Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 179 of 259
Found at i:58126791 original size:224 final size:221
Alignment explanation
Indices: 58126339--58126797 Score: 602
Period size: 224 Copynumber: 2.0 Consensus size: 221
58126329 TAAAACAAAA
* ** * * * ** *
58126339 TTTGTAAAACAGATTTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCATTTATCGTAATA
1 TTTGAAAAACAGAAGTTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTATCGCAATA
* * *
58126404 TGAGTTGATTCTTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTC
66 TGAGTTGATTCTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTC
** *
58126469 TCGCAATATGAGTTGATTTTTTGATGAACAGAAATTAAAACTACCTCAACGTGTCCTGAGGCTCA
131 TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAACTACCTCAACATG--CTGAGGCTCA
58126534 ACTCACCTCTCGCAACATAAGTTGATTTT
194 ACTCACCTCTCGCAACATAAGTTGA-TTT
* *
58126563 TTTGAAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAGTTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTATCGCAATA
* *
58126628 TGAGTTGATTTTTTTGACAAA-CAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACT
66 TGAGTTGA--TTCTTGA-AAAGCAGAAATTG-AAAATACCTCAGCGTG--ACCCAAGGCTCAACT
*
58126692 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTCAAAAC-ACCTCAGCATG-TGAG
125 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAACTACCTCAACATGCTGAG
* *
58126755 GCTCAACTCACCTCTCGCAATATGAGTTGA-TT
189 GCTCAACTCACCTCTCGCAACATAAGTTGATTT
58126787 TTTGAAAAACA
1 TTTGAAAAACA
58126798 TAAATTAAGC
Statistics
Matches: 206, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
224 75 0.36
226 46 0.22
227 19 0.09
229 61 0.30
230 5 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (221 bp):
TTTGAAAAACAGAAGTTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTATCGCAATA
TGAGTTGATTCTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAACTACCTCAACATGCTGAGGCTCAAC
TCACCTCTCGCAACATAAGTTGATTT
Found at i:58126843 original size:155 final size:154
Alignment explanation
Indices: 58126293--58127053 Score: 520
Period size: 155 Copynumber: 4.9 Consensus size: 154
58126283 ACGTGAGCCA
* **
58126293 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT--AAAACAAAATTTGTAAAACAGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAA--T-T--AACAGAAATT
* * * ** * ** * * *
58126356 GAAAATACCTCGGTATGTGACCCGAGGCTCAACTCATTTATCGTAATATGAGTTGA--TTCTTGA
61 GAAAATACCTC--AACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * * * *
58126419 AAAGCATAAATTGAAAATACCTCAGCGTGCCCCG
124 AAAACAGAAATTGAAAACACCTCAGCATG---TG
*
58126453 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---------ATGAACAGAAATT-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAAAATTAACAGAAATTGAAA
* * * *
58126508 ACTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACATAAGTTGATTTTTTTGAAAAAC
65 A-TACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
* *
58126573 AGAAGTTGAAAACACCTCAGCGTGTGACCCG
129 AGAAATTGAAAACACCTCAGCATGT-----G
***
58126604 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TTGAC---A--AACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTAACAGAAATTG-AAA
* **
58126662 ATACCTCAGCGTGT-AAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA
65 ATACCTCAACGTGTCTTG--AA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
*
58126725 ACAGAAATTCAAAACACCTCAGCATGTG
127 ACAGAAATTGAAAACACCTCAGCATGTG
58126753 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAGCAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAATTAA-CAGAAATTGAA
* * **
58126818 AATACCTCAACGGGTCTTGAAGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTG---ATG
64 AATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
* * *
58126879 ATAAATTGAAAATACCTCAATGTGACT-TG
129 AGAAATTGAAAACACCTC-A-G-CA-TGTG
* * *
58126908 AGGTTTAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A--AAAACA-AAATT---AACAGAA
* * * * * * *
58126973 ATGGAAAACAACTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG
58 ATTGAAAATACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * *
58127036 AAACACATAAATTAAAAA
123 AAAAACAGAAATTGAAAA
58127054 AAGAAAGAAA
Statistics
Matches: 497, Mismatches: 59, Indels: 87
0.77 0.09 0.14
Matches are distributed among these distances:
147 33 0.07
148 4 0.01
149 83 0.17
150 5 0.01
151 35 0.07
152 28 0.06
153 13 0.03
154 43 0.09
155 98 0.20
156 9 0.02
157 18 0.04
158 10 0.02
159 46 0.09
160 39 0.08
161 20 0.04
162 2 0.00
163 11 0.02
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (154 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTAACAGAAATTGAAAA
TACCTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAG
AAATTGAAAACACCTCAGCATGTG
Found at i:58126887 original size:229 final size:222
Alignment explanation
Indices: 58126371--58126967 Score: 602
Period size: 226 Copynumber: 2.6 Consensus size: 222
58126361 TACCTCGGTA
* ** * ** *
58126371 TGTGACCCGAGGCTCAACTCATTTATCGTAATATGAGTTGA--TTCTTGAAAAGCATAAATTGAA
1 TGTGACCCGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTG-AAA-CATAAATTGAA
** **
58126434 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGAACA
64 AATACCTCAGCGTGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
*
58126499 GAAATTAAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACATAAGTTGATTTTT
129 GAAATTAAAACTACCTCAACATG--CTGAGGCTCAACTCACCTCTCGCAACATAAGTTGATTTTT
* * *
58126564 TTGAAAAACAGAAGTTGAAAACACCTCAGCG
192 ATGAAAAACAGAAATTGAAAACACCTCAACG
* * *
58126595 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAA
1 TGTGACCCGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTG--AAACATAAATTG-A
*
58126660 AAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
63 AAATACCTCAGCGTGT-A-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
* * *
58126725 ACAGAAATTCAAAAC-ACCTCAGCATG-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
126 ACAGAAATT-AAAACTACCTCAACATGCTGAGGCTCAACTCACCTCTCGCAACATAAGTTGATTT
*
58126788 TTGAAAAACAT-AAATTAAGCAGAAATTGAAAATACCTCAACG
190 TT-------ATGAAA--AA-CAGAAATTGAAAACACCTCAACG
* ** **
58126830 -G-GTCTTGAAGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTG-ATGATAAATTGAAAA
1 TGTGACCCGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAACATAAATTGAAAA
** * * *
58126891 TACCTCAATGTG-ACTTGAGGTTTAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAA
66 TACCTCAGCGTGTAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-A--AAAA
58126955 CAGAAATTGAAAA
127 CAGAAATT-AAAA
58126968 TAGAAATGGA
Statistics
Matches: 317, Mismatches: 35, Indels: 37
0.81 0.09 0.10
Matches are distributed among these distances:
224 37 0.12
225 1 0.00
226 88 0.28
227 20 0.06
228 14 0.04
229 85 0.27
230 5 0.02
232 10 0.03
233 34 0.11
234 3 0.01
235 20 0.06
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (222 bp):
TGTGACCCGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAACATAAATTGAAAA
TACCTCAGCGTGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGA
AATTAAAACTACCTCAACATGCTGAGGCTCAACTCACCTCTCGCAACATAAGTTGATTTTTATGA
AAAACAGAAATTGAAAACACCTCAACG
Found at i:58127274 original size:77 final size:76
Alignment explanation
Indices: 58127065--58127446 Score: 359
Period size: 77 Copynumber: 4.9 Consensus size: 76
58127055 AGAAAGAAAT
** * ** *
58127065 TAAAAACAGAATTTGAAAGGACCTCGACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGA
1 TAAAAA-AGAATTTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGA
*
58127130 GTTGATTCTTTTGA
63 GTTGATTTTTTTGA
** * * **
58127144 -AAAGCAGAAATTG-AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 TAAAAAAGAATTTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
58127207 GATTTTTTTGA
66 GATTTTTTTGA
* * *
58127218 TAAAAATAGAATTTGAAAATATCTCAGCGTGTCTTGAGGCTCAATTCACCTCTCGCAATATGAGT
1 TAAAAA-AGAATTTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
58127283 TGA--TTTTTGA
65 TGATTTTTTTGA
* * *
58127293 CAAACAAA-AA-TTGAAATTACCTCAAC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
1 TAAA-AAAGAATTTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
58127354 TGATTTTTTTTTTGAAACATAAA
65 TGA---TTTTTTTG--------A
* *
58127377 TTAAAAAAAAATTT-AAAATACCTCAACGTGTCTTGAGGCTCAACTCACATCTCGCAATATGAGT
1 -TAAAAAAGAATTTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
58127441 TGATTT
65 TGATTT
58127447 GAAAAGCAGA
Statistics
Matches: 256, Mismatches: 25, Indels: 39
0.80 0.08 0.12
Matches are distributed among these distances:
71 36 0.14
73 13 0.05
74 45 0.18
75 14 0.05
76 27 0.11
77 55 0.21
78 3 0.01
84 7 0.03
85 17 0.07
86 2 0.01
87 37 0.14
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (76 bp):
TAAAAAAGAATTTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGA
Found at i:58127354 original size:148 final size:151
Alignment explanation
Indices: 58127106--58127454 Score: 426
Period size: 158 Copynumber: 2.3 Consensus size: 151
58127096 TGGCCCGAGA
* *
58127106 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAATACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAGCAAAAATTGAAATACCTCAACG-
* *
58127171 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG-AT-A-AAAATAGAATTT
63 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAATAATAAAAAAAAATTT
* *
58127232 GAAAATATCTCAGCGTGTCTTGAGG
128 -AAAATACCTCAACGTGTCTTGAGG
*
58127257 CTCAATTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CAAAAATTGAAATTACCTCAAC-G
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAGCAAAAATTGAAA-TACCTCAACGG
** *
58127320 TCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTTGAAACATAAATTAAAAAA
64 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTG--A-AT-AA-TAAAAAA
58127385 AAATTTAAAATACCTCAACGTGTCTTGAGG
122 AAATTTAAAATACCTCAACGTGTCTTGAGG
*
58127415 CTCAACTCACATCTCGCAATATGAGTTGA--TTTGAAAAGCA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCA
58127455 GAATTTGTAA
Statistics
Matches: 172, Mismatches: 12, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
148 35 0.20
149 17 0.10
150 12 0.07
151 36 0.21
155 5 0.03
156 7 0.04
157 1 0.01
158 49 0.28
159 10 0.06
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (151 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAATACCTCAACGGTC
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAATAATAAAAAAAAATTTAAA
ATACCTCAACGTGTCTTGAGG
Found at i:58127592 original size:13 final size:13
Alignment explanation
Indices: 58127549--58127592 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
58127539 TTGATTTTTG
58127549 AAAAACAGAAATT
1 AAAAACAGAAATT
*
58127562 AAAAGCAGAAATT
1 AAAAACAGAAATT
* *
58127575 GAAAACAAAAATT
1 AAAAACAGAAATT
58127588 AAAAA
1 AAAAA
58127593 TACCTCGGCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:58127660 original size:99 final size:100
Alignment explanation
Indices: 58127374--58127664 Score: 385
Period size: 99 Copynumber: 3.0 Consensus size: 100
58127364 TTTGAAACAT
* * * * *
58127374 AAATT-AAAA-AAAAATTTAAAATACCTCAACGTGTCTTGAGGCTCAACTCACATCTCGCAATAT
1 AAATTGAAAACAAAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
58127437 GAGTTGA--TTTGAAAAGCAGAATTTGTAAGGCAA
66 GAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
* * *
58127470 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATA
1 AAATTG-AAAACAAAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* *
58127535 TGAGTTGATTTTTGAAAAACAGAAATT-AAAAGCAG
65 TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
* *
58127570 AAATTGAAAACAAAAATTAAAAATACCTCGGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATAT
1 AAATTGAAAACAAAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
* *
58127635 GAGTTGATTTTTGAAAAGTATAAATTGAAA
66 GAGTTGATTTTTGAAAAGCAGAAATTGAAA
58127665 TTACCTCAGC
Statistics
Matches: 169, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
96 5 0.03
98 4 0.02
99 131 0.78
100 14 0.08
101 15 0.09
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (100 bp):
AAATTGAAAACAAAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
Found at i:58127705 original size:73 final size:74
Alignment explanation
Indices: 58127573--58127739 Score: 239
Period size: 73 Copynumber: 2.3 Consensus size: 74
58127563 AAAGCAGAAA
* * * *
58127573 TTGAAAA-CAAAAATTAAAAATACCTCGGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
58127637 GTTGA-TTT
66 GTTAATTTT
* * * *
58127645 TTGAAAAGTATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
58127710 GTTAATTTT
66 GTTAATTTT
58127719 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
58127740 AACGGAAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
72 7 0.09
73 53 0.65
74 22 0.27
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTTT
Found at i:58127831 original size:91 final size:89
Alignment explanation
Indices: 58127656--58127832 Score: 250
Period size: 91 Copynumber: 2.0 Consensus size: 89
58127646 TGAAAAGTAT
* * *
58127656 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTAATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTAATTTTTT
* *
58127721 GAAAAGCATAAATTGAAAAAACGG
66 GAAAAGCAGAAATTAAAAAAACGG
*
58127745 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCCCAACTCACCTCTCGCAATATGAGTT-AATTT
58127810 TTTG-AAAGACAGAAA-TAAAAAAA
63 TTTGAAAAG-CAGAAATTAAAAAAA
58127833 TCAAAATACC
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
89 22 0.28
91 43 0.55
92 13 0.17
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTAATTTTTT
GAAAAGCAGAAATTAAAAAAACGG
Found at i:58139786 original size:15 final size:15
Alignment explanation
Indices: 58139768--58139801 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58139758 TGATGTGAAT
58139768 AATATAAAATATTAA
1 AATATAAAATATTAA
* *
58139783 AATATCAAATATTAG
1 AATATAAAATATTAA
58139798 AATA
1 AATA
58139802 ATAATAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:58139980 original size:24 final size:23
Alignment explanation
Indices: 58139951--58140012 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
58139941 ACGTGATAAT
58139951 ATTAAAAATATATACACAATATA
1 ATTAAAAATATATACACAATATA
* * *
58139974 GTGTAAAAATACATACATAATATA
1 AT-TAAAAATATATACACAATATA
58139998 ATT-AAAATATATACA
1 ATTAAAAATATATACA
58140013 TAAGATAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 11 0.33
23 2 0.06
24 20 0.61
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACACAATATA
Found at i:58140044 original size:29 final size:29
Alignment explanation
Indices: 58140004--58140070 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
58139994 TATAATTAAA
*
58140004 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
58140033 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
58140062 ATACATAAA
1 ATATATAAA
58140071 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:58140061 original size:25 final size:24
Alignment explanation
Indices: 58140033--58140160 Score: 99
Period size: 23 Copynumber: 5.6 Consensus size: 24
58140023 TGTAAAATAT
*
58140033 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
58140058 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
58140081 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
58140105 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
*
58140127 A-ATAT--ATAATATAATATTAAG
1 ATATATACATAATATAGTATTAAG
*
58140148 AAATATA-ATAATA
1 ATATATACATAATA
58140161 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
20 9 0.11
21 4 0.05
22 11 0.13
23 38 0.46
24 4 0.05
25 17 0.20
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:58140138 original size:20 final size:21
Alignment explanation
Indices: 58140103--58140157 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
58140093 TATAGAATTT
*
58140103 AGAATATACCTAATATATTA-AA
1 AGAATATA--TAATATAATATAA
*
58140125 AGAATATATAATATAATATTA
1 AGAATATATAATATAATATAA
58140146 AGAA-ATATAATA
1 AGAATATATAATA
58140158 ATAACAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.57
21 5 0.17
22 8 0.27
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (21 bp):
AGAATATATAATATAATATAA
Found at i:58140681 original size:30 final size:30
Alignment explanation
Indices: 58140640--58140738 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
58140630 GAGGTATAAG
*
58140640 TGGTGGTGGAGCAAGTGTGGCTAGTAGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
58140670 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
58140700 TGATGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
58140730 TGGTGGTGG
1 TGGTGGTGG
58140739 CAAATGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.19, C:0.05, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:58140696 original size:18 final size:18
Alignment explanation
Indices: 58140645--58140698 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
58140635 ATAAGTGGTG
58140645 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
58140663 GT--AG--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
58140675 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
58140693 GTGGAG
1 GTGGAG
58140699 TTGATGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 2 0.07
14 5 0.18
16 5 0.18
17 2 0.07
18 10 0.36
ACGTcount: A:0.24, C:0.07, G:0.46, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:58141548 original size:17 final size:15
Alignment explanation
Indices: 58141508--58141540 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
58141498 TCATTTCGCT
58141508 TTTATATTGTTATTA
1 TTTATATTGTTATTA
58141523 TTT-TATTGTTATTA
1 TTTATATTGTTATTA
58141537 TTTA
1 TTTA
58141541 GATATTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTATATTGTTATTA
Found at i:58144751 original size:22 final size:23
Alignment explanation
Indices: 58144693--58144752 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
58144683 TTCTGTAATT
*
58144693 TAAAAAA-AATATTATTTTTACA
1 TAAAAAATAAAATTATTTTTACA
*
58144715 TAATAAAAATTAAATTATTTTTA-A
1 T-A-AAAAATAAAATTATTTTTACA
58144739 TAAAAAATAAAATT
1 TAAAAAATAAAATT
58144753 TTGGATATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 12 0.38
23 2 0.06
24 7 0.22
25 11 0.34
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAAAATAAAATTATTTTTACA
Found at i:58147066 original size:29 final size:31
Alignment explanation
Indices: 58147034--58147098 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 31
58147024 AATCTATATA
*
58147034 TTTATAATTTTTAAGGGA-T-AAATTAAATT
1 TTTATAATTTTTAAGGGACTAAAAATAAATT
*
58147063 TTTATTATTTTTAAGGGACTAAAAATAAATT
1 TTTATAATTTTTAAGGGACTAAAAATAAATT
58147094 TTTAT
1 TTTAT
58147099 TTTTACTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 17 0.53
30 1 0.03
31 14 0.44
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (31 bp):
TTTATAATTTTTAAGGGACTAAAAATAAATT
Found at i:58150837 original size:20 final size:20
Alignment explanation
Indices: 58150812--58150851 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58150802 AGGTGAGTTG
58150812 AATCCAAATAGAATATCATA
1 AATCCAAATAGAATATCATA
58150832 AATCCAAATAGAATATCATA
1 AATCCAAATAGAATATCATA
58150852 CTTAAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (20 bp):
AATCCAAATAGAATATCATA
Found at i:58152799 original size:16 final size:16
Alignment explanation
Indices: 58152778--58152816 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
58152768 CAAAATAAAT
*
58152778 TAAACTTGAAATGATC
1 TAAACTCGAAATGATC
* *
58152794 TGAACTCGAATTGATC
1 TAAACTCGAAATGATC
58152810 TAAACTC
1 TAAACTC
58152817 AAAACAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAACTCGAAATGATC
Found at i:58154111 original size:12 final size:12
Alignment explanation
Indices: 58154079--58154117 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
58154069 AGAACAGCAA
* *
58154079 TTTCAATTGTTG
1 TTTCAATTTTTT
58154091 TTTCAATTTTTT
1 TTTCAATTTTTT
58154103 TTTCAATTTTTT
1 TTTCAATTTTTT
58154115 TTT
1 TTT
58154118 ATTTAGGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (12 bp):
TTTCAATTTTTT
Found at i:58154263 original size:19 final size:19
Alignment explanation
Indices: 58154239--58154300 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
58154229 GAGTACTTTA
58154239 TTATTTATTTACGTTCAAT
1 TTATTTATTTACGTTCAAT
* *
58154258 TTATTT-TTTCCAGTTTAA-
1 TTATTTATTTAC-GTTCAAT
58154276 TTATTTATTTACGTTCAAT
1 TTATTTATTTACGTTCAAT
58154295 TTATTT
1 TTATTT
58154301 TTTCCAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 15 0.42
19 21 0.58
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.61
Consensus pattern (19 bp):
TTATTTATTTACGTTCAAT
Found at i:58154281 original size:18 final size:19
Alignment explanation
Indices: 58154255--58154311 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
58154245 ATTTACGTTC
58154255 AATTTATTTTTTCCAGTTT
1 AATTTATTTTTTCCAGTTT
* *
58154274 AA-TTATTTATTTAC-GTTC
1 AATTTATTT-TTTCCAGTTT
*
58154292 AATTTATTTTTTCCAATTT
1 AATTTATTTTTTCCAGTTT
58154311 A
1 A
58154312 TCTTAACGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.60
Consensus pattern (19 bp):
AATTTATTTTTTCCAGTTT
Found at i:58154288 original size:37 final size:37
Alignment explanation
Indices: 58154238--58154311 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
58154228 TGAGTACTTT
*
58154238 ATTATTTATTTACGTTCAATTTATTTTTTCCAGTTTA
1 ATTATTTATTTACGTTCAATTTATTTTTTCCAATTTA
58154275 ATTATTTATTTACGTTCAATTTATTTTTTCCAATTTA
1 ATTATTTATTTACGTTCAATTTATTTTTTCCAATTTA
58154312 TCTTAACGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (37 bp):
ATTATTTATTTACGTTCAATTTATTTTTTCCAATTTA
Found at i:58155701 original size:26 final size:26
Alignment explanation
Indices: 58155647--58155703 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
58155637 TTTTTATTTT
*
58155647 TATTTTTTAAAATATTTAAAATATTA
1 TATTTTTTAAAATATTTAAAATATCA
*
58155673 TATTTTTTAATAT-TATTAAACATA-CA
1 TATTTTTTAAAATAT-TTAAA-ATATCA
58155699 TATTT
1 TATTT
58155704 AATTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 23 0.85
27 3 0.11
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTTTTAAAATATTTAAAATATCA
Found at i:58155752 original size:22 final size:22
Alignment explanation
Indices: 58155727--58155768 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58155717 TGGTCATATA
58155727 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
58155749 ATAATTTATTATTTTAATAA
1 ATAAATTATTAATATAATAA
58155769 TTTATTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:58155806 original size:13 final size:14
Alignment explanation
Indices: 58155790--58155831 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
58155780 TTTCAATTTT
58155790 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
58155803 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
58155818 ATTTTAAATAATAT
1 ATTTT-AATAATAT
58155832 TATTCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:58155816 original size:16 final size:16
Alignment explanation
Indices: 58155794--58155830 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
58155784 AATTTTATTT
58155794 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
58155811 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
58155826 TAATA
1 TAATA
58155831 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:58155883 original size:15 final size:15
Alignment explanation
Indices: 58155863--58155919 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
58155853 ATTCAATATT
58155863 AATATTTTAATAATA
1 AATATTTTAATAATA
*
58155878 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
58155897 AATATATTAATAATA
1 AATATTTTAATAATA
*
58155912 AATGTTTT
1 AATATTTT
58155920 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:58159003 original size:15 final size:15
Alignment explanation
Indices: 58158978--58159014 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
58158968 TGGTTTTTTC
58158978 ATTTTTA-TTGAAAT
1 ATTTTTATTTGAAAT
*
58158992 ATTTTTATTTGATAT
1 ATTTTTATTTGAAAT
58159007 ATTTTTAT
1 ATTTTTAT
58159015 ACATGAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
ATTTTTATTTGAAAT
Found at i:58160578 original size:19 final size:20
Alignment explanation
Indices: 58160554--58160598 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
58160544 TTCTTGTCTG
58160554 AATTTTGT-T-TTAAAGACTT
1 AATTTTGTATGTTAAA-ACTT
58160573 AATTTT-TATGTTAAAACTT
1 AATTTTGTATGTTAAAACTT
58160592 AATTTTG
1 AATTTTG
58160599 GCGTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
AATTTTGTATGTTAAAACTT
Found at i:58161186 original size:37 final size:37
Alignment explanation
Indices: 58161145--58161220 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
58161135 ATCGGGTATG
*
58161145 AATTTTGATCTTTCAAATATGTGAATAAATCTAGAGA
1 AATTTTAATCTTTCAAATATGTGAATAAATCTAGAGA
*
58161182 AATTTTAATTTTTCAAATATGTGAATAAATCTAGAGA
1 AATTTTAATCTTTCAAATATGTGAATAAATCTAGAGA
58161219 AA
1 AA
58161221 ATTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (37 bp):
AATTTTAATCTTTCAAATATGTGAATAAATCTAGAGA
Found at i:58164076 original size:25 final size:24
Alignment explanation
Indices: 58164042--58164115 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
58164032 GGTTTCTTGA
*
58164042 TTTTTTTTTGGGGTTAGGTTTTTC
1 TTTTTTTTTTGGGTTAGGTTTTTC
58164066 TTTTTTTTTTGGGTTAGGTTTTTTC
1 TTTTTTTTTTGGGTTAGG-TTTTTC
**
58164091 TTTCTTTTTTTTTAGTTAGGTTTTT
1 -TT-TTTTTTTTGGGTTAGGTTTTT
58164116 TTTGGGAGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 17 0.39
25 6 0.14
26 7 0.16
27 14 0.32
ACGTcount: A:0.05, C:0.04, G:0.19, T:0.72
Consensus pattern (24 bp):
TTTTTTTTTTGGGTTAGGTTTTTC
Found at i:58164116 original size:27 final size:25
Alignment explanation
Indices: 58164042--58164116 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 25
58164032 GGTTTCTTGA
* *
58164042 TTTTTTTTTGGGGTTAGG-TTTTTC
1 TTTTTTTTTTGAGTTAGGTTTTTTC
*
58164066 TTTTTTTTTTGGGTTAGGTTTTTTC
1 TTTTTTTTTTGAGTTAGGTTTTTTC
*
58164091 TTTCTTTTTTTTTAGTTAGGTTTTTT
1 -TT-TTTTTTTTGAGTTAGGTTTTTT
58164117 TTGGGAGGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 17 0.38
25 6 0.13
26 2 0.04
27 20 0.44
ACGTcount: A:0.05, C:0.04, G:0.19, T:0.72
Consensus pattern (25 bp):
TTTTTTTTTTGAGTTAGGTTTTTTC
Found at i:58168042 original size:14 final size:16
Alignment explanation
Indices: 58168025--58168056 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58168015 CCCAAAAAAA
58168025 TTATAA-TTA-AAATC
1 TTATAATTTACAAATC
58168039 TTATAATTTACAAATC
1 TTATAATTTACAAATC
58168055 TT
1 TT
58168057 TTCTTTAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATAATTTACAAATC
Found at i:58170485 original size:17 final size:17
Alignment explanation
Indices: 58170463--58170498 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
58170453 TTGAAAACCG
58170463 TGCTAGATAAATACACA
1 TGCTAGATAAATACACA
*
58170480 TGCTAGATAAATACCCA
1 TGCTAGATAAATACACA
58170497 TG
1 TG
58170499 TTCAAGACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (17 bp):
TGCTAGATAAATACACA
Found at i:58172392 original size:21 final size:20
Alignment explanation
Indices: 58172366--58172404 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
58172356 AATATATATA
*
58172366 TATTAAAATATATGTAAAAAT
1 TATTAAAAT-TATATAAAAAT
58172387 TATTAAAATTATATAAAA
1 TATTAAAATTATATAAAA
58172405 TACTCTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TATTAAAATTATATAAAAAT
Found at i:58194712 original size:18 final size:17
Alignment explanation
Indices: 58194689--58194734 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
58194679 ATTAGAAAAT
58194689 TATTTTTTTATAAATAAG
1 TATTTTTTTATAAAT-AG
*
58194707 TATTTTGTTTATAACTAG
1 TATTTT-TTTATAAATAG
58194725 TATATTTTTT
1 TAT-TTTTTT
58194735 TTATAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (17 bp):
TATTTTTTTATAAATAG
Found at i:58195818 original size:21 final size:21
Alignment explanation
Indices: 58195794--58195835 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
58195784 TTATAATGTT
58195794 CATTTTTATATTAATAATATG
1 CATTTTTATATTAATAATATG
58195815 CATTTTTATATTAATAATATG
1 CATTTTTATATTAATAATATG
58195836 TAAACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
CATTTTTATATTAATAATATG
Found at i:58197040 original size:21 final size:20
Alignment explanation
Indices: 58197016--58197057 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
58197006 AAATAAAGTA
58197016 AATAATGAC-AATGATAACAAT
1 AATAAT-ACTAATGATAA-AAT
58197037 AATAATACTAATGATAAAAT
1 AATAATACTAATGATAAAAT
58197057 A
1 A
58197058 TGCACATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (20 bp):
AATAATACTAATGATAAAAT
Found at i:58199753 original size:69 final size:69
Alignment explanation
Indices: 58199635--58199774 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 69
58199625 CTAAAATTGA
58199635 ATGATATTACATGCTTTTAGGGGTTAATGTGTAAATTTGTCACTATATTTCACTTTGCTTGATTT
1 ATGATATTACATGCTTTTAGGGGTTAATGTGTAAATTTGTCACTATATTTCACTTTGCTTGATTT
58199700 TTGT
66 TTGT
* * * *
58199704 ATGATTTTACATGTTTTTAGGGGTTAATGTGTAAATTTGTCATTGTATTTCACTTTGCTTGATTT
1 ATGATATTACATGCTTTTAGGGGTTAATGTGTAAATTTGTCACTATATTTCACTTTGCTTGATTT
58199769 TTGT
66 TTGT
58199773 AT
1 AT
58199775 TCGTACTTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (69 bp):
ATGATATTACATGCTTTTAGGGGTTAATGTGTAAATTTGTCACTATATTTCACTTTGCTTGATTT
TTGT
Found at i:58200938 original size:22 final size:23
Alignment explanation
Indices: 58200913--58200959 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
58200903 ATTTAGTACC
58200913 TAAGTTTTTACAC-GTTTTTTAA
1 TAAGTTTTTACACTGTTTTTTAA
*
58200935 TAAGTTTTTACACTTTTTTTTAA
1 TAAGTTTTTACACTGTTTTTTAA
58200958 TA
1 TA
58200960 TGGTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (23 bp):
TAAGTTTTTACACTGTTTTTTAA
Found at i:58203155 original size:16 final size:16
Alignment explanation
Indices: 58203134--58203169 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
58203124 TCAAAAAGGG
58203134 AAATGAAAATGAAAAA
1 AAATGAAAATGAAAAA
*
58203150 AAATGAAAATGAAAAG
1 AAATGAAAATGAAAAA
58203166 AAAT
1 AAAT
58203170 TTTATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATGAAAATGAAAAA
Found at i:58203929 original size:71 final size:71
Alignment explanation
Indices: 58203813--58203956 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 71
58203803 ATGATTTCAT
** * * * *
58203813 ACATATTTGTTGGTTTTACCGACCAGCATAGGGCGCATTTATTGTCGGTTATACCAACTAGTGCT
1 ACATATTTGCCGGTTCTACCGACCAACATAGGGCGCATTTATTGTCAGTTATACCAACCAGTGCT
*
58203878 GGGCAC
66 AGGCAC
* *
58203884 ACATATTTGCCGGTTCTACCGACCAACTTAGGGCGCATTTATTGTCAGTTATACCGACCAGTGCT
1 ACATATTTGCCGGTTCTACCGACCAACATAGGGCGCATTTATTGTCAGTTATACCAACCAGTGCT
58203949 AGGCAC
66 AGGCAC
58203955 AC
1 AC
58203957 TAATTGTTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (71 bp):
ACATATTTGCCGGTTCTACCGACCAACATAGGGCGCATTTATTGTCAGTTATACCAACCAGTGCT
AGGCAC
Found at i:58205372 original size:132 final size:126
Alignment explanation
Indices: 58205136--58205388 Score: 312
Period size: 132 Copynumber: 1.9 Consensus size: 126
58205126 TAACATATTA
* **
58205136 GTTAGATGGTTAGATAGTTGCAATTACATCATTGAGTCTCAAGTTTGATTCTTCTTTTACTCATA
1 GTTAGATGGTTAGATAGTTGCAATTACATCATTGAGTCTCAAGTTTGATTCCTCTACTACTCATA
* *
58205201 TTTTTTTTTCATGTTGCTTCAAGCTTTTTAACATTTTAATTAATGATTTTTAACATATTAGTTTT
66 TTTTTTTTTCACGTTGCTTCAAG--TTTT---ATTTTAATCAAT-ATTTTTAACATATTAGTTTT
58205266 TT
125 TT
* *
58205268 GTTAGATGGTTAGATAGTTGTAATTACATCATTGAGTCTCGAGTTTGATTCCTCTACTACTCGCA
1 GTTAGATGGTTAGATAGTTGCAATTACATCATTGAGTCTCAAGTTTGATTCCTCTACTACT--CA
58205333 TTTGTATTTTTTATTTCACGTTGCTTCAAG-TTT-TTTTAATCAATATTTTTAACATA
64 ----TATTTTTT-TTTCACGTTGCTTCAAGTTTTATTTTAATCAATATTTTTAACATA
58205389 CTAGCTCTGT
Statistics
Matches: 107, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
131 12 0.11
132 66 0.62
134 2 0.02
136 3 0.03
138 8 0.07
139 16 0.15
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (126 bp):
GTTAGATGGTTAGATAGTTGCAATTACATCATTGAGTCTCAAGTTTGATTCCTCTACTACTCATA
TTTTTTTTTCACGTTGCTTCAAGTTTTATTTTAATCAATATTTTTAACATATTAGTTTTTT
Found at i:58206543 original size:25 final size:27
Alignment explanation
Indices: 58206509--58206567 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
58206499 GTAGAAAGGG
58206509 TTTAAAATAAGCT-ATATA-AAAT-AAT
1 TTTAAAATAAG-TAATATATAAATCAAT
*
58206534 TTTAAAATAAGTAATATATAAGTCAAT
1 TTTAAAATAAGTAATATATAAATCAAT
58206561 TTTAAAA
1 TTTAAAA
58206568 ATAATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 16 0.53
26 3 0.10
27 10 0.33
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.37
Consensus pattern (27 bp):
TTTAAAATAAGTAATATATAAATCAAT
Found at i:58211128 original size:26 final size:26
Alignment explanation
Indices: 58211098--58211153 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
58211088 TGAAATTCCC
*
58211098 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58211124 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58211150 ATCA
1 ATCA
58211154 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58211679 original size:16 final size:16
Alignment explanation
Indices: 58211658--58211712 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
58211648 TTGATGATAT
58211658 TTTTTAATTATTTTTA
1 TTTTTAATTATTTTTA
58211674 TTTTTAATTAATTAATTTTTTA
1 --TTT--TTAATT-A-TTTTTA
58211696 TTTTTAATTATTTTTA
1 TTTTTAATTATTTTTA
58211712 T
1 T
58211713 AATCATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 7 0.21
17 1 0.03
18 9 0.27
20 9 0.27
21 1 0.03
22 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTAATTATTTTTA
Found at i:58211696 original size:22 final size:20
Alignment explanation
Indices: 58211627--58211705 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 20
58211617 TTTCAATCTT
58211627 TTTTTATTTTTAATTAATGT-
1 TTTTTATTTTTAATTAAT-TA
*
58211647 TTTGATGATATTTT--TTAATTA
1 TTT--TTAT-TTTTAATTAATTA
58211668 TTTTTATTTTTAATTAATTAA
1 TTTTTATTTTTAATTAATT-A
58211689 TTTTTTATTTTTAATTA
1 -TTTTTATTTTTAATTA
58211706 TTTTTATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
18 4 0.08
19 3 0.06
20 10 0.20
21 9 0.18
22 19 0.39
23 4 0.08
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTTATTTTTAATTAATTA
Found at i:58212009 original size:6 final size:6
Alignment explanation
Indices: 58212000--58212034 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
58211990 AAACACAGAC
* *
58212000 ACACAG ACACAG ACACAG ACACAT ACACAC ACACA
1 ACACAG ACACAG ACACAG ACACAG ACACAG ACACA
58212035 CATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.51, C:0.37, G:0.09, T:0.03
Consensus pattern (6 bp):
ACACAG
Found at i:58212011 original size:14 final size:14
Alignment explanation
Indices: 58211992--58212036 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
58211982 CCAAAAAAAA
58211992 ACACAGACACACAG
1 ACACAGACACACAG
58212006 ACACAG--ACACAG
1 ACACAGACACACAG
* *
58212018 ACACATACACACAC
1 ACACAGACACACAG
58212032 ACACA
1 ACACA
58212037 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.51, C:0.38, G:0.09, T:0.02
Consensus pattern (14 bp):
ACACAGACACACAG
Found at i:58213188 original size:32 final size:32
Alignment explanation
Indices: 58213152--58213230 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
58213142 TTAGAGAATT
* *
58213152 ATTGAGATTTTTTAAAAATACCGGAAGGTTTG
1 ATTGAGAATTTTTAAAAATACCGGAAGGCTTG
* ***
58213184 ATTGA-AATTTTTAAAACTTTTGGAAGGCTTG
1 ATTGAGAATTTTTAAAAATACCGGAAGGCTTG
58213215 ATT-AGAATTTTTAAAA
1 ATTGAGAATTTTTAAAA
58213231 GTTTTAAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 1 0.03
31 34 0.85
32 5 0.12
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.41
Consensus pattern (32 bp):
ATTGAGAATTTTTAAAAATACCGGAAGGCTTG
Found at i:58214495 original size:4 final size:4
Alignment explanation
Indices: 58214486--58214511 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
58214476 TTTTTGTGTA
58214486 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
58214512 TTGTTGGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:58216609 original size:19 final size:18
Alignment explanation
Indices: 58216565--58216619 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
58216555 TTAAATTCTC
58216565 ATTTTTTATAATTTATTT
1 ATTTTTTATAATTTATTT
**
58216583 -TGAATTTATATATTTATTT
1 AT-TTTTTATA-ATTTATTT
58216602 ATTTTTTATAATTT-TTT
1 ATTTTTTATAATTTATTT
58216619 A
1 A
58216620 CGTAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.17
18 10 0.33
19 14 0.47
20 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTTTTATAATTTATTT
Found at i:58219825 original size:24 final size:24
Alignment explanation
Indices: 58219796--58219879 Score: 80
Period size: 24 Copynumber: 3.3 Consensus size: 24
58219786 ATAAATTTAA
58219796 TTATTAATACTATTAAAATTTCTT
1 TTATTAATACTATTAAAATTTCTT
* * *
58219820 TTATTAAATTCAAGTTAATTACAATTTC-A
1 TTATT-AA-T--A-CT-ATTAAAATTTCTT
58219849 TTATTAATACTATTAAAATTTCTT
1 TTATTAATACTATTAAAATTTCTT
58219873 TTATTAA
1 TTATTAA
58219880 ATTAAAGTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
23 10 0.21
24 13 0.28
25 3 0.06
26 1 0.02
27 1 0.02
28 3 0.06
29 6 0.13
30 10 0.21
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (24 bp):
TTATTAATACTATTAAAATTTCTT
Found at i:58219846 original size:30 final size:29
Alignment explanation
Indices: 58219807--58219909 Score: 92
Period size: 30 Copynumber: 3.7 Consensus size: 29
58219797 TATTAATACT
58219807 ATTAAAATTTCTTTTATTAAATTCAAGTTA
1 ATTAAAATTTCTTTTATTAAATT-AAGTTA
* * *
58219837 ATTACAATTTC-ATTATT-AA-T-A-CT-
1 ATTAAAATTTCTTTTATTAAATTAAGTTA
58219860 ATTAAAATTTCTTTTATTAAATTAAAGTTA
1 ATTAAAATTTCTTTTATTAAATT-AAGTTA
* * *
58219890 ATTACAATGTCTTTTTTTAA
1 ATTAAAATTTCTTTTATTAA
58219910 TTATATAGCT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
23 10 0.18
24 6 0.11
25 3 0.05
26 1 0.02
27 1 0.02
28 3 0.05
29 6 0.11
30 27 0.47
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (29 bp):
ATTAAAATTTCTTTTATTAAATTAAGTTA
Found at i:58219855 original size:53 final size:53
Alignment explanation
Indices: 58219789--58219897 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
58219779 TAAAAATATA
*
58219789 AATTTAATTATTAATACTATTAAAATTTCTTTTATTAAATTCAAGTTAATTAC
1 AATTTAATTATTAATACTATTAAAATTTCTTTTATTAAATTAAAGTTAATTAC
*
58219842 AATTTCATTATTAATACTATTAAAATTTCTTTTATTAAATTAAAGTTAATTAC
1 AATTTAATTATTAATACTATTAAAATTTCTTTTATTAAATTAAAGTTAATTAC
58219895 AAT
1 AAT
58219898 GTCTTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (53 bp):
AATTTAATTATTAATACTATTAAAATTTCTTTTATTAAATTAAAGTTAATTAC
Found at i:58219883 original size:29 final size:29
Alignment explanation
Indices: 58219798--58219884 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 29
58219788 AAATTTAATT
58219798 ATTAATACTATTAAAATTTCTTTTATTAA
1 ATTAATACTATTAAAATTTCTTTTATTAA
*
58219827 ATTCAAGT--TAATTACAATTTC----ATT--
1 ATT-AA-TACT-ATTAAAATTTCTTTTATTAA
58219851 ATTAATACTATTAAAATTTCTTTTATTAA
1 ATTAATACTATTAAAATTTCTTTTATTAA
58219880 ATTAA
1 ATTAA
58219885 AGTTAATTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 22
0.65 0.03 0.32
Matches are distributed among these distances:
22 1 0.02
23 12 0.27
24 4 0.09
26 3 0.07
27 3 0.07
29 9 0.20
30 12 0.27
31 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTAATACTATTAAAATTTCTTTTATTAA
Found at i:58219957 original size:16 final size:16
Alignment explanation
Indices: 58219936--58219968 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58219926 TATTTTTCTT
58219936 AATTTTAAAATATTGC
1 AATTTTAAAATATTGC
58219952 AATTTTAAAATATTGC
1 AATTTTAAAATATTGC
58219968 A
1 A
58219969 TCAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
AATTTTAAAATATTGC
Found at i:58221815 original size:22 final size:21
Alignment explanation
Indices: 58221752--58221817 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 21
58221742 TCACGTCAAT
*
58221752 AAATAATTAAAAAAT-TATAA
1 AAATATTTAAAAAATATATAA
*
58221772 AAATATTTAAAAAATA-AAATA
1 AAATATTTAAAAAATATATA-A
58221793 AAATGATTTTAAAAAATATATAA
1 AAAT-A-TTTAAAAAATATATAA
58221816 AA
1 AA
58221818 GTTTATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 16 0.42
21 5 0.13
22 1 0.03
23 14 0.37
24 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATATTTAAAAAATATATAA
Found at i:58223489 original size:30 final size:31
Alignment explanation
Indices: 58223455--58223512 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
58223445 ATTATTATAT
*
58223455 AAATTATAAAT-T-TAATTATTGAAAATAAAC
1 AAATTAAAAATGTCTAATTA-TGAAAATAAAC
*
58223485 AAATTAAAAATGTCTTATTATGAAAATA
1 AAATTAAAAATGTCTAATTATGAAAATA
58223513 TAGCTTACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.42
31 9 0.38
32 5 0.21
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (31 bp):
AAATTAAAAATGTCTAATTATGAAAATAAAC
Found at i:58224974 original size:16 final size:16
Alignment explanation
Indices: 58224949--58224979 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58224939 ATAGATCATT
*
58224949 AAAATTTTAAAAATTA
1 AAAATATTAAAAATTA
58224965 AAAATATTAAAAATT
1 AAAATATTAAAAATT
58224980 TAGTTCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATATTAAAAATTA
Found at i:58232762 original size:17 final size:16
Alignment explanation
Indices: 58232723--58232771 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
58232713 TTAATAATTA
*
58232723 AATTTAATTAAAAAAG
1 AATTAAATTAAAAAAG
58232739 AATTAAATTAACAAAAG
1 AATTAAATTAA-AAAAG
*
58232756 ATATAAATATTAAAAA
1 A-ATTAA-ATTAAAAA
58232772 TTAAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 10 0.36
17 6 0.21
18 7 0.25
19 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (16 bp):
AATTAAATTAAAAAAG
Found at i:58232767 original size:19 final size:16
Alignment explanation
Indices: 58232728--58232771 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
58232718 AATTAAATTT
*
58232728 AATTAAAAAAGAATTA
1 AATTAAAAAAGAATAA
58232744 AATTAACAAAAGATATAA
1 AATTAA-AAAAGA-ATAA
58232762 ATATTAAAAA
1 A-ATTAAAAA
58232772 TTAAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.25
17 6 0.25
18 7 0.29
19 5 0.21
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (16 bp):
AATTAAAAAAGAATAA
Found at i:58233387 original size:18 final size:18
Alignment explanation
Indices: 58233356--58233390 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58233346 TCATTATAGC
* *
58233356 TATGTTTATGAATTTTGA
1 TATGTATATAAATTTTGA
58233374 TATGTATATAAATTTTG
1 TATGTATATAAATTTTG
58233391 TTGTTTTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
TATGTATATAAATTTTGA
Found at i:58240466 original size:35 final size:35
Alignment explanation
Indices: 58240424--58240555 Score: 144
Period size: 35 Copynumber: 3.8 Consensus size: 35
58240414 TCGGTTAGAG
* *
58240424 TAGCTCTTATGAGCATTAGTGTACTTCGGAGGGAT
1 TAGCTCTTATGAGCATTGGTGTGCTTCGGAGGGAT
* ** *
58240459 TATCTCTTACAAGCATTGGTGTGTTTCGGAGGGAT
1 TAGCTCTTATGAGCATTGGTGTGCTTCGGAGGGAT
* * *
58240494 TAGCTTTTATGAGCA---GTGTGTTTCGGATGGAT
1 TAGCTCTTATGAGCATTGGTGTGCTTCGGAGGGAT
*
58240526 TGGCTCTTATGAGCATCTGGTGTGCTTCGG
1 TAGCTCTTATGAGCAT-TGGTGTGCTTCGG
58240556 TTGGATTGTT
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
32 29 0.37
35 40 0.51
36 10 0.13
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.37
Consensus pattern (35 bp):
TAGCTCTTATGAGCATTGGTGTGCTTCGGAGGGAT
Found at i:58240958 original size:26 final size:26
Alignment explanation
Indices: 58240924--58240996 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 26
58240914 ATTTCGAGCC
* *
58240924 ATAATCAATAAGCTCCTCTTGAGCTG
1 ATAAACAATAAGCTCCTATTGAGCTG
*
58240950 ATAAACAATAAGCT-TTATTGAGCTG
1 ATAAACAATAAGCTCCTATTGAGCTG
* *
58240975 --AAACGATAAGCT-CTATCGAGCT
1 ATAAACAATAAGCTCCTATTGAGCT
58240997 AAACAGTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.46
25 9 0.22
26 13 0.32
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (26 bp):
ATAAACAATAAGCTCCTATTGAGCTG
Found at i:58241006 original size:22 final size:23
Alignment explanation
Indices: 58240952--58241031 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
58240942 TTGAGCTGAT
* * *
58240952 AAACAATAAGCTTTATTGAGCTG
1 AAACAGTAAGCTCTATCGAGCTG
58240975 AAAC-GATAAGCTCTATCGAGCT-
1 AAACAG-TAAGCTCTATCGAGCTG
58240997 AAACAGTAAGCTC-ATACGAGCTG
1 AAACAGTAAGCTCTAT-CGAGCTG
*
58241020 AAACGGTAAGCT
1 AAACAGTAAGCT
58241032 TCAGCTGTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.04
22 17 0.35
23 30 0.61
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (23 bp):
AAACAGTAAGCTCTATCGAGCTG
Found at i:58245530 original size:37 final size:37
Alignment explanation
Indices: 58245488--58245579 Score: 141
Period size: 37 Copynumber: 2.5 Consensus size: 37
58245478 TTGTTATTAA
*
58245488 ATTTTAATA-AGATTATTATTAAAAATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAAAAATAATTTAATAAT
*
58245525 ATTTTAATATAATTATTATTAAATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAAT
58245562 ATTTTTAATATAATTATT
1 A-TTTTAATATAATTATT
58245580 TTTATATTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
37 34 0.67
38 17 0.33
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (37 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAAT
Found at i:58245609 original size:25 final size:25
Alignment explanation
Indices: 58245579--58245631 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 25
58245569 ATATAATTAT
58245579 TTTTATATT-AAATTATATTAAAATA
1 TTTTAT-TTCAAATTATATTAAAATA
58245604 TTTTATTTCAAATTATATTAAAATA
1 TTTTATTTCAAATTATATTAAAATA
58245629 TTT
1 TTT
58245632 CAAAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTATTTCAAATTATATTAAAATA
Found at i:58251154 original size:13 final size:13
Alignment explanation
Indices: 58251136--58251161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58251126 CACTTGATAA
58251136 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
58251149 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
58251162 TATTCTCATA
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:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GGTTTCCTAAAAG
Found at i:58251668 original size:5 final size:5
Alignment explanation
Indices: 58251658--58251685 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
58251648 GGAAATTGAG
58251658 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
58251686 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:58256176 original size:5 final size:5
Alignment explanation
Indices: 58256166--58256199 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
58256156 CCAATTTGAG
58256166 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAA
58256200 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:58263276 original size:264 final size:264
Alignment explanation
Indices: 58262805--58263338 Score: 960
Period size: 264 Copynumber: 2.0 Consensus size: 264
58262795 GAGTCATGAG
58262805 ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
1 ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
* **
58262870 TTTTCTTTTTTTGATCCTACTGCTTGTTACTCTCTCTTATCTCAGACTCTTCTGTCTGATTACTG
66 TTTTCTTTTTTCGATCCTACTGCTTGTTACTCTCTCCCATCTCAGACTCTTCTGTCTGATTACTG
* *
58262935 TTTTTAGAAGAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACCGTTACCTCTGTTATT
131 TTTTTAGAACAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACCGTTACCTCTGCTATT
*
58263000 ATCCACTACATTGTCATTTGTGGTCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
196 ATCCACTACATTGTCATTTGTGGCCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
58263065 ATTA
261 ATTA
58263069 ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
1 ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
* *
58263134 TTTTCTTTTTTCGATCCTACTGCTTGTTACTCTTTCCCATCTCAGACTCTTCTGTCTGATTATTG
66 TTTTCTTTTTTCGATCCTACTGCTTGTTACTCTCTCCCATCTCAGACTCTTCTGTCTGATTACTG
*
58263199 TTTTTAGAACAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACTGTTACCTCTGCTATT
131 TTTTTAGAACAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACCGTTACCTCTGCTATT
**
58263264 ATCCTTTACATTGTCATTTGTGGCCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
196 ATCCACTACATTGTCATTTGTGGCCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
58263329 ATTA
261 ATTA
*
58263333 AATTTG
1 ATTTTG
58263339 GTGGCAGACA
Statistics
Matches: 258, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
264 258 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (264 bp):
ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
TTTTCTTTTTTCGATCCTACTGCTTGTTACTCTCTCCCATCTCAGACTCTTCTGTCTGATTACTG
TTTTTAGAACAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACCGTTACCTCTGCTATT
ATCCACTACATTGTCATTTGTGGCCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
ATTA
Found at i:58268609 original size:14 final size:14
Alignment explanation
Indices: 58268590--58268621 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
58268580 ATAACTCTCT
58268590 AAATTTTGAAATGA
1 AAATTTTGAAATGA
58268604 AAATTTTGAAATGA
1 AAATTTTGAAATGA
58268618 AAAT
1 AAAT
58268622 ATATCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (14 bp):
AAATTTTGAAATGA
Found at i:58271504 original size:37 final size:37
Alignment explanation
Indices: 58271454--58271530 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
58271444 AAATTCGAGA
58271454 GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
1 GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
58271491 GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
1 GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
58271528 GTT
1 GTT
58271531 CTTATTTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (37 bp):
GTTAAATTTTGTTTTAGTTTGAAGTTTATAACAATAT
Found at i:58271964 original size:36 final size:36
Alignment explanation
Indices: 58271917--58271988 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
58271907 TTAAAAGTGG
*
58271917 GCAAATAAGGACAATTAGTTATGACCTTAATTTTTT
1 GCAAATAAGGACAATTAATTATGACCTTAATTTTTT
*
58271953 GCAAATAAGGACAATTAATTATGACGTTAATTTTTT
1 GCAAATAAGGACAATTAATTATGACCTTAATTTTTT
58271989 TTCTGTCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (36 bp):
GCAAATAAGGACAATTAATTATGACCTTAATTTTTT
Found at i:58272127 original size:51 final size:51
Alignment explanation
Indices: 58272066--58272187 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
58272056 ATGTAAATGT
* *
58272066 TGACAG-ATGTGTAAATTTTGCAGGTTAAATTTGTTAAATCAGAATCAAGC
1 TGACAGAATGTGTAAATTTTGCAGGTTAAATTTGTTAAATCAAAATCAAAC
* * * *
58272116 TGACAGAATGTGTAAATGTTGCAGGTTAAATTTGTTAAATTAAAATTAAAT
1 TGACAGAATGTGTAAATTTTGCAGGTTAAATTTGTTAAATCAAAATCAAAC
*
58272167 TGACAAAATGTGTAAATTTTG
1 TGACAGAATGTGTAAATTTTG
58272188 AGGGCAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 6 0.10
51 57 0.90
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (51 bp):
TGACAGAATGTGTAAATTTTGCAGGTTAAATTTGTTAAATCAAAATCAAAC
Found at i:58274635 original size:27 final size:26
Alignment explanation
Indices: 58274573--58274644 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
58274563 GCTCTAATTG
*
58274573 GATTAAGAAAATATTTTATATTTTTAA
1 GATTAA-AAAATATTTTTTATTTTTAA
**
58274600 TCTTCAAAAAATATTTTTTATTTTTAA
1 GATT-AAAAAATATTTTTTATTTTTAA
*
58274627 GATTAAAAAATCTTTTTT
1 GATTAAAAAATATTTTTT
58274645 CAAAAGTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.34
27 23 0.61
28 2 0.05
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (26 bp):
GATTAAAAAATATTTTTTATTTTTAA
Found at i:58291237 original size:19 final size:20
Alignment explanation
Indices: 58291215--58291252 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58291205 TAACAAAATT
58291215 AATAAAAG-AAAAAATATAC
1 AATAAAAGTAAAAAATATAC
* *
58291234 AATAACAGTAAAAGATATA
1 AATAAAAGTAAAAAATATA
58291253 ATATAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.18
Consensus pattern (20 bp):
AATAAAAGTAAAAAATATAC
Found at i:58291935 original size:31 final size:31
Alignment explanation
Indices: 58291872--58291935 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
58291862 ATATTTTTAT
* *
58291872 AAAATTAAATTATAAAATTTTGAAGGACCAA
1 AAAATTAAATTATAAAATTTTAAAAGACCAA
* *
58291903 AAAATTAAATT-TTAAATTTTAAAAAGAGCAA
1 AAAATTAAATTATAAAATTTT-AAAAGACCAA
58291934 AA
1 AA
58291936 TAAAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.30
Consensus pattern (31 bp):
AAAATTAAATTATAAAATTTTAAAAGACCAA
Found at i:58296766 original size:14 final size:14
Alignment explanation
Indices: 58296732--58296770 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
58296722 ACTCCCACTG
*
58296732 ATATATACATACAC
1 ATATATATATACAC
*
58296746 ATATATATATACAT
1 ATATATATATACAC
*
58296760 ATGTATATATA
1 ATATATATATA
58296771 TTCTCCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATATATATACAC
Found at i:58311784 original size:21 final size:20
Alignment explanation
Indices: 58311746--58311801 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
58311736 TAAAAAATGA
* *
58311746 TAAA-TTAAATAATCATACAT
1 TAAATTTAAAAAATAATAC-T
58311766 TAAATTTAAAAAATAATACT
1 TAAATTTAAAAAATAATACT
58311786 T-AATTTAAAAAA-AATA
1 TAAATTTAAAAAATAATA
58311802 AACTTAACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.12
19 11 0.33
20 6 0.18
21 12 0.36
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAATTTAAAAAATAATACT
Found at i:58311806 original size:20 final size:24
Alignment explanation
Indices: 58311773--58311824 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
58311763 CATTAAATTT
58311773 AAAAAATAATACTTAA-T-T-TAA
1 AAAAAATAATACTTAACTATCTAA
58311794 AAAAAATAA-ACTTAACTATCTAA
1 AAAAAATAATACTTAACTATCTAA
58311817 AAAAAATA
1 AAAAAATA
58311825 TTTCAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.21
21 10 0.36
22 1 0.04
23 11 0.39
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAAAATAATACTTAACTATCTAA
Found at i:58315267 original size:21 final size:23
Alignment explanation
Indices: 58315241--58315283 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
58315231 TCATCTATAC
58315241 ATAATTAATTA-A-AAAAATAAG
1 ATAATTAATTATATAAAAATAAG
58315262 ATAATTAATTATATAAAAATAA
1 ATAATTAATTATATAAAAATAA
58315284 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.55
22 1 0.05
23 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAATTAATTATATAAAAATAAG
Found at i:58315473 original size:18 final size:19
Alignment explanation
Indices: 58315445--58315480 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
58315435 TAAAAATAAA
58315445 AAATATTAAAATTTAATTG
1 AAATATTAAAATTTAATTG
58315464 AAAT-TTAAAATTTAATT
1 AAATATTAAAATTTAATT
58315481 AATTAACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATATTAAAATTTAATTG
Found at i:58318630 original size:20 final size:21
Alignment explanation
Indices: 58318592--58318630 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
58318582 TGATTTGATT
58318592 AAATTTGTGATTAAATTAGTG
1 AAATTTGTGATTAAATTAGTG
*
58318613 AAATTTGT-ATTAATTTAG
1 AAATTTGTGATTAAATTAG
58318631 ATCAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (21 bp):
AAATTTGTGATTAAATTAGTG
Found at i:58318997 original size:43 final size:43
Alignment explanation
Indices: 58318909--58319023 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
58318899 TGTGATCACA
*
58318909 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTACG
** *
58318952 TGTAAGACCATGTCTGGGACATTGTTATCGTTAATT-A-ATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-T-ATTGAGATTACG
* * *
58318995 TGTAAGACCCTGTATGGGACAGTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
58319024 AATATGTGGT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 56 0.92
44 2 0.03
45 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTACG
Found at i:58320335 original size:46 final size:46
Alignment explanation
Indices: 58320158--58320339 Score: 242
Period size: 46 Copynumber: 4.0 Consensus size: 46
58320148 TTATCTTTGA
* * * *
58320158 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACT-CATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACA-TTTCATGT
* * *
58320204 CGTGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
* * *
58320250 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
58320296 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
58320340 TTCAAAGAGC
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 5 0.04
46 115 0.96
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATGT
Found at i:58322203 original size:11 final size:11
Alignment explanation
Indices: 58322187--58322242 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
58322177 CTTTATATAC
58322187 TAATAAAATAA
1 TAATAAAATAA
58322198 TAATAAAATAA
1 TAATAAAATAA
* * **
58322209 TGA-AATATCT
1 TAATAAAATAA
* *
58322219 TACTAAAATAT
1 TAATAAAATAA
58322230 TAATAAAATAA
1 TAATAAAATAA
58322241 TA
1 TA
58322243 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
10 5 0.15
11 29 0.85
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:58322258 original size:43 final size:41
Alignment explanation
Indices: 58322187--58322270 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 41
58322177 CTTTATATAC
*
58322187 TAATAAAATAATAATAAAATAATGAAATATCTTACTAAAATAT
1 TAATAAAATAATAATAAAATAATGAAATA-ATTA-TAAAATAT
* * ** *
58322230 TAATAAAATAATATTTATCTAATTAAATAATTATAAAATAT
1 TAATAAAATAATAATAAAATAATGAAATAATTATAAAATAT
58322271 CAAAATATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 8 0.23
42 3 0.09
43 24 0.69
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (41 bp):
TAATAAAATAATAATAAAATAATGAAATAATTATAAAATAT
Found at i:58327192 original size:14 final size:14
Alignment explanation
Indices: 58327175--58327202 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58327165 TAATTAATTA
58327175 GATAACATTATTTT
1 GATAACATTATTTT
58327189 GATAACATTATTTT
1 GATAACATTATTTT
58327203 ATTAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GATAACATTATTTT
Found at i:58327218 original size:25 final size:23
Alignment explanation
Indices: 58327183--58327237 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
58327173 TAGATAACAT
* *
58327183 TATTTTGATAACATTATTTTATTAA
1 TATTTTAATAACA-TATTTT-TGAA
*
58327208 TATTTTAATAAGATATTTTTGAA
1 TATTTTAATAACATATTTTTGAA
58327231 TATTTTA
1 TATTTTA
58327238 TTTAATTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (23 bp):
TATTTTAATAACATATTTTTGAA
Found at i:58328128 original size:36 final size:38
Alignment explanation
Indices: 58328081--58328173 Score: 109
Period size: 39 Copynumber: 2.5 Consensus size: 38
58328071 CAAAAAAGGT
* * *
58328081 TAGATCTCATTATAATC-CGAGAATCTGCAAC-AATGC
1 TAGATCTCATTATAATCTCAAGAATCTACAACAAATAC
**
58328117 TAGATCTCATTATGTTACTCAAGAATCTACAACAAATAC
1 TAGATCTCATTATAAT-CTCAAGAATCTACAACAAATAC
*
58328156 TAGATCTCGTTATAATCT
1 TAGATCTCATTATAATCT
58328174 ATAATAATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
36 14 0.30
37 1 0.02
38 14 0.30
39 17 0.37
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (38 bp):
TAGATCTCATTATAATCTCAAGAATCTACAACAAATAC
Found at i:58329179 original size:20 final size:16
Alignment explanation
Indices: 58329139--58329182 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
58329129 TTATACTATA
58329139 ATTAATCTTTAATTAC
1 ATTAATCTTTAATTAC
58329155 ATTAATCTTTAATTAC
1 ATTAATCTTTAATTAC
58329171 -TTAA-C-TTAATTA
1 ATTAATCTTTAATTA
58329183 ATTTAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.25
14 1 0.04
15 4 0.14
16 16 0.57
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATCTTTAATTAC
Found at i:58329636 original size:35 final size:35
Alignment explanation
Indices: 58329585--58329658 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
58329575 AACTCAAGAG
58329585 TTTAAATATCAAACTAGATTACGACAATGAAATAA
1 TTTAAATATCAAACTAGATTACGACAATGAAATAA
*
58329620 TTTATATATCAAACTAGATTACGACAATGAAATAA
1 TTTAAATATCAAACTAGATTACGACAATGAAATAA
58329655 TTTA
1 TTTA
58329659 GGTAACAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (35 bp):
TTTAAATATCAAACTAGATTACGACAATGAAATAA
Found at i:58331018 original size:31 final size:31
Alignment explanation
Indices: 58330980--58331040 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
58330970 TCGAGGTAAG
58330980 TTCATGTAACTTGAATTATATTCTTAAATGC
1 TTCATGTAACTTGAATTATATTCTTAAATGC
58331011 TTCATGTAACTTGAATTATATTCTTAAATG
1 TTCATGTAACTTGAATTATATTCTTAAATG
58331041 TTTGAAATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (31 bp):
TTCATGTAACTTGAATTATATTCTTAAATGC
Found at i:58331969 original size:23 final size:24
Alignment explanation
Indices: 58331928--58331984 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
58331918 CCCAACAATC
58331928 AAACCCAAATATACCCTAACCCTA
1 AAACCCAAATATACCCTAACCCTA
58331952 AAACCC-AATA-ACCACTAACCC-A
1 AAACCCAAATATACC-CTAACCCTA
58331974 AGAA-CCAAATA
1 A-AACCCAAATA
58331985 CTTAGCCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.23
23 17 0.57
24 6 0.20
ACGTcount: A:0.51, C:0.35, G:0.02, T:0.12
Consensus pattern (24 bp):
AAACCCAAATATACCCTAACCCTA
Found at i:58332985 original size:30 final size:31
Alignment explanation
Indices: 58332926--58332990 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
58332916 GATTTTTTTA
* *
58332926 TTTTCAATTTAGCCCCACAATTTGTTGCGC-
1 TTTTCAATTTAGCCCCACAATCTGCTGCGCG
*
58332956 TTTTCAATTTGGCCCC-CAATGCTGCTGCGCG
1 TTTTCAATTTAGCCCCACAAT-CTGCTGCGCG
58332987 TTTT
1 TTTT
58332991 GATTGAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 4 0.13
30 22 0.73
31 4 0.13
ACGTcount: A:0.15, C:0.28, G:0.17, T:0.40
Consensus pattern (31 bp):
TTTTCAATTTAGCCCCACAATCTGCTGCGCG
Found at i:58333197 original size:17 final size:18
Alignment explanation
Indices: 58333167--58333213 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
58333157 CTGTTATTTA
* *
58333167 TTATTATTAATTATAATCT
1 TTATTA-TATTTATAATAT
*
58333186 TTA-TATATTTATTATAT
1 TTATTATATTTATAATAT
58333203 TTATTATATTT
1 TTATTATATTT
58333214 TATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 12 0.50
18 9 0.38
19 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTATATTTATAATAT
Found at i:58333201 original size:9 final size:9
Alignment explanation
Indices: 58333161--58333213 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
58333151 CATTTTCTGT
58333161 TATTTATTA
1 TATTTATTA
*
58333170 TTATTAATTA
1 -TATTTATTA
58333180 TAATCTT-TATA
1 T-AT-TTAT-TA
58333191 TATTTATTA
1 TATTTATTA
58333200 TATTTATTA
1 TATTTATTA
58333209 TATTT
1 TATTT
58333214 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 19 0.51
10 14 0.38
11 4 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTATTA
Found at i:58333209 original size:20 final size:20
Alignment explanation
Indices: 58333161--58333222 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
58333151 CATTTTCTGT
*
58333161 TATTTATTAT-TATTAATTA
1 TATTTATTATATATTTATTA
*
58333180 TAATCT-TTATATATTTATTA
1 T-ATTTATTATATATTTATTA
58333200 TATTTATTATAT-TTTATATA
1 TATTTATTATATATTTAT-TA
58333220 TAT
1 TAT
58333223 AGTAGTGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
19 13 0.36
20 23 0.64
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTATTATATATTTATTA
Found at i:58333222 original size:29 final size:30
Alignment explanation
Indices: 58333161--58333220 Score: 90
Period size: 27 Copynumber: 2.1 Consensus size: 30
58333151 CATTTTCTGT
58333161 TATTTATTATTATTAATTATAATCTTTATA
1 TATTTATTATTATTAATTATAATCTTTATA
*
58333191 TATTTATTA-TATTTATTAT-AT-TTTATA
1 TATTTATTATTATTAATTATAATCTTTATA
58333218 TAT
1 TAT
58333221 ATAGTAGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 9 0.31
28 2 0.07
29 9 0.31
30 9 0.31
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (30 bp):
TATTTATTATTATTAATTATAATCTTTATA
Found at i:58333372 original size:22 final size:22
Alignment explanation
Indices: 58333320--58333399 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 22
58333310 TTTAACATGT
* * *
58333320 ATATATTATGTAAATA-TTCTA
1 ATATATTATATATATATTTCTC
58333341 ATAT-TATATATATATATTTCTC
1 ATATAT-TATATATATATTTCTC
* * *
58333363 ATATATTATAAACATGTGTTCTC
1 ATATATTATATATATAT-TTCTC
*
58333386 A-ATATTATACATAT
1 ATATATTATATATAT
58333400 TATTATGTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.02
21 12 0.26
22 27 0.57
23 7 0.15
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (22 bp):
ATATATTATATATATATTTCTC
Found at i:58337476 original size:6 final size:6
Alignment explanation
Indices: 58337461--58337490 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
58337451 GAAAATTTAT
58337461 ATAA-A ATAACA ATAACA ATAACA ATAACA A
1 ATAACA ATAACA ATAACA ATAACA ATAACA A
58337491 AGTTCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAACA
Found at i:58349409 original size:13 final size:13
Alignment explanation
Indices: 58349391--58349415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58349381 GAATTAGTAT
58349391 GTGTGAAAATTTC
1 GTGTGAAAATTTC
58349404 GTGTGAAAATTT
1 GTGTGAAAATTT
58349416 AATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:58350618 original size:86 final size:85
Alignment explanation
Indices: 58350501--58350662 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 85
58350491 CACTATGTGT
* * * * *
58350501 TTTCATGTAAGACCATGTCTGGGACATTGGCATCGACT-TATGATTTACGTTTAAGATCATGTCT
1 TTTCATGTAAGACCATGTCTGGGACAGTGGCATCGA-TATATG-TTTACATGTAAGACCACGTCT
58350565 GGGACGTTAGCATCGTATTTGA
64 GGGACGTTAGCATCGTATTTGA
* * *
58350587 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGTTTACATGTAAGACCACGTCTGG
1 TTTCATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGTTTACATGTAAGACCACGTCTGG
*
58350652 GACGTTGGCAT
66 GACGTTAGCAT
58350663 TGTACGAGCA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
85 30 0.45
86 36 0.55
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (85 bp):
TTTCATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGTTTACATGTAAGACCACGTCTGG
GACGTTAGCATCGTATTTGA
Found at i:58350627 original size:43 final size:44
Alignment explanation
Indices: 58350504--58350662 Score: 184
Period size: 43 Copynumber: 3.7 Consensus size: 44
58350494 TATGTGTTTT
* *
58350504 CATGTAAGACCATGTCTGGGACATTGGCATCGACT-TATGATTTA
1 CATGTAAGACCATGTCTGGGACGTTGGCATCGA-TATTTGATTTA
* * * *
58350548 CGTTTAAGATCATGTCTGGGACGTTAGCATCG-TATTTGATTT-
1 CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTA
* *
58350590 CGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTG-TTTA
1 CATGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTTA
*
58350633 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCATGTCTGGGACGTTGGCAT
58350663 TGTACGAGCA
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 31 0.32
43 39 0.40
44 27 0.28
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (44 bp):
CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:58351575 original size:43 final size:43
Alignment explanation
Indices: 58351514--58351602 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
58351504 GGTGGCAAAT
* * * *
58351514 TGGCTTTTCAAATGGCTTATTTTTGTTCATACGGGCAGAGACA
1 TGGCTTCTCAAATGGCTTATTTTTGTCCATACGGGCAAAAACA
58351557 TGGCTTCTCAAATGGCTTATTTTTGTCCATACGGGCAAAAACA
1 TGGCTTCTCAAATGGCTTATTTTTGTCCATACGGGCAAAAACA
58351600 TGG
1 TGG
58351603 GCATGTGTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (43 bp):
TGGCTTCTCAAATGGCTTATTTTTGTCCATACGGGCAAAAACA
Found at i:58353013 original size:11 final size:11
Alignment explanation
Indices: 58352997--58353022 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58352987 GTTCATAGTC
58352997 TTTTTTTTTGT
1 TTTTTTTTTGT
58353008 TTTTTTTTTGT
1 TTTTTTTTTGT
58353019 TTTT
1 TTTT
58353023 GTGAAGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:58355797 original size:21 final size:22
Alignment explanation
Indices: 58355773--58355819 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
58355763 TACCCTTAAA
**
58355773 TAAATTTTAA-ATTATTGTTAT
1 TAAATTTTAATAGGATTGTTAT
58355794 TAAATTTTAATAGGATTGTTAT
1 TAAATTTTAATAGGATTGTTAT
58355816 TAAA
1 TAAA
58355820 AATAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TAAATTTTAATAGGATTGTTAT
Found at i:58355839 original size:17 final size:17
Alignment explanation
Indices: 58355817--58355849 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58355807 GATTGTTATT
58355817 AAAAATAAATTAATAAA
1 AAAAATAAATTAATAAA
*
58355834 AAAAATAATTTAATAA
1 AAAAATAAATTAATAA
58355850 TATTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATAAATTAATAAA
Found at i:58358865 original size:7 final size:6
Alignment explanation
Indices: 58358816--58358862 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
58358806 ATAATTTAAT
*
58358816 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
58358863 ATATAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:58358910 original size:9 final size:9
Alignment explanation
Indices: 58358880--58358938 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
58358870 TTTATACAAA
58358880 TAATTCGGT
1 TAATTCGGT
*
58358889 TAATTTAGG-
1 TAA-TTCGGT
58358898 TAATTCGGT
1 TAATTCGGT
*
58358907 TAATTCGAT
1 TAATTCGGT
*
58358916 TAATTTGGT
1 TAATTCGGT
58358925 TAATTCGGT
1 TAATTCGGT
58358934 TAATT
1 TAATT
58358939 TTATACTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
8 4 0.10
9 34 0.81
10 4 0.10
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:58358918 original size:27 final size:27
Alignment explanation
Indices: 58358880--58358938 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
58358870 TTTATACAAA
*
58358880 TAATTCGGTTAATTTAGG-TAATTCGGT
1 TAATTCGATTAATTT-GGTTAATTCGGT
58358907 TAATTCGATTAATTTGGTTAATTCGGT
1 TAATTCGATTAATTTGGTTAATTCGGT
58358934 TAATT
1 TAATT
58358939 TTATACTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (27 bp):
TAATTCGATTAATTTGGTTAATTCGGT
Found at i:58361988 original size:35 final size:35
Alignment explanation
Indices: 58361948--58362016 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
58361938 ACAAGCATCA
* *
58361948 AAATCATGAGTCAAAAACTCATAATAAAATAAATT
1 AAATCATGAATCAAAAACTAATAATAAAATAAATT
***
58361983 AAATCATGAATCATGTACTAATAATAAAATAAAT
1 AAATCATGAATCAAAAACTAATAATAAAATAAAT
58362017 AATTTAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.28
Consensus pattern (35 bp):
AAATCATGAATCAAAAACTAATAATAAAATAAATT
Found at i:58362066 original size:31 final size:31
Alignment explanation
Indices: 58362028--58362091 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
58362018 ATTTAATGTT
*
58362028 AAAAAGAATCTATGCTTACTTGTGGAAATGG
1 AAAAAGAATCCATGCTTACTTGTGGAAATGG
*
58362059 AAAAAGAATCCATGTTTACTTGTGGAAATGG
1 AAAAAGAATCCATGCTTACTTGTGGAAATGG
58362090 AA
1 AA
58362092 TAGAAATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAAAGAATCCATGCTTACTTGTGGAAATGG
Found at i:58363130 original size:61 final size:62
Alignment explanation
Indices: 58363028--58363147 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 62
58363018 ACCTACCCTT
* * ** *
58363028 ATCCAATTCTCATTTTAAAGGCCTAATGTAAATATTAAACCTACTTTTATGCAAGTCCTCCC
1 ATCCAATTCTCACTTTAAAGGCCTAAAGTAAATATTAAACCTACCGTTATCCAAGTCCTCCC
*
58363090 ATCCAATTCCTC-CTTTGAAGGCC-AAAGTAAATATTAAACCTACCGTTATCCAAGTCCT
1 ATCCAATT-CTCACTTTAAAGGCCTAAAGTAAATATTAAACCTACCGTTATCCAAGTCCT
58363148 TTGTTCCCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 31 0.61
62 17 0.33
63 3 0.06
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (62 bp):
ATCCAATTCTCACTTTAAAGGCCTAAAGTAAATATTAAACCTACCGTTATCCAAGTCCTCCC
Found at i:58364421 original size:102 final size:102
Alignment explanation
Indices: 58364301--58364504 Score: 354
Period size: 102 Copynumber: 2.0 Consensus size: 102
58364291 CTGACATCTA
*
58364301 TCTCATTATGAAATATCATATATCTTAGGAAATATTATATTGGTGATTGTATTGATTTGAAATTA
1 TCTCATTATGAAATATCATATATCTTAGGAAATATTATATTGGTGATTGTATTGATTCGAAATTA
58364366 CCCAAGATAATCCCTTCGATCATGATTATGCTGGATG
66 CCCAAGATAATCCCTTCGATCATGATTATGCTGGATG
* *
58364403 TCTCATTATGGAATATCATATATCTTAGGGAATATTATATTGGTGATTGTATTGATTCGAAATTA
1 TCTCATTATGAAATATCATATATCTTAGGAAATATTATATTGGTGATTGTATTGATTCGAAATTA
* * *
58364468 CCTAAGATAATCCCTTCGCTCATGATTATGTTGGATG
66 CCCAAGATAATCCCTTCGATCATGATTATGCTGGATG
58364505 AGCTGCCAAG
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.40
Consensus pattern (102 bp):
TCTCATTATGAAATATCATATATCTTAGGAAATATTATATTGGTGATTGTATTGATTCGAAATTA
CCCAAGATAATCCCTTCGATCATGATTATGCTGGATG
Done.