Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 103 of 172
Found at i:29785409 original size:22 final size:21
Alignment explanation
Indices: 29785374--29785507 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
29785364 AAAGGGTATC
* *
29785374 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
29785395 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
29785418 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
29785437 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
29785456 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
29785475 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
29785494 TGCATATCATATCT
1 TACAAATCATATCT
29785508 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:29785417 original size:23 final size:22
Alignment explanation
Indices: 29785374--29785431 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
29785364 AAAGGGTATC
* *
29785374 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
29785395 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
29785418 TGCATATCATATCT
1 TACAAATCATATCT
29785432 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:29785434 original size:19 final size:19
Alignment explanation
Indices: 29785410--29785520 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
29785400 AATCATATCT
29785410 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
29785429 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
29785448 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
29785467 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
29785486 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
29785505 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
29785521 CCTAAATATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:29785457 original size:38 final size:38
Alignment explanation
Indices: 29785410--29785513 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
29785400 AATCATATCT
29785410 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
29785448 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
29785486 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
29785514 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:29790119 original size:32 final size:33
Alignment explanation
Indices: 29790054--29790127 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
29790044 TTATATTTCT
**
29790054 TAAAAT-ATATATAAAATTTTTAAAATAAATTC
1 TAAAATAATATATAAAAAATTTAAAATAAATTC
*
29790086 T-AAATAATATATAAATAAATTTAAAA-AATTTC
1 TAAAATAATATATAAA-AAATTTAAAATAAATTC
29790118 TAAAATAATA
1 TAAAATAATA
29790128 ATTTTGAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 4 0.11
32 16 0.44
33 16 0.44
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAAATAATATATAAAAAATTTAAAATAAATTC
Found at i:29790123 original size:22 final size:23
Alignment explanation
Indices: 29790066--29790125 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
29790056 AAATATATAT
*
29790066 AAAATTTTTAAAATAAATTCTAA
1 AAAATTTATAAAATAAATTCTAA
* *
29790089 ATAATATAT-AAATAAATT-TAA
1 AAAATTTATAAAATAAATTCTAA
*
29790110 AAAATTTCTAAAATAA
1 AAAATTTATAAAATAA
29790126 TAATTTTGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 9 0.30
22 15 0.50
23 6 0.20
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATTTATAAAATAAATTCTAA
Found at i:29791518 original size:16 final size:17
Alignment explanation
Indices: 29791473--29791517 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
29791463 TATATATATC
* *
29791473 TATTATAAAAAAATGTG
1 TATTTTAAAAACATGTG
29791490 TATTTTGAAAAACATGTG
1 TATTTT-AAAAACATGTG
29791508 TATTTTAAAA
1 TATTTTAAAA
29791518 CGTGCATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (17 bp):
TATTTTAAAAACATGTG
Found at i:29791761 original size:21 final size:22
Alignment explanation
Indices: 29791713--29791762 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
29791703 TGTATAAACG
*
29791713 TATACTATAAAAACGTATGTACA
1 TATA-TATAAAAACGTATGCACA
*
29791736 T-TATATAAAAAC-TATGCGCA
1 TATATATAAAAACGTATGCACA
29791756 TATATAT
1 TATATAT
29791763 GTATAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 14 0.58
22 2 0.08
23 1 0.04
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (22 bp):
TATATATAAAAACGTATGCACA
Found at i:29793895 original size:14 final size:13
Alignment explanation
Indices: 29793848--29793898 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
29793838 TTTGTATTGA
*
29793848 AATAATCATA-AT
1 AATAATAATACAT
29793860 AATAATAAATAC-T
1 AATAAT-AATACAT
*
29793873 AACAATAATACAGT
1 AATAATAATACA-T
29793887 AATAATAATACA
1 AATAATAATACA
29793899 ACTTAACAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 11 0.34
13 9 0.28
14 12 0.38
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (13 bp):
AATAATAATACAT
Found at i:29796500 original size:36 final size:36
Alignment explanation
Indices: 29796458--29796634 Score: 214
Period size: 36 Copynumber: 4.7 Consensus size: 36
29796448 TTTGAGTACT
29796458 TCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
* *
29796494 TCTGATCAAGAGACAAAGTGATAAGTGGCAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
29796540 TCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
*
29796576 TCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
*
29796612 TCTGATCAA--GAACAAGTGATAAG
1 TCTGATCAAGTGAAAAAGTGATAAG
29796635 CGGTGACAAG
Statistics
Matches: 125, Mismatches: 6, Indels: 22
0.82 0.04 0.14
Matches are distributed among these distances:
34 13 0.10
36 74 0.59
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.24
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
Found at i:29798224 original size:100 final size:99
Alignment explanation
Indices: 29798084--29798297 Score: 279
Period size: 100 Copynumber: 2.1 Consensus size: 99
29798074 GGATTATTTT
*
29798084 CTTCAATTTGTTTAACTACAATATCGGGGAAACAAGATTCGCCATCAT-GACTTCAATCTGTTCC
1 CTTCAATTT-TTTAACTACAATATCGAGGAAACAAGATTCGCCATCATAG-CTTCAATCTGTTCC
** *
29798148 ACTGCACTGCTAAGGAGGTAAGATCCGCCATTGTGG
64 ACTGCACCCCTAAGGAGGTAAGATCCACCATTGTGG
* * * * *
29798184 CTTCAATCTTTTTAATTGCAATGTCGAGGAAACCAA-ATTCGCCGTCGTAGCTTCAATCTGTTCC
1 CTTCAAT-TTTTTAACTACAATATCGAGGAAA-CAAGATTCGCCATCATAGCTTCAATCTGTTCC
*
29798248 ACTGCACCCCTAAGGAGGTAAGATCCACCGTTGTGG
64 ACTGCACCCCTAAGGAGGTAAGATCCACCATTGTGG
29798284 CTTCAATATTTTTA
1 CTTCAAT-TTTTTA
29798298 CTGTAATGCC
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
100 94 0.94
101 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (99 bp):
CTTCAATTTTTTAACTACAATATCGAGGAAACAAGATTCGCCATCATAGCTTCAATCTGTTCCAC
TGCACCCCTAAGGAGGTAAGATCCACCATTGTGG
Found at i:29800030 original size:42 final size:42
Alignment explanation
Indices: 29799983--29800081 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
29799973 CACATGACAT
*
29799983 TGTATCCCAGTCACACGGGCGTGT-CATTCAGCCACACGACCG
1 TGTATCCCTGTCACACGGGCGTGTCCATT-AGCCACACGACCG
* * * * *
29800025 TGTATCTCTGTCACATGGGTGTGTCCCTTAGCCACACGATCG
1 TGTATCCCTGTCACACGGGCGTGTCCATTAGCCACACGACCG
*
29800067 TGTATTCCTGTCACA
1 TGTATCCCTGTCACA
29800082 TGGTTTGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 45 0.94
43 3 0.06
ACGTcount: A:0.19, C:0.31, G:0.22, T:0.27
Consensus pattern (42 bp):
TGTATCCCTGTCACACGGGCGTGTCCATTAGCCACACGACCG
Found at i:29808779 original size:418 final size:420
Alignment explanation
Indices: 29807963--29808754 Score: 1106
Period size: 418 Copynumber: 1.9 Consensus size: 420
29807953 TGGTAAGTTC
* * * * * *
29807963 TAAGACTTAAATCATTAATTGTACATTGTTGAAATAGTGGGTTGATTCTCTAGGCAAGGCATTGT
1 TAAGACTTAAATCATTAACTGTACATGGTCGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
* * ** * *
29808028 AGTCATTGGTGTTTATCGAACAACATAACCAATTGTTTTTGTATTACTGTTCTTTATTTGTTATA
66 AGACATAGGTGTTTATCGAACAACATAACCAATTACTTTTGTATTACTGTTATTTATTTGTTACA
* *
29808093 CACCTCAAGTATAACTGCTCATATAATATTACTTACAAAAATAAACTATTCTTGCATTTGATATT
131 CACCTCAAGTATAACTGCTCATATAATATTACTTAC-AAAATAAACTATTCTTACATTTGACATT
* * * *
29808158 AGAGTCTAACACTTGACATAGTAAGTGGTGTTTCTGGTGTTGATTTTTGCTAGTAATGGAAGGTT
195 AGAGTCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATGAAAGGTT
* * * * *
29808223 CATCTGTCTCATGTCCCTTAGTGTTGGATGGATCCAACTACACGTACTAGAGGGCAAGGATGAAT
260 CATCTGTCTCACGTCCCTTAGTGTTGGATGGATCCAAATACACGTAATAGAAGGCAAGGATGAAG
* * * ** *
29808288 GCACTTATAAAGTTAATGGATGAACATGCCTGGTGTACAATTTTTACTAAATAGGAGCCACCTAC
325 GCACTTATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTAAATAGGAGCCACCTAC
29808353 AACTAAAACCAATTGCTACACAGGTGAGTGG
390 AACTAAAACCAATTGCTACACAGGTGAGTGG
* * *
29808384 TAAGACTTAAATCATTCACTGTACATGGTCGAAATAGCGGGTTGATTCTTTAAGTAAGGCACTGT
1 TAAGACTTAAATCATTAACTGTACATGGTCGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
* *
29808449 AGACATAGGTGTTTA-CTGAACAACATAACCAATTACTTTTGTATTATTGTTATTTATTTTTTAC
66 AGACATAGGTGTTTATC-GAACAACATAACCAATTACTTTTGTATTACTGTTATTTATTTGTTAC
* * *
29808513 CCACCTCAAGTATAACTGCTCA-ATAATATTACTTGC-AAATAGACTATTCTTACATTTGACATT
130 ACACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATAAACTATTCTTACATTTGACATT
29808576 AGAGTCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATGAAAGGTT
195 AGAGTCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATGAAAGGTT
* * * * * *
29808641 CGTTTGTTTCACGTCCCTTAGTGTTGGATGGATTCAAATATATGTAATAGAAGGCAAGGATGAAG
260 CATCTGTCTCACGTCCCTTAGTGTTGGATGGATCCAAATACACGTAATAGAAGGCAAGGATGAAG
* * * *
29808706 GTA-TTCATAAACTTAATGGATGAAAAGGCTTGGCATATAGTTCTTACTA
325 GCACTT-ATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTA
29808755 GATGAGAGTT
Statistics
Matches: 322, Mismatches: 47, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
417 2 0.01
418 175 0.54
420 14 0.04
421 131 0.41
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (420 bp):
TAAGACTTAAATCATTAACTGTACATGGTCGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
AGACATAGGTGTTTATCGAACAACATAACCAATTACTTTTGTATTACTGTTATTTATTTGTTACA
CACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATAAACTATTCTTACATTTGACATTA
GAGTCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATGAAAGGTTC
ATCTGTCTCACGTCCCTTAGTGTTGGATGGATCCAAATACACGTAATAGAAGGCAAGGATGAAGG
CACTTATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTAAATAGGAGCCACCTACA
ACTAAAACCAATTGCTACACAGGTGAGTGG
Found at i:29813624 original size:56 final size:57
Alignment explanation
Indices: 29813427--29813623 Score: 263
Period size: 57 Copynumber: 3.5 Consensus size: 57
29813417 ATTATTTTGG
* * * * **
29813427 TAATAAACAACAATGGACAACAACAATTAAATACCATTTTTGACAGTTTAATTCCAA
1 TAATAAATAACAATGAACAACAACAATTAAACACCCTTTTTGACAACTTAATTCCAA
* * * * *
29813484 AAATAAATAAAAATGAAGAACAATAATTAAACACCCTTTTTGACAACTTAATTCCAG
1 TAATAAATAACAATGAACAACAACAATTAAACACCCTTTTTGACAACTTAATTCCAA
29813541 TAATAAATAACAATGAACAACAACAA-TAGAACACCCTTTTT-ACAACTTAATTCCAA
1 TAATAAATAACAATGAACAACAACAATTA-AACACCCTTTTTGACAACTTAATTCCAA
*
29813597 TAATAAATAACAATAAACAACAACAAT
1 TAATAAATAACAATGAACAACAACAAT
29813624 ATGAACAAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
56 41 0.34
57 80 0.66
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (57 bp):
TAATAAATAACAATGAACAACAACAATTAAACACCCTTTTTGACAACTTAATTCCAA
Found at i:29825268 original size:26 final size:26
Alignment explanation
Indices: 29825239--29825290 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
29825229 TTGGGTTGTA
29825239 ATCAACTGAAAAGCTACCTTTTAACT
1 ATCAACTGAAAAGCTACCTTTTAACT
29825265 ATCAACTGAAAAGCTACCTTTTAACT
1 ATCAACTGAAAAGCTACCTTTTAACT
29825291 GAGAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCAACTGAAAAGCTACCTTTTAACT
Found at i:29830283 original size:17 final size:17
Alignment explanation
Indices: 29830261--29830295 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29830251 TAGCTTTAAT
*
29830261 ATTAATTGTATAACACA
1 ATTAATTATATAACACA
*
29830278 ATTAATTATATAATACA
1 ATTAATTATATAACACA
29830295 A
1 A
29830296 ATTTGTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTAATTATATAACACA
Found at i:29836617 original size:29 final size:29
Alignment explanation
Indices: 29836584--29836642 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
29836574 TTTGTGTGTT
* *
29836584 CAATTTCTCAATTTCTTTTGGTATTTTTA
1 CAATTCCTCAATTTCTTCTGGTATTTTTA
29836613 CAATTCCTCAATTTCTTCTGGTATTTTTA
1 CAATTCCTCAATTTCTTCTGGTATTTTTA
29836642 C
1 C
29836643 TTGTTCGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.07, T:0.54
Consensus pattern (29 bp):
CAATTCCTCAATTTCTTCTGGTATTTTTA
Found at i:29838307 original size:24 final size:24
Alignment explanation
Indices: 29838278--29838329 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
29838268 TTTCTAGAAG
* * *
29838278 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATAAGCATAATAT
*
29838302 ATTTAGCATTTATAAGCATAATTT
1 ATTTAGCATTTATAAGCATAATAT
29838326 ATTT
1 ATTT
29838330 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATAAGCATAATAT
Found at i:29838449 original size:24 final size:23
Alignment explanation
Indices: 29838421--29838466 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
29838411 TTTGGAGAAT
29838421 TTTGTGTTT-ACGTTTTGTGGGTTC
1 TTTGT-TTTCACGTTTTG-GGGTTC
*
29838445 TTTGTTTTCAGGTTTTGGGGTT
1 TTTGTTTTCACGTTTTGGGGTT
29838467 TAATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.04, C:0.07, G:0.30, T:0.59
Consensus pattern (23 bp):
TTTGTTTTCACGTTTTGGGGTTC
Found at i:29840462 original size:15 final size:15
Alignment explanation
Indices: 29840442--29840476 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
29840432 ATTTCCTTTC
29840442 TTTTATAATATTTTA
1 TTTTATAATATTTTA
**
29840457 TTTTATTTTATTTTA
1 TTTTATAATATTTTA
29840472 TTTTA
1 TTTTA
29840477 AAGCTTGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATAATATTTTA
Found at i:29840495 original size:5 final size:5
Alignment explanation
Indices: 29840450--29840476 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
29840440 TCTTTTATAA
29840450 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
29840477 AAGCTTGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:29851076 original size:43 final size:43
Alignment explanation
Indices: 29850920--29851076 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
29850910 ATGTATTTTT
* * *
29850920 GTGTAAGACCACGTCTAGGACGTTGGCATCGACT-TGTG-TATAC
1 GTGTAAGACCACGTCTGGGACGTTGGCAT-TAATATGTGAT-TAC
* * * * *
29850963 GTGTAAGACCATGTCTGGGACATTGGCA-TCATATTTGATT-T
1 GTGTAAGACCACGTCTGGGACGTTGGCATTAATATGTGATTAC
*
29851004 GTGTAAGACC-CTATCTGGGACAG-TGGCATTAATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATTAATATGTGATTAC
*
29851047 ATGTAAGACCACGTCTGGGACGTTGGCATT
1 GTGTAAGACCACGTCTGGGACGTTGGCATT
29851077 GTACGAGCCT
Statistics
Matches: 90, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 24 0.27
42 15 0.17
43 50 0.56
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATTAATATGTGATTAC
Found at i:29851843 original size:67 final size:67
Alignment explanation
Indices: 29851765--29851903 Score: 269
Period size: 67 Copynumber: 2.1 Consensus size: 67
29851755 TTTTGGTATC
29851765 TCGGCTATGGAATATTTATTTATGTGAATTATGTTTGATATTTTTTGTTAAGAATGTGGTAAATA
1 TCGGCTATGGAATATTTATTTATGTGAATTATGTTTGATATTTTTTGTTAAGAATGTGGTAAATA
29851830 AT
66 AT
*
29851832 TCGGCTGTGGAATATTTATTTATGTGAATTATGTTTGATATTTTTTGTTAAGAATGTGGTAAATA
1 TCGGCTATGGAATATTTATTTATGTGAATTATGTTTGATATTTTTTGTTAAGAATGTGGTAAATA
29851897 AT
66 AT
29851899 TCGGC
1 TCGGC
29851904 ATAGGTGAGC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (67 bp):
TCGGCTATGGAATATTTATTTATGTGAATTATGTTTGATATTTTTTGTTAAGAATGTGGTAAATA
AT
Found at i:29856899 original size:44 final size:44
Alignment explanation
Indices: 29856836--29857047 Score: 246
Period size: 44 Copynumber: 4.8 Consensus size: 44
29856826 GATCGTGGCG
* * * *
29856836 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
29856879 TAATCTTATCTCCCTGAAGTTACTGTGGAGCGGATTGAAGTTACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
29856924 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * *
29856969 AATCTTATCTCCCTGAATTTGTAGTGGAGCAAATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
*
29857013 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
29857048 AAAACGATGA
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
44 101 0.73
45 37 0.27
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:29857006 original size:89 final size:88
Alignment explanation
Indices: 29856836--29857042 Score: 263
Period size: 89 Copynumber: 2.3 Consensus size: 88
29856826 GATCGTGGCG
* * * *
29856836 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGACAAGAATCTTATCTCCCTGAAGTTA
** *
29856901 CTGTGGAGCGGATTGAAGTTACA
66 CTGTGGAGCAAATTGAAGCTACA
* * * *
29856924 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAA-TT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGACA-AGAATCTTATCTCCCTGAAGTT
**
29856988 TGTAGTGGAGCAAATTGAAGCTACA
65 ACT-GTGGAGCAAATTGAAGCTACA
*
29857013 AATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGC
29857043 GGATTAAAAC
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
88 39 0.38
89 63 0.62
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGACAAGAATCTTATCTCCCTGAAGTTA
CTGTGGAGCAAATTGAAGCTACA
Found at i:29857021 original size:133 final size:136
Alignment explanation
Indices: 29856611--29857050 Score: 428
Period size: 133 Copynumber: 3.3 Consensus size: 136
29856601 AAGAAGATGG
* *** * *
29856611 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTATATTAAAGC--CAAT---A-ATCCTATCTCCT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCTATAATCACAGATCTTATCTCCT
* * *
29856670 TGAAGTTGCAGTGGAGCGGATTGAAGT--GAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAC
66 TGAAGTTGCAGTAGAGCAGA-TGAAGTGCGAA-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
*
29856733 TGAAGATA
129 TGAAGCTA
* * * * *
29856741 GCGAATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAGCTATAAATCACAGATCTTATCTC
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCTAT-AATCACAGATCTTATCTC
* * * * *
29856806 TTTGAAGTTGCAGTAGAGCAGAT--CGTGGCGAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGA
64 CTTGAAGTTGCAGTAGAGCAGATGAAGT-GCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
* *
29856869 TTAAAGCCA
128 TTGAAGCTA
* * *
29856878 -ATAATCTTATCTCCCTGAAGTTACTGTGGAGCGGATTGAAG-T-T-A-CA-AG-TCTTATCTCC
1 CA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCTATAATCACAGATCTTATCTCC
* * *
29856936 CTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAATTTGTAGTGGAGCAA
65 TTGAAGTTGCAGTAGAGCAGA-TGAAG-T-GCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAG
29857001 ATTGAAGCTA
127 ATTGAAGCTA
29857011 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
29857051 ACGATGAATC
Statistics
Matches: 251, Mismatches: 42, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
129 29 0.12
130 3 0.01
131 37 0.15
132 2 0.01
133 74 0.29
134 5 0.02
135 3 0.01
136 32 0.13
137 35 0.14
138 31 0.12
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (136 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCTATAATCACAGATCTTATCTCCT
TGAAGTTGCAGTAGAGCAGATGAAGTGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTG
AAGCTA
Found at i:29858523 original size:10 final size:11
Alignment explanation
Indices: 29858508--29858553 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
29858498 CAACTTTCTC
29858508 ATTTTTTTAA-
1 ATTTTTTTAAT
29858518 ATTTTTTTAAT
1 ATTTTTTTAAT
29858529 ATTTTTATT-AT
1 ATTTTT-TTAAT
*
29858540 GTTGTTTTTAAT
1 ATT-TTTTTAAT
29858552 AT
1 AT
29858554 ATTTAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 10 0.33
11 12 0.40
12 8 0.27
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (11 bp):
ATTTTTTTAAT
Found at i:29860980 original size:41 final size:41
Alignment explanation
Indices: 29860933--29861041 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
29860923 GTCCGAAATG
** *
29860933 TATCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA
1 TATCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* *
29860974 -ATTCACCGGCATTAAGCCTGCTAGGCACATAGCCTGAATTA
1 TA-TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
**
29861015 TATCACCGGCATCCAGCCTGCTAGACA
1 TATCACCGGCATTAAGCCTGCTAGACA
29861042 ATAAGTCTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 1 0.02
41 56 0.97
42 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
TATCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
Found at i:29867511 original size:22 final size:23
Alignment explanation
Indices: 29867468--29867513 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
29867458 CAAATGAAAT
*
29867468 TTCTAATATTACAAGATCATATC
1 TTCTAAAATTACAAGATCATATC
*
29867491 TTCTAAAATTAC-ATATCATATC
1 TTCTAAAATTACAAGATCATATC
29867513 T
1 T
29867514 AAGACTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (23 bp):
TTCTAAAATTACAAGATCATATC
Found at i:29869617 original size:13 final size:13
Alignment explanation
Indices: 29869599--29869630 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
29869589 TTTCCAGCAA
29869599 TTATGAATTTATT
1 TTATGAATTTATT
29869612 TTATGAATTTATT
1 TTATGAATTTATT
*
29869625 TGATGA
1 TTATGA
29869631 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:29869837 original size:50 final size:50
Alignment explanation
Indices: 29869724--29869964 Score: 295
Period size: 50 Copynumber: 4.7 Consensus size: 50
29869714 ATTTGGGTAA
* * *
29869724 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
29869780 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
29869830 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
29869880 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
29869930 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
29869965 ATTTGGCATG
Statistics
Matches: 165, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:29869913 original size:100 final size:103
Alignment explanation
Indices: 29869724--29869973 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 103
29869714 ATTTGGGTAA
29869724 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
29869789 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
29869830 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
29869892 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
*
29869930 AGAACATCCCATGTAAGACCATGTCTGGGACATGG-ATTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCAT
29869974 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 38 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:29876707 original size:13 final size:13
Alignment explanation
Indices: 29876689--29876720 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
29876679 TTTCCAGCAA
29876689 TTATGAATTTATT
1 TTATGAATTTATT
29876702 TTATGAATTTATT
1 TTATGAATTTATT
*
29876715 TGATGA
1 TTATGA
29876721 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:29876927 original size:50 final size:50
Alignment explanation
Indices: 29876814--29877055 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
29876804 ATTTGGGTAA
* * *
29876814 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
29876870 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
29876920 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
29876970 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
29877020 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
29877056 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:29877003 original size:100 final size:103
Alignment explanation
Indices: 29876814--29877063 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
29876804 ATTTGGGTAA
29876814 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
29876879 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
29876920 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
29876982 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
29877020 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
29877064 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:29882006 original size:22 final size:23
Alignment explanation
Indices: 29881965--29882009 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
29881955 AAATGAAATC
*
29881965 TCTAAGATTACAAGATCATATCT
1 TCTAAGATTACAAGACCATATCT
*
29881988 TCTAAGATTAC-ATACCATATCT
1 TCTAAGATTACAAGACCATATCT
29882010 AATATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
TCTAAGATTACAAGACCATATCT
Found at i:29883841 original size:25 final size:25
Alignment explanation
Indices: 29883811--29883921 Score: 123
Period size: 25 Copynumber: 4.4 Consensus size: 25
29883801 TCACAACTCA
* *
29883811 TGAGAGCATACCAATTTATAGCTCG
1 TGAGAGCATACCGATTTACAGCTCG
* *
29883836 TGAGAGCATACCGATTTATAGCTCA
1 TGAGAGCATACCGATTTACAGCTCG
* * *
29883861 TAAGAGCATACTGATCTACAGCTCG
1 TGAGAGCATACCGATTTACAGCTCG
* * *
29883886 AGTGAGCATACCGATTCACAGCTCG
1 TGAGAGCATACCGATTTACAGCTCG
*
29883911 TGTGAGCATAC
1 TGAGAGCATAC
29883922 ATGTACATGA
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 72 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (25 bp):
TGAGAGCATACCGATTTACAGCTCG
Found at i:29884450 original size:25 final size:27
Alignment explanation
Indices: 29884407--29884463 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
29884397 TTTGGCTATG
* *
29884407 TTGGCCATATGTAATTTGG-TTGTTGTT
1 TTGGCCATATGTAACTTGGCTTG-TGAT
29884434 TTGGCCAT-T-TAACTTGGCTTGTGAT
1 TTGGCCATATGTAACTTGGCTTGTGAT
29884459 TTGGC
1 TTGGC
29884464 ATCTTGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 15 0.56
26 4 0.15
27 8 0.30
ACGTcount: A:0.14, C:0.12, G:0.26, T:0.47
Consensus pattern (27 bp):
TTGGCCATATGTAACTTGGCTTGTGAT
Found at i:29885029 original size:43 final size:43
Alignment explanation
Indices: 29884980--29885062 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
29884970 AGAAACGGGC
* *
29884980 GTGTGTCTCAGCTATGTGTGACACACGGCCAAGCGACACGACT
1 GTGTGTCTCAGCCATGTGTGACACACAGCCAAGCGACACGACT
* *
29885023 GTGTGTCTCAGCCGTGTGTGACACATAGCCAAGCGACACG
1 GTGTGTCTCAGCCATGTGTGACACACAGCCAAGCGACACG
29885063 GTCGTGTGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.28, G:0.29, T:0.20
Consensus pattern (43 bp):
GTGTGTCTCAGCCATGTGTGACACACAGCCAAGCGACACGACT
Found at i:29885070 original size:43 final size:43
Alignment explanation
Indices: 29884974--29885072 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
29884964 GGGCAGAGAA
* * *
29884974 ACGGGCGTGTGTCTCAGCTATGTGTGACACACGGCCAAGCGAC
1 ACGGACGTGTGTCTCAGCCATGTGTGACACACAGCCAAGCGAC
* *
29885017 AC-GACTGTGTGTCTCAGCCGTGTGTGACACATAGCCAAGCGAC
1 ACGGAC-GTGTGTCTCAGCCATGTGTGACACACAGCCAAGCGAC
*
29885060 ACGGTCGTGTGTC
1 ACGGACGTGTGTC
29885073 CCCTGTAGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 2 0.04
43 44 0.92
44 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.21
Consensus pattern (43 bp):
ACGGACGTGTGTCTCAGCCATGTGTGACACACAGCCAAGCGAC
Found at i:29886862 original size:25 final size:25
Alignment explanation
Indices: 29886828--29886892 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
29886818 ACACACCACT
* *
29886828 GCTCTTATGAGCTTTCCGATACT-CA
1 GCTCGTATGAGCTTCCCGATA-TACA
*
29886853 GCTCGTATGAGCTTCCCGTTATACA
1 GCTCGTATGAGCTTCCCGATATACA
*
29886878 GCTCGCATGAGCTTC
1 GCTCGTATGAGCTTC
29886893 TCGCTCGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.32
Consensus pattern (25 bp):
GCTCGTATGAGCTTCCCGATATACA
Found at i:29886922 original size:42 final size:42
Alignment explanation
Indices: 29886853--29886937 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
29886843 CCGATACTCA
* * * *
29886853 GCTCGTATGAGCTTCCCGTTATACAGCTCGCATGAGCTTCTC
1 GCTCGCATGAGCTTCCCATTATACAGCTCGAAGGAGCTTCTC
*
29886895 GCTCGCATGAGCTTCCCATTATTCAGCTCGAAGGAGCTTCTC
1 GCTCGCATGAGCTTCCCATTATACAGCTCGAAGGAGCTTCTC
29886937 G
1 G
29886938 TTTACAACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (42 bp):
GCTCGCATGAGCTTCCCATTATACAGCTCGAAGGAGCTTCTC
Found at i:29889358 original size:223 final size:224
Alignment explanation
Indices: 29888970--29889646 Score: 1313
Period size: 224 Copynumber: 3.0 Consensus size: 224
29888960 TAATTTTATC
29888970 ACTTTAATATTTTAGTCCTTTAACGTTAAAATCATCAAAAACTGCTTTACAAAATAGTCTTATCT
1 ACTTTAATATTTTAGTCCTTTAACGTTAAAATCATCAAAAACTGCTTTACAAAATAGTCTTATCT
29889035 AGCAACCAAACTCAATAATATTTCATAAAACTTCAAGAATATATTAAACTCATCACTGGAATAAT
66 AGCAACCAAACTCAATAATATTTCATAAAACTTCAAGAATATATTAAACTCATCACTGGAATAAT
29889100 CCAAAACATTTGACATTTTTACAAATTAGTCATCAGATTAGCTAGATTAAGCTAATACAAGTTCA
131 CCAAAACATTTGACATTTTTACAAATTAGTCATCAGATTAGCTAGATTAAGCTAATACAAGTTCA
29889165 AAAACATAAAATTTATT-AAAAAGGGAAA
196 AAAACATAAAATTTATTAAAAAAGGGAAA
29889193 ACTTTAATATTTTAGTCCTTTAACGTTAAAATCATCAAAAACTGCTTTACAAAATAGTCTTATCT
1 ACTTTAATATTTTAGTCCTTTAACGTTAAAATCATCAAAAACTGCTTTACAAAATAGTCTTATCT
29889258 AGCAACCAAACTCAATAATATTTCATAAAACTTCAAGAATATATTAAACTCATCACTGGAATAAT
66 AGCAACCAAACTCAATAATATTTCATAAAACTTCAAGAATATATTAAACTCATCACTGGAATAAT
29889323 CCAAAACATTTGACATTTTTACAAATTAGTCATCAGATTAGCTAGATTAAGCTAATACAAGTTCA
131 CCAAAACATTTGACATTTTTACAAATTAGTCATCAGATTAGCTAGATTAAGCTAATACAAGTTCA
*
29889388 AAAACATAAAATTTATTAAAAAAGGGCAA
196 AAAACATAAAATTTATTAAAAAAGGGAAA
29889417 ACTTTAATATTTTAGTCCTTTAACGTTAAAATCATCAAAAACTGCTTTACAAAATAGTCTTATCT
1 ACTTTAATATTTTAGTCCTTTAACGTTAAAATCATCAAAAACTGCTTTACAAAATAGTCTTATCT
29889482 AGCAACCAAACTCAATAATATTTCATAAAACTTCAAGAATATATTAAACTCATCACTGGAATAAT
66 AGCAACCAAACTCAATAATATTTCATAAAACTTCAAGAATATATTAAACTCATCACTGGAATAAT
29889547 CCAAAACATTTGACATTTTTACAAATTAGTCATCAGATTAGCTAGATTAAGCTAATA-ACAGTTC
131 CCAAAACATTTGACATTTTTACAAATTAGTCATCAGATTAGCTAGATTAAGCTAATACA-AGTTC
29889611 AAAAACATAAAATTTATTAAAAAAGGGAAA
195 AAAAACATAAAATTTATTAAAAAAGGGAAA
*
29889641 GCTTTA
1 ACTTTA
29889647 CCTACCTAAT
Statistics
Matches: 449, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
223 213 0.47
224 236 0.53
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (224 bp):
ACTTTAATATTTTAGTCCTTTAACGTTAAAATCATCAAAAACTGCTTTACAAAATAGTCTTATCT
AGCAACCAAACTCAATAATATTTCATAAAACTTCAAGAATATATTAAACTCATCACTGGAATAAT
CCAAAACATTTGACATTTTTACAAATTAGTCATCAGATTAGCTAGATTAAGCTAATACAAGTTCA
AAAACATAAAATTTATTAAAAAAGGGAAA
Found at i:29891170 original size:36 final size:36
Alignment explanation
Indices: 29891128--29891199 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
29891118 ACATTTAATA
* *
29891128 GTATAAAAATATTTTTTATTTCTTTTCATAATTAGG
1 GTATAAAAATATTTGTAATTTCTTTTCATAATTAGG
* *
29891164 GTATAAAAATCTTTGTAATTTCTTTTCATATTTAGG
1 GTATAAAAATATTTGTAATTTCTTTTCATAATTAGG
29891200 AGTTTTTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (36 bp):
GTATAAAAATATTTGTAATTTCTTTTCATAATTAGG
Found at i:29898262 original size:16 final size:17
Alignment explanation
Indices: 29898231--29898263 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29898221 AAACATTAAA
29898231 ATATTTAAATTTATTAT
1 ATATTTAAATTTATTAT
*
29898248 ATATTTACA-TTATTAT
1 ATATTTAAATTTATTAT
29898264 TTATACTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTAAATTTATTAT
Found at i:29899711 original size:22 final size:21
Alignment explanation
Indices: 29899666--29899712 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
29899656 CAAAACTTTG
* * *
29899666 AACCCTAAATCTAAAATCTCA
1 AACCCTAAATCAAAAAACTAA
29899687 AACCCTAAACTCAAAAAACTAA
1 AACCCTAAA-TCAAAAAACTAA
29899709 AACC
1 AACC
29899713 ACAAAGCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCTAAATCAAAAAACTAA
Found at i:29900605 original size:2 final size:2
Alignment explanation
Indices: 29900598--29900622 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29900588 TTTGTTTTTC
29900598 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
29900623 TTATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29900707 original size:3 final size:3
Alignment explanation
Indices: 29900699--29900753 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
29900689 TCCTTTATTC
29900699 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
29900747 TAT TAT T
1 TAT TAT T
29900754 CAAGTTTGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:29902191 original size:35 final size:35
Alignment explanation
Indices: 29902152--29902268 Score: 144
Period size: 35 Copynumber: 3.3 Consensus size: 35
29902142 TACTTTTTGT
* *
29902152 TTGGTGTGTTTCGAAAGGACTAGCTCTTTTGAGCA
1 TTGGTGTGTTTCGGAAGGACTAGCTCTTATGAGCA
**
29902187 TTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAAGGACTAGCTCTTATGAGCA
* * * * *
29902222 ATGGTGTGTTTTGGAGGGACTAGCTCGTGTGAGCA
1 TTGGTGTGTTTCGGAAGGACTAGCTCTTATGAGCA
29902257 TCTGGTGTGTTT
1 T-TGGTGTGTTT
29902269 TGGTTGGACT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
35 60 0.86
36 10 0.14
ACGTcount: A:0.15, C:0.13, G:0.33, T:0.38
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAAGGACTAGCTCTTATGAGCA
Found at i:29902278 original size:36 final size:35
Alignment explanation
Indices: 29902168--29902278 Score: 150
Period size: 35 Copynumber: 3.1 Consensus size: 35
29902158 TGTTTCGAAA
* *
29902168 GGACTAGCTCTTTTGAGCATTGGTGTGTTTCGGTT
1 GGACTAGCTCTTATGAGCATTGGTGTGTTTTGGTT
* **
29902203 GGACTAGCTCTTATGAGCAATGGTGTGTTTTGGAG
1 GGACTAGCTCTTATGAGCATTGGTGTGTTTTGGTT
* *
29902238 GGACTAGCTCGTGTGAGCATCTGGTGTGTTTTGGTT
1 GGACTAGCTCTTATGAGCAT-TGGTGTGTTTTGGTT
29902274 GGACT
1 GGACT
29902279 GACGATGTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 47 0.72
36 18 0.28
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.38
Consensus pattern (35 bp):
GGACTAGCTCTTATGAGCATTGGTGTGTTTTGGTT
Found at i:29903380 original size:22 final size:23
Alignment explanation
Indices: 29903355--29903398 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
29903345 GTAGTTGCTG
29903355 ACTCGTTTAAACGGT-TGGGATT
1 ACTCGTTTAAACGGTGTGGGATT
29903377 ACTCGTTTAAACGGTGTGGGAT
1 ACTCGTTTAAACGGTGTGGGAT
29903399 AACTTGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.34
Consensus pattern (23 bp):
ACTCGTTTAAACGGTGTGGGATT
Found at i:29910707 original size:14 final size:15
Alignment explanation
Indices: 29910688--29910716 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29910678 TTTAATAATT
29910688 TTAAATATT-TTTTA
1 TTAAATATTCTTTTA
29910702 TTAAATATTCTTTTA
1 TTAAATATTCTTTTA
29910717 ATATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAAATATTCTTTTA
Found at i:29920085 original size:48 final size:48
Alignment explanation
Indices: 29920027--29920123 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
29920017 GTTTGGTGAG
29920027 GCATCGGTTCAAGAGGAAAATGTACTAAAAACTATTTTACGAGAGTAT
1 GCATCGGTTCAAGAGGAAAATGTACTAAAAACTATTTTACGAGAGTAT
* * *
29920075 GCATCTGTTCAAGGGGAAAATGTGCTAAAAACTATTTTACGAGAGTAT
1 GCATCGGTTCAAGAGGAAAATGTACTAAAAACTATTTTACGAGAGTAT
29920123 G
1 G
29920124 AGCAGTGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (48 bp):
GCATCGGTTCAAGAGGAAAATGTACTAAAAACTATTTTACGAGAGTAT
Found at i:29922467 original size:19 final size:19
Alignment explanation
Indices: 29922443--29922480 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
29922433 AATTCAAATT
*
29922443 TATATTAATATTAAATAAA
1 TATATTAACATTAAATAAA
29922462 TATATTAACATTAAATAAA
1 TATATTAACATTAAATAAA
29922481 ATAAAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TATATTAACATTAAATAAA
Found at i:29922637 original size:6 final size:6
Alignment explanation
Indices: 29922628--29922660 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
29922618 GATTTTATAC
29922628 TAATAT TAATAT TAATAT TAATAT TAATAT TAA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAA
29922661 ATAAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATAT
Found at i:29922668 original size:18 final size:18
Alignment explanation
Indices: 29922629--29922665 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
29922619 ATTTTATACT
*
29922629 AATATTAATATTAATATT
1 AATATTAATATTAATATA
29922647 AATATTAATATTAA-ATA
1 AATATTAATATTAATATA
29922664 AA
1 AA
29922666 ATAAAAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATTAATATTAATATA
Found at i:29922800 original size:18 final size:16
Alignment explanation
Indices: 29922757--29922823 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 16
29922747 AGAAGGGATT
*
29922757 TTTATTATTATATTTA
1 TTTAATATTATATTTA
*
29922773 TTTAACATTAATATTTA
1 TTTAATATT-ATATTTA
*
29922790 TATTAATATTAAATTTTA
1 T-TTAATATTATA-TTTA
*
29922808 TTTTATTATTATATTT
1 -TTTAATATTATATTT
29922824 CATAAATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
16 7 0.17
17 13 0.32
18 20 0.49
19 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAATATTATATTTA
Found at i:29927337 original size:22 final size:22
Alignment explanation
Indices: 29927296--29927384 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 22
29927286 GAAGATGAAA
***
29927296 TGGAAATTGTTGCAATTTGTT-
1 TGGAAATTGTTTTGATTTGTTC
* *
29927317 TTGATATTGTTATTGATTTGTTC
1 TGGAAATTGTT-TTGATTTGTTC
29927340 TGGAAATTGTTTTGA-TTGTCTGC
1 TGGAAATTGTTTTGATTTGT-T-C
29927363 TGGAAATTGTTCTTGATTTGTT
1 TGGAAATTGTT-TTGATTTGTT
29927385 AGTCAGTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 13 0.24
22 12 0.22
23 21 0.38
24 5 0.09
25 4 0.07
ACGTcount: A:0.19, C:0.06, G:0.22, T:0.53
Consensus pattern (22 bp):
TGGAAATTGTTTTGATTTGTTC
Found at i:29928354 original size:23 final size:23
Alignment explanation
Indices: 29928328--29928374 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
29928318 CAAAATTAGT
* *
29928328 ATTAAAATAAATATAATATAAAA
1 ATTAAAATAAATACAACATAAAA
**
29928351 ATTAATTTAAATACAACATAAAA
1 ATTAAAATAAATACAACATAAAA
29928374 A
1 A
29928375 AATAAAACCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
ATTAAAATAAATACAACATAAAA
Found at i:29932093 original size:91 final size:91
Alignment explanation
Indices: 29931967--29932174 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
29931957 TTGATTTTAG
* *
29931967 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
29932032 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
29932059 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
29932124 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
29932150 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
29932175 GTTATAATTA
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 86 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:29932314 original size:120 final size:120
Alignment explanation
Indices: 29932190--29932481 Score: 475
Period size: 120 Copynumber: 2.4 Consensus size: 120
29932180 AATTATTTTA
* * *
29932190 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATGTT--AATTTATATT
* *
29932253 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TGACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
29932310 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATGTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAAT-ATTAATTATGTTAATTTATATTT
29932374 GACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 GACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
29932430 AATTTTATTAAATTATATA-TTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATGTT
29932482 TAAATATGAT
Statistics
Matches: 162, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
118 2 0.01
119 34 0.21
120 121 0.75
121 5 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATGTTAATTTATATTTG
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:29932464 original size:15 final size:15
Alignment explanation
Indices: 29932444--29932475 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29932434 TTATTAAATT
*
29932444 ATATATTTAATTATA
1 ATATATTTAATAATA
29932459 ATATATTTAATAATA
1 ATATATTTAATAATA
29932474 AT
1 AT
29932476 TATGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATTTAATAATA
Found at i:29932615 original size:18 final size:17
Alignment explanation
Indices: 29932587--29932621 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29932577 ATTATTAAGA
*
29932587 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
29932604 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
29932622 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:29932644 original size:157 final size:156
Alignment explanation
Indices: 29932419--29932727 Score: 582
Period size: 157 Copynumber: 2.0 Consensus size: 156
29932409 ATAAGAATAT
*
29932419 TAATTATTAAGAATTTTATTAAATTATATATTTAATTATAATATATTTAATAATAATTATGTTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTTTA
*
29932484 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
29932549 AATAATTTACCAAAACAAATTTCTAC
131 AATAATTTACCAAAACAAATTTCTAC
29932575 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTT
29932640 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
65 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
29932705 TAATCATTTACCAAAACAAATTT
130 TAATAATTTACCAAAACAAATTT
29932728 ATGCTAATGG
Statistics
Matches: 149, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
156 30 0.20
157 119 0.80
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTCTAC
Found at i:29938496 original size:85 final size:85
Alignment explanation
Indices: 29938349--29938508 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
29938339 GTAAAAAAGT
*
29938349 AATTATATCATTTATTAATTTATAATTTCATTATTTTTAAGGGACTAAAAAGA-ATATTTTTTTT
1 AATTATATCATATATTAATTTATAATTTCATTATTTTTAAGGGACTAAAAAGATATA-TTTTTTT
*
29938413 TTCTTTTGGAGGTCAAAGTAC
65 TTATTTTGGAGGTCAAAGTAC
* * *
29938434 AATTTTATCATATATTAATTTATAATTTTATTA-TTTTAGAGAGAGACTACATAAG-TA-ATTTT
1 AATTATATCATATATTAATTTATAATTTCATTATTTTTA-AG-G-GACTA-AAAAGATATATTTT
29938496 TTTTTATTTTGGA
62 TTTTTATTTTGGA
29938509 AGGTGAAGGC
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
84 5 0.08
85 32 0.49
86 17 0.26
87 6 0.09
88 5 0.08
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (85 bp):
AATTATATCATATATTAATTTATAATTTCATTATTTTTAAGGGACTAAAAAGATATATTTTTTTT
TATTTTGGAGGTCAAAGTAC
Found at i:29944577 original size:2 final size:2
Alignment explanation
Indices: 29944570--29944601 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29944560 GTTTATAAAG
29944570 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
29944602 GTTGGCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:29946602 original size:3 final size:3
Alignment explanation
Indices: 29946594--29946626 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
29946584 AAATATCCAA
*
29946594 AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
29946627 CAAGCAAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:29948216 original size:16 final size:15
Alignment explanation
Indices: 29948195--29948225 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
29948185 TGATATCACT
29948195 TTTTTTTAAATATTTA
1 TTTTTTT-AATATTTA
29948211 TTTTTTTAATATTTA
1 TTTTTTTAATATTTA
29948226 CTATACTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTAATATTTA
Found at i:29948392 original size:13 final size:13
Alignment explanation
Indices: 29948374--29948398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29948364 TTTTTTATAG
29948374 AAATATAATAATA
1 AAATATAATAATA
29948387 AAATATAATAAT
1 AAATATAATAAT
29948399 TATTTACCAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATAATAATA
Found at i:29948529 original size:15 final size:15
Alignment explanation
Indices: 29948509--29948538 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29948499 ACTATTAGTA
29948509 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
29948524 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
29948539 TACTATACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:29950901 original size:18 final size:18
Alignment explanation
Indices: 29950872--29950911 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
29950862 TTGAAAAATT
29950872 AAAAATTAAATTTAACTAA
1 AAAAATTAAATTTAA-TAA
*
29950891 AAAAATT-AATTTGATAA
1 AAAAATTAAATTTAATAA
29950908 AAAA
1 AAAA
29950912 TATAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAAATTAAATTTAATAA
Found at i:29953109 original size:23 final size:23
Alignment explanation
Indices: 29953083--29953128 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
29953073 AGTTAAATAT
29953083 TATTTATTAATATTTTACTTAGA
1 TATTTATTAATATTTTACTTAGA
* *
29953106 TATTTATTATTATTTTATTTAGA
1 TATTTATTAATATTTTACTTAGA
29953129 AAATGGTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TATTTATTAATATTTTACTTAGA
Found at i:29956716 original size:23 final size:23
Alignment explanation
Indices: 29956690--29956733 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
29956680 CTACCATTTT
29956690 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
29956713 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
29956734 ATAATATTTA
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:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:29956726 original size:13 final size:11
Alignment explanation
Indices: 29956694--29956736 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
29956684 CATTTTTCTA
*
29956694 AATAAAATAAT
1 AATAAAATATT
29956705 AAT-AAATATCT
1 AATAAAATAT-T
29956716 AAGTAAAATATT
1 AA-TAAAATATT
29956728 AATAAAATA
1 AATAAAATA
29956737 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:29958636 original size:44 final size:44
Alignment explanation
Indices: 29958579--29958669 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
29958569 ATTGAAATAA
* *
29958579 AATAGAAATTGTGATCATTTTACAT-TTT-AAAATAATTATACTTT
1 AATAGAAATTGTGAT-A-ATTACATATTTAAAAATAATTATAATTT
*
29958623 AATAGAAGTTGTGATAATTACATATTTAAAAATAATTATAATTT
1 AATAGAAATTGTGATAATTACATATTTAAAAATAATTATAATTT
29958667 AAT
1 AAT
29958670 TTAAATTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 6 0.14
43 4 0.10
44 32 0.76
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (44 bp):
AATAGAAATTGTGATAATTACATATTTAAAAATAATTATAATTT
Found at i:29958912 original size:13 final size:13
Alignment explanation
Indices: 29958894--29958918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29958884 TAATTATCAT
29958894 TTAATTAATTATG
1 TTAATTAATTATG
29958907 TTAATTAATTAT
1 TTAATTAATTAT
29958919 TATTTTAAAT
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTAATTAATTATG
Found at i:29958926 original size:16 final size:16
Alignment explanation
Indices: 29958894--29958949 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
29958884 TAATTATCAT
*
29958894 TTAATTAATTATGTTAA
1 TTAATT-ATTATTTTAA
29958911 TTAATTATTATTTTAA
1 TTAATTATTATTTTAA
* * *
29958927 ATAA-TGTTAGTTTGAA
1 TTAATTATTA-TTTTAA
29958943 TTAATTA
1 TTAATTA
29958950 CTTAAAGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 4 0.13
16 20 0.65
17 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (16 bp):
TTAATTATTATTTTAA
Found at i:29964611 original size:104 final size:104
Alignment explanation
Indices: 29964431--29964748 Score: 627
Period size: 104 Copynumber: 3.1 Consensus size: 104
29964421 GATGTTTATA
29964431 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTCTCAAAATAAATGTTATGGAAAAGAAGAA
1 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTCTCAAAATAAATGTTATGGAAAAGAAGAA
29964496 AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
66 AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
29964535 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTCTCAAAATAAATGTTATGGAAAAGAAGAA
1 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTCTCAAAATAAATGTTATGGAAAAGAAGAA
29964600 AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
66 AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
*
29964639 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTCTCAAAATAAATGTTATGGAAAAGAAGTA
1 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTCTCAAAATAAATGTTATGGAAAAGAAGAA
29964704 AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
66 AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
29964743 CTTTTC
1 CTTTTC
29964749 ATGATTGATT
Statistics
Matches: 213, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 213 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (104 bp):
CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTCTCAAAATAAATGTTATGGAAAAGAAGAA
AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
Found at i:29981552 original size:64 final size:65
Alignment explanation
Indices: 29981344--29981590 Score: 264
Period size: 64 Copynumber: 3.8 Consensus size: 65
29981334 TTGTTACAAG
* * *
29981344 ACTTAGATAGCACACTTGTTTAAAGTGGTTTTACCTCTTTAAGATAATACGCTTCTTTAAAGCGA
1 ACTTAGATAGCACACTTCTTTAAAGTGGTTTTACCTCTTTAAGGTAATACGCTTCTTTAAAGAGA
* * * * *
29981409 ACTTAGATAGATAACTTACATCTTTAAAGTGCTTTTACCTATTTCAA-GTAATACACTTCTTTAA
1 ACTTAGATAG--CAC--ACTTCTTTAAAGTGGTTTTACCTCTTT-AAGGTAATACGCTTCTTTAA
*
29981473 AGAAA
61 AGAGA
* * * * *
29981478 ACTTTGATAGCACACTTCTTTATAGTGGATTTACCTCTTTAAGGT-ATATGCTTCTTTAAAGTGA
1 ACTTAGATAGCACACTTCTTTAAAGTGGTTTTACCTCTTTAAGGTAATACGCTTCTTTAAAGAGA
* * * * *
29981542 ACCTAAATAGCTCACTTTTTTAAAGTGGCTTTACCTCTTTAAGGTAATA
1 ACTTAGATAGCACACTTCTTTAAAGTGGTTTTACCTCTTTAAGGTAATA
29981591 ATAAAAGGTG
Statistics
Matches: 148, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
64 55 0.37
65 37 0.25
67 4 0.03
69 50 0.34
70 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (65 bp):
ACTTAGATAGCACACTTCTTTAAAGTGGTTTTACCTCTTTAAGGTAATACGCTTCTTTAAAGAGA
Found at i:29986496 original size:13 final size:13
Alignment explanation
Indices: 29986478--29986503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29986468 CGAGTTTAAA
29986478 ATAATTAATAGAG
1 ATAATTAATAGAG
29986491 ATAATTAATAGAG
1 ATAATTAATAGAG
29986504 CAAAATCATA
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:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
ATAATTAATAGAG
Found at i:29987159 original size:33 final size:33
Alignment explanation
Indices: 29987117--29987182 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
29987107 GGATATTATT
29987117 ATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 ATGGGATATTATCTTTTAGCAATTTGATTCCTA
29987150 ATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 ATGGGATATTATCTTTTAGCAATTTGATTCCTA
29987183 TGTAACTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
ATGGGATATTATCTTTTAGCAATTTGATTCCTA
Found at i:29991420 original size:26 final size:26
Alignment explanation
Indices: 29991384--29991437 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
29991374 ATAATAAATA
29991384 TTTTTATTTTTATTTTTAAAATA-CT
1 TTTTTATTTTTATTTTTAAAATATCT
29991409 TTTTTATTTTTTATTTTTAAAATATCT
1 TTTTTA-TTTTTATTTTTAAAATATCT
29991436 TT
1 TT
29991438 AAAATACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 6 0.22
26 17 0.63
27 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTATTTTTATTTTTAAAATATCT
Found at i:29993889 original size:21 final size:21
Alignment explanation
Indices: 29993863--29993913 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
29993853 TCACTTCGTT
29993863 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
29993884 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
29993905 TCTTTTTGT
1 TCTTTTTGT
29993914 GTAACTCACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.10, C:0.22, G:0.12, T:0.57
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:30002819 original size:30 final size:30
Alignment explanation
Indices: 30002778--30002840 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
30002768 TTTTTTTTGA
*
30002778 AAGATCCGAAACATGATCTTCAACGGTAGC
1 AAGATCCGAAACATGATCTTCAACGGTAAC
*
30002808 AAGATCGGAAACATGATCTTCAACGGTAAC
1 AAGATCCGAAACATGATCTTCAACGGTAAC
30002838 AAG
1 AAG
30002841 CTTGGCGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (30 bp):
AAGATCCGAAACATGATCTTCAACGGTAAC
Found at i:30002908 original size:81 final size:81
Alignment explanation
Indices: 30002773--30002972 Score: 319
Period size: 81 Copynumber: 2.5 Consensus size: 81
30002763 ATTTTTTTTT
* * * *
30002773 TTTGAAAGATCCGAAACATGATCTTCAACGGTAGCAAGATCGGAAACATGATCTTCAACGGTAAC
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
*
30002838 AAGCTTGGCGGTGAAG
66 AAGCATGGCGGTGAAG
* * *
30002854 TTTGAAATATACGAAGCAGGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAGCGGTAAC
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
*
30002919 AAGCATGGCGGTGATG
66 AAGCATGGCGGTGAAG
30002935 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAG
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAG
30002973 CTTGGCGGTG
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 108 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (81 bp):
TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
AAGCATGGCGGTGAAG
Found at i:30004022 original size:38 final size:39
Alignment explanation
Indices: 30003971--30004054 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 39
30003961 GTTGCAAAAT
*
30003971 TTTTAATTGACATGTGAAAAA-TAATCTTA-TACTTTATA
1 TTTTAATTGACATGTGAAAAATTAATCTTATTAATTT-TA
* * *
30004009 TTTTAATTTACATGTTAAAAATTATTCTTATTAATTTTA
1 TTTTAATTGACATGTGAAAAATTAATCTTATTAATTTTA
30004048 TTTTAAT
1 TTTTAAT
30004055 ATACTAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 19 0.47
39 16 0.40
40 5 0.12
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (39 bp):
TTTTAATTGACATGTGAAAAATTAATCTTATTAATTTTA
Found at i:30010079 original size:5 final size:6
Alignment explanation
Indices: 30010063--30010087 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30010053 AGGTTTTTGG
30010063 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
30010088 AAGGCTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:30011997 original size:19 final size:19
Alignment explanation
Indices: 30011973--30012024 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
30011963 CACATCTTTT
*
30011973 TGCATT-CATTTTATTCATA
1 TGCATTACATTTCA-TCATA
30011992 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
*
30012011 TGCATTATATTTCA
1 TGCATTACATTTCA
30012025 CAAAAAGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 24 0.80
20 6 0.20
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:30018721 original size:45 final size:45
Alignment explanation
Indices: 30018657--30019253 Score: 227
Period size: 44 Copynumber: 12.8 Consensus size: 45
30018647 ACAAGTTACA
30018657 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
* * * * * * *
30018702 AATCTTATTTCTCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA--TA-TAG---CG
*
30018753 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-TAGATTGAATATAGCG
* * * * * * *
30018798 AATCTTATTTCCCTGAAGTTGTAGTGGAATAAATTAAAGCTACAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA--T--ATA--GCG
* * * * **
30018849 AATCCTATAC-CCCTAAAGTTGCAATGGGACGGATTGAAGTCATTATGGCG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAATAGATTGAA-T-A-TA--GCG
* * * * ** * *** *
30018899 AATATTATCTCCTTGAAGTTGTAGAGGAGCAGATTAAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
* * * *
30018943 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
** * * ** *
30018988 AATCTTATCTCTATGAAGTTGCAGTAGAACAGATTGAAGCTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
* * * ** ** *** *
30019032 AATCTTATCTCTCTGATGTTGTAGTATAGCAGATTGAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
* ** * *
30019076 AATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
* * * * * * **
30019121 AATTTTATTTCACT-AGAGTTGTAGTGGAATAGATTAAAGCTACGAGTTATA
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAATAGATTGAA--TA-TAG---CG
** ** ** *
30019172 AATCTTATCTCATTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
**
30019216 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA
30019254 GCAATAATTT
Statistics
Matches: 417, Mismatches: 108, Indels: 55
0.72 0.19 0.09
Matches are distributed among these distances:
44 146 0.35
45 132 0.32
46 3 0.01
47 4 0.01
48 7 0.02
49 6 0.01
50 31 0.07
51 87 0.21
52 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
Found at i:30018724 original size:96 final size:96
Alignment explanation
Indices: 30018606--30019032 Score: 442
Period size: 96 Copynumber: 4.5 Consensus size: 96
30018596 ACAAGTTAAA
*
30018606 AATCTTATCTCCCTAAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
*
30018671 GAAGTTGCAGTGGAATAGATTGAATATAGCG
66 GAAGTTGCAGTGGAATAGATTGAAGATAGCG
* *
30018702 AATCTTATTTCTCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
30018767 GAAGTTGCAGT-GAAGTAGATTGAAGATAGCG
66 GAAGTTGCAGTGGAA-TAGATTGAAGATAGCG
* * * * * *** *
30018798 AATCTTATTTCCCTGAAGTTGTAGTGGAATAAATTAAAGCTACAAACCACAAATCCTATAC-CCC
1 AATCTTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTAT-CTCCC
* * * **
30018862 TAAAGTTGCAATGGGACGGATTGAAGTCATTATGGCG
65 TGAAGTTGCAGTGGAATAGATTGAAG--A-TA--GCG
* * * * *
30018899 AATATTATCTCCTTGAAGTTGTAGA-GGAGCAGATTAAAGC--C-----ACAAATCTTATCTCCT
1 AATCTTATCTCCCTGAAGTTGCA-ATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
* *
30018956 TGAAGTTGCAGTGGAGTAGATTGAAGATAGCA
65 TGAAGTTGCAGTGGAATAGATTGAAGATAGCG
** * * *
30018988 AATCTTATCTCTATGAAGTTGCAGTAGAACAGATTGAAGCTACAA
1 AATCTTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAA
30019033 ATCTTATCTC
Statistics
Matches: 274, Mismatches: 42, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
89 33 0.12
91 3 0.01
92 1 0.00
93 1 0.00
94 32 0.12
95 3 0.01
96 159 0.58
97 3 0.01
98 1 0.00
99 3 0.01
101 35 0.13
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (96 bp):
AATCTTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
GAAGTTGCAGTGGAATAGATTGAAGATAGCG
Found at i:30018741 original size:147 final size:146
Alignment explanation
Indices: 30018508--30018775 Score: 401
Period size: 147 Copynumber: 1.8 Consensus size: 146
30018498 GATTAAAGCC
* * * * *
30018508 ACAAATCTTATCTCTCTGGAGTTACATTGGAGCAGATTGAATATACGAATTTTATTTCCCTGAAC
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAATATACGAATCTTATTTCCCTGAAC
* *
30018573 TTGTAATGGAATAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTAAAGTTGCAATGGAACAG
66 TTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTAAAGTTGCAATGGAACAG
30018638 ATTAAAGCTACAAGTT
131 ATTAAAGCTACAAGTT
* * *
30018654 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCGAATCTTATTTCTCTGAA
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAATATA-CGAATCTTATTTCCCTGAA
* * * *
30018719 GTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCA
65 CTTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTAAAGTTGCA
30018776 GTGAAGTAGA
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
146 39 0.36
147 68 0.64
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (146 bp):
ACAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAATATACGAATCTTATTTCCCTGAAC
TTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTAAAGTTGCAATGGAACAG
ATTAAAGCTACAAGTT
Found at i:30018787 original size:51 final size:51
Alignment explanation
Indices: 30018559--30018775 Score: 266
Period size: 51 Copynumber: 4.4 Consensus size: 51
30018549 TATACGAATT
* * * * * *
30018559 TTATTTCCCTGAACTTGTAATGGAATAAATTAAAGCTACAAGTTAAAAATC
1 TTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATC
*
30018610 TTATCTCCCTAAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATC
* * * * *
30018661 TTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA--TA-TAG---CGAATC
1 TTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATC
* *
30018706 TTATTTCTCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATC
30018757 TTATCTCCCTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCA
30018776 GTGAAGTAGA
Statistics
Matches: 138, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
45 34 0.25
47 2 0.01
48 4 0.03
49 2 0.01
51 96 0.70
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (51 bp):
TTATCTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATC
Found at i:30018977 original size:44 final size:44
Alignment explanation
Indices: 30018903--30019255 Score: 325
Period size: 44 Copynumber: 7.8 Consensus size: 44
30018893 ATGGCGAATA
* * * *
30018903 TTATCTCCTTGAAGTTGTAGAGGAGCAGATTAAAGCCACAAATC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* *
30018947 TTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAATC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATC
* *
30018992 TTATCT-CTATGAAGTTGCAGTAGAACAGATTGAAGCTACAAATC
1 TTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* * ** * *
30019036 TTATCT-CTCTGATGTTGTAGTATAGCAGATTGAAGCCACAAATT
1 TTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* * * * *
30019080 TTATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAGATAGCGAATT
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATC
* * * ** *
30019125 TTATTTCACTAG-AGTTGTAGTGGAATAGATTAAAGCTACGAGTTATAAATC
1 TTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-------AAATC
* *
30019176 TTATCTCATTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
*
30019220 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGC
30019256 AATAATTTCT
Statistics
Matches: 249, Mismatches: 47, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
44 144 0.58
45 69 0.28
46 2 0.01
50 2 0.01
51 32 0.13
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (44 bp):
TTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
Found at i:30019033 original size:89 final size:89
Alignment explanation
Indices: 30018903--30019254 Score: 293
Period size: 89 Copynumber: 3.9 Consensus size: 89
30018893 ATGGCGAATA
* * *
30018903 TTATCTCCT-TGAAGTTGTAG-AGGAGCAGATTAAAGCCACAAATCTTATCTCCTTGAAGTTGCA
1 TTATCT-CTATGAAGTTGCAGTA-GAGCAGATTGAAGCTACAAATCTTATCTCCTTGAAGTTGCA
* *
30018966 GTGGAGTAGATTGAAGATAGCAAATC
64 GTGGAGCAGATTGAAGACAGCAAATC
* * *
30018992 TTATCTCTATGAAGTTGCAGTAGAACAGATTGAAGCTACAAATCTTATCT-CTCTGATGTTGTAG
1 TTATCTCTATGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCT-TGAAGTTGCAG
** * *
30019056 TATAGCAGATTGAAGCCA-CAAATT
65 TGGAGCAGATTGAAGACAGCAAATC
** * * * * * * * *
30019080 TTATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAGATAGCGAATTTTATTTCACTAG-AGTTGTA
1 TTATCTCTATGAAGTTGCAGTAGAGCAGATTGAAGCTA-CAAATCTTATCTC-CTTGAAGTTGCA
** * *
30019144 GTGGAATAGATTAAAGCTACGAGTTATAAATC
64 GTGGAGCAGATTGAAG--AC-AG---CAAATC
* * *
30019176 TTATCTC-ATTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTGAAGTTGCAG
1 TTATCTCTA-TGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCTTGAAGTTGCAG
30019240 TGGAGCAGATTGAAG
65 TGGAGCAGATTGAAG
30019255 CAATAATTTC
Statistics
Matches: 205, Mismatches: 43, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
88 41 0.20
89 89 0.43
90 2 0.01
91 3 0.01
92 1 0.00
94 2 0.01
95 29 0.14
96 38 0.19
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (89 bp):
TTATCTCTATGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCTTGAAGTTGCAGT
GGAGCAGATTGAAGACAGCAAATC
Found at i:30019093 original size:133 final size:134
Alignment explanation
Indices: 30018903--30019254 Score: 399
Period size: 133 Copynumber: 2.6 Consensus size: 134
30018893 ATGGCGAATA
* * * *
30018903 TTATCTCCTTGAAGTTGTAG-AGGAGCAGATTAAAGCCACAAATCTTATCTCCTTGAAGTTGCAG
1 TTATCTCATTGAAGTTGCAGTA-GAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAG
* *
30018967 TGGAGTAGATTGAAGATAGCAAATCTTATCT--CTATGAAGTTGCAGTAGAACAGATTGAAGCTA
65 TGGAGCAGATTGAAGATAGCAAATCTTATCTCACTA-G-AGTTGCAGTAGAACAGATTAAAGCTA
30019030 C-AAATC
128 CTAAATC
* * * *
30019036 TTATCTC-TCTGATGTTGTAGTATAGCAGATTGAAGCCACAAATTTTATCTCCCTGAAGTTGCAG
1 TTATCTCAT-TGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAG
* * * * * * *
30019100 TGGAGCAGATGGAAGATAGCGAATTTTATTTCACTAGAGTTGTAGTGGAATAGATTAAAGCTACG
65 TGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAGAGTTGCAGTAGAACAGATTAAAGCTAC-
30019165 AGTTATAAATC
129 -----TAAATC
* * *
30019176 TTATCTCATTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCATTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGT
30019241 GGAGCAGATTGAAG
66 GGAGCAGATTGAAG
30019255 CAATAATTTC
Statistics
Matches: 185, Mismatches: 22, Indels: 17
0.83 0.10 0.08
Matches are distributed among these distances:
132 1 0.01
133 104 0.56
134 2 0.01
135 3 0.02
140 74 0.40
141 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (134 bp):
TTATCTCATTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGT
GGAGCAGATTGAAGATAGCAAATCTTATCTCACTAGAGTTGCAGTAGAACAGATTAAAGCTACTA
AATC
Found at i:30019213 original size:51 final size:44
Alignment explanation
Indices: 30019172--30019286 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
30019162 ACGAGTTATA
*
30019172 AATCTTATCTCATTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCTTATCTCACTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* *
30019216 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-AAT
1 AATCTTATCTCACTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * *
30019259 AATTTCTATATCCCTGAAGTTGTAGTGG
1 AATCT-TATCTCACTGAAGTTGCAGTGG
30019287 GTTAAACGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 6 0.09
44 58 0.91
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCACTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
Found at i:30019273 original size:44 final size:44
Alignment explanation
Indices: 30019185--30019286 Score: 152
Period size: 44 Copynumber: 2.3 Consensus size: 44
30019175 CTTATCTCAT
* *
30019185 TGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGCTAATAATCTTATATCCC
*
30019229 TGAAGTTGCAGTGGAGCAGATTGAAGC-AATAATTTCTATATCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGCTAATAATCT-TATATCCC
*
30019273 TGAAGTTGTAGTGG
1 TGAAGTTGCAGTGG
30019287 GTTAAACGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 6 0.11
44 47 0.89
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGCTAATAATCTTATATCCC
Found at i:30021778 original size:3 final size:3
Alignment explanation
Indices: 30021753--30021830 Score: 72
Period size: 3 Copynumber: 26.3 Consensus size: 3
30021743 TTTGTTAACT
* * *
30021753 TTA TTA TT- TTA ATG TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
30021800 TTA TCA TTA -TA TT- TTCA TTAA TAA TTA TTA T
1 TTA TTA TTA TTA TTA TT-A TT-A TTA TTA TTA T
30021831 GTAATATTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
2 6 0.10
3 50 0.83
4 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:30022547 original size:112 final size:109
Alignment explanation
Indices: 30022263--30022581 Score: 507
Period size: 112 Copynumber: 2.9 Consensus size: 109
30022253 GGGGGAAATA
*
30022263 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
*
30022328 GACTTCTCGTTCGACCAAATAGCTAAATATCC-TTTTAAAAACT
66 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTTAAAAACT
30022371 TTTCGAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTC-AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
*
30022436 CGATTTTTCGTTCGACCAAATAGCTAAATATCCTTTTTAAAAAAACT
65 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTT--AAAAACT
* *
30022483 TTTCAAAAATAAGGTAATGTTTTGCGCTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTC-AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
** *
30022548 CGATTTCTCGTTTAACCAAATTG-TCAAATATCCT
65 CGATTTCTCGTTCGACCAAATAGCT-AAATATCCT
30022582 CCTGAATTTT
Statistics
Matches: 196, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
108 4 0.02
109 90 0.46
110 4 0.02
111 1 0.01
112 97 0.49
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTTAAAAACT
Found at i:30023991 original size:19 final size:20
Alignment explanation
Indices: 30023951--30023994 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
30023941 GTCTCTTTAG
*
30023951 GCATT-CATTGCATGCATTT
1 GCATTACATTGCATGCATAT
30023970 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
30023989 GCATTA
1 GCATTA
30023995 GATTTTCACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:30026063 original size:10 final size:9
Alignment explanation
Indices: 30026049--30026115 Score: 111
Period size: 9 Copynumber: 7.6 Consensus size: 9
30026039 CAGACTCAAA
30026049 AAAAAAATC
1 AAAAAAATC
30026058 AAAAAAATC
1 AAAAAAATC
30026067 AAAAAAAT-
1 AAAAAAATC
30026075 AAAAAAATC
1 AAAAAAATC
30026084 AAAAAAATC
1 AAAAAAATC
30026093 AAAAAAAATC
1 -AAAAAAATC
30026103 -AAAAAATC
1 AAAAAAATC
30026111 AAAAA
1 AAAAA
30026116 TAAAAGTCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
8 16 0.29
9 30 0.55
10 9 0.16
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATC
Found at i:30026072 original size:18 final size:18
Alignment explanation
Indices: 30026049--30026115 Score: 111
Period size: 17 Copynumber: 3.8 Consensus size: 18
30026039 CAGACTCAAA
30026049 AAAAAAATCAAAAAAATC
1 AAAAAAATCAAAAAAATC
30026067 AAAAAAAT-AAAAAAATC
1 AAAAAAATCAAAAAAATC
30026084 AAAAAAATCAAAAAAAATC
1 AAAAAAATC-AAAAAAATC
30026103 -AAAAAATCAAAAA
1 AAAAAAATCAAAAA
30026116 TAAAAGTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
17 22 0.47
18 16 0.34
19 9 0.19
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAAATCAAAAAAATC
Found at i:30027026 original size:15 final size:15
Alignment explanation
Indices: 30027006--30027054 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
30026996 GAAGAAGAAG
30027006 AAATGAGAAAAATAA
1 AAATGAGAAAAATAA
30027021 AAAT--GAAAAATGAAA
1 AAATGAGAAAAAT--AA
*
30027036 AAATGA-AAAAGTAA
1 AAATGAGAAAAATAA
30027050 AAATG
1 AAATG
30027055 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 7 0.24
14 7 0.24
15 10 0.34
16 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AAATGAGAAAAATAA
Found at i:30027032 original size:22 final size:22
Alignment explanation
Indices: 30027006--30027054 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
30026996 GAAGAAGAAG
30027006 AAATGAGAAAAAT-AAAAA-TGAA
1 AAATGA-AAAAATGAAAAAGT-AA
30027028 AAATGAAAAAATGAAAAAGTAA
1 AAATGAAAAAATGAAAAAGTAA
30027050 AAATG
1 AAATG
30027055 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 18 0.72
23 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAATGAAAAAATGAAAAAGTAA
Found at i:30027037 original size:8 final size:8
Alignment explanation
Indices: 30027006--30027045 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
30026996 GAAGAAGAAG
30027006 AAATGAGAA
1 AAATGA-AA
30027015 AAAT--AA
1 AAATGAAA
30027021 AAATG-AA
1 AAATGAAA
30027028 AAATGAAA
1 AAATGAAA
30027036 AAATGAAA
1 AAATGAAA
30027044 AA
1 AA
30027046 GTAAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.21
7 7 0.24
8 12 0.41
9 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:30028323 original size:45 final size:45
Alignment explanation
Indices: 30028266--30028359 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
30028256 CAGATCAATG
* ** *
30028266 AAGACATCAGATCTTGCTTTCCTGTAC-TGACTGCGAAGCAGATCA
1 AAGACAACAGATCTTGCCGTCCTG-ACTTGACAGCGAAGCAGATCA
* *
30028311 AAGACAACAGATCTTGCCGTCCTGCCTTGACAGCGAAGCAGATCG
1 AAGACAACAGATCTTGCCGTCCTGACTTGACAGCGAAGCAGATCA
30028356 AAGA
1 AAGA
30028360 TACAAGCTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (45 bp):
AAGACAACAGATCTTGCCGTCCTGACTTGACAGCGAAGCAGATCA
Found at i:30028508 original size:87 final size:88
Alignment explanation
Indices: 30028310--30028750 Score: 387
Period size: 88 Copynumber: 5.0 Consensus size: 88
30028300 GAAGCAGATC
* * * * * * * * *
30028310 AAAGACAACAGATCTTGCCGTCCTGCCTTGACAGCGAAGCAGATCGAAGATAC-AAGCTTTCTCT
1 AAAGATAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGC-CT
* * *
30028374 CTATCGGTTG-AGGTGGAACTGGTT
65 CTCTCGGTTGCA-GTGGAGCTGATT
* * ** * * *
30028398 GAATATAGCAGATCTTGCTTTCCTGCATTAACAACGAAGCAGATCGAA-A-ACAAAGCCATACCT
1 AAAGATAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAA-CCTTGCCT
* *
30028461 -TCATTGGTTGCAGTGGAGCTGGTT
65 CTC-TCGGTTGCAGTGGAGCTGATT
* * * *
30028485 AAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTC
1 AAAGATAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCCTC
* *
30028550 TCTCGGTTG-TGATGGAGCTGACT
66 TCTCGGTTGCAG-TGGAGCTGATT
* * * * *
30028573 GAAGATAAAAGATATTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTC
1 AAAGATAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCCTC
**
30028638 TCTCGGTTATAGTGGAGCTGATT
66 TCTCGGTTGCAGTGGAGCTGATT
* ** * * *
30028661 GAAGATAGCAGATCTTGCCTTCCTACATTAACAACGGAGCAGATC-AA-AAACAAAGCCTTGCCT
1 AAAGATAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAA-CCTTGCCT
*
30028724 C-CATCGGTTGCAGTGGAGCGGATT
65 CTC-TCGGTTGCAGTGGAGCTGATT
30028748 AAA
1 AAA
30028751 ACCAATAATC
Statistics
Matches: 291, Mismatches: 51, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
86 10 0.03
87 93 0.32
88 180 0.62
89 8 0.03
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (88 bp):
AAAGATAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCCTC
TCTCGGTTGCAGTGGAGCTGATT
Found at i:30028601 original size:175 final size:176
Alignment explanation
Indices: 30028310--30028733 Score: 428
Period size: 175 Copynumber: 2.4 Consensus size: 176
30028300 GAAGCAGATC
* * * * * *
30028310 AAAGACAACAGATCTTGCCGTCCTGCCTTGACAGCGAAGCAGATCGAAGATACAAGCTTTCTCTC
1 AAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAACCTTGCTCTC
* ** * ** * *
30028375 TATCGGTTGAGGTGGAACTGGTTGAATATAGCAGATCTTGCTTTCCTGCATTAACAACGAAGCAG
66 TATCGGTTGAGATGGAACTGACTGAAGATAAAAGATATTGCCTTCCTGCATTAACAACGAAGCAG
* * *
30028440 ATCGAA-A-ACAAAGCCATACCT-TCATTGGTTGCAGTGGAGCTGGTT
131 ATCGAAGACACAAA-CCATACCTCTC-TCGGTTACAGTGGAGCTGATT
* * *
30028485 AAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGGTCGAAGACACAAACCTTGC-CT
1 AAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACAC-AACCTTGCTCT
* * * * *
30028549 CTCTCGGTTGTGATGGAGCTGACTGAAGATAAAAGATATTGCCTTCCTGCATTGACAGCGAAGCA
65 CTATCGGTTGAGATGGAACTGACTGAAGATAAAAGATATTGCCTTCCTGCATTAACAACGAAGCA
* * * *
30028614 GGTCGAAGACACAAACCTTGCCTCTCTCGGTTATAGTGGAGCTGATT
130 GATCGAAGACACAAACCATACCTCTCTCGGTTACAGTGGAGCTGATT
* * * * * * * *
30028661 GAAGATAGCAGATCTTGCCTTCCTACATTAACAACGGAGCAGATCAAAAACA-AAGCCTTGC-CT
1 AAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAA-CCTTGCTCT
*
30028724 CCATCGGTTG
65 CTATCGGTTG
30028734 CAGTGGAGCG
Statistics
Matches: 202, Mismatches: 42, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
174 2 0.01
175 122 0.60
176 71 0.35
177 7 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (176 bp):
AAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAACCTTGCTCTC
TATCGGTTGAGATGGAACTGACTGAAGATAAAAGATATTGCCTTCCTGCATTAACAACGAAGCAG
ATCGAAGACACAAACCATACCTCTCTCGGTTACAGTGGAGCTGATT
Found at i:30028964 original size:44 final size:44
Alignment explanation
Indices: 30028800--30029841 Score: 459
Period size: 44 Copynumber: 23.8 Consensus size: 44
30028790 TCGCACCAGG
* * * * *
30028800 TCTTATTTTCCTGAGATTACAGTGGAACAGACCTGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTGAAGATA-GT-A-A
* * * *
30028847 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATA-GT-A-A
*
30028893 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* * * * *
30028937 TCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAATGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT-AGTAA
* **** * * * *
30028981 TCTTATCTCTCTGA-AGTTACAACATAGTAGATCG-CG-TCA--AG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGTAA
* *
30029022 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* ** * *
30029066 TCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATGAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT--AGTAA
* *** * * * *
30029110 TCTTATCTCTCTGA-AGTTACAGCATAGTAGA-TCACG-TCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGTAA
* * * * *
30029151 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAA-AAATTTCAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATA-GT--AA
* *
30029197 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* * * * *
30029241 TCCTATCTTCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGAT--AGTAA
* ** * * * *
30029285 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG--CATCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGTAA
* * ** **
30029326 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAAGAATTTTAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-ATAGTA-A
* * **
30029372 TCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTA-A
* * * *
30029416 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* * * * *
30029459 TCCTATCTCCTTGA-AGTTACAGTGGAGCGGATTGAA-ATAAATGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGTAA
* * * * * **
30029503 TCTTATCTCTCTGA-AGTTATAGTAGAGTAGATCGCACCA-AG---
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-AAGATAGTAA
** * *
30029544 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-ATAGTA-A
* ** *
30029590 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATGGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* * * * * *
30029634 TCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAACCAATGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA-TAGTAA
* * * * * ** *
30029678 TCTTATCTCTCT-AAAGTTACAGTAGAGTAGA-TCACA-CCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGATAGTAA
* ** * *
30029719 TCTTATTTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-ATAGTA-A
** *
30029765 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATGGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* *
30029809 TCCTATCTCCCTGAGATTACAGTGGAGCGGATT
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT
30029842 AAAACCAATG
Statistics
Matches: 760, Mismatches: 178, Indels: 117
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.00
41 128 0.17
42 17 0.02
43 61 0.08
44 320 0.42
45 15 0.02
46 185 0.24
47 33 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
Found at i:30029040 original size:129 final size:129
Alignment explanation
Indices: 30028893--30029617 Score: 560
Period size: 129 Copynumber: 5.6 Consensus size: 129
30028883 GAATTTCAGA
*
30028893 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACA
** *
30028958 GTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAACATAGTAGATCGCGTCAAG
66 GTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAAG
* *
30029022 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACA
* * * * * * *
30029087 GTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCATAGTAGATCACGTCAGG
66 GTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAAG
* * * * * *
30029151 TCTTATTTCCCTGAGATTACAGTGGAACAGA-CTGAA-AAATTTCAAATCTTATCTCCCTGAGAT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATC-GAAGATA-GT--AATCCTATCTCCCTGAGAT
* * * * * * * * ** **
30029214 TACAGCGGAGCAGATTGAAGA-CAGTAATCCTATCT-TCCTG-AGATTACAGTGGAGCGGATTAA
62 TACAGTGGAGCGGATT-AAAATAAATGATCTTATCTCT-CTGAAG-TTACAGTAGAGTAGA-TCG
** *
30029276 AATAAAGG
123 CGTCAA-G
* * * * * * *
30029284 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG--CATCAG--GTCTTATCTCCCTGAGGTT
1 -TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGAT-AGTAATCCTATCTCCCTGAGATT
** ** ** * * * *
30029344 ACAGTGGAGTAGACAGAAGAAT-TTTAGATCTTATCTC-CTTGAGGTTACAGTGGAGCAGATTGA
63 ACAGTGGAGCGGA-TTAA-AATAAAT-GATCTTATCTCTC-TGAAGTTACAGTAGAGTAGATCG-
* *
30029407 AGCCAGAG
123 CGTCA-AG
* * *
30029415 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCTTGA-AGTTA
1 -TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-TTA
* * **
30029478 CAGTGGAGCGGATTGAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAA
64 CAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAA
30029543 G
129 G
* * * * *
30029544 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-ATAGTA-ATCCTATCTCCCTGAGATTA
*
30029609 CAGCGGAGC
64 CAGTGGAGC
30029618 AGATCAAAGA
Statistics
Matches: 469, Mismatches: 93, Indels: 66
0.75 0.15 0.11
Matches are distributed among these distances:
128 36 0.08
129 187 0.40
130 10 0.02
131 166 0.35
132 15 0.03
133 29 0.06
134 25 0.05
135 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAAG
Found at i:30029168 original size:85 final size:85
Alignment explanation
Indices: 30029073--30029352 Score: 280
Period size: 85 Copynumber: 3.2 Consensus size: 85
30029063 TAATCCTATC
* * *
30029073 TCCCTGAGATTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCATAGT
1 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
30029138 AGATCACGTCAGGTCTTATT
66 AGATCACGTCAGGTCTTATT
* * * * *
30029158 TCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAA--ATCTTATCTCCCTG-AGATTACAGC
1 TCCCTGAGATTACAGTGGAGCGGA-T-TAAAA--TAAAGGATCTTATCTCTCTGAAG-TTACAGC
* * * * * * *
30029220 GGAGCAGATTGAAGACAGTAATCCTATCT
61 AGAGTAGA-TCACGTCAG--GTCTTAT-T
30029249 T-CCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
1 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
* * *
30029313 AGATCGCATCAGGTCTTATC
66 AGATCACGTCAGGTCTTATT
*
30029333 TCCCTGAGGTTACAGTGGAG
1 TCCCTGAGATTACAGTGGAG
30029353 TAGACAGAAG
Statistics
Matches: 152, Mismatches: 30, Indels: 26
0.73 0.14 0.12
Matches are distributed among these distances:
84 1 0.01
85 43 0.28
86 6 0.04
87 33 0.22
88 36 0.24
89 6 0.04
90 25 0.16
91 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (85 bp):
TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
AGATCACGTCAGGTCTTATT
Found at i:30029210 original size:175 final size:175
Alignment explanation
Indices: 30028734--30029443 Score: 652
Period size: 175 Copynumber: 4.1 Consensus size: 175
30028724 CCATCGGTTG
** ** * * *
30028734 CAGTGGAGCGGATTAAAACCAATAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAG
1 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAG
* * * * * *
30028799 GTCTTATTTTCCTGAGATTACAGTGGAACAGACCTGAAGAATTTCAGATCTTATTTCCCTGAGAT
66 GTCTTATCTCCCTGAGATTACAGTGGAACAGA-CAGAAAAATTTCAAATCTTATCTCCCTGAGAT
* * * * *
30028864 TACAGTGGAACAGACTGAAGA-ATTTCAGATCTTATCTCCCTGAGATTA
130 TACAGCGGAGCAGATTGAAGACA-GT-A-ATCCTATCTCCCTGAGATTA
* * * * * * ** ** * *
30028912 CAGCGGAGCAGATTGAAGAT--AGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAA
1 CAGTGGAGCGGATT-AAAATAAAG-GATCTTATCTCTCTGAAG-TTACAGCAGAGTAGA-TCACA
* * * * * ***** *
30028974 TAAATGATCTTATCTCTCTGA-AGTTAC-----AACATAGTAG-ATCGCGTCAAGTCTTATCTCC
62 T-CA-GGTCTTATCTCCCTGAGA-TTACAGTGGAACAGA-CAGAAAAATTTCAAATCTTATCTCC
**
30029032 CTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
123 CTGAGATTACAGCGGAGCAGATTGAAGACAGTAATCCTATCTCCCTGAGATTA
* * * *
30029085 CAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCATAGTAGATCACGTCAG
1 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAG
* *
30029150 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAAATCTTATCTCCCTGAGATT
66 GTCTTATCTCCCTGAGATTACAGTGGAACAGACAGAAAAATTTCAAATCTTATCTCCCTGAGATT
*
30029215 ACAGCGGAGCAGATTGAAGACAGTAATCCTATCTTCCTGAGATTA
131 ACAGCGGAGCAGATTGAAGACAGTAATCCTATCTCCCTGAGATTA
*
30029260 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAG
1 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAG
* ** * * * * *
30029325 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAAGAATTTTAGATCTTATCTCCTTGAGGTT
66 GTCTTATCTCCCTGAGATTACAGTGGAACAGACAGAAAAATTTCAAATCTTATCTCCCTGAGATT
* * *
30029390 ACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTA
131 ACAGCGGAGCAGATTGAAGACAGTA-ATCCTATCTCCCTGAGATTA
*
30029435 CAGCGGAGC
1 CAGTGGAGC
30029444 AGATCGAAGA
Statistics
Matches: 425, Mismatches: 88, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
170 17 0.04
171 2 0.00
172 7 0.02
173 52 0.12
174 7 0.02
175 270 0.64
176 7 0.02
177 3 0.01
178 37 0.09
179 5 0.01
180 2 0.00
181 16 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (175 bp):
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAG
GTCTTATCTCCCTGAGATTACAGTGGAACAGACAGAAAAATTTCAAATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATTGAAGACAGTAATCCTATCTCCCTGAGATTA
Found at i:30029507 original size:218 final size:219
Alignment explanation
Indices: 30029195--30029661 Score: 672
Period size: 218 Copynumber: 2.1 Consensus size: 219
30029185 AAAAATTTCA
* *
30029195 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAGTAATCCTATCTTCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTTCCTGAGATTA
* *
30029260 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAA
* * ** * *
30029325 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAAGAATTTTAGATCTTATCTCCTTGAGGTT
131 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACAGAAGAATTGCAGATCTTATCTCCCTGAGATT
* ** *
30029390 ACAGTGGAGCAGATTGAAGCCAG-
196 ACAGCGGAGCAGATCAAAGACAGT
30029413 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATC-TCCTTGA-AG
1 A-ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTTCC-TGAGA-
* * * *
30029475 TTACAGTGGAGCGGATTGAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCAC
63 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAC
*
30029540 CAAGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
128 CAAGTCTTATCTCCCTGAGATTACAGTGGAGCAGACAGAAGAATTGCAGATCTTATCTCCCTGAG
**
30029605 ATTACAGCGGAGCAGATCAAAGATGGT
193 ATTACAGCGGAGCAGATCAAAGACAGT
* *
30029632 AATCCTATCTCCCTGAGATTACAGTGGAGC
1 AATCTTATCTCCCTGAGATTACAGCGGAGC
30029662 GGATTAAAAC
Statistics
Matches: 222, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
217 4 0.02
218 176 0.79
219 42 0.19
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (219 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTTCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAA
GTCTTATCTCCCTGAGATTACAGTGGAGCAGACAGAAGAATTGCAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATCAAAGACAGT
Found at i:30029534 original size:393 final size:394
Alignment explanation
Indices: 30029022--30029836 Score: 1150
Period size: 393 Copynumber: 2.1 Consensus size: 394
30029012 TCGCGTCAAG
* ** *
30029022 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAGATTACA
* * * ** *
30029087 GTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCATAGTAGATCACGTCAGGT
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAAGT
* * *
30029152 CTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAAATCTTATCTCCCTGAGATTAC
131 CTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTGCAAATCTTATCTCCCTGAGATTAC
** * *
30029217 AGCGGAGCAGATTGAAGACAGTAATCCTATCTTCCTGAGATTACAGTGGAGCGGATTAAAATAAA
196 AGCGGAGCAGATCAAAGACAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAA
* * * *
30029282 GGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
261 GGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCACACCAGGTCTTATCTCCCTGAGATTACA
* ** * * ** *
30029347 GTGGAGTAGACAGAAGAATTTTAGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA
326 GTGGAGCAGACAGAAGAATTGCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGACA
30029412 G-AGA
391 GTA-A
*
30029416 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCTTGA-AGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAGA-TTAC
* * * * *
30029479 AGTGGAGCGGATTGAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAAG
65 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAAG
* * *
30029544 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTA
130 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTGCAAATCTTATCTCCCTGAGATTA
** *
30029609 CAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCA
195 CAGCGGAGCAGATCAAAGACAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAA
* * *
30029674 ATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACACCAGGTCTTATTTCCCTGAGATTAC
260 AGGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCACACCAGGTCTTATCTCCCTGAGATTAC
* *
30029739 AGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAT
325 AGTGGAGCAGACAGAAGAATTGCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAC
*
30029804 GGTAA
390 AGTAA
* *
30029809 TCCTATCTCCCTGAGATTACAGTGGAGC
1 TCTTATCTCCCTGAGATTACAGCGGAGC
30029837 GGATTAAAAC
Statistics
Matches: 370, Mismatches: 49, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
392 1 0.00
393 330 0.89
394 39 0.11
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (394 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAAGT
CTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTGCAAATCTTATCTCCCTGAGATTAC
AGCGGAGCAGATCAAAGACAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAA
GGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCACACCAGGTCTTATCTCCCTGAGATTACA
GTGGAGCAGACAGAAGAATTGCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGACA
GTAA
Found at i:30029535 original size:87 final size:86
Alignment explanation
Indices: 30029375--30029861 Score: 330
Period size: 87 Copynumber: 5.6 Consensus size: 86
30029365 TTTTAGATCT
* * * *
30029375 TATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACAAATGATCTTATCTCCCTGAGATTACAGC
*
30029439 GGAGCAGATCGAAGACACTATCC
65 AGAGCAGATCGAAGAC-CTATCC
* * * * *
30029462 TATCTCCTTGA-AGTTACAGTGGAGCGGATTGAAATAAATGATCTTATCTCTCTGA-AGTTATAG
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAATGATCTTATCTCCCTGAGA-TTACAG
* * * * *
30029525 TAGAGTAGATCG--CACCAAGTCT
64 CAGAGCAGATCGAAGACCTA-TCC
** * *
30029547 TATCTCCCTGAGATTACAGTGGAGCAGACCG-AAGAATTGCAGATCTTATCTCCCTGAGATTACA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAAT---GATCTTATCTCCCTGAGATTACA
* * **
30029611 GCGGAGCAGATCAAAGATGGTAATCC
63 GCAGAGCAGATCGAAGA-CCT-ATCC
* * * * * *
30029637 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCT-AAAGTTACAGT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAATGATCTTATCTCCCTGAGA-TTACAGC
* * *
30029701 AGAGTAGATC--ACACC-AGGTCT
65 AGAGCAGATCGAAGACCTA--TCC
* ** * *
30029722 TATTTCCCTGAGATTACAGTGGAGCAGACCG-AAGAATTGCAGATCTTATCTCCCTGAGATTACA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAAT---GATCTTATCTCCCTGAGATTACA
** * **
30029786 GTGGAGCAGATCAAAGATGGTAATCC
63 GCAGAGCAGATCGAAGA-CCT-ATCC
* * *
30029812 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAATGATCTTATCTC
30029862 TTAGAAGTTA
Statistics
Matches: 303, Mismatches: 70, Indels: 53
0.71 0.16 0.12
Matches are distributed among these distances:
83 1 0.00
84 11 0.04
85 57 0.19
86 6 0.02
87 117 0.39
88 41 0.14
89 3 0.01
90 57 0.19
91 9 0.03
92 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (86 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAATGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACCTATCC
Found at i:30029680 original size:175 final size:175
Alignment explanation
Indices: 30028847--30029886 Score: 885
Period size: 175 Copynumber: 6.0 Consensus size: 175
30028837 GAATTTCAGA
* * *
30028847 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACTGAAGAATTGCAGATCTTATCTCCCTGAGATTA
** * *
30028912 CAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATA
66 CAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATC
** * **
30028976 AATGATCTTATCTCTCTGAAGTTACAACATAGTAGATCGCGTCAAG
130 AATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAAG
* * * *
30029022 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG--TTAGTA-ATCCTATCTCCCTGAGATT
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACTGAAGAATT-GCAGATCTTATCTCCCTGAGATT
* ** * * * * *** ** * **
30029084 ACAGTGGAGTGGATTAAA-ATGAAG-GATCTTATCTCTCTGAAGTTACAGCATAGTAGA-TCACG
65 ACAGCGGAGCAGATCAAAGATG--GTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
* * * * ** * * *
30029146 TC-A-GGTCTTATTTCCCTG-AGATTACAGTGGAACAGA-CTGAAAAATTTCAAA
128 TCAATGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATC-G---CA--CCAAG
* * * * *
30029197 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA--GTA-ATCCTATCTTCCTGAGATT
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACTGAAGA-ATTGCAGATCTTATCTCCCTGAGATT
* * * * * ** ** ***
30029259 ACAGTGGAGCGGATTAAA-ATAAAGG--ATCTTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGC
65 ACAGCGGAGCAGATCAAAGAT---GGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
* * * * * **
30029320 ATC-A-GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGA-CAGAAGAATTTTAG
127 ATCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC-GCACCA----AG
* * * *
30029371 ATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA--G-AGATCTTATCTCCCTGAGAT
1 -TCTTATCTCCCTGAGATTACAGTGGAGCAGACTGAAG-AATTGCAGATCTTATCTCCCTGAGAT
* *** * *
30029433 TACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTGAAAT
64 TACAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
* *
30029497 AAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAAG
129 CAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAAG
*
30029544 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACTGAAGAATTGCAGATCTTATCTCCCTGAGATTA
*
30029609 CAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAACC
66 CAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATC
* * *
30029673 AATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACACCAGG
130 AATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAAG
* *
30029719 TCTTATTTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACTGAAGAATTGCAGATCTTATCTCCCTGAGATTA
* *
30029784 CAGTGGAGCAGATCAAAGATGGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAACC
66 CAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATC
*
30029848 AATGATCTTATCTCT-TAGAAGTTACAGTAGAGAAGATCG
130 AATGATCTTATCTCTCT-GAAGTTACAGTAGAGTAGATCG
30029887 TATCAGGTCT
Statistics
Matches: 725, Mismatches: 103, Indels: 74
0.80 0.11 0.08
Matches are distributed among these distances:
169 3 0.00
170 23 0.03
171 2 0.00
172 40 0.06
173 59 0.08
174 75 0.10
175 486 0.67
176 4 0.01
177 31 0.04
178 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACTGAAGAATTGCAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCA
ATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAAG
Found at i:30030585 original size:5 final size:6
Alignment explanation
Indices: 30030568--30030604 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
30030558 GAATCTCTTC
30030568 TATTTT TATTTT TATTTT TATTTT T-TTGTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATT-TT TATTTT T
30030605 TATCTTCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:30031370 original size:3 final size:3
Alignment explanation
Indices: 30031364--30031428 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
30031354 TAATGTTACC
* *
30031364 ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
30031411 -TT CATT AATA ATT ATT AT
1 ATT -ATT -ATT ATT ATT AT
30031429 GTAATATTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 4 0.08
3 44 0.85
4 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:30032145 original size:112 final size:110
Alignment explanation
Indices: 30031861--30032179 Score: 525
Period size: 112 Copynumber: 2.9 Consensus size: 110
30031851 GGGGGAAATA
*
30031861 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
*
30031925 CGACTTCTCGTTTGACCAAATAGCTAAATATCC-TTTTAAAAACT
66 CGATTTCTCGTTTGACCAAATAGCTAAATATCCTTTTTAAAAACT
30031969 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* *
30032034 CGATTTTTCGTTCGACCAAATAGCTAAATATCCTTTTTTAAAAAACT
66 CGATTTCTCGTTTGACCAAATAGCTAAATATCC-TTTTT-AAAAACT
* *
30032081 TTTCAAAAATAAGGTAATGTTTTGCGCTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* * *
30032146 CGATTTCTCGTTTAACCAAATTGCCAAATATCCT
66 CGATTTCTCGTTTGACCAAATAGCTAAATATCCT
30032180 CCTGAATTTT
Statistics
Matches: 196, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
108 4 0.02
109 89 0.45
111 5 0.03
112 98 0.50
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (110 bp):
TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
CGATTTCTCGTTTGACCAAATAGCTAAATATCCTTTTTAAAAACT
Found at i:30032712 original size:101 final size:101
Alignment explanation
Indices: 30032593--30032784 Score: 280
Period size: 101 Copynumber: 1.9 Consensus size: 101
30032583 AAAGTGATGG
* * * *
30032593 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G-ATAGGTCGCATGTGTCGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGG-ATGGAATA-GTCACACGTGTAGT
*
30032656 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
64 ACTATGTGCAGGCTACTATGTGAACCGGATAGTTTCGA
* *
30032694 TCACGTGTGTAGTACTATGTGTAAGCTACTACGTGTATCGGATGGTAATAGTCACACGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATGG-AATAGTCACACGTGTAGTA
30032759 CTATGTGCAGGCTACTATGTGAACCG
65 CTATGTGCAGGCTACTATGTGAACCG
30032785 AACATCATTG
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
100 2 0.02
101 39 0.48
102 37 0.46
103 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATGGAATAGTCACACGTGTAGTAC
TATGTGCAGGCTACTATGTGAACCGGATAGTTTCGA
Done.