Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 99 of 189
Found at i:27720642 original size:27 final size:26
Alignment explanation
Indices: 27720561--27720642 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 26
27720551 GGACAATTCA
27720561 CACATAGAACTTTACATAATCAGTATG
1 CACATAG-ACTTTACATAATCAGTATG
* *
27720588 CACAT--ACTTTGCATAGA-CAGT-TCA
1 CACATAGACTTTACATA-ATCAGTAT-G
*
27720612 CACATAGGACTTTACATAATCAATATG
1 CACATA-GACTTTACATAATCAGTATG
27720639 CACA
1 CACA
27720643 CACTTTGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
23 1 0.02
24 18 0.42
25 1 0.02
26 1 0.02
27 21 0.49
28 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (26 bp):
CACATAGACTTTACATAATCAGTATG
Found at i:27721782 original size:16 final size:16
Alignment explanation
Indices: 27721761--27721812 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
27721751 TTTGGTTCGC
27721761 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27721777 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
27721793 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
27721809 TGTA
1 TGTA
27721813 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27721859 original size:45 final size:44
Alignment explanation
Indices: 27721793--27721887 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
27721783 GGATTAGAGG
* *
27721793 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTATTTGGTTGAA
* ** *
27721838 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTATTTGGTTGAA
27721882 TGTAAT
1 TGTAAT
27721888 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTATTTGGTTGAA
Found at i:27722070 original size:18 final size:17
Alignment explanation
Indices: 27722049--27722083 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27722039 TTATTATTTA
*
27722049 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27722067 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27722084 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27722077 original size:28 final size:27
Alignment explanation
Indices: 27722007--27722079 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
27721997 TTTATTATCA
*
27722007 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
27722035 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
27722062 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
27722080 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:27722217 original size:18 final size:17
Alignment explanation
Indices: 27722196--27722230 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27722186 TTATTATTAA
*
27722196 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27722214 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27722231 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27722242 original size:147 final size:148
Alignment explanation
Indices: 27721974--27722242 Score: 504
Period size: 147 Copynumber: 1.8 Consensus size: 148
27721964 ATTGTTATCG
*
27721974 TTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAAACATAA
1 TTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAAACATAA
*
27722039 TTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGTAGAAAT
66 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGTAGAAAT
27722104 TTGTTTTGGTAAATTATT
131 TTGTTTTGGTAAATTATT
*
27722122 TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAAACATAA
1 TTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAAACATAA
27722186 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
27722243 ATATTCTTAT
Statistics
Matches: 118, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
147 95 0.81
148 23 0.19
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (148 bp):
TTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAAACATAA
TTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGTAGAAAT
TTGTTTTGGTAAATTATT
Found at i:27722274 original size:54 final size:54
Alignment explanation
Indices: 27722216--27722394 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
27722206 ATTAAAATAT
*
27722216 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
27722270 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
27722333 TAT
53 -AC
*
27722336 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
27722390 ATAAT
1 ATAAT
27722395 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:27722337 original size:18 final size:17
Alignment explanation
Indices: 27722316--27722350 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27722306 TTATTATTAA
27722316 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
27722334 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
27722351 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:27722465 original size:18 final size:17
Alignment explanation
Indices: 27722426--27722457 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
27722416 TTTTAAATAA
27722426 TTAATATTAAATATATT
1 TTAATATTAAATATATT
27722443 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
27722458 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:27722482 original size:120 final size:120
Alignment explanation
Indices: 27722179--27722471 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
27722169 ATCATATTTA
27722179 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
27722244 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
27722299 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
27722364 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
27722420 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
27722472 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:27722582 original size:91 final size:91
Alignment explanation
Indices: 27722487--27722694 Score: 258
Period size: 91 Copynumber: 2.3 Consensus size: 91
27722477 TAATTATAAC
* * * *
27722487 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
27722551 TAATATAAAATTTCATAAAATTCTTGA
65 TAATATAAAATTTCATAAAATTCTTAA
* * *
27722578 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* * * *
27722643 GATATATAATTTCATGAAATTGTTAA
66 AATATAAAATTTCATAAAATTCTTAA
*
27722669 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
27722695 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 79 0.77
92 22 0.22
93 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATAAAATTTCATAAAATTCTTAA
Found at i:27723223 original size:12 final size:12
Alignment explanation
Indices: 27723208--27723237 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27723198 AATACAAACA
27723208 ACAGAAGCTGCT
1 ACAGAAGCTGCT
27723220 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
27723232 AAAGAA
1 ACAGAA
27723238 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:27723520 original size:14 final size:14
Alignment explanation
Indices: 27723501--27723531 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
27723491 AAAATATTAA
27723501 CAACAAATAGTTCC
1 CAACAAATAGTTCC
27723515 CAACAAATAGTTCC
1 CAACAAATAGTTCC
27723529 CAA
1 CAA
27723532 TTGCCAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (14 bp):
CAACAAATAGTTCC
Found at i:27726500 original size:15 final size:15
Alignment explanation
Indices: 27726480--27726508 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27726470 GCAGGCTAAG
27726480 TGCCGGTGAACTGAC
1 TGCCGGTGAACTGAC
27726495 TGCCGGTGAACTGA
1 TGCCGGTGAACTGA
27726509 ATCAGGCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (15 bp):
TGCCGGTGAACTGAC
Found at i:27726525 original size:56 final size:56
Alignment explanation
Indices: 27726439--27726544 Score: 194
Period size: 56 Copynumber: 1.9 Consensus size: 56
27726429 GCAGGCTAAG
* *
27726439 TGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAC
1 TGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACTGAC
27726495 TGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGA
1 TGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGA
27726545 TCTAAATCAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (56 bp):
TGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACTGAC
Found at i:27726555 original size:41 final size:41
Alignment explanation
Indices: 27726508--27726627 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
27726498 CGGTGAACTG
27726508 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
1 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
* * * *
27726549 AATCAGGTTATAAGCCTAGCAGGCTAAGTGTCGGTGATCTG
1 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
* *
27726590 AATCAGGCTTTAAGCCTAACAGGGCTAAGTGCCAGTGA
1 AATCAGGCTATAAGCCTAGCA-GGCTAAGTGCCAGTGA
27726628 ATCAGTTTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
41 55 0.80
42 14 0.20
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
Found at i:27728204 original size:253 final size:252
Alignment explanation
Indices: 27727740--27728219 Score: 700
Period size: 253 Copynumber: 1.9 Consensus size: 252
27727730 GGGTGTTACA
27727740 CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
1 CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
* *
27727805 ATTCATGAATTACATTAATACTTTGTATTATTGTTCTCAAATAATTTTTGTACGCAAAGCAAAAT
66 ATTCATGAATTACATCAATACTTTGTATTATTGTTCTCAAATAATTTTTGCACGCAAAGCAAAAT
* * * * *
27727870 GAAAGCAAATGTTGCTCAATGGTTGTTTAATGTTTAGCTAATATTAAGCAGTATTACGTGATTGG
131 GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAATAGTAAGCAGTATTACATGATTGG
27727935 ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
196 ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
* *
27727992 CCTTAAGTGTAGTATGTTT-GTCTAAGTACACTTGTAATTATTTCGAACAGATTGATTAATAAAA
1 CCTTAAGTGTAGTAT-TTTGGTATAAGTACACCTGTAATT-TTTCGAACAGATTGATTAATAAAA
* * * **
27728056 TTATTCATGAATTGCATCAATATTTTGTA-TATT-TTCCTCACATGGTTTTTGCACGCAAAGCAA
64 TTATTCATGAATTACATCAATACTTTGTATTATTGTT-CTCAAATAATTTTTGCACGCAAAGCAA
* * *
27728119 AATGGAAA-TAAATGTCGTTCACTGGTTGTCTAATGTTTAACTAATTAGTAAGCAGTATTACATG
128 AAT-GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAA-TAGTAAGCAGTATTACATG
* *
27728183 GTTGG-TTCGTAATATAGAAAGACAACTTATATTAGTA
191 ATTGGATT-GTAATACAGAAAGACAACTTATATTAGTA
27728220 AACAAACGTA
Statistics
Matches: 203, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
251 2 0.01
252 95 0.47
253 106 0.52
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (252 bp):
CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
ATTCATGAATTACATCAATACTTTGTATTATTGTTCTCAAATAATTTTTGCACGCAAAGCAAAAT
GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAATAGTAAGCAGTATTACATGATTGG
ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
Found at i:27731461 original size:21 final size:21
Alignment explanation
Indices: 27731436--27731481 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
27731426 CAAACAAACG
*
27731436 AAAATATTAAAATATTAAAAT
1 AAAATATTAAAAAATTAAAAT
* *
27731457 AAAATTTTAAAAAATTAAATT
1 AAAATATTAAAAAATTAAAAT
27731478 AAAA
1 AAAA
27731482 AATGGCTAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTAAAAAATTAAAAT
Found at i:27752865 original size:9 final size:9
Alignment explanation
Indices: 27752807--27752864 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
27752797 GTAGTGATTC
*
27752807 AATTTGGTT
1 AATTCGGTT
27752816 AATTCGGTT
1 AATTCGGTT
*
27752825 AATTCGGGT
1 AATTCGGTT
*
27752834 AATTCGGGT
1 AATTCGGTT
27752843 AATTCGGTT
1 AATTCGGTT
*
27752852 AATTTGGTT
1 AATTCGGTT
27752861 AATT
1 AATT
27752865 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:27755978 original size:20 final size:20
Alignment explanation
Indices: 27755943--27755980 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27755933 TGACCACTTC
27755943 ATAACAAAATGATAACATAA
1 ATAACAAAATGATAACATAA
27755963 ATAACTAAAATG-TAACAT
1 ATAAC-AAAATGATAACAT
27755981 TTCAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (20 bp):
ATAACAAAATGATAACATAA
Found at i:27756257 original size:82 final size:81
Alignment explanation
Indices: 27756111--27756264 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 81
27756101 TATGTGTTCT
*
27756111 AAACTACAATTCCTAATCACCTTCCCAAGAAATTACATGGTTATTGCTAGTCTAGTCTCCATGGA
1 AAACTACAATTCCTAATCACCTTCCCAAGAAATTACATGGCTATTGCTAGTCTAGTCTCCATGGA
27756176 ATCATTGTCTTGGTTA
66 ATCATTGTCTTGGTTA
* * * *
27756192 AAACTACAGTTCCTAATCACCTTTCCAAGTCAATTTCATGGCTATTGCTAGTCTAGTC-CTCATG
1 AAACTACAATTCCTAATCACCTTCCCAAG-AAATTACATGGCTATTGCTAGTCTAGTCTC-CATG
*
27756256 GAATTATTG
64 GAATCATTG
27756265 AAAGATCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 28 0.43
82 37 0.57
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (81 bp):
AAACTACAATTCCTAATCACCTTCCCAAGAAATTACATGGCTATTGCTAGTCTAGTCTCCATGGA
ATCATTGTCTTGGTTA
Found at i:27761841 original size:13 final size:14
Alignment explanation
Indices: 27761806--27761841 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
27761796 TCTTTAACTT
27761806 CTTTTCTTT-TTAC
1 CTTTTCTTTCTTAC
27761819 CTTTTC-TTCTT-C
1 CTTTTCTTTCTTAC
27761831 CTTTTCTTTCT
1 CTTTTCTTTCT
27761842 GTGTTGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTTCTTTCTTAC
Found at i:27762764 original size:9 final size:9
Alignment explanation
Indices: 27762752--27762791 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
27762742 AAATAAAAAA
27762752 AATTCGGGT
1 AATTCGGGT
27762761 AATTCGGGT
1 AATTCGGGT
*
27762770 AATTCAGGT
1 AATTCGGGT
*
27762779 AATTCGAGT
1 AATTCGGGT
27762788 AATT
1 AATT
27762792 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (9 bp):
AATTCGGGT
Found at i:27762968 original size:12 final size:12
Alignment explanation
Indices: 27762951--27762975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27762941 AGTAATTTCG
27762951 GGTCGGTTAACC
1 GGTCGGTTAACC
27762963 GGTCGGTTAACC
1 GGTCGGTTAACC
27762975 G
1 G
27762976 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:27782541 original size:41 final size:37
Alignment explanation
Indices: 27782439--27782544 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 37
27782429 AATTCAAAAT
* **
27782439 AGTAAATTGACACCCTGTGTCTCATCGGTTAAACCGA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAACCGA
* * * * *
27782476 AGTAAGTTGGCACTCAGTGCCTCATCGAATAAATCTGA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAA-CCGA
27782514 AGTAATAAATTGACACCCAGTGTCTCATCGA
1 AG---TAAATTGACACCCAGTGTCTCATCGA
27782545 CTCGAAGTCG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
37 26 0.49
38 5 0.09
41 22 0.42
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTGTCTCATCGAATAAACCGA
Found at i:27785893 original size:34 final size:34
Alignment explanation
Indices: 27785855--27785922 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
27785845 TCAATTGACA
*
27785855 AAGTTGGAAATATCAAATGTCATGGCCTTGACTT
1 AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
*
27785889 AAGTTGGAAATATCAAATGCCATGGTCTTGACTT
1 AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
27785923 GCAATCTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (34 bp):
AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
Found at i:27786256 original size:15 final size:15
Alignment explanation
Indices: 27786228--27786263 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
27786218 GAGAAAAAAT
27786228 AAATATAAATTATAA
1 AAATATAAATTATAA
27786243 AAATAGTAAA-TATAA
1 AAATA-TAAATTATAA
27786258 AAATAT
1 AAATAT
27786264 TTTAAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 15 0.75
16 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAATATAAATTATAA
Found at i:27786277 original size:11 final size:11
Alignment explanation
Indices: 27786255--27786289 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
27786245 ATAGTAAATA
*
27786255 TAAAAATATTT
1 TAAAGATATTT
*
27786266 TAAAGATTTTT
1 TAAAGATATTT
27786277 TAAAGATATTT
1 TAAAGATATTT
27786288 TA
1 TA
27786290 TAATTTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (11 bp):
TAAAGATATTT
Found at i:27786280 original size:22 final size:21
Alignment explanation
Indices: 27786255--27786297 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
27786245 ATAGTAAATA
27786255 TAAAAATATTTTAAAGATTTTT
1 TAAAAATATTTTAAA-ATTTTT
* *
27786277 TAAAGATATTTTATAATTTTT
1 TAAAAATATTTTAAAATTTTT
27786298 AGAATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TAAAAATATTTTAAAATTTTT
Found at i:27786480 original size:29 final size:30
Alignment explanation
Indices: 27786432--27786510 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
27786422 ATATTTAATT
* * *
27786432 TTGAAAAGTTGAATGACTAAATCGAAAAAA
1 TTGAATAGTTGAGTGACTAAATAGAAAAAA
*
27786462 TT-AATAGTTGAGTGACTAAAATAGAACAAA
1 TTGAATAGTTGAGTGACT-AAATAGAAAAAA
27786492 TTGAATAGTTGAGTGACTA
1 TTGAATAGTTGAGTGACTA
27786511 TTCTTGTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.30
30 15 0.35
31 15 0.35
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
TTGAATAGTTGAGTGACTAAATAGAAAAAA
Found at i:27786502 original size:31 final size:31
Alignment explanation
Indices: 27786432--27786510 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
27786422 ATATTTAATT
* * *
27786432 TTGAAAAGTTGAATGACT-AAATCGAAAAAA
1 TTGAATAGTTGAGTGACTAAAATAGAAAAAA
*
27786462 TT-AATAGTTGAGTGACTAAAATAGAACAAA
1 TTGAATAGTTGAGTGACTAAAATAGAAAAAA
27786492 TTGAATAGTTGAGTGACTA
1 TTGAATAGTTGAGTGACTA
27786511 TTCTTGTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 13 0.30
30 14 0.33
31 16 0.37
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (31 bp):
TTGAATAGTTGAGTGACTAAAATAGAAAAAA
Found at i:27787348 original size:15 final size:15
Alignment explanation
Indices: 27787317--27787350 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27787307 AAGAGAGCTT
**
27787317 AAAACAACAAAGCAA
1 AAAACAACAAAAAAA
27787332 AAAACAACAAAAAAA
1 AAAACAACAAAAAAA
27787347 AAAA
1 AAAA
27787351 AAAACGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAACAACAAAAAAA
Found at i:27790944 original size:26 final size:25
Alignment explanation
Indices: 27790907--27790961 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
27790897 TTTTATTCTT
27790907 AAAAAAAAAGCAAAAACCGCAAAAA
1 AAAAAAAAAGCAAAAACCGCAAAAA
**
27790932 AAAAGAAAAAGCAAAAAGTGCAAAAA
1 AAAA-AAAAAGCAAAAACCGCAAAAA
27790958 AAAA
1 AAAA
27790962 CCGCAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.76, C:0.11, G:0.11, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAGCAAAAACCGCAAAAA
Found at i:27796773 original size:25 final size:25
Alignment explanation
Indices: 27796739--27796792 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
27796729 ATTCATCGGT
*
27796739 GTTTCTAGAGGTTCTTCTTCTAGGG
1 GTTTCTAGAGGTTCTTCTTCTAGGC
27796764 GTTTCTAGAGGTTCTTCTTCTAGGC
1 GTTTCTAGAGGTTCTTCTTCTAGGC
27796789 GTTT
1 GTTT
27796793 TTGGTTACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.46
Consensus pattern (25 bp):
GTTTCTAGAGGTTCTTCTTCTAGGC
Found at i:27799087 original size:33 final size:33
Alignment explanation
Indices: 27799041--27799196 Score: 110
Period size: 33 Copynumber: 4.6 Consensus size: 33
27799031 CATATAAAGG
**
27799041 GGTTGCTGTGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
27799074 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T----GGT
27799117 GGTTGCTAAGTGCTGATTCCCC----CGA--GG-
1 GGTTGCTAAGTGCTGATTCCCCGATTC-ATTGGT
*
27799144 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
27799177 GGTTGCTAAATGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
27799197 ACCGTATTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 36
0.70 0.04 0.26
Matches are distributed among these distances:
27 22 0.22
28 2 0.02
30 1 0.01
31 1 0.01
32 2 0.02
33 37 0.37
34 3 0.03
35 2 0.02
37 2 0.02
38 2 0.02
39 1 0.01
42 2 0.02
43 22 0.22
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:27799171 original size:103 final size:103
Alignment explanation
Indices: 27799038--27799266 Score: 422
Period size: 103 Copynumber: 2.2 Consensus size: 103
27799028 TTGCATATAA
** *
27799038 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAATGCTGATTCCACCGTATTT
27799103 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
27799141 AGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAATGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAATGCTGATTCCACCGTATTT
27799206 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
27799244 AGGGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCC
27799267 ACCGCATCTG
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 122 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAATGCTGATTCCACCGTATTT
TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:27799233 original size:76 final size:69
Alignment explanation
Indices: 27799142--27799322 Score: 229
Period size: 69 Copynumber: 2.5 Consensus size: 69
27799132 ATTCCCCCGA
* *
27799142 GGGGTTGCTAAGTGCTGATTCCCCTATTC-ATTGGTGGTTGCTAAATGCTGATTCCACCGTATTT
1 GGGGTTGCTAAGTGCTGATTCCCC----CGA--GG-GGTTGCTAAATGCTGATTCCACCGCATCT
*
27799206 TAAATGTGAAAG
59 GAAATGTG-AAG
*
27799218 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGT
1 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAATGCTGATTCCACCGCATCTGAAATGT
27799283 GAAG
66 GAAG
* *
27799287 GGGGTTGCTAAGTGCTAATTCCCCCAAGGGGTTGCT
1 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCT
27799323 GTGTGCTGAT
Statistics
Matches: 98, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
69 37 0.38
70 33 0.34
71 2 0.02
72 1 0.01
73 1 0.01
76 24 0.24
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (69 bp):
GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAATGCTGATTCCACCGCATCTGAAATGT
GAAG
Found at i:27799317 original size:69 final size:70
Alignment explanation
Indices: 27799177--27799335 Score: 239
Period size: 69 Copynumber: 2.3 Consensus size: 70
27799167 ATTCATTGGT
* * * * *
27799177 GGTTGCTAAATGCTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGGGGTTGCTAAGTGCTAATTCCCC
*
27799242 CGAGG
66 CAAGG
27799247 GGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTG-AAGGGGGTTGCTAAGTGCTAATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGGGGTTGCTAAGTGCTAATTCCCC
27799311 CAAGG
66 CAAGG
**
27799316 GGTTGCTGTGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
27799336 CCGATTCATT
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 48 0.59
70 33 0.41
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (70 bp):
GGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGGGGTTGCTAAGTGCTAATTCCCC
CAAGG
Found at i:27804051 original size:24 final size:24
Alignment explanation
Indices: 27804023--27804069 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
27804013 ATATTTATGA
*
27804023 AATATTACAAATTTTTAATAATAT
1 AATATAACAAATTTTTAATAATAT
* * *
27804047 AATATAATATATTTTTATTAATA
1 AATATAACAAATTTTTAATAATA
27804070 CACACAATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATAACAAATTTTTAATAATAT
Found at i:27817032 original size:61 final size:64
Alignment explanation
Indices: 27816924--27817044 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 64
27816914 TCAATTTTTA
* * ** *
27816924 TTAGATATTATAATTATTTAACTTTATTTTTTTACTTAATTAATATTTAGATAC-CATTTATAC
1 TTAGATATTATAATTATTTAAATTTATATTTTTACCAAATTAATATTTAAATACTCATTTATAC
27816987 TTAGATATTGA-AATT-TTTAAATTT-TATTTTTACCAAATTAATATTTAAATACTCATTT
1 TTAGATATT-ATAATTATTTAAATTTATATTTTTACCAAATTAATATTTAAATACTCATTT
27817045 GTATTAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
61 24 0.47
62 13 0.25
63 13 0.25
64 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.53
Consensus pattern (64 bp):
TTAGATATTATAATTATTTAAATTTATATTTTTACCAAATTAATATTTAAATACTCATTTATAC
Found at i:27820938 original size:19 final size:21
Alignment explanation
Indices: 27820905--27820944 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27820895 TTAAGAGTAA
*
27820905 AGGGTGAAAAGT-AAAAGTTT
1 AGGGTGAAAAATAAAAAGTTT
27820925 AGGG-GAAAAATAAAAAGTTT
1 AGGGTGAAAAATAAAAAGTTT
27820945 TGGAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.23
Consensus pattern (21 bp):
AGGGTGAAAAATAAAAAGTTT
Found at i:27821091 original size:30 final size:32
Alignment explanation
Indices: 27821052--27821111 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
27821042 GGAGGTGGGA
*
27821052 TGGGAAGGGAATAAAAGTTTTAG-GGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGAGGGAAAAG
* *
27821083 TGGG-AGGGAGTAAAAATTTTGGAGGGAAA
1 TGGGAAGGGAATAAAAATTTTAGAGGGAAA
27821112 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (32 bp):
TGGGAAGGGAATAAAAATTTTAGAGGGAAAAG
Found at i:27821339 original size:9 final size:9
Alignment explanation
Indices: 27821325--27821361 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27821315 TATAGTTTGA
27821325 TATTCGAAT
1 TATTCGAAT
27821334 TATTCGAAT
1 TATTCGAAT
*
27821343 TATTCGAGT
1 TATTCGAAT
27821352 TATTCGAAT
1 TATTCGAAT
27821361 T
1 T
27821362 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27821431 original size:9 final size:9
Alignment explanation
Indices: 27821414--27821444 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27821404 TCGAGTTGAT
27821414 TCGAATAAC
1 TCGAATAAC
*
27821423 TCGATTAAC
1 TCGAATAAC
27821432 TCGAATAAC
1 TCGAATAAC
27821441 TCGA
1 TCGA
27821445 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27824156 original size:25 final size:24
Alignment explanation
Indices: 27824128--27824189 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
27824118 TACAATACAG
* *
27824128 CACAAGGGTTTTTCACAAGATTAGA
1 CACAA-GGCTTTTCACAAGAATAGA
* *
27824153 CACACAGGCTTTTCATAAGAATAGC
1 CACA-AGGCTTTTCACAAGAATAGA
27824178 CACAAAGGCTTT
1 CAC-AAGGCTTT
27824190 CCATATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 29 0.94
26 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (24 bp):
CACAAGGCTTTTCACAAGAATAGA
Found at i:27824194 original size:25 final size:25
Alignment explanation
Indices: 27824144--27824317 Score: 129
Period size: 25 Copynumber: 7.0 Consensus size: 25
27824134 GGTTTTTCAC
* * * *
27824144 AAGATTAGACACACAGGCTTTTCAT
1 AAGAATAGCCACAAAGGCTTTCCAT
27824169 AAGAATAGCCACAAAGGCTTTCCAT
1 AAGAATAGCCACAAAGGCTTTCCAT
* *
27824194 -ATAATATGCCACAAAGGCTTTCCAG
1 AAGAATA-GCCACAAAGGCTTTCCAT
* * **
27824219 AA-AATACACCACAAAAGCTTTTGAT
1 AAGAATA-GCCACAAAGGCTTTCCAT
*
27824244 AAGATTAGCCACAAAGGCTTTCCA-
1 AAGAATAGCCACAAAGGCTTTCCAT
* * * *
27824268 GATAATATGCCAAAAAGGCTTTTCAT
1 AAGAATA-GCCACAAAGGCTTTCCAT
* * * *
27824294 AAGATTACCCATAAAGGTTTTCCA
1 AAGAATAGCCACAAAGGCTTTCCA
27824318 GATAATCCTT
Statistics
Matches: 115, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
24 9 0.08
25 98 0.85
26 8 0.07
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.25
Consensus pattern (25 bp):
AAGAATAGCCACAAAGGCTTTCCAT
Found at i:27824231 original size:50 final size:50
Alignment explanation
Indices: 27824121--27824319 Score: 179
Period size: 50 Copynumber: 4.0 Consensus size: 50
27824111 CTTTTCATAC
* * * * * * * *
27824121 AATACAGCACAAGGGTTTTTCACAAGATTAGACACACAGGCTTTTCATAA
1 AATACACCACAAAGGCTTTTCATAAGATTAGCCACAAAGGCTTTCCAGAA
* *
27824171 GAATA-GCCACAAAGGCTTTCCATATA-A-TATGCCACAAAGGCTTTCCAGAA
1 -AATACACCACAAAGGCTTTTCATA-AGATTA-GCCACAAAGGCTTTCCAGAA
* * *
27824221 AATACACCACAAAAGCTTTTGATAAGATTAGCCACAAAGGCTTTCCAGAT
1 AATACACCACAAAGGCTTTTCATAAGATTAGCCACAAAGGCTTTCCAGAA
** * * * *
27824271 AATATGCCAAAAAGGCTTTTCATAAGATTACCCATAAAGGTTTTCCAGA
1 AATACACCACAAAGGCTTTTCATAAGATTAGCCACAAAGGCTTTCCAGA
27824320 TAATCCTTTT
Statistics
Matches: 120, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
49 7 0.06
50 106 0.88
51 7 0.06
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (50 bp):
AATACACCACAAAGGCTTTTCATAAGATTAGCCACAAAGGCTTTCCAGAA
Found at i:27835135 original size:26 final size:26
Alignment explanation
Indices: 27835090--27835183 Score: 65
Period size: 26 Copynumber: 3.7 Consensus size: 26
27835080 ACACACCGTA
*
27835090 GCTCTT-ATGAG-TGTCTCGATATATG
1 GCTCTTCATGAGCT-TCCCGATATATG
*
27835115 GCTCTTCATGAGCTTCCCGAT-TAAAG
1 GCTCTTCATGAGCTTCCCGATAT-ATG
** * *
27835141 GCTCTTTGTGAGCTTCTCGTTA-ATG
1 GCTCTTCATGAGCTTCCCGATATATG
27835166 GCTC-TC-TGGAGCTTCCCG
1 GCTCTTCAT-GAGCTTCCCG
27835184 GATGGCTAGC
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.02
24 10 0.18
25 13 0.24
26 30 0.55
27 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGATATATG
Found at i:27837239 original size:25 final size:25
Alignment explanation
Indices: 27837128--27837322 Score: 95
Period size: 25 Copynumber: 7.9 Consensus size: 25
27837118 CATAAGATTA
* **
27837128 GCCACAAAGGCTTCCCCGATAATAC
1 GCCACAAAGGCTTTCTAGATAATAC
*
27837153 GCCACAACA-GCTTTCTAGATAATAT
1 GCCACAA-AGGCTTTCTAGATAATAC
* **
27837178 GTCAC-AAGTTTTTCATAAGAT--TA-
1 GCCACAAAGGCTTTC-T-AGATAATAC
* *
27837201 GCCATAAAAGCTTTCTAGATAATAC
1 GCCACAAAGGCTTTCTAGATAATAC
*
27837226 GTCACAAAGGCTTTTCATAAGAT--TA-
1 GCCACAAAGGC-TTTC-T-AGATAATAC
* * *
27837251 ACCACAAA-GTTTTCTAGATAATAT
1 GCCACAAAGGCTTTCTAGATAATAC
* * * *
27837275 GCCACAAAGGTTTTTTATAAAATTA-
1 GCCACAAAGGCTTTCTAGATAA-TAC
*
27837300 GCCACAAAGGCTTTCCAGATAAT
1 GCCACAAAGGCTTTCTAGATAAT
27837323 TCGTTTTTAC
Statistics
Matches: 127, Mismatches: 27, Indels: 33
0.68 0.14 0.18
Matches are distributed among these distances:
21 4 0.03
22 5 0.04
23 11 0.09
24 24 0.19
25 65 0.51
26 13 0.10
27 1 0.01
28 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (25 bp):
GCCACAAAGGCTTTCTAGATAATAC
Found at i:27837281 original size:49 final size:49
Alignment explanation
Indices: 27837153--27837322 Score: 218
Period size: 49 Copynumber: 3.4 Consensus size: 49
27837143 CCGATAATAC
27837153 GCCACAACAGCTTTCTAGATAATATGTCAC-AA-GTTTTTCATAAGATTA
1 GCCACAA-AGCTTTCTAGATAATATGTCACAAAGGTTTTTCATAAGATTA
* * *
27837201 GCCATAAAAGCTTTCTAGATAATACGTCACAAAGGCTTTTCATAAGATTA
1 GCCA-CAAAGCTTTCTAGATAATATGTCACAAAGGTTTTTCATAAGATTA
* * * * *
27837251 ACCACAAAGTTTTCTAGATAATATGCCACAAAGGTTTTTTATAAAATTA
1 GCCACAAAGCTTTCTAGATAATATGTCACAAAGGTTTTTCATAAGATTA
*
27837300 GCCACAAAGGCTTTCCAGATAAT
1 GCCACAAA-GCTTTCTAGATAAT
27837323 TCGTTTTTAC
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
48 25 0.24
49 49 0.47
50 30 0.29
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (49 bp):
GCCACAAAGCTTTCTAGATAATATGTCACAAAGGTTTTTCATAAGATTA
Found at i:27837323 original size:25 final size:26
Alignment explanation
Indices: 27837090--27837323 Score: 70
Period size: 25 Copynumber: 9.5 Consensus size: 26
27837080 TACCACAGGT
* *
27837090 TTTCCAGACAA-TACGCCATAAA-GC
1 TTTCCAGATAATTACGCCACAAAGGC
* *
27837114 TTTTCATA-AGATTA-GCCACAAAGGC
1 TTTCCAGATA-ATTACGCCACAAAGGC
* *
27837139 TTCCCCGATAA-TACGCCACAACA-GC
1 TTTCCAGATAATTACGCCACAA-AGGC
* * * *
27837164 TTTCTAGATAA-TATGTCAC-AA-GT
1 TTTCCAGATAATTACGCCACAAAGGC
* * * *
27837187 TTTTCATA-AGATTA-GCCATAAAAGC
1 TTTCCAGATA-ATTACGCCACAAAGGC
* *
27837212 TTTCTAGATAA-TACGTCACAAAGGC
1 TTTCCAGATAATTACGCCACAAAGGC
* * * *
27837237 TTTTCATA-AGATTA-ACCACAAA-GT
1 TTTCCAGATA-ATTACGCCACAAAGGC
* * *
27837261 TTTCTAGATAA-TATGCCACAAAGGT
1 TTTCCAGATAATTACGCCACAAAGGC
** * *
27837286 TTTTTATAAAATTA-GCCACAAAGGC
1 TTTCCAGATAATTACGCCACAAAGGC
27837311 TTTCCAGATAATT
1 TTTCCAGATAATT
27837324 CGTTTTTACT
Statistics
Matches: 149, Mismatches: 43, Indels: 35
0.66 0.19 0.15
Matches are distributed among these distances:
22 1 0.01
23 14 0.09
24 38 0.26
25 89 0.60
26 7 0.05
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (26 bp):
TTTCCAGATAATTACGCCACAAAGGC
Found at i:27839337 original size:16 final size:16
Alignment explanation
Indices: 27839295--27839339 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
27839285 AACTAAAGCC
*
27839295 TTGTTCTGAAC-ATAG
1 TTGTTCTGAACAATAA
*
27839310 TTATTCTCGAACAATAA
1 TTGTTCT-GAACAATAA
27839327 TTGTTCTGAACAA
1 TTGTTCTGAACAA
27839340 CAACAATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 6 0.24
16 10 0.40
17 9 0.36
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (16 bp):
TTGTTCTGAACAATAA
Found at i:27841226 original size:18 final size:17
Alignment explanation
Indices: 27841193--27841225 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27841183 TAAAAATAAA
27841193 AATAAAAATCCTAAAAC
1 AATAAAAATCCTAAAAC
27841210 AATAATAAAT-CTAAAA
1 AATAA-AAATCCTAAAA
27841226 AAAAGAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAAATCCTAAAAC
Found at i:27841743 original size:2 final size:2
Alignment explanation
Indices: 27841736--27841779 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
27841726 TATTTTCACA
*
27841736 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27841778 AT
1 AT
27841780 CACCTATCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27842333 original size:6 final size:6
Alignment explanation
Indices: 27842322--27842346 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27842312 CTCCATAATC
27842322 CAAAAA CAAAAA CAAAAA CAAAAA C
1 CAAAAA CAAAAA CAAAAA CAAAAA C
27842347 CCAAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:27843929 original size:16 final size:15
Alignment explanation
Indices: 27843903--27843932 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
27843893 TATGATAAAT
27843903 TTTAAAAAATAATAA
1 TTTAAAAAATAATAA
27843918 TTTAAAATAATAATA
1 TTTAAAA-AATAATA
27843933 TATCACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAAAAAATAATAA
Found at i:27845048 original size:39 final size:40
Alignment explanation
Indices: 27844956--27845049 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 40
27844946 TCATGAAAAT
* *
27844956 AAAATAAAG-ATA-AAAAAATGTATATGTGTATATATTTAC
1 AAAATAAAGTATATAAAAAATGTATA-GAGTATATATATAC
27844995 AAAATAAA-TA-ATAAAAAATGTATA-AGTATATATATA-
1 AAAATAAAGTATATAAAAAATGTATAGAGTATATATATAC
27845031 AAATATAAAGTATATAAAA
1 AAA-ATAAAGTATATAAAA
27845050 GTTTTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
36 3 0.06
37 15 0.31
38 3 0.06
39 27 0.56
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (40 bp):
AAAATAAAGTATATAAAAAATGTATAGAGTATATATATAC
Found at i:27845095 original size:34 final size:34
Alignment explanation
Indices: 27845026--27845098 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
27845016 ATAAGTATAT
* *
27845026 ATATAAAATATAAAGTATATAAAAGTTTTAAAAA
1 ATATAAAATATAAAGTATATAAAAGTATGAAAAA
*
27845060 ATATAAAA-ATATA-TATATAAAACGTATGAATAAA
1 ATATAAAATATAAAGTATATAAAA-GTATGAA-AAA
27845094 ATATA
1 ATATA
27845099 TGCATGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 9 0.26
33 9 0.26
34 16 0.47
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (34 bp):
ATATAAAATATAAAGTATATAAAAGTATGAAAAA
Found at i:27845142 original size:17 final size:18
Alignment explanation
Indices: 27845120--27845154 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27845110 ATAAAAGCTT
27845120 AAAAAT-ATATATATTAA
1 AAAAATCATATATATTAA
27845137 AAAAATGCATATATATTA
1 AAAAAT-CATATATATTA
27845155 TATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAATCATATATATTAA
Found at i:27845150 original size:23 final size:24
Alignment explanation
Indices: 27845124--27845205 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 24
27845114 AAGCTTAAAA
27845124 ATATA-TATATTAAAAAAATGCAT
1 ATATACTATATTAAAAAAATGCAT
* * **
27845147 ATATATTATATATAAAAATATGTGT
1 ATATACTATAT-TAAAAAAATGCAT
* *
27845172 ATGTACTATATGAAAAAAATGCAT
1 ATATACTATATTAAAAAAATGCAT
27845196 ATATA-TATAT
1 ATATACTATAT
27845206 ATTATGTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 10 0.21
24 18 0.38
25 19 0.40
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (24 bp):
ATATACTATATTAAAAAAATGCAT
Found at i:27845273 original size:12 final size:12
Alignment explanation
Indices: 27845239--27845285 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
27845229 TGAGTATAGA
27845239 AATAATGATAAT
1 AATAATGATAAT
** *
27845251 AACCATAATAAT
1 AATAATGATAAT
27845263 AAATAAT-ATAAT
1 -AATAATGATAAT
27845275 AATAATGATAA
1 AATAATGATAA
27845286 ATATTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 6 0.21
12 18 0.64
13 4 0.14
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (12 bp):
AATAATGATAAT
Found at i:27845273 original size:21 final size:21
Alignment explanation
Indices: 27845249--27845288 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27845239 AATAATGATA
*
27845249 ATAACCATAATAATAAATAAT
1 ATAACAATAATAATAAATAAT
* *
27845270 ATAATAATAATGATAAATA
1 ATAACAATAATAATAAATA
27845289 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (21 bp):
ATAACAATAATAATAAATAAT
Found at i:27850538 original size:10 final size:9
Alignment explanation
Indices: 27850504--27850537 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
27850494 ATATTTATAT
27850504 ATTTTTAATA
1 ATTTTTAA-A
*
27850514 ATTTTTACA
1 ATTTTTAAA
27850523 ATTTTTAAA
1 ATTTTTAAA
27850532 ATTTTT
1 ATTTTT
27850538 TGGTCCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:27851788 original size:24 final size:23
Alignment explanation
Indices: 27851761--27851805 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
27851751 CAGTTATTTT
*
27851761 AAACATTAATGTATTTCTAGAAGA
1 AAAC-TTAATCTATTTCTAGAAGA
* *
27851785 AAACTTAGTCTATTTTTAGAA
1 AAACTTAATCTATTTCTAGAA
27851806 AAACTCATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (23 bp):
AAACTTAATCTATTTCTAGAAGA
Found at i:27852490 original size:30 final size:30
Alignment explanation
Indices: 27852455--27852514 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
27852445 TATTTTATTA
27852455 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
*
27852485 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
27852515 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:27857711 original size:37 final size:37
Alignment explanation
Indices: 27857668--27857742 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
27857658 CCGGTCCTGT
27857668 AAATATGTCACTGTCTGGTAATTCTATCAATTATGTC
1 AAATATGTCACTGTCTGGTAATTCTATCAATTATGTC
27857705 AAATATGTCACTGTCTGGTAATTCTATCAATTATGTC
1 AAATATGTCACTGTCTGGTAATTCTATCAATTATGTC
27857742 A
1 A
27857743 GTTTTTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (37 bp):
AAATATGTCACTGTCTGGTAATTCTATCAATTATGTC
Found at i:27862864 original size:38 final size:38
Alignment explanation
Indices: 27862785--27862891 Score: 110
Period size: 38 Copynumber: 2.8 Consensus size: 38
27862775 ATATACAATC
* *
27862785 TTTTACAATTTTTAATAA-TTCTATATTTTTTTACAAAT
1 TTTTACAATTTCTAATAATTTTTA-ATTTTTTTACAAAT
* * **
27862823 TTTTACAATTTCTAAGAATTTTTAATTTTTTTATAGTT
1 TTTTACAATTTCTAATAATTTTTAATTTTTTTACAAAT
* *
27862861 TTTTA-AAATTCTAATATATTTTTAAATTTTT
1 TTTTACAATTTCTAATA-ATTTTTAATTTTTT
27862892 AAAATTAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
37 9 0.16
38 45 0.78
39 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (38 bp):
TTTTACAATTTCTAATAATTTTTAATTTTTTTACAAAT
Found at i:27862905 original size:28 final size:28
Alignment explanation
Indices: 27862860--27862921 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
27862850 TTTTTATAGT
*
27862860 TTTTTAAAATTCTAATATA-TTTTTAAA
1 TTTTTAAAATTATAATATATTTTTTAAA
* *
27862887 TTTTTAAAATTAATTATATATTTTTTTAA
1 TTTTTAAAATT-ATAATATATTTTTTAAA
27862916 TTTTTA
1 TTTTTA
27862922 TAGTTTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 11 0.37
28 6 0.20
29 13 0.43
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTAAAATTATAATATATTTTTTAAA
Found at i:27862928 original size:17 final size:17
Alignment explanation
Indices: 27862903--27862937 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27862893 AAATTAATTA
* *
27862903 TATATTTTTTTAATTTT
1 TATAGTTTTGTAATTTT
27862920 TATAGTTTTGTAATTTT
1 TATAGTTTTGTAATTTT
27862937 T
1 T
27862938 TAAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TATAGTTTTGTAATTTT
Found at i:27867578 original size:3 final size:3
Alignment explanation
Indices: 27867570--27867631 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
27867560 AAACTATTTC
* * * *
27867570 ATT ATT ATT ATT ATT ATT TTT AATT A-T GTT A-T ACT ATT -CT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
27867613 ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT AT
27867632 AACATGCATG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
2 6 0.13
3 39 0.83
4 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:27867739 original size:17 final size:17
Alignment explanation
Indices: 27867708--27867746 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
27867698 TTTACATACG
** *
27867708 TTTTATTTTTTTTATTT
1 TTTTATTTTCCTTATCT
27867725 TTTTATTTTCCTTATCT
1 TTTTATTTTCCTTATCT
27867742 TTTTA
1 TTTTA
27867747 ACTTTTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTCCTTATCT
Found at i:27867811 original size:34 final size:35
Alignment explanation
Indices: 27867770--27867848 Score: 92
Period size: 37 Copynumber: 2.3 Consensus size: 35
27867760 TTATGTTTTA
*
27867770 TAAATATATA-CA-TATACA-TTTCTTTTATGTTG
1 TAAATATATAGAATTATACATTTTCTTTTATGTTG
* *
27867802 TAAATATATAGAATTATACATTTTTTTTTCTATTTTG
1 TAAATATATAGAATTATACA-TTTTCTTT-TATGTTG
27867839 TAAATATATA
1 TAAATATATA
27867849 CCTGTCGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.26
33 1 0.03
34 6 0.15
36 6 0.15
37 16 0.41
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (35 bp):
TAAATATATAGAATTATACATTTTCTTTTATGTTG
Found at i:27868976 original size:6 final size:6
Alignment explanation
Indices: 27868966--27869023 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
27868956 GTGTATATGT
* * ** *
27868966 ATAATA GTAATA CTAATA ATAATA ATAGCA ATAATA ATAATA AAAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
*
27869014 ATAATG ATAA
1 ATAATA ATAA
27869024 ATATTTAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (6 bp):
ATAATA
Found at i:27868991 original size:9 final size:9
Alignment explanation
Indices: 27868966--27869023 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
27868956 GTGTATATGT
*
27868966 ATAATAGTA
1 ATAATAATA
*
27868975 ATACTAATA
1 ATAATAATA
27868984 ATAATAATA
1 ATAATAATA
**
27868993 GCAATAATA
1 ATAATAATA
*
27869002 ATAATAAAA
1 ATAATAATA
*
27869011 ATAATAATG
1 ATAATAATA
27869020 ATAA
1 ATAA
27869024 ATATTTAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (9 bp):
ATAATAATA
Found at i:27869023 original size:15 final size:15
Alignment explanation
Indices: 27868966--27869024 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
27868956 GTGTATATGT
* **
27868966 ATAATAGTAATACTA
1 ATAATAATAATAAAA
**
27868981 ATAATAATAATAGCA
1 ATAATAATAATAAAA
27868996 ATAATAATAATAAAA
1 ATAATAATAATAAAA
*
27869011 ATAATAATGATAAA
1 ATAATAATAATAAA
27869025 TATTTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (15 bp):
ATAATAATAATAAAA
Found at i:27869456 original size:18 final size:18
Alignment explanation
Indices: 27869433--27869472 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
27869423 GCTGCCATTT
27869433 TAAAAAAAAAAAAGAAAA
1 TAAAAAAAAAAAAGAAAA
* *
27869451 TAAAAAAACAACAGAAAA
1 TAAAAAAAAAAAAGAAAA
27869469 TAAA
1 TAAA
27869473 GTAAAAGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (18 bp):
TAAAAAAAAAAAAGAAAA
Found at i:27870623 original size:44 final size:45
Alignment explanation
Indices: 27870547--27870644 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
27870537 AAGACTTGTA
* ** *
27870547 TCTTCGATCTACTTCACCACCAGTATGGGAAGATAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTT
* *
27870592 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTT
27870636 TCTTCGATC
1 TCTTCGATC
27870645 GATTCCACTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 31 0.66
45 16 0.34
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTT
Found at i:27872575 original size:85 final size:85
Alignment explanation
Indices: 27872431--27872609 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
27872421 GGCCGGCCAT
27872431 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
27872496 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
27872516 TAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
27872581 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
27872601 GGGCATGGG
1 GAGCATGGG
27872610 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:27873935 original size:47 final size:47
Alignment explanation
Indices: 27873881--27874522 Score: 936
Period size: 47 Copynumber: 13.6 Consensus size: 47
27873871 TATTTGAATA
* *
27873881 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27873928 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
27873977 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
27874024 AATGTGAA-AGTGTATATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27874073 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27874120 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27874167 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27874214 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27874261 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27874308 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27874355 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27874402 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
27874449 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27874496 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
27874523 TCCCGAAGGG
Statistics
Matches: 557, Mismatches: 31, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 461 0.83
48 3 0.01
49 91 0.16
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:27874400 original size:22 final size:22
Alignment explanation
Indices: 27874373--27874494 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
27874363 CATGTGTATG
27874373 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
27874395 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
27874420 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
27874442 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
27874467 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
27874489 TGTGAT
1 TGTGAT
27874495 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:27887355 original size:3 final size:3
Alignment explanation
Indices: 27887334--27887388 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
27887324 GTGTATATGT
* * **
27887334 ATA ATA GTA ATA CTA ATA ATA ATA ATA ATA GCA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
27887382 ATG ATA A
1 ATA ATA A
27887389 ATATTTTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:27887848 original size:19 final size:17
Alignment explanation
Indices: 27887817--27887854 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
27887807 TGCCGTTTTT
27887817 AAAAAAAAAAGAAAATA
1 AAAAAAAAAAGAAAATA
27887834 AAAAAAACAACAGAAAATA
1 AAAAAAA-AA-AGAAAATA
27887853 AA
1 AA
27887855 GTAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAAGAAAATA
Found at i:27888675 original size:12 final size:12
Alignment explanation
Indices: 27888647--27888693 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
27888637 GCAAGTTTAC
*
27888647 TTGTATACTATAC
1 TTGTATA-TATAT
27888660 TTGTATATATAT
1 TTGTATATATAT
*
27888672 TTGTAAATAT-T
1 TTGTATATATAT
27888683 TATGTATATAT
1 T-TGTATATAT
27888694 GCTTTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 2 0.07
12 21 0.70
13 7 0.23
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (12 bp):
TTGTATATATAT
Found at i:27890102 original size:19 final size:19
Alignment explanation
Indices: 27890075--27890112 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27890065 TAGGTGTCAA
*
27890075 ATTGGTGTGTTGGTTGGAT
1 ATTGATGTGTTGGTTGGAT
27890094 ATTGATGTGTTGGTTGGAT
1 ATTGATGTGTTGGTTGGAT
27890113 TTGCGTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.47
Consensus pattern (19 bp):
ATTGATGTGTTGGTTGGAT
Found at i:27895192 original size:19 final size:19
Alignment explanation
Indices: 27895157--27895215 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
27895147 ATTTTTTAAA
*
27895157 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
27895175 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
27895194 TGA-AAATTATTTTGATTTTT
1 T-ATAAA-TATTTTGAATTTT
27895214 TA
1 TA
27895216 AAAAGTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 7 0.19
19 15 0.42
20 14 0.39
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:27895218 original size:19 final size:19
Alignment explanation
Indices: 27895147--27895218 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
27895137 ATTTTTTAGA
*
27895147 ATTTTTTAAATATAAATTTTGG
1 ATTTTTTAAA-AT-TATTTT-G
*
27895169 AATTTTTATAAA-TATTTTG
1 ATTTTTTA-AAATTATTTTG
*
27895188 AATTTTTGAAAATTATTTTG
1 -ATTTTTTAAAATTATTTTG
27895208 ATTTTTTAAAA
1 ATTTTTTAAAA
27895219 AGTTTTTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 14 0.33
20 18 0.43
22 8 0.19
23 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTTTTAAAATTATTTTG
Found at i:27895226 original size:20 final size:20
Alignment explanation
Indices: 27895162--27895219 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
27895152 TTAAATATAA
*
27895162 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
*
27895182 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTAAAAATT
*
27895202 ATTTTGATTTTTTAAAAA
1 ATTTTGAATTTTTAAAAA
27895220 GTTTTTTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:27895381 original size:23 final size:23
Alignment explanation
Indices: 27895331--27895384 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
27895321 CTCGACTCGA
*
27895331 AACTCGAATTACTTGTTCGAGTT
1 AACTCGAATAACTTGTTCGAGTT
* *
27895354 GACTCGAATAACTTGATTC-ATTT
1 AACTCGAATAACTTG-TTCGAGTT
27895377 AACTCGAA
1 AACTCGAA
27895385 ATTTGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (23 bp):
AACTCGAATAACTTGTTCGAGTT
Found at i:27897465 original size:25 final size:25
Alignment explanation
Indices: 27897437--27897493 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
27897427 ACCTTAGCGC
27897437 GCTCTCTAATTATTAGCACGA-TAGT
1 GCTCTCTAATTATTAGCAC-ATTAGT
*
27897462 GCTCTCCAATTATTAGCACATTAGT
1 GCTCTCTAATTATTAGCACATTAGT
27897487 GCTCTCT
1 GCTCTCT
27897494 GTTAAATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (25 bp):
GCTCTCTAATTATTAGCACATTAGT
Found at i:27902381 original size:31 final size:31
Alignment explanation
Indices: 27902295--27902381 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
27902285 AGGGTTTAAA
* * *
27902295 GTATCAGGTACTATGTACCGGTGATTATGTT
1 GTATCAAGTACTATGTACCGGTGTTTATATT
* * * *
27902326 ATAACAAGTACTTTGTACCAGTGTTTATATT
1 GTATCAAGTACTATGTACCGGTGTTTATATT
*
27902357 GTATCAAGTACTATATACCGGTGTT
1 GTATCAAGTACTATGTACCGGTGTT
27902382 GGATACCTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.39
Consensus pattern (31 bp):
GTATCAAGTACTATGTACCGGTGTTTATATT
Found at i:27905534 original size:14 final size:14
Alignment explanation
Indices: 27905515--27905551 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
27905505 ATCAACTAAT
27905515 TATTTTGATATAT-A
1 TATTTT-ATATATAA
27905529 TATTTTATATATAA
1 TATTTTATATATAA
27905543 TA-TTTATAT
1 TATTTTATAT
27905552 GTCAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TATTTTATATATAA
Found at i:27905903 original size:13 final size:13
Alignment explanation
Indices: 27905885--27905928 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
27905875 AGATAGCGTG
27905885 TTAAAAATATTAA
1 TTAAAAATATTAA
*
27905898 TTAAAAAAATTAA
1 TTAAAAATATTAA
27905911 --AAAAATATTAA
1 TTAAAAATATTAA
*
27905922 ATAAAAA
1 TTAAAAA
27905929 ATACAAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.37
13 17 0.63
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TTAAAAATATTAA
Found at i:27906077 original size:2 final size:2
Alignment explanation
Indices: 27906070--27906106 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
27906060 TCTTTCCAAC
* *
27906070 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27906107 AAAAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:27906386 original size:6 final size:6
Alignment explanation
Indices: 27906375--27906407 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27906365 GGCTCAGATT
27906375 CACCTC CACCTC CACCTC CACCTC CACCTC CAC
1 CACCTC CACCTC CACCTC CACCTC CACCTC CAC
27906408 GTAACCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.67, G:0.00, T:0.15
Consensus pattern (6 bp):
CACCTC
Found at i:27917813 original size:22 final size:22
Alignment explanation
Indices: 27917788--27917833 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
27917778 AATTCCTTTT
*
27917788 AATTTCCTTCTAAAATTCTCTC
1 AATTTCCTTCCAAAATTCTCTC
27917810 AATTTCCTTCCAAAATTCTCTC
1 AATTTCCTTCCAAAATTCTCTC
27917832 AA
1 AA
27917834 ACTCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTCCTTCCAAAATTCTCTC
Found at i:27917911 original size:11 final size:11
Alignment explanation
Indices: 27917891--27917941 Score: 54
Period size: 10 Copynumber: 4.9 Consensus size: 11
27917881 TTTAAAATAA
27917891 TTATAATTTTT
1 TTATAATTTTT
27917902 TTAT-ATTTTT
1 TTATAATTTTT
* **
27917912 TTAAAATAATT
1 TTATAATTTTT
27917923 TTA-AATTTTT
1 TTATAATTTTT
27917933 TTAT-ATTTT
1 TTATAATTTT
27917942 CATCAATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 22 0.67
11 11 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATAATTTTT
Found at i:27917914 original size:30 final size:31
Alignment explanation
Indices: 27917879--27917941 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
27917869 CTCAAATCCA
27917879 TTTTTAAAATAATTAT-AATTTTTTTATATT
1 TTTTTAAAATAATTATAAATTTTTTTATATT
*
27917909 TTTTTAAAATAATTTTAAATTTTTTTATATT
1 TTTTTAAAATAATTATAAATTTTTTTATATT
27917940 TT
1 TT
27917942 CATCAATGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTTAAAATAATTATAAATTTTTTTATATT
Found at i:27919033 original size:7 final size:7
Alignment explanation
Indices: 27919021--27919045 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27919011 AGTCGATTGA
27919021 TATTTAG
1 TATTTAG
27919028 TATTTAG
1 TATTTAG
27919035 TATTTAG
1 TATTTAG
27919042 TATT
1 TATT
27919046 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:27920031 original size:24 final size:24
Alignment explanation
Indices: 27919990--27920044 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
27919980 TGCGGAACCA
**
27919990 GAAGAACCACAACAACCACTGGAG
1 GAAGAACCACAACAACCACCAGAG
*
27920014 GAAGGACCACAATC-ACCACCAGAG
1 GAAGAACCACAA-CAACCACCAGAG
27920038 GAAGAAC
1 GAAGAAC
27920045 AATCGCCGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.45, C:0.29, G:0.22, T:0.04
Consensus pattern (24 bp):
GAAGAACCACAACAACCACCAGAG
Found at i:27920313 original size:28 final size:28
Alignment explanation
Indices: 27920274--27920532 Score: 401
Period size: 28 Copynumber: 9.1 Consensus size: 28
27920264 AAAACCCTAA
27920274 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAAC
* *
27920303 CCTAATCTAACCTAAATTAACTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
27920331 CCTAACCTAACCTAAATTAATTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
27920359 CCTAAACCTAACCTAAAATTAATTAAAAAC
1 CCT-AACCTAACCT-AAATTAATTAAAAAC
*
27920389 CCTAAACCTAACCTAAATTAACTAAAAAC
1 CCT-AACCTAACCTAAATTAATTAAAAAC
* * *
27920418 CATAATCTAACCTAAATTAATTTAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
27920446 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAAC
* *
27920475 CCTAATCTAACCTAAATTAACTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
27920503 CCTAACCTAACCTAAATTAATTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
27920531 CC
1 CC
27920533 CAAGCTGCAA
Statistics
Matches: 211, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
28 125 0.59
29 57 0.27
30 29 0.14
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (28 bp):
CCTAACCTAACCTAAATTAATTAAAAAC
Found at i:27920457 original size:57 final size:56
Alignment explanation
Indices: 27920274--27920532 Score: 419
Period size: 57 Copynumber: 4.5 Consensus size: 56
27920264 AAAACCCTAA
27920274 CCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAAC
* *
27920331 CCTAACCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAAATTAATTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAACCCT-AATCTAACCT-AAATTAACTAAAAAC
* * * *
27920389 CCTAAACCTAACCTAAATTAACTAAAAACCATAATCTAACCTAAATTAATTTAAAAC
1 CCT-AACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAAC
27920446 CCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAAC
27920503 CCTAACCTAACCTAAATTAATTAAAAACCC
1 CCTAACCTAACCTAAATTAATTAAAAACCC
27920533 CAAGCTGCAA
Statistics
Matches: 188, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
56 53 0.28
57 83 0.44
58 26 0.14
59 26 0.14
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (56 bp):
CCTAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAAC
Found at i:27926538 original size:6 final size:6
Alignment explanation
Indices: 27926527--27926551 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27926517 ACTTGCCCTC
27926527 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
27926552 TACGCGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:27933853 original size:20 final size:20
Alignment explanation
Indices: 27933828--27933867 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27933818 CGTAAAATGA
*
27933828 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
27933848 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
27933868 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:27935221 original size:11 final size:12
Alignment explanation
Indices: 27935199--27935225 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27935189 CCAACACTAA
27935199 AAAACTTTTTTT
1 AAAACTTTTTTT
27935211 AAAACTTTTTTT
1 AAAACTTTTTTT
27935223 AAA
1 AAA
27935226 TATTGGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
AAAACTTTTTTT
Found at i:27935890 original size:21 final size:22
Alignment explanation
Indices: 27935860--27935908 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
27935850 TAAGATTCAA
*
27935860 TTTT-TTGAAATTTGAG-TTTT
1 TTTTCTTGAAATTTGAGAATTT
27935880 TTTTCTTGAAATTTGAGAATTT
1 TTTTCTTGAAATTTGAGAATTT
27935902 TTTTCTT
1 TTTTCTT
27935909 TTAATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 4 0.15
21 12 0.46
22 10 0.38
ACGTcount: A:0.20, C:0.04, G:0.12, T:0.63
Consensus pattern (22 bp):
TTTTCTTGAAATTTGAGAATTT
Found at i:27936194 original size:49 final size:49
Alignment explanation
Indices: 27936115--27936211 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
27936105 TTATGCTATG
* * * *
27936115 CATTTCTAAACTTGGTTTTCCACTGCCTACACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACTGCCTACACTCTTACCACTATTTATA
*
27936164 CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTACCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCACTGCCTACACTCTTACCACTATTTAT
27936212 CCCTTCTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACTGCCTACACTCTTACCACTATTTATA
Found at i:27937536 original size:43 final size:43
Alignment explanation
Indices: 27937487--27937572 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
27937477 TCATATTTGA
*
27937487 TTTCTCATCTCATAATCATTTCTCAT-TTTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGT-CATTTCAATAT
*
27937530 TTTCTCATCTCATATTCATTTCTCATATTTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
27937573 CAATCACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 36 0.90
44 4 0.10
ACGTcount: A:0.23, C:0.22, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
Found at i:27938006 original size:26 final size:27
Alignment explanation
Indices: 27937967--27938018 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
27937957 CTCAGTACAT
* *
27937967 ATATATTCATAATCAATATATTTCATA
1 ATATATTCAAAATCAATACATTTCATA
*
27937994 ATATATT-AAAATCAATCCATTTCAT
1 ATATATTCAAAATCAATACATTTCAT
27938019 TTCAATTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (27 bp):
ATATATTCAAAATCAATACATTTCATA
Found at i:27940648 original size:3 final size:3
Alignment explanation
Indices: 27940642--27940676 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27940632 TTCATCACCT
27940642 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
27940677 TTCTTCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:27940648 original size:12 final size:12
Alignment explanation
Indices: 27940628--27940679 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
27940618 GTCATTTCTG
* *
27940628 CTTCTTCATCAC
1 CTTCATCATCAT
27940640 CTTCATCATCAT
1 CTTCATCATCAT
*
27940652 CATCATCATCAT
1 CTTCATCATCAT
*
27940664 CATCATCATCAT
1 CTTCATCATCAT
27940676 CTTC
1 CTTC
27940680 TTCTTCTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.38
Consensus pattern (12 bp):
CTTCATCATCAT
Found at i:27940681 original size:3 final size:3
Alignment explanation
Indices: 27940675--27940717 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
27940665 ATCATCATCA
27940675 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
27940718 TAAGGAGGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:27950114 original size:21 final size:21
Alignment explanation
Indices: 27950088--27950134 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27950078 ATGATGATGA
* * *
27950088 TGAGATTAGTTACTGTAGTGG
1 TGAGATTAGATACTATAATGG
*
27950109 TGAGATTTGATACTATAATGG
1 TGAGATTAGATACTATAATGG
27950130 TGAGA
1 TGAGA
27950135 ATAAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (21 bp):
TGAGATTAGATACTATAATGG
Found at i:27951119 original size:46 final size:46
Alignment explanation
Indices: 27951067--27951532 Score: 618
Period size: 46 Copynumber: 10.6 Consensus size: 46
27951057 TACATATGAT
*
27951067 CACTTATCACTTCTTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCAC-T-TTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
27951113 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
27951159 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
27951204 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
27951250 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
27951296 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
27951332 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
27951378 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
27951414 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
27951460 CACTTATCACTTTCTCACTCGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
27951506 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
27951533 AGTACTCAAA
Statistics
Matches: 378, Mismatches: 19, Indels: 46
0.85 0.04 0.10
Matches are distributed among these distances:
36 57 0.15
38 5 0.01
39 1 0.00
40 4 0.01
41 4 0.01
42 4 0.01
43 1 0.00
44 10 0.03
45 63 0.17
46 229 0.61
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:27951337 original size:36 final size:36
Alignment explanation
Indices: 27951296--27951450 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
27951286 CTAAGGCTAA
27951296 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
27951332 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
27951374 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
27951414 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
27951450 C
1 C
27951451 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:27951357 original size:128 final size:130
Alignment explanation
Indices: 27951067--27951532 Score: 564
Period size: 128 Copynumber: 3.6 Consensus size: 130
27951057 TACATATGAT
*
27951067 CACTTATCACTTCTTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCA
1 CACTTATCACTT-TT-TCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCA
27951130 CTTGATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAG
64 CTTGATCAGATAAG-GTAGCTAAGGCTA-CACTTATCACTTTCTCACTTGATCAGATAAG-GTA-
27951195 CTAGGCTAC
125 CTAGG---C
* * *
27951204 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
*
27951269 TGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACTTGATCAGATAA-GTA-TA-
66 TGATCAGATAAG-GTAGCTAAGGCT-ACACTTATCACTTTCTCACTTGATCAGATAAGGTACTAG
27951331 G-
129 GC
* *
27951332 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
*
27951397 TGATCAGATAA-GT-G-T-A-G---CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAA
66 TGATCAGATAAGGTAGCTAAGGCTACACTTATCACTTTCTCACTTGATCAGATAAG-GTA-CT-A
*
27951454 TGCTAC
128 -G--GC
* * * *
27951460 CACTTATCACTTTCTCACTCGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
27951525 TGATCAGA
66 TGATCAGA
27951533 AGTACTCAAA
Statistics
Matches: 298, Mismatches: 18, Indels: 35
0.85 0.05 0.10
Matches are distributed among these distances:
118 29 0.10
120 3 0.01
122 2 0.01
123 2 0.01
124 1 0.00
125 1 0.00
126 2 0.01
128 139 0.47
132 1 0.00
133 2 0.01
135 5 0.02
136 20 0.07
137 90 0.30
138 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (130 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGGTAGCTAAGGCTACACTTATCACTTTCTCACTTGATCAGATAAGGTACTAGGC
Found at i:27951387 original size:82 final size:82
Alignment explanation
Indices: 27951250--27951496 Score: 422
Period size: 82 Copynumber: 3.0 Consensus size: 82
27951240 CTAAGGCTAC
* * *
27951250 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
27951315 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
*
27951332 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
27951397 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
27951414 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
27951479 CGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
27951496 C
1 C
27951497 TAATGCTACC
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 156 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:27954899 original size:14 final size:14
Alignment explanation
Indices: 27954880--27954918 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
27954870 TTGTTTCACT
*
27954880 GAAAATGGCTTTCG
1 GAAAATGACTTTCG
* *
27954894 GAAAATGATTTTTG
1 GAAAATGACTTTCG
27954908 GAAAATGACTT
1 GAAAATGACTT
27954919 ACTTTTTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTTCG
Found at i:27955676 original size:23 final size:25
Alignment explanation
Indices: 27955648--27955705 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
27955638 TTGAACATCA
27955648 ATAATTT-G-AGTTTTAAATATGTC
1 ATAATTTAGCAGTTTTAAATATGTC
*
27955671 ATAATTTAAGCATTTTTAAATATGTC
1 ATAATTT-AGCAGTTTTAAATATGTC
*
27955697 CTAAGTTTA
1 ATAA-TTTA
27955706 TTAATTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 7 0.24
25 1 0.03
26 18 0.62
27 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (25 bp):
ATAATTTAGCAGTTTTAAATATGTC
Found at i:27957312 original size:15 final size:15
Alignment explanation
Indices: 27957292--27957343 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
27957282 ACTACAAAAC
27957292 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
27957307 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
27957326 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
27957341 ATT
1 ATT
27957344 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Done.