Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 167 of 195
Found at i:27692706 original size:21 final size:22
Alignment explanation
Indices: 27692682--27692723 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27692672 ATATTACAAG
*
27692682 CATTAACAAATT-TAACTAAAT
1 CATTAACAAATTCAAACTAAAT
*
27692703 CATTCACAAATTCAAACTAAA
1 CATTAACAAATTCAAACTAAA
27692724 GACATATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (22 bp):
CATTAACAAATTCAAACTAAAT
Found at i:27693155 original size:15 final size:15
Alignment explanation
Indices: 27693122--27693171 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
27693112 TAAATCTCAT
*
27693122 AAAATAATATATTTA
1 AAAATAATATATTAA
27693137 AAAATAATA-ATCTAA
1 AAAATAATATAT-TAA
27693152 AAAATGAAT-TAGTTAA
1 AAAAT-AATATA-TTAA
27693168 AAAA
1 AAAA
27693172 GATAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 2 0.07
15 16 0.53
16 11 0.37
17 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (15 bp):
AAAATAATATATTAA
Found at i:27693301 original size:15 final size:14
Alignment explanation
Indices: 27693282--27693329 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
27693272 GAAATAATAA
27693282 AATAT-TAACAAAT
1 AATATATAACAAAT
*
27693295 AATATATAACAACAA
1 AATATATAACAA-AT
*
27693310 AATATAATAACTAAT
1 AATAT-ATAACAAAT
27693325 AATAT
1 AATAT
27693330 GCTAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
15 12 0.41
16 6 0.21
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (14 bp):
AATATATAACAAAT
Found at i:27697305 original size:36 final size:37
Alignment explanation
Indices: 27697258--27697424 Score: 128
Period size: 36 Copynumber: 4.5 Consensus size: 37
27697248 TGTTGTCCTT
27697258 AATCATGCTATCACATAATGAAATTAATCAT-AAGAA
1 AATCATGCTATCACATAATGAAATTAATCATGAAGAA
** * * * * ** **
27697294 AATCATGCTATCAGACATTTTCAAGTTGAT-TTGTTGTCCCT
1 AATCATGCTATC--ACATAATGAAATTAATCATGAAG---AA
27697335 AATCATGCTATCACATAAT-AAAGTTAATCAT-AAGAA
1 AATCATGCTATCACATAATGAAA-TTAATCATGAAGAA
**
27697371 AATCATGCTATCACATAATGATGTTAATCATGAA-AA
1 AATCATGCTATCACATAATGAAATTAATCATGAAGAA
*
27697407 AATCATGCTATAACATAA
1 AATCATGCTATCACATAA
27697425 GTATGTGTTT
Statistics
Matches: 99, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
36 58 0.59
37 4 0.04
38 14 0.14
39 10 0.10
40 1 0.01
41 12 0.12
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (37 bp):
AATCATGCTATCACATAATGAAATTAATCATGAAGAA
Found at i:27697368 original size:77 final size:77
Alignment explanation
Indices: 27697241--27697383 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 77
27697231 ATGTTTTTAG
*
27697241 GTTGATTTGTTGTCCTTAATCATGCTATCACATAATGAAATTAATCATAAGAAAATCATGCTATC
1 GTTGATTTGTTGTCCCTAATCATGCTATCACATAATGAAATTAATCATAAGAAAATCATGCTATC
27697306 AGACATTTTCAA
66 AGACATTTTCAA
27697318 GTTGATTTGTTGTCCCTAATCATGCTATCACATAAT-AAAGTTAATCATAAGAAAATCATGCTAT
1 GTTGATTTGTTGTCCCTAATCATGCTATCACATAATGAAA-TTAATCATAAGAAAATCATGCTAT
27697382 CA
65 CA
27697384 CATAATGATG
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 3 0.05
77 61 0.95
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (77 bp):
GTTGATTTGTTGTCCCTAATCATGCTATCACATAATGAAATTAATCATAAGAAAATCATGCTATC
AGACATTTTCAA
Found at i:27699537 original size:20 final size:20
Alignment explanation
Indices: 27699499--27699537 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27699489 AGAGTATGTC
*
27699499 ATTTATTTTTATTGTTAATG
1 ATTTATTCTTATTGTTAATG
27699519 ATTTATTCTT-TTGTATAAT
1 ATTTATTCTTATTGT-TAAT
27699538 TGTTGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (20 bp):
ATTTATTCTTATTGTTAATG
Found at i:27705298 original size:24 final size:24
Alignment explanation
Indices: 27705271--27705319 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
27705261 GATTATTCAA
*
27705271 AAATGATCTTGATGAAGAATCTAG
1 AAATGATATTGATGAAGAATCTAG
*
27705295 AAATGATATTGATGAAGAATTTAG
1 AAATGATATTGATGAAGAATCTAG
27705319 A
1 A
27705320 GTTGAACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (24 bp):
AAATGATATTGATGAAGAATCTAG
Found at i:27708725 original size:162 final size:164
Alignment explanation
Indices: 27708541--27708862 Score: 578
Period size: 164 Copynumber: 2.0 Consensus size: 164
27708531 AAAGAGGATA
27708541 CACATAGTTTTAAACGATTGAATGCAGAAGGTTTAAGTAGTTGCACATGAGAATTACA-T-TATA
1 CACATAGTTTTAAACGATTGAATGCAGAAGGTTTAAGTAGTTGCACATGAGAATTACATTATATA
27708604 AAAAAGCAAAAAAAACAGTTAAAAATTTTATAAACTAAAAGACAAGATGAAAGAAATAAAATGTA
66 AAAAAGCAAAAAAAACAGTTAAAAATTTTATAAACTAAAAGACAAGATGAAAGAAATAAAATGTA
*
27708669 AATGAGAATGA-CTCTAAAGTGTTTTAGAAATATT
131 AATGAGAAT-ACCTCTAAAGTATTTTAGAAATATT
*
27708703 CACATAGTTTTAAACGATTGAATGCAGAAGGTTTAAGTAGTTGTACATGAGAATTACATTATATA
1 CACATAGTTTTAAACGATTGAATGCAGAAGGTTTAAGTAGTTGCACATGAGAATTACATTATATA
* *
27708768 AAAAAGCAAAAAAAATAGTTAAAAATTTTATAGACTAAAAGACAAGATGAAAGAAATAAAATGTA
66 AAAAAGCAAAAAAAACAGTTAAAAATTTTATAAACTAAAAGACAAGATGAAAGAAATAAAATGTA
27708833 AATGAGAATACCTCTAAAGTATTTTAGAAA
131 AATGAGAATACCTCTAAAGTATTTTAGAAA
27708863 GACATAGACA
Statistics
Matches: 153, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
162 57 0.37
163 2 0.01
164 94 0.61
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (164 bp):
CACATAGTTTTAAACGATTGAATGCAGAAGGTTTAAGTAGTTGCACATGAGAATTACATTATATA
AAAAAGCAAAAAAAACAGTTAAAAATTTTATAAACTAAAAGACAAGATGAAAGAAATAAAATGTA
AATGAGAATACCTCTAAAGTATTTTAGAAATATT
Found at i:27715241 original size:20 final size:20
Alignment explanation
Indices: 27715216--27715253 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27715206 AAAATACTAG
*
27715216 TATACCTACAAATCCAAACT
1 TATACCTACAAACCCAAACT
27715236 TATACCTACAAACCCAAA
1 TATACCTACAAACCCAAA
27715254 ACCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (20 bp):
TATACCTACAAACCCAAACT
Found at i:27718623 original size:17 final size:17
Alignment explanation
Indices: 27718597--27718632 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27718587 TCACTTATTT
27718597 AATTTAACAAACTCTAA
1 AATTTAACAAACTCTAA
* *
27718614 AATTTTACAAATTCTAA
1 AATTTAACAAACTCTAA
27718631 AA
1 AA
27718633 CTATAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTTAACAAACTCTAA
Found at i:27725172 original size:29 final size:26
Alignment explanation
Indices: 27725113--27725166 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
27725103 CTAAAAGCCT
* *
27725113 TTACATAATAAACTTTTTTAGATACA
1 TTACATAATAAACCTTCTTAGATACA
27725139 TTACATAATAAACCTTCTTAGATACA
1 TTACATAATAAACCTTCTTAGATACA
27725165 TT
1 TT
27725167 GTTACAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.41
Consensus pattern (26 bp):
TTACATAATAAACCTTCTTAGATACA
Found at i:27728608 original size:17 final size:19
Alignment explanation
Indices: 27728575--27728609 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27728565 TAAAATGTTA
27728575 ATATTTTATAATATTAAAT
1 ATATTTTATAATATTAAAT
27728594 ATATTTTA-AAT-TTAAA
1 ATATTTTATAATATTAAA
27728610 ATTAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTTATAATATTAAAT
Found at i:27733270 original size:17 final size:17
Alignment explanation
Indices: 27733228--27733277 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
27733218 ATAAATAATC
*
27733228 TTTTTAT-TATCTAATAA
1 TTTTTATATAT-TAAAAA
27733245 TTGTTTATATATTAAAAA
1 TT-TTTATATATTAAAAA
*
27733263 TTTTTATATAATAAA
1 TTTTTATATATTAAA
27733278 TGTATTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 14 0.48
18 12 0.41
19 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTTTATATATTAAAAA
Found at i:27735562 original size:2 final size:2
Alignment explanation
Indices: 27735557--27735583 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27735547 TATATACAGT
27735557 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
27735584 TCAAATGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27736353 original size:49 final size:49
Alignment explanation
Indices: 27736280--27736379 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
27736270 TTAATCAAGA
*
27736280 CATGCATAACTTAATAAGTTTAACCCAGCCCACTACATGTTGGATTAGG
1 CATGCATAACTTAATAAGTCTAACCCAGCCCACTACATGTTGGATTAGG
*
27736329 CATGCATAACTTAATAAGTCTAACCCAGCCCATTACATGTTGGATTAGG
1 CATGCATAACTTAATAAGTCTAACCCAGCCCACTACATGTTGGATTAGG
27736378 CA
1 CA
27736380 AGGCATGACC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (49 bp):
CATGCATAACTTAATAAGTCTAACCCAGCCCACTACATGTTGGATTAGG
Found at i:27759118 original size:2 final size:2
Alignment explanation
Indices: 27759111--27759141 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27759101 TTAAAGAAAA
*
27759111 AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
27759142 AAGACGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27766960 original size:21 final size:20
Alignment explanation
Indices: 27766936--27766974 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27766926 TAATATTATT
*
27766936 TAAAATTTTAATAGAAAATTA
1 TAAAAATTTAATA-AAAATTA
*
27766957 TAAAAATTTAGTAAAAAT
1 TAAAAATTTAATAAAAAT
27766975 AAAAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAAAATTTAATAAAAATTA
Found at i:27776644 original size:97 final size:97
Alignment explanation
Indices: 27776543--27776723 Score: 281
Period size: 97 Copynumber: 1.9 Consensus size: 97
27776533 AGAAAAAATA
* *
27776543 TTTTTATGGAAACAATATAAAATGACATTTTAAATGAAAAAATAATATTGAAAACTTTGTATAGA
1 TTTTTATGGAAACAATATAAAATGACATTTTAAATGAAAAAATAATATTGAAAACTCTATATAGA
27776608 TGTTGAGGAGAATTCAAAACTGTGTGTGTGTG
66 TGTTGAGGAGAATTCAAAACTGTGTGTGTGTG
* ** * * * *
27776640 TTTTTTTTTAAATAATTTTAAATGATATTTTAAATGAAAAAATAATATTGAAAACTCTATATAGA
1 TTTTTATGGAAACAATATAAAATGACATTTTAAATGAAAAAATAATATTGAAAACTCTATATAGA
27776705 TGTTGAGGAGAATTCAAAA
66 TGTTGAGGAGAATTCAAAA
27776724 TTATGTGTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 75 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (97 bp):
TTTTTATGGAAACAATATAAAATGACATTTTAAATGAAAAAATAATATTGAAAACTCTATATAGA
TGTTGAGGAGAATTCAAAACTGTGTGTGTGTG
Found at i:27776669 original size:12 final size:11
Alignment explanation
Indices: 27776645--27776677 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
27776635 GTGTGTTTTT
27776645 TTTTAAAT-AA
1 TTTTAAATGAA
27776655 TTTTAAATGATA
1 TTTTAAATGA-A
27776667 TTTTAAATGAA
1 TTTTAAATGAA
27776678 AAAATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (11 bp):
TTTTAAATGAA
Found at i:27776731 original size:97 final size:93
Alignment explanation
Indices: 27776562--27776750 Score: 288
Period size: 97 Copynumber: 2.0 Consensus size: 93
27776552 AAACAATATA
* *
27776562 AAATGACATTTTAAATGAAAAAATAATATTGAAAACTTTGTATAGATGTTGAGGAGAATTCAAAA
1 AAATGACATTTTAAATGAAAAAATAATATTGAAAACTCTATATAGATGTTGAGGAGAATTCAAAA
* *
27776627 CTGTGTGTGTGTGTTTTTTTTTAAATAATTTT
66 C--TATGTGT-T-TTTTTTTTAAAATAATTTT
*
27776659 AAATGATATTTTAAATGAAAAAATAATATTGAAAACTCTATATAGATGTTGAGGAGAATTCAAAA
1 AAATGACATTTTAAATGAAAAAATAATATTGAAAACTCTATATAGATGTTGAGGAGAATTCAAAA
*
27776724 TTATGTGTTTTTTTTTTAAAATAATTT
66 CTATGTGTTTTTTTTTTAAAATAATTT
27776751 CGCTTAGATA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
93 17 0.20
94 1 0.01
95 6 0.07
97 62 0.72
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (93 bp):
AAATGACATTTTAAATGAAAAAATAATATTGAAAACTCTATATAGATGTTGAGGAGAATTCAAAA
CTATGTGTTTTTTTTTTAAAATAATTTT
Found at i:27777328 original size:23 final size:23
Alignment explanation
Indices: 27777302--27777352 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
27777292 TTGAAACCCT
*
27777302 AAAACACT-AAATCTTAAAATCTC
1 AAAACACTAAAAT-TCAAAATCTC
**
27777325 AAAACTTTAAAATTCAAAATCTC
1 AAAACACTAAAATTCAAAATCTC
27777348 AAAAC
1 AAAAC
27777353 CATCACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAACACTAAAATTCAAAATCTC
Found at i:27777351 original size:15 final size:16
Alignment explanation
Indices: 27777310--27777351 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27777300 CTAAAACACT
27777310 AAATCTTAAAATCTCA
1 AAATCTTAAAATCTCA
27777326 AAA-CTTTAAAAT-TCA
1 AAATC-TTAAAATCTCA
*
27777341 AAATCTCAAAA
1 AAATCTTAAAA
27777352 CCATCACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATCTTAAAATCTCA
Found at i:27784350 original size:27 final size:26
Alignment explanation
Indices: 27784298--27784355 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
27784288 ATAAAATAAG
* *
27784298 ATAATATTATTTAATTTAATCTTATT
1 ATAATATTATTTAATATAATCCTATT
*
27784324 CATAATATTATTTTATCAT-ATCCTATT
1 -ATAATATTATTTAAT-ATAATCCTATT
27784351 ATAAT
1 ATAAT
27784356 CTTTTACACC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 21 0.78
28 1 0.04
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAATATTATTTAATATAATCCTATT
Found at i:27786717 original size:2 final size:2
Alignment explanation
Indices: 27786710--27786734 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27786700 CTTTCATAGA
27786710 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27786735 CTTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27799187 original size:48 final size:48
Alignment explanation
Indices: 27799135--27799232 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
27799125 TGACTTGTCC
* * *
27799135 TCCTCATCAACATTTTCACTAATTAATTCTTCTAAGTCTAAACCTATT
1 TCCTCATCAACATATTCACCAATCAATTCTTCTAAGTCTAAACCTATT
* * * *
27799183 TCCTCTTCAACATATTCACCCATCAATTTTTCTGAGTCTAAACCTATT
1 TCCTCATCAACATATTCACCAATCAATTCTTCTAAGTCTAAACCTATT
27799231 TC
1 TC
27799233 TTCTGAGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.29, C:0.28, G:0.03, T:0.41
Consensus pattern (48 bp):
TCCTCATCAACATATTCACCAATCAATTCTTCTAAGTCTAAACCTATT
Found at i:27804340 original size:22 final size:22
Alignment explanation
Indices: 27804314--27804357 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
27804304 TGTATATTTA
*
27804314 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
27804336 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
27804358 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:27815089 original size:20 final size:18
Alignment explanation
Indices: 27815064--27815110 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
27815054 ATTCAACTTT
27815064 AAAAAAATTCTATATAATGA
1 AAAAAAATTCTAT-TAAT-A
*
27815084 AAAAAAAATCTATTAATA
1 AAAAAAATTCTATTAATA
*
27815102 AAAATAATT
1 AAAAAAATT
27815111 ATAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.33
19 4 0.17
20 12 0.50
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAAAATTCTATTAATA
Found at i:27821747 original size:15 final size:15
Alignment explanation
Indices: 27821727--27821756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27821717 ATCATGGGTT
*
27821727 TTAAAAAAGCAAAAA
1 TTAAAAAAACAAAAA
27821742 TTAAAAAAACAAAAA
1 TTAAAAAAACAAAAA
27821757 AAGGACAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (15 bp):
TTAAAAAAACAAAAA
Found at i:27822487 original size:12 final size:12
Alignment explanation
Indices: 27822472--27822514 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 12
27822462 AATTAAATCT
27822472 TTTTAAAAATTA
1 TTTTAAAAATTA
27822484 TTTT-AAAA-TA
1 TTTTAAAAATTA
27822494 -TTTAAAAATATA
1 TTTTAAAAAT-TA
27822506 TTTTAAAAA
1 TTTTAAAAA
27822515 ATTAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.11
10 6 0.22
11 4 0.15
12 6 0.22
13 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTTAAAAATTA
Found at i:27822499 original size:21 final size:22
Alignment explanation
Indices: 27822473--27822513 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
27822463 ATTAAATCTT
27822473 TTTAAAAAT-TATTTTAAAATA
1 TTTAAAAATATATTTTAAAATA
27822494 TTTAAAAATATATTTTAAAA
1 TTTAAAAATATATTTTAAAA
27822514 AATTAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAAAAATATATTTTAAAATA
Found at i:27822519 original size:21 final size:21
Alignment explanation
Indices: 27822474--27822519 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27822464 TTAAATCTTT
*
27822474 TTAAAAATTATTTTAAAATAT
1 TTAAAAATTATTTTAAAATAA
27822495 TTAAAAATATATTTTAAAA-AA
1 TTAAAAAT-TATTTTAAAATAA
27822516 TTAA
1 TTAA
27822520 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAAATTATTTTAAAATAA
Found at i:27824547 original size:18 final size:19
Alignment explanation
Indices: 27824514--27824549 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27824504 ATATCTTTTC
*
27824514 TTTATCTTTTATTTATTTA
1 TTTATCTTTGATTTATTTA
27824533 TTTAT-TTTGATTTATTT
1 TTTATCTTTGATTTATTT
27824550 TCATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTATCTTTGATTTATTTA
Found at i:27824874 original size:15 final size:14
Alignment explanation
Indices: 27824854--27824884 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
27824844 CCAAAAATAT
27824854 TTTATTTATTATTTA
1 TTTATTTATT-TTTA
27824869 TTTATTTATTTTTA
1 TTTATTTATTTTTA
27824883 TT
1 TT
27824885 GTTTAGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:27833118 original size:3 final size:3
Alignment explanation
Indices: 27833110--27833250 Score: 142
Period size: 3 Copynumber: 46.7 Consensus size: 3
27833100 CTATATGGTC
27833110 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * * *
27833158 -TG GTT TTGT ATAT ATT ATA ATAT AGT AGT ATT AAT GTC ACT ATT ATT
1 ATT ATT AT-T AT-T ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
*
27833205 A-T ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
27833251 ATTTTCATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
2 3 0.03
3 106 0.92
4 6 0.05
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:27833702 original size:21 final size:21
Alignment explanation
Indices: 27833678--27833727 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
27833668 TTTTGGAAAT
* * *
27833678 AATTTGGGAAAAATTTAGAGA
1 AATTTGGGAAAAATTCAAACA
*
27833699 AATTTGAGAAAAATTCAAACA
1 AATTTGGGAAAAATTCAAACA
27833720 AATTTGGG
1 AATTTGGG
27833728 TTTTTTGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (21 bp):
AATTTGGGAAAAATTCAAACA
Found at i:27834186 original size:5 final size:5
Alignment explanation
Indices: 27834115--27834171 Score: 57
Period size: 5 Copynumber: 11.8 Consensus size: 5
27834105 CAATCGTAGG
* * *
27834115 TTTTC TTTT- TTTCA TTTTA -TTT- TTATA TTTTGA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA
27834163 TTTTA TTTT
1 TTTTA TTTT
27834172 TAACCCATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 8 0.18
5 31 0.70
6 5 0.11
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:27834285 original size:3 final size:3
Alignment explanation
Indices: 27834279--27834317 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
27834269 AAATTATACA
27834279 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27834318 CTTTTTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27834351 original size:24 final size:24
Alignment explanation
Indices: 27834300--27834353 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
27834290 TAATAATAAT
* * *
27834300 AATAATAATAATAATAATCTTTTT
1 AATAAAAATAATAAAAATCTTTTA
27834324 AATAAAAATAA-AAAAATCTTTTCA
1 AATAAAAATAATAAAAATCTTTT-A
27834348 AATAAA
1 AATAAA
27834354 CGAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAAAAATAATAAAAATCTTTTA
Found at i:27838735 original size:20 final size:20
Alignment explanation
Indices: 27838710--27838768 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
27838700 CAGGTCCGGG
27838710 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
27838730 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
27838750 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
27838769 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:27838944 original size:3 final size:3
Alignment explanation
Indices: 27838936--27838964 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27838926 AGTTATATAT
27838936 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27838965 TTTGTAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27839527 original size:31 final size:31
Alignment explanation
Indices: 27839458--27839528 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
27839448 GGAAATTTCC
* *
27839458 AGATTCCGGCGAAAATTCCGGCGACATTTGA
1 AGATTCCGGCGAAAATTCCGGCGAAACTTGA
** *
27839489 ATTTTCCGGC-ACAAATTTCGGCGAAACTTGA
1 AGATTCCGGCGA-AAATTCCGGCGAAACTTGA
27839520 AGATTCCGG
1 AGATTCCGG
27839529 TGACCAACCC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (31 bp):
AGATTCCGGCGAAAATTCCGGCGAAACTTGA
Found at i:27839607 original size:19 final size:19
Alignment explanation
Indices: 27839583--27839629 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
27839573 TTCCGGCCAT
27839583 ATTCCGGCAAAAATTCCAG
1 ATTCCGGCAAAAATTCCAG
* * *
27839602 ATTCCGGCGACATTTCCAG
1 ATTCCGGCAAAAATTCCAG
*
27839621 AATCCGGCA
1 ATTCCGGCA
27839630 CCGGTGTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (19 bp):
ATTCCGGCAAAAATTCCAG
Found at i:27842570 original size:11 final size:11
Alignment explanation
Indices: 27842556--27842596 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
27842546 AAAAGATGAT
27842556 GAAAAAAAAAA
1 GAAAAAAAAAA
27842567 GAAAAAGAAAAA
1 GAAAAA-AAAAA
* *
27842579 GAAAGAAAGAA
1 GAAAAAAAAAA
27842590 GAAAAAA
1 GAAAAAA
27842597 TGAGAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:27842571 original size:6 final size:6
Alignment explanation
Indices: 27842556--27842595 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
27842546 AAAAGATGAT
27842556 GAAAAA -AAAAA GAAAAA GAAAAA G--AAA GAAAGAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA-AA GAAAAA
27842596 ATGAGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.13
5 5 0.17
6 15 0.50
7 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:27842576 original size:17 final size:17
Alignment explanation
Indices: 27842541--27842596 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
27842531 GGGAAGAATG
** *
27842541 AAAAAAAAAGATGATGA
1 AAAAAAAAAGAAAAAGA
27842558 AAAAAAAAAGAAAAAG-
1 AAAAAAAAAGAAAAAGA
*
27842574 AAAAAGAAAGAAAGAAGA
1 AAAAAAAAAGAAA-AAGA
27842592 AAAAA
1 AAAAA
27842597 TGAGAAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 12 0.36
17 16 0.48
18 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:27843885 original size:42 final size:41
Alignment explanation
Indices: 27843813--27844346 Score: 726
Period size: 41 Copynumber: 13.0 Consensus size: 41
27843803 GTCTAGGAGT
* * *
27843813 ATTTACTTTTCCAAGT-TTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
27843853 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
27843895 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
27843937 ATTTACTTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
27843978 ATTTATTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
27844019 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
27844059 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
27844100 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
27844141 ATTTACTTTCCAAAAGTCGTGGTACCTCTATTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
27844183 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
27844223 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
27844265 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * * **
27844307 ATTTATTTTTCAAAGTCGTAGAGCCTCTGTCAAGAGGAGC
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
27844347 TAAAAAAAAA
Statistics
Matches: 457, Mismatches: 24, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
39 4 0.01
40 90 0.20
41 176 0.39
42 175 0.38
43 12 0.03
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:27844234 original size:124 final size:123
Alignment explanation
Indices: 27843813--27844322 Score: 755
Period size: 124 Copynumber: 4.1 Consensus size: 123
27843803 GTCTAGGAGT
* * * * *
27843813 ATTTACTTTTCCAAGTTTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTAC
*
27843878 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
27843937 ATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAGTTCCGT--
1 ATTTAC-TTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-T-CGTGG
* *
27843999 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
63 TACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
27844059 ATTTACTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGT
* * *
27844122 ACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAAGTCGTGGTACCTCTATTTAGAGGAGCA
64 ACCTCTGTTTAGAGGAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
27844183 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTAC
27844248 CTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
27844307 ATTTATTTTTCAAAGT
1 ATTTACTTTTCAAAGT
27844323 CGTAGAGCCT
Statistics
Matches: 350, Mismatches: 21, Indels: 30
0.87 0.05 0.07
Matches are distributed among these distances:
120 7 0.02
121 12 0.03
122 87 0.25
123 35 0.10
124 154 0.44
125 52 0.15
126 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (123 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTAC
CTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:27844503 original size:20 final size:20
Alignment explanation
Indices: 27844478--27844536 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
27844468 CAGGTCCGGG
27844478 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
27844498 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
27844518 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
27844537 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:27844849 original size:11 final size:12
Alignment explanation
Indices: 27844828--27844861 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
27844818 AATTATCTAG
*
27844828 ATTTTTTTTTTA
1 ATTTTTATTTTA
27844840 A-TTTTATTTTA
1 ATTTTTATTTTA
27844851 ATTTTTATTTT
1 ATTTTTATTTT
27844862 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:27845335 original size:19 final size:19
Alignment explanation
Indices: 27845311--27845354 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
27845301 TCCGGCCAAT
27845311 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
*
27845330 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
27845349 ATCCGG
1 TTCCGG
27845355 TACCGGCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:27845585 original size:5 final size:5
Alignment explanation
Indices: 27845575--27845602 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
27845565 TTCAGCCCCT
27845575 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
27845603 CGATCCGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.43, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:27845629 original size:1 final size:1
Alignment explanation
Indices: 27845623--27845647 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
27845613 CCGCTCCAGG
27845623 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
27845648 GACTTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:27846141 original size:156 final size:157
Alignment explanation
Indices: 27845678--27846141 Score: 761
Period size: 160 Copynumber: 2.9 Consensus size: 157
27845668 TTTTTTTTTC
* * *
27845678 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAATAGTAG-TTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
*
27845742 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
* *
27845807 CGATAATTAATTACTTGGCTGATTTTGA
130 CGATAATTAATTACTTGGTTGATCTTGA
27845835 TTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
1 ---TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
27845900 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
63 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
*
27845965 TTCGATAATTAATTAATTGGTTGATCTTGA
128 TTCGATAATTAATTACTTGGTTGATCTTGA
*
27845995 -TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
*
27846059 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
* * * *
27846124 AACAACTAACTACTTGGT
131 GATAATTAATTACTTGGT
27846142 AAAATTTTAA
Statistics
Matches: 289, Mismatches: 14, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
156 140 0.48
159 8 0.03
160 141 0.49
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (157 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
GATAATTAATTACTTGGTTGATCTTGA
Found at i:27848398 original size:19 final size:19
Alignment explanation
Indices: 27848374--27848417 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
27848364 AACTTACGAA
27848374 TTTAATCAAATTTTTA-TAT
1 TTTAAT-AAATTTTTATTAT
*
27848393 TTTAATATATTTTTATTAT
1 TTTAATAAATTTTTATTAT
27848412 TTTAAT
1 TTTAAT
27848418 TAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATAAATTTTTATTAT
Found at i:27848468 original size:26 final size:24
Alignment explanation
Indices: 27848430--27848495 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 24
27848420 ATAAAATATG
* * *
27848430 TAAAATTTGAATTTATATTCAAGCA
1 TAAAAATTAAATTTATATT-AAACA
* *
27848455 TAAATAATTAAATTTTTATTAAATA
1 TAAA-AATTAAATTTATATTAAACA
27848480 TAAAAATTAAATTTAT
1 TAAAAATTAAATTTAT
27848496 TTTTATATGC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 11 0.32
25 11 0.32
26 12 0.35
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (24 bp):
TAAAAATTAAATTTATATTAAACA
Found at i:27848608 original size:18 final size:18
Alignment explanation
Indices: 27848585--27848621 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27848575 ATAAACTCAA
27848585 TCGAATTCAAA-TCAAATT
1 TCGAA-TCAAACTCAAATT
27848603 TCGAATCAAACTCAAATT
1 TCGAATCAAACTCAAATT
27848621 T
1 T
27848622 AAATTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (18 bp):
TCGAATCAAACTCAAATT
Found at i:27848895 original size:23 final size:26
Alignment explanation
Indices: 27848830--27848895 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 26
27848820 TATTTTATTT
27848830 AAATAAATACTTATATTTTATTACATTC
1 AAATAAATACTTA-A-TTTATTACATTC
*
27848858 AAATAAAT-TTATAATTTA-TA-A-TC
1 AAATAAATACT-TAATTTATTACATTC
27848881 AAATAAATACTTAAT
1 AAATAAATACTTAAT
27848896 CTTTAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
23 14 0.41
24 2 0.06
25 2 0.06
26 4 0.12
27 2 0.06
28 10 0.29
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATAAATACTTAATTTATTACATTC
Found at i:27848947 original size:17 final size:17
Alignment explanation
Indices: 27848902--27848941 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
27848892 TAATCTTTAA
27848902 TTTACAATTAAATAAACT
1 TTTA-AATTAAATAAACT
*
27848920 TTTAAAATAAATAAATCT
1 TTTAAATTAAATAAA-CT
27848938 TTTA
1 TTTA
27848942 TTTAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAATTAAATAAACT
Found at i:27850666 original size:23 final size:22
Alignment explanation
Indices: 27850640--27850689 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
27850630 ATTTTAAGTT
* *
27850640 TTTATATTTATGCATGATAAATG
1 TTTAAATTTAT-CATGATAAATA
* *
27850663 TTTAAATTTGTTATGATAAATA
1 TTTAAATTTATCATGATAAATA
27850685 TTTAA
1 TTTAA
27850690 TTATTTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (22 bp):
TTTAAATTTATCATGATAAATA
Found at i:27850762 original size:3 final size:3
Alignment explanation
Indices: 27850754--27850786 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
27850744 AAATGCTTAA
27850754 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27850787 TTTTATTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27851033 original size:21 final size:22
Alignment explanation
Indices: 27850993--27851033 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27850983 AGAGATGTTG
*
27850993 CATTTTCTTAAAAACGAAACTT
1 CATTTTCTTAAAAACAAAACTT
*
27851015 CATTTT-TTAAAACCAAAAC
1 CATTTTCTTAAAAACAAAAC
27851034 CAGGATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTTTCTTAAAAACAAAACTT
Found at i:27851085 original size:15 final size:14
Alignment explanation
Indices: 27851047--27851214 Score: 76
Period size: 14 Copynumber: 11.6 Consensus size: 14
27851037 GATTCTAAAT
*
27851047 CCCTAAAATCCAAAA
1 CCCTAAAATTC-AAA
* *
27851062 TCCTTAAATTCAAA
1 CCCTAAAATTCAAA
27851076 CCTCTAAAATTTCGAAA
1 CC-CTAAAA-TTC-AAA
* * *
27851093 CCTTAAACCTTTAAA
1 CCCTAAA-ATTCAAA
* *
27851108 CCCTTAAATCCAAA
1 CCCTAAAATTCAAA
27851122 CCCT-AAATCTCAAA
1 CCCTAAAAT-TCAAA
27851136 -CCTAAAATTTCAAA
1 CCCTAAAA-TTCAAA
* **
27851150 ACCTAAAA-TCCCA
1 CCCTAAAATTCAAA
* *
27851163 CCTTTAAAA-TCTAGA
1 CC-CTAAAATTC-AAA
*
27851178 CCCCAAAATTCAAA
1 CCCTAAAATTCAAA
27851192 CCCTAAAA-TCAAAA
1 CCCTAAAATTC-AAA
*
27851206 CCATAAAAT
1 CCCTAAAAT
27851215 CCGAATCTTC
Statistics
Matches: 115, Mismatches: 25, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
13 13 0.11
14 54 0.47
15 34 0.30
16 9 0.08
17 5 0.04
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (14 bp):
CCCTAAAATTCAAA
Found at i:27870834 original size:25 final size:25
Alignment explanation
Indices: 27870806--27870853 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
27870796 TTTCAAAAAT
*
27870806 TAAAAGTTTT-AAACTTATATTTTAA
1 TAAAA-TTTTCAAACCTATATTTTAA
27870831 TAAAATTTTCAAACCTATATTTT
1 TAAAATTTTCAAACCTATATTTT
27870854 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (25 bp):
TAAAATTTTCAAACCTATATTTTAA
Found at i:27871102 original size:19 final size:20
Alignment explanation
Indices: 27871078--27871115 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27871068 AACAACAAAA
*
27871078 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
27871097 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
27871116 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:27871435 original size:38 final size:38
Alignment explanation
Indices: 27871350--27871440 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 38
27871340 CCACCCCTAT
* *
27871350 CAATCCCTCTCCACCTTCCCCCAACATCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCAACACCCCACCACACC
*
27871388 CAATCCCTCCCCACCTTCCCCCGAACGCCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCC-AACACCCCACCACACC
27871427 CAAT-CCTCCCCACC
1 CAATCCCTCCCCACC
27871441 CCATCCAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
38 31 0.63
39 18 0.37
ACGTcount: A:0.22, C:0.63, G:0.02, T:0.13
Consensus pattern (38 bp):
CAATCCCTCCCCACCTTCCCCCAACACCCCACCACACC
Found at i:27871437 original size:19 final size:19
Alignment explanation
Indices: 27871377--27871455 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
27871367 CCCCCAACAT
27871377 CCCACCACACCCAATCCCTC
1 CCCACCACACCCAAT-CCTC
* * *
27871397 CCCACCTTCCCCCGAA--CGC
1 CCCACC-ACACCC-AATCCTC
27871416 CCCACCACACCCAATCCTC
1 CCCACCACACCCAATCCTC
* *
27871435 CCCACCCCATCCAATCTCTC
1 CCCACCACACCCAATC-CTC
27871455 C
1 C
27871456 ACGTGCCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.04
18 4 0.09
19 24 0.52
20 10 0.22
21 4 0.09
22 2 0.04
ACGTcount: A:0.22, C:0.63, G:0.03, T:0.13
Consensus pattern (19 bp):
CCCACCACACCCAATCCTC
Found at i:27873027 original size:22 final size:22
Alignment explanation
Indices: 27872985--27873028 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27872975 ATGGGTCTAG
*
27872985 CAATGGACCTATACTCATTTAT
1 CAATGGACCTATACCCATTTAT
*
27873007 CAATGGACCTATACCCCTTTAT
1 CAATGGACCTATACCCATTTAT
27873029 AAATCTTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (22 bp):
CAATGGACCTATACCCATTTAT
Found at i:27888220 original size:16 final size:17
Alignment explanation
Indices: 27888199--27888232 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27888189 GTAAAGAGCC
27888199 AAAAACACAGAA-AAAA
1 AAAAACACAGAAGAAAA
*
27888215 AAAAACAGAGAAGAAAA
1 AAAAACACAGAAGAAAA
27888232 A
1 A
27888233 GAAAGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAACACAGAAGAAAA
Found at i:27888264 original size:11 final size:11
Alignment explanation
Indices: 27888213--27888277 Score: 53
Period size: 11 Copynumber: 5.7 Consensus size: 11
27888203 ACACAGAAAA
27888213 AAAAAAACAGAG
1 AAAAAAA-AGAG
*
27888225 AAGAAAAAGA-
1 AAAAAAAAGAG
*
27888235 AAGGAAAAATGA-
1 AA--AAAAAAGAG
27888247 AAGAAAAAAGAG
1 AA-AAAAAAGAG
*
27888259 AAAAAAAGGAG
1 AAAAAAAAGAG
27888270 AAAAAAAA
1 AAAAAAAA
27888278 TTCTTTGAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
10 2 0.05
11 26 0.59
12 16 0.36
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:27889410 original size:50 final size:49
Alignment explanation
Indices: 27889303--27889406 Score: 124
Period size: 49 Copynumber: 2.1 Consensus size: 49
27889293 ACCCCAAATC
* *
27889303 AAACCTTAAACCCTAACCTAGACTCCAAACCAATCTGAAATTCTAAACT
1 AAACCCTAAACCCTAACCTAGACTCCAAACCAACCTGAAATTCTAAACT
*
27889352 AAATCCTAAACCCTTAACCTAGAC-CCTAAACCAACCT-AAACTT-TAAACT
1 AAACCCTAAACCC-TAACCTAGACTCC-AAACCAACCTGAAA-TTCTAAACT
*
27889401 GAACCC
1 AAACCC
27889407 CTAAGCACTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
49 26 0.55
50 21 0.45
ACGTcount: A:0.42, C:0.33, G:0.04, T:0.21
Consensus pattern (49 bp):
AAACCCTAAACCCTAACCTAGACTCCAAACCAACCTGAAATTCTAAACT
Found at i:27889507 original size:18 final size:18
Alignment explanation
Indices: 27889484--27889544 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
27889474 CTTGTCATCA
27889484 CATGCATTTTTATATTGT
1 CATGCATTTTTATATTGT
*
27889502 CATGCATTTATACT-TTGT
1 CATGCATTTTTA-TATTGT
* * *
27889520 CATTCA-TGTTATATTGC
1 CATGCATTTTTATATTGT
27889537 CATGCATT
1 CATGCATT
27889545 CATCATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.03
17 11 0.32
18 21 0.62
19 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.49
Consensus pattern (18 bp):
CATGCATTTTTATATTGT
Found at i:27891930 original size:18 final size:19
Alignment explanation
Indices: 27891907--27891947 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27891897 TTTATTAATT
* *
27891907 AAAAATATA-AAACAAGAA
1 AAAAATAAACAAAAAAGAA
27891925 AAAAATAAACAAAAAAGAA
1 AAAAATAAACAAAAAAGAA
27891944 AAAA
1 AAAA
27891948 TGAATAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.07
Consensus pattern (19 bp):
AAAAATAAACAAAAAAGAA
Found at i:27894158 original size:3 final size:3
Alignment explanation
Indices: 27894150--27894309 Score: 135
Period size: 3 Copynumber: 52.0 Consensus size: 3
27894140 CTATATGGCC
*
27894150 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT CTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
27894198 A-T ATT ATT AATC A-T CTT ATTT GTT TTGT ATAT ATT ATA ATAT AGT
1 ATT ATT ATT -ATT ATT ATT A-TT ATT AT-T AT-T ATT ATT AT-T ATT
* * * * * *
27894243 AGT ATT AAT GTC ACT ATT ATAT ATT ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
27894289 ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
27894310 TTCATTTTTT
Statistics
Matches: 126, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
2 2 0.02
3 111 0.88
4 13 0.10
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:27895324 original size:3 final size:3
Alignment explanation
Indices: 27895318--27895347 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27895308 AAATTCTACA
27895318 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27895348 CCTTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27905870 original size:45 final size:45
Alignment explanation
Indices: 27905820--27905985 Score: 179
Period size: 47 Copynumber: 3.6 Consensus size: 45
27905810 TTGCTTGATT
* * **
27905820 AAAAAAAAAGAGTTCAAGTTAAAAACCCAAAAGAATGGCTTGAACC
1 AAAAAAAAA-AGTTCAAGTTGAAAACCTAAAAGGGTGGCTTGAACC
* * * *
27905866 AAAAAAAAAAGTTCAAGTTGAAAATCTGAAAGGGTGGTTTGAACTAA
1 AAAAAAAAAAGTTCAAGTTGAAAACCTAAAAGGGTGGCTTGAAC--C
*
27905913 AAAAAAAAAAGTTCAAGTTGAAAACCTAAAAGGGTGACTTGAATCC
1 AAAAAAAAAAGTTCAAGTTGAAAACCTAAAAGGGTGGCTTGAA-CC
* * * *
27905959 AAATAGAAAGGTTTAAGTTGAAAACCT
1 AAAAAAAAAAGTTCAAGTTGAAAACCT
27905986 TGAAAGGCAG
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
45 28 0.28
46 32 0.32
47 39 0.39
48 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.18, T:0.20
Consensus pattern (45 bp):
AAAAAAAAAAGTTCAAGTTGAAAACCTAAAAGGGTGGCTTGAACC
Found at i:27906567 original size:41 final size:40
Alignment explanation
Indices: 27906505--27906582 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
27906495 TAGAGGTAAG
* *
27906505 CATTTAGGTTGATGAAAGATGGTTTCTTTGCTAAAAATATA
1 CATTCAGGTTAATGAAAGATGGTTTCTTTG-TAAAAATATA
27906546 CATTCAGGTTAAT-AAATGATGGTTTCTTTGTAAAAAT
1 CATTCAGGTTAATGAAA-GATGGTTTCTTTGTAAAAAT
27906583 GTGTGGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 10 0.29
41 24 0.71
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.40
Consensus pattern (40 bp):
CATTCAGGTTAATGAAAGATGGTTTCTTTGTAAAAATATA
Found at i:27907144 original size:119 final size:117
Alignment explanation
Indices: 27906728--27907190 Score: 392
Period size: 119 Copynumber: 3.9 Consensus size: 117
27906718 TTCACTCATA
* *
27906728 TAATCTTGGCTCAATCCAGATCGTTTCTTATGATTCATGATTTCAT-CCAGATCATTTATTTTTT
1 TAATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGATTTCATCCCA-ATCATTTATTTTTT
* * * *
27906792 ACCTCAACTCGATCTTGGTCATTTTATTTTGACTCATGATTTCATCCCGGTCACT
65 ACCTCAACTCGATCTTAGTCA-TTTATTTTGACTCGTGGTTTCAT-CCAGTCACT
* * * * ** * * *
27906847 TGATCTTAGCTCAGTCCAGATCATTTTTTATGATTCGTGATTTCATTTCGATAATTTATTTTTAA
1 TAATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGATTTCATCCCAATCATTTATTTTTTA
* * * * * *
27906912 CTTAAACCCGAT-TTTGATCATTTGATTTTGACTCGTGGTTTTATCCCGATCACT
66 CCTCAACTCGATCTTAG-TCATTT-ATTTTGACTCGTGGTTTCATCCAG-TCACT
* * ** * ** * * *
27906966 TGATATTGGCTCAATTTAGATCATTTCTTATGATTCGTAATTTTGTCCTAGTCAATTATTTTTTA
1 TAATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGATTTCATCCCAATCATTTATTTTTTA
* ** * * * *
27907031 CCTCAACTTGATCCAAGTCACTTTATTTTGACTTGCGGTTTCATCTTAGTCATT
66 CCTCAACTCGATCTTAGTCA-TTTATTTTGACTCGTGGTTTCATC-CAGTCACT
* * *
27907085 TAATCTTGGCTCAGTCCAGATCATTTCTTATGA-TCTGTGGTTTCATCCCAATCATTTATTTTTG
1 TAATCTTGGCTCAATCCAGATCATTTCTTATGATTC-GTGATTTCATCCCAATCATTTATTTTTT
* ** * * *
27907149 ATCTTGACTCGGTCCTAGTCACTTTATCTTGACTCGTGGTTT
65 ACCTCAACTCGATCTTAGTCA-TTTATTTTGACTCGTGGTTT
27907191 AATTTCGGTT
Statistics
Matches: 266, Mismatches: 70, Indels: 16
0.76 0.20 0.05
Matches are distributed among these distances:
118 11 0.04
119 249 0.94
120 6 0.02
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.45
Consensus pattern (117 bp):
TAATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGATTTCATCCCAATCATTTATTTTTTA
CCTCAACTCGATCTTAGTCATTTATTTTGACTCGTGGTTTCATCCAGTCACT
Found at i:27907183 original size:238 final size:238
Alignment explanation
Indices: 27906733--27907190 Score: 512
Period size: 238 Copynumber: 1.9 Consensus size: 238
27906723 TCATATAATC
* * *
27906733 TTGGCTCAATCCAGATCGTTTCTTATGATTCATGATTTCATCCAGATCATTTATTTTTTACCTCA
1 TTGGCTCAATCCAGATCATTTCTTATGATTCATAATTTCATCCAGATCAATTATTTTTTACCTCA
*** * * * *
27906798 ACTCGATCTTGGTCATTTTATTTTGACTCATGATTTCATCCCGGTCACTTGATCTTAGCTCAGTC
66 ACTCGATCCAAGTCACTTTATTTTGACTCACGATTTCATCCCAGTCACTTAATCTTAGCTCAGTC
* ** * * *
27906863 CAGATCATTTTTTATGATTCGTGATTTCATTTCGATAATTTATTTTTAACTTAAACCCGATTTTG
131 CAGATCATTTCTTATGATTCGTGATTTCATCCCAATAATTTATTTTTAACTTAAACCCGATCTAG
*
27906928 ATCATTTGATTTTGACTCGTGGTTTTATCCCGATCACTTGATA
196 ATCATTTGATCTTGACTCGTGGTTTTATCCCGATCACTTGATA
** * **
27906971 TTGGCTCAATTTAGATCATTTCTTATGATTCGTAATTTTGTCCTAG-TCAATTATTTTTTACCTC
1 TTGGCTCAATCCAGATCATTTCTTATGATTCATAATTTCATCC-AGATCAATTATTTTTTACCTC
* ** * ** * *
27907035 AACTTGATCCAAGTCACTTTATTTTGACTTGCGGTTTCATCTTAGTCATTTAATCTTGGCTCAGT
65 AACTCGATCCAAGTCACTTTATTTTGACTCACGATTTCATCCCAGTCACTTAATCTTAGCTCAGT
* * * * * *
27907100 CCAGATCATTTCTTATGA-TCTGTGGTTTCATCCCAATCATTTATTTTTGATCTT-GACTCGGTC
130 CCAGATCATTTCTTATGATTC-GTGATTTCATCCCAATAATTTATTTTT-AACTTAAACCCGAT-
27907163 CTAG-TCACTTT-ATCTTGACTCGTGGTTT
192 CTAGATCA-TTTGATCTTGACTCGTGGTTT
27907191 AATTTCGGTT
Statistics
Matches: 179, Mismatches: 36, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
237 2 0.01
238 166 0.93
239 11 0.06
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (238 bp):
TTGGCTCAATCCAGATCATTTCTTATGATTCATAATTTCATCCAGATCAATTATTTTTTACCTCA
ACTCGATCCAAGTCACTTTATTTTGACTCACGATTTCATCCCAGTCACTTAATCTTAGCTCAGTC
CAGATCATTTCTTATGATTCGTGATTTCATCCCAATAATTTATTTTTAACTTAAACCCGATCTAG
ATCATTTGATCTTGACTCGTGGTTTTATCCCGATCACTTGATA
Found at i:27907468 original size:3 final size:3
Alignment explanation
Indices: 27907456--27907525 Score: 133
Period size: 3 Copynumber: 23.7 Consensus size: 3
27907446 CTATATGGTC
27907456 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27907503 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
27907526 CATCATCATC
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:27907688 original size:21 final size:20
Alignment explanation
Indices: 27907651--27907693 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
27907641 TATATTTTTA
27907651 TTTTTTCCTTTTCTTTCCTT
1 TTTTTTCCTTTTCTTTCCTT
* *
27907671 TTTTATTCTTTTTTTTTCCTT
1 TTTT-TTCCTTTTCTTTCCTT
27907692 TT
1 TT
27907694 CTGTTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTCCTTTTCTTTCCTT
Found at i:27909507 original size:21 final size:21
Alignment explanation
Indices: 27909483--27909524 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27909473 CAAAAAAAGA
27909483 TAAAGAAAACAAAGTAAAATG
1 TAAAGAAAACAAAGTAAAATG
27909504 TAAAGAAAACAAAGTAAAATG
1 TAAAGAAAACAAAGTAAAATG
27909525 AAGATGGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (21 bp):
TAAAGAAAACAAAGTAAAATG
Found at i:27909804 original size:24 final size:25
Alignment explanation
Indices: 27909777--27909824 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
27909767 CATATATACC
* *
27909777 TTTATTGA-CATTTTTTTCAAAAAT
1 TTTATTGAGCAATTTTTTAAAAAAT
*
27909801 TTTATTTAGCAATTTTTTAAAAAA
1 TTTATTGAGCAATTTTTTAAAAAA
27909825 CAACATGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTATTGAGCAATTTTTTAAAAAAT
Found at i:27910281 original size:55 final size:56
Alignment explanation
Indices: 27910218--27910325 Score: 159
Period size: 55 Copynumber: 1.9 Consensus size: 56
27910208 TCTATTCATC
27910218 GTATTTTTTTTGTAAAATTTATC-AA-AAAAAAATGGAAAGGAAA-AAAAAAACAAA
1 GTATTTTTTTTGTAAAATTTATCAAACAAAAAAAT-GAAAGGAAAGAAAAAAACAAA
*
27910272 GTATATTTTTTTGTTAAATTTATCAAATCAAAAAAATGAAAGGAAAGAAAAAAA
1 GTAT-TTTTTTTGTAAAATTTATCAAA-CAAAAAAATGAAAGGAAAGAAAAAAA
27910326 TGAAAAGTGG
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
54 4 0.08
55 18 0.38
56 2 0.04
57 9 0.19
58 15 0.31
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.30
Consensus pattern (56 bp):
GTATTTTTTTTGTAAAATTTATCAAACAAAAAAATGAAAGGAAAGAAAAAAACAAA
Found at i:27911061 original size:2 final size:2
Alignment explanation
Indices: 27911054--27911087 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27911044 TCCAAGTAGA
27911054 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27911088 CAAATCTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27912040 original size:17 final size:17
Alignment explanation
Indices: 27912009--27912053 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
27911999 AGACCCCACC
* *
27912009 TTTTAAAAAAATTAAGAA
1 TTTT-AAAAATTTAAAAA
27912027 TTTTAAAAATTTAAAAA
1 TTTTAAAAATTTAAAAA
27912044 TTTTAAAAAT
1 TTTTAAAAAT
27912054 ACAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTTAAAAATTTAAAAA
Found at i:27912052 original size:9 final size:9
Alignment explanation
Indices: 27912009--27912053 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
27911999 AGACCCCACC
27912009 TTTTAAAAA
1 TTTTAAAAA
** *
27912018 AATTAAGAA
1 TTTTAAAAA
27912027 TTTTAAAAA
1 TTTTAAAAA
27912036 -TTTAAAAA
1 TTTTAAAAA
27912044 TTTTAAAAA
1 TTTTAAAAA
27912053 T
1 T
27912054 ACAAAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:27912059 original size:17 final size:17
Alignment explanation
Indices: 27912025--27912059 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27912015 AAAAATTAAG
**
27912025 AATTTTAAAAATTTAAA
1 AATTTTAAAAATACAAA
27912042 AATTTTAAAAATACAAA
1 AATTTTAAAAATACAAA
27912059 A
1 A
27912060 TAAAAAAAAA
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:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTTTAAAAATACAAA
Found at i:27913852 original size:21 final size:22
Alignment explanation
Indices: 27913826--27913866 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27913816 AAATTTATCT
*
27913826 AATAAAATTAA-AATTAAAATA
1 AATAAAATTAATAAATAAAATA
*
27913847 AATAAATTTAATAAATAAAA
1 AATAAAATTAATAAATAAAA
27913867 ATAATAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAAATTAATAAATAAAATA
Found at i:27914722 original size:20 final size:20
Alignment explanation
Indices: 27914672--27914727 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
27914662 TATTCTTGCT
27914672 TTCAATAAA-TAAATTACTA
1 TTCAATAAATTAAATTACTA
* *
27914691 TTAAATATATTAAATTACTA
1 TTCAATAAATTAAATTACTA
27914711 -TCAATCAAATTAAATTA
1 TTCAAT-AAATTAAATTA
27914728 ATTAGACAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (20 bp):
TTCAATAAATTAAATTACTA
Found at i:27915136 original size:12 final size:12
Alignment explanation
Indices: 27915119--27915143 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27915109 TATCAATTTG
27915119 TAGTATATTATA
1 TAGTATATTATA
27915131 TAGTATATTATA
1 TAGTATATTATA
27915143 T
1 T
27915144 TCATATTCAT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAGTATATTATA
Found at i:27915735 original size:10 final size:10
Alignment explanation
Indices: 27915718--27915759 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
27915708 CACGACCCAA
27915718 AATATATTAT
1 AATATATTAT
*
27915728 ACTATATTAT
1 AATATATTAT
27915738 AATAT-TATAT
1 AATATAT-TAT
*
27915748 AGTATATTAT
1 AATATATTAT
27915758 AA
1 AA
27915760 AAATTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 1 0.04
10 24 0.92
11 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
AATATATTAT
Found at i:27915820 original size:18 final size:18
Alignment explanation
Indices: 27915797--27915848 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
27915787 TTTAGAATTA
27915797 ATTATATTAAATATAAAT
1 ATTATATTAAATATAAAT
*
27915815 ATTATATTAATTAATAAAT
1 ATTATATTAAAT-ATAAAT
27915834 -TTATAAATTAAATAT
1 ATTAT--ATTAAATAT
27915849 TACATTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 15 0.52
19 8 0.28
20 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATATTAAATATAAAT
Found at i:27915838 original size:27 final size:27
Alignment explanation
Indices: 27915808--27915871 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
27915798 TTATATTAAA
27915808 TATAAATATTATATTA-ATTAATAAATT
1 TATAAATATTATATTACATTAA-AAATT
*
27915835 TATAAAT-TAAATATTACATTAAAAATT
1 TATAAATAT-TATATTACATTAAAAATT
*
27915862 TTTAAA-ATTA
1 TATAAATATTA
27915872 AAATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.06
27 24 0.77
28 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
TATAAATATTATATTACATTAAAAATT
Found at i:27915869 original size:28 final size:29
Alignment explanation
Indices: 27915818--27915887 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 29
27915808 TATAAATATT
27915818 ATATTA-ATTAATAAATTTATAAATT-AA
1 ATATTACATTAATAAATTTATAAATTAAA
*
27915845 ATATTACATTAA-AAATTTTTAAAATTAAA
1 ATATTACATTAATAAATTTAT-AAATTAAA
27915874 ATATATATCATTAA
1 ATAT-TA-CATTAA
27915888 CATTAACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 13 0.35
28 10 0.27
29 6 0.16
30 2 0.05
31 6 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTACATTAATAAATTTATAAATTAAA
Found at i:27924577 original size:18 final size:19
Alignment explanation
Indices: 27924547--27924583 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
27924537 TCTATTAATA
27924547 AATATATTTATTA-ATTTT
1 AATATATTTATTATATTTT
27924565 AATA-ATTTAATTATATTTT
1 AATATATTT-ATTATATTTT
27924584 TATTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATATTTATTATATTTT
Found at i:27924601 original size:22 final size:25
Alignment explanation
Indices: 27924542--27924601 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
27924532 GTTTATCTAT
*
27924542 TAATAAATATATTTATTAATTTTAA
1 TAATAAATATATTTATTAATTATAA
*
27924567 TAATTTAATTATATTT-TT-ATTATAA
1 TAA--TAAATATATTTATTAATTATAA
27924592 -AATAAATATA
1 TAATAAATATA
27924602 ATATTACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 7 0.23
24 2 0.07
25 9 0.30
26 2 0.07
27 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATAAATATATTTATTAATTATAA
Found at i:27931858 original size:17 final size:17
Alignment explanation
Indices: 27931836--27931869 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27931826 TTGGTGGCTT
27931836 TTCCAGGGTTCAAAGTG
1 TTCCAGGGTTCAAAGTG
27931853 TTCCAGGGTTCAAAGTG
1 TTCCAGGGTTCAAAGTG
27931870 CTCAATGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (17 bp):
TTCCAGGGTTCAAAGTG
Found at i:27933628 original size:21 final size:21
Alignment explanation
Indices: 27933580--27933627 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
27933570 AATCTCTAAG
*
27933580 AATTTTCAAATAAGAATCTTT
1 AATTTTTAAATAAGAATCTTT
* *
27933601 GACTTTTAAATAAGAATC-TT
1 AATTTTTAAATAAGAATCTTT
27933621 AATTTTT
1 AATTTTT
27933628 TTGTAGTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (21 bp):
AATTTTTAAATAAGAATCTTT
Found at i:27933767 original size:46 final size:48
Alignment explanation
Indices: 27933710--27933807 Score: 119
Period size: 46 Copynumber: 2.1 Consensus size: 48
27933700 TATTGAGAAC
* * * *
27933710 CTTTGATATCTTAAATGCGAATCCCT-AAAGTTTTTT-AAATGAAAAT
1 CTTTGAAATCTTAAAGGCAAATCCATAAAAGTTTTTTCAAATGAAAAT
** *
27933756 CTTTGAAATCTTGGAGGTAAATCCATAAAAGTTTTTTCAAATGAAAAT
1 CTTTGAAATCTTAAAGGCAAATCCATAAAAGTTTTTTCAAATGAAAAT
27933804 CTTT
1 CTTT
27933808 AACTTTTGGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 19 0.44
47 10 0.23
48 14 0.33
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (48 bp):
CTTTGAAATCTTAAAGGCAAATCCATAAAAGTTTTTTCAAATGAAAAT
Found at i:27933997 original size:18 final size:18
Alignment explanation
Indices: 27933974--27934032 Score: 70
Period size: 16 Copynumber: 3.4 Consensus size: 18
27933964 CTGAAACTTA
27933974 GCAAATCTTCAAAATCTT
1 GCAAATCTTCAAAATCTT
*
27933992 GCAAATCTTC-AAATATT
1 GCAAATCTTCAAAATCTT
* *
27934009 GCAAAT-AT-AAATTCTT
1 GCAAATCTTCAAAATCTT
27934025 GCAAATCT
1 GCAAATCT
27934033 AAAAATTCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
16 12 0.35
17 12 0.35
18 10 0.29
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.34
Consensus pattern (18 bp):
GCAAATCTTCAAAATCTT
Found at i:27934040 original size:18 final size:17
Alignment explanation
Indices: 27933974--27934168 Score: 105
Period size: 17 Copynumber: 11.3 Consensus size: 17
27933964 CTGAAACTTA
27933974 GCAAATCTTCAAAA-TCTT
1 GCAAATC-T-AAAATTCTT
* *
27933992 GCAAATCTTCAAA-TATT
1 GCAAATC-TAAAATTCTT
*
27934009 GCAAATAT-AAATTCTT
1 GCAAATCTAAAATTCTT
27934025 GCAAATCTAAAAATTCTT
1 GCAAATCT-AAAATTCTT
*
27934043 ACGAAA-CTAAAATTCTT
1 GC-AAATCTAAAATTCTT
* * *
27934060 GCGAATATGAAATTCTT
1 GCAAATCTAAAATTCTT
27934077 GCGAAA-CTAAAATTCTT
1 GC-AAATCTAAAATTCTT
* *
27934094 ACAAATTTGAAAATTCTT
1 GCAAATCT-AAAATTCTT
* * * *
27934112 ACAAATTTGAAATTTTT
1 GCAAATCTAAAATTCTT
** *
27934129 GTGAATATGAAAATTCTT
1 GCAAATCT-AAAATTCTT
* *
27934147 GTGAAAT-TGAAATTCTT
1 G-CAAATCTAAAATTCTT
27934164 GCAAA
1 GCAAA
27934169 ACCGAAAATT
Statistics
Matches: 140, Mismatches: 27, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
15 3 0.02
16 19 0.14
17 64 0.46
18 48 0.34
19 6 0.04
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (17 bp):
GCAAATCTAAAATTCTT
Found at i:27934139 original size:17 final size:17
Alignment explanation
Indices: 27934118--27934164 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
27934108 TCTTACAAAT
*
27934118 TTGAAATTTTTGTG-AA
1 TTGAAATTCTTGTGAAA
27934134 TATGAAAATTCTTGTGAAA
1 T-TG-AAATTCTTGTGAAA
27934153 TTGAAATTCTTG
1 TTGAAATTCTTG
27934165 CAAAACCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 11 0.41
18 12 0.44
19 3 0.11
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (17 bp):
TTGAAATTCTTGTGAAA
Found at i:27934192 original size:69 final size:70
Alignment explanation
Indices: 27934017--27934234 Score: 194
Period size: 69 Copynumber: 3.1 Consensus size: 70
27934007 TTGCAAATAT
* ** * *
27934017 AAATTCTTGCAAATCTAAAAATTCTTACGAAACTA--AAATTCTTGCGAATATG-AAATTCTTGC
1 AAATTCTTGCAAAACCGAAAATTCTTAC-AAA-TATGAAATTCTTGAGAATATGAAAATTCTTGT
* *
27934079 GAAACTA
64 GAAATTG
* *** * * *
27934086 AAATTCTTACAAATTTGAAAATTCTTACAAATTTGAAATTTTTGTGAATATGAAAATTCTTGTGA
1 AAATTCTTGCAAAACCGAAAATTCTTACAAATATGAAATTCTTGAGAATATGAAAATTCTTGTGA
27934151 AATTG
66 AATTG
* * * * *
27934156 AAATTCTTGCAAAACCGAAAATT-TTCCAAATATGAAATCCTT-ACATATTTGAAATTTCTTGTG
1 AAATTCTTGCAAAACCGAAAATTCTTACAAATATGAAATTCTTGAGA-ATATGAAAATTCTTGTG
*
27934219 AATTTG
65 AAATTG
27934225 AAATTCTTGC
1 AAATTCTTGC
27934235 GAATCTTGAA
Statistics
Matches: 123, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
67 1 0.01
68 4 0.03
69 85 0.69
70 33 0.27
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (70 bp):
AAATTCTTGCAAAACCGAAAATTCTTACAAATATGAAATTCTTGAGAATATGAAAATTCTTGTGA
AATTG
Found at i:27934225 original size:18 final size:18
Alignment explanation
Indices: 27934202--27934252 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
27934192 ATCCTTACAT
*
27934202 ATTTGAAATTTCTTGTGA
1 ATTTGAAATTTCTTGCGA
27934220 ATTTGAAA-TTCTTGCGA
1 ATTTGAAATTTCTTGCGA
27934237 ATCTTGAAATTT-TTGC
1 AT-TTGAAATTTCTTGC
27934253 AAATCTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 10 0.33
18 18 0.60
19 2 0.07
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (18 bp):
ATTTGAAATTTCTTGCGA
Found at i:27934233 original size:17 final size:17
Alignment explanation
Indices: 27934052--27934252 Score: 118
Period size: 17 Copynumber: 11.6 Consensus size: 17
27934042 TACGAAACTA
*
27934052 AAATTCTTGCGAATATG
1 AAATTCTTGCGAATTTG
** *
27934069 AAATTCTTGCGAAACTA
1 AAATTCTTGCGAATTTG
* *
27934086 AAATTCTTACAAATTTG
1 AAATTCTTGCGAATTTG
* *
27934103 AAAATTCTTACAAATTTG
1 -AAATTCTTGCGAATTTG
* * *
27934121 AAATTTTTGTGAATATG
1 AAATTCTTGCGAATTTG
* *
27934138 AAAATTCTTGTGAAATTG
1 -AAATTCTTGCGAATTTG
* ***
27934156 AAATTCTTGCAAAACCG
1 AAATTCTTGCGAATTTG
* * *
27934173 AAAATT-TTCCAAATATG
1 -AAATTCTTGCGAATTTG
* *
27934190 AAATCCTTAC-ATATTTG
1 AAATTCTTGCGA-ATTTG
*
27934207 AAATTTCTTGTGAATTTG
1 AAA-TTCTTGCGAATTTG
27934225 AAATTCTTGCGAATCTTG
1 AAATTCTTGCGAAT-TTG
*
27934243 AAATTTTTGC
1 AAATTCTTGC
27934253 AAATCTTCAA
Statistics
Matches: 144, Mismatches: 32, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
16 5 0.03
17 78 0.54
18 60 0.42
19 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATTCTTGCGAATTTG
Found at i:27934253 original size:87 final size:87
Alignment explanation
Indices: 27934051--27934255 Score: 263
Period size: 87 Copynumber: 2.4 Consensus size: 87
27934041 TTACGAAACT
* * * * *
27934051 AAAATTCTTGCGAATATGAAATTCTTGCGAAACTAAAATTCTTACAAATTTGAAAATTCTTACAA
1 AAAATTCTTGCGAATTTGAAATTCTTGCAAAACGAAAATTCTTACAAATATGAAAATCCTTACAA
27934116 ATTTGAAATTTTTGTGAATATG
66 ATTTGAAATTTTTGTGAATATG
* * *
27934138 AAAATTCTTGTGAAATTGAAATTCTTGCAAAACCGAAAATT-TTCCAAATATG-AAATCCTTACA
1 AAAATTCTTGCGAATTTGAAATTCTTGCAAAA-CGAAAATTCTTACAAATATGAAAATCCTTACA
* *
27934201 TATTTGAAATTTCTTGTGAATTTG
65 AATTTGAAATTT-TTGTGAATATG
*
27934225 -AAATTCTTGCGAATCTTGAAATTTTTGCAAA
1 AAAATTCTTGCGAAT-TTGAAATTCTTGCAAA
27934256 TCTTCAATTC
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
86 33 0.32
87 62 0.61
88 7 0.07
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (87 bp):
AAAATTCTTGCGAATTTGAAATTCTTGCAAAACGAAAATTCTTACAAATATGAAAATCCTTACAA
ATTTGAAATTTTTGTGAATATG
Found at i:27934257 original size:18 final size:18
Alignment explanation
Indices: 27934204--27934259 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
27934194 CCTTACATAT
*
27934204 TTGAAATTTCTTGTGAAT-
1 TTGAAATTT-TTGCGAATC
*
27934222 TTGAAATTCTTGCGAATC
1 TTGAAATTTTTGCGAATC
*
27934240 TTGAAATTTTTGCAAATC
1 TTGAAATTTTTGCGAATC
27934258 TT
1 TT
27934260 CAATTCTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 7 0.21
18 26 0.79
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (18 bp):
TTGAAATTTTTGCGAATC
Found at i:27936201 original size:6 final size:6
Alignment explanation
Indices: 27936192--27936243 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
27936182 TTTTTTTAAT
* *
27936192 TTTATA TTTA-A TTTTATA TATT-TA TATATA TTTAAA TTTATA TTTATA
1 TTTATA TTTATA -TTTATA T-TTATA TTTATA TTTATA TTTATA TTTATA
27936240 TTTA
1 TTTA
27936244 AAATAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 2 0.05
6 33 0.87
7 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTATA
Found at i:27936203 original size:12 final size:12
Alignment explanation
Indices: 27936186--27936242 Score: 62
Period size: 12 Copynumber: 4.7 Consensus size: 12
27936176 AAAATATTTT
27936186 TTTAATTTTATA
1 TTTAATTTTATA
27936198 TTTAATTTTATA
1 TTTAATTTTATA
* *
27936210 TATTTA-TATATA
1 T-TTAATTTTATA
*
27936222 TTTAAATTTATA
1 TTTAATTTTATA
27936234 TTTATATTT
1 TTTA-ATTT
27936243 AAAATAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
11 3 0.08
12 28 0.76
13 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:27936239 original size:18 final size:18
Alignment explanation
Indices: 27936186--27936258 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
27936176 AAAATATTTT
*
27936186 TTTAATTTTATATTTA-A
1 TTTAAATTTATATTTATA
27936203 TTTTATATATTTATA--TATA
1 -TTTA-A-ATTTATATTTATA
27936222 TTTAAATTTATATTTATA
1 TTTAAATTTATATTTATA
* *
27936240 TTTAAAATAATATTT-TA
1 TTTAAATTTATATTTATA
27936257 TT
1 TT
27936259 AATTTCAGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
16 7 0.15
17 5 0.11
18 27 0.57
19 2 0.04
20 6 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAAATTTATATTTATA
Found at i:27936755 original size:49 final size:48
Alignment explanation
Indices: 27936650--27936781 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 48
27936640 AATTTTAAAA
*
27936650 TTTGAGAAAAAAGTTGAAATATCAATTTTTTTTAAATAAAATAATTTC
1 TTTGAGGAAAAAGTTGAAATATCAATTTTTTTTAAATAAAATAATTTC
**** * *
27936698 AAAAAGGAAAAAGTT-AAAGTATTAATTTTTCTTTAAATAAAA-AATATTT
1 TTTGAGGAAAAAGTTGAAA-TATCAATTTTT-TTTAAATAAAATAAT-TTC
**
27936747 TTTGAGGAAGGAGTTGAAATATCAATATTTCTTTT
1 TTTGAGGAAAAAGTTGAAATATCAAT-TTT-TTTT
27936782 TAAAGAAATT
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
47 3 0.05
48 23 0.36
49 28 0.44
50 9 0.14
51 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (48 bp):
TTTGAGGAAAAAGTTGAAATATCAATTTTTTTTAAATAAAATAATTTC
Found at i:27941608 original size:15 final size:16
Alignment explanation
Indices: 27941590--27941625 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
27941580 TTAAATTAAA
27941590 AAAAAATA-AAAAAAC
1 AAAAAATAGAAAAAAC
*
27941605 AAAAAATAGAAAAAAT
1 AAAAAATAGAAAAAAC
27941621 AAAAA
1 AAAAA
27941626 TTTTGGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAAAATAGAAAAAAC
Found at i:27941827 original size:16 final size:17
Alignment explanation
Indices: 27941792--27941830 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
27941782 TTCAAACACA
* *
27941792 AAAAATAAAACAATTGT
1 AAAAATAAAACAAATAT
27941809 AAAAATAAAA-AAATAT
1 AAAAATAAAACAAATAT
27941825 AAAAAT
1 AAAAAT
27941831 TTTAGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAATAAAACAAATAT
Found at i:27946229 original size:16 final size:16
Alignment explanation
Indices: 27946202--27946318 Score: 98
Period size: 16 Copynumber: 7.1 Consensus size: 16
27946192 TAATGGATGG
27946202 GAAAAGATGAAAAAAAA
1 GAAAA-ATGAAAAAAAA
*
27946219 GAAAAATGAAAAAATA
1 GAAAAATGAAAAAAAA
* *
27946235 -AAAAATGACAAATAA
1 GAAAAATGAAAAAAAA
*
27946250 GAAAAAAGAAAAAAAA
1 GAAAAATGAAAAAAAA
27946266 GAAAAA--AAATGAAAGAA
1 GAAAAATGAAA--AAA-AA
*
27946283 TGAAAGAATGAAAGAATAA
1 -GAAA-AATGAAA-AAAAA
27946302 -AAAAATGAAAAAAAA
1 GAAAAATGAAAAAAAA
27946317 GA
1 GA
27946319 TGAAAATAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
14 3 0.04
15 16 0.20
16 39 0.48
17 10 0.12
18 4 0.05
19 4 0.05
20 3 0.04
21 3 0.04
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.09
Consensus pattern (16 bp):
GAAAAATGAAAAAAAA
Found at i:27946255 original size:31 final size:31
Alignment explanation
Indices: 27946203--27946318 Score: 92
Period size: 31 Copynumber: 3.6 Consensus size: 31
27946193 AATGGATGGG
* *
27946203 AAAAGATGAAAAAAAAGAAAAATGAAAAAAT
1 AAAAAATGAAAAAAAAGAAAAAAGAAAAAAT
* *
27946234 AAAAAATGACAAATAAGAAAAAAGAAAAAA-
1 AAAAAATGAAAAAAAAGAAAAAAGAAAAAAT
* * *
27946264 AAGAAAA-AAAATGAAAGAATGAAAGAATGAAAGAAT
1 AA-AAAATGAAA--AAA-AA-GAAA-AAAGAAAAAAT
27946300 AAAAAAATGAAAAAAAAGA
1 -AAAAAATGAAAAAAAAGA
27946319 TGAAAATAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
30 4 0.06
31 30 0.45
32 2 0.03
33 4 0.06
34 6 0.09
35 11 0.17
36 4 0.06
37 5 0.08
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.09
Consensus pattern (31 bp):
AAAAAATGAAAAAAAAGAAAAAAGAAAAAAT
Found at i:27946257 original size:50 final size:49
Alignment explanation
Indices: 27946203--27946318 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 49
27946193 AATGGATGGG
*
27946203 AAAAGATGAAAAAAAAGAAAAATGAAAAAAT-AAAAAATGACAAATAAGAA
1 AAAAGATGAAAAAAAAGAAAAATGAAAAAATGAAAAAATG--AAAGAAGAA
* * * * *
27946253 AAAAGA-AAAAAAAGAAAAAAAATGAAAGAATGAAAGAATGAAAGAATAA
1 AAAAGATGAAAAAA-AAGAAAAATGAAAAAATGAAAAAATGAAAGAAGAA
27946302 AAAA-ATGAAAAAAAAGA
1 AAAAGATGAAAAAAAAGA
27946319 TGAAAATAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
48 4 0.07
49 23 0.42
50 21 0.38
51 7 0.13
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.09
Consensus pattern (49 bp):
AAAAGATGAAAAAAAAGAAAAATGAAAAAATGAAAAAATGAAAGAAGAA
Found at i:27946312 original size:8 final size:8
Alignment explanation
Indices: 27946202--27946314 Score: 81
Period size: 8 Copynumber: 13.9 Consensus size: 8
27946192 TAATGGATGG
*
27946202 GAAAAGAT
1 GAAAAAAT
27946210 GAAAAAA-
1 GAAAAAAT
*
27946217 AAGAAAAAT
1 GA-AAAAAT
27946226 GAAAAAAT
1 GAAAAAAT
27946234 -AAAAAAT
1 GAAAAAAT
27946241 GACAAATAA-
1 GA-AAA-AAT
27946250 GAAAAAA-
1 GAAAAAAT
*
27946257 GAAAAAAAA
1 G-AAAAAAT
27946266 GAAAAAAAAT
1 G--AAAAAAT
*
27946276 GAAAGAAT
1 GAAAAAAT
*
27946284 GAAAGAAT
1 GAAAAAAT
*
27946292 GAAAGAAT
1 GAAAAAAT
*
27946300 AAAAAAAT
1 GAAAAAAT
27946308 GAAAAAA
1 GAAAAAA
27946315 AAGATGAAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
7 11 0.12
8 61 0.69
9 7 0.08
10 10 0.11
ACGTcount: A:0.76, C:0.01, G:0.14, T:0.09
Consensus pattern (8 bp):
GAAAAAAT
Found at i:27946325 original size:50 final size:46
Alignment explanation
Indices: 27946203--27946318 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 46
27946193 AATGGATGGG
* *
27946203 AAAAGATGAAAAAAAAGAAAAATGAAAAAATAAAAAATGACAAATA
1 AAAAAATGAAAAAAAAGAAAAATGAAAAAATAAAAAATGAAAAATA
* * *
27946249 AGAAAAAAGAAAAAAAAGAAAAAAAATGAAAGAATGAAAGAATGAAAGAATA
1 A-AAAAATGAAAAAAAAG---AAAAATGAAAAAAT-AAAAAATGAAA-AATA
27946301 AAAAAATGAAAAAAAAGA
1 AAAAAATGAAAAAAAAGA
27946319 TGAAAATAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
46 1 0.02
47 14 0.24
48 1 0.02
50 13 0.22
51 24 0.41
52 5 0.09
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.09
Consensus pattern (46 bp):
AAAAAATGAAAAAAAAGAAAAATGAAAAAATAAAAAATGAAAAATA
Found at i:27947249 original size:23 final size:22
Alignment explanation
Indices: 27947210--27947253 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
27947200 GAAGCCTATG
*
27947210 AATGGTGATCAAGTGATGAAAAT
1 AATGATGATCAAGTGAT-AAAAT
27947233 AATGATGATC-AGTTGATAAAA
1 AATGATGATCAAG-TGATAAAA
27947254 CTTGTTTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (22 bp):
AATGATGATCAAGTGATAAAAT
Found at i:27947605 original size:22 final size:22
Alignment explanation
Indices: 27947580--27947624 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
27947570 GGTAAAATTG
27947580 TGAATCCTCAAA-GAAAGATCTT
1 TGAATCCTCAAATGAAA-ATCTT
* *
27947602 TGAATTCTTAAATGAAAATCTT
1 TGAATCCTCAAATGAAAATCTT
27947624 T
1 T
27947625 AAGAAATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
TGAATCCTCAAATGAAAATCTT
Done.