Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 338 of 410
Found at i:104486999 original size:26 final size:27
Alignment explanation
Indices: 104486936--104487010 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
104486926 ACTCAGTTAT
* *
104486936 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACTAGATA
104486963 CAGATATTGTGACAGAGCCACTAGA-A
1 CAGATATTGTGACAGAGCCACTAGATA
* * *
104486989 CAGATAATGTGGCAAAGCCACT
1 CAGATATTGTGACAGAGCCACT
104487011 TAACAGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACTAGATA
Found at i:104487196 original size:22 final size:21
Alignment explanation
Indices: 104487168--104487232 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
104487158 GCAAATACGT
104487168 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
104487190 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
104487212 TTGACACAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
104487233 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:104487715 original size:27 final size:27
Alignment explanation
Indices: 104487676--104487852 Score: 237
Period size: 27 Copynumber: 6.6 Consensus size: 27
104487666 TACCTCACAA
* * *
104487676 GGTATCTCTGTAATTCCACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
104487703 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
**
104487730 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
104487757 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * *
104487784 GGTATTTCGGTAATTCTACCTTACATG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
104487811 GGTATTTCAGTAATTCTACCTTACATG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
104487838 GGTATTTTAGTAATT
1 GGTATTTCAGTAATT
104487853 TTATAAATCG
Statistics
Matches: 140, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:104487867 original size:27 final size:27
Alignment explanation
Indices: 104487837--104488237 Score: 152
Period size: 27 Copynumber: 14.9 Consensus size: 27
104487827 TACCTTACAT
104487837 GGGTATTTTAGTAATTTTATAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
***** * * *
104487864 GGGTAAAACGGTAATTCTATAAAACAA
1 GGGTATTTTAGTAATTTTATAAATCGA
** * *
104487891 GGGTA--AAACGATAATTCTGTAAATCGA
1 GGGTATTTTA-G-TAATTTTATAAATCGA
**** *
104487918 GGGTAAAACAGTAATTTTATTAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
** *
104487945 GGGTA--AAACGATAATTTTGTAAATCGA
1 GGGTATTTTA-G-TAATTTTATAAATCGA
*** * *
104487972 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
*** * * *
104487999 GGGTAAAATGGTAATTCTATAAATCGG
1 GGGTATTTTAGTAATTTTATAAATCGA
* * * * *
104488026 GGGTACTTTGGTAATTTTACAAGTTGA
1 GGGTATTTTAGTAATTTTATAAATCGA
* * * **
104488053 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
* * ** **
104488080 GGGTATTTCAATAATTTTGCAGGTCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
* *
104488107 GGGTATTTTAGTAATTTCACAAATC-A
1 GGGTATTTTAGTAATTTTATAAATCGA
* * *
104488133 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTAGTAATTTTATAAATCGA
* * *
104488160 GGGGTATTTTGGTAATTTTATAAACCAA
1 -GGGTATTTTAGTAATTTTATAAATCGA
* *
104488188 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTATTTTAGTAATTTTATAAATCGA
*
104488214 GGGGTATTTT-GATAATTTGATAAA
1 -GGGTATTTTAG-TAATTTTATAAA
104488238 CTAAAGTATT
Statistics
Matches: 306, Mismatches: 55, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 7 0.02
27 289 0.94
28 4 0.01
29 3 0.01
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAATCGA
Found at i:104487922 original size:81 final size:81
Alignment explanation
Indices: 104487845--104488030 Score: 255
Period size: 81 Copynumber: 2.3 Consensus size: 81
104487835 ATGGGTATTT
*
104487845 TAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAAACAAGGGTAAAACGATAATTCTG
1 TAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAAACAAGGGTAAAACGATAATTCTG
104487910 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * * * * * *
104487926 CAGTAATTTTATTAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTTTG
1 TAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAAACAAGGGTAAAACGATAATTCTG
104487991 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *
104488007 TGGTAATTCTATAAATCGGGGGTA
1 TAGTAATTTTATAAATCGAGGGTA
104488031 CTTTGGTAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 90 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
TAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAAACAAGGGTAAAACGATAATTCTG
TAAATCGAGGGTAAAA
Found at i:104488038 original size:54 final size:54
Alignment explanation
Indices: 104487848--104488044 Score: 232
Period size: 54 Copynumber: 3.6 Consensus size: 54
104487838 GGTATTTTAG
* * * * *
104487848 TAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAAACAAGGGTAAAACGA
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGA
* ** *
104487902 TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTATTAATCGAGGGTAAAACGA
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGA
* * * * *
104487956 TAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGA
* ***
104488010 TAATTCTATAAATCGGGGGTACTTTGGTAATTTTA
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTTTA
104488045 CAAGTTGAGG
Statistics
Matches: 122, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 122 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (54 bp):
TAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGA
Found at i:104488149 original size:81 final size:81
Alignment explanation
Indices: 104488053--104488231 Score: 189
Period size: 81 Copynumber: 2.2 Consensus size: 81
104488043 TACAAGTTGA
** ** * *** *
104488053 GGGTATTTCAATAATTTTACAGGTCGA-GGGTATTTCAATAATTTTGCAGGTCGAGGGTATTTTA
1 GGGTATTTTGATAATTTTACA-AACGAGGGGTATTTCAATAATTTTACAAACCAAGGGTATTTTA
*
104488117 GTAATTTCACAAATCAG
65 GTAATTTCACAAACCAG
* * *** *
104488134 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
1 GGGTATTTTGATAATTTTACAAACGAGGGGTATTTCAATAATTTTACAAACCAAGGGTATTTTAG
*
104488199 TAATTTTACAAACCAG
66 TAATTTCACAAACCAG
104488215 GGGTATTTTGATAATTT
1 GGGTATTTTGATAATTT
104488232 GATAAACTAA
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 2 0.03
81 77 0.97
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGATAATTTTACAAACGAGGGGTATTTCAATAATTTTACAAACCAAGGGTATTTTAG
TAATTTCACAAACCAG
Found at i:104488237 original size:54 final size:54
Alignment explanation
Indices: 104488107--104488238 Score: 176
Period size: 54 Copynumber: 2.4 Consensus size: 54
104488097 TGCAGGTCGA
* * * * *
104488107 GGGTATTTT-AGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGA-TAATTTCATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
104488161 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGATAATTTCATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
104488215 GGGTATTTTGATAATTTGATAAAC
1 GGGTATTTTGATAATTTCATAAAC
104488239 TAAAGTATTC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGATAATTTCATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:104488238 original size:27 final size:27
Alignment explanation
Indices: 104488107--104488231 Score: 155
Period size: 27 Copynumber: 4.6 Consensus size: 27
104488097 TGCAGGTCGA
* *
104488107 GGGTATTTT-AGTAATTTCACAAATCAG
1 GGGTATTTTGA-TAATTTTACAAACCAG
* *
104488134 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGATAATTTTACAAACCAG
* * *
104488161 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGATAATTTTACAAACCAG
104488188 GGGTATTTT-AGTAATTTTACAAACCAG
1 GGGTATTTTGA-TAATTTTACAAACCAG
104488215 GGGTATTTTGATAATTT
1 GGGTATTTTGATAATTT
104488232 GATAAACTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
27 84 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGATAATTTTACAAACCAG
Found at i:104490177 original size:6 final size:6
Alignment explanation
Indices: 104490159--104490224 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
104490149 AAGAAACATT
*
104490159 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* *
104490208 ATCAAA ATTAGA ATCAG
1 ATCAGA ATCAGA ATCAG
104490225 TATTAGGTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
5 3 0.06
6 41 0.84
7 4 0.08
8 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:104490208 original size:31 final size:31
Alignment explanation
Indices: 104490173--104490245 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
104490163 GAACTAGAAT
*
104490173 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
* *
104490204 CAGAATCAAAATTAGAATCAGTATTAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
104490235 CAGAATCAAAA
1 CAGAATCAAAA
104490246 ATCAAAATGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:104490461 original size:26 final size:27
Alignment explanation
Indices: 104490390--104490463 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
104490380 GCTCAGTGAT
*
104490390 CAGATATTGTGGCAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
104490417 TAGATATTGTGACAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
104490443 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
104490464 TTAACAGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 18 0.45
27 22 0.55
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:104490650 original size:22 final size:21
Alignment explanation
Indices: 104490622--104490686 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
104490612 GCAAATACGT
104490622 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
104490644 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
104490666 TTGACACAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
104490687 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:104491273 original size:27 final size:27
Alignment explanation
Indices: 104491140--104491279 Score: 199
Period size: 27 Copynumber: 5.2 Consensus size: 27
104491130 GGTATCTCTA
* *
104491140 TAATTCCACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
104491167 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
104491194 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
104491221 TAATTCTACCTTACATGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
104491248 TAATTCTACCTTACATGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
104491275 TAATT
1 TAATT
104491280 TTGTAAATCG
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:104491294 original size:27 final size:27
Alignment explanation
Indices: 104491271--104491457 Score: 173
Period size: 27 Copynumber: 6.9 Consensus size: 27
104491261 CATGGGTATT
*
104491271 TCAGTAATTTTGTAAATCGAGGGTAAA
1 TCAGTAATTTTATAAATCGAGGGTAAA
* * *
104491298 ACGGTAATTCTATAAATCGAGGGTAAAA
1 TCAGTAATTTTATAAATCGAGGGT-AAA
* * *
104491326 TGA-TAATTCTGTAAATCGAGGGTAAA
1 TCAGTAATTTTATAAATCGAGGGTAAA
* * *
104491352 ACGGTAATTTTATTAATCGAGGGTAAA
1 TCAGTAATTTTATAAATCGAGGGTAAA
* * *
104491379 ACGGTAATTTTGTAAATCGAGGGTAAAA
1 TCAGTAATTTTATAAATCGAGGGT-AAA
*
104491407 T-AGTAATTTTGTAAATCGAGGGTAAAA
1 TCAGTAATTTTATAAATCGAGGGT-AAA
* * *
104491434 T-GGTAATTCTATAAATCGGGGGTA
1 TCAGTAATTTTATAAATCGAGGGTA
104491458 CTTTGGTAAT
Statistics
Matches: 135, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
26 4 0.03
27 125 0.93
28 6 0.04
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
TCAGTAATTTTATAAATCGAGGGTAAA
Found at i:104491295 original size:81 final size:81
Alignment explanation
Indices: 104491140--104491309 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 81
104491130 GGTATCTCTA
* * * *
104491140 TAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
* ***
104491205 TATAGGGGTATTTCGG
66 AATAGGGGTAAAACGG
* * * * ***
104491221 TAATTCTACCTTACATGGGTATTTCAATAATTCTACCTTACATGGGTATTTCAGTAATT-TTGTA
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
*
104491285 AATCGAGGGTAAAACGG
66 AATAG-GGGTAAAACGG
104491302 TAATTCTA
1 TAATTCTA
104491310 TAAATCGAGG
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 4 0.06
81 68 0.94
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
AATAGGGGTAAAACGG
Found at i:104491433 original size:54 final size:54
Alignment explanation
Indices: 104491274--104491457 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 54
104491264 GGGTATTTCA
* *
104491274 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
* * *
104491328 ATAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATTAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
* ** *
104491382 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
* *
104491436 GTAATTCTATAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
104491458 CTTTGGTAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
Found at i:104491470 original size:81 final size:81
Alignment explanation
Indices: 104491274--104491457 Score: 271
Period size: 81 Copynumber: 2.3 Consensus size: 81
104491264 GGGTATTTCA
* * *
104491274 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTGTA
104491339 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * *
104491355 GTAATTTTATTAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAT-AGTAATTTTGT
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGA-TAATTCTGT
*
104491419 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAACG
*
104491436 GTAATTCTATAAATCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
104491458 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 92 0.99
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTGTA
AATCGAGGGTAAAACG
Found at i:104491482 original size:81 final size:81
Alignment explanation
Indices: 104491274--104491484 Score: 253
Period size: 81 Copynumber: 2.6 Consensus size: 81
104491264 GGGTATTTCA
* * * *
104491274 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATGATAATTCTGTA
104491339 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * ** *
104491355 GTAATTTTATTAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAT-AGTAATTTTGT
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATGA-TAATTCTGT
*
104491419 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAACG
* **** * *
104491436 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTA
104491485 TTTCAATAAT
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 111 0.99
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.32
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATGATAATTCTGTA
AATCGAGGGTAAAACG
Found at i:104491483 original size:27 final size:27
Alignment explanation
Indices: 104491434--104491690 Score: 155
Period size: 27 Copynumber: 9.6 Consensus size: 27
104491424 GAGGGTAAAA
* * * * *
104491434 TGGTAATTCTATAAATCGGGGGTACTT
1 TGGTAATTTTACAAATTGAGGGTATTT
*
104491461 TGGTAATTTTACAAGTTGAGGGTATTT
1 TGGTAATTTTACAAATTGAGGGTATTT
*** ** *
104491488 CAATAATTTTACAGGTCGA-GGTATTT
1 TGGTAATTTTACAAATTGAGGGTATTT
*** ** *
104491514 CAATAATTTTACAGGTCGAGGGTATTT
1 TGGTAATTTTACAAATTGAGGGTATTT
* * *
104491541 TAGTAATTTCACAAA-TCAGGGGTATTT
1 TGGTAATTTTACAAATTGA-GGGTATTT
*
104491568 TGGTAATTTTACAAACT-AGGGGTATTT
1 TGGTAATTTTACAAATTGA-GGGTATTT
* ***
104491595 TGATAATTTTA-AAAACCAGTGGTATTT
1 TGGTAATTTTACAAATTGAG-GGTATTT
*
104491622 TGGTAATTTTACAAACT-AGGGGTATTT
1 TGGTAATTTTACAAATTGA-GGGTATTT
* *** *
104491649 TGGTAATTTTATAAACCAATGGTATTT
1 TGGTAATTTTACAAATTGAGGGTATTT
104491676 TGGTAATTTTACAAA
1 TGGTAATTTTACAAA
104491691 CCAGGGGTAT
Statistics
Matches: 192, Mismatches: 30, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
26 31 0.16
27 155 0.81
28 6 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACAAATTGAGGGTATTT
Found at i:104491495 original size:54 final size:54
Alignment explanation
Indices: 104491437--104491689 Score: 206
Period size: 54 Copynumber: 4.7 Consensus size: 54
104491427 GGTAAAATGG
* * * * *
104491437 TAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAA
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAGTTGAGGGTATTTTAA
** * *** * * *
104491491 TAATTTTACAGGTC-GAGGTATTTCAATAATTTTACAGGTCGAGGGTATTTTAG
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAGTTGAGGGTATTTTAA
* ** *
104491544 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGA
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAGTTGA-GGGTATTTTAA
* * * ** **
104491598 TAATTTTAAAAACCAGTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAGTTGA-GGGTATTTTAA
* * **
104491652 TAATTTTATAAACCAATGGTATTTTGGTAATTTTACAA
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAA
104491690 ACCAGGGGTA
Statistics
Matches: 164, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
53 42 0.26
54 122 0.74
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAGTTGAGGGTATTTTAA
Found at i:104491718 original size:27 final size:27
Alignment explanation
Indices: 104491533--104491711 Score: 250
Period size: 27 Copynumber: 6.6 Consensus size: 27
104491523 TACAGGTCGA
* * *
104491533 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
104491560 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
104491587 GGGTATTTTGATAATTTTAAAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
104491614 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
104491641 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
104491668 TGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
104491695 GGGTATTTTGATAATTT
1 GGGTATTTTGGTAATTT
104491712 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:104498130 original size:10 final size:9
Alignment explanation
Indices: 104498108--104498155 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
104498098 TGAATCCTCC
104498108 TATTT-TTT
1 TATTTATTT
104498116 TATTTATTCT
1 TATTTATT-T
*
104498126 TATTT-TTA
1 TATTTATTT
104498134 T-TTTATTT
1 TATTTATTT
104498142 TATTTATTT
1 TATTTATTT
104498151 TATTT
1 TATTT
104498156 TTATTTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 3 0.09
8 9 0.26
9 16 0.47
10 6 0.18
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (9 bp):
TATTTATTT
Found at i:104498139 original size:5 final size:5
Alignment explanation
Indices: 104498113--104498195 Score: 62
Period size: 5 Copynumber: 15.4 Consensus size: 5
104498103 CCTCCTATTT
104498113 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA TTTTA TTTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
* *
104498159 TTTTTC TTTTGA TTTTTA TTTTCA TTTCAA TTTTA TT
1 -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TT
104498196 ATTTATTTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
4 8 0.12
5 26 0.40
6 25 0.38
7 6 0.09
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:104498144 original size:26 final size:25
Alignment explanation
Indices: 104498113--104498203 Score: 91
Period size: 24 Copynumber: 3.7 Consensus size: 25
104498103 CCTCCTATTT
104498113 TTTTATTTATTCTTATTTTTATTTTA
1 TTTTATTTATT-TTATTTTTATTTTA
104498139 TTTTATTTATTTTATTTTTATTTT-
1 TTTTATTTATTTTATTTTTATTTTA
* * * *
104498163 TCTT-TTGATTTTTATTTTCATTTCAA
1 TTTTATTTA-TTTTATTTTTATTT-TA
104498189 TTTTA-TTA-TTTATTT
1 TTTTATTTATTTTATTT
104498204 AGAAAGACAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
23 3 0.05
24 23 0.42
25 13 0.24
26 16 0.29
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTTATTTATTTTATTTTTATTTTA
Found at i:104498175 original size:7 final size:6
Alignment explanation
Indices: 104498108--104498203 Score: 72
Period size: 6 Copynumber: 15.8 Consensus size: 6
104498098 TGAATCCTCC
* *
104498108 TATTTT T-TTATT TATTCT TATTTT TA-TTT TATTTT ATTTATTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT -TAT-TTT TATTTT
* * * * *
104498157 TATTTT TCTTTT GATTTT TATTTT CA-TTT CAATTT TATTATT TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATT-TT TATTT
104498204 AGAAAGACAT
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
5 12 0.17
6 45 0.62
7 12 0.17
8 3 0.04
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:104498180 original size:12 final size:11
Alignment explanation
Indices: 104498108--104498203 Score: 81
Period size: 12 Copynumber: 8.5 Consensus size: 11
104498098 TGAATCCTCC
*
104498108 TATTTTTTTATT
1 TATTTTATT-TT
104498120 TATTCTTATTTT
1 TATT-TTATTTT
104498132 TATTTTA-TTT
1 TATTTTATTTT
104498142 TA-TTTA-TTT
1 TATTTTATTTT
104498151 TATTTTTATTTT
1 TA-TTTTATTTT
*
104498163 TCTTTTGATTTT
1 TATTTT-ATTTT
*
104498175 TATTTTCATTTC
1 TATTTT-ATTTT
*
104498187 AATTTTATTATT
1 TATTTTATT-TT
104498199 TATTT
1 TATTT
104498204 AGAAAGACAT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
9 9 0.13
10 5 0.07
11 14 0.20
12 38 0.54
13 4 0.06
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:104498180 original size:49 final size:48
Alignment explanation
Indices: 104498108--104498203 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 48
104498098 TGAATCCTCC
* * *
104498108 TATTTTTTTATTTATTCTTATTTTTATTT-TATTTTATTTATTTTATTTT
1 TATTTTTTTATTGATTCTTATTTTCATTTCAATTTTA-TTA-TTTATTTT
*
104498157 TATTTTTCTT-TTGATTTTTATTTTCATTTCAATTTTATTATTTATTT
1 TATTTTT-TTATTGATTCTTATTTTCATTTCAATTTTATTATTTATTT
104498204 AGAAAGACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 7 0.17
49 26 0.63
50 8 0.20
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (48 bp):
TATTTTTTTATTGATTCTTATTTTCATTTCAATTTTATTATTTATTTT
Found at i:104501051 original size:13 final size:13
Alignment explanation
Indices: 104501035--104501067 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
104501025 TTTAATTAAA
*
104501035 TTAGTTAATTAGT
1 TTAGATAATTAGT
104501048 TTAGATAATTAGT
1 TTAGATAATTAGT
104501061 TTA-ATAA
1 TTAGATAA
104501068 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:104504306 original size:27 final size:28
Alignment explanation
Indices: 104504276--104504375 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
104504266 TTTAGTTTAC
104504276 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
104504303 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
104504330 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
104504357 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
104504376 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:104504375 original size:54 final size:54
Alignment explanation
Indices: 104504276--104504382 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
104504266 TTTAGTTTAC
* * *
104504276 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
104504330 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
104504383 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:104504393 original size:54 final size:53
Alignment explanation
Indices: 104504278--104504394 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 53
104504268 TAGTTTACTA
* * * **
104504278 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGT
1 AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
* *
104504331 AAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTAC
1 AAA-TTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTTAC
104504385 AGAATTACCG
1 A-AATTACCG
104504395 TTTTACCCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
53 11 0.21
54 40 0.75
55 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
Found at i:104504401 original size:27 final size:27
Alignment explanation
Indices: 104504378--104504689 Score: 363
Period size: 27 Copynumber: 11.6 Consensus size: 27
104504368 AAGTACCCCC
*
104504378 GATTTACAGAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
104504405 AATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * * *
104504432 GATTTACATAATTATCGTTTTACACTC
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
104504459 GACTTACAGAATTATCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
104504486 AATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
104504513 GATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
104504540 GACTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
104504567 GATTTACTGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* **
104504594 GATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
104504621 GATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
104504648 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
*
104504675 GATTTACAAAATTAC
1 GATTTACAGAATTAC
104504690 TAAAATACCC
Statistics
Matches: 251, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 251 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTT
Found at i:104504698 original size:27 final size:27
Alignment explanation
Indices: 104504587--104504843 Score: 117
Period size: 27 Copynumber: 9.4 Consensus size: 27
104504577 ATTACTGTTT
* * ***
104504587 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * ****
104504614 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
104504641 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
104504668 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *** *
104504695 TACCCTTGGTTTGTGAAATTACCGAAAA
1 TACCCTTGATTTACAAAATTA-CTAAAA
** ** *
104504723 -ACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
104504749 TACCCCTAATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
104504776 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * **
104504805 TACCATTGGTTTACAAAATTACGGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
*
104504832 TACCTTTGATTT
1 TACCCTTGATTT
104504844 GTTGATTTAC
Statistics
Matches: 188, Mismatches: 33, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
26 6 0.03
27 152 0.81
28 11 0.06
29 19 0.10
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:104504727 original size:81 final size:81
Alignment explanation
Indices: 104504561--104504733 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
104504551 TTACCGTTTT
* * * * ***
104504561 ACCCTCGATTTACTGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
* ****
104504626 ATAGAATTACTGTTTT
66 ATAGAATTACCGAAAA
* *
104504642 ACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
*
104504707 GT-GAAATTACCGAAAA
66 ATAG-AATTACCGAAAA
*
104504723 ACCCTCAATTT
1 ACCCTCGATTT
104504734 GTAAAATTAC
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 73 0.99
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (81 bp):
ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
ATAGAATTACCGAAAA
Found at i:104504961 original size:27 final size:27
Alignment explanation
Indices: 104504897--104504961 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
104504887 ACCCCTAAAA
*
104504897 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
104504924 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
104504951 GGTAAAATGAC
1 GGTAAAATGAC
104504962 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:104506229 original size:20 final size:20
Alignment explanation
Indices: 104506204--104506254 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
104506194 ATTTTAATAA
*
104506204 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
104506224 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
104506244 ACATGAGATGT
1 ACATGACATGT
104506255 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:104506357 original size:24 final size:24
Alignment explanation
Indices: 104506301--104506589 Score: 415
Period size: 24 Copynumber: 12.2 Consensus size: 24
104506291 AGGAAGTGCA
104506301 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
104506324 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
104506348 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
104506372 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
104506396 AAAAAGGCTTATGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* * * *
104506419 TAAAGGGCTTATGCCCTAATGATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
104506443 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
104506467 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
104506491 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
104506514 TAAAGGGCTTATGCCCCAGTGATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
104506538 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
104506561 TAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
104506585 AAAAG
1 AAAAG
104506590 AGGCAAGGCC
Statistics
Matches: 237, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
23 82 0.35
24 155 0.65
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:104506369 original size:47 final size:47
Alignment explanation
Indices: 104506301--104506589 Score: 461
Period size: 47 Copynumber: 6.1 Consensus size: 47
104506291 AGGAAGTGCA
104506301 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
104506348 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* * * * *
104506396 AAAAAGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCTAATGATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
104506443 AAAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATC
*
104506491 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* * *
104506538 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
104506585 AAAAG
1 AAAAG
104506590 AGGCAAGGCC
Statistics
Matches: 221, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
47 134 0.61
48 87 0.39
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:104506471 original size:95 final size:95
Alignment explanation
Indices: 104506299--104506593 Score: 484
Period size: 95 Copynumber: 3.1 Consensus size: 95
104506289 GGAGGAAGTG
* *
104506299 CAAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCC
1 CAAAAA-GGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCC
*
104506364 CAGTTATCAAAAGGGCTTATGCCCCAGTTAT
65 CAGTTATTAAAAGGGCTTATGCCCCAGTTAT
* * *
104506395 CAAAAAGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCTAATGATCAAAAGGGCTTACGCCCC
1 CAAAAAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
104506460 AGTTATTAAAAGGGCTTATGCCCCAGTTAT
66 AGTTATTAAAAGGGCTTATGCCCCAGTTAT
*
104506490 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
1 CAAAAAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
*
104506555 AGTTATT-AAAGGGCTTTTGCCCCAGTTAT
66 AGTTATTAAAAGGGCTTATGCCCCAGTTAT
*
104506584 TAAAAGAGGC
1 CAAAA-AGGC
104506594 AAGGCCTCCA
Statistics
Matches: 185, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
94 25 0.14
95 154 0.83
96 6 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (95 bp):
CAAAAAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
AGTTATTAAAAGGGCTTATGCCCCAGTTAT
Found at i:104506806 original size:42 final size:42
Alignment explanation
Indices: 104506737--104506820 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
104506727 CCAAATTGGT
*
104506737 TTGCATACATTCATTGGTATTTCATGTGATATTGAAATGGGC
1 TTGCATACATTCATTGATATTTCATGTGATATTGAAATGGGC
* *
104506779 TTGCATTCTTTCATTGATATTAT-ATGTGATATTGAAATGGGC
1 TTGCATACATTCATTGATATT-TCATGTGATATTGAAATGGGC
104506821 CTATGGGCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (42 bp):
TTGCATACATTCATTGATATTTCATGTGATATTGAAATGGGC
Found at i:104506879 original size:31 final size:31
Alignment explanation
Indices: 104506844--104506907 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
104506834 CGTTTATAGT
* *
104506844 AAAGGCTTTGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
104506875 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
104506906 AA
1 AA
104506908 TATGAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:104511086 original size:13 final size:13
Alignment explanation
Indices: 104511068--104511092 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104511058 TTAATTATAT
104511068 GTGTGAAAATTTC
1 GTGTGAAAATTTC
104511081 GTGTGAAAATTT
1 GTGTGAAAATTT
104511093 TATCGTTTGT
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:104519293 original size:14 final size:15
Alignment explanation
Indices: 104519266--104519294 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104519256 ACAGTTAGGG
104519266 GGGAAGACAGAAAGA
1 GGGAAGACAGAAAGA
104519281 GGGAAGA-AGAAAGA
1 GGGAAGACAGAAAGA
104519295 AAATGGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.03, G:0.41, T:0.00
Consensus pattern (15 bp):
GGGAAGACAGAAAGA
Found at i:104519648 original size:20 final size:20
Alignment explanation
Indices: 104519623--104519660 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104519613 GTTTATTCGG
*
104519623 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
104519643 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
104519661 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:104521342 original size:27 final size:27
Alignment explanation
Indices: 104521277--104521330 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
104521267 GTAGATCACG
104521277 AAATTACCCCTAAAGAGCAAAATTACC
1 AAATTACCCCTAAAGAGCAAAATTACC
104521304 AAATTACCCCTAAAGAGCAAAATTACC
1 AAATTACCCCTAAAGAGCAAAATTACC
104521331 GATATACCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.19
Consensus pattern (27 bp):
AAATTACCCCTAAAGAGCAAAATTACC
Found at i:104527622 original size:20 final size:20
Alignment explanation
Indices: 104527597--104527634 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104527587 GTTTATTCGC
*
104527597 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
104527617 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
104527635 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:104528114 original size:17 final size:17
Alignment explanation
Indices: 104528092--104528130 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
104528082 TATGTTGATA
104528092 GTATTTCAGCACTTAGG
1 GTATTTCAGCACTTAGG
104528109 GTATTTCAGCACTTAGG
1 GTATTTCAGCACTTAGG
104528126 GTATT
1 GTATT
104528131 GAGTGGTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (17 bp):
GTATTTCAGCACTTAGG
Found at i:104529305 original size:28 final size:28
Alignment explanation
Indices: 104529273--104529331 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
104529263 GCGTAGATCA
104529273 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
104529301 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
104529329 CGA
1 CGA
104529332 TATACTCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:104531720 original size:31 final size:31
Alignment explanation
Indices: 104531685--104531747 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
104531675 TGCATAATTT
*
104531685 AGATTGATAATAATAGATGAAATCTAGGTGA
1 AGATTGATAATAACAGATGAAATCTAGGTGA
*
104531716 AGATTGATAATGACAGATGAAATCTAGGTGA
1 AGATTGATAATAACAGATGAAATCTAGGTGA
104531747 A
1 A
104531748 TTCTTTCCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (31 bp):
AGATTGATAATAACAGATGAAATCTAGGTGA
Found at i:104532103 original size:20 final size:20
Alignment explanation
Indices: 104532063--104532132 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
104532053 ACTTTATTTC
*
104532063 TTTTAATTTAACCATTTTTTAT
1 TTTTAATTTAA--AATTTTTAT
*
104532085 TTTTATTTTAAAATTTTTAT
1 TTTTAATTTAAAATTTTTAT
104532105 TTTTAATTT--AATTTTTAT
1 TTTTAATTTAAAATTTTTAT
*
104532123 ATTCTAATTT
1 -TTTTAATTT
104532133 TTTTCTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
18 9 0.21
19 8 0.19
20 16 0.37
22 10 0.23
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAATTTAAAATTTTTAT
Found at i:104532120 original size:13 final size:14
Alignment explanation
Indices: 104532103--104532134 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
104532093 TAAAATTTTT
104532103 ATTTTTA-ATT-TA
1 ATTTTTATATTCTA
104532115 ATTTTTATATTCTA
1 ATTTTTATATTCTA
104532129 ATTTTT
1 ATTTTT
104532135 TTCTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTATATTCTA
Found at i:104540203 original size:25 final size:25
Alignment explanation
Indices: 104540170--104540320 Score: 75
Period size: 25 Copynumber: 6.0 Consensus size: 25
104540160 GAGCCTATAA
*
104540170 CAGGTAGCTCTGAAGAGCCATTAAT
1 CAGGAAGCTCTGAAGAGCCATTAAT
*
104540195 CAGGAAGCTCCTG-ATAGCCA-TATAT
1 CAGGAAGCT-CTGAAGAGCCATTA-AT
*
104540220 CAGGAAG-T-TCAAGTGAGCCA-T-AT
1 CAGGAAGCTCTGAA--GAGCCATTAAT
* * *
104540243 CAGGAAGCTC-CAGATAGCCATTATT
1 CAGGAAGCTCTGA-AGAGCCATTAAT
**
104540268 CAGGAAGCTCACAAAGAGCCAATTAA-
1 CAGGAAGCTC-TGAAGAGCC-ATTAAT
* *
104540294 CGGGAAGCTCACGAAGAGCCATATAAT
1 CAGGAAGCTC-TGAAGAGCCAT-TAAT
104540321 GGAGAAACTC
Statistics
Matches: 100, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
22 1 0.01
23 15 0.15
24 7 0.07
25 43 0.43
26 29 0.29
27 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (25 bp):
CAGGAAGCTCTGAAGAGCCATTAAT
Found at i:104540261 original size:23 final size:23
Alignment explanation
Indices: 104540193--104540277 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 23
104540183 AGAGCCATTA
*
104540193 ATCAGGAAGCTCCTGATAGCCATAT
1 ATCAGGAAGCTCCAGATAGCC--AT
* *
104540218 ATCAGGAAGTTCAAG-TGAGCCAT
1 ATCAGGAAGCTCCAGAT-AGCCAT
104540241 ATCAGGAAGCTCCAGATAGCCATT
1 ATCAGGAAGCTCCAGATAGCCA-T
104540265 ATTCAGGAAGCTC
1 A-TCAGGAAGCTC
104540278 ACAAAGAGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.39
24 4 0.08
25 27 0.53
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (23 bp):
ATCAGGAAGCTCCAGATAGCCAT
Found at i:104544524 original size:20 final size:20
Alignment explanation
Indices: 104544499--104544557 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
104544489 TAAATATGGT
104544499 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* * *
104544519 ATGTATGATACGTACATGAT
1 ATGTATGATATGCACATGAA
104544539 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
104544558 GGTAATCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:104544677 original size:47 final size:48
Alignment explanation
Indices: 104544608--104544726 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
104544598 GAGGAAGTGA
104544608 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
104544655 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
104544703 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
104544727 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:104544702 original size:24 final size:24
Alignment explanation
Indices: 104544608--104544726 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
104544598 GAGGAAGTGA
*
104544608 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
104544632 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
104544655 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
104544679 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
104544703 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
104544727 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:104544956 original size:31 final size:31
Alignment explanation
Indices: 104544918--104544981 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
104544908 CGTTTACAGT
104544918 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* *
104544949 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
104544980 AA
1 AA
104544982 CATGAAAAGG
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:0.16, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:104544987 original size:38 final size:38
Alignment explanation
Indices: 104544935--104545042 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
104544925 TCAGCCCAGT
104544935 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
104544973 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
104545011 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
104545043 GCATGATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 53 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:104546801 original size:48 final size:48
Alignment explanation
Indices: 104546547--104546815 Score: 281
Period size: 48 Copynumber: 5.6 Consensus size: 48
104546537 TATGTGCGCT
* * * *
104546547 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATATTAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGAGAGCC
* * * *
104546595 AGCGTAAGACCATGTTTGGAACATGGCATCGGCAAT-GTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCGATATGAGAGCC
* *
104546643 AGTGTAAGACCATGTTTGGGACATGGCATCGACCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGA-TATGAGAGCC
* * ** * * * *
104546691 AATGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGAGAGCC
* * *
104546739 AGTGTAAGACCGTGTTTGGGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGAGAGCC
* * * *
104546787 AGTGTAAGATCGTGTTTGGAACATAGCAT
1 AGTGTAAGACCATGTTTGGGACATGGCAT
104546816 TGGTAATTCA
Statistics
Matches: 180, Mismatches: 37, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
48 179 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGAGAGCC
Found at i:104558630 original size:27 final size:26
Alignment explanation
Indices: 104558600--104558769 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 26
104558590 CCTATAAGAC
104558600 AAAATGACCGTAATACCCTTGTAGGGT
1 AAAATGACCGTAATACCC-TGTAGGGT
*
104558627 AAAATGACCGTAATGCCCTTGTAGGGT
1 AAAATGACCGTAATACCC-TGTAGGGT
* * *
104558654 AAAATGACCATAATGCCCCTGTAGGAT
1 AAAATGACCGTAAT-ACCCTGTAGGGT
104558681 AAAATGACCGTAATACCCCTGTAGGGT
1 AAAATGACCGTAATA-CCCTGTAGGGT
* * *
104558708 AAAATGACTGTAATGTCCCTGTAGGAT
1 AAAATGACCGTAAT-ACCCTGTAGGGT
*
104558735 AAAATGACCGTAATATCCCTGTATGGT
1 AAAATGACCGTAATA-CCCTGTAGGGT
104558762 AAAATGAC
1 AAAATGAC
104558770 GATTATGCCC
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 122 0.98
28 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (26 bp):
AAAATGACCGTAATACCCTGTAGGGT
Found at i:104558705 original size:81 final size:81
Alignment explanation
Indices: 104558570--104558769 Score: 278
Period size: 81 Copynumber: 2.5 Consensus size: 81
104558560 CCCCAAAATA
* * * * *
104558570 GGTAAAATAACCATAATACCCCTATAAGACAAAATGACCGTAATACCCTTGTAGGGTAAAATGAC
1 GGTAAAATGACCATAATACCCCTGTAGGATAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
104558635 CGTAATG-CCCTTGTAG
66 CGTAATGTCCC-TGTAG
*
104558651 GGTAAAATGACCATAATGCCCCTGTAGGATAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
1 GGTAAAATGACCATAATACCCCTGTAGGATAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
*
104558716 TGTAATGTCCCTGTAG
66 CGTAATGTCCCTGTAG
* * *
104558732 GATAAAATGACCGTAATATCCCTGTATGG-TAAAATGAC
1 GGTAAAATGACCATAATACCCCTGTA-GGATAAAATGAC
104558770 GATTATGCCC
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
81 101 0.95
82 5 0.05
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
GGTAAAATGACCATAATACCCCTGTAGGATAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
CGTAATGTCCCTGTAG
Found at i:104566542 original size:19 final size:19
Alignment explanation
Indices: 104566518--104566556 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
104566508 AAAAGAAGAG
104566518 AAAGAAATCTCACAAATGA
1 AAAGAAATCTCACAAATGA
104566537 AAAGAAATCTCACAAATGA
1 AAAGAAATCTCACAAATGA
104566556 A
1 A
104566557 TTTTTATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.15
Consensus pattern (19 bp):
AAAGAAATCTCACAAATGA
Found at i:104566991 original size:2 final size:2
Alignment explanation
Indices: 104566984--104567013 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
104566974 CATAACCCTA
104566984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104567014 CTTTGGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104567713 original size:30 final size:31
Alignment explanation
Indices: 104567640--104567715 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 31
104567630 ATAATATATC
*
104567640 AATAATTTTAAAACAA--ATAATTATAAATT
1 AATAATTTTAAAATAATTATAATTATAAATT
** *
104567669 AATAA-CATAGAATAATTATAATTATAAATT
1 AATAATTTTAAAATAATTATAATTATAAATT
104567699 -ATAATTTTAAAATAATT
1 AATAATTTTAAAATAATT
104567716 TCCAATAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 6 0.16
29 9 0.24
30 22 0.59
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (31 bp):
AATAATTTTAAAATAATTATAATTATAAATT
Found at i:104572389 original size:14 final size:14
Alignment explanation
Indices: 104572370--104572400 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
104572360 TATCTAAACT
104572370 ATTGGATTAGCGGC
1 ATTGGATTAGCGGC
*
104572384 ATTGGATTAGTGGC
1 ATTGGATTAGCGGC
104572398 ATT
1 ATT
104572401 ATAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (14 bp):
ATTGGATTAGCGGC
Found at i:104577455 original size:30 final size:30
Alignment explanation
Indices: 104577421--104577481 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
104577411 TCCTTAACTC
104577421 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
104577451 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
104577481 A
1 A
104577482 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:104579649 original size:25 final size:24
Alignment explanation
Indices: 104579610--104579665 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
104579600 TTAAATATGA
* *
104579610 TAAAATTATTTATAATATTTC-TAT
1 TAAAATTATTCATAATA-ATCATAT
104579634 TAAAATATATTCATAATAATCATAT
1 TAAAAT-TATTCATAATAATCATAT
104579659 TAAAATT
1 TAAAATT
104579666 TAATAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAAATTATTCATAATAATCATAT
Found at i:104582476 original size:58 final size:56
Alignment explanation
Indices: 104582326--104582468 Score: 162
Period size: 57 Copynumber: 2.5 Consensus size: 56
104582316 ATCGTACTAC
* *
104582326 AGGATTACCAGCCCAGGCTAAATCCTTTATGTAACGTATGCTCAGAAGAGCTAAATT
1 AGGATTACCAGTCCAGGCTAAATCCTTT-TGTAACATATGCTCAGAAGAGCTAAATT
* * * * *
104582383 GGGATTACCAGTTCAGGCTAAATCCTAATTGTAACATATGCTCGAGAAG-GATTACATT
1 AGGATTACCAGTCCAGGCTAAATCCT-TTTGTAACATATGCTC-AGAAGAG-CTAAATT
* *
104582441 AGGATTACCCGTCCTGGCTAAATCCTTT
1 AGGATTACCAGTCCAGGCTAAATCCTTT
104582469 CTATAACAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
57 38 0.54
58 33 0.46
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (56 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTTGTAACATATGCTCAGAAGAGCTAAATT
Found at i:104594720 original size:3 final size:3
Alignment explanation
Indices: 104594706--104594744 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
104594696 TCATTATATG
104594706 AAT AATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
104594745 AATCAGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:104595622 original size:16 final size:15
Alignment explanation
Indices: 104595563--104595623 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 15
104595553 GAATTAAACA
*
104595563 ATTTTAAATATATTTT
1 ATTTTAAATA-ATTAT
*
104595579 AATTTAAATTAATTAT
1 ATTTTAAA-TAATTAT
**
104595595 ACATTAATATAATTAAT
1 ATTTTAA-ATAATT-AT
104595612 ATTTTAAATAAT
1 ATTTTAAATAAT
104595624 GAAATTTCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
16 26 0.72
17 10 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTTAAATAATTAT
Found at i:104596321 original size:14 final size:14
Alignment explanation
Indices: 104596298--104596332 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
104596288 AAATTATATG
104596298 TAAT-TTTTTAAAT
1 TAATATTTTTAAAT
104596311 TAATATTTTTAAAT
1 TAATATTTTTAAAT
104596325 TAAATATT
1 T-AATATT
104596333 ATAATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 10 0.50
15 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATATTTTTAAAT
Found at i:104596344 original size:37 final size:40
Alignment explanation
Indices: 104596243--104596346 Score: 98
Period size: 37 Copynumber: 2.7 Consensus size: 40
104596233 ACTATCACAA
104596243 TTTAAATT-AA-ATTATAATTATTTTAAATGTATAATAAAT
1 TTTAAATTAAATATTATAATTATTTTAAA-GTATAATAAAT
* * *
104596282 ATTAAA--AAATTATATGTAATT-TTTTAAA-T-TAAT-ATT
1 TTTAAATTAAA-TAT-TATAATTATTTTAAAGTATAATAAAT
104596318 TTTAAATTAAATATTATAATTATTTTAAA
1 TTTAAATTAAATATTATAATTATTTTAAA
104596347 ATGTGAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
36 13 0.25
37 14 0.26
38 6 0.11
39 5 0.09
40 9 0.17
41 6 0.11
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (40 bp):
TTTAAATTAAATATTATAATTATTTTAAAGTATAATAAAT
Found at i:104603460 original size:14 final size:15
Alignment explanation
Indices: 104603441--104603470 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
104603431 TCGACATAAC
104603441 CTTTTGTG-ATTAAT
1 CTTTTGTGCATTAAT
104603455 CTTTTGTGCATTAAT
1 CTTTTGTGCATTAAT
104603470 C
1 C
104603471 CTTAAGTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
CTTTTGTGCATTAAT
Found at i:104607847 original size:44 final size:42
Alignment explanation
Indices: 104607798--104607934 Score: 118
Period size: 42 Copynumber: 3.2 Consensus size: 42
104607788 TGTTATCGAT
** * *
104607798 TAAGACCATGTCTGGGACGTTGGCATCG-ATTTGTTATTTTCATG
1 TAAGACCACATCTAGGACATTGGCATCGTATTTG--ATTTT-ATG
*
104607842 TAAGACCACATCTAGGACATTGGCATCGTATTTGATTTTGTG
1 TAAGACCACATCTAGGACATTGGCATCGTATTTGATTTTATG
* * * **
104607884 TAAGACC-CTAT-TTGGACAGTGGCATTGATATTTGATTACATG
1 TAAGACCAC-ATCTAGGACATTGGCATCG-TATTTGATTTTATG
104607926 TAAGACCAC
1 TAAGACCAC
104607935 GTTTGGGATG
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
41 14 0.18
42 29 0.37
43 6 0.08
44 24 0.31
45 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
TAAGACCACATCTAGGACATTGGCATCGTATTTGATTTTATG
Found at i:104613013 original size:2 final size:2
Alignment explanation
Indices: 104613006--104613032 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104612996 ATGTACAAAG
104613006 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
104613033 GAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104623667 original size:10 final size:11
Alignment explanation
Indices: 104623639--104623666 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
104623629 CCATTTTGTC
104623639 CCTTTTTGGCT
1 CCTTTTTGGCT
104623650 CCTTTTTGGCT
1 CCTTTTTGGCT
104623661 CCTTTT
1 CCTTTT
104623667 GACTCTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.14, T:0.57
Consensus pattern (11 bp):
CCTTTTTGGCT
Found at i:104624019 original size:6 final size:6
Alignment explanation
Indices: 104623997--104624080 Score: 116
Period size: 6 Copynumber: 14.0 Consensus size: 6
104623987 AGGTGAAACT
* *
104623997 AATAAA AACATAA AATAAA AATAAA AATAAA AATAAA AATGAA AATAAA
1 AATAAA AATA-AA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* *
104624046 ATTAAA AATAAA AATAAA AAT-AA AATAAA ATTAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
104624081 CATCATCATC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
5 5 0.07
6 59 0.86
7 5 0.07
ACGTcount: A:0.79, C:0.01, G:0.01, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:104626330 original size:64 final size:64
Alignment explanation
Indices: 104626182--104626433 Score: 199
Period size: 68 Copynumber: 3.8 Consensus size: 64
104626172 TACAGATGGT
* ** * * *
104626182 ATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--A
*
104626245 TTATG
62 -TA-A
* * * *
104626250 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAGGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
104626314 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACTATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
104626379 AA
63 AA
* * *
104626381 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
104626434 CAAAATTATG
Statistics
Matches: 150, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 26 0.17
65 2 0.01
66 23 0.15
67 30 0.20
68 49 0.33
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:104626372 original size:67 final size:64
Alignment explanation
Indices: 104626250--104626372 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
104626240 AGACATTATG
* * *
104626250 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAGGGGATAT
1 ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAGACAAGAGAGCTAGGGGATAT
* * *
104626314 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACTATGTAGACAAGAGAGCTA
1 ATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACCATGTAGACAAGAGAGCTA
104626373 CGAGATAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 25 0.50
66 2 0.04
67 23 0.46
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAGACAAGAGAGCTAGGGGATAT
Found at i:104632243 original size:13 final size:13
Alignment explanation
Indices: 104632225--104632253 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
104632215 GGTTGTTTAT
104632225 TAAACTAATTAAC
1 TAAACTAATTAAC
104632238 TAAACTAATTAAC
1 TAAACTAATTAAC
104632251 TAA
1 TAA
104632254 TTAAACTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:104632996 original size:31 final size:31
Alignment explanation
Indices: 104632958--104633019 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
104632948 TTTTGTACTT
104632958 CAGAAAAGTTCTAGAGGAGAGGGGCCACCTC
1 CAGAAAAGTTCTAGAGGAGAGGGGCCACCTC
104632989 CAGAAAAGTTCTAGAGGAGAGGGGCCACCTC
1 CAGAAAAGTTCTAGAGGAGAGGGGCCACCTC
104633020 TAAGTCATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.32, T:0.13
Consensus pattern (31 bp):
CAGAAAAGTTCTAGAGGAGAGGGGCCACCTC
Found at i:104636095 original size:31 final size:31
Alignment explanation
Indices: 104636053--104636222 Score: 268
Period size: 31 Copynumber: 5.5 Consensus size: 31
104636043 TAACGATTAT
* *
104636053 TGGGCCAAAGCCTTTTTATAAATCATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
* * *
104636084 TGGGCCGAAGCCTTATCACAAAACATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
* *
104636115 TGGGCCGAAGCCTTATCATAAATCATATCTC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
104636146 TGGGCCGAAGCCTTTTCATAAATCATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
*
104636177 TGGGCCGAAGCCTTTTCATAAATCATATCAT
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
104636208 TGGGCCGAAGCCTTT
1 TGGGCCGAAGCCTTT
104636223 ACTGTAAACG
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 128 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATAAATCATATCAC
Found at i:104636455 original size:24 final size:24
Alignment explanation
Indices: 104636428--104636534 Score: 135
Period size: 25 Copynumber: 4.4 Consensus size: 24
104636418 CTGGAGGCCT
*
104636428 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
* *
104636452 AGCCCTATTGATAAATTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
*
104636476 AGCCCTTTTTGGTAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
*
104636501 AGCCCTTTTCGATAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
104636526 AGCCCTTTT
1 AGCCCTTTT
104636535 AGCACTTCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.08
24 23 0.32
25 43 0.60
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:104636497 original size:25 final size:25
Alignment explanation
Indices: 104636441--104636534 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
104636431 CTCTTTTAAT
*
104636441 AACTGGGGCAAAGCCC-TATTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
104636465 AATTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
104636490 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
104636515 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
104636535 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 15 0.24
25 47 0.76
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:104636586 original size:16 final size:16
Alignment explanation
Indices: 104636565--104636595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104636555 AACCCAACCC
*
104636565 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
104636581 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
104636596 CCCATATTTG
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:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:104637405 original size:27 final size:27
Alignment explanation
Indices: 104637328--104637439 Score: 81
Period size: 27 Copynumber: 4.2 Consensus size: 27
104637318 TCATACGGAA
104637328 CATA-AGGGCGTATT-C-GTCATTTTAC
1 CATACAGGG-GTATTACAGTCATTTTAC
*
104637353 CATACAGGGGTATTACAGTCACTTTAC
1 CATACAGGGGTATTACAGTCATTTTAC
* * *
104637380 CCTACAGGGGCT-TTACGGTCTTTTTAC
1 CATACAGGGG-TATTACAGTCATTTTAC
* ** *
104637407 C-TAATAGGGGTATTTTAGTCATTTCAC
1 CAT-ACAGGGGTATTACAGTCATTTTAC
*
104637434 CCTACA
1 CATACA
104637440 ATGGTGTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
25 9 0.13
26 7 0.10
27 50 0.74
28 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
CATACAGGGGTATTACAGTCATTTTAC
Found at i:104637491 original size:27 final size:27
Alignment explanation
Indices: 104637461--104637568 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 27
104637451 GTAAATCTAC
104637461 AAACCAAGGGTA-TTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTTA-TAATTTTGT
*
104637488 AAACCAATGGTATTTTTATAATTTT-T
1 AAACCAAGGGTATTTTTATAATTTTGT
*
104637514 AGAAAGTCAAGGGTATTTTTATAATTTTGT
1 --AAA-CCAAGGGTATTTTTATAATTTTGT
* * **
104637544 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTTTATAATTTT
104637569 ACAAATTGAG
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 1 0.01
27 37 0.53
28 11 0.16
29 20 0.29
30 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTTTATAATTTTGT
Found at i:104637574 original size:27 final size:27
Alignment explanation
Indices: 104637446--104637594 Score: 109
Period size: 27 Copynumber: 5.4 Consensus size: 27
104637436 TACAATGGTG
* * *
104637446 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* ** * *
104637473 TTTTAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** *
104637500 TTTTTATAATTTTTAGAAAGTCAAGGGTA
1 TTTTGGTAA-TTTTACAAA-TCAAGGGTA
** ** *
104637529 TTTTTATAATTTTGTAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
**
104637556 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*
104637583 TTTCGGTAATTT
1 TTTTGGTAATTT
104637595 CACATGACCC
Statistics
Matches: 97, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
27 67 0.69
28 14 0.14
29 16 0.16
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:104655160 original size:45 final size:45
Alignment explanation
Indices: 104655096--104655182 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
104655086 CCAAAACATT
104655096 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
* *
104655141 TGTCACATATATCATGAACTCAGATCACAACTCAATGAGTTC
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTC
104655183 AGATTACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:104655184 original size:21 final size:21
Alignment explanation
Indices: 104655115--104655186 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
104655105 TATCACGAAC
*
104655115 TCAGACCACAACTCAATGAGT
1 TCAGATCACAACTCAATGAGT
* * **
104655136 TCGGATGTCACATATATC-ATGAAC
1 TCAGA--TCACA-A-CTCAATGAGT
104655160 TCAGATCACAACTCAATGAGT
1 TCAGATCACAACTCAATGAGT
104655181 TCAGAT
1 TCAGAT
104655187 TACATAATTC
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
20 2 0.05
21 15 0.41
22 5 0.14
23 4 0.11
24 9 0.24
25 2 0.05
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (21 bp):
TCAGATCACAACTCAATGAGT
Found at i:104657072 original size:28 final size:31
Alignment explanation
Indices: 104657018--104657094 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 31
104657008 ATATATACAT
* *
104657018 TATATTATATATATAATCAAAATCCATTAATA
1 TATATTATATATATAAT-AAAAGCCATGAATA
*
104657050 TATATTATATA-A-AAT-AAAGCCATGCATA
1 TATATTATATATATAATAAAAGCCATGAATA
*
104657078 TATAATATATATATAAT
1 TATATTATATATATAAT
104657095 CACCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 20 0.51
29 1 0.03
30 6 0.15
31 1 0.03
32 11 0.28
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.39
Consensus pattern (31 bp):
TATATTATATATATAATAAAAGCCATGAATA
Found at i:104664632 original size:14 final size:15
Alignment explanation
Indices: 104664603--104664632 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
104664593 CAAAATTAAG
104664603 ACATGATACTTTCAC
1 ACATGATACTTTCAC
104664618 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
104664632 A
1 A
104664633 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:104666050 original size:13 final size:13
Alignment explanation
Indices: 104666032--104666058 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
104666022 TGATAAGGGG
104666032 GTGAGGTCGTTAA
1 GTGAGGTCGTTAA
104666045 GTGAGGTCGTTAA
1 GTGAGGTCGTTAA
104666058 G
1 G
104666059 CCTCGAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.41, T:0.30
Consensus pattern (13 bp):
GTGAGGTCGTTAA
Found at i:104668733 original size:17 final size:18
Alignment explanation
Indices: 104668701--104668734 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
104668691 ATTAATACAG
104668701 TTCACCATAATAACATAA
1 TTCACCATAATAACATAA
*
104668719 TTCACCA-ATTAACATA
1 TTCACCATAATAACATA
104668735 GGTCACAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
TTCACCATAATAACATAA
Found at i:104669120 original size:2 final size:2
Alignment explanation
Indices: 104669113--104669159 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
104669103 AGAACCATGC
*
104669113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T GT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104669153 AT AT AT A
1 AT AT AT A
104669160 AATCAAAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:104669179 original size:28 final size:27
Alignment explanation
Indices: 104669148--104669216 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
104669138 TATATTGTAT
* *
104669148 TATATATATATAAATCAAAATCCATTG-A
1 TATATATATATAAAAC-AAAGCCA-TGCA
104669176 TATATATTATATAAAACAAAGCCATGCA
1 TATATA-TATATAAAACAAAGCCATGCA
104669204 TATATATAATATA
1 TATATAT-ATATA
104669217 TGAATAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 3 0.08
28 24 0.67
29 9 0.25
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (27 bp):
TATATATATATAAAACAAAGCCATGCA
Found at i:104673049 original size:14 final size:15
Alignment explanation
Indices: 104673030--104673058 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104673020 GGATAGAAAC
104673030 AAACAAATT-AAAAA
1 AAACAAATTGAAAAA
104673044 AAACAAATTGAAAAA
1 AAACAAATTGAAAAA
104673059 TAAATGAGGG
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:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (15 bp):
AAACAAATTGAAAAA
Found at i:104673334 original size:21 final size:21
Alignment explanation
Indices: 104673308--104673448 Score: 59
Period size: 24 Copynumber: 5.9 Consensus size: 21
104673298 AATATTGAAG
104673308 TAATATAAAATATAATAAAAA
1 TAATATAAAATATAATAAAAA
104673329 TAATATAATGAATAATATATATAGTAAAA
1 T-A-AT-AT-AA-AATATA-ATA--AAAA
* * *
104673358 TGATATAATATATTATAAAATA
1 TAATATAAAATATAATAAAA-A
* *
104673380 TATAAATAAAACATAGATAAATAA
1 TA-ATATAAAATATA-ATAAA-AA
104673404 TAATAATAAACAGTGCATAAGTAAAAA
1 TAAT-ATAAA-A-T--ATAA-TAAAAA
*
104673431 TAATAT-ATATATAATAAA
1 TAATATAAAATATAATAAA
104673449 TCATTTATAT
Statistics
Matches: 91, Mismatches: 11, Indels: 37
0.65 0.08 0.27
Matches are distributed among these distances:
20 4 0.04
21 8 0.09
22 3 0.03
23 15 0.16
24 20 0.22
25 7 0.08
26 10 0.11
27 12 0.13
28 7 0.08
29 5 0.05
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (21 bp):
TAATATAAAATATAATAAAAA
Found at i:104673335 original size:14 final size:14
Alignment explanation
Indices: 104673316--104673367 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
104673306 AGTAATATAA
104673316 AATATAATAAAAAT
1 AATATAATAAAAAT
*
104673330 AATATAATGAATAAT
1 AATATAAT-AAAAAT
*
104673345 ATATATAGT-AAAAT
1 A-ATATAATAAAAAT
*
104673359 GATATAATA
1 AATATAATA
104673368 TATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 6 0.20
16 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AATATAATAAAAAT
Found at i:104673370 original size:20 final size:19
Alignment explanation
Indices: 104673340--104673384 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 19
104673330 AATATAATGA
104673340 ATAATATATATAGTAAAATGAT
1 ATAATATAT-TA-TAAAAT-AT
104673362 ATAATATATTATAAAATAT
1 ATAATATATTATAAAATAT
104673381 ATAA
1 ATAA
104673385 ATAAAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAATATATTATAAAATAT
Found at i:104673387 original size:20 final size:22
Alignment explanation
Indices: 104673317--104673384 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
104673307 GTAATATAAA
* * * *
104673317 ATATAATAAAAATAATATAATG
1 ATATAATATATATAGTAAAATG
104673339 A-ATAATATATATAGTAAAATG
1 ATATAATATATATAGTAAAATG
104673360 ATATAATATAT-TA-TAAAAT-
1 ATATAATATATATAGTAAAATG
104673379 ATATAA
1 ATATAA
104673385 ATAAAACATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAATATATATAGTAAAATG
Found at i:104673457 original size:20 final size:19
Alignment explanation
Indices: 104673434--104673476 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
104673424 GTAAAAATAA
104673434 TATATATATA-ATAAATCATT
1 TATATATATACAT-AAT-ATT
104673454 TATATATATACATAATATT
1 TATATATATACATAATATT
104673473 TATA
1 TATA
104673477 GTAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 13 0.59
21 2 0.09
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATATACATAATATT
Found at i:104676294 original size:44 final size:44
Alignment explanation
Indices: 104674942--104676285 Score: 1438
Period size: 44 Copynumber: 30.6 Consensus size: 44
104674932 TTCCTTGCCT
* * * *
104674942 AATACGGAGAAGCCGAATCTG-TCATCTTCGATCTG-TCCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCT-CTCTGAC
* * * *
104674986 AATACAGAGACACCAAATCTGTTATCTTCGATCTTCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
104675030 AATACAGAGACACCAAATCTG-TCATCTTCAATCTGCCCTCT-ATT
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGA-C
** * * *
104675074 AATACAGAGACGCCAAATCTATTATCTTTGATCTGCTCTTTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
104675118 AATA-ACGAGACGACAAATCTGTTATCTTCGATCTGCTCTTTGTC
1 AATACA-GAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * *
104675162 AATACAGAGATGACAAATCTGTTATCTTCGATCTGCTTTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * *
104675206 AATATAGAGACACCAAATCTGCTATCTCCAATCTGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
104675250 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
104675294 AATACAGAAATGCCAAATCTACTATCTTCCATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
104675338 AATACAAAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
104675382 AATACAGAAATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
*
104675426 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAA
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
104675470 AATACAGAGATGTCAAAT-TGGCTATCTTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCT-GCTATCTTCGATCTGCTCTCTGAC
* * * * *
104675514 AATACAGAGACACTAAATCT-ATCATCTTCGATCCGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGAC
* * * * * * *
104675558 AATACAGAAATGCCAAATCTACCATATTCGATTTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
104675602 AATATAGAGACGCCAAATCTG-TCATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGAC
*
104675646 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
104675690 AATACAGAGATGCCAAAATCTGTTATCTCCGATCTGCTCTCTGCC
1 AATACAGAGACGCC-AAATCTGCTATCTTCGATCTGCTCTCTGAC
*
104675735 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCT-ATC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA-C
* * * * *
104675779 AATACAGAAATGTCAAATCTGCTATCTTCGATCTACTCTCTGCC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
104675823 AATACAGAAACACCAAATCTGTTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * * *
104675867 AATACAGAAATGTCAAATATGCTATCTTTGATCTACTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
104675911 AATA-AGAGACGCCAAATCTGCTATCTTCAATCTGTTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * *
104675954 AATATAGAGATGTCAAATCGGCTATCTTCGATCTACTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * *
104675998 AATACAGAGACGCTAAATTTTC-ATCTTCGATCTGCTCCCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
*
104676041 AATACAGAGACACCAAATCTG-TCATCTTCGATCTGCTCTCT-ATC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGA-C
* *
104676085 AATACAAAGACGCCAAATCTG-TCATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGAC
* * * * * *
104676129 AATACAGAGATGCCAAATTTGTTAACTTCGATCTGTTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * * * *
104676173 AATACAAAGACGCTAAATTTGTTATTTTCGATCTGCTCTTTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * *
104676217 AATACAGAGACACCAAATTTGTTATTTTCGATCTGTTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
*
104676261 AATACAGAGACGTCAAATCTGCTAT
1 AATACAGAGACGCCAAATCTGCTAT
104676286 TGGTGATCTA
Statistics
Matches: 1105, Mismatches: 172, Indels: 46
0.84 0.13 0.03
Matches are distributed among these distances:
43 74 0.07
44 984 0.89
45 47 0.04
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
Found at i:104679958 original size:42 final size:42
Alignment explanation
Indices: 104679899--104679985 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
104679889 TAGCACTTTG
*
104679899 GTATGTTGCCCCTGCATTTTTTAGCCCGAAGGGCATTACCTT
1 GTATGTTGCCCCTGCATTCTTTAGCCCGAAGGGCATTACCTT
104679941 GTATGTTGCCCCTGCATTCTTTAGCCCGAAGGGCATTACCTT
1 GTATGTTGCCCCTGCATTCTTTAGCCCGAAGGGCATTACCTT
104679983 GTA
1 GTA
104679986 ACAAAAGGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.34
Consensus pattern (42 bp):
GTATGTTGCCCCTGCATTCTTTAGCCCGAAGGGCATTACCTT
Found at i:104686246 original size:17 final size:18
Alignment explanation
Indices: 104686214--104686247 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
104686204 ATTAATACAG
104686214 TTCACCATAATAACATAA
1 TTCACCATAATAACATAA
*
104686232 TTCACCA-ATTAACATA
1 TTCACCATAATAACATA
104686248 GGTCACAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
TTCACCATAATAACATAA
Found at i:104686770 original size:29 final size:29
Alignment explanation
Indices: 104686697--104686770 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
104686687 ATATTATATA
* *
104686697 TAATATATATATGTATATTACCACCTCCC
1 TAATATATATATGTATATTAACACCTCAC
* *
104686726 TTATTTATATAT-TATATATAACA-C-CAC
1 TAATATATATATGTATAT-TAACACCTCAC
104686753 TAATATATATATGGTATA
1 TAATATATATAT-GTATA
104686771 CAAATTAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
27 12 0.33
28 6 0.17
29 18 0.50
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.42
Consensus pattern (29 bp):
TAATATATATATGTATATTAACACCTCAC
Found at i:104690870 original size:27 final size:29
Alignment explanation
Indices: 104690809--104690870 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
104690799 TAAAAAATAC
*
104690809 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
104690838 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
104690865 AAATAT
1 AAATAT
104690871 GTGCAAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:104691019 original size:9 final size:10
Alignment explanation
Indices: 104690998--104691070 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
104690988 TTGAAGTAAT
104690998 ATAAAATATA
1 ATAAAATATA
104691008 ATAAAA-ATA
1 ATAAAATATA
* *
104691017 ATATAAT-GA
1 ATAAAATATA
104691026 ATAAATATATA
1 ATAAA-ATATA
*
104691037 GTAAAATGAT-
1 ATAAAAT-ATA
* *
104691047 ATAATATATT
1 ATAAAATATA
104691057 ATAAAATAT-
1 ATAAAATATA
104691066 ATAAA
1 ATAAA
104691071 TAAAACATAG
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
9 20 0.40
10 23 0.46
11 7 0.14
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (10 bp):
ATAAAATATA
Found at i:104691042 original size:28 final size:28
Alignment explanation
Indices: 104690998--104691051 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
104690988 TTGAAGTAAT
104690998 ATAAAATATAATAAAAATAATATAATGA
1 ATAAAATATAATAAAAATAATATAATGA
* *
104691026 ATAAATATATAGT-AAAATGATATAAT
1 ATAAA-ATATAATAAAAATAATATAAT
104691052 ATATTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (28 bp):
ATAAAATATAATAAAAATAATATAATGA
Found at i:104691071 original size:28 final size:28
Alignment explanation
Indices: 104690997--104691073 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 28
104690987 ATTGAAGTAA
104690997 TATAAAATATAATAAA-AATAATATAATG
1 TATAAAATAT-ATAAATAATAATATAATG
*
104691025 AATAAATATATAGTAAAATGATATAATAT-AT-
1 TATAAA-ATATA-T-AAAT-A-ATAATATAATG
104691056 TATAAAATATATAAATAA
1 TATAAAATATATAAATAA
104691074 AACATAGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 10 0.24
29 6 0.15
30 8 0.20
31 5 0.12
32 3 0.07
33 7 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
TATAAAATATATAAATAATAATATAATG
Found at i:104691072 original size:20 final size:21
Alignment explanation
Indices: 104690997--104691072 Score: 67
Period size: 20 Copynumber: 3.9 Consensus size: 21
104690987 ATTGAAGTAA
104690997 TATAAAAT-ATAATAAA-A-AT
1 TATAAAATGAT-ATAAATATAT
* *
104691016 AATATAATGA-ATAAATATA-
1 TATAAAATGATATAAATATAT
104691035 TAGTAAAATGATAT-AATATAT
1 TA-TAAAATGATATAAATATAT
104691056 TATAAAAT-ATATAAATA
1 TATAAAATGATATAAATA
104691073 AAACATAGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
18 5 0.11
19 12 0.26
20 25 0.54
21 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (21 bp):
TATAAAATGATATAAATATAT
Found at i:104691144 original size:20 final size:19
Alignment explanation
Indices: 104691119--104691158 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
104691109 GTAAAAATAA
104691119 ATATATA-ATAAATCATTTAT
1 ATATATACAT-AAT-ATTTAT
104691139 ATATATACATAATATTTAT
1 ATATATACATAATATTTAT
104691158 A
1 A
104691159 GTAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 10 0.53
21 2 0.11
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATACATAATATTTAT
Found at i:104697754 original size:23 final size:24
Alignment explanation
Indices: 104697710--104697775 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
104697700 CGTGTCTGGT
*
104697710 TTTTAATTAATTTTTAAATAA-TATA
1 TTTTAATT-A-TTTTAATTAATTATA
104697735 TTTTAATTATTTTAATTAATTATA
1 TTTTAATTATTTTAATTAATTATA
*
104697759 ATTT-ATTATTTTAATTA
1 TTTTAATTATTTTAATTA
104697776 TTAAATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 22 0.58
24 8 0.21
25 8 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTAATTATTTTAATTAATTATA
Found at i:104697774 original size:32 final size:34
Alignment explanation
Indices: 104697710--104697777 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 34
104697700 CGTGTCTGGT
*
104697710 TTTTAATTAATTTTTAAATAATATATTTTAATTA
1 TTTTAATTAATTTATAAATAATATATTTTAATTA
* *
104697744 TTTTAATTAA-TTATAATTTAT-TATTTTAATTA
1 TTTTAATTAATTTATAAATAATATATTTTAATTA
104697776 TT
1 TT
104697778 AAATATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 13 0.42
33 8 0.26
34 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTTAATTAATTTATAAATAATATATTTTAATTA
Found at i:104697798 original size:32 final size:33
Alignment explanation
Indices: 104697725--104697830 Score: 92
Period size: 32 Copynumber: 3.2 Consensus size: 33
104697715 ATTAATTTTT
* *
104697725 AAATA-ATATATTTTAATTATTTTAAT-TAATTA
1 AAATATAT-TATTTTAATTATTTAAATATAATAA
* *
104697757 TAATTTATTATTTTAATTA-TTAAATATAATAA
1 AAATATATTATTTTAATTATTTAAATATAATAA
**
104697789 AAATATATTAAATTATTTAACAATTTAAATATAATAA
1 AAATATATT--A-T-TTTAATTATTTAAATATAATAA
104697826 AAATA
1 AAATA
104697831 AATTTTCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
31 5 0.08
32 26 0.44
33 2 0.03
34 1 0.02
35 1 0.02
36 6 0.10
37 18 0.31
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (33 bp):
AAATATATTATTTTAATTATTTAAATATAATAA
Found at i:104699050 original size:27 final size:27
Alignment explanation
Indices: 104698988--104699084 Score: 144
Period size: 30 Copynumber: 3.6 Consensus size: 27
104698978 CTTAATTTTG
104698988 TTTTTTTTTTCAATTTGTTCTGGATAA
1 TTTTTTTTTTCAATTTGTTCTGGATAA
104699015 TTTTGTTTTTTTTCAATTTGTTCTGGATAA
1 --TT-TTTTTTTTCAATTTGTTCTGGATAA
104699045 TTTTTTTTTTCAATTTGTTCTGGAT--
1 TTTTTTTTTTCAATTTGTTCTGGATAA
*
104699070 TTTATTTTTTCAATT
1 TTTTTTTTTTCAATT
104699085 GATGGTTTCA
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
25 14 0.21
27 23 0.35
28 2 0.03
29 2 0.03
30 25 0.38
ACGTcount: A:0.16, C:0.07, G:0.10, T:0.66
Consensus pattern (27 bp):
TTTTTTTTTTCAATTTGTTCTGGATAA
Found at i:104699857 original size:17 final size:16
Alignment explanation
Indices: 104699835--104699868 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
104699825 TCACTATGTT
104699835 TGTATAAGTTTGTATAA
1 TGTATAAGTTTGT-TAA
*
104699852 TGTATAATTTTGTTAA
1 TGTATAAGTTTGTTAA
104699868 T
1 T
104699869 TTGTATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TGTATAAGTTTGTTAA
Found at i:104701263 original size:21 final size:21
Alignment explanation
Indices: 104701203--104701264 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
104701193 AGAATATTAT
*
104701203 ATAATATACTAAATATTTAATA
1 ATAATATA-TAAATTTTTAATA
* *
104701225 ATGATATAT-GATTATTTAATA
1 ATAATATATAAATT-TTTAATA
*
104701246 ATAATTTATAAATTTTTAA
1 ATAATATATAAATTTTTAA
104701265 AATTATACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 20 0.62
22 10 0.31
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (21 bp):
ATAATATATAAATTTTTAATA
Found at i:104701287 original size:7 final size:7
Alignment explanation
Indices: 104701275--104701355 Score: 76
Period size: 7 Copynumber: 11.0 Consensus size: 7
104701265 AATTATACAT
104701275 AATAATA
1 AATAATA
104701282 AATAATA
1 AATAATA
104701289 AATAATAA
1 AATAAT-A
104701297 AATAATA
1 AATAATA
*
104701304 TATAATAA
1 AATAAT-A
*
104701312 AATAAAA
1 AATAATA
104701319 AATAATA
1 AATAATA
104701326 TAATGAAT-
1 -AAT-AATA
104701334 AATATATA
1 AATA-ATA
104701342 TAATAA-A
1 -AATAATA
104701349 AATAATA
1 AATAATA
104701356 TATATAATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
6 6 0.10
7 33 0.53
8 16 0.26
9 7 0.11
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (7 bp):
AATAATA
Done.