Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 74 of 198
Found at i:23192007 original size:19 final size:19
Alignment explanation
Indices: 23191940--23192010 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 19
23191930 TATATAAACT
* *
23191940 TATAAAAATTATTTAAAAA
1 TATATAAATTATTAAAAAA
* ** *
23191959 T-TTTAAAAAATTAAAAAG
1 TATATAAATTATTAAAAAA
*
23191977 TATTTAAA--ATTAAAAAA
1 TATATAAATTATTAAAAAA
23191994 TATATAAATTATTAAAA
1 TATATAAATTATTAAAA
23192011 TTTCATAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
17 15 0.37
18 12 0.29
19 14 0.34
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (19 bp):
TATATAAATTATTAAAAAA
Found at i:23200937 original size:15 final size:15
Alignment explanation
Indices: 23200913--23200942 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23200903 TAGGCATTCA
23200913 AAGTGAAGGAATTTT
1 AAGTGAAGGAATTTT
*
23200928 AAGTGGAGGAATTTT
1 AAGTGAAGGAATTTT
23200943 TGGAAATATC
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:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (15 bp):
AAGTGAAGGAATTTT
Found at i:23201026 original size:20 final size:21
Alignment explanation
Indices: 23200993--23201039 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
23200983 GAGACAATTG
*
23200993 AATC-AATTTGATTAAAATCA
1 AATCAAATTTGATTAAAATAA
*
23201013 AATCAAATTT-ATTAGAATAA
1 AATCAAATTTGATTAAAATAA
23201033 AAT-AAAT
1 AATCAAAT
23201040 CAGAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (21 bp):
AATCAAATTTGATTAAAATAA
Found at i:23205831 original size:22 final size:22
Alignment explanation
Indices: 23205801--23205842 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
23205791 AGTTGATTTG
*
23205801 TTTAGTCTCCTTCTAAAATTAA
1 TTTAATCTCCTTCTAAAATTAA
23205823 TTTAATCTCCTTCTAAAATT
1 TTTAATCTCCTTCTAAAATT
23205843 TAAAAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTAATCTCCTTCTAAAATTAA
Found at i:23206275 original size:13 final size:13
Alignment explanation
Indices: 23206257--23206281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23206247 TTAGAAGGAG
23206257 ATTAAATTAATTA
1 ATTAAATTAATTA
23206270 ATTAAATTAATT
1 ATTAAATTAATT
23206282 TCAATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATTAATTA
Found at i:23207301 original size:40 final size:40
Alignment explanation
Indices: 23207246--23207327 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
23207236 TACATCGGCG
23207246 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
1 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
23207286 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
1 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
23207326 GA
1 GA
23207328 TTTACATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (40 bp):
GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
Found at i:23212011 original size:16 final size:16
Alignment explanation
Indices: 23211990--23212024 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
23211980 GGTTCGCAAG
23211990 AATGGAATAGAAACGT
1 AATGGAATAGAAACGT
*
23212006 AATGGAATAGAGACGT
1 AATGGAATAGAAACGT
23212022 AAT
1 AAT
23212025 AATATTCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.20
Consensus pattern (16 bp):
AATGGAATAGAAACGT
Found at i:23212233 original size:18 final size:17
Alignment explanation
Indices: 23212212--23212246 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23212202 TTATTATTAA
*
23212212 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23212230 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23212247 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:23213307 original size:40 final size:41
Alignment explanation
Indices: 23213191--23213339 Score: 246
Period size: 41 Copynumber: 3.6 Consensus size: 41
23213181 CTTAATTTAA
* *
23213191 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
23213233 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTAATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
23213274 CAGATCACCGGCACTTAG-CTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
23213314 TAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
23213340 ACATATAGTC
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
40 38 0.38
41 59 0.58
42 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:23213915 original size:2 final size:2
Alignment explanation
Indices: 23213908--23213949 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
23213898 TATTTGATAC
* * *
23213908 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT CT TT 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
23213950 CTATTCGAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:23215370 original size:18 final size:17
Alignment explanation
Indices: 23215349--23215382 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23215339 TTATTATTAA
*
23215349 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23215367 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
23215383 GTCTTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23215441 original size:120 final size:117
Alignment explanation
Indices: 23215297--23215517 Score: 379
Period size: 120 Copynumber: 1.9 Consensus size: 117
23215287 GGCTGTCACA
*
23215297 AAAATCATAATATATGATATTATAAAATATAATGTGAAATAATTATTATTAAATATATTTTAATT
1 AAAATCATAATATATGATACTATAAAATATAATGTGAAATAATTATTATTAAATATATTTTAATT
23215362 AAAATATATAATTTAATAAAAGTCTTAATAATAAATATTCTTATATGAATTTACT
66 AAAATATATAATTTAATAAAA-T-TTAA-AATAAATATTCTTATATGAATTTACT
*
23215417 AAAATCATAATATATGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATT
1 AAAATCATAATATATGATACTATAAAATATAATGTGAAATAATTATTATTAAATATATTTTAATT
* *
23215482 AAAATATATGATTTAATAAAATTTAAAATAATTATT
66 AAAATATATAATTTAATAAAATTTAAAATAAATATT
23215518 ACTAATAAAT
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
117 9 0.09
118 4 0.04
119 1 0.01
120 83 0.86
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (117 bp):
AAAATCATAATATATGATACTATAAAATATAATGTGAAATAATTATTATTAAATATATTTTAATT
AAAATATATAATTTAATAAAATTTAAAATAAATATTCTTATATGAATTTACT
Found at i:23215488 original size:59 final size:59
Alignment explanation
Indices: 23215305--23215503 Score: 199
Period size: 59 Copynumber: 3.3 Consensus size: 59
23215295 CAAAAATCAT
*
23215305 AATATATGATATTATAAAATATAATGTGAAATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATATTATAAAATATAATATGAAATAATTATTATTAAATATATTTTAATTAA
* * * * * * ** * *
23215364 AATATATAAT-TTAATAAAAGTCTTAATAAT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATATT-ATAAAA-T-ATAAT-ATGAAATAATTATTAT-TAAATATATTTTAATTAA
* *
23215425 AATATATGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATATTATAAAATATAATATGAAATAATTATTATTAAATATATTTTAATTAA
23215484 AATATATGAT-TTAATAAAAT
1 AATATATGATATT-ATAAAAT
23215504 TTAAAATAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
58 4 0.04
59 51 0.48
60 16 0.15
61 34 0.32
62 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (59 bp):
AATATATGATATTATAAAATATAATATGAAATAATTATTATTAAATATATTTTAATTAA
Found at i:23215490 original size:18 final size:17
Alignment explanation
Indices: 23215467--23215503 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23215457 AATTATTATT
23215467 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23215483 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23215500 AAAT
1 AAAT
23215504 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23215614 original size:88 final size:90
Alignment explanation
Indices: 23215511--23215723 Score: 333
Period size: 88 Copynumber: 2.4 Consensus size: 90
23215501 AATTTAAAAT
* * *
23215511 AATTATTACTAATAAATTTTGTTATATGAATTTGTATAATTTAAAATAA-TTATTATTAAATATA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTTA-TATTAAATATA
23215575 ATTTAAT-A-ACATATAATTTCATAA
65 ATTTAATAAGACATATAATTTCATAA
*
23215599 AATTCTTGATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTTATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTTATATTAAATATAA
*
23215664 TTTAATAATGATATATAATTTCATAA
66 TTTAATAA-GACATATAATTTCATAA
*
23215690 AATTCTTAATAATAAATATTCTTATATGAATTTG
1 AATTCTTAATAATAAATTTTCTTATATGAATTTG
23215724 CTAAAACCAT
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
88 63 0.55
89 4 0.04
91 47 0.41
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (90 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTTATATTAAATATAA
TTTAATAAGACATATAATTTCATAA
Found at i:23215615 original size:44 final size:44
Alignment explanation
Indices: 23215567--23215708 Score: 107
Period size: 44 Copynumber: 3.2 Consensus size: 44
23215557 TAATTATTAT
*
23215567 TAAATATAATTTAAT-AACATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAATATATAATTTCATAAAATTCTT-ATAA
* * * * *
23215611 TAAAT-T-TTCTTATATGAATTTGTATAATTT-A-AAATAAT-TTATAT
1 TAAATATAAT-TTA-AT-AA-ATATATAATTTCATAAA-ATTCTTATAA
23215655 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAA--ATATATAATTTCATAAAATTCTT-ATAA
23215702 TAAATAT
1 TAAATAT
23215709 TCTTATATGA
Statistics
Matches: 73, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
44 26 0.36
45 12 0.16
46 10 0.14
47 18 0.25
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (44 bp):
TAAATATAATTTAATAAATATATAATTTCATAAAATTCTTATAA
Found at i:23216293 original size:43 final size:43
Alignment explanation
Indices: 23216245--23216343 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
23216235 GGAAAGTTTG
*
23216245 ATGGTAGTTATAACAACGTTAAATGTCCAATTAA-GCAACACTA
1 ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGC-ACACTA
* * * *
23216288 ATGGTAATCATAACCACGCTAAATGTCTAATTAAGGCACACTA
1 ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGCACACTA
23216331 ATGGTAGTTATAA
1 ATGGTAGTTATAA
23216344 GAGAGAGCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 46 0.96
44 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGCACACTA
Found at i:23220251 original size:22 final size:22
Alignment explanation
Indices: 23220226--23220268 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23220216 TTTGAATGGT
23220226 TTACATTAT-TTTATTTGTTTAG
1 TTACATTATATTTATTT-TTTAG
* *
23220248 TTACTTTTTATTTATTTTTTA
1 TTACATTATATTTATTTTTTA
23220269 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (22 bp):
TTACATTATATTTATTTTTTAG
Found at i:23225651 original size:118 final size:119
Alignment explanation
Indices: 23225524--23225750 Score: 287
Period size: 118 Copynumber: 1.9 Consensus size: 119
23225514 AATACTTTTC
* ** * *
23225524 AAAATATATTGATACCTATTAAATTTTATCAATATTATCTTTTTAAATCAATACCACTTTTGCAT
1 AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAACCAATACCACTTTTGCAT
* *
23225589 TCTAACTTCGA-GACTTTT-GAACAATCACAAAAAGTATAGATACTTTAAAAGAA
66 TCTAACTT-GATGACTTTTCAAAAAATCACAAAAAGTATAGATACTTTAAAAGAA
** * * * *
23225642 AAAACATATTGATACCTATTTTATTTTATCTATACCACCTTTTTATACCGATACCACTTTTGTAT
1 AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAACCAATACCACTTTTGCAT
* * *
23225707 TCTGACTTGATGATTTTTCAAAAAATCACAAAAAGTATCGATAC
66 TCTAACTTGATGACTTTTCAAAAAATCACAAAAAGTATAGATAC
23225751 CCATTCAAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
117 2 0.02
118 67 0.74
119 22 0.24
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (119 bp):
AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAACCAATACCACTTTTGCAT
TCTAACTTGATGACTTTTCAAAAAATCACAAAAAGTATAGATACTTTAAAAGAA
Found at i:23227148 original size:13 final size:13
Alignment explanation
Indices: 23227130--23227154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23227120 TAATTAAGAT
23227130 TCAATCCAAATTA
1 TCAATCCAAATTA
23227143 TCAATCCAAATT
1 TCAATCCAAATT
23227155 TAACACCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
TCAATCCAAATTA
Found at i:23227888 original size:17 final size:17
Alignment explanation
Indices: 23227838--23227890 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
23227828 TCTGTAAAAA
23227838 ACTTCGTACAATCACAT
1 ACTTCGTACAATCACAT
** * *
23227855 ACCCCGCACAATTACAT
1 ACTTCGTACAATCACAT
*
23227872 ACTTCGTACCATCACAT
1 ACTTCGTACAATCACAT
23227889 AC
1 AC
23227891 AACCTGTACC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (17 bp):
ACTTCGTACAATCACAT
Found at i:23229739 original size:199 final size:199
Alignment explanation
Indices: 23229399--23229795 Score: 767
Period size: 199 Copynumber: 2.0 Consensus size: 199
23229389 CTGTAGTATG
23229399 TAGCATCATTCACAATAGTGGAATTTGTACCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
1 TAGCATCATTCACAATAGTGGAATTTGTACCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
23229464 ATTACATGATACATGAAAAAAAGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
66 ATTACATGATACATGAAAAAAAGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
*
23229529 TATTTGATAGTAAATGGCTTTTCATGAATGAAGGTGTAATGATTACCATGAGATAAAATAAGATT
131 TATTTGATAGTAAATGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAAGATT
23229594 ATAT
196 ATAT
*
23229598 TAGCATCATTCACAATAGTGGAATTTGTAGCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
1 TAGCATCATTCACAATAGTGGAATTTGTACCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
*
23229663 ATTACATGATACATGAAAAAACGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
66 ATTACATGATACATGAAAAAAAGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
23229728 TATTTGATAGTAAATGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAAGATT
131 TATTTGATAGTAAATGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAAGATT
23229793 ATA
196 ATA
23229796 CTGAGAGAAT
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
199 195 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (199 bp):
TAGCATCATTCACAATAGTGGAATTTGTACCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
ATTACATGATACATGAAAAAAAGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
TATTTGATAGTAAATGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAAGATT
ATAT
Found at i:23230340 original size:41 final size:40
Alignment explanation
Indices: 23230252--23230421 Score: 133
Period size: 41 Copynumber: 4.2 Consensus size: 40
23230242 GATTTTTTGA
* *** * *
23230252 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTTG
* * * *
23230292 GATCTTTAGCGGCGTTTCTATCTGGGCGCCGCTAATTCTCTG
1 G-CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCT-TG
* * * * *
23230334 GCCTTTAGCAGTGTTTTTAACTAAGCGCCGCTAATGGTTG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTTG
* * * * *
23230374 GCCTTTCGTGGCGTTTTTGTTTGTGCGCCGCTAATGCTGTG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCT-TG
23230415 GCCTTTA
1 GCCTTTA
23230422 CCTTTAGCGG
Statistics
Matches: 97, Mismatches: 30, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
40 31 0.32
41 64 0.66
42 2 0.02
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (40 bp):
GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTTG
Found at i:23230663 original size:44 final size:44
Alignment explanation
Indices: 23230600--23230690 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
23230590 ATATATATAT
23230600 AACAGCTAACTATTTATTACTAATTTTCAATCACAGTTGATTTA
1 AACAGCTAACTATTTATTACTAATTTTCAATCACAGTTGATTTA
23230644 AACAGCTAACTATTTATTACTAATTTTCAATCACAGTTGATTTA
1 AACAGCTAACTATTTATTACTAATTTTCAATCACAGTTGATTTA
23230688 AAC
1 AAC
23230691 TACTTTACGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (44 bp):
AACAGCTAACTATTTATTACTAATTTTCAATCACAGTTGATTTA
Found at i:23231336 original size:10 final size:10
Alignment explanation
Indices: 23231299--23231335 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
23231289 TGATTTTTTT
23231299 GATATATATG
1 GATATATATG
23231309 GATATATATG
1 GATATATATG
23231319 GATATATAT-
1 GATATATATG
23231328 -ATATATAT
1 GATATATAT
23231336 AGTTATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.30
10 19 0.70
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
GATATATATG
Found at i:23232799 original size:27 final size:27
Alignment explanation
Indices: 23232769--23232820 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
23232759 AATAAACAAA
* *
23232769 TAAATAAGTAAGTAATTATTTATTTGT
1 TAAATAAATAAGTAATTAATTATTTGT
**
23232796 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATAAGTAATTAATTATTT
23232821 AAATGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (27 bp):
TAAATAAATAAGTAATTAATTATTTGT
Found at i:23234463 original size:13 final size:13
Alignment explanation
Indices: 23234447--23234484 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
23234437 TTTTTTTTGT
23234447 TATATTTTAGTTG
1 TATATTTTAGTTG
23234460 TATATTTTAGTTG
1 TATATTTTAGTTG
23234473 TATATTTTAGTT
1 TATATTTTAGTT
23234485 TTAATTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (13 bp):
TATATTTTAGTTG
Found at i:23234992 original size:21 final size:21
Alignment explanation
Indices: 23234963--23235015 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
23234953 ACATCTTTGA
* *
23234963 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
23234985 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
23235005 TATATATATTT
1 TATATATATTT
23235016 GAAAAGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:23235105 original size:12 final size:12
Alignment explanation
Indices: 23235088--23235112 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23235078 TACACAACAC
23235088 ATAACTTACATA
1 ATAACTTACATA
23235100 ATAACTTACATA
1 ATAACTTACATA
23235112 A
1 A
23235113 GTTATATATA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:23235112 original size:21 final size:21
Alignment explanation
Indices: 23235086--23235152 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
23235076 CTTACACAAC
*
23235086 ACATAACTTACATAATAACTT
1 ACATAACTTAAATAATAACTT
* *
23235107 ACATAAGTTATAT-ATAAACTTAT
1 ACATAACTTAAATAAT-AAC-T-T
*
23235130 ATATAACTTAAATACATAACTT
1 ACATAACTTAAATA-ATAACTT
23235152 A
1 A
23235153 AACCAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 3 0.08
23 12 0.33
24 3 0.08
25 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.36
Consensus pattern (21 bp):
ACATAACTTAAATAATAACTT
Found at i:23235198 original size:13 final size:13
Alignment explanation
Indices: 23235172--23235257 Score: 53
Period size: 13 Copynumber: 7.2 Consensus size: 13
23235162 TTTTATATAA
23235172 AACTTACATACAT
1 AACTTACATACAT
* *
23235185 -ACATAACTTACAT
1 AAC-TTACATACAT
*
23235198 -ACATA-ATACAT
1 AACTTACATACAT
*
23235209 AACTTAAAT-CA-
1 AACTTACATACAT
*
23235220 AAATT--ATA-AT
1 AACTTACATACAT
*
23235230 AACATACATACAT
1 AACTTACATACAT
23235243 AACTTACATACAT
1 AACTTACATACAT
23235256 AA
1 AA
23235258 TACATAACTT
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
9 3 0.05
10 3 0.05
11 9 0.16
12 12 0.22
13 28 0.51
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (13 bp):
AACTTACATACAT
Found at i:23235242 original size:62 final size:61
Alignment explanation
Indices: 23235140--23235264 Score: 148
Period size: 62 Copynumber: 2.0 Consensus size: 61
23235130 ATATAACTTA
* * *
23235140 AATACATAACTTAAACCAAAATTTTTATATAAAACTTACAT-ACATACATAACTTACATACAT
1 AATACATAACTTAAACCAAAATTTATATATAAAACATACATAACATACAT-ACATA-ATACAT
* *
23235202 AATACATAACTTAAATCAAAA-TTATA-ATAACATACATACATAACTTACATACATAATACAT
1 AATACATAACTTAAACCAAAATTTATATATAA-A-ACATACATAACATACATACATAATACAT
23235263 AA
1 AA
23235265 CTTATATAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
60 4 0.07
61 13 0.24
62 31 0.56
63 7 0.13
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (61 bp):
AATACATAACTTAAACCAAAATTTATATATAAAACATACATAACATACATACATAATACAT
Found at i:23235365 original size:9 final size:9
Alignment explanation
Indices: 23235347--23235697 Score: 240
Period size: 9 Copynumber: 40.8 Consensus size: 9
23235337 CTTATATTTA
*
23235347 AACTTGCAT
1 AACTTACAT
23235356 AACTTACAT
1 AACTTACAT
*
23235365 AA-TAACAT
1 AACTTACAT
23235373 AACAACTTACAT
1 ---AACTTACAT
23235385 AA--TACAT
1 AACTTACAT
* *
23235392 AGCATACAT
1 AACTTACAT
23235401 AACTTACAT
1 AACTTACAT
*
23235410 AA--TACAA
1 AACTTACAT
23235417 AACTTACAT
1 AACTTACAT
*
23235426 AACTTAAAT
1 AACTTACAT
* *
23235435 ATCTTACAC
1 AACTTACAT
23235444 AACTTACAT
1 AACTTACAT
*
23235453 AACCTACAT
1 AACTTACAT
23235462 AA--TACAT
1 AACTTACAT
*
23235469 AACTTACCT
1 AACTTACAT
23235478 AACTTACAT
1 AACTTACAT
23235487 AA--TACAT
1 AACTTACAT
23235494 AACTTACAT
1 AACTTACAT
*
23235503 AACTTACCT
1 AACTTACAT
23235512 AACTTACAT
1 AACTTACAT
23235521 AA--TACAT
1 AACTTACAT
*
23235528 AA-TAACTTAT
1 AACTTAC--AT
23235538 AACTTACAT
1 AACTTACAT
*
23235547 AACATACAT
1 AACTTACAT
* **
23235556 TACTTTGAT
1 AACTTACAT
23235565 AACTTACAT
1 AACTTACAT
*
23235574 AAGTTACAT
1 AACTTACAT
**
23235583 AAAATACAT
1 AACTTACAT
23235592 AACTTAC--
1 AACTTACAT
23235599 AACTTACAT
1 AACTTACAT
*
23235608 AACATACAT
1 AACTTACAT
* **
23235617 TACTTTGAT
1 AACTTACAT
*
23235626 AAC-TA-TT
1 AACTTACAT
**
23235633 AAAATACAT
1 AACTTACAT
*
23235642 AA--TACAC
1 AACTTACAT
23235649 AACTTACAT
1 AACTTACAT
* *
23235658 AGCTTACTT
1 AACTTACAT
23235667 AA--TACAT
1 AACTTACAT
23235674 AACTTACAT
1 AACTTACAT
23235683 AACTTA-AT
1 AACTTACAT
*
23235691 AATTTAC
1 AACTTAC
23235698 TTAATACATA
Statistics
Matches: 266, Mismatches: 51, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
7 55 0.21
8 17 0.06
9 180 0.68
10 4 0.02
11 5 0.02
12 5 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:23235407 original size:25 final size:25
Alignment explanation
Indices: 23235376--23235684 Score: 191
Period size: 25 Copynumber: 12.4 Consensus size: 25
23235366 ATAACATAAC
* *
23235376 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
23235401 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
23235426 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
* *
23235453 AACCTACATAATACATAACTTACCT
1 AACTTACATAATACATAACTTACAT
23235478 AACTTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
*
23235503 AACTTACCTAACTTACATAA--TACAT
1 AACTTACATAA--TACATAACTTACAT
*
23235528 AA-TAAC-T--T--ATAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * **
23235547 AACATACATTACTTTGATAACTTACAT
1 AACTTACA-TA-ATACATAACTTACAT
*
23235574 AAGTTACATAAAATACATAACTTAC--
1 AACTTACAT--AATACATAACTTACAT
* **
23235599 AACTTACATAACATACATTACTTTGAT
1 AACTTACAT-A-ATACATAACTTACAT
*
23235626 AACTATTA-A-AATACATAA--TACAC
1 AAC--TTACATAATACATAACTTACAT
* *
23235649 AACTTACATAGCTTACTTAA--TACAT
1 AACTTACATA--ATACATAACTTACAT
23235674 AACTTACATAA
1 AACTTACATAA
23235685 CTTAATAATT
Statistics
Matches: 225, Mismatches: 34, Indels: 52
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.02
19 8 0.04
20 2 0.01
21 3 0.01
22 2 0.01
23 7 0.03
24 5 0.02
25 129 0.57
26 2 0.01
27 58 0.26
28 2 0.01
29 3 0.01
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:23235527 original size:34 final size:34
Alignment explanation
Indices: 23235353--23235708 Score: 217
Period size: 34 Copynumber: 10.1 Consensus size: 34
23235343 TTTAAACTTG
*
23235353 CATAACTTACATAA-TAACATAACAACTTACATAATA
1 CATAACTTACATAACTTACAT---AACTTACATAATA
* * *
23235389 CATAGCATACATAACTTACATAA--TACAAAACTTA
1 CATAACTTACATAACTTACATAACTTACATAA--TA
* * *
23235423 CATAACTTAAATATCTTACACAACTTACATAACCTA
1 CATAACTTACATAACTTACATAACTTACATAA--TA
*
23235459 CATAA--TACATAACTTACCTAACTTACATAATA
1 CATAACTTACATAACTTACATAACTTACATAATA
*
23235491 CATAACTTACATAACTTACCTAACTTACATAATA
1 CATAACTTACATAACTTACATAACTTACATAATA
* * * *
23235525 CATAA-TAACTTATAACTTACATAACATACATTACTTT
1 CATAACTTAC--ATAACTTACATAACTTACA-TA-ATA
* * **
23235562 GATAACTTACATAAGTTACATAAAATACATAACTTA
1 CATAACTTACATAACTTACATAACTTACATAA--TA
* * **
23235598 C--AACTTACATAACATACATTACTTTGATAACTA
1 CATAACTTACATAACTTACATAACTTACATAA-TA
* * * * *
23235631 TTAAAATACATAATACACAACTTACATAGCTTACTTAATA
1 -CAT-A-AC-T--TACATAACTTACATAACTTACATAATA
* *
23235671 CATAACTTACATAACTTA-ATAATTTACTTAATA
1 CATAACTTACATAACTTACATAACTTACATAATA
23235704 CATAA
1 CATAA
23235709 ATTATGTAAC
Statistics
Matches: 250, Mismatches: 48, Indels: 47
0.72 0.14 0.14
Matches are distributed among these distances:
32 13 0.05
33 23 0.09
34 107 0.43
35 19 0.08
36 47 0.19
37 13 0.05
38 6 0.02
39 2 0.01
40 2 0.01
41 18 0.07
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (34 bp):
CATAACTTACATAACTTACATAACTTACATAATA
Found at i:23235674 original size:61 final size:62
Alignment explanation
Indices: 23235444--23235674 Score: 153
Period size: 61 Copynumber: 3.8 Consensus size: 62
23235434 TATCTTACAC
** * * * **
23235444 AACTTACATAACCTACAT-AATACATAACTTAC--CTAACTTACATA-ATACATAACTTACAT
1 AACTTACATAAAATACATAAATACACAACTTACAACTTACTTA-ATACATACATTACTTTGAT
* ** * * *
23235503 AACTTACCTAACTTACAT-AATACATAATAACTTATAACTTACAT-A-ACATACATTACTTTGAT
1 AACTTACATAAAATACATAAATAC---ACAACTTACAACTTACTTAATACATACATTACTTTGAT
** * *
23235565 AACTTACATAAGTTACATAAAATACATAACTTACAACTTACAT-A-ACATACATTACTTTGAT
1 AACTTACATAAAATACAT-AAATACACAACTTACAACTTACTTAATACATACATTACTTTGAT
*
23235626 AAC-TA-TTAAAATACAT-AATACACAACTTACATAGCTTACTTAATACATA
1 AACTTACATAAAATACATAAATACACAACTTACA-A-CTTACTTAATACATA
23235675 ACTTACATAA
Statistics
Matches: 144, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
57 14 0.10
58 1 0.01
59 35 0.24
60 3 0.02
61 44 0.31
62 37 0.26
64 10 0.07
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (62 bp):
AACTTACATAAAATACATAAATACACAACTTACAACTTACTTAATACATACATTACTTTGAT
Found at i:23240616 original size:43 final size:42
Alignment explanation
Indices: 23240569--23240660 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
23240559 ATCAAATAGT
*
23240569 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTGTG-AACAAGCGCCGCTAAAGAACACTACTTTTAGC
* * * * *
23240612 GGCGTTTTTGACCAAGCGCCGCTACAGAACATTATTTTTAGC
1 GGCGTTTGTGAACAAGCGCCGCTAAAGAACACTACTTTTAGC
23240654 GGCGTTT
1 GGCGTTT
23240661 TATTTCTAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 34 0.79
43 9 0.21
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (42 bp):
GGCGTTTGTGAACAAGCGCCGCTAAAGAACACTACTTTTAGC
Found at i:23240641 original size:42 final size:40
Alignment explanation
Indices: 23240583--23240874 Score: 198
Period size: 42 Copynumber: 6.9 Consensus size: 40
23240573 TTTGTGAAAT
23240583 AAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACC
1 AAGCGCCGCTAAAGAACA-TA-TTTTAGCGGCGTTTTTGACC
* ** *
23240625 AAGCGCCGCTACAGAACATTATTTTTAGCGGCGTTTTATTTCT
1 AAGCGCCGCTAAAGAACA-TA-TTTTAGCGGCGTTTT-TGACC
* *
23240668 AAGAGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TCC
1 AAGCGCCGCTAAAGAACAT-AT-TTTAGCGGCGTTTTTGACC
* *
23240709 TAAGTGCCGCTAAA-AACATGATCTTTAGCGGCGTTTATT-TCC
1 -AAGCGCCGCTAAAGAACAT-AT-TTTAGCGGCGTTT-TTGACC
* * * *
23240751 TTAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TCAT
1 -AAGCGCCGCTAAAGAACAT-AT-TTTAGCGGCGTTTTTGAC-C
* * * * *
23240794 AAGCGCCGCTAAAGAATAGGATCTTTAGCAGCATTTATT-TCC
1 AAGCGCCGCTAAAGAACA-TAT-TTTAGCGGCGTTT-TTGACC
*
23240836 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
1 -AAGCGCCGCTAAAGAACAT-AT-TTTAGCGGCGTTTTT
23240875 TTCTGTAAGC
Statistics
Matches: 213, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
41 24 0.11
42 100 0.47
43 89 0.42
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACATATTTTAGCGGCGTTTTTGACC
Found at i:23240676 original size:85 final size:83
Alignment explanation
Indices: 23240582--23240875 Score: 369
Period size: 85 Copynumber: 3.5 Consensus size: 83
23240572 GTTTGTGAAA
* *
23240582 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACCAAGCGCCGCTACAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCCAAGCGCCGCTA-AGAACATG
*
23240645 ATTTTTAGCGGCGTTTTATTT-C
62 ATCTTTAGCGGCG-TTTATTTCC
* * *
23240667 TAAGAGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGTGCCGCTAAAAACATGATC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC-AAGCGCCGCTAAGAACATGATC
23240732 TTTAGCGGCGTTTATTTCC
65 TTTAGCGGCGTTTATTTCC
* * * * *
23240751 TTAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAATAGGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC-CAAGCGCCGCT-AAGAACATGAT
* *
23240816 CTTTAGCAGCATTTATTTCC
64 CTTTAGCGGCGTTTATTTCC
*
23240836 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
23240876 TCTGTAAGCG
Statistics
Matches: 186, Mismatches: 17, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
83 7 0.04
84 69 0.37
85 109 0.59
86 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (83 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCAAGCGCCGCTAAGAACATGATCT
TTAGCGGCGTTTATTTCC
Found at i:23243881 original size:25 final size:26
Alignment explanation
Indices: 23243849--23243925 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
23243839 ATATTAATAG
23243849 TTTT-TAAT-AATTTTCTTTATTTTC
1 TTTTATAATAAATTTTCTTTATTTTC
*
23243873 TTTTATAATAAATTTT-TGTACTTTGTC
1 TTTTATAATAAATTTTCTTTA-TTT-TC
* *
23243900 ATTTATAATAAATTTTC-TAATTTTC
1 TTTTATAATAAATTTTCTTTATTTTC
23243925 T
1 T
23243926 ATATATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 4 0.09
25 9 0.21
26 12 0.28
27 18 0.42
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATAATAAATTTTCTTTATTTTC
Found at i:23244504 original size:18 final size:17
Alignment explanation
Indices: 23244463--23244502 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
23244453 AAAAAAATCT
23244463 AAAAATCATAAATATATTC
1 AAAAAT-ATAAA-ATATTC
23244482 AAAAA-ATAAAATATTC
1 AAAAATATAAAATATTC
23244498 AAAAA
1 AAAAA
23244503 AATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
19 5 0.24
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATATAAAATATTC
Found at i:23244506 original size:17 final size:17
Alignment explanation
Indices: 23244470--23244503 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
23244460 TCTAAAAATC
23244470 ATAAATATATTCAAAAA
1 ATAAATATATTCAAAAA
23244487 ATAAA-ATATTCAAAAA
1 ATAAATATATTCAAAAA
23244503 A
1 A
23244504 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAATATATTCAAAAA
Found at i:23245080 original size:14 final size:16
Alignment explanation
Indices: 23245047--23245084 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
23245037 GGTAAGAAAA
23245047 AATTATTAAATTACTT
1 AATTATTAAATTACTT
*
23245063 AATT-TTAAA-TAGTT
1 AATTATTAAATTACTT
23245077 AATTATTA
1 AATTATTA
23245085 TGTTGTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 8 0.40
16 4 0.20
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTATTAAATTACTT
Found at i:23248949 original size:26 final size:25
Alignment explanation
Indices: 23248920--23248974 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
23248910 TGATACTCTA
* *
23248920 TTTTCAA-CATATGTTTCCAAGTTATG
1 TTTTCAAGC-TATGTTT-AAAGATATG
*
23248946 TTTTTAAGCTATGTTTAAAGATATG
1 TTTTCAAGCTATGTTTAAAGATATG
23248971 TTTT
1 TTTT
23248975 ATGCACGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 11 0.44
26 13 0.52
27 1 0.04
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (25 bp):
TTTTCAAGCTATGTTTAAAGATATG
Found at i:23249031 original size:14 final size:13
Alignment explanation
Indices: 23248996--23249044 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
23248986 TATGTGAGCC
23248996 TATGTTTTAAAAG
1 TATGTTTTAAAAG
*
23249009 CATGTTTTAAAAG
1 TATGTTTTAAAAG
*
23249022 TATAGTTTTATAAG
1 TAT-GTTTTAAAAG
23249036 CTATGTTTT
1 -TATGTTTT
23249045 TGCTAGCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 14 0.45
14 14 0.45
15 3 0.10
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (13 bp):
TATGTTTTAAAAG
Found at i:23266203 original size:43 final size:42
Alignment explanation
Indices: 23266150--23266292 Score: 112
Period size: 42 Copynumber: 3.3 Consensus size: 42
23266140 CCACTACAAC
*
23266150 CGAGGGAGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAA
1 CGAGGAAGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAA
* * * * * * *
23266192 CGTAGGAAGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-TAA
1 CG-AGGAAGGCAATGCTTTG-T-T-TTTGATCTGCTTCGCTGTTAA
* *
23266236 CCGATGG-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
1 -CGA-GGAAGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAA
23266279 CGCAGGAAGGCAAT
1 CG-AGGAAGGCAAT
23266293 ATCTGCTATC
Statistics
Matches: 74, Mismatches: 17, Indels: 19
0.67 0.15 0.17
Matches are distributed among these distances:
42 21 0.28
43 21 0.28
44 12 0.16
45 20 0.27
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (42 bp):
CGAGGAAGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAA
Found at i:23266205 original size:87 final size:87
Alignment explanation
Indices: 23266106--23266388 Score: 397
Period size: 87 Copynumber: 3.3 Consensus size: 87
23266096 CACTATCGAT
* * * *
23266106 GCAGGAGGGCAAGATATGCTATCTTTAACCAGCTCCACTACAACCGAGGGAGGCAATGCTTTGTT
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTT
*
23266171 TTTGATCTGCTTCGCTGTTAAC
66 TTCGATCTGCTTCGCTGTTAAC
* **
23266193 GTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTT
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTT
23266258 TTCGATCTGCTTCGCTGTTAAC
66 TTCGATCTGCTTCGCTGTTAAC
* * * * *
23266280 GCAGGAAGGCAATATCTGCTATCTTTAAACAACTCCATTACAACCGATAGAGGCAAGGC-TTGTA
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGT-
* * *
23266344 TCTCGATCTGCTTCGCTGTCAAT
65 TTTCGATCTGCTTCGCTGTTAAC
*
23266367 GCAGGAAGGCAAGATTTGCTAT
1 GCAGGAAGGCAAGATCTGCTAT
23266389 TTTCACTGAT
Statistics
Matches: 174, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 4 0.02
87 170 0.98
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (87 bp):
GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTT
TTCGATCTGCTTCGCTGTTAAC
Found at i:23268599 original size:10 final size:9
Alignment explanation
Indices: 23268580--23268611 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
23268570 TTGATTTTGA
23268580 TTTTGATTTT
1 TTTTG-TTTT
23268590 TTTTGTTTT
1 TTTTGTTTT
23268599 TTTTGTTTT
1 TTTTGTTTT
23268608 TTTT
1 TTTT
23268612 AAATCTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:23268608 original size:6 final size:6
Alignment explanation
Indices: 23268550--23268589 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
23268540 TCTTTTCTTT
23268550 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
23268590 TTTTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:23276711 original size:12 final size:12
Alignment explanation
Indices: 23276694--23276726 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
23276684 GGGCCACACA
*
23276694 CCCGTGTCCTTG
1 CCCGTGTCCTAG
23276706 CCCGTGTCCTAG
1 CCCGTGTCCTAG
23276718 CCCGTGTCC
1 CCCGTGTCC
23276727 AAACTAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.45, G:0.24, T:0.27
Consensus pattern (12 bp):
CCCGTGTCCTAG
Found at i:23278542 original size:9 final size:9
Alignment explanation
Indices: 23278517--23278549 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
23278507 CATAGCAGGC
23278517 CACACATTT
1 CACACATTT
23278526 CACA-ATTT
1 CACACATTT
23278534 CACACATTT
1 CACACATTT
*
23278543 AACACAT
1 CACACAT
23278550 AATTTTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (9 bp):
CACACATTT
Found at i:23289044 original size:26 final size:24
Alignment explanation
Indices: 23289015--23289063 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
23289005 CACTTTAATT
23289015 TGTCTAAACAATAGACACAATTAAAG
1 TGTCTAAACAA-AGAC-CAATTAAAG
* *
23289041 TGTCTGAACTAAGACCAATTAAA
1 TGTCTAAACAAAGACCAATTAAA
23289064 CACATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 4 0.19
26 9 0.43
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
TGTCTAAACAAAGACCAATTAAAG
Found at i:23290967 original size:25 final size:25
Alignment explanation
Indices: 23290910--23290959 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
23290900 TTGTAGCACC
*
23290910 AACTCAATCAAATACATTATTAATA
1 AACTCAATCAAATACATTATGAATA
23290935 AACTCAATCAAATACATTATGAATA
1 AACTCAATCAAATACATTATGAATA
23290960 TGTACAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTCAATCAAATACATTATGAATA
Found at i:23291013 original size:18 final size:20
Alignment explanation
Indices: 23290976--23291020 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
23290966 ATTGAAGGTC
*
23290976 ATAAAATGTGAATAATAAAAT
1 ATAAAATGT-AATAAAAAAAT
23290997 -TAAAATGT-ATAAAAAAAT
1 ATAAAATGTAATAAAAAAAT
23291015 ATAAAA
1 ATAAAA
23291021 GAAAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 5 0.23
20 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
ATAAAATGTAATAAAAAAAT
Found at i:23297176 original size:40 final size:40
Alignment explanation
Indices: 23297125--23297241 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 40
23297115 CGTTTGGAGC
* **
23297125 AAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTAATT
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
23297165 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
23297205 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
23297242 TAGATAACGC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
Found at i:23299897 original size:84 final size:84
Alignment explanation
Indices: 23299791--23299991 Score: 330
Period size: 84 Copynumber: 2.4 Consensus size: 84
23299781 TAGTTAAACT
*** * *
23299791 TTTAGTGGCGTTTTTAGGAAAACGCCACAAATAATGCAATTCCAGACCACGAAAATGGTGTCGTT
1 TTTAGTGGCGTTTTTCCAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
23299856 TCTATTCACAGCTGTAATA
66 TCTATTCACAGCTGTAATA
*
23299875 TTTAGTGGCGTTTTTCTAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTCCAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
*
23299940 TCTGTTCACAGCTGTAATA
66 TCTATTCACAGCTGTAATA
23299959 TTTAGTGGCGTTTTTACCAAAAACGCCACAAAA
1 TTTAGTGGCGTTTTT-CCAAAAACGCCACAAAA
23299992 CGGTGTTAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 93 0.85
85 16 0.15
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (84 bp):
TTTAGTGGCGTTTTTCCAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
TCTATTCACAGCTGTAATA
Found at i:23302276 original size:57 final size:57
Alignment explanation
Indices: 23302188--23302338 Score: 268
Period size: 57 Copynumber: 2.6 Consensus size: 57
23302178 CGATTGAATG
23302188 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
23302245 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
23302302 TTAAATTTATTTCTAAAATACATTACTTACTAAAATA
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATA
23302339 NNNNNNNNNN
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 90 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.42
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:23302297 original size:17 final size:17
Alignment explanation
Indices: 23302197--23302296 Score: 103
Period size: 17 Copynumber: 5.5 Consensus size: 17
23302187 GTTAAATTTA
23302197 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
23302214 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
23302231 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
23302254 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
23302271 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
23302288 TTACATAAA
1 TTAC-TAAA
23302297 TTTGTTTAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
16 3 0.04
17 49 0.68
18 4 0.06
23 13 0.18
24 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:23302821 original size:73 final size:73
Alignment explanation
Indices: 23302708--23302929 Score: 437
Period size: 73 Copynumber: 3.1 Consensus size: 73
23302698 TAAAATAAAA
23302708 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
23302773 TTAATAAT
66 TTAATAAT
23302781 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
23302846 TTAATAAT
66 TTAATAAT
23302854 TAT-AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
23302918 TTAATAAT
66 TTAATAAT
23302926 TATA
1 TATA
23302930 TTAGTAATGT
Statistics
Matches: 148, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
72 72 0.49
73 76 0.51
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:23302902 original size:72 final size:72
Alignment explanation
Indices: 23302712--23302929 Score: 427
Period size: 72 Copynumber: 3.0 Consensus size: 72
23302702 ATAAAATATA
23302712 AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
1 AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
23302777 TAATTAT
66 TAATTAT
23302784 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
1 -AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
23302849 ATAATTAT
65 ATAATTAT
23302857 AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
1 AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
23302922 TAATTAT
66 TAATTAT
23302929 A
1 A
23302930 TTAGTAATGT
Statistics
Matches: 145, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 73 0.50
73 72 0.50
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (72 bp):
AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
TAATTAT
Found at i:23303008 original size:18 final size:18
Alignment explanation
Indices: 23302985--23303252 Score: 111
Period size: 18 Copynumber: 14.4 Consensus size: 18
23302975 AATAACTTAC
23302985 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
23303003 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
23303021 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
23303038 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
23303061 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
23303081 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
23303104 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
*
23303124 AACTTAGATAATACATTT
1 AACTTACATAATACATTT
* *
23303142 AACTTACA-ACTTACA--C
1 AACTTACATA-ATACATTT
*
23303158 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
*
23303175 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
23303194 AACTTACA-ACTTACA--T
1 AACTTACATA-ATACATTT
*
23303210 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
23303227 AACTTACATAATACATTT
1 AACTTACATAATACATTT
23303245 AACTTACA
1 AACTTACA
23303253 ACTTACATAA
Statistics
Matches: 193, Mismatches: 16, Indels: 82
0.66 0.05 0.28
Matches are distributed among these distances:
13 3 0.02
14 14 0.07
15 4 0.02
16 9 0.05
17 8 0.04
18 63 0.33
19 44 0.23
20 12 0.06
21 1 0.01
23 4 0.02
24 1 0.01
25 30 0.16
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.34
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:23303010 original size:25 final size:25
Alignment explanation
Indices: 23302966--23303462 Score: 689
Period size: 25 Copynumber: 20.1 Consensus size: 25
23302956 ATTTTATTAA
*
23302966 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
23302992 ATAATACATTTAACTTACATTACTTAC
1 ATAATACATTTAACTTACA--ACTTAC
*
23303019 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
23303045 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
23303070 ATAATACA--T---TT--AACTTAC
1 ATAATACATTTAACTTACAACTTAC
23303088 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
23303113 ATAATACA--T---TT--AACTTAG
1 ATAATACATTTAACTTACAACTTAC
23303131 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
* *
23303156 ACAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
*
23303182 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
*
23303208 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
23303234 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
23303259 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
23303284 ACAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
23303309 ACAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
* *
23303334 ACAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
23303360 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
23303385 ACAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
23303410 ACAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
23303435 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
23303461 AT
1 AT
23303463 TTAACTTACA
Statistics
Matches: 435, Mismatches: 16, Indels: 40
0.89 0.03 0.08
Matches are distributed among these distances:
18 29 0.07
20 6 0.01
23 6 0.01
25 231 0.53
26 139 0.32
27 15 0.03
28 9 0.02
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATACATTTAACTTACAACTTAC
Found at i:23303354 original size:101 final size:100
Alignment explanation
Indices: 23302966--23303462 Score: 689
Period size: 101 Copynumber: 5.0 Consensus size: 100
23302956 ATTTTATTAA
* * *
23302966 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAAT
1 ATAATACAT-TTAACTTACAACTTACACAATACATTTAACTTACA--ACTTACATAATACAT-TT
23303031 AACTTACAACTTACATAATACATTTAACTTACAACTTAC
62 AACTTACAACTTACATAATACATTTAACTTACAACTTAC
23303070 ATAATACATTTAACTTAC-A--T----AATACATTTAACTTACAACTTACATAATACA--T---T
1 ATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATTTAACT
*
23303123 T--AACTTAGATAATACATTTAACTTACAACTTAC
66 TACAACTTACATAATACATTTAACTTACAACTTAC
* * * * *
23303156 ACAATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATAATA
1 ATAATACAT-TTAACTTACAACTTACACAATACAT-TTAACTTACAACTTACATAATACAT-TTA
23303221 ACTTACAACTTACATAATACATTTAACTTACAACTTAC
63 ACTTACAACTTACATAATACATTTAACTTACAACTTAC
*
23303259 ATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACACAATACATTTAACT
1 ATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATTTAACT
* *
23303324 TACAACTTACACAATACATAATAACTTACAACTTAC
66 TACAACTTACATAATACAT-TTAACTTACAACTTAC
*
23303360 ATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACACAATACATTTAACT
1 ATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATTTAACT
*
23303425 TACAACTTACATAATACATAATAACTTACAACTTAC
66 TACAACTTACATAATACAT-TTAACTTACAACTTAC
23303461 AT
1 AT
23303463 TTAACTTACA
Statistics
Matches: 360, Mismatches: 15, Indels: 39
0.87 0.04 0.09
Matches are distributed among these distances:
86 39 0.11
87 8 0.02
88 3 0.01
90 1 0.00
91 1 0.00
94 21 0.06
95 23 0.06
96 17 0.05
98 1 0.00
100 24 0.07
101 142 0.39
102 24 0.07
103 47 0.13
104 9 0.03
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.33
Consensus pattern (100 bp):
ATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATTTAACT
TACAACTTACATAATACATTTAACTTACAACTTAC
Found at i:23303470 original size:11 final size:10
Alignment explanation
Indices: 23303454--23303507 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
23303444 AATAACTTAC
23303454 AACTTACATTT
1 AACTTACA-TT
23303465 AACTTACA-T
1 AACTTACATT
23303474 AA--TACATTT
1 AACTTACA-TT
23303483 AACTTACA-T
1 AACTTACATT
23303492 AACTTACA-T
1 AACTTACATT
23303501 AACTTAC
1 AACTTAC
23303508 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:23303491 original size:18 final size:18
Alignment explanation
Indices: 23303428--23303493 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
23303418 TTTAACTTAC
*
23303428 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
23303447 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
23303465 AACTTACATAATACATTT
1 AACTTACATAATACATTT
23303483 AACTTACATAA
1 AACTTACATAA
23303494 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:23303503 original size:18 final size:18
Alignment explanation
Indices: 23302976--23303507 Score: 84
Period size: 18 Copynumber: 31.0 Consensus size: 18
23302966 ATAATACATA
23302976 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
23302992 ATAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
* *
23303010 ATTACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
23303029 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
23303045 ATAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
23303063 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
23303077 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
23303095 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
23303113 ATAA--TACATTTAACTTAG
1 ATAACTTACA--TAACTTAC
23303131 ATAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
* *
23303149 --AACTTACACAATACATA-
1 ATAACTTACA-TA-ACTTAC
23303166 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
23303182 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
*
23303201 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
23303218 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
23303234 ATAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
23303252 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
23303266 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
23303284 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
23303302 --AACTTACACAA--TAC
1 ATAACTTACATAACTTAC
23303316 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
* *
23303334 ACAATACATA-ATAACTTAC
1 A-TA-ACTTACATAACTTAC
23303353 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
23303367 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
23303385 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
23303403 --AACTTACACAA--TAC
1 ATAACTTACATAACTTAC
23303417 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
23303435 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
23303454 --AACTTACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
23303472 ATAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
23303490 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
23303508 CATTGCAATT
Statistics
Matches: 394, Mismatches: 24, Indels: 194
0.64 0.04 0.32
Matches are distributed among these distances:
14 33 0.08
15 24 0.06
16 65 0.16
17 5 0.01
18 209 0.53
19 44 0.11
20 14 0.04
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:23309090 original size:21 final size:21
Alignment explanation
Indices: 23309064--23309131 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
23309054 CTACAACTTA
* *
23309064 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
23309085 AAGCAGTGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
23309106 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
23309127 AAGCA
1 AAGCA
23309132 AAGCAGAGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.47, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:23309515 original size:42 final size:41
Alignment explanation
Indices: 23309407--23309654 Score: 298
Period size: 42 Copynumber: 5.9 Consensus size: 41
23309397 TTTTGTATAA
* * * ***
23309407 AAGCGCCACTAAAGAACATGTTCTTTCGCGGCGTTTGTAAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTT
** * *
23309448 AAATGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTTCCTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT-TTT
* *
23309490 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTT
* * *
23309531 ACAAACGCCGTTAAAAAACATGTTCTTTAGCGGCGTTTTTTTCT
1 --AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-T
*
23309575 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-T
*
23309617 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
23309655 GTTTTCAAAC
Statistics
Matches: 181, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
41 36 0.20
42 109 0.60
43 35 0.19
44 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTT
Found at i:23309566 original size:85 final size:84
Alignment explanation
Indices: 23309407--23309654 Score: 304
Period size: 85 Copynumber: 3.0 Consensus size: 84
23309397 TTTTGTATAA
* * * * *** * *
23309407 AAGCGCCACTAAAGAACATGTTCTTTCGCGGCG-TTTGTAAAAAATGCCACTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAACATGTTC
23309471 TTTAGCGGCGTTTTTC-CTT
66 TTTAGCGGCGTTTTTCTC-T
* * * *
23309490 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTT-TACAAACGCCGTTAAAAAACATGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT--AAACGCCGCTAAAGAACATGT
*
23309554 TCTTTAGCGGCGTTTTTTTCT
64 TCTTTAGCGGCGTTTTTCTCT
* *
23309575 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAACATGTTC
23309640 TTTAGCGGCGTTTTT
66 TTTAGCGGCGTTTTT
23309655 GTTTTCAAAC
Statistics
Matches: 142, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
83 29 0.20
84 38 0.27
85 73 0.51
86 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAACATGTTC
TTTAGCGGCGTTTTTCTCT
Found at i:23317960 original size:18 final size:19
Alignment explanation
Indices: 23317915--23317963 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
23317905 GAATATTTAC
*
23317915 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
23317935 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
23317953 ATAAAAATAAA
1 ATAAAAATAAA
23317964 ACTTTACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:23318963 original size:15 final size:16
Alignment explanation
Indices: 23318925--23318971 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
23318915 TAACAAAGTA
**
23318925 TAAAAATTATTATTTT
1 TAAAAATTATTAAATT
*
23318941 TAATAATT-TTAAATT
1 TAAAAATTATTAAATT
23318956 TAAAAATTAATTAAAT
1 TAAAAATT-ATTAAAT
23318972 GTTGACATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 12 0.48
16 7 0.28
17 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAAATTATTAAATT
Found at i:23320117 original size:19 final size:19
Alignment explanation
Indices: 23320093--23320131 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23320083 CGCAAAATGA
*
23320093 TTTCTGGAAAATGTTTTAC
1 TTTCTGGAAAATGATTTAC
*
23320112 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
23320131 T
1 T
23320132 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TTTCTGGAAAATGATTTAC
Found at i:23321178 original size:10 final size:9
Alignment explanation
Indices: 23321156--23321189 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
23321146 AACAAAACAG
23321156 AAAAATTTT
1 AAAAATTTT
23321165 AAAAATTTT
1 AAAAATTTT
23321174 AAAAATTTT
1 AAAAATTTT
23321183 AGAAAAT
1 A-AAAAT
23321190 AGGGGTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:23321370 original size:54 final size:55
Alignment explanation
Indices: 23321269--23321373 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
23321259 TGTGGCCAAA
* * *
23321269 CCGTGTACAATTCAAAATAAGGGTCACACAGTCGTGTCTCAACCTATGTGCCTGC
1 CCGTGTACAAATCAAAATAAGAGTCACACAGTCGTGTCGCAACCTATGTGCCTGC
*
23321324 CCGTGTGCAAATCAAAATAA-AGTCACACAG-CTGTGTCGCAGA-CTATGTGC
1 CCGTGTACAAATCAAAATAAGAGTCACACAGTC-GTGTCGCA-ACCTATGTGC
23321374 TAGACCGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
53 1 0.02
54 24 0.55
55 19 0.43
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (55 bp):
CCGTGTACAAATCAAAATAAGAGTCACACAGTCGTGTCGCAACCTATGTGCCTGC
Found at i:23321382 original size:54 final size:55
Alignment explanation
Indices: 23321268--23321384 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 55
23321258 GTGTGGCCAA
* * * *
23321268 ACCGTGTACAATTCAAAATAAGGGTCACACAGTCGTGTCTCAACCTATGTGCCTG
1 ACCGTGTGCAAATCAAAATAAGAGTCACACAGTCGTGTCGCAACCTATGTGCCTG
*
23321323 CCCGTGTGCAAATCAAAATAA-AGTCACACAG-CTGTGTCGCAGA-CTATGTG-CTAG
1 ACCGTGTGCAAATCAAAATAAGAGTCACACAGTC-GTGTCGCA-ACCTATGTGCCT-G
23321377 ACCGTGTG
1 ACCGTGTG
23321385 AGTATTCGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
53 3 0.06
54 31 0.58
55 19 0.36
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (55 bp):
ACCGTGTGCAAATCAAAATAAGAGTCACACAGTCGTGTCGCAACCTATGTGCCTG
Found at i:23324139 original size:198 final size:197
Alignment explanation
Indices: 23323800--23324190 Score: 638
Period size: 198 Copynumber: 2.0 Consensus size: 197
23323790 CACCAAGATT
* * * *
23323800 AATATTTCTAACCTTTCTTTAGGTAGAATACCAAACGTTTATGCCATAAGTAAGTAAAATTTTCA
1 AATATTTCTAACCTTTCTTTAGGTACAAGACCAAACGTTTATGCCACAAGTAAGCAAAATTTTCA
*
23323865 TTTAGCATACTACGCTTAATTCCAACATGATATGATCAATAAGTAAGGATTCCACAAAGACATTA
66 TTTAGCATACTACGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACATTA
*
23323930 TCAAGTTTCAATTTATATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTTA
131 TCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTTA
23323995 CG
196 CG
* * * *
23323997 AATATTTTTAACCTTTCTTTGGGTACAAGACCCAAACGTTTATGCCACAAGTACGCAGAATTTTC
1 AATATTTCTAACCTTTCTTTAGGTACAAGA-CCAAACGTTTATGCCACAAGTAAGCAAAATTTTC
* *
23324062 ATTTAGCATACTATGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCATAAAGACATT
65 ATTTAGCATACTACGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACATT
* * *
23324127 ATCAATTTTCAATTTAGATAAACCATCAATAAGACTTCTTGAACCTAAGAAAATTATTATTCTT
130 ATCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTT
23324191 AAATAAACTA
Statistics
Matches: 178, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
197 26 0.15
198 152 0.85
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (197 bp):
AATATTTCTAACCTTTCTTTAGGTACAAGACCAAACGTTTATGCCACAAGTAAGCAAAATTTTCA
TTTAGCATACTACGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACATTA
TCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTTA
CG
Found at i:23326007 original size:73 final size:73
Alignment explanation
Indices: 23325910--23326095 Score: 212
Period size: 73 Copynumber: 2.5 Consensus size: 73
23325900 CTTTAAAAGT
* * * * *
23325910 AAAAGAATAAATAAGTGAA-TAAATAGATAAAACAAATGTAAACAACACTAAATTTAACCATTTG
1 AAAATAATAAATAAAT-AAGTAAATAGATAAAATAAATATAAACAACACTAAATTTAAACATTTG
23325974 AAAAGTAAA
65 AAAAGTAAA
* * * * * * *
23325983 AAAATAATAAATAAATAAGTAAATAGATAAAGTAAATATTAATAATATTAAATTTAAATATTTTA
1 AAAATAATAAATAAATAAGTAAATAGATAAAATAAATATAAACAACACTAAATTTAAACATTTGA
23326048 AAAGTAAA
66 AAAGTAAA
* * * *
23326056 AGAATGATAAATAAATGAGTAAATAAATAAAATAAATATA
1 AAAATAATAAATAAATAAGTAAATAGATAAAATAAATATA
23326096 TAGCATTAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
72 2 0.02
73 92 0.98
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (73 bp):
AAAATAATAAATAAATAAGTAAATAGATAAAATAAATATAAACAACACTAAATTTAAACATTTGA
AAAGTAAA
Found at i:23326017 original size:13 final size:12
Alignment explanation
Indices: 23325976--23326020 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
23325966 ACCATTTGAA
*
23325976 AAGTAAAAAAAT
1 AAGTAAATAAAT
23325988 AA-TAAATAAAT
1 AAGTAAATAAAT
*
23325999 AAGTAAATAGAT
1 AAGTAAATAAAT
23326011 AAAGTAAATA
1 -AAGTAAATA
23326021 TTAATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.34
12 10 0.34
13 9 0.31
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (12 bp):
AAGTAAATAAAT
Found at i:23327995 original size:89 final size:88
Alignment explanation
Indices: 23327782--23328019 Score: 223
Period size: 89 Copynumber: 2.7 Consensus size: 88
23327772 TCTAACCCAG
* * * * * *
23327782 TGCAACTTCAGAG-G-TATAGAATTTGTCTCTTCAATCTACTCCACTGCATCTTCAGGGAGATAA
1 TGCAACTTCAGAGAGATA-AG-ACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
23327845 GATTAGTAACTTCGTCCTACTCCAC
64 GATTAGTAACTTCGTCCTACTCCAC
* ** * * * * *
23327870 TGCATCTTCAGAGAGATAAGGTTTATAGCTTTAATCTGCTCTACTATAACTTCAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGA
* * *
23327935 TTTGCTATCTTCAGT-CTGCTCCAC
66 TTAG-TAACTTC-GTCCTACTCCAC
* * *
23327959 TGCAACTTCA-AGGAGATAAGACTTGTATCTTCAATCTGCCCCACTGCAACTTCAGGGAGAT
1 TGCAACTTCAGA-GAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGAT
23328020 TTGATTGTAA
Statistics
Matches: 119, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
88 50 0.42
89 65 0.55
90 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (88 bp):
TGCAACTTCAGAGAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGA
TTAGTAACTTCGTCCTACTCCAC
Found at i:23328003 original size:44 final size:44
Alignment explanation
Indices: 23327802--23328019 Score: 199
Period size: 44 Copynumber: 4.9 Consensus size: 44
23327792 GAGGTATAGA
* * * *
23327802 ATTTGTCTCTTCAATCTACTCCACTGCATCTTCAGGGAGATAAG
1 ATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG
* * * * *
23327846 ATTAGTAACTTC-GTCCTACTCCACTGCATCTTC-AGAGAGATAAG
1 ATTTGTATCTTCAAT-CTGCTCCACTGCAACTTCAAG-GAGATAAG
* * * * * **
23327890 GTTTATAGCTTTAATCTGCTCTACTATAACTTC-AGAGAGATAAG
1 ATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAG
*
23327934 ATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAG
1 ATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG
* * *
23327979 ACTTGTATCTTCAATCTGCCCCACTGCAACTTCAGGGAGAT
1 ATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGAT
23328020 TTGATTGTAA
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
43 2 0.01
44 102 0.72
45 35 0.25
46 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
ATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG
Found at i:23328218 original size:96 final size:96
Alignment explanation
Indices: 23327984--23328219 Score: 296
Period size: 96 Copynumber: 2.5 Consensus size: 96
23327974 ATAAGACTTG
* * * * *
23327984 TATCTTCAATCTGCCCCACTGCAACTTCAGGGAGATTTGA-TTGTAATTTGTAGCCTTAATTTGT
1 TATCTTTAATCTGCTCCACTGCAACTTCAGAGAGATTCGATTTGTAATTTGTAGCCTTAATCTGT
** * * *
23328048 TCTGCTGCAAGTTTAGGGAAATAAGATTCGC
66 TCCACTGCAACTTTAGGGAAACAAGATTCAC
* * * * *
23328079 TATCTATAGTCTGCTCCACTGCAACTTCA-AGGGGATCCAATTTGTAATTTGTAGCCTTAATCTG
1 TATCTTTAATCTGCTCCACTGCAACTTCAGA-GAGATTCGATTTGTAATTTGTAGCCTTAATCTG
23328143 TTCCACTGCAACTTTAGGGAAACAAGATTCAC
65 TTCCACTGCAACTTTAGGGAAACAAGATTCAC
* *
23328175 TATCTTTAACCTGCTCCACTGTAACTTCAGAGAGATTCGATTTGT
1 TATCTTTAATCTGCTCCACTGCAACTTCAGAGAGATTCGATTTGT
23328220 GGCTTTAATC
Statistics
Matches: 116, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
95 30 0.26
96 85 0.73
97 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (96 bp):
TATCTTTAATCTGCTCCACTGCAACTTCAGAGAGATTCGATTTGTAATTTGTAGCCTTAATCTGT
TCCACTGCAACTTTAGGGAAACAAGATTCAC
Found at i:23330661 original size:541 final size:541
Alignment explanation
Indices: 23329639--23330722 Score: 2150
Period size: 541 Copynumber: 2.0 Consensus size: 541
23329629 ATGGTAACTT
23329639 TTCATTCCAATCTTTATAAGTCTCAGTCATTTTTCCTACAATCCTCTTGATATTATTATTAGCTA
1 TTCATTCCAATCTTTATAAGTCTCAGTCATTTTTCCTACAATCCTCTTGATATTATTATTAGCTA
23329704 CCTCAGCTACACCATTCATTTTTGGACGATATGGTGACGAGTTGTGGTGTTTAATTTTGAACTGA
66 CCTCAGCTACACCATTCATTTTTGGACGATATGGTGACGAGTTGTGGTGTTTAATTTTGAACTGA
23329769 CTGTAGACCTCTACTATCGTGTTGTTGTTGAAATTCAATGCATTATCTGATATGATCCTTTCTGG
131 CTGTAGACCTCTACTATCGTGTTGTTGTTGAAATTCAATGCATTATCTGATATGATCCTTTCTGG
23329834 CATGCCATACCGACATATGATCTCTTTCTTTAAGAACTTGTTGATTGGCGAATTTGTGAGATTGG
196 CATGCCATACCGACATATGATCTCTTTCTTTAAGAACTTGTTGATTGGCGAATTTGTGAGATTGG
23329899 TGTATGAAGCAGCCTCTACCCACTTGGTAAAGTAATCGATGACCACAAAGATGAATCGATACCCG
261 TGTATGAAGCAGCCTCTACCCACTTGGTAAAGTAATCGATGACCACAAAGATGAATCGATACCCG
*
23329964 TTAGAAGCTTTTGGCAAGACCGGCCCGATGACATCCATGCCCCACATAGAGGAAGGCCATAGAGA
326 TTAGAAGCTTTTGGCAAGACCGGCACGATGACATCCATGCCCCACATAGAGGAAGGCCATAGAGA
23330029 AGTCATAATATGAAAAGGTAAATGAGGCATATGAATCTTGTCCCTATAAATTTGGCACTGATGGA
391 AGTCATAATATGAAAAGGTAAATGAGGCATATGAATCTTGTCCCTATAAATTTGGCACTGATGGA
23330094 ACTTCTTGGCATAACTGATGCAATCCCTTTCCATTATAGACCAATAATACCCGAATCTCGTGATT
456 ACTTCTTGGCATAACTGATGCAATCCCTTTCCATTATAGACCAATAATACCCGAATCTCGTGATT
23330159 TTTATAGCCATCGTAAACCCA
521 TTTATAGCCATCGTAAACCCA
*
23330180 TTCATTCGAATCTTTATAAGTCTCAGTCATTTTTCCTACAATCCTCTTGATATTATTATTAGCTA
1 TTCATTCCAATCTTTATAAGTCTCAGTCATTTTTCCTACAATCCTCTTGATATTATTATTAGCTA
23330245 CCTCAGCTACACCATTCATTTTTGGACGATATGGTGACGAGTTGTGGTGTTTAATTTTGAACTGA
66 CCTCAGCTACACCATTCATTTTTGGACGATATGGTGACGAGTTGTGGTGTTTAATTTTGAACTGA
23330310 CTGTAGACCTCTACTATCGTGTTGTTGTTGAAATTCAATGCATTATCTGATATGATCCTTTCTGG
131 CTGTAGACCTCTACTATCGTGTTGTTGTTGAAATTCAATGCATTATCTGATATGATCCTTTCTGG
23330375 CATGCCATACCGACATATGATCTCTTTCTTTAAGAACTTGTTGATTGGCGAATTTGTGAGATTGG
196 CATGCCATACCGACATATGATCTCTTTCTTTAAGAACTTGTTGATTGGCGAATTTGTGAGATTGG
23330440 TGTATGAAGCAGCCTCTACCCACTTGGTAAAGTAATCGATGACCACAAAGATGAATCGATACCCG
261 TGTATGAAGCAGCCTCTACCCACTTGGTAAAGTAATCGATGACCACAAAGATGAATCGATACCCG
23330505 TTAGAAGCTTTTGGCAAGACCGGCACGATGACATCCATGCCCCACATAGAGGAAGGCCATAGAGA
326 TTAGAAGCTTTTGGCAAGACCGGCACGATGACATCCATGCCCCACATAGAGGAAGGCCATAGAGA
23330570 AGTCATAATATGAAAAGGTAAATGAGGCATATGAATCTTGTCCCTATAAATTTGGCACTGATGGA
391 AGTCATAATATGAAAAGGTAAATGAGGCATATGAATCTTGTCCCTATAAATTTGGCACTGATGGA
23330635 ACTTCTTGGCATAACTGATGCAATCCCTTTCCATTATAGACCAATAATACCCGAATCTCGTGATT
456 ACTTCTTGGCATAACTGATGCAATCCCTTTCCATTATAGACCAATAATACCCGAATCTCGTGATT
23330700 TTTATAGCCATCGTAAACCCA
521 TTTATAGCCATCGTAAACCCA
23330721 TT
1 TT
23330723 AGCATGTGTT
Statistics
Matches: 541, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
541 541 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (541 bp):
TTCATTCCAATCTTTATAAGTCTCAGTCATTTTTCCTACAATCCTCTTGATATTATTATTAGCTA
CCTCAGCTACACCATTCATTTTTGGACGATATGGTGACGAGTTGTGGTGTTTAATTTTGAACTGA
CTGTAGACCTCTACTATCGTGTTGTTGTTGAAATTCAATGCATTATCTGATATGATCCTTTCTGG
CATGCCATACCGACATATGATCTCTTTCTTTAAGAACTTGTTGATTGGCGAATTTGTGAGATTGG
TGTATGAAGCAGCCTCTACCCACTTGGTAAAGTAATCGATGACCACAAAGATGAATCGATACCCG
TTAGAAGCTTTTGGCAAGACCGGCACGATGACATCCATGCCCCACATAGAGGAAGGCCATAGAGA
AGTCATAATATGAAAAGGTAAATGAGGCATATGAATCTTGTCCCTATAAATTTGGCACTGATGGA
ACTTCTTGGCATAACTGATGCAATCCCTTTCCATTATAGACCAATAATACCCGAATCTCGTGATT
TTTATAGCCATCGTAAACCCA
Found at i:23331815 original size:31 final size:32
Alignment explanation
Indices: 23331777--23331839 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
23331767 AGGCAAATTA
23331777 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
23331808 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
23331840 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:23337726 original size:19 final size:20
Alignment explanation
Indices: 23337695--23337748 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
23337685 GGGTCTTTTG
* *
23337695 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGCA
*
23337714 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
23337734 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
23337749 AAGAGGTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:23346139 original size:2 final size:2
Alignment explanation
Indices: 23346132--23346179 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
23346122 AATATGCAAG
23346132 TA TA TA TA TA TA TA TA T- TA TA T- TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23346171 TA TA TA TA T
1 TA TA TA TA T
23346180 TTGTGAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:23346392 original size:19 final size:19
Alignment explanation
Indices: 23346368--23346404 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23346358 TAAATGAACA
*
23346368 AATAATTACAATAATAATT
1 AATAATAACAATAATAATT
*
23346387 AATAATAACAGTAATAAT
1 AATAATAACAATAATAAT
23346405 ATCAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AATAATAACAATAATAATT
Found at i:23350173 original size:72 final size:70
Alignment explanation
Indices: 23350091--23350342 Score: 208
Period size: 73 Copynumber: 3.6 Consensus size: 70
23350081 ATTGAAGTAT
* * * *
23350091 TTAAAA-AATAAATAAATAAATAAATTGATAAAACCAATATGAACAATATCGAATTTAA-AATTT
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAA--T
*
23350154 CTTTAAAA
64 -TTGAAAA
* * * *
23350162 TTAAAAGAATAAATAAGTGAATAAATAGATAAAACAAATATAAACAATATTAAATTTAAGCATTT
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAATTT
23350227 GAAAA
66 GAAAA
* ** ** * *
23350232 GTAAAAGAATAATAAATAAATAAATAAATAGATAAAGTAAATATTCATAATATTAAATTTAA-AT
1 TTAAAAG---AATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGA-
*
23350296 ATTTTAAAA
62 ATTTGAAAA
* * * * *
23350305 GTAAAAGAAT-GATAAATAAATGAGTAAATAAAA-AAATA
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATA
23350343 AATATATAGT
Statistics
Matches: 151, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
68 5 0.03
69 18 0.12
70 15 0.10
71 7 0.05
72 45 0.30
73 61 0.40
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (70 bp):
TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAATTT
GAAAA
Found at i:23350274 original size:73 final size:73
Alignment explanation
Indices: 23350169--23350348 Score: 236
Period size: 73 Copynumber: 2.5 Consensus size: 73
23350159 AAATTAAAAG
* * *
23350169 AATAAATAAGTGAATAAATAGATAAAACAAATATAAACAATATTAAATTTAAGCATTTGAAAAGT
1 AATAAATAAATGAATAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
23350234 AAAAGAAT
66 AAAAGAAT
* * ** * * *
23350242 AATAAATAAATAAATAAATAGATAAAGTAAATATTCATAATATTAAATTTAAATATTTTAAAAGT
1 AATAAATAAATGAATAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
23350307 AAAAGAAT
66 AAAAGAAT
* * *
23350315 GATAAATAAATGAGTAAATA-AAAAAATAAATATA
1 AATAAATAAATGAATAAATAGATAAAATAAATATA
23350349 TAGTATTAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
72 11 0.12
73 80 0.88
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (73 bp):
AATAAATAAATGAATAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
AAAAGAAT
Found at i:23365691 original size:12 final size:12
Alignment explanation
Indices: 23365651--23365693 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
23365641 AATTTACTTT
23365651 TAAATAAAATTA
1 TAAATAAAATTA
* *
23365663 TAATTAATAATTT
1 TAAATAA-AATTA
23365676 TAAATAAAATTA
1 TAAATAAAATTA
23365688 TAAATA
1 TAAATA
23365694 TTTTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAATAAAATTA
Found at i:23365696 original size:21 final size:24
Alignment explanation
Indices: 23365648--23365708 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
23365638 CATAATTTAC
23365648 TTTTAAATAAAATTATAATTAATAA
1 TTTTAAATAAAATTATAA-TAATAA
23365673 TTTTAAATAAAATTAT-A-AAT-A
1 TTTTAAATAAAATTATAATAATAA
23365694 TTTTAAATATAAATT
1 TTTTAAATA-AAATT
23365709 TAGTAGTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.29
22 8 0.23
24 1 0.03
25 16 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTTAAATAAAATTATAATAATAA
Found at i:23371401 original size:22 final size:22
Alignment explanation
Indices: 23371343--23371413 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
23371333 ATGTGCTTAA
*
23371343 AATAAATATAAATGTTATATATAT
1 AATAATTA-AAATG-TATATATAT
* *
23371367 ATTAACTT-TAATGTATATATAT
1 AATAA-TTAAAATGTATATATAT
*
23371389 AATAATTAAAATG-A-ATGTAT
1 AATAATTAAAATGTATATATAT
23371409 AATAA
1 AATAA
23371414 AAGAAAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 10 0.26
21 3 0.08
22 17 0.44
23 4 0.10
24 4 0.10
25 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (22 bp):
AATAATTAAAATGTATATATAT
Found at i:23374083 original size:49 final size:48
Alignment explanation
Indices: 23374011--23374105 Score: 136
Period size: 49 Copynumber: 2.0 Consensus size: 48
23374001 TCTAGAAGAG
* * * *
23374011 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACTAAGTTTAACAATGT
1 ATAAATAGTGATAAGACTATAGACAATAGAAGACCAAGTTT-ACAATGT
*
23374060 ATAAATAGTGATAAGACTGTAGACAATAGAAGACCAAGTTTACAAT
1 ATAAATAGTGATAAGACTATAGACAATAGAAGACCAAGTTTACAAT
23374106 TGCATAGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 5 0.12
49 36 0.88
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.25
Consensus pattern (48 bp):
ATAAATAGTGATAAGACTATAGACAATAGAAGACCAAGTTTACAATGT
Found at i:23379502 original size:12 final size:12
Alignment explanation
Indices: 23379485--23379514 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23379475 CAAATTTAAC
23379485 AAAGAAAGAAAA
1 AAAGAAAGAAAA
*
23379497 AAAGAAAGAAGA
1 AAAGAAAGAAAA
23379509 AAAGAA
1 AAAGAA
23379515 GAAGCTGGTC
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:23379510 original size:15 final size:16
Alignment explanation
Indices: 23379485--23379517 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23379475 CAAATTTAAC
23379485 AAAGAAAGAAAAAAAG
1 AAAGAAAGAAAAAAAG
*
23379501 AAAG-AAGAAAAGAAG
1 AAAGAAAGAAAAAAAG
23379516 AA
1 AA
23379518 GCTGGTCACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAAAAG
Found at i:23383287 original size:35 final size:36
Alignment explanation
Indices: 23383224--23383299 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
23383214 AGGTAAGTTC
* * *
23383224 ATATAGTGTAATTTTGTTTAAGTCCTTATGTATGTT
1 ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
*
23383260 ATATTGTG-AATTATGTTTAAATGCTTATGTATGTT
1 ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
23383295 ATATT
1 ATATT
23383300 TTTCCAGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 29 0.81
36 7 0.19
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.53
Consensus pattern (36 bp):
ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
Found at i:23385431 original size:21 final size:21
Alignment explanation
Indices: 23385383--23385423 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23385373 TGGGTGGATT
* *
23385383 AACTTTTATGAGCTTCTGTTA
1 AACTCTTACGAGCTTCTGTTA
23385404 AACTCTTACGAGCTTCTGTT
1 AACTCTTACGAGCTTCTGTT
23385424 CAGCTCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (21 bp):
AACTCTTACGAGCTTCTGTTA
Found at i:23386406 original size:12 final size:12
Alignment explanation
Indices: 23386389--23386415 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23386379 TCAGGTAGTT
23386389 ACATGGCCTAGC
1 ACATGGCCTAGC
23386401 ACATGGCCTAGC
1 ACATGGCCTAGC
23386413 ACA
1 ACA
23386416 CGGGCATGTG
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:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:23389818 original size:38 final size:39
Alignment explanation
Indices: 23389776--23389857 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
23389766 TATAATTATT
*
23389776 TCATAATTTGAACATCATTAATATGAG-TTTTAATCATG
1 TCATAATTTGAACATCATTAATAAGAGTTTTTAATCATG
* * * *
23389814 TCATAGTTTGAACATCTTTAATAAGGGTTTTTAATTATG
1 TCATAATTTGAACATCATTAATAAGAGTTTTTAATCATG
23389853 TCATA
1 TCATA
23389858 GTTTAGGACA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 23 0.61
39 15 0.39
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (39 bp):
TCATAATTTGAACATCATTAATAAGAGTTTTTAATCATG
Found at i:23389857 original size:39 final size:38
Alignment explanation
Indices: 23389768--23389912 Score: 134
Period size: 39 Copynumber: 3.8 Consensus size: 38
23389758 TTTAAGTATA
* * * *
23389768 TAATTATTTCATAATTTGAACATCATTAATATGAGTTT
1 TAATTATGTCATAGTTTGAACATCTTTAATAAGAGTTT
* *
23389806 TAATCATGTCATAGTTTGAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAGTTTGAACATCTTTAATAAGAG-TTT
* *
23389845 TAATTATGTCATAGTTTAGGACAT-TTTAAATATA-TGTTT
1 TAATTATGTCATAGTTT-GAACATCTTT-AATA-AGAGTTT
* *
23389884 TAAATATGTCCTAGTTT-AGACATCTTTAA
1 TAATTATGTCATAGTTTGA-ACATCTTTAA
23389913 CACAAGTCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
38 35 0.39
39 43 0.48
40 10 0.11
41 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (38 bp):
TAATTATGTCATAGTTTGAACATCTTTAATAAGAGTTT
Found at i:23396004 original size:26 final size:23
Alignment explanation
Indices: 23395971--23396023 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
23395961 CGAAAGAACA
23395971 AAAAGAAAATTTTGAAAAAGAAAAAG
1 AAAAGAAAA--TTGAAAAA-AAAAAG
*
23395997 AAAAGAAAATTGAAAAAAAAAGG
1 AAAAGAAAATTGAAAAAAAAAAG
23396020 AAAA
1 AAAA
23396024 TAAGAGGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.35
24 8 0.31
26 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (23 bp):
AAAAGAAAATTGAAAAAAAAAAG
Found at i:23396013 original size:18 final size:18
Alignment explanation
Indices: 23395990--23396024 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23395980 TTTTGAAAAA
23395990 GAAAAAGAAAA-GAAAATT
1 GAAAAA-AAAAGGAAAATT
23396008 GAAAAAAAAAGGAAAAT
1 GAAAAAAAAAGGAAAAT
23396025 AAGAGGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (18 bp):
GAAAAAAAAAGGAAAATT
Found at i:23399179 original size:38 final size:39
Alignment explanation
Indices: 23399119--23399208 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
23399109 TTTAAGTCTA
* * *
23399119 TAATTATGTCATAATTTGAACATCATTAATATGAG-TTT
1 TAATTATGTCATAATCTAAACATCATTAATAAGAGTTTT
* * *
23399157 TAATCATGTCATAATCTAAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAATCTAAACATCATTAATAAGAGTTTT
23399196 TAATTATGTCATA
1 TAATTATGTCATA
23399209 GTTCAGGACA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 29 0.66
39 15 0.34
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (39 bp):
TAATTATGTCATAATCTAAACATCATTAATAAGAGTTTT
Found at i:23405567 original size:14 final size:13
Alignment explanation
Indices: 23405541--23405566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23405531 TATTTTAAAA
23405541 AAAATTAATTTTT
1 AAAATTAATTTTT
23405554 AAAATTAATTTTT
1 AAAATTAATTTTT
23405567 TGATATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAATTAATTTTT
Found at i:23406149 original size:31 final size:31
Alignment explanation
Indices: 23406109--23406181 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
23406099 ACTAACGAGA
* * **
23406109 GAGTAACTAAACTATTCAATTTTGAAAAGGT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
* * *
23406140 GAGTGACTAAAATGTTTAATTTCAAAAAGTT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
23406171 GAGTGACTAAA
1 GAGTGACTAAA
23406182 TGAAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (31 bp):
GAGTGACTAAAATATTCAATTTCAAAAAGGT
Found at i:23407191 original size:27 final size:27
Alignment explanation
Indices: 23407132--23407237 Score: 113
Period size: 27 Copynumber: 3.8 Consensus size: 27
23407122 TTCCTTCAAC
* * *
23407132 GTTCGCCATATTGACCATTATTCCTTCAAA
1 GTTCGCCATATTTACCATTCTT--TT-AGA
* * *
23407162 GTTCGTCATATTTATCATTCTTTTGGA
1 GTTCGCCATATTTACCATTCTTTTAGA
*
23407189 GTTCACCATATTTACCATTCTTTTAGA
1 GTTCGCCATATTTACCATTCTTTTAGA
*
23407216 GTTTGCCATATTTACCATTCTT
1 GTTCGCCATATTTACCATTCTT
23407238 CCCTTTCAGG
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 44 0.69
28 2 0.03
30 18 0.28
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (27 bp):
GTTCGCCATATTTACCATTCTTTTAGA
Found at i:23407372 original size:25 final size:25
Alignment explanation
Indices: 23407296--23407372 Score: 59
Period size: 25 Copynumber: 3.0 Consensus size: 25
23407286 AAAACTTTCT
*
23407296 TTTAGAATGCACCACAAAGGCTTTCA
1 TTTAGAATGCACCACAAAGGC-TTCC
* ** *
23407322 TTTCATATAT-TTCCATAAAGTG-TTCC
1 TTT-AGA-ATGCACCACAAAG-GCTTCC
23407348 TTTAGAATGCACCACAAAGGCTTCC
1 TTTAGAATGCACCACAAAGGCTTCC
23407373 ATTTCATAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 11
0.65 0.16 0.19
Matches are distributed among these distances:
24 3 0.08
25 13 0.35
26 9 0.24
27 9 0.24
28 3 0.08
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (25 bp):
TTTAGAATGCACCACAAAGGCTTCC
Found at i:23410185 original size:23 final size:23
Alignment explanation
Indices: 23410170--23410213 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
23410160 ATTGACTATG
*
23410170 TAATATCCCAAAAATTACTACTA
1 TAATACCCCAAAAATTACTACTA
*
23410193 TAATACCCCGAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
23410214 AGTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTA
Found at i:23412690 original size:23 final size:22
Alignment explanation
Indices: 23412645--23412691 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
23412635 CAAAAATATA
*
23412645 TTAAATATATATATTTTTATTT
1 TTAAATATATATAGTTTTATTT
*
23412667 TTAAA-ATATACTAGTTTTAGTT
1 TTAAATATATA-TAGTTTTATTT
23412689 TTA
1 TTA
23412692 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATATATATAGTTTTATTT
Found at i:23414269 original size:2 final size:2
Alignment explanation
Indices: 23414262--23414288 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23414252 GGACATGACA
23414262 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
23414289 TGATTCACAA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23415739 original size:8 final size:8
Alignment explanation
Indices: 23415723--23415767 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
23415713 ATTATGGGTT
*
23415723 AAATTGAA
1 AAATAGAA
23415731 AAATAGAA
1 AAATAGAA
23415739 AAATAGAA
1 AAATAGAA
23415747 AAATAGAA
1 AAATAGAA
23415755 AAATAGAA
1 AAATAGAA
23415763 AAATA
1 AAATA
23415768 TTCATGGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (8 bp):
AAATAGAA
Found at i:23419792 original size:37 final size:37
Alignment explanation
Indices: 23419734--23419810 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
23419724 AAATAATGAG
*
23419734 TAAAACTATTATTTTTGATTTATTTATAGTCTATTTT
1 TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
* * *
23419771 TAAACCTATTGTTTTTTATTTATTTATAATCTATTTT
1 TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
23419808 TAA
1 TAA
23419811 CTAAATAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (37 bp):
TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
Found at i:23420741 original size:26 final size:28
Alignment explanation
Indices: 23420710--23420773 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
23420700 CATAGTACAT
*
23420710 ATATATATGTG-G-TTTTATTATATATA
1 ATATATATGTGCGATTTTATTATATAGA
23420736 ATATATATGTGTCGATTTTATTATATAGA
1 ATATATATGTG-CGATTTTATTATATAGA
23420765 ATATATATG
1 ATATATATG
23420774 CGTTTATAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 11 0.32
28 1 0.03
29 22 0.65
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (28 bp):
ATATATATGTGCGATTTTATTATATAGA
Found at i:23424963 original size:37 final size:37
Alignment explanation
Indices: 23424880--23424985 Score: 97
Period size: 37 Copynumber: 2.9 Consensus size: 37
23424870 ATCTGTAAAG
* * * **
23424880 TAATAGCAAACAATTTCACATGTTAATCAATTTAGTA
1 TAATAACAAACAATTTCACATATCAATCAATTTAACA
* * **
23424917 CAATGACAAACAATTTCACATATCAATTTATTTAACA
1 TAATAACAAACAATTTCACATATCAATCAATTTAACA
* *
23424954 TAATAACAAACAGTCT-AGCATATCAATCAATT
1 TAATAACAAACAATTTCA-CATATCAATCAATT
23424986 CAATACAGTC
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
36 1 0.02
37 52 0.98
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (37 bp):
TAATAACAAACAATTTCACATATCAATCAATTTAACA
Found at i:23426024 original size:28 final size:29
Alignment explanation
Indices: 23425986--23426065 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
23425976 AATTTTGGAA
23425986 AAAATTGTAAAATCTAGAAAACT-GGGGT
1 AAAATTGTAAAATCTAGAAAACTAGGGGT
* *
23426014 AAAATTGTAAAGTTCTA-AAAACTAGTGGT
1 AAAATTGTAAA-ATCTAGAAAACTAGGGGT
* *
23426043 AAAACTGTAAAATCTGGAAAACT
1 AAAATTGTAAAATCTAGAAAACT
23426066 TGTAACGACC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 20 0.45
29 24 0.55
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAATTGTAAAATCTAGAAAACTAGGGGT
Found at i:23427638 original size:70 final size:69
Alignment explanation
Indices: 23427508--23427639 Score: 183
Period size: 70 Copynumber: 1.9 Consensus size: 69
23427498 AACTATTATT
* ** * *
23427508 GGTTATCCGACTAGCGCTGGGCGAATAATTTGTCGTTTCGTTCGACTAGTGGTGGACACAACTAT
1 GGTTATCCGACTAGCGCTGGGCCAATAATTTGTCAATTCATTCGACTAGTGCTGGACACAACTAT
23427573 CGTC
66 CGTC
* * *
23427577 GGTTATTCGATTAGCGCTGGGCACAATAATTTGTCAATTCATTCGACTAGTGCTGGGCACAAC
1 GGTTATCCGACTAGCGCTGGGC-CAATAATTTGTCAATTCATTCGACTAGTGCTGGACACAAC
23427640 AATGATTTCG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
69 20 0.37
70 34 0.63
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (69 bp):
GGTTATCCGACTAGCGCTGGGCCAATAATTTGTCAATTCATTCGACTAGTGCTGGACACAACTAT
CGTC
Found at i:23434887 original size:70 final size:73
Alignment explanation
Indices: 23434767--23434948 Score: 192
Period size: 70 Copynumber: 2.5 Consensus size: 73
23434757 TCGATTGAGT
* * * * * * * * * *
23434767 AACTATCATCGGTTATCCGACTAGCGTTAGGTGCAATAATTTTTCGATTCGTTTGACTAGTGGT-
1 AACTATCGTCGGTTATCTGACTAGTGCTGGGCGCAATAATTTGTCAATTCGTTCGACTAGTGCTG
23434831 GG-ACA-C
66 GGCACACC
23434837 AACTATCGTCGGTTATCTGACTAGTGCTGGGCGCAATAATTTGTCAATTCGTTCGACTAGTGCTG
1 AACTATCGTCGGTTATCTGACTAGTGCTGGGCGCAATAATTTGTCAATTCGTTCGACTAGTGCTG
23434902 GGCACACC
66 GGCACACC
**
23434910 AA-TGATTTCGTCGAGTTAAATGACTAGTGCTGGGCGCAA
1 AACT-A--TCGTCG-GTTATCTGACTAGTGCTGGGCGCAA
23434949 AATCTTAACA
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
70 54 0.58
71 2 0.02
72 4 0.04
73 4 0.04
75 6 0.06
76 23 0.25
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (73 bp):
AACTATCGTCGGTTATCTGACTAGTGCTGGGCGCAATAATTTGTCAATTCGTTCGACTAGTGCTG
GGCACACC
Found at i:23436800 original size:17 final size:18
Alignment explanation
Indices: 23436767--23436801 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23436757 TAGGGAGTTA
*
23436767 AATTCTTTTTGGAATTTT
1 AATTCTATTTGGAATTTT
23436785 AATTCTATTT-GAATTTT
1 AATTCTATTTGGAATTTT
23436802 GAAAAGTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (18 bp):
AATTCTATTTGGAATTTT
Found at i:23438387 original size:27 final size:27
Alignment explanation
Indices: 23438357--23438409 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
23438347 TTCGCTGTCG
23438357 TGAGGGTAGGCCATTTTAGAACTCTTT
1 TGAGGGTAGGCCATTTTAGAACTCTTT
23438384 TGAGGGTAGGCCATTTTAGAACTCTT
1 TGAGGGTAGGCCATTTTAGAACTCTT
23438410 CTGTGCAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (27 bp):
TGAGGGTAGGCCATTTTAGAACTCTTT
Found at i:23444219 original size:22 final size:23
Alignment explanation
Indices: 23444172--23444223 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
23444162 CTAATGTTAT
*
23444172 AAAAGAAAAAATGAAGAAAAAGA
1 AAAAGAAAAAATGAAGAAAAACA
* *
23444195 AAAAGAAAAAAT-AATAATAACA
1 AAAAGAAAAAATGAAGAAAAACA
23444217 AAAAGAA
1 AAAAGAA
23444224 GAGAAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.08
Consensus pattern (23 bp):
AAAAGAAAAAATGAAGAAAAACA
Found at i:23445067 original size:43 final size:43
Alignment explanation
Indices: 23445000--23445092 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
23444990 ATTTAAAAAT
* * * *
23445000 AAGATAATTTTGGGTCGTTGAAAAATGAATTTAAAAAGAGGAG
1 AAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGGAG
* * *
23445043 AAGATGATATTGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAT
1 AAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGGAG
23445086 AAGATAA
1 AAGATAA
23445093 ACATGGGTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (43 bp):
AAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGGAG
Done.