Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 17 of 91
Found at i:2985087 original size:195 final size:194
Alignment explanation
Indices: 2984860--2985523 Score: 812
Period size: 195 Copynumber: 3.4 Consensus size: 194
2984850 AAAGCCAGCT
* * *
2984860 AAGCCCCCAGTTTATTCACCTCCAAAGAAAGAGAAGCCAGAACCCAAGCCACCAGTCTATGAACC
1 AAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTCTATGAACC
* * * *
2984925 TCCGAAGAAGCCACCAGTCTATGAAACTAAGCCACTAAAGCCACCAGTTTATGCACCACCAAAGA
66 TCCAAAGAAGCCTCCAGTGTTTG-AACTAA-CCACTAAAGCCACCAGTTTATGCACCACCAAAGA
*
2984990 AAAAGAAGCCAGAACCCAAACCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTG-AACC
129 AAGAGAAGCCAGAACCCAAACCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAAACC
2985054 A
194 A
* * * *
2985055 AAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCGCCGGTGTATGAACC
1 AAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTCTATGAACC
2985120 TCCAAAGAAGCCTCCAGTGTTTG----AA-C-CT-AAGCCACCAGTTTATGCACCACCAAAGAAA
66 TCCAAAGAAGCCTCCAGTGTTTGAACTAACCACTAAAGCCACCAGTTTATGCACCACCAAAGAAA
* *
2985178 GAGAAGCCAGAACCCAAACCGCCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAA
131 GAGAAGCCAGAACCCAAACCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTG-----AA
2985243 GCCACCA
191 ---ACCA
* * *
2985250 AAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACACAAACCACCGGTGTATGAACC
1 AAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTCTATGAACC
*
2985315 TCCAAAGAAGCCTCCAGTGTTTGAACCTAAACCACCAAAGCCACCAGTTTATGCACCACCAAAGA
66 TCCAAAGAAGCCTCCAGTGTTTGAA-CT-AACCACTAAAGCCACCAGTTTATGCACCACCAAAGA
* * * * *
2985380 AAGGAGAAACCAGAACCCAAACCACCAGTATATGAACCTCCAAAGAAGCCACCAGTATCTGAACC
129 AA-GAGAAGCCAGAACCCAAACCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTG-A--
2985445 TAGCCACCA
190 -A---ACCA
* * * *
2985454 AAGCCGCCGGTTTATGTACCTCCAAAGAAA-A-AATGCCAGAA-CCAAGCC-CCAGTCTATGAAC
1 AAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAA-GCCAGAACCCAAACCACCAGTCTATGAAC
2985515 CTCCAAAGA
65 CTCCAAAGA
2985524 GACGCCGGTG
Statistics
Matches: 413, Mismatches: 33, Indels: 40
0.85 0.07 0.08
Matches are distributed among these distances:
186 85 0.21
187 2 0.00
188 1 0.00
190 2 0.00
192 1 0.00
195 166 0.40
201 23 0.06
202 8 0.02
203 9 0.02
204 65 0.16
205 51 0.12
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (194 bp):
AAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTCTATGAACC
TCCAAAGAAGCCTCCAGTGTTTGAACTAACCACTAAAGCCACCAGTTTATGCACCACCAAAGAAA
GAGAAGCCAGAACCCAAACCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAAACCA
Found at i:2985273 original size:57 final size:57
Alignment explanation
Indices: 2985205--2985482 Score: 171
Period size: 57 Copynumber: 5.3 Consensus size: 57
2985195 ACCGCCGGTG
2985205 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
* * * * *
2985262 TATGCACCTCCAAAGAA------A--G--AGAAGCC--AG-AACACAAA-CCACCGGTG
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA-CCTAAGCCAC-CAAAGCCACCAGTT
*
2985307 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAACCACCAAAGCCACCAGTT
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
* * * * *
2985364 TATGCACCACCAAAGAA------AG-G--AGAAACC--AG-AACCCAAA-CCACCAGTA
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTG-AACCTAAGCCA-CCAAAGCCACCAGTT
* * * * *
2985410 TATGAACCTCCAAAGAAGCCACCAGTATCTGAACCT-AGCCACCAAAGCCGCCGGTT
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
*
2985466 TATGTACCTCCAAAGAA
1 TATGAACCTCCAAAGAA
2985483 AAAATGCCAG
Statistics
Matches: 165, Mismatches: 26, Indels: 61
0.65 0.10 0.24
Matches are distributed among these distances:
45 25 0.15
46 30 0.18
47 9 0.05
48 3 0.02
49 5 0.03
50 1 0.01
51 4 0.02
52 2 0.01
53 1 0.01
54 6 0.04
55 11 0.07
56 28 0.17
57 40 0.24
ACGTcount: A:0.38, C:0.31, G:0.16, T:0.15
Consensus pattern (57 bp):
TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
Found at i:2991823 original size:22 final size:21
Alignment explanation
Indices: 2991786--2991833 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2991776 TGATGTACAC
*
2991786 ATTTTATTTTTTTTTATAGAA
1 ATTTTATTATTTTTTATAGAA
**
2991807 ATTTTATTGATTTTTTATTTAA
1 ATTTTATT-ATTTTTTATAGAA
2991829 ATTTT
1 ATTTT
2991834 TGAAGAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
ATTTTATTATTTTTTATAGAA
Found at i:2993904 original size:49 final size:49
Alignment explanation
Indices: 2993834--2994134 Score: 372
Period size: 49 Copynumber: 6.1 Consensus size: 49
2993824 CAAATTAAAA
* * *
2993834 TCATCTTAGAAAAA-CTCCTCTAAGTAAAGACTTAACAACTTTAAAAATT
1 TCATCTT-GAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATT
* * *
2993883 TCATCTTGAAAAAGTTTCTCTAAGTAGAGGCTCTACAACTTTAAAAATT
1 TCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATT
* * * *
2993932 TTATGTTGAAAAAAGCTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATC
1 TCATCTTG-AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATT
* * *
2993982 TCATCTTGAAAAAACTCTTGTAAGTAGAGGCTCAACAACTTT-AAAATT
1 TCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATT
* * *
2994030 TAATCTTGAAAAAGCTACTCTAAGTAGAGGCTCAACTACTTTAAAAATT
1 TCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATT
* * ** * *
2994079 TTATCTTGAAAAAACTCCTCTAAGTAGAGATTCAACGACTTTAAAATTT
1 TCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATT
2994128 TCATCTT
1 TCATCTT
2994135 TTCTTGAAAT
Statistics
Matches: 215, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
48 47 0.22
49 126 0.59
50 42 0.20
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.33
Consensus pattern (49 bp):
TCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATT
Found at i:2994085 original size:97 final size:97
Alignment explanation
Indices: 2993812--2994127 Score: 365
Period size: 97 Copynumber: 3.3 Consensus size: 97
2993802 GCTTATTTAT
* * * * * *
2993812 GTAGAGACTCAACAA-ATTAAAA--TCATCTTAGAAAAA-CTCCTCTAAGTAAAGACTTAACAAC
1 GTAGAGACTCAACAACTTTAAAATTTAATCTT-GAAAAAGCTCCTCTAAGTAGAGGCTCAACTAC
* *
2993873 TTTAAAAATTTCATCTTG-AAAAAGTTTCTCTAA
65 TTTAAAAATTTCATCTTGAAAAAACTCT-TCTAA
* * * *
2993906 GTAGAGGCTCTACAACTTTAAAAATTTTATGTTGAAAAAAGCTCCTCTAAGTAGAGGCTCAA-TA
1 GTAGAGACTCAACAACTTT-AAAATTTAATCTTG-AAAAAGCTCCTCTAAGTAGAGGCTCAACT-
* *
2993970 ACTTTAAAAATCTCATCTTGAAAAAACTCTTGTAA
63 ACTTTAAAAATTTCATCTTGAAAAAACTCTTCTAA
* *
2994005 GTAGAGGCTCAACAACTTTAAAATTTAATCTTGAAAAAGCTACTCTAAGTAGAGGCTCAACTACT
1 GTAGAGACTCAACAACTTTAAAATTTAATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACTACT
* *
2994070 TTAAAAATTTTATCTTGAAAAAACTCCTCTAA
66 TTAAAAATTTCATCTTGAAAAAACTCTTCTAA
* *
2994102 GTAGAGATTCAACGACTTTAAAATTT
1 GTAGAGACTCAACAACTTTAAAATTT
2994128 TCATCTTTTC
Statistics
Matches: 189, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
94 13 0.07
95 2 0.01
96 4 0.02
97 81 0.43
98 23 0.12
99 59 0.31
100 7 0.04
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (97 bp):
GTAGAGACTCAACAACTTTAAAATTTAATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACTACT
TTAAAAATTTCATCTTGAAAAAACTCTTCTAA
Found at i:2998118 original size:24 final size:24
Alignment explanation
Indices: 2998074--2998119 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2998064 TTTATATTCG
* *
2998074 ATATATTATTTAGTATATAAATTT
1 ATATATTATTCAGTAAATAAATTT
2998098 ATATATTA-TCAGTAAATTAAAT
1 ATATATTATTCAGTAAA-TAAAT
2998120 GATATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
ATATATTATTCAGTAAATAAATTT
Found at i:2998266 original size:31 final size:29
Alignment explanation
Indices: 2998228--2998285 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
2998218 TATTAATGAG
**
2998228 ATAATATTATTTAATTTATCTTAATAATAAA
1 ATAATATTATCAAATTTA--TTAATAATAAA
2998259 ATAATATTATCAAATTTATTAATAATA
1 ATAATATTATCAAATTTATTAATAATA
2998286 GATAAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
31 16 0.64
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAATATTATCAAATTTATTAATAATAAA
Found at i:3004269 original size:22 final size:22
Alignment explanation
Indices: 3004231--3004292 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
3004221 GAGGATTTAA
*
3004231 TAGTAAATCAATTATAACT-TAG
1 TAGTAAATCAATAATAA-TGTAG
3004253 TAGTAAATGC-ATAATAATGTAG
1 TAGTAAAT-CAATAATAATGTAG
* * *
3004275 TAGCAAATTATTAATAAT
1 TAGTAAATCAATAATAAT
3004293 TTTGTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (22 bp):
TAGTAAATCAATAATAATGTAG
Found at i:3004355 original size:22 final size:22
Alignment explanation
Indices: 3004330--3004443 Score: 90
Period size: 22 Copynumber: 5.2 Consensus size: 22
3004320 AAAATCAGTA
*
3004330 ATAACTTTATACTAAATTAATG
1 ATAACTTTATAGTAAATTAATG
* *
3004352 ATAACTATATAATAAATT-ATGG
1 ATAACTTTATAGTAAATTAAT-G
* * *
3004374 ATAACTTAATAGTAAAATAATA
1 ATAACTTTATAGTAAATTAATG
* * * *
3004396 ATAACCTAATAGTAAATAAATA
1 ATAACTTTATAGTAAATTAATG
3004418 ATAA-TTTAGTAGTAAA-TAATTG
1 ATAACTTTA-TAGTAAATTAA-TG
3004440 ATAA
1 ATAA
3004444 AATAGTGTAT
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
21 6 0.08
22 66 0.89
23 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (22 bp):
ATAACTTTATAGTAAATTAATG
Found at i:3004449 original size:22 final size:22
Alignment explanation
Indices: 3004383--3004466 Score: 55
Period size: 22 Copynumber: 3.8 Consensus size: 22
3004373 GATAACTTAA
** *
3004383 TAGTAAA-ATAATAATAACCTAA
1 TAGTAAATA-AATAATAAAATAG
**
3004405 TAGTAAATAAATAATAATTTAG
1 TAGTAAATAAATAATAAAATAG
* *
3004427 TAGTAAATAATTGATAAAATAG
1 TAGTAAATAAATAATAAAATAG
*
3004449 T-GTATGATAACATAATAA
1 TAGTA-AATAA-ATAATAA
3004467 TAAATACATA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
21 3 0.06
22 40 0.82
23 6 0.12
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.32
Consensus pattern (22 bp):
TAGTAAATAAATAATAAAATAG
Found at i:3004515 original size:22 final size:22
Alignment explanation
Indices: 3004455--3004515 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
3004445 ATAGTGTATG
* *
3004455 ATAACATAATAATAAATACATA
1 ATAACTTAATAGTAAATACATA
* * *
3004477 ATAACTCAGTAGGAAATAACA-A
1 ATAACTTAATAGTAAAT-ACATA
3004499 ATAACTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
3004516 TATTTATACA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (22 bp):
ATAACTTAATAGTAAATACATA
Found at i:3004663 original size:22 final size:22
Alignment explanation
Indices: 3004606--3004665 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
3004596 AGCTAATTGT
*
3004606 TGATAACTTAATAATACATCAA
1 TGATAACTTAATAGTACATCAA
* **
3004628 TAATAACTTAATAGTGTATCAA
1 TGATAACTTAATAGTACATCAA
3004650 TGATAACTTAATAGTA
1 TGATAACTTAATAGTA
3004666 AATAAGATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (22 bp):
TGATAACTTAATAGTACATCAA
Found at i:3005079 original size:21 final size:21
Alignment explanation
Indices: 3004989--3005160 Score: 64
Period size: 22 Copynumber: 7.6 Consensus size: 21
3004979 AGCTTAGTAA
*
3004989 TAAATCAATGATAATTTAATAG
1 TAAATCAAT-ATAACTTAATAG
*
3005011 TAAAT-AATTTATAACTTAGTAG
1 TAAATCAA--TATAACTTAATAG
* * *
3005033 TAATTAAT-AATTTGAAATTAAAAG
1 T-A--AATCAATAT-AACTTAATAG
3005057 TAAATCAATATAACTTAATAG
1 TAAATCAATATAACTTAATAG
*
3005078 T-AATC-ATCAGTAAATTAATAG
1 TAAATCAAT-A-TAACTTAATAG
* * * *
3005099 TTAATTAGTAATAATTTAGAATAG
1 TAAATCAAT-ATAACTT--AATAG
*
3005123 TAAATTAGAGATATAACTTAATAG
1 TAAA-T-CA-ATATAACTTAATAG
*
3005147 TATATCAATTATAA
1 TAAATCAA-TATAA
3005161 TTTAGTAATA
Statistics
Matches: 113, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
19 2 0.02
20 5 0.04
21 26 0.23
22 34 0.30
23 8 0.07
24 24 0.21
25 6 0.05
26 7 0.06
27 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (21 bp):
TAAATCAATATAACTTAATAG
Found at i:3005226 original size:22 final size:22
Alignment explanation
Indices: 3005134--3005226 Score: 64
Period size: 22 Copynumber: 4.2 Consensus size: 22
3005124 AAATTAGAGA
* *
3005134 TATAACTTAATAGTATATCAAT
1 TATAACTTAATAATAAATCAAT
* * * *
3005156 TATAATTTAGTAATAAATTAGT
1 TATAACTTAATAATAAATCAAT
* *
3005178 AATAA-TATAATAATCAAAGC-AT
1 TATAACT-TAATAAT-AAATCAAT
* *
3005200 AATAACTTAATAATATATCAAT
1 TATAACTTAATAATAAATCAAT
3005222 TATAA
1 TATAA
3005227 GATAGTTGTA
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
21 4 0.08
22 45 0.85
23 4 0.08
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (22 bp):
TATAACTTAATAATAAATCAAT
Found at i:3005315 original size:22 final size:22
Alignment explanation
Indices: 3005290--3005341 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
3005280 AATAGCTTAA
* * *
3005290 TAGTTAATCATTGATAATTTAG
1 TAGTAAATCAATGAAAATTTAG
*
3005312 TAGTAAATTAATGAAAATTTAG
1 TAGTAAATCAATGAAAATTTAG
3005334 TAGTAAAT
1 TAGTAAAT
3005342 TAGTGATAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (22 bp):
TAGTAAATCAATGAAAATTTAG
Found at i:3005407 original size:19 final size:20
Alignment explanation
Indices: 3005378--3005415 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3005368 TTTAGTTTAA
*
3005378 TAGTAATTAAATTATAAATT
1 TAGTAATTAAATCATAAATT
3005398 TAGT-ATTAAATCATAAAT
1 TAGTAATTAAATCATAAAT
3005416 AACATAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TAGTAATTAAATCATAAATT
Found at i:3005621 original size:23 final size:23
Alignment explanation
Indices: 3005559--3005621 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
3005549 TAGTAAACAT
* * *
3005559 TGATAACTTAATTGT-AAATTAG
1 TGATAATTTAATTGTAAAATCAA
* *
3005581 TGATAATTTAGTTATAAAATCAA
1 TGATAATTTAATTGTAAAATCAA
*
3005604 TGATAATTTATTTGTAAA
1 TGATAATTTAATTGTAAA
3005622 TTAGTTAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (23 bp):
TGATAATTTAATTGTAAAATCAA
Found at i:3005653 original size:22 final size:22
Alignment explanation
Indices: 3005623--3005774 Score: 162
Period size: 22 Copynumber: 6.9 Consensus size: 22
3005613 ATTTGTAAAT
*
3005623 TAGTTAATTATTAATAACTTTA
1 TAGTAAATTATTAATAACTTTA
*
3005645 TAGTAAATTATCAATAACTTTA
1 TAGTAAATTATTAATAACTTTA
* * *
3005667 TAGTAAATAAGTAATAACATTA
1 TAGTAAATTATTAATAACTTTA
* * *
3005689 TAATAAATAATTAATAACTTAA
1 TAGTAAATTATTAATAACTTTA
*
3005711 TAGTAAATTATTAATAACTTAA
1 TAGTAAATTATTAATAACTTTA
* * *
3005733 TAATAAATTGTTTATAAC-TTA
1 TAGTAAATTATTAATAACTTTA
* *
3005754 GTAGTAAATCATTTATAACTT
1 -TAGTAAATTATTAATAACTT
3005775 AGTGATAAAT
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
21 2 0.02
22 106 0.97
23 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (22 bp):
TAGTAAATTATTAATAACTTTA
Found at i:3005705 original size:44 final size:44
Alignment explanation
Indices: 3005634--3005814 Score: 174
Period size: 44 Copynumber: 4.1 Consensus size: 44
3005624 AGTTAATTAT
* * *
3005634 TAATAACTTTATAGTAAATTATCAATAACTTTA-TAGTAAATAAG
1 TAATAAC-TTATAATAAATTATTAATAACTTTAGTAGTAAATCAG
* * * *
3005678 TAATAACATTATAATAAATAATTAATAAC-TTAATAGTAAATTAT
1 TAATAAC-TTATAATAAATTATTAATAACTTTAGTAGTAAATCAG
* * *
3005722 TAATAACTTAATAATAAATTGTTTATAAC-TTAGTAGTAAATCAT
1 TAATAACTT-ATAATAAATTATTAATAACTTTAGTAGTAAATCAG
* * *
3005766 TTATAACTTAGTGATAAATCA-TAATAA-TTTAGTAGTAAATCAG
1 TAATAACTTA-TAATAAATTATTAATAACTTTAGTAGTAAATCAG
3005809 TAATAA
1 TAATAA
3005815 AATAGTAGTA
Statistics
Matches: 115, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
43 30 0.26
44 85 0.74
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.39
Consensus pattern (44 bp):
TAATAACTTATAATAAATTATTAATAACTTTAGTAGTAAATCAG
Found at i:3005750 original size:66 final size:66
Alignment explanation
Indices: 3005632--3005814 Score: 176
Period size: 66 Copynumber: 2.8 Consensus size: 66
3005622 TTAGTTAATT
* * *
3005632 ATTAATAACTTTATAGTAAATTATCAATAACTTTATAGTAAATAAGTAATAACATTA-TAATAAA
1 ATTAATAACTTAATAGTAAATTATCAATAACTTAATAATAAATAAGTAATAAC-TTAGTAATAAA
3005696 TA
65 TA
* * * *
3005698 ATTAATAACTTAATAGTAAATTATTAATAACTTAATAATAAAT-TGTTTATAACTTAGTAGTAAA
1 ATTAATAACTTAATAGTAAATTATCAATAACTTAATAATAAATAAG-TAATAACTTAGTAATAAA
*
3005762 TC
65 TA
* * * * * * *
3005764 ATTTATAACTTAGT-GATAAATCAT-AATAATTTAGTAGTAAATCAGTAATAA
1 ATTAATAACTTAATAG-TAAATTATCAATAACTTAATAATAAATAAGTAATAA
3005815 AATAGTAGTA
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
65 25 0.26
66 72 0.74
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.39
Consensus pattern (66 bp):
ATTAATAACTTAATAGTAAATTATCAATAACTTAATAATAAATAAGTAATAACTTAGTAATAAAT
A
Found at i:3005775 original size:22 final size:22
Alignment explanation
Indices: 3005623--3005840 Score: 158
Period size: 22 Copynumber: 10.0 Consensus size: 22
3005613 ATTTGTAAAT
* *
3005623 TAGTTAATTATTAATAACTTTA-
1 TAGTAAATCATTAATAAC-TTAG
* *
3005645 TAGTAAATTATCAATAACTTTA-
1 TAGTAAATCATTAATAAC-TTAG
* *
3005667 TAGTAAATAAGTAATAACATTA-
1 TAGTAAATCATTAATAAC-TTAG
* * *
3005689 TAATAAATAATTAATAACTTAA
1 TAGTAAATCATTAATAACTTAG
* *
3005711 TAGTAAATTATTAATAACTTAA
1 TAGTAAATCATTAATAACTTAG
* ** *
3005733 TAATAAATTGTTTATAACTTAG
1 TAGTAAATCATTAATAACTTAG
*
3005755 TAGTAAATCATTTATAACTTAG
1 TAGTAAATCATTAATAACTTAG
*
3005777 T-GATAAATCA-TAATAATTTAG
1 TAG-TAAATCATTAATAACTTAG
* **
3005798 TAGTAAATCAGTAATAAAATAG
1 TAGTAAATCATTAATAACTTAG
* * *
3005820 TAGTAAGTCAATAGTAACTTA
1 TAGTAAATCATTAATAACTTA
3005841 TTTATTAATT
Statistics
Matches: 166, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.13
22 145 0.87
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.39
Consensus pattern (22 bp):
TAGTAAATCATTAATAACTTAG
Found at i:3006091 original size:22 final size:22
Alignment explanation
Indices: 3006066--3006147 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
3006056 TATATCATAA
*
3006066 ATAACTTAGTAGTAATTCAA-TG
1 ATAACTTAGTAGTAAAT-AATTG
*
3006088 ATAATTTAGTAGTAAATAATTG
1 ATAACTTAGTAGTAAATAATTG
* *
3006110 ATAACTTAATAGCAAACT-ATTG
1 ATAACTTAGTAGTAAA-TAATTG
*
3006132 A-AACTTAGTAATAAAT
1 ATAACTTAGTAGTAAAT
3006148 CAATGGTGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.02
21 13 0.26
22 35 0.70
23 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAATTG
Found at i:3006294 original size:22 final size:22
Alignment explanation
Indices: 3006269--3006408 Score: 113
Period size: 22 Copynumber: 6.4 Consensus size: 22
3006259 AATTTTGTAG
* *
3006269 TAAATCATCAATAAATTCATAA
1 TAAATCATCAATAACTTAATAA
* * * *
3006291 TAAATTAGT-TATAACTTTATAG
1 TAAATCA-TCAATAACTTAATAA
* *
3006313 TAAATTATCAATAACTTAATAT
1 TAAATCATCAATAACTTAATAA
* *
3006335 TAAATCATCAATAACATAGTAA
1 TAAATCATCAATAACTTAATAA
*
3006357 TAAATCATTC-ATAACTTAATAG
1 TAAATCA-TCAATAACTTAATAA
* * * *
3006379 TAAATTATTAATAATTTAATGA
1 TAAATCATCAATAACTTAATAA
3006401 TAAATCAT
1 TAAATCAT
3006409 TGATAACATA
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
21 2 0.02
22 88 0.95
23 3 0.03
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (22 bp):
TAAATCATCAATAACTTAATAA
Found at i:3006339 original size:66 final size:66
Alignment explanation
Indices: 3006269--3006427 Score: 191
Period size: 66 Copynumber: 2.4 Consensus size: 66
3006259 AATTTTGTAG
* *
3006269 TAAATCATCAATAA-ATTCA-TAATAAATTAGTT-ATAACTTTATAGTAAATTATCAATAACTTA
1 TAAATCATCAATAACA-T-AGTAATAAATCA-TTCATAACTTAATAGTAAATTATCAATAACTTA
3006331 AT-A
63 ATGA
* *
3006334 TTAAATCATCAATAACATAGTAATAAATCATTCATAACTTAATAGTAAATTATTAATAATTTAAT
1 -TAAATCATCAATAACATAGTAATAAATCATTCATAACTTAATAGTAAATTATCAATAACTTAAT
3006399 GA
65 GA
** *
3006401 TAAATCATTGATAACATAGCAATAAAT
1 TAAATCATCAATAACATAGTAATAAAT
3006428 TAGTAATAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
65 3 0.04
66 77 0.94
67 2 0.02
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.36
Consensus pattern (66 bp):
TAAATCATCAATAACATAGTAATAAATCATTCATAACTTAATAGTAAATTATCAATAACTTAATG
A
Found at i:3006349 original size:44 final size:43
Alignment explanation
Indices: 3006257--3006440 Score: 117
Period size: 44 Copynumber: 4.2 Consensus size: 43
3006247 TATATCAATC
* * * * *
3006257 ATAATTTTGTAGTAAATCATCAATAAATTCATAATAAATTAGTT
1 ATAACTTTATAGTAAATCATCAATAACTTAATAATAAATTA-TA
* * *
3006301 ATAACTTTATAGTAAATTATCAATAACTTAATATTAAATCATCA
1 ATAACTTTATAGTAAATCATCAATAACTTAATAATAAATTAT-A
* * *
3006345 ATAAC-ATAGTAATAAATCATTC-ATAACTTAATAGTAAATTATTA
1 ATAACTTTA-TAGTAAATCA-TCAATAACTTAATAATAAATTA-TA
** * **
3006389 ATAA-TTTA-ATGATAAATCATTGATAACATAGCAATAAATTAGTA
1 ATAACTTTATA-G-TAAATCATCAATAACTTAATAATAAATTA-TA
3006433 ATAA-TTTA
1 ATAACTTTA
3006441 ATTGTCAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 103 0.93
45 3 0.03
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (43 bp):
ATAACTTTATAGTAAATCATCAATAACTTAATAATAAATTATA
Found at i:3006441 original size:44 final size:44
Alignment explanation
Indices: 3006356--3006442 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
3006346 TAACATAGTA
* * * *
3006356 ATAAATCATTCATAACTTAATAGTAAATTATTAATAATTTAATG
1 ATAAATCATTCATAACATAACAATAAATTAGTAATAATTTAATG
* *
3006400 ATAAATCATTGATAACATAGCAATAAATTAGTAATAATTTAAT
1 ATAAATCATTCATAACATAACAATAAATTAGTAATAATTTAAT
3006443 TGTCAATCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (44 bp):
ATAAATCATTCATAACATAACAATAAATTAGTAATAATTTAATG
Found at i:3006674 original size:34 final size:34
Alignment explanation
Indices: 3006631--3006695 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
3006621 AGTGATAACA
*
3006631 ATAAATCAATAATAACTTATTAGTAAATCAAATG
1 ATAAATCAATAATAACCTATTAGTAAATCAAATG
*
3006665 ATAATTCAATAATAACCTATTAGTAAATCAA
1 ATAAATCAATAATAACCTATTAGTAAATCAA
3006696 TTTTAGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (34 bp):
ATAAATCAATAATAACCTATTAGTAAATCAAATG
Found at i:3008328 original size:21 final size:20
Alignment explanation
Indices: 3008296--3008335 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3008286 TTTTATAGTC
*
3008296 AAAAAATTAAAAAAAAGAAG
1 AAAAAATAAAAAAAAAGAAG
3008316 AAAAATATAAAAAAAAAGAA
1 AAAAA-ATAAAAAAAAAGAA
3008336 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (20 bp):
AAAAAATAAAAAAAAAGAAG
Found at i:3011686 original size:2 final size:2
Alignment explanation
Indices: 3011679--3011711 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3011669 AAAATCTAAA
*
3011679 CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3011712 CATATAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:3013260 original size:62 final size:62
Alignment explanation
Indices: 3013157--3013273 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 62
3013147 AATCAACTTG
* * * * *
3013157 GCATAAATTCACCTCGATAAAAATGATCTCGGTACATATTCATCTCAGTGTAAATTACATTA
1 GCATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAATTACATTA
** * * *
3013219 GCATAAAATCACCTCGATGTAAATTACCTTGGCACAGATTCATCTTAGTATAAAT
1 GCATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAAT
3013274 CTCCTTAACA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 45 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (62 bp):
GCATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAATTACATTA
Found at i:3013286 original size:62 final size:62
Alignment explanation
Indices: 3013158--3013287 Score: 136
Period size: 62 Copynumber: 2.1 Consensus size: 62
3013148 ATCAACTTGG
* * * * * *
3013158 CATAAATTCACCTCGATAAAAATGATCTCGGTACATATTCATCTCAGTGTAAATTACATTAG
1 CATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAATTACATTAA
** * * * *
3013220 CATAAAATCACCTCGATGTAAATTACCTTGGCACAGATTCATCTTAGTATAAATCT-CCTTAA
1 CATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAAT-TACATTAA
3013282 CATAAA
1 CATAAA
3013288 TGAATTTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
62 54 0.98
63 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (62 bp):
CATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAATTACATTAA
Found at i:3015989 original size:16 final size:16
Alignment explanation
Indices: 3015968--3016002 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3015958 AAAATTTTTC
3015968 AAGGAAAGAAAAGAAA
1 AAGGAAAGAAAAGAAA
* *
3015984 AAGGAAATAAAATAAA
1 AAGGAAAGAAAAGAAA
3016000 AAG
1 AAG
3016003 AGAGTAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (16 bp):
AAGGAAAGAAAAGAAA
Found at i:3016219 original size:60 final size:60
Alignment explanation
Indices: 3016077--3016251 Score: 214
Period size: 60 Copynumber: 2.9 Consensus size: 60
3016067 TTTGTATAAG
* *
3016077 AAAAATTGATACTTTCAACTTTTTCTC-AAAATACTTTTT-AACAATTTTATTTTCAAGA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAACAATTTTATTTTCAAGA
* * *
3016135 AAAAATTGATTCTTTCAAATTTTTCCTCAAAAATATTTTTTAGAACACTTTTATTTTCAAG-
1 AAAAATTGATACTTTC-AACTTTTCCTCAAAAATATTTTTT-GAACAATTTTATTTTCAAGA
** *
3016196 GGAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTTGAA-AATTTTTATTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAACAA-TTTTATTTT
3016252 AGAAACTTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
58 15 0.15
59 10 0.10
60 39 0.39
61 19 0.19
62 17 0.17
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (60 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAACAATTTTATTTTCAAGA
Found at i:3016242 original size:74 final size:74
Alignment explanation
Indices: 3016163--3016325 Score: 208
Period size: 74 Copynumber: 2.2 Consensus size: 74
3016153 ATTTTTCCTC
* **
3016163 AAAAATATT-TTTTAGAACACTTTTATTTTCAAGGGAAATTGATACTTTCAACTTTT-CCTAAAA
1 AAAATTATTATTTTAGAA-AC-TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCT-AAA
3016226 AATATTTTTTTG
63 AATATTTTTTTG
* *
3016238 AAAATTTTTATTTTAGAAACTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAAT
1 AAAATTATTATTTTAGAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAAT
3016303 A-TTTTTT-
66 ATTTTTTTG
*
3016310 AAAACTTTTTATTTTA
1 AAAA-TTATTATTTTA
3016326 AGAGAAATTA
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
72 4 0.05
73 17 0.21
74 39 0.49
75 12 0.15
76 8 0.10
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (74 bp):
AAAATTATTATTTTAGAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAAT
ATTTTTTTG
Found at i:3016334 original size:58 final size:59
Alignment explanation
Indices: 3016238--3016421 Score: 214
Period size: 58 Copynumber: 3.1 Consensus size: 59
3016228 TATTTTTTTG
* *
3016238 AAAATTTTTATTTTAGAAACTTTAT-TTTTAAGAAAAATTGATACTTTCAACTTTTCCCTA
1 AAAATATTT-TTTTA-AAACTTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCCTA
* *
3016298 AAAATA-TTTTTTAAAACTTTTTATTTTAAGAGAAATTAATACTTTCAAC-TTTCCCTAA
1 AAAATATTTTTTTAAAACTTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCCT-A
* * *
3016356 AAAATATTTTTGTTTAAAAAATTTTTATTTTCAAGAAAAATTGATACTTTCAGCTTTT-TCTA
1 AAAATA-TTTT-TTT-AAAACTTTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCCTA
3016418 AAAA
1 AAAA
3016422 ATATATATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
57 15 0.14
58 36 0.34
59 2 0.02
60 8 0.07
61 3 0.03
62 19 0.18
63 21 0.20
64 3 0.03
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (59 bp):
AAAATATTTTTTTAAAACTTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCCTA
Found at i:3016355 original size:132 final size:139
Alignment explanation
Indices: 3016122--3016386 Score: 393
Period size: 135 Copynumber: 2.0 Consensus size: 139
3016112 TTTTAACAAT
* *
3016122 TTTATTTTCAAGAAAAAATTGATTCTTTCAAATTTTTCCTCAAAAATATTTTTTAGAACACTTTT
1 TTTATTTTCAAGAAAAAATTGATACTTTCAAATTTTCCCTCAAAAATATTTTTTAGAACACTTTT
* * * *
3016187 ATTTTCAAGGGAAATTGATACTTTCAACTTTTCCTAAAAAATA-TTTT-TTT-GAAAATTTTTAT
66 ATTTTCAAGAGAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATTTTTAT
3016249 TTTAGAAAC
131 TTTAGAAAC
* *
3016258 TTTATTTTTAAG-AAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTA-AA-ACTTTT
1 TTTATTTTCAAGAAAAAATTGATACTTTCAAATTTTCCCTCAAAAATATTTTTTAGAACAC-TTT
3016319 TATTTT-AAGAGAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATTTTTA
65 TATTTTCAAGAGAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATTTTTA
3016383 TTTT
130 TTTT
3016387 CAAGAAAAAT
Statistics
Matches: 117, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
132 36 0.31
133 15 0.13
134 17 0.15
135 38 0.32
136 11 0.09
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.48
Consensus pattern (139 bp):
TTTATTTTCAAGAAAAAATTGATACTTTCAAATTTTCCCTCAAAAATATTTTTTAGAACACTTTT
ATTTTCAAGAGAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATTTTTAT
TTTAGAAAC
Found at i:3016407 original size:63 final size:59
Alignment explanation
Indices: 3016258--3016425 Score: 214
Period size: 63 Copynumber: 2.8 Consensus size: 59
3016248 TTTTAGAAAC
*
3016258 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCT-AAAAATA-TTTTTTAAAACTT
1 TTTA-TTTTAAGAAAAATTGATACTTTCAAC-TTTCCCTAAAAAATATTTTTTTAAAAATT
* *
3016317 TTTATTTTAAGAGAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATT
1 TTTATTTTAAGAAAAATTGATACTTTCAACTTTCCCTAAAAAATA-TTTT-TTT-AAAAATT
* **
3016379 TTTATTTTCAAGAAAAATTGATACTTTCAGCTTTTTCTAAAAAATAT
1 TTTATTTT-AAGAAAAATTGATACTTTCAACTTTCCCTAAAAAATAT
3016426 ATATATTTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
57 7 0.07
58 31 0.33
59 4 0.04
60 3 0.03
61 3 0.03
62 15 0.16
63 32 0.34
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.46
Consensus pattern (59 bp):
TTTATTTTAAGAAAAATTGATACTTTCAACTTTCCCTAAAAAATATTTTTTTAAAAATT
Found at i:3016457 original size:63 final size:62
Alignment explanation
Indices: 3016258--3016457 Score: 191
Period size: 63 Copynumber: 3.2 Consensus size: 62
3016248 TTTTAGAAAC
*
3016258 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCT---AAA-A--ATATTTTTTAAAACTT
1 TTTA-TTTTAAGAAAAATTAATACTTTCAAC-TTTCCCTAAAAAATATTATATTTTTTAAAA-TT
* *
3016317 TTTATTTTAAGAGAAATTAATACTTTCAACTTTCCCTAAAAAATATT-T-TTGTTTAAAAAATT
1 TTTATTTTAAGAAAAATTAATACTTTCAACTTTCCCTAAAAAATATTATATT-TTT-TAAAATT
* * ** **
3016379 TTTATTTTCAAGAAAAATTGATACTTTCAGCTTTTTCTAAAAAATATATATATTTTTTGGAATT
1 TTTATTTT-AAGAAAAATTAATACTTTCAACTTTCCCTAAAAAATAT-TATATTTTTTAAAATT
*
3016443 TTTATTTTAGGAAAA
1 TTTATTTTAAGAAAA
3016458 TTATTAAAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
57 7 0.06
58 24 0.21
59 4 0.03
60 3 0.03
61 3 0.03
62 14 0.12
63 43 0.37
64 13 0.11
65 4 0.03
66 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (62 bp):
TTTATTTTAAGAAAAATTAATACTTTCAACTTTCCCTAAAAAATATTATATTTTTTAAAATT
Found at i:3016553 original size:11 final size:10
Alignment explanation
Indices: 3016525--3016557 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
3016515 TTAGAAATAT
3016525 TAATAA-TAA
1 TAATAATTAA
3016534 TAATAATTAA
1 TAATAATTAA
3016544 TAATTAATTAA
1 TAA-TAATTAA
3016555 TAA
1 TAA
3016558 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAATAATTAA
Found at i:3017314 original size:3 final size:3
Alignment explanation
Indices: 3017306--3017417 Score: 52
Period size: 3 Copynumber: 37.7 Consensus size: 3
3017296 TAACAATATA
* * ** *
3017306 AAT AAT AAT AAAT AGT AAAT AAT AAA AAT AAAT AAT AA- ACG AA- AAA
1 AAT AAT AAT -AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * * * * * *
3017352 AAC AAT AAT AAA AAA AAT AAA AAT AAT GAT AAT AAA AAT AA- AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
3017399 AAC AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
3017418 ATAAAAAAAT
Statistics
Matches: 84, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
2 7 0.08
3 69 0.82
4 8 0.10
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (3 bp):
AAT
Found at i:3017326 original size:17 final size:15
Alignment explanation
Indices: 3017294--3017420 Score: 67
Period size: 15 Copynumber: 8.7 Consensus size: 15
3017284 AATAAAAAAC
*
3017294 AATAACAATATAAAT
1 AATAAAAATATAAAT
3017309 AATAATAAATAGTAAAT
1 AATAA-AAATA-TAAAT
3017326 AAT-AAAA-ATAAAT
1 AATAAAAATATAAAT
* *
3017339 AATAAACGAA-AAAAAC
1 AATAAA--AATATAAAT
*
3017355 AATAATAA-A-AAA-
1 AATAAAAATATAAAT
*
3017367 AATAAAAATA-ATGAT
1 AATAAAAATATA-AAT
3017382 AATAAAAATA-AAAT
1 AATAAAAATATAAAT
*
3017396 AA-AAACAAAAT-AAT
1 AATAAA-AATATAAAT
3017410 AATAATAAATA
1 AATAA-AAATA
3017421 AAAAAATGGG
Statistics
Matches: 91, Mismatches: 9, Indels: 24
0.73 0.07 0.19
Matches are distributed among these distances:
12 7 0.08
13 16 0.18
14 19 0.21
15 24 0.26
16 17 0.19
17 8 0.09
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAAAATATAAAT
Found at i:3017335 original size:6 final size:6
Alignment explanation
Indices: 3017294--3017424 Score: 74
Period size: 6 Copynumber: 21.3 Consensus size: 6
3017284 AATAAAAAAC
* * * *
3017294 AATAAC AATATA AATAAT AATAAA TAGTAAA TAATAAA AATAAA TAAT-AA
1 AATAAA AATAAA AATAAA AATAAA -AATAAA -AATAAA AATAAA -AATAAA
** *
3017344 ACGAAA AA-AAC AATAATA AA-AAA AATAAA AATAATGA TAATAAA AAT-AA
1 AATAAA AATAAA AATAA-A AATAAA AATAAA AATAA--A -AATAAA AATAAA
* *
3017393 AATAAA AA-CAA AATAAT AATAATA AATAAA AA
1 AATAAA AATAAA AATAAA AATAA-A AATAAA AA
3017425 AATGGGCCCA
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
5 17 0.18
6 52 0.54
7 22 0.23
8 1 0.01
9 5 0.05
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:3017335 original size:20 final size:20
Alignment explanation
Indices: 3017279--3017427 Score: 86
Period size: 20 Copynumber: 7.7 Consensus size: 20
3017269 AGAAAAGGTA
*
3017279 AAATCAATAAAAA-ACAATAAC
1 AAAT-AATAAAAATA-AATAAT
* *
3017300 AATATAAATAATAATAAATAGT
1 AA-AT-AATAAAAATAAATAAT
3017322 AAATAATAAAAATAAATAAT
1 AAATAATAAAAATAAATAAT
* *
3017342 AAACGAA-AAAAA-CAATAAT
1 AAA-TAATAAAAATAAATAAT
3017361 AAA-AA-AAATAA-AAATAAT
1 AAATAATAAA-AATAAATAAT
*
3017379 -GATAATAAAAATAAAATAA-
1 AAATAATAAAAAT-AAATAAT
* *
3017398 AAACAA-AATAAT-AATAAT
1 AAATAATAAAAATAAATAAT
3017416 AAATAA-AAAAAT
1 AAATAATAAAAAT
3017428 GGGCCCATCT
Statistics
Matches: 103, Mismatches: 15, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
17 11 0.11
18 22 0.21
19 17 0.17
20 31 0.30
21 6 0.06
22 15 0.15
23 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATAATAAAAATAAATAAT
Found at i:3017357 original size:55 final size:55
Alignment explanation
Indices: 3017284--3017424 Score: 157
Period size: 55 Copynumber: 2.6 Consensus size: 55
3017274 AGGTAAAATC
* * * *
3017284 AATAAAAA-ACAATAACAAT-ATAAATAATAATAAATAGTAA-ATAATAAAAAT-A
1 AATAAAAACAAAAAAACAATAATAAATAAAAATAAA-AATAAGATAATAAAAATAA
3017336 AATAATAAACGAAAAAAACAATAATAAA-AAAAATAAAAATAATGATAATAAAAATAA
1 AATAA-AAAC-AAAAAAACAATAATAAATAAAAATAAAAATAA-GATAATAAAAATAA
* *
3017393 AATAAAAACAAAATAATAATAATAAATAAAAA
1 AATAAAAACAAAAAAACAATAATAAATAAAAA
3017425 AATGGGCCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
52 5 0.07
53 3 0.04
54 4 0.05
55 32 0.43
56 25 0.33
57 6 0.08
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (55 bp):
AATAAAAACAAAAAAACAATAATAAATAAAAATAAAAATAAGATAATAAAAATAA
Found at i:3017373 original size:21 final size:21
Alignment explanation
Indices: 3017349--3017394 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3017339 AATAAACGAA
3017349 AAAAACAATAATAAAAAAAAT
1 AAAAACAATAATAAAAAAAAT
* * *
3017370 AAAAATAATGATAATAAAAAT
1 AAAAACAATAATAAAAAAAAT
3017391 AAAA
1 AAAA
3017395 TAAAAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAACAATAATAAAAAAAAT
Found at i:3017409 original size:31 final size:32
Alignment explanation
Indices: 3017303--3017427 Score: 102
Period size: 31 Copynumber: 3.9 Consensus size: 32
3017293 CAATAACAAT
*
3017303 ATAAATAATAATAAATAGTAAATAATAAAA-ATAA
1 ATAAA-AATAAT-AATAATAAATAATAAAATA-AA
*
3017337 ATAATAAACGAA-AA-AA-ACAATAATAAAA-AAA
1 ATAA-AAA-TAATAATAATA-AATAATAAAATAAA
*
3017368 ATAAAAATAATGATAATAAA-AATAAAATAAA
1 ATAAAAATAATAATAATAAATAATAAAATAAA
*
3017399 A-ACAAAATAATAATAATAAATAAAAAAAT
1 ATA-AAAATAATAATAATAAATAATAAAAT
3017428 GGGCCCATCT
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
29 2 0.03
30 12 0.16
31 31 0.41
32 20 0.26
33 2 0.03
34 6 0.08
35 3 0.04
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (32 bp):
ATAAAAATAATAATAATAAATAATAAAATAAA
Found at i:3017596 original size:14 final size:13
Alignment explanation
Indices: 3017573--3017620 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
3017563 AACTTGACAC
3017573 TTTTTT-TTTTGT
1 TTTTTTGTTTTGT
3017585 CTTTTTTGTTTTGT
1 -TTTTTTGTTTTGT
*
3017599 TGTTTTTGATTT-T
1 T-TTTTTGTTTTGT
3017612 TTTTTTGTT
1 TTTTTTGTT
3017621 AAGATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 7 0.23
13 9 0.29
14 15 0.48
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.83
Consensus pattern (13 bp):
TTTTTTGTTTTGT
Found at i:3017790 original size:16 final size:16
Alignment explanation
Indices: 3017769--3017801 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3017759 TTTGGTCAAG
3017769 AAAGAATTACAAAAAT
1 AAAGAATTACAAAAAT
3017785 AAAGAATTACAAAAAT
1 AAAGAATTACAAAAAT
3017801 A
1 A
3017802 GGTATGGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAGAATTACAAAAAT
Found at i:3028826 original size:16 final size:16
Alignment explanation
Indices: 3028799--3028837 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
3028789 AACTTTCCCT
*
3028799 AAAAATTATTTTTGTTTA
1 AAAAATT-TTTAT-TTTA
3028817 AAAAATTTTTATTTTA
1 AAAAATTTTTATTTTA
3028833 AAAAA
1 AAAAA
3028838 AATTGATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 4 0.20
18 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AAAAATTTTTATTTTA
Found at i:3028854 original size:62 final size:58
Alignment explanation
Indices: 3028655--3028866 Score: 212
Period size: 59 Copynumber: 3.5 Consensus size: 58
3028645 TGTTTTCAAG
* * * * *
3028655 AAAAACTGATACTTTTAACTTTTCCTCAAAATACTTTTT-AACAA-TTTTATTTTCAAGA
1 AAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTAAAAAACTTTTATTTT-AA-A
* * * * *
3028713 AAAAATTGATACTTTCAACTTTTTCCTCAAAATATTTTTTAGAACACTTTTATTTCCAAG
1 AAAAATTGATACTTTCAAC-TTTTCCTAAAAATATTTTTTAAAAAACTTTTATTT-TAAA
* * *
3028773 AAAAATTAATACTTTCAACTTTCCCTAAAAATTATTTTTGTTTAAAAAATTTTTATTTTAAA
1 AAAAATTGATACTTTCAACTTTTCCTAAAAA-TA--TTT-TTTAAAAAACTTTTATTTTAAA
3028835 AAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 AAAAATTGATACTTTCAACTTTTCCT-AAAAA
3028867 AAAAATATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
58 17 0.13
59 29 0.23
60 22 0.17
61 10 0.08
62 29 0.23
63 20 0.16
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.43
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTAAAAAACTTTTATTTTAAA
Found at i:3028981 original size:4 final size:4
Alignment explanation
Indices: 3028953--3029002 Score: 65
Period size: 4 Copynumber: 13.8 Consensus size: 4
3028943 TTCTAATTTT
3028953 TAAA -AAA T-AA TAAA T-AA T-AA T-AA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
3028996 TAAA TAA
1 TAAA TAA
3029003 CATTAAGGCG
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 15 0.35
4 28 0.65
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:3039814 original size:14 final size:14
Alignment explanation
Indices: 3039770--3039804 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3039760 GGATTTTTCA
* *
3039770 TTTTTTTGCAAGGT
1 TTTTTTTGGATGGT
3039784 TTTTTTTGGATGGT
1 TTTTTTTGGATGGT
3039798 TTTTTTT
1 TTTTTTT
3039805 TGTGGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.03, G:0.20, T:0.69
Consensus pattern (14 bp):
TTTTTTTGGATGGT
Found at i:3040414 original size:49 final size:48
Alignment explanation
Indices: 3040348--3040597 Score: 245
Period size: 49 Copynumber: 5.1 Consensus size: 48
3040338 AATTAAAATA
*
3040348 ATCTTGGAAAAA-CTCCTCTAAGTAGAGACTTAACAACTTTAAACATTTC
1 ATCTT-GAAAAAGCTCCTCTAAGTAGAGACTCAACAACTTTAAA-ATTTC
* * * * *
3040397 ATCTTGAAAAAGTTCCTCTAAGTAGAGGCTCTATAACTTTAAAAATTTT
1 ATCTTGAAAAAGCTCCTCTAAGTAGAGACTCAACAACTTT-AAAATTTC
* * * *
3040446 ATCTTGGTAAAAGCTCCTCTAAGTA-AAAGCTCAATAACTTTAAAAATCTC
1 ATCTT-GAAAAAGCTCCTCTAAGTAGAGA-CTCAACAACTTT-AAAATTTC
* * * * *
3040496 ATCTTGAAAAAACTCTTGTAAGTAAAGGCTCAACAACTTTAAAATTTC
1 ATCTTGAAAAAGCTCCTCTAAGTAGAGACTCAACAACTTTAAAATTTC
* * *
3040544 ATCTCG-AAAAGCCTACTCTAAGTAGAGACTCAACTACTTTAAAATTTTC
1 ATCTTGAAAAAG-CTCCTCTAAGTAGAGACTCAACAACTTTAAAA-TTTC
3040593 ATCTT
1 ATCTT
3040598 TTCTCAAAAT
Statistics
Matches: 164, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
47 4 0.02
48 44 0.27
49 72 0.44
50 44 0.27
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (48 bp):
ATCTTGAAAAAGCTCCTCTAAGTAGAGACTCAACAACTTTAAAATTTC
Found at i:3040485 original size:99 final size:96
Alignment explanation
Indices: 3040348--3040597 Score: 272
Period size: 99 Copynumber: 2.6 Consensus size: 96
3040338 AATTAAAATA
* * * **
3040348 ATCTTGGAAAAACTCCTCTAAGTAGAGACTTAACAACTTTAAACATTTCATCTTGAAAAAGTTCC
1 ATCTTGGAAAAGCTCCTCTAAGTAGAGACTCAATAACTTTAAA-ATTTCATCTTGAAAAAACTCC
* * * *
3040413 TCTAAGTAGAGGCTCTATAACTTTAAAAATTTT
65 TCTAAGTAAAGGCTCAACAACTTT-AAAATTTC
* *
3040446 ATCTTGGTAAAAGCTCCTCTAAGTA-AAAGCTCAATAACTTTAAAAATCTCATCTTGAAAAAACT
1 ATCTTGG-AAAAGCTCCTCTAAGTAGAGA-CTCAATAACTTT-AAAATTTCATCTTGAAAAAACT
* *
3040510 CTTGTAAGTAAAGGCTCAACAACTTTAAAATTTC
63 CCTCTAAGTAAAGGCTCAACAACTTTAAAATTTC
* *
3040544 ATC-TCGAAAAGCCTACTCTAAGTAGAGACTCAACT-ACTTTAAAATTTTCATCTT
1 ATCTTGGAAAAG-CTCCTCTAAGTAGAGACTCAA-TAACTTTAAAA-TTTCATCTT
3040598 TTCTCAAAAT
Statistics
Matches: 128, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
96 9 0.07
97 31 0.24
98 22 0.17
99 63 0.49
100 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (96 bp):
ATCTTGGAAAAGCTCCTCTAAGTAGAGACTCAATAACTTTAAAATTTCATCTTGAAAAAACTCCT
CTAAGTAAAGGCTCAACAACTTTAAAATTTC
Found at i:3042999 original size:61 final size:61
Alignment explanation
Indices: 3042904--3043025 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
3042894 TAACTAACTT
*
3042904 AGAGATATATTTATGGTATCAAATCAACTTTAAATCTCTCATTTTTCATTCACCTCGTAAC
1 AGAGATATATTTATGGTATCAAATCAACTTTAAATCTCTCATTTTCCATTCACCTCGTAAC
3042965 AGAGATATATTTATGGTATCAAATCAACTTTAAATCTCTCATTTTCCATTCACCTCGTAAC
1 AGAGATATATTTATGGTATCAAATCAACTTTAAATCTCTCATTTTCCATTCACCTCGTAAC
3043026 TGATAGATGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (61 bp):
AGAGATATATTTATGGTATCAAATCAACTTTAAATCTCTCATTTTCCATTCACCTCGTAAC
Found at i:3047461 original size:21 final size:22
Alignment explanation
Indices: 3047421--3047462 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3047411 AAAAAGTTCT
3047421 GTTAGATGATACACCATCGATG
1 GTTAGATGATACACCATCGATG
*
3047443 GTTAGATGATA-ATCATCGAT
1 GTTAGATGATACACCATCGAT
3047463 TTAGATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (22 bp):
GTTAGATGATACACCATCGATG
Found at i:3047468 original size:19 final size:21
Alignment explanation
Indices: 3047420--3047468 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
3047410 TAAAAAGTTC
3047420 TGTTAGATGATACACCATCGA
1 TGTTAGATGATACACCATCGA
*
3047441 TGGTTAGATGATA-ATCATCGA
1 T-GTTAGATGATACACCATCGA
3047462 T-TTAGAT
1 TGTTAGAT
3047469 TTCAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (21 bp):
TGTTAGATGATACACCATCGA
Found at i:3051318 original size:161 final size:161
Alignment explanation
Indices: 3051007--3051322 Score: 381
Period size: 161 Copynumber: 2.0 Consensus size: 161
3050997 CAAATTAATA
* * * * **
3051007 GTTATTGTTTTGTTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTATCCAAAGTATT
1 GTTATTGTTCTATTTTAATAATTTGGATAACTTCAATACATGATATTAAACTTATCCAAAGTATT
* * * *
3051072 GAACTTAGTTTCTATGGTTGATATATATGAAAAAATTATTGTTTATATCTATTCATGACTTTTTG
66 GAACTTAGTTTCTACGATTGATATATATGAAAAAATTATCGTTTATATCTATTCAGGACTTTTTG
*
3051137 TGCTGTTAATAGGTAAAAATACAAAATTGTT
131 TGCTGTTAATAGGCAAAAATACAAAATTGTT
* *
3051168 GTTATTGTTCTATTTTAATAATTTGGATAACTTCAATACATGATATTAAACTTGTCCGAA-TGAT
1 GTTATTGTTCTATTTTAATAATTTGGATAACTTCAATACATGATATTAAACTTATCCAAAGT-AT
* * * **
3051232 TGAACTTGGTTTCTACGATTGATATGTGT-AAAAAAGTTATCGTTTACT-TCTATTTGGGACTAT
65 TGAACTTAGTTTCTACGATTGATATATATGAAAAAA-TTATCGTTTA-TATCTATTCAGGACT-T
*
3051295 TTT-TGCCTTTTAA-AGGCAAAAATACAAA
127 TTTGTG-CTGTTAATAGGCAAAAATACAAA
3051323 TTAAACTTTT
Statistics
Matches: 131, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
160 7 0.05
161 113 0.86
162 11 0.08
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (161 bp):
GTTATTGTTCTATTTTAATAATTTGGATAACTTCAATACATGATATTAAACTTATCCAAAGTATT
GAACTTAGTTTCTACGATTGATATATATGAAAAAATTATCGTTTATATCTATTCAGGACTTTTTG
TGCTGTTAATAGGCAAAAATACAAAATTGTT
Found at i:3053030 original size:19 final size:19
Alignment explanation
Indices: 3053008--3053056 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
3052998 CCAAGAATAT
3053008 TTAGCTTGGCCAAAAGAGA
1 TTAGCTTGGCCAAAAGAGA
* **
3053027 TTAGTTTGGTTAAAAGAGA
1 TTAGCTTGGCCAAAAGAGA
3053046 TTAGCTTGGCC
1 TTAGCTTGGCC
3053057 TAACAAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (19 bp):
TTAGCTTGGCCAAAAGAGA
Found at i:3058419 original size:30 final size:30
Alignment explanation
Indices: 3058378--3058445 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
3058368 TTAATTAAAA
* *
3058378 AATTTACTTATTAATGAAATGATATCATTT
1 AATTTATTTATTAATAAAATGATATCATTT
* *
3058408 GATTTATTTATTAATAAAATGATATTATTT
1 AATTTATTTATTAATAAAATGATATCATTT
3058438 AATTTATT
1 AATTTATT
3058446 ATCAATTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (30 bp):
AATTTATTTATTAATAAAATGATATCATTT
Found at i:3060657 original size:54 final size:54
Alignment explanation
Indices: 3060588--3060771 Score: 226
Period size: 54 Copynumber: 3.4 Consensus size: 54
3060578 GAACCTCCAA
* * *
3060588 AGAAACCAGAACCTAAGCCACCCAAGCCCCCTGTCTATGAACCTCCAAAGAAAG
1 AGAAGCCAGAACCTAAGCCACCTAAGCCCCCAGTCTATGAACCTCCAAAGAAAG
* * * * *
3060642 AGAAGCCAGAGCCTAAACCACCTAAGCCACCAGTCTATGAGCCTCCTAAG-AAG
1 AGAAGCCAGAACCTAAGCCACCTAAGCCCCCAGTCTATGAACCTCCAAAGAAAG
* * * **
3060695 AAGAAGCCAGAACCAAAGCCAGCTAAGCCCCCAGTTTATTCACCTCCAAAGAAAG
1 -AGAAGCCAGAACCTAAGCCACCTAAGCCCCCAGTCTATGAACCTCCAAAGAAAG
*
3060750 AGAAGCCAGAACCCAAGCCACC
1 AGAAGCCAGAACCTAAGCCACC
3060772 AGTCTATGAA
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.03
54 102 0.94
55 3 0.03
ACGTcount: A:0.39, C:0.34, G:0.17, T:0.11
Consensus pattern (54 bp):
AGAAGCCAGAACCTAAGCCACCTAAGCCCCCAGTCTATGAACCTCCAAAGAAAG
Found at i:3060782 original size:21 final size:21
Alignment explanation
Indices: 3060758--3060820 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 21
3060748 AGAGAAGCCA
3060758 GAACCCAAGCCACCAGTCTAT
1 GAACCCAAGCCACCAGTCTAT
3060779 GAACCTCCGAAGAAGCCACCAGTCTAT
1 GAA-C-CC----AAGCCACCAGTCTAT
*
3060806 GAACCTAAGCCACCA
1 GAACCCAAGCCACCA
3060821 AAGCCACCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
21 12 0.34
22 1 0.03
23 2 0.06
25 1 0.03
26 1 0.03
27 18 0.51
ACGTcount: A:0.35, C:0.37, G:0.16, T:0.13
Consensus pattern (21 bp):
GAACCCAAGCCACCAGTCTAT
Found at i:3060846 original size:102 final size:102
Alignment explanation
Indices: 3060704--3061515 Score: 1246
Period size: 102 Copynumber: 8.0 Consensus size: 102
3060694 GAAGAAGCCA
* * * * * * *
3060704 GAACCAAAGCCAGCTAAGCCCCCAGTTTATTCACCTCCAAAGAAAGAGAAGCCAGAACCCAAGCC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* * * *
3060769 ACCAGTCTATGAACCTCCGAAGAAGCCACCAGTCTAT
66 ACCAGTGTATGAACCTCCAAAGAAGCCACCAGTGTTT
*
3060806 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAAAGAAGCCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* * *
3060871 ACCAGTGTATGAACCTCCGAAGAAGCCACCAGTCTAT
66 ACCAGTGTATGAACCTCCAAAGAAGCCACCAGTGTTT
*
3060908 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAAAGAAGCCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
*
3060973 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCACCAGTGTTT
*
3061010 GAACCAAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* * *
3061075 GCCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCACCAGTGTTT
3061112 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* * *
3061177 GCCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCACCAGTGTTT
* *
3061214 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACACAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* *
3061279 ACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCACCAGTGTTT
* *
3061316 GAACCTAAACCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* * *
3061381 ACCAGTATATGAACCTCCAAAGAAGCCACCAGTATCT
66 ACCAGTGTATGAACCTCCAAAGAAGCCACCAGTGTTT
* * * * * *
3061418 GAACCTAAGCCACCAAAGCCGCCGGTTTATGTACCTCCAAAGAAAGAAAAGCCAGAACCCAAGCC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* * *
3061483 CCCAGTCTATGAACCTCCAAAGAAACCACCAGT
66 ACCAGTGTATGAACCTCCAAAGAAGCCACCAGT
3061516 ATATCAGTCA
Statistics
Matches: 669, Mismatches: 41, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 669 1.00
ACGTcount: A:0.38, C:0.32, G:0.17, T:0.13
Consensus pattern (102 bp):
GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
ACCAGTGTATGAACCTCCAAAGAAGCCACCAGTGTTT
Found at i:3060849 original size:57 final size:55
Alignment explanation
Indices: 3060764--3061053 Score: 137
Period size: 57 Copynumber: 5.5 Consensus size: 55
3060754 GCCAGAACCC
* * *
3060764 AAGCCACCAGTCTATGAACCTCCGAAGAAGCCACCAGTCTATGAACCTAAGCCACCA
1 AAGCCACCAGTTTATGAACCACCAAAGAAGCCACCAGT-TATGAACC-AAGCCACCA
* *
3060821 AAGCCACCAGTTTATGCACCACCAAAGAA---A--A---A-GAAGCC-AGAAC-CCA
1 AAGCCACCAGTTTATGAACCACCAAAGAAGCCACCAGTTATGAA-CCAAG-CCACCA
* * * *
3060867 AACCAC-C-AGTGTATGAACCTCCGAAGAAGCCACCAGTCTATGAACCTAAGCCACCA
1 AAGC-CACCAGTTTATGAACCACCAAAGAAGCCACCAGT-TATGAACC-AAGCCACCA
* *
3060923 AAGCCACCAGTTTATGCACCACCAAAGAA---A--A---A-GAAGCC-AGAAC-CCA
1 AAGCCACCAGTTTATGAACCACCAAAGAAGCCACCAGTTATGAA-CCAAG-CCACCA
* * * * *
3060969 AACCAC-C-AGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCAAAGCCACCA
1 AAGC-CACCAGTTTATGAACCACCAAAGAAGCCACCAGT-TATGAACC-AAGCCACCA
*
3061025 AAGCCACCAGTTTATGCACCACCAAAGAA
1 AAGCCACCAGTTTATGAACCACCAAAGAA
3061054 AGAGAAGCCA
Statistics
Matches: 169, Mismatches: 28, Indels: 72
0.63 0.10 0.27
Matches are distributed among these distances:
45 35 0.21
46 18 0.11
47 10 0.06
48 7 0.04
50 2 0.01
52 2 0.01
54 7 0.04
55 10 0.06
56 18 0.11
57 60 0.36
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (55 bp):
AAGCCACCAGTTTATGAACCACCAAAGAAGCCACCAGTTATGAACCAAGCCACCA
Found at i:3060873 original size:45 final size:46
Alignment explanation
Indices: 3060818--3060996 Score: 141
Period size: 45 Copynumber: 3.7 Consensus size: 46
3060808 ACCTAAGCCA
* *
3060818 CCAAAGCCACCAGTTTATGCACCACCAAAGAAAAAGAAGCCAGAAC
1 CCAAAGCCACCAGTGTATGAACCACCAAAGAAAAAGAAGCCAGAAC
* * *
3060864 CCAAA-CCACCAGTGTATGAACCTCCGAAGAAGCCACCAGTCTATGAA-CCTA-AGCC
1 CCAAAGCCACCAGTGTATGAACCACCAAAGAA---A--A----A-GAAGCC-AGA-AC
* *
3060919 ACCAAAGCCACCAGTTTATGCACCACCAAAGAAAAAGAAGCCAGAAC
1 -CCAAAGCCACCAGTGTATGAACCACCAAAGAAAAAGAAGCCAGAAC
*
3060966 CCAAA-CCACCAGTGTATGAACCTCCAAAGAA
1 CCAAAGCCACCAGTGTATGAACCACCAAAGAA
3060997 GCCTCCAGTG
Statistics
Matches: 104, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
45 45 0.43
46 10 0.10
47 5 0.05
48 5 0.05
50 1 0.01
52 1 0.01
54 5 0.05
55 5 0.05
56 5 0.05
57 22 0.21
ACGTcount: A:0.42, C:0.32, G:0.15, T:0.11
Consensus pattern (46 bp):
CCAAAGCCACCAGTGTATGAACCACCAAAGAAAAAGAAGCCAGAAC
Found at i:3061096 original size:45 final size:45
Alignment explanation
Indices: 3061037--3061200 Score: 107
Period size: 45 Copynumber: 3.4 Consensus size: 45
3061027 GCCACCAGTT
*
3061037 TATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCGCCGGTG
1 TATGAACCACCAAAGAAAGAGAAGCCAGAACCCAAACCGCCGGTG
* * * * * *
3061082 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA-CCTA-AGCCACCAAAGCCACCAGTT
1 TATGAACCACCAAAGAA------A--G--AGAAGCC-AGA-AC-CCAAA-CCGCCGGTG
*
3061139 TATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCGCCGGTG
1 TATGAACCACCAAAGAAAGAGAAGCCAGAACCCAAACCGCCGGTG
*
3061184 TATGAACCTCCAAAGAA
1 TATGAACCACCAAAGAA
3061201 GCCTCCAGTG
Statistics
Matches: 87, Mismatches: 16, Indels: 32
0.64 0.12 0.24
Matches are distributed among these distances:
45 36 0.41
46 5 0.06
47 5 0.06
48 3 0.03
49 1 0.01
51 2 0.02
53 1 0.01
54 3 0.03
55 5 0.06
56 5 0.06
57 21 0.24
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.12
Consensus pattern (45 bp):
TATGAACCACCAAAGAAAGAGAAGCCAGAACCCAAACCGCCGGTG
Found at i:3061154 original size:57 final size:57
Alignment explanation
Indices: 3061082--3061461 Score: 203
Period size: 57 Copynumber: 7.3 Consensus size: 57
3061072 ACCGCCGGTG
3061082 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
* * * * * * *
3061139 TATGCACCACCAAAGAA------A--G--AGAAGCC--AG-AACCCAAA-CCGCCGGTG
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA-CCTAAGCCA-CCAAAGCCACCAGTT
3061184 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
* * * * *
3061241 TATGCACCTCCAAAGAA------A--G--AGAAGCC--AG-AACACAAA-CCACCGGTG
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA-CCTAAGCCAC-CAAAGCCACCAGTT
*
3061286 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAACCACCAAAGCCACCAGTT
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
* * * * * *
3061343 TATGCACCACCAAAGAA------AGAG---AAACC--AG-AACCCAAA-CCACCAGTA
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCA-CCAAAGCCACCAGTT
* * * * *
3061388 TATGAACCTCCAAAGAAGCCACCAGTATCTGAACCTAAGCCACCAAAGCCGCCGGTT
1 TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
*
3061445 TATGTACCTCCAAAGAA
1 TATGAACCTCCAAAGAA
3061462 AGAAAAGCCA
Statistics
Matches: 235, Mismatches: 42, Indels: 92
0.64 0.11 0.25
Matches are distributed among these distances:
45 71 0.30
46 19 0.08
47 6 0.03
48 8 0.03
49 2 0.01
51 9 0.04
53 2 0.01
54 8 0.03
55 6 0.03
56 19 0.08
57 85 0.36
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.15
Consensus pattern (57 bp):
TATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACCAAAGCCACCAGTT
Found at i:3061281 original size:45 final size:45
Alignment explanation
Indices: 3061227--3061404 Score: 128
Period size: 45 Copynumber: 3.7 Consensus size: 45
3061217 CCTAAGCCAC
*
3061227 CAAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACA
1 CAAAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAA-CCAGAACA
* * *
3061273 CAAA-CCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTA-AACCA
1 CAAAGCCACCAGTTTATGAACCTCCAAAGAA------A--G--AGAACC-AGAA-CA
* * *
3061328 CCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACCAGAACC
1 -CAAAGCCACCAGTTTATGAACCTCCAAAGAAAGAG-AACCAGAACA
*
3061375 CAAA-CCACCAGTATATGAACCTCCAAAGAA
1 CAAAGCCACCAGTTTATGAACCTCCAAAGAA
3061405 GCCACCAGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
45 46 0.45
46 8 0.08
47 3 0.03
48 6 0.06
49 1 0.01
51 2 0.02
53 1 0.01
54 4 0.04
55 6 0.06
56 4 0.04
57 22 0.21
ACGTcount: A:0.42, C:0.30, G:0.15, T:0.13
Consensus pattern (45 bp):
CAAAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAACCAGAACA
Found at i:3069263 original size:24 final size:22
Alignment explanation
Indices: 3069204--3069263 Score: 57
Period size: 24 Copynumber: 2.6 Consensus size: 22
3069194 TTTTTTTTTT
* *
3069204 TGTGGGTTCTCTTATTTTTTTG
1 TGTGGGTTCTCTTATTTCTGTG
* *
3069226 CGTGGGTTTTTCTTCATTTCTGTG
1 TGTGGG-TTCTCTT-ATTTCTGTG
3069250 TGTGGGTTCCTCTT
1 TGTGGGTT-CTCTT
3069264 TTTTTTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 5 0.17
23 8 0.28
24 16 0.55
ACGTcount: A:0.03, C:0.15, G:0.25, T:0.57
Consensus pattern (22 bp):
TGTGGGTTCTCTTATTTCTGTG
Found at i:3070007 original size:97 final size:97
Alignment explanation
Indices: 3069758--3070056 Score: 363
Period size: 97 Copynumber: 3.1 Consensus size: 97
3069748 AATTAAAATC
* * * * *
3069758 ATCTTGGAAAAA-CTCCTCTAAGTAAAGACTTAACAACTTTAAAAATTTTATCTTGAAAAAGTAC
1 ATCTTAGAAAAAGCTCCTCTAAGTAGAGGCTCAACTACTTTAAAAATTTTATCTTGAAAAA--AC
* *
3069822 -CTCTAAGTAGAGGCTCTACAACTTTAAAAATTTT
64 TCTCTAAGTAGAGGCTCAATAACTTT-AAAATTTT
* *
3069856 ATCTTAGAAAAAGCTCCTCTAAGTAGAGGCTCAA-TAACTTTAAAAATCTCATCTTGAAAAAACT
1 ATCTTAGAAAAAGCTCCTCTAAGTAGAGGCTCAACT-ACTTTAAAAATTTTATCTTGAAAAAACT
*
3069920 CTTGTAAGTAGAGGCTCAATAACTTTAAAATTTT
65 C-TCTAAGTAGAGGCTCAATAACTTTAAAATTTT
*
3069954 ATCTT-GAAAAAGCTACTCTAAGTAGAGGCTCAACTACTTTAAAAATTTTATCTTGAAAAAACTC
1 ATCTTAGAAAAAGCTCCTCTAAGTAGAGGCTCAACTACTTTAAAAATTTTATCTTGAAAAAACT-
* ** * *
3070018 CTCTGAGTAGAGATTCAATGACTTCAAAATTTT
65 CTCTAAGTAGAGGCTCAATAACTTTAAAATTTT
3070051 CATCTT
1 -ATCTT
3070057 TTCTTGAAAT
Statistics
Matches: 175, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
97 81 0.46
98 32 0.18
99 62 0.35
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (97 bp):
ATCTTAGAAAAAGCTCCTCTAAGTAGAGGCTCAACTACTTTAAAAATTTTATCTTGAAAAAACTC
TCTAAGTAGAGGCTCAATAACTTTAAAATTTT
Found at i:3070056 original size:49 final size:49
Alignment explanation
Indices: 3069758--3070056 Score: 354
Period size: 49 Copynumber: 6.1 Consensus size: 49
3069748 AATTAAAATC
* * * * *
3069758 ATCTTGGAAAAACTCCTCTAAGTAAAGACTTAACAACTTTAAAAATTTT
1 ATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTTT
* * *
3069807 ATCTTG-AAAAAGTACCTCTAAGTAGAGGCTCTACAACTTTAAAAATTTT
1 ATCTTGAAAAAACT-CCTCTAAGTAGAGGCTCAATAACTTTAAAAATTTT
* * *
3069856 ATCTTAGAAAAAGCTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATCTC
1 ATCTT-GAAAAAACTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTTT
* *
3069906 ATCTTGAAAAAACTCTTGTAAGTAGAGGCTCAATAACTTT-AAAATTTT
1 ATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTTT
* *
3069954 ATCTTGAAAAAGCTACTCTAAGTAGAGGCTCAACT-ACTTTAAAAATTTT
1 ATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAA-TAACTTTAAAAATTTT
* ** * *
3070003 ATCTTGAAAAAACTCCTCTGAGTAGAGATTCAATGAC-TTCAAAATTTT
1 ATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTTT
3070051 CATCTT
1 -ATCTT
3070057 TTCTTGAAAT
Statistics
Matches: 217, Mismatches: 26, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
48 57 0.26
49 118 0.54
50 37 0.17
51 5 0.02
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (49 bp):
ATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTTT
Found at i:3073630 original size:4 final size:4
Alignment explanation
Indices: 3073621--3073663 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
3073611 TATACATGTG
* * *
3073621 TATA TATA TATA TATA TATA TATA TATT TATT TATA TTTA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TAT
3073664 GAAAATTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (4 bp):
TATA
Found at i:3073632 original size:6 final size:6
Alignment explanation
Indices: 3073621--3073663 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
3073611 TATACATGTG
* * *
3073621 TATATA TATATA TATATA TATATA TATTTA TTTATA TTTATA T
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA T
3073664 GAAAATTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (6 bp):
TATATA
Found at i:3073634 original size:10 final size:10
Alignment explanation
Indices: 3073621--3073663 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
3073611 TATACATGTG
3073621 TATATATATA
1 TATATATATA
3073631 TATATATATA
1 TATATATATA
*
3073641 TATATATTTA
1 TATATATATA
* *
3073651 TTTATATTTA
1 TATATATATA
3073661 TAT
1 TAT
3073664 GAAAATTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATATATATA
Found at i:3073915 original size:24 final size:23
Alignment explanation
Indices: 3073879--3073923 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
3073869 AATATCAAAT
3073879 ATTTTTTGTTTATAAAATTTGAGG
1 ATTTTTTGTTTAT-AAATTTGAGG
*
3073903 ATTTATTTG-TTATTAATTTGA
1 ATTT-TTTGTTTATAAATTTGA
3073924 TTGTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 8 0.42
25 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (23 bp):
ATTTTTTGTTTATAAATTTGAGG
Found at i:3074352 original size:25 final size:25
Alignment explanation
Indices: 3074321--3074372 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
3074311 TCTAACCTTC
3074321 TTAAAGAAATATCCTATTATCATCT
1 TTAAAGAAATATCCTATTATCATCT
**
3074346 TTAAAGATGTATCCTATTATCATCT
1 TTAAAGAAATATCCTATTATCATCT
3074371 TT
1 TT
3074373 TACTTGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (25 bp):
TTAAAGAAATATCCTATTATCATCT
Found at i:3077827 original size:21 final size:20
Alignment explanation
Indices: 3077797--3077835 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
3077787 AACTAAAATT
3077797 ATTTTTTTATTTTTTCTATC
1 ATTTTTTTATTTTTTCTATC
3077817 ATTTTATTTATTTTTTCTA
1 ATTTT-TTTATTTTTTCTA
3077836 ACAATAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTTTATTTTTTCTATC
Found at i:3078715 original size:18 final size:16
Alignment explanation
Indices: 3078692--3078734 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3078682 ATTAATTAAT
*
3078692 TATTTATATATATTTATG
1 TATTTATATA-ATTT-TA
*
3078710 TATTTATTTAATTTTA
1 TATTTATATAATTTTA
3078726 TATTTATAT
1 TATTTATAT
3078735 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTTATATAATTTTA
Found at i:3078758 original size:19 final size:20
Alignment explanation
Indices: 3078728--3078771 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
3078718 TAATTTTATA
3078728 TTTATATTT-AAAA-AATAT
1 TTTATATTTAAAAATAATAT
3078746 TTTATATTTTAAAAATAATAT
1 TTTATA-TTTAAAAATAATAT
3078767 TTTAT
1 TTTAT
3078772 TAATTTTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.26
19 3 0.13
20 4 0.17
21 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:3078772 original size:19 final size:19
Alignment explanation
Indices: 3078724--3078772 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
3078714 TATTTAATTT
3078724 TATATTTATATTTAAAAAA
1 TATATTTATATTTAAAAAA
*
3078743 TAT-TTTATATTTTAAAAA
1 TATATTTATATTTAAAAAA
3078761 TAATATTT-TATT
1 T-ATATTTATATT
3078773 AATTTTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 15 0.56
19 9 0.33
20 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTATATTTAAAAAA
Found at i:3079408 original size:24 final size:25
Alignment explanation
Indices: 3079341--3079408 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
3079331 TATATATGAT
* *
3079341 ATTTATTACATTAATAAATAATTAAA
1 ATTTATT-TATTAATTAATAATTAAA
*
3079367 ATTTATTTATT-GTATAATAA-TAAA
1 ATTTATTTATTAAT-TAATAATTAAA
*
3079391 TTTTATTTATTAATTAAT
1 ATTTATTTATTAATTAAT
3079409 TTATTATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 19 0.54
25 9 0.26
26 7 0.20
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (25 bp):
ATTTATTTATTAATTAATAATTAAA
Found at i:3079409 original size:17 final size:17
Alignment explanation
Indices: 3079371--3079431 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
3079361 ATTAAAATTT
3079371 ATTTATTGTATAATAATAA
1 ATTTATT-TAT-ATAATAA
*
3079390 ATTTTATTTAT-TAATTA
1 A-TTTATTTATATAATAA
3079407 ATTTA-TTATATAATAAA
1 ATTTATTTATATAAT-AA
3079424 ATTTATTT
1 ATTTATTT
3079432 TTTTATATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 4 0.11
16 8 0.22
17 12 0.33
18 2 0.06
19 4 0.11
20 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTATTTATATAATAA
Found at i:3080241 original size:165 final size:163
Alignment explanation
Indices: 3079985--3080312 Score: 464
Period size: 162 Copynumber: 2.0 Consensus size: 163
3079975 TTAATCATAT
* * *
3079985 TTGATGTGTCATTGATTTAGATGACAATTCTTTTTTTATAAAAATGAAAGAGTTTGATTTAATAC
1 TTGATGTGTCATTGATTTAGATGACAATTCGTTTTATATAAAAATCAAAGAGTTTGATTTAATAC
*
3080050 ATGATTTTTCATAAGAATATTAAAAAAAAAAAAAAAAACCCATCTTATAATGAAGATCCTCTTGT
66 ATGATTTTTCATAAGAATATT---AAAAAAAAAAAAAACCCACCTTATAATGAAGAT-CTCTTGT
* * * * *
3080115 TGGAAGAAGATTGAAGA-TCCAAAATTCTAAGAGAAA
127 TAGAAGAAGAATGAAAATTCCAAAATTCAAAAAGAAA
* *
3080151 TTGATGTGTCATTGATTTGGATGACAATTCGTTTTATA-AAAAATCAAAGA-TTGTGATTTAATT
1 TTGATGTGTCATTGATTTAGATGACAATTCGTTTTATATAAAAATCAAAGAGTT-TGATTTAATA
* * *
3080214 CATGATTTTTCTTAAGAATATTAAAAAAAAAAAAACCCCACCTTATAATGAAGATTTCTTGTTAG
65 CATGATTTTTCATAAGAATATTAAAAAAAAAAAAAACCCACCTTATAATGAAGATCTCTTGTTAG
3080279 AAGAAGAATGAAAATTCCAAAATTCAAAAAGAAA
130 AAGAAGAATGAAAATTCCAAAATTCAAAAAGAAA
3080313 ATACCCCATA
Statistics
Matches: 146, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
161 20 0.14
162 48 0.33
164 2 0.01
165 41 0.28
166 35 0.24
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (163 bp):
TTGATGTGTCATTGATTTAGATGACAATTCGTTTTATATAAAAATCAAAGAGTTTGATTTAATAC
ATGATTTTTCATAAGAATATTAAAAAAAAAAAAAACCCACCTTATAATGAAGATCTCTTGTTAGA
AGAAGAATGAAAATTCCAAAATTCAAAAAGAAA
Found at i:3080691 original size:29 final size:30
Alignment explanation
Indices: 3080648--3080708 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
3080638 ATCTTCTTCT
3080648 AAGTTATAACCCAAAAATAATTAAAAA-AA
1 AAGTTATAACCCAAAAATAATTAAAAATAA
*
3080677 AAGTTATAACTCAAAAATAATTAAAAATAA
1 AAGTTATAACCCAAAAATAATTAAAAATAA
3080707 AA
1 AA
3080709 AGAAAACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.23
Consensus pattern (30 bp):
AAGTTATAACCCAAAAATAATTAAAAATAA
Found at i:3080716 original size:29 final size:28
Alignment explanation
Indices: 3080659--3080716 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
3080649 AGTTATAACC
*
3080659 CAAAAATAATTAAAAAAAAAGTTATAACT
1 CAAAAATAATTAAAAAAAAAG-TAAAACT
3080688 CAAAAATAATTAAAAATAAAAAG-AAAACT
1 CAAAAATAATT-AAAA-AAAAAGTAAAACT
3080717 TTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 16 0.62
30 4 0.15
31 6 0.23
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (28 bp):
CAAAAATAATTAAAAAAAAAGTAAAACT
Found at i:3085519 original size:52 final size:50
Alignment explanation
Indices: 3085444--3085588 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 50
3085434 AAACTTGTCC
* *
3085444 ATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
1 ATTAAGAAT--CTTTCCTTTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
3085496 ATTAAGAATCAATTTCCTTTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
1 ATTAAGAATC--TTTCCTTTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
** *
3085548 ATTAAGAATTCTTTTTTTCTTAGAATTCTTCTTTTGCAAGT
1 ATTAAGAA-TCTTTCCTT-TTAGAATTCTTCTCTTGCAAGT
3085589 TTTCTTGTCT
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
50 1 0.01
51 5 0.06
52 76 0.90
53 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (50 bp):
ATTAAGAATCTTTCCTTTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
Found at i:3085839 original size:18 final size:19
Alignment explanation
Indices: 3085804--3085840 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3085794 ATCTTCAAAA
3085804 CTTGAATTCGAACTCTTCT
1 CTTGAATTCGAACTCTTCT
*
3085823 CTTGAATT-GAGCTCTTCT
1 CTTGAATTCGAACTCTTCT
3085841 AAGCGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (19 bp):
CTTGAATTCGAACTCTTCT
Found at i:3085924 original size:49 final size:50
Alignment explanation
Indices: 3085870--3085974 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 50
3085860 TCTTAAATCA
*
3085870 AGCTCTTCCCACATCTTAAACCTTTAACT-TTTCCACGTCTCAAACCTTC
1 AGCTCTTCCCACATCTTAAACCTTCAACTCTTTCCACGTCTCAAACCTTC
* ** * * * * *
3085919 GGCTCTTTTCACATCTTGAATCTTCAACTCTTTTCACGTTTCGAACCTTC
1 AGCTCTTCCCACATCTTAAACCTTCAACTCTTTCCACGTCTCAAACCTTC
3085969 AGCTCT
1 AGCTCT
3085975 GATACCACTT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
49 23 0.51
50 22 0.49
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (50 bp):
AGCTCTTCCCACATCTTAAACCTTCAACTCTTTCCACGTCTCAAACCTTC
Found at i:3085968 original size:25 final size:25
Alignment explanation
Indices: 3085888--3085974 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
3085878 CCACATCTTA
* * * *
3085888 AACCTTTAACT-TTTCCACGTCTCA
1 AACCTTCAACTCTTTTCACGTTTCG
** *
3085912 AACCTTCGGCTCTTTTCACATCTT-G
1 AACCTTCAACTCTTTTCACGT-TTCG
*
3085937 AATCTTCAACTCTTTTCACGTTTCG
1 AACCTTCAACTCTTTTCACGTTTCG
*
3085962 AACCTTCAGCTCT
1 AACCTTCAACTCT
3085975 GATACCACTT
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
24 10 0.21
25 36 0.77
26 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.08, T:0.39
Consensus pattern (25 bp):
AACCTTCAACTCTTTTCACGTTTCG
Found at i:3086609 original size:52 final size:52
Alignment explanation
Indices: 3086531--3086661 Score: 174
Period size: 52 Copynumber: 2.5 Consensus size: 52
3086521 AATCCCTCTC
* * **
3086531 TCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTGTCTATTAAAAAT-CTATTT
1 TCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCTATTAAAAATCCT-TTT
* *
3086583 TCTTTTAGAATTCTTCTCTTGCAAGTCAAACTTACCTATTAAGAATCCTTTT
1 TCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCTATTAAAAATCCTTTT
* *
3086635 TCTCTTGGAATTCTTCTTTTGCAAGTC
1 TCTCTTAGAATTCTTCTCTTGCAAGTC
3086662 TTCTTGTCCA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 67 0.97
53 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (52 bp):
TCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCTATTAAAAATCCTTTT
Found at i:3086702 original size:11 final size:11
Alignment explanation
Indices: 3086686--3086725 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
3086676 GCAATATCTG
3086686 ACAAATCCCAA
1 ACAAATCCCAA
* *
3086697 ACAAATCTCTA
1 ACAAATCCCAA
3086708 ACAAATCCCAA
1 ACAAATCCCAA
3086719 ACAAATC
1 ACAAATC
3086726 TCTTATGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.15
Consensus pattern (11 bp):
ACAAATCCCAA
Found at i:3086711 original size:22 final size:22
Alignment explanation
Indices: 3086686--3086728 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3086676 GCAATATCTG
3086686 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
3086708 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
3086729 TATGGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.19
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:3087065 original size:29 final size:31
Alignment explanation
Indices: 3087033--3087091 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
3087023 TAATGATATG
3087033 ATTTGGATAAAAAAATA-ATAT-AATTTAAA
1 ATTTGGATAAAAAAATATATATAAATTTAAA
** *
3087062 ATTTTTATAAAAAATTATATATAAATTTAA
1 ATTTGGATAAAAAAATATATATAAATTTAA
3087092 TAAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.56
30 4 0.16
31 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
ATTTGGATAAAAAAATATATATAAATTTAAA
Found at i:3091213 original size:13 final size:13
Alignment explanation
Indices: 3091195--3091219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3091185 CTTATATCTA
3091195 TAAATTTAATATG
1 TAAATTTAATATG
3091208 TAAATTTAATAT
1 TAAATTTAATAT
3091220 TTTTATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TAAATTTAATATG
Found at i:3091937 original size:18 final size:20
Alignment explanation
Indices: 3091906--3091945 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
3091896 GGAGTTACGA
3091906 TTTATATGTGAGTAAAAAAT
1 TTTATATGTGAGTAAAAAAT
*
3091926 TTTATAT-T-AGTAAGAAAT
1 TTTATATGTGAGTAAAAAAT
3091944 TT
1 TT
3091946 GAATGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 1 0.05
20 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTATATGTGAGTAAAAAAT
Found at i:3092664 original size:2 final size:2
Alignment explanation
Indices: 3092657--3092682 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3092647 CAGGAAGACA
3092657 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3092683 GAAAATTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3095112 original size:25 final size:26
Alignment explanation
Indices: 3095070--3095123 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
3095060 TCTAATTAAT
**
3095070 TTAAATTTATAAGGCTATT-TTTATA
1 TTAAATTTATAAAACTATTATTTATA
3095095 TTAAATTTATAAAACTATTGATTTATA
1 TTAAATTTATAAAACTATT-ATTTATA
3095122 TT
1 TT
3095124 TAGACTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 17 0.68
27 8 0.32
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (26 bp):
TTAAATTTATAAAACTATTATTTATA
Found at i:3096107 original size:37 final size:38
Alignment explanation
Indices: 3096047--3096142 Score: 92
Period size: 37 Copynumber: 2.6 Consensus size: 38
3096037 AAAAACTCAT
* * **
3096047 TAGAGGCAATAAAACTTAAAAAAAAAAAATCA-CTAAC
1 TAGAGGCAATGAGACTTTTAAAAAAAAAATCATCTAAC
* *
3096084 TAGAGGCAATGAGACTTTT--AAAAAAACTCATTTAAC
1 TAGAGGCAATGAGACTTTTAAAAAAAAAATCATCTAAC
* *
3096120 CAAAGGCAATGAGAC-TTTAAAAA
1 TAGAGGCAATGAGACTTTTAAAAA
3096143 CTCCTTTAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
35 13 0.27
36 17 0.35
37 18 0.38
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.21
Consensus pattern (38 bp):
TAGAGGCAATGAGACTTTTAAAAAAAAAATCATCTAAC
Found at i:3096151 original size:33 final size:33
Alignment explanation
Indices: 3096087--3096226 Score: 118
Period size: 33 Copynumber: 4.1 Consensus size: 33
3096077 CACTAACTAG
* *
3096087 AGGCAATGAGACTTTTAAAAAAACTCATTTAACCAA
1 AGGCAATAAGAC-TTT--AAAAACTCCTTTAACCAA
* *
3096123 AGGCAATGAGACTTTAAAAACTCCTTTAACTAA
1 AGGCAATAAGACTTTAAAAACTCCTTTAACCAA
* * * ** ** *
3096156 AGGCTATAAGAGTTGAAACGCTTTTTTAACCAC
1 AGGCAATAAGACTTTAAAAACTCCTTTAACCAA
* *
3096189 AGGCAATAAGACTTAAAAAAACTCCTTTAACTAA
1 AGGCAATAAGACTT-TAAAAACTCCTTTAACCAA
3096223 AGGC
1 AGGC
3096227 TCAACAATTT
Statistics
Matches: 82, Mismatches: 21, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
33 51 0.62
34 16 0.20
35 3 0.04
36 12 0.15
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.26
Consensus pattern (33 bp):
AGGCAATAAGACTTTAAAAACTCCTTTAACCAA
Found at i:3099294 original size:158 final size:158
Alignment explanation
Indices: 3099005--3099314 Score: 440
Period size: 158 Copynumber: 2.0 Consensus size: 158
3098995 CAAAAGTCTT
* * * * * *
3099005 AAAACACATAAATCTTAATATTTTCACACATTAAGCATGACAGTCAAGTTCAATCATTCAAACAA
1 AAAACACATAAACCATAACATTTTCACACATCAAGCATGACAGCCAAGTTCAACCATTCAAACAA
* * * * *
3099070 ATTTAATATCATGTATTCAAGCTATCTAAGCTGTTAGAATAGAAATATAGTAGTAAATTTACATT
66 ATTTAATATCATGTATTCAACCTATCTAAGCTGTTAAAACAGAAATATAGCAGCAAATTTACATT
3099135 TTTACCCTTTGATGGCACAAAATATCAA
131 TTTACCCTTTGATGGCACAAAATATCAA
* * **
3099163 AAAACACATAAACCATAACATTTTCACATATCAAGCATGGCAGCCAAGTTCAACCATTTGAACAA
1 AAAACACATAAACCATAACATTTTCACACATCAAGCATGACAGCCAAGTTCAACCATTCAAACAA
* * * *
3099228 GTTTAATATCATGTATTCAACCTATCTAAGTTGTTAAAACATAAATATAGCAGCAAATTTATATT
66 ATTTAATATCATGTATTCAACCTATCTAAGCTGTTAAAACAGAAATATAGCAGCAAATTTACATT
*
3099293 TTTGCCCTTTGATGGCACAAAA
131 TTTACCCTTTGATGGCACAAAA
3099315 AGTCCTAAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
158 132 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (158 bp):
AAAACACATAAACCATAACATTTTCACACATCAAGCATGACAGCCAAGTTCAACCATTCAAACAA
ATTTAATATCATGTATTCAACCTATCTAAGCTGTTAAAACAGAAATATAGCAGCAAATTTACATT
TTTACCCTTTGATGGCACAAAATATCAA
Found at i:3100454 original size:21 final size:22
Alignment explanation
Indices: 3100404--3100454 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
3100394 AAGTATGTTT
3100404 ATTT-TTTA-ATATAAATTATA
1 ATTTATTTATATATAAATTATA
* *
3100424 ACTTAATTATATATAAA-TATA
1 ATTTATTTATATATAAATTATA
3100445 ATTTATTTAT
1 ATTTATTTAT
3100455 TAAATCAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 15 0.60
22 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTATTTATATATAAATTATA
Found at i:3101155 original size:12 final size:12
Alignment explanation
Indices: 3101138--3101162 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3101128 AAAGAAAATG
3101138 AAAAAAAAGAAA
1 AAAAAAAAGAAA
3101150 AAAAAAAAGAAA
1 AAAAAAAAGAAA
3101162 A
1 A
3101163 GAGGAAGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:3108031 original size:19 final size:19
Alignment explanation
Indices: 3107943--3108046 Score: 69
Period size: 18 Copynumber: 5.6 Consensus size: 19
3107933 ATAAAGTGAA
3107943 AAAAAAATG-AAAAAT--G
1 AAAAAAATGAAAAAATGAG
* *
3107959 -AAAAAGTGAAAAAGTGA-
1 AAAAAAATGAAAAAATGAG
*
3107976 AAAAAAATGAAAGTGAAA-AAG
1 AAAAAAATGAAA---AAATGAG
* *
3107997 TAAAAAAATG-ATAAATGTG
1 -AAAAAAATGAAAAAATGAG
3108016 AAAAAAATGAAAAAATGAG
1 AAAAAAATGAAAAAATGAG
*
3108035 AAAAATATGAAA
1 AAAAAAATGAAA
3108047 TGAGAGAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
15 7 0.11
16 5 0.08
18 22 0.33
19 19 0.29
20 1 0.02
21 3 0.05
22 9 0.14
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (19 bp):
AAAAAAATGAAAAAATGAG
Found at i:3108040 original size:9 final size:8
Alignment explanation
Indices: 3107944--3108040 Score: 65
Period size: 8 Copynumber: 11.9 Consensus size: 8
3107934 TAAAGTGAAA
3107944 AAAAAATG
1 AAAAAATG
3107952 -AAAAATG
1 AAAAAATG
*
3107959 AAAAAGTG
1 AAAAAATG
*
3107967 AAAAAGTG
1 AAAAAATG
3107975 AAAAAA--
1 AAAAAATG
*
3107981 AATGAAAGTG
1 AA--AAAATG
* *
3107991 AAAAAGTA
1 AAAAAATG
3107999 AAAAAATG
1 AAAAAATG
**
3108007 ATAAATGTG
1 A-AAAAATG
3108016 AAAAAAATG
1 -AAAAAATG
3108025 AAAAAATG
1 AAAAAATG
3108033 AGAAAAAT
1 A-AAAAAT
3108041 ATGAAATGAG
Statistics
Matches: 71, Mismatches: 10, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
6 2 0.03
7 7 0.10
8 43 0.61
9 16 0.23
10 3 0.04
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (8 bp):
AAAAAATG
Found at i:3109038 original size:23 final size:23
Alignment explanation
Indices: 3108994--3109039 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3108984 ATTTTGAATT
* *
3108994 TGATGAAAAATTGAGAATTTTTG
1 TGATAAAAAATTGAGAACTTTTG
**
3109017 TGATAAAAAATTTTGAACTTTTG
1 TGATAAAAAATTGAGAACTTTTG
3109040 GAGGAAATAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (23 bp):
TGATAAAAAATTGAGAACTTTTG
Found at i:3109183 original size:20 final size:21
Alignment explanation
Indices: 3109160--3109230 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
3109150 GTTAATATTT
3109160 AATTTTTAAGTTTTAAATAA-
1 AATTTTTAAGTTTTAAATAAG
*
3109180 AATTTTTTTAGTTTTAAATAAG
1 AA-TTTTTAAGTTTTAAATAAG
* *
3109202 AATCTTTAAGAAGTTTTAAATGAG
1 AAT-TTT--TAAGTTTTAAATAAG
3109226 AATTT
1 AATTT
3109231 CTGAGTTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.05
21 18 0.43
22 5 0.12
23 2 0.05
24 15 0.36
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.48
Consensus pattern (21 bp):
AATTTTTAAGTTTTAAATAAG
Found at i:3109238 original size:45 final size:45
Alignment explanation
Indices: 3109167--3109253 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 45
3109157 TTTAATTTTT
* * *
3109167 AAGTTTTAAATAAAATTTTTTTAGTTTTAAAT-AAGAATCTTTAAG
1 AAGTTTTAAATAAAATTTTCTGAGTTTCAAATGAA-AATCTTTAAG
*
3109212 AAGTTTTAAATGAGAA-TTTCTGAGTTTCAAATGAAAATCTTT
1 AAGTTTTAAAT-AAAATTTTCTGAGTTTCAAATGAAAATCTTT
3109254 GAATGAGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 31 0.86
46 5 0.14
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (45 bp):
AAGTTTTAAATAAAATTTTCTGAGTTTCAAATGAAAATCTTTAAG
Found at i:3109391 original size:23 final size:21
Alignment explanation
Indices: 3109360--3109424 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
3109350 GTGAATCACC
3109360 AAAAGTTTTCGAATGAGAAGCTTT
1 AAAA-TTTT-GAATGAGAA-CTTT
* *
3109384 AAAATTTTGGATGTGAACTCTT
1 AAAATTTTGAATGAGAACT-TT
*
3109406 AAATTTTTTGAATGAGAAC
1 AAA-ATTTTGAATGAGAAC
3109425 CTTTGAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 2 0.06
22 12 0.35
23 16 0.47
24 4 0.12
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (21 bp):
AAAATTTTGAATGAGAACTTT
Found at i:3109492 original size:20 final size:21
Alignment explanation
Indices: 3109459--3109499 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3109449 AAAATTTATC
* *
3109459 GAATATGAATCTTTGA-ATTT
1 GAATAAGAAGCTTTGAGATTT
3109479 GAATAAGAAGCTTTGAGATTT
1 GAATAAGAAGCTTTGAGATTT
3109500 TGCATAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (21 bp):
GAATAAGAAGCTTTGAGATTT
Found at i:3109775 original size:16 final size:16
Alignment explanation
Indices: 3109732--3109778 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
3109722 TTAAAATTTG
3109732 TGAATCTAAGTTCTTA
1 TGAATCTAAGTTCTTA
* * * *
3109748 CGTATTTGAGTTCTTA
1 TGAATCTAAGTTCTTA
3109764 TGAATCTAAGTTCTT
1 TGAATCTAAGTTCTT
3109779 GCAAATCTTA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (16 bp):
TGAATCTAAGTTCTTA
Found at i:3109828 original size:18 final size:18
Alignment explanation
Indices: 3109774--3109855 Score: 73
Period size: 18 Copynumber: 4.7 Consensus size: 18
3109764 TGAATCTAAG
* *
3109774 TTCTTGCAAATCTTAAAA
1 TTCTTGCGAATCTGAAAA
* *
3109792 -TCTTGGGAATTTG--AA
1 TTCTTGCGAATCTGAAAA
*
3109807 TTCTTGC-AATTTTGAAAA
1 TTCTTGCGAA-TCTGAAAA
3109825 TTCTTGCGAATCTGAAAA
1 TTCTTGCGAATCTGAAAA
*
3109843 TTTTTGCGAATCT
1 TTCTTGCGAATCT
3109856 TTAATCCTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
15 4 0.08
16 9 0.17
17 9 0.17
18 28 0.54
19 2 0.04
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (18 bp):
TTCTTGCGAATCTGAAAA
Found at i:3109903 original size:48 final size:49
Alignment explanation
Indices: 3109840--3109996 Score: 167
Period size: 49 Copynumber: 3.2 Consensus size: 49
3109830 GCGAATCTGA
* **
3109840 AAATTTTTGCGAATCT-TTAATCCTTGCAAAATAGAAATTTTGAGAATC
1 AAATTCTTGCGAATCTAAAAATCCTTGCAAAATAGAAATTTTGAGAATC
* * *
3109888 AAATTCTTGCTAATCTAAAAATTCTTGC-AAATATGAAATTTTGTGAATC
1 AAATTCTTGCGAATCTAAAAATCCTTGCAAAATA-GAAATTTTGAGAATC
* * * * *
3109937 AAATTTTTACGAATCTAAAAATCCTTGCAAACCT-GAAATCCTTGATAATC
1 AAATTCTTGCGAATCTAAAAATCCTTGCAAA-ATAGAAAT-TTTGAGAATC
3109987 AAATTCTTGC
1 AAATTCTTGC
3109997 AAGCCCGAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
48 19 0.22
49 51 0.58
50 17 0.19
51 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (49 bp):
AAATTCTTGCGAATCTAAAAATCCTTGCAAAATAGAAATTTTGAGAATC
Found at i:3109928 original size:49 final size:48
Alignment explanation
Indices: 3109858--3110064 Score: 186
Period size: 49 Copynumber: 4.3 Consensus size: 48
3109848 GCGAATCTTT
3109858 AATCCTTGCAAA-ATAGAAATTTTGAGAATCAAATTCTTGCTAATCTAAA
1 AATCCTTGCAAATAT-GAAATTTTGAGAATCAAATTCTTGC-AATCTAAA
* * * *
3109907 AATTCTTGCAAATATGAAATTTTGTGAATCAAATTTTTACGAATCTAAA
1 AATCCTTGCAAATATGAAATTTTGAGAATCAAATTCTTGC-AATCTAAA
** * * * ***
3109956 AATCCTTGCAAACCTGAAATCCTTGATAATCAAATTCTTGCAAGCCCGA
1 AATCCTTGCAAATATGAAAT-TTTGAGAATCAAATTCTTGCAATCTAAA
* * * * *
3110005 AATCCTTACGAATATGAAATATTGCA-AATCAAATTCTTGCAAACT-GA
1 AATCCTTGCAAATATGAAATTTTG-AGAATCAAATTCTTGCAATCTAAA
*
3110052 AATCCTTTCAAAT
1 AATCCTTGCAAAT
3110065 CTCTGAATTA
Statistics
Matches: 129, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
47 13 0.10
48 20 0.16
49 79 0.61
50 17 0.13
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (48 bp):
AATCCTTGCAAATATGAAATTTTGAGAATCAAATTCTTGCAATCTAAA
Found at i:3110238 original size:18 final size:18
Alignment explanation
Indices: 3110174--3110231 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
3110164 TCTCTCAAAC
*
3110174 GTGAAATTG-AAATTCTT
1 GTGAAACTGAAAATTCTT
* * *
3110191 GTCAATCTAAAAATTCTT
1 GTGAAACTGAAAATTCTT
*
3110209 GCGAAACTGAAAATTCTT
1 GTGAAACTGAAAATTCTT
3110227 GTGAA
1 GTGAA
3110232 TTTGAAAGCT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (18 bp):
GTGAAACTGAAAATTCTT
Found at i:3110270 original size:17 final size:18
Alignment explanation
Indices: 3110225--3110270 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
3110215 CTGAAAATTC
*
3110225 TTGTGAAT-TTGAAAGCT
1 TTGTGAATCTTTAAAGCT
*
3110242 TTGTGAACCTTTAAA-CT
1 TTGTGAATCTTTAAAGCT
3110259 TTGTGAATCTTT
1 TTGTGAATCTTT
3110271 GAATTGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (18 bp):
TTGTGAATCTTTAAAGCT
Found at i:3111444 original size:14 final size:14
Alignment explanation
Indices: 3111398--3111435 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
3111388 CTTGATGGAC
* *
3111398 AAGAAGACTTGCAA
1 AAGAAGAATTACAA
3111412 AAGAAGAATTACAA
1 AAGAAGAATTACAA
3111426 AAGAAGAATT
1 AAGAAGAATT
3111436 CTAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.58, C:0.08, G:0.18, T:0.16
Consensus pattern (14 bp):
AAGAAGAATTACAA
Found at i:3111506 original size:52 final size:51
Alignment explanation
Indices: 3111427--3111573 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 51
3111417 GAATTACAAA
** *
3111427 AGAAGAATTCTAAGA-GAAAGAGAATTCTTAATAGATAAGTTTAACTTGCAGG
1 AGAAGAATTCTAAGAGGAAAG-G-ATTCTTAATAGGCAAGTTTAACTTGCAAG
* * *
3111479 AGAAGAATTTTAAGAGGAAATGGATTCTTAATAGGCAAGGTTGACTTGCAAG
1 AGAAGAATTCTAAGAGGAAA-GGATTCTTAATAGGCAAGTTTAACTTGCAAG
*
3111531 AGAAGAATTCTAAGAGGAAAGGGATTTTTAATAGGCAAGTTTA
1 AGAAGAATTCTAAGAGGAAA-GGATTCTTAATAGGCAAGTTTA
3111574 TATGGTTATA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 76 0.93
53 5 0.06
54 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (51 bp):
AGAAGAATTCTAAGAGGAAAGGATTCTTAATAGGCAAGTTTAACTTGCAAG
Found at i:3113477 original size:34 final size:35
Alignment explanation
Indices: 3113425--3113494 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
3113415 TCATATCTAC
*
3113425 CATATATGGGACCGATGGATATCA-TTGTTGGCTG
1 CATAGATGGGACCGATGGATATCATTTGTTGGCTG
*
3113459 CATAGATGTGACCGATGGATATCATTTGTTGGCTG
1 CATAGATGGGACCGATGGATATCATTTGTTGGCTG
3113494 C
1 C
3113495 GTATTAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (35 bp):
CATAGATGGGACCGATGGATATCATTTGTTGGCTG
Found at i:3119460 original size:39 final size:39
Alignment explanation
Indices: 3119416--3119494 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
3119406 CTGTATGATT
3119416 CATATTTCATGCATTCATCCAAAGGCTATATAACAAGTA
1 CATATTTCATGCATTCATCCAAAGGCTATATAACAAGTA
3119455 CATATTTCATGCATTCATCCAAAGGCTATATAACAAGTA
1 CATATTTCATGCATTCATCCAAAGGCTATATAACAAGTA
3119494 C
1 C
3119495 CTAAAACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (39 bp):
CATATTTCATGCATTCATCCAAAGGCTATATAACAAGTA
Found at i:3120709 original size:3 final size:3
Alignment explanation
Indices: 3120701--3120736 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
3120691 AGTTGCAGAT
3120701 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
3120737 CCCATGGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Done.