
* * * * * ***
294985 TAATAAGGTCTTATCCTATGCACAAACCAGAGGATCCTG
1 CAGTAAGGACTTACCCTAAGCACAAAGTTGAGGATCCTG
* * *
295024 CAGTAAGGATTTACCCTGAGCACAAAGTTGAGGAGTCTATG
1 CAGTAAGGACTTACCCTAAGCACAAAGTTGAGGA-TC-CTG
* * *
295065 --GTGAGGACTTACCCTAAGCACAAAGTTAAGGAGCCTG
1 CAGTAAGGACTTACCCTAAGCACAAAGTTGAGGATCCTG
*
295102 CATTAAG
1 CAGTAAG
295109 CAATAAGGTC
Statistics
Matches: 93, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 86 0.92
40 2 0.02
41 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTAAGCACAAAGTTGAGGATCCTG
Found at i:308317 original size:16 final size:16
Alignment explanation
Indices: 308296--308335 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
308286 CCTCTTCCTA
308296 GGAGCATTATCTTATT
1 GGAGCATTATCTTATT
308312 GGAGCATTATCTTATT
1 GGAGCATTATCTTATT
308328 GGAGCATT
1 GGAGCATT
308336 CCCTGTGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (16 bp):
GGAGCATTATCTTATT
Found at i:309084 original size:21 final size:22
Alignment explanation
Indices: 309059--309112 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
309049 TTCAAAAAAT
*
309059 TTAATTTTTTTTTTATTTTACA
1 TTAATTTTTTTTATATTTTACA
* *
309081 -TAATCTTTTTTATATTTTTCA
1 TTAATTTTTTTTATATTTTACA
*
309102 TTAATTATTTT
1 TTAATTTTTTT
309113 ATTTCATACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (22 bp):
TTAATTTTTTTTATATTTTACA
Found at i:313580 original size:60 final size:59
Alignment explanation
Indices: 313499--313639 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 59
313489 TTTTAAATAT
* *
313499 TTTAATTTTATCCCTATACTATGA-CTATCATTCTAAA-TGAATCCTCAAAC-TTTTGAACA
1 TTTAATTTTATCTC-AAACTATGACCT-TCATTCTAAATTG-ATCCTCAAACTTTTTGAACA
* *
313558 TTTCATTTTCATCCTCAAACTATGACCTTCATTCTAAATTGATCTTCAAACTTTTTGAACA
1 TTTAATTTT-AT-CTCAAACTATGACCTTCATTCTAAATTGATCCTCAAACTTTTTGAACA
313619 TTTAATTTTATCTCAAACTAT
1 TTTAATTTTATCTCAAACTAT
313640 ACATATATAC
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
59 18 0.25
60 31 0.43
61 23 0.32
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (59 bp):
TTTAATTTTATCTCAAACTATGACCTTCATTCTAAATTGATCCTCAAACTTTTTGAACA
Found at i:313905 original size:59 final size:60
Alignment explanation
Indices: 313761--313924 Score: 179
Period size: 59 Copynumber: 2.8 Consensus size: 60
313751 TTTGGATGAC
* * * **
313761 TTTGGGGATGAAATTGAAATATTCAAAATTTTAGGGACCAATTTAGAATGAGGGTCATAG
1 TTTGAGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAAAGTCATAG
** * * **
313821 TTT-AGGGACAAAATTAAAATTTTCAAAAGTTTAAGGACTGA-TTAGAATGAAAGTCATAG
1 TTTGA-GGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAAAGTCATAG
* * *
313880 TTTGAGGATGAACTTGGAATATTCAAAAGTTTAATGACCAATTTA
1 TTTGAGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTA
313925 AAGTGAAGAT
Statistics
Matches: 81, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
59 46 0.57
60 35 0.43
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (60 bp):
TTTGAGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAAAGTCATAG
Found at i:335274 original size:15 final size:15
Alignment explanation
Indices: 335232--335270 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
335222 TCCCCTTTTA
335232 TATTATTATAATAAT
1 TATTATTATAATAAT
*
335247 AATTATTAATAAT-AT
1 TATTATT-ATAATAAT
335262 TATTATTAT
1 TATTATTAT
335271 TAATTAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 14 0.67
16 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATTATAATAAT
Found at i:340935 original size:2 final size:2
Alignment explanation
Indices: 340928--340967 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
340918 TAAATCAATT
340928 TA TA TA TA TA TA TA TA TA TA -A 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
340968 TTAATTTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:340953 original size:17 final size:17
Alignment explanation
Indices: 340931--340964 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
340921 ATCAATTTAT
340931 ATATATATATATATATA
1 ATATATATATATATATA
340948 ATATATATATATATATA
1 ATATATATATATATATA
340965 TATTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:341694 original size:26 final size:26
Alignment explanation
Indices: 341664--341716 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
341654 AAGAAAAAGT
341664 CCCCGAAGAAAAGAAAATGCCACGGG
1 CCCCGAAGAAAAGAAAATGCCACGGG
341690 CCCCGAAGAAAAGAAAATGCCACGGG
1 CCCCGAAGAAAAGAAAATGCCACGGG
341716 C
1 C
341717 GTATAACTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.28, G:0.26, T:0.04
Consensus pattern (26 bp):
CCCCGAAGAAAAGAAAATGCCACGGG
Found at i:343934 original size:19 final size:19
Alignment explanation
Indices: 343912--344052 Score: 151
Period size: 19 Copynumber: 7.9 Consensus size: 19
343902 AAATCCCAAC
343912 ATGAAAA-CGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
*
343931 ATGAAAATCGCAACGCGAA
1 ATGAAAATCGCAATGCGAA
343950 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
343969 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
343984 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
344002 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
344017 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
* *
344035 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
344053 TCTCCCGTTG
Statistics
Matches: 103, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.19
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 64 0.62
20 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:343936 original size:33 final size:33
Alignment explanation
Indices: 343870--344046 Score: 223
Period size: 33 Copynumber: 5.2 Consensus size: 33
343860 CGGAAATTAC
*
343870 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAAACGCAATGCGAAATGAA
*
343903 AATCCCAAC-ATGA-AAACGCAATGCGGAAATGAA
1 AATCGCAACGA-GAGAAACGCAATGC-GAAATGAA
*
343936 AATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGA-G-AAA-CGCAATGCGAAATGAA
*
343974 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAAACGCAATGCGAAATGAA
* *
344007 AATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAACGAGAGAAACGCAATGCGAAATGAA
344040 AATCGCA
1 AATCGCA
344047 TTGCGATCTC
Statistics
Matches: 128, Mismatches: 7, Indels: 18
0.84 0.05 0.12
Matches are distributed among these distances:
32 11 0.09
33 80 0.62
34 2 0.02
35 3 0.02
36 5 0.04
38 19 0.15
39 8 0.06
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAGAAACGCAATGCGAAATGAA
Found at i:343993 original size:14 final size:14
Alignment explanation
Indices: 343974--344028 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
343964 GCGAAATGAA
343974 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
343988 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
344007 AATCGCAACGAGAG
1 AATCGCAACGAGAG
344021 AATCGCAA
1 AATCGCAA
344029 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:344044 original size:52 final size:51
Alignment explanation
Indices: 343884--344052 Score: 173
Period size: 52 Copynumber: 3.3 Consensus size: 51
343874 GCAACGAGAG
* *
343884 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAACGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAAATCGCAATGC-GAAATGAA
* * * * * *
343936 AATCGCAACGCGAAATGAAAATCGCAATGCGAAAT-GAAAAT-CGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAATCG-CAATGCGAAATGA-A
*
343987 GAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 -AATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAATGAA
*
344040 AATCGCATTGCGA
1 AATCGCAATGCGA
344053 TCTCCCGTTG
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
50 5 0.05
51 3 0.03
52 73 0.78
53 7 0.07
54 6 0.06
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGAAATGAA
Found at i:344101 original size:19 final size:19
Alignment explanation
Indices: 344060--344158 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
344050 CGATCTCCCG
344060 TTGCGATTTTCATTTTCCGCA
1 TTGCGATTTTCA-TTT-CGCA
344081 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
344100 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
344114 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
344133 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
344152 TTGCGAT
1 TTGCGAT
344159 AGTCCAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 3 0.04
21 12 0.17
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:344145 original size:52 final size:54
Alignment explanation
Indices: 344042--344158 Score: 204
Period size: 52 Copynumber: 2.2 Consensus size: 54
344032 GAAATTAAAA
344042 TCGCATTGCGA-TCTCCCGTTGCGATTTTCATTTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTTCCGCATTGCGATTTTCATT
*
344095 TCGCATTGCGATTCTCTCGTTGCGATTTTCA-TTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTTCCGCATTGCGATTTTCATT
344147 TCGCATTGCGAT
1 TCGCATTGCGAT
344159 AGTCCAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
52 30 0.48
53 14 0.23
54 18 0.29
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (54 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTTCCGCATTGCGATTTTCATT
Found at i:344295 original size:14 final size:14
Alignment explanation
Indices: 344262--344297 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
344252 CATCAATTAC
344262 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
344276 AC-AATCATCTTTT
1 ACAAATCAACTTTT
344289 ACAAATCAA
1 ACAAATCAA
344298 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:346236 original size:20 final size:19
Alignment explanation
Indices: 346211--346275 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
346201 TAATTTACTT
*
346211 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
346231 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
* *
346250 TGGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACTAAAA
346268 TCGCAACG
1 TCGCAACG
346276 ACAGAATCGC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 10 0.26
19 16 0.41
20 13 0.33
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:346285 original size:14 final size:14
Alignment explanation
Indices: 346266--346321 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
346256 CGCGAAATGA
*
346266 AATCGCAACGACAG
1 AATCGCAACGAAAG
346280 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
346297 AAATCGCAACGAAAG
1 -AATCGCAACGAAAG
346312 AATCGCAACG
1 AATCGCAACG
346322 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 18 0.49
15 1 0.03
16 9 0.24
17 1 0.03
18 8 0.22
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:346298 original size:32 final size:32
Alignment explanation
Indices: 346252--346338 Score: 147
Period size: 32 Copynumber: 2.7 Consensus size: 32
346242 AACCAAAATG
*
346252 GCAACGCGAAATGAAATCGCAACGACAGAATC
1 GCAACGCGAAATGAAATCGCAACGAAAGAATC
*
346284 GCAATGCGAAATGAAATCGCAACGAAAGAATC
1 GCAACGCGAAATGAAATCGCAACGAAAGAATC
346316 GCAACGCGAAATGAAAATCGCAA
1 GCAACGCGAAATG-AAATCGCAA
346339 TGCGATTTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 42 0.82
33 9 0.18
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (32 bp):
GCAACGCGAAATGAAATCGCAACGAAAGAATC
Found at i:346336 original size:19 final size:18
Alignment explanation
Indices: 346228--346343 Score: 104
Period size: 19 Copynumber: 6.8 Consensus size: 18
346218 ACGAAACTTA
**
346228 AAATCGCAACGCGAAACCA
1 AAATCGCAACGCGAAA-TG
*
346247 AAATGGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
*
346265 AAATCGCAA--CGACA-G
1 AAATCGCAACGCGAAATG
*
346280 -AATCGCAATGCGAAATG
1 AAATCGCAACGCGAAATG
346297 AAATCGCAA--CGAAA-G
1 AAATCGCAACGCGAAATG
346312 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
*
346329 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
346344 TTTTGGTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
14 16 0.20
15 2 0.02
16 18 0.22
17 2 0.02
18 16 0.20
19 27 0.33
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAAATG
Found at i:346361 original size:19 final size:19
Alignment explanation
Indices: 346339--346467 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
346329 AAAATCGCAA
346339 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
346358 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
346372 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
346391 TGCGA--TT-CTAT--CGT
1 TGCGATTTTGGTTTCGCGT
**
346405 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
346424 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
346443 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
346463 TGCGA
1 TGCGA
346468 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 1 0.01
16 5 0.06
17 5 0.06
18 1 0.01
19 45 0.51
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:346381 original size:33 final size:33
Alignment explanation
Indices: 346339--346430 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
346329 AAAATCGCAA
*
346339 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TATCGT
346372 TGCGATTTTGGTTTCGCGTTGCGATTCTATCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTATCGT
**
346405 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
346431 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTATCGT
Found at i:346851 original size:92 final size:93
Alignment explanation
Indices: 346515--347072 Score: 1063
Period size: 93 Copynumber: 6.1 Consensus size: 93
346505 ATGGATTGCA
346515 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
346579 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
346607 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
346672 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
346700 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
346765 TAGCAGAATTGGCAGCAACCG-ACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
346792 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
346857 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
346885 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTG-T-AAGAATACACAATT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
346947 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
346975 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
347040 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
347068 TTACT
1 TTACT
347073 AAGCAATCTA
Statistics
Matches: 458, Mismatches: 3, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
90 60 0.13
91 29 0.06
92 125 0.27
93 244 0.53
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:348797 original size:14 final size:14
Alignment explanation
Indices: 348778--348866 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
348768 TTGAAATGAA
348778 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
348792 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
348811 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
348825 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
348844 AATCGCAACGAGAG
1 AATCGCAACGAGAG
348858 -ATCGCAACG
1 AATCGCAACG
348867 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
13 9 0.15
14 20 0.34
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.34
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:348810 original size:33 final size:33
Alignment explanation
Indices: 348770--348883 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
348760 TCTTTTGGTT
348770 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
348803 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
348836 GAAATGAAAATCGCAACGAGAG-ATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
348868 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
348884 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
32 26 0.33
33 53 0.67
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:348816 original size:19 final size:19
Alignment explanation
Indices: 348792--348888 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
348782 GCAACGAGAG
348792 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
348811 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
348825 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
348844 AATCGCAA--CG--A-G-A
1 AATCGCAACGCGAAATGAA
*
348857 GATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
348876 AATCGCAATGCGA
1 AATCGCAACGCGA
348889 TTTTGGTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
13 8 0.13
14 11 0.18
15 4 0.07
16 1 0.02
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:348932 original size:33 final size:33
Alignment explanation
Indices: 348884--348964 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
348874 AAAATCGCAA
**
348884 TGCGATTTTGGTTTCGCGTTGCGATTCTCTAGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
*
348917 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
348950 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
348965 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
Found at i:348952 original size:14 final size:14
Alignment explanation
Indices: 348900--348956 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
348890 TTTGGTTTCG
348900 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
348914 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
348933 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
348947 CGTTGCGATT
1 CGTTGCGATT
348957 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:348997 original size:41 final size:41
Alignment explanation
Indices: 348940--349017 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
348930 TCGCGTTGCG
*
348940 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
348981 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
349018 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:349002 original size:20 final size:21
Alignment explanation
Indices: 348941--349016 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
348931 CGCGTTGCGA
348941 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
348962 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
348982 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
349003 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
349017 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:349137 original size:33 final size:33
Alignment explanation
Indices: 349098--349165 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
349088 TACTAACTTG
*
349098 AAATCGCAACGAGAGAATAGCAACGCGAAATGA
1 AAATCGCAACGACAGAATAGCAACGCGAAATGA
* *
349131 AAATCGCAACGACAGAATCGTAACGCGAAATGA
1 AAATCGCAACGACAGAATAGCAACGCGAAATGA
349164 AA
1 AA
349166 TCTAAGTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.49, C:0.19, G:0.22, T:0.10
Consensus pattern (33 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATGA
Found at i:349398 original size:22 final size:22
Alignment explanation
Indices: 349346--349400 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
349336 TGGTTGTGAG
**
349346 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
349368 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
349390 GGATTTCTTCG
1 GGATTTCTTCG
349401 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:349572 original size:20 final size:20
Alignment explanation
Indices: 349547--349700 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
349537 CTTTAAATAT
349547 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
349567 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
349589 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
349608 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
349628 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
349648 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
349668 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
349688 CGCGTTGCGATTT
1 CGCGTTGCGATTT
349701 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Done.