Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 31 of 276
Found at i:9815302 original size:14 final size:15
Alignment explanation
Indices: 9815271--9815304 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9815261 GCATATCATG
9815271 CATATCATGTGCATAT
1 CATATCATGT-CATAT
9815287 CATATCATGT-ATAT
1 CATATCATGTCATAT
9815301 CATA
1 CATA
9815305 CCCCACGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (15 bp):
CATATCATGTCATAT
Found at i:9815360 original size:25 final size:25
Alignment explanation
Indices: 9815332--9815379 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9815322 ATAATTAAAC
*
9815332 CCTAGGGGCAAAACAGTCATTTTTA
1 CCTAGGGGCAAAACAATCATTTTTA
9815357 CCTAGGGGCAAAACAATCATTTT
1 CCTAGGGGCAAAACAATCATTTT
9815380 CACATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (25 bp):
CCTAGGGGCAAAACAATCATTTTTA
Found at i:9816032 original size:27 final size:27
Alignment explanation
Indices: 9816002--9816066 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
9815992 GGGCATATTC
9816002 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
9816029 GTCACTTTACCCTACAGGGGCTTTACT
1 GTCATTTTACCATACAAGGGCTTTACG
*
9816056 GTCTTTTTACC
1 GTCATTTTACC
9816067 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:9816150 original size:27 final size:27
Alignment explanation
Indices: 9816120--9816227 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
9816110 GTAAATCTAC
9816120 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
9816147 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
9816173 AAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
9816203 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
9816228 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:9816225 original size:56 final size:54
Alignment explanation
Indices: 9816124--9816281 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 54
9816114 ATCTACAAAC
* *
9816124 CAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCT-ATAATTTTTAAAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAAC-AGTGGTATTT-TGGTAATTTTTAAAAA-T
* * *
9816180 CAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTATTTTGGTAATTTTTAAAAAT
** * ***
9816234 TGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTT
1 CAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTATTTTGGTAATTTT
9816282 ACAAACTAGA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
54 37 0.43
55 12 0.14
56 36 0.42
57 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTGTAAACAGTGGTATTTTGGTAATTTTTAAAAAT
Found at i:9816233 original size:27 final size:27
Alignment explanation
Indices: 9816169--9816325 Score: 133
Period size: 27 Copynumber: 5.8 Consensus size: 27
9816159 TTTCTATAAT
* *
9816169 TTTTAAAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
9816197 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
9816224 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * *
9816251 TTTCACAAACCAGTGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
9816278 TTTTACAAA-CTAGAGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* *
9816305 TTCTACCATAT-AGGGGTATTT
1 TTTTA-CAAATCAGGGGTATTT
9816326 CAATAATTTC
Statistics
Matches: 106, Mismatches: 17, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.03
27 92 0.87
28 11 0.10
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:9816325 original size:54 final size:54
Alignment explanation
Indices: 9816182--9816306 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
9816172 TAAAAAGTCA
* *** * *
9816182 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAATAG
*
9816236 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAA-TAG
*
9816291 A-GGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
9816307 CTACCATATA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 59 0.95
55 3 0.05
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAATAG
Found at i:9816368 original size:27 final size:27
Alignment explanation
Indices: 9816338--9816429 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
9816328 ATAATTTCAC
*
9816338 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
9816365 AATCGAGGATAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
9816392 AATCAAGAGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
9816419 AATCGAGGGTA
1 AATCGAGGGTA
9816430 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:9816466 original size:27 final size:27
Alignment explanation
Indices: 9816436--9816514 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
9816426 GGTACTTTGG
9816436 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
9816463 TAATTTTACAAGTCAGGGGGTATTTTAG
1 TAATTTTACAAGTC-GAGGGTATTTCAA
* *
9816491 TAATTTTACAAATCGAGGATATTT
1 TAATTTTACAAGTCGAGGGTATTT
9816515 GGGTAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 22 0.49
28 23 0.51
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:9816494 original size:28 final size:27
Alignment explanation
Indices: 9816407--9816525 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
9816397 AGAGTAAAAC
* * * *
9816407 AGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTTTACAAGTCGAGGGTATTTT
* *
9816434 GGTAATTTTACAAGTCGAGGGTATTTC
1 AGTAATTTTACAAGTCGAGGGTATTTT
* *
9816461 AATAATTTTACAAGTCAGGGGGTATTTT
1 AGTAATTTTACAAGTC-GAGGGTATTTT
* * *
9816489 AGTAATTTTACAAATCGAGGATATTTG
1 AGTAATTTTACAAGTCGAGGGTATTTT
*
9816516 GGTAATTTTA
1 AGTAATTTTA
9816526 TAAATTGGGG
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 52 0.69
28 23 0.31
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
AGTAATTTTACAAGTCGAGGGTATTTT
Found at i:9816521 original size:27 final size:26
Alignment explanation
Indices: 9816182--9816530 Score: 114
Period size: 27 Copynumber: 12.9 Consensus size: 26
9816172 TAAAAAGTCA
* **
9816182 AGGGTATTTCTGTAATTTTGTAAATC-
1 AGGGTATTT-AGTAATTTTACAAATCG
* *
9816208 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTA-TTTAGTAATTTTACAAATCG
* * *
9816236 AGGGTATTTCGGTAATTTCACAAA-CC
1 AGGGTATTT-AGTAATTTTACAAATCG
* *
9816262 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTA-TTTAGTAATTTTACAAATCG
* * * *
9816289 AGAGGTATTTTGGTAATTCTACCATATAG
1 AG-GGTA-TTTAGTAATTTTA-CAAATCG
* *
9816318 -GGGTATTTCAATAATTTCAC-AATCG
1 AGGGTATTT-AGTAATTTTACAAATCG
*** **
9816343 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGT-ATTTAGTAATTTTACAAATCG
* *** * ** *
9816370 AGGATAAAACAGTAATTCTGTAAATCA
1 AGGGT-ATTTAGTAATTTTACAAATCG
* *** * *
9816397 AGAGTAAAACAGTAATTCTATAAATCG
1 AGGGT-ATTTAGTAATTTTACAAATCG
* *
9816424 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTA-TTTAGTAATTTTACAAATCG
* *
9816451 AGGGTATTTCAATAATTTTACAAGTCAG
1 AGGGTATTT-AGTAATTTTACAAATC-G
*
9816479 GGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTA-TTTAGTAATTTTACAAATCG
* * *
9816506 AGGATATTTGGGTAATTTTATAAAT
1 AGGGTATTT-AGTAATTTTACAAAT
9816531 TGGGGGGGGG
Statistics
Matches: 255, Mismatches: 51, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
25 3 0.01
26 28 0.11
27 190 0.75
28 31 0.12
29 3 0.01
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (26 bp):
AGGGTATTTAGTAATTTTACAAATCG
Found at i:9816537 original size:55 final size:55
Alignment explanation
Indices: 9816406--9816537 Score: 131
Period size: 55 Copynumber: 2.4 Consensus size: 55
9816396 AAGAGTAAAA
* * * * * *
9816406 CAGTAATTCTATAAA-TCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTT
1 CAGTAATTTTATAAATTAGGGGGTACTTTAGTAATTTTACAAATCGAGGATATTT
* * * * *
9816460 CAATAATTTTACAAGTCAGGGGGTATTTTAGTAATTTTACAAATCGAGGATATTT
1 CAGTAATTTTATAAATTAGGGGGTACTTTAGTAATTTTACAAATCGAGGATATTT
** *
9816515 GGGTAATTTTATAAATTGGGGGG
1 CAGTAATTTTATAAATTAGGGGG
9816538 GGGTACTTTG
Statistics
Matches: 59, Mismatches: 18, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
54 11 0.19
55 48 0.81
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.37
Consensus pattern (55 bp):
CAGTAATTTTATAAATTAGGGGGTACTTTAGTAATTTTACAAATCGAGGATATTT
Found at i:9818913 original size:42 final size:42
Alignment explanation
Indices: 9818853--9818938 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 42
9818843 TGGCCCATAG
*
9818853 GCCCATTTCAATAACACATGAAATA-TCAATGACTGTATGCAA
1 GCCCATTTCAATAACACATGAAATACT-AATGAATGTATGCAA
*
9818895 GCCCATTTCAATATCACATGAAATACTAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACTAATGAATGTATGCAA
9818937 GC
1 GC
9818939 TCATCTGGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACTAATGAATGTATGCAA
Found at i:9819130 original size:26 final size:26
Alignment explanation
Indices: 9819089--9819185 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
9819079 CCTCTTTAAT
9819089 AACT-GGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
9819113 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
9819139 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
9819165 AACTGGGGCATAAGCCGTTTT
1 AACTGGGGCATAAGCCCTTTT
9819186 TGCACTTCCT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
24 4 0.06
25 5 0.07
26 59 0.87
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:9819261 original size:20 final size:20
Alignment explanation
Indices: 9819236--9819292 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
9819226 TTATGAATTC
*
9819236 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
9819256 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
9819276 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
9819293 TCATGTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:9819267 original size:11 final size:11
Alignment explanation
Indices: 9819236--9819291 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
9819226 TTATGAATTC
9819236 ATCATGTGCAT
1 ATCATGTGCAT
* *
9819247 TTCA--TACAT
1 ATCATGTGCAT
9819256 ATCATGTGCAT
1 ATCATGTGCAT
9819267 ATCA--TGCAT
1 ATCATGTGCAT
9819276 ATCATGTGCAT
1 ATCATGTGCAT
9819287 ATCAT
1 ATCAT
9819292 ATCATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:9819304 original size:14 final size:15
Alignment explanation
Indices: 9819273--9819306 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9819263 GCATATCATG
9819273 CATATCATGTGCATAT
1 CATATCATGT-CATAT
9819289 CATATCATGT-ATAT
1 CATATCATGTCATAT
9819303 CATA
1 CATA
9819307 CCCCACGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (15 bp):
CATATCATGTCATAT
Found at i:9819368 original size:25 final size:25
Alignment explanation
Indices: 9819334--9819381 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9819324 ATAATTAAAC
* *
9819334 CCTAGGGGCACAACTGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
9819359 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
9819382 CACATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:9820153 original size:27 final size:27
Alignment explanation
Indices: 9820123--9820230 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
9820113 GTAAATCTAC
9820123 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
9820150 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
9820176 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
9820206 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
9820231 ACAAATTTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:9820228 original size:56 final size:54
Alignment explanation
Indices: 9820120--9820289 Score: 157
Period size: 54 Copynumber: 3.1 Consensus size: 54
9820110 TTGGTAAATC
* * *
9820120 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAAC-AGTGGTATTT-TGGTAATTTT
* * *
9820175 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTATTTTGGTAATTTT
** * *** *
9820230 TACAAATTTAGGGTATTTCGGTAATTTCACAAACCAGTGGTACTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTATTTTGGTAATTTT
9820284 TACAAA
1 TACAAA
9820290 CTAGGGGTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
54 45 0.47
55 14 0.15
56 36 0.38
57 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACAGTGGTATTTTGGTAATTTT
Found at i:9820236 original size:27 final size:27
Alignment explanation
Indices: 9820172--9820309 Score: 129
Period size: 27 Copynumber: 5.1 Consensus size: 27
9820162 TTTCTATAAT
* *
9820172 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
9820200 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
9820227 TTTTACAAATTTA-GGGTATTTCGGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
* * * *
9820254 TTTCACAAACCAGTGGTACTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
9820281 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
9820308 TT
1 TT
9820310 CTACCCTATA
Statistics
Matches: 90, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.03
27 78 0.87
28 9 0.10
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:9820277 original size:54 final size:53
Alignment explanation
Indices: 9820185--9820309 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 53
9820175 TAGAAAGTCA
* *** * * *
9820185 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTT
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTACTTTGGTAATTTTACAAA-CT
*
9820239 AGGGTATTTCGGTAATTTCACAAACCAGTGGTACTTTGGTAATTTTACAAACT
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTACTTTGGTAATTTTACAAACT
*
9820292 AGGGGTATTTTGGTAATT
1 A-GGGTATTTCGGTAATT
9820310 CTACCCTATA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.03
54 59 0.97
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.42
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTCACAAACCAGGGGTACTTTGGTAATTTTACAAACT
Found at i:9820349 original size:27 final size:26
Alignment explanation
Indices: 9820186--9820342 Score: 95
Period size: 27 Copynumber: 5.8 Consensus size: 26
9820176 AGAAAGTCAA
* ***
9820186 GGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTCGGTAATTTCACAAA-CAG
* * *
9820213 GGGTATTTTGGTAATTTTACAAATTTA-
1 GGGTATTTCGGTAATTTCACAAA--CAG
9820240 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTCGGTAATTTCACAAA-CAG
* *
9820267 TGGTACTTT-GGTAATTTTACAAACTAG
1 GGGTA-TTTCGGTAATTTCACAAAC-AG
* ** *
9820294 GGGTATTTTGGTAA-TTCTACCCTATAG
1 GGGTATTTCGGTAATTTC-A-CAAACAG
*
9820321 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
9820343 TCGAGGGTAA
Statistics
Matches: 102, Mismatches: 20, Indels: 17
0.73 0.14 0.12
Matches are distributed among these distances:
26 8 0.08
27 84 0.82
28 10 0.10
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.40
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTCACAAACAG
Found at i:9820360 original size:26 final size:26
Alignment explanation
Indices: 9820330--9820398 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
9820320 GGGGTATTTC
*
9820330 AGTAATTT-CACAATCGAGGGTAAAAT
1 AGTAATTTGCA-AATCGAGGATAAAAT
* *
9820356 GGTAATTTTGTAAATCGAGGATAAAAT
1 AGTAA-TTTGCAAATCGAGGATAAAAT
*
9820383 AGTAATTCTGTAAATC
1 AGTAATT-TGCAAATC
9820399 AAGAAGTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.17
27 29 0.81
28 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.32
Consensus pattern (26 bp):
AGTAATTTGCAAATCGAGGATAAAAT
Found at i:9820371 original size:27 final size:27
Alignment explanation
Indices: 9820341--9820398 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
9820331 GTAATTTCAC
* * *
9820341 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGATAAAATAGTAATTCTGTA
9820368 AATCGAGGATAAAATAGTAATTCTGTA
1 AATCGAGGATAAAATAGTAATTCTGTA
9820395 AATC
1 AATC
9820399 AAGAAGTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
AATCGAGGATAAAATAGTAATTCTGTA
Found at i:9820408 original size:108 final size:108
Alignment explanation
Indices: 9820296--9820510 Score: 385
Period size: 108 Copynumber: 2.0 Consensus size: 108
9820286 CAAACTAGGG
* * **
9820296 GTATTTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATTTCACAATCGAGGGTAAAATGGTAA
1 GTATTTTGGTAATTCTACCATATAGGGGTATTTCAATAATTTCACAATCGAGGGTAAAACAGTAA
*
9820361 TTTTGTAAATCGAGGATAAAATAGTAATTCTGTAAATCAAGAA
66 TTTTGTAAATCGAGGATAAAACAGTAATTCTGTAAATCAAGAA
9820404 GTATTTTGGTAATTCTACCATATAGGGGTATTTCAATAATTTCACAATCGAGGGTAAAACAGTAA
1 GTATTTTGGTAATTCTACCATATAGGGGTATTTCAATAATTTCACAATCGAGGGTAAAACAGTAA
9820469 TTTTGTAAATCGAGGATAAAACAGTAATTCTGTAAATCAAGA
66 TTTTGTAAATCGAGGATAAAACAGTAATTCTGTAAATCAAGA
9820511 GTAAAACAGT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (108 bp):
GTATTTTGGTAATTCTACCATATAGGGGTATTTCAATAATTTCACAATCGAGGGTAAAACAGTAA
TTTTGTAAATCGAGGATAAAACAGTAATTCTGTAAATCAAGAA
Found at i:9820479 original size:27 final size:27
Alignment explanation
Indices: 9820449--9820540 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
9820439 ATAATTTCAC
*
9820449 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
9820476 AATCGAGGATAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
9820503 AATCAAGAGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
9820530 AATCGAGGGTA
1 AATCGAGGGTA
9820541 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:9820563 original size:108 final size:108
Alignment explanation
Indices: 9820304--9820567 Score: 336
Period size: 108 Copynumber: 2.4 Consensus size: 108
9820294 GGGTATTTTG
** **
9820304 GTAATTCTACCCTATAGGGGTATTTCAGTAATTTCACAATCGAGGGTAAAATGGTAATTTTGTAA
1 GTAATTCTACCAAATAGGGGTATTTCAGTAATTTCACAATCGAGGGTAAAACAGTAATTTTGTAA
* *****
9820369 ATCGAGGATAAAATAGTAATTCTGTAAATCAAGAAGTATTTTG
66 ATCGAGGATAAAACAGTAATTCTGTAAATCAAGAAGTAAAACA
* *
9820412 GTAATTCTACCATATAGGGGTATTTCAATAATTTCACAATCGAGGGTAAAACAGTAATTTTGTAA
1 GTAATTCTACCAAATAGGGGTATTTCAGTAATTTCACAATCGAGGGTAAAACAGTAATTTTGTAA
9820477 ATCGAGGATAAAACAGTAATTCTGTAAATCAAG-AGTAAAACA
66 ATCGAGGATAAAACAGTAATTCTGTAAATCAAGAAGTAAAACA
* * * *
9820519 GTAATTCTA-TAAATCGAGGGTACTTT-GGTAATTTTACAAGTCGAGGGTA
1 GTAATTCTACCAAATAG-GGGTA-TTTCAGTAATTTCACAA-TCGAGGGTA
9820568 TTTCAATAAT
Statistics
Matches: 137, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
106 4 0.03
107 28 0.20
108 105 0.77
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (108 bp):
GTAATTCTACCAAATAGGGGTATTTCAGTAATTTCACAATCGAGGGTAAAACAGTAATTTTGTAA
ATCGAGGATAAAACAGTAATTCTGTAAATCAAGAAGTAAAACA
Found at i:9820577 original size:27 final size:27
Alignment explanation
Indices: 9820547--9820625 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
9820537 GGTACTTTGG
9820547 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
9820574 TAATTTTACAAGTCAGGGGGTATTTTAG
1 TAATTTTACAAGTC-GAGGGTATTTCAA
* *
9820602 TAATTTTACAAATCGAGGATATTT
1 TAATTTTACAAGTCGAGGGTATTT
9820626 GGGTAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 22 0.49
28 23 0.51
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:9820605 original size:28 final size:27
Alignment explanation
Indices: 9820518--9820636 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
9820508 AGAGTAAAAC
* * * *
9820518 AGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTTTACAAGTCGAGGGTATTTT
* *
9820545 GGTAATTTTACAAGTCGAGGGTATTTC
1 AGTAATTTTACAAGTCGAGGGTATTTT
* *
9820572 AATAATTTTACAAGTCAGGGGGTATTTT
1 AGTAATTTTACAAGTC-GAGGGTATTTT
* * *
9820600 AGTAATTTTACAAATCGAGGATATTTG
1 AGTAATTTTACAAGTCGAGGGTATTTT
*
9820627 GGTAATTTTA
1 AGTAATTTTA
9820637 TAAATTGGGG
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 52 0.69
28 23 0.31
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
AGTAATTTTACAAGTCGAGGGTATTTT
Found at i:9820648 original size:55 final size:55
Alignment explanation
Indices: 9820517--9820648 Score: 131
Period size: 55 Copynumber: 2.4 Consensus size: 55
9820507 AAGAGTAAAA
* * * * * *
9820517 CAGTAATTCTATAAA-TCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTT
1 CAGTAATTTTATAAATTAGGGGGTACTTTAGTAATTTTACAAATCGAGGATATTT
* * * * *
9820571 CAATAATTTTACAAGTCAGGGGGTATTTTAGTAATTTTACAAATCGAGGATATTT
1 CAGTAATTTTATAAATTAGGGGGTACTTTAGTAATTTTACAAATCGAGGATATTT
** *
9820626 GGGTAATTTTATAAATTGGGGGG
1 CAGTAATTTTATAAATTAGGGGG
9820649 GGGGGTACTT
Statistics
Matches: 59, Mismatches: 18, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
54 11 0.19
55 48 0.81
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.37
Consensus pattern (55 bp):
CAGTAATTTTATAAATTAGGGGGTACTTTAGTAATTTTACAAATCGAGGATATTT
Found at i:9822923 original size:42 final size:42
Alignment explanation
Indices: 9822863--9822952 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
9822853 TGGCCCATAG
*
9822863 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
9822905 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
9822947 GCCCAT
1 GCCCAT
9822953 CTGGAGAGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:9823144 original size:26 final size:26
Alignment explanation
Indices: 9823099--9823196 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
9823089 CCTCTTTAAT
9823099 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
9823124 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* * *
9823150 AACTAGGGCATAAGTCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
9823176 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
9823197 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 10 0.16
26 52 0.84
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:9823271 original size:20 final size:20
Alignment explanation
Indices: 9823246--9823302 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
9823236 TTATGAATTC
*
9823246 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
9823266 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
9823286 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
9823303 TCATGTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:9823277 original size:11 final size:11
Alignment explanation
Indices: 9823246--9823301 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
9823236 TTATGAATTC
9823246 ATCATGTGCAT
1 ATCATGTGCAT
* *
9823257 TTCA--TACAT
1 ATCATGTGCAT
9823266 ATCATGTGCAT
1 ATCATGTGCAT
9823277 ATCA--TGCAT
1 ATCATGTGCAT
9823286 ATCATGTGCAT
1 ATCATGTGCAT
9823297 ATCAT
1 ATCAT
9823302 ATCATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:9823314 original size:14 final size:15
Alignment explanation
Indices: 9823283--9823316 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9823273 GCATATCATG
9823283 CATATCATGTGCATAT
1 CATATCATGT-CATAT
9823299 CATATCATGT-ATAT
1 CATATCATGTCATAT
9823313 CATA
1 CATA
9823317 CCCCACGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (15 bp):
CATATCATGTCATAT
Found at i:9824162 original size:27 final size:27
Alignment explanation
Indices: 9824132--9824217 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
9824122 GTAAATCTAC
9824132 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAAGGTATTTCAGTAATTTTGT
* *
9824159 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAAGGTATTTC-AGTAATTTTGT
* * *
9824185 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAAGGTATTTCAGTAATTTTGT
9824215 AAA
1 AAA
9824218 TTAGGGGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
26 1 0.02
27 21 0.45
28 7 0.15
29 17 0.36
30 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAGTAATTTTGT
Found at i:9824235 original size:27 final size:27
Alignment explanation
Indices: 9824195--9824337 Score: 139
Period size: 27 Copynumber: 5.3 Consensus size: 27
9824185 AGAAAGTCAA
** *
9824195 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
9824222 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
9824248 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
9824276 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
9824303 AGGTATTTTGGTAATTCTACCATA-TAG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
9824330 GGGTATTT
1 GGGTATTT
9824338 CAATAATTTC
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.03
27 90 0.93
28 4 0.04
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:9824237 original size:56 final size:55
Alignment explanation
Indices: 9824129--9824298 Score: 166
Period size: 54 Copynumber: 3.1 Consensus size: 55
9824119 TTGGTAAATC
* * * *
9824129 TACAAACCAAAGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTT-TGGTAATTTT
* * * *
9824184 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTT
** * *** *
9824239 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTT
9824293 TACAAA
1 TACAAA
9824299 CTAGAGGTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 45 0.47
55 14 0.15
56 36 0.38
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.41
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTT
Found at i:9824312 original size:81 final size:81
Alignment explanation
Indices: 9824196--9824351 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
9824186 GAAAGTCAAG
** * * * * **
9824196 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTA-CAAATTGAGGGTATTTCGG
1 GGTATTTCTGTAATTTTACAAACTAGAGGTATTTTGGTAATTCTACCAAATAG-GGGTATTTCAA
9824260 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
*
9824277 GGTATTT-TGGTAATTTTACAAACTAGAGGTATTTTGGTAATTCTACCATATAGGGGTATTTCAA
1 GGTATTTCT-GTAATTTTACAAACTAGAGGTATTTTGGTAATTCTACCAAATAGGGGTATTTCAA
9824341 TAATTTCACAA
65 TAATTTCACAA
9824352 TCGAGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.02
81 58 0.91
82 5 0.08
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (81 bp):
GGTATTTCTGTAATTTTACAAACTAGAGGTATTTTGGTAATTCTACCAAATAGGGGTATTTCAAT
AATTTCACAAACCAGT
Found at i:9824337 original size:54 final size:54
Alignment explanation
Indices: 9824194--9824318 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 54
9824184 TAGAAAGTCA
* *** * *
9824194 AGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAATAG
* *
9824248 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAG
*
9824303 A-GGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
9824319 CTACCATATA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 58 0.95
55 3 0.05
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAATAG
Found at i:9824380 original size:27 final size:27
Alignment explanation
Indices: 9824350--9824441 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
9824340 ATAATTTCAC
*
9824350 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
9824377 AATCGAGGATAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * * * *
9824404 AATCAAGAGTAAAATAGAAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
9824431 AATCGATGGTA
1 AATCGAGGGTA
9824442 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:9824506 original size:28 final size:27
Alignment explanation
Indices: 9824433--9824537 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
9824423 ATTCTATAAA
* * *
9824433 TCGATGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTATTTTAGTAATTTTACAAG
* *
9824460 TCGAGGGTATTTCAATAATTTTACAAG
1 TCGAGGGTATTTTAGTAATTTTACAAG
* *
9824487 TCAGGGGGTATTTTAGTAATTTTACAAA
1 TC-GAGGGTATTTTAGTAATTTTACAAG
* **
9824515 TCGAGGATATTTGGGTAATTTTA
1 TCGAGGGTATTTTAGTAATTTTA
9824538 TAAATTGGGG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 41 0.64
28 23 0.36
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
TCGAGGGTATTTTAGTAATTTTACAAG
Found at i:9824542 original size:27 final size:26
Alignment explanation
Indices: 9824222--9824542 Score: 101
Period size: 27 Copynumber: 11.9 Consensus size: 26
9824212 TGTAAATTAG
* *
9824222 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * *
9824249 GGGTATTTCGGTAATTTCACAAA-CCA
1 GGGTATTT-AGTAATTTTACAAATCGA
* *
9824275 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTA-TTTAGTAATTTTACAAATCGA
* * * *
9824302 GAGGTATTTTGGTAATTCTACCATATAG-
1 G-GGTA-TTTAGTAATTTTA-CAAATCGA
* *
9824330 GGGTATTTCAATAATTTCAC-AATCGA
1 GGGTATTT-AGTAATTTTACAAATCGA
*** **
9824356 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGT-ATTTAGTAATTTTACAAATCGA
* *** * ** *
9824383 GGATAAAACAGTAATTCTGTAAATCAA
1 GGGT-ATTTAGTAATTTTACAAATCGA
* ** * * *
9824410 GAGTAAAATAGAAATTCTATAAATCGA
1 GGGT-ATTTAGTAATTTTACAAATCGA
* * *
9824437 TGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * *
9824464 GGGTATTTCAATAATTTTACAAGTCAGG
1 GGGTATTT-AGTAATTTTACAAATC-GA
9824492 GGGTATTTTAGTAATTTTACAAATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * *
9824519 GGATATTTGGGTAATTTTATAAAT
1 GGGTATTT-AGTAATTTTACAAAT
9824543 TGGGGGGGTA
Statistics
Matches: 229, Mismatches: 51, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
25 3 0.01
26 27 0.12
27 169 0.74
28 27 0.12
29 3 0.01
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:9824635 original size:183 final size:184
Alignment explanation
Indices: 9824426--9824791 Score: 671
Period size: 183 Copynumber: 2.0 Consensus size: 184
9824416 AATAGAAATT
*
9824426 CTATAAATCGATGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCAG
1 CTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCAG
9824491 GGGGTATTTTAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATT-GGGGGGGTACT
66 GGGGTATTTTAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATTGGGGGGGGTACT
* * *
9824555 TTGGTAAACTAAAGTTTTCTAAACAGGGATAACAATATGAATGGGCCTAAAGTC
131 TTGGTAAACAAAAGTATTCTAAACAGGGATAACAATACGAATGGGCCTAAAGTC
9824609 CTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCAG
1 CTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCAG
9824674 GGGGTATTTTAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATTGGGGGGGGGTAC
66 GGGGTATTTTAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATT-GGGGGGGGTAC
*
9824739 TTTGGTAAACAAAAGTATTCTAAACAGGGATAATAATACGAATGGGCCTAAAG
130 TTTGGTAAACAAAAGTATTCTAAACAGGGATAACAATACGAATGGGCCTAAAG
9824792 CCCTTCGCGG
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 117 0.66
185 59 0.34
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (184 bp):
CTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCAG
GGGGTATTTTAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATTGGGGGGGGTACT
TTGGTAAACAAAAGTATTCTAAACAGGGATAACAATACGAATGGGCCTAAAGTC
Found at i:9824661 original size:27 final size:27
Alignment explanation
Indices: 9824631--9824709 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
9824621 GGTACTTTGG
9824631 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
9824658 TAATTTTACAAGTCAGGGGGTATTTTAG
1 TAATTTTACAAGTC-GAGGGTATTTCAA
* *
9824686 TAATTTTACAAATCGAGGATATTT
1 TAATTTTACAAGTCGAGGGTATTT
9824710 GGGTAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 22 0.49
28 23 0.51
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:9824689 original size:28 final size:27
Alignment explanation
Indices: 9824616--9824720 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
9824606 GTCCTATAAA
* *
9824616 TCGAGGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTATTTTAGTAATTTTACAAG
* *
9824643 TCGAGGGTATTTCAATAATTTTACAAG
1 TCGAGGGTATTTTAGTAATTTTACAAG
* *
9824670 TCAGGGGGTATTTTAGTAATTTTACAAA
1 TC-GAGGGTATTTTAGTAATTTTACAAG
* **
9824698 TCGAGGATATTTGGGTAATTTTA
1 TCGAGGGTATTTTAGTAATTTTA
9824721 TAAATTGGGG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 42 0.65
28 23 0.35
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
TCGAGGGTATTTTAGTAATTTTACAAG
Found at i:9831146 original size:40 final size:40
Alignment explanation
Indices: 9831102--9831325 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 40
9831092 AAGTGAATAT
* * * **
9831102 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATGTTAA
9831142 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TGTTAA
*
9831182 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATGTTAA
9831222 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TGTTAA
* * * **
9831262 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATGTTAA
* *
9831301 ATCCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
9831326 TGAACGAGGA
Statistics
Matches: 166, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 35 0.21
40 131 0.79
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATGTTAA
Found at i:9831200 original size:80 final size:80
Alignment explanation
Indices: 9831063--9831325 Score: 334
Period size: 80 Copynumber: 3.3 Consensus size: 80
9831053 TTGAATGCTG
* * * * * *
9831063 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
9831126 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
9831143 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
9831208 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
9831223 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
9831287 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
9831302 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
9831326 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 36 0.22
80 114 0.71
81 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:9833200 original size:53 final size:53
Alignment explanation
Indices: 9833120--9833226 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
9833110 ATAGATACAT
*
9833120 AAATAACAGATTAAACATACACAACAAGCTTATATACAGAAAATGGATTAATC
1 AAATAACAGATTAAACATACACAACAAGCTTATATACAGAAAACGGATTAATC
9833173 AAATAACAGATTAAACATACACAACAAGCTTATATACAGAAAACGGATTAATC
1 AAATAACAGATTAAACATACACAACAAGCTTATATACAGAAAACGGATTAATC
9833226 A
1 A
9833227 GACATGCATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.21
Consensus pattern (53 bp):
AAATAACAGATTAAACATACACAACAAGCTTATATACAGAAAACGGATTAATC
Found at i:9835225 original size:13 final size:13
Alignment explanation
Indices: 9835209--9835234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9835199 TAAAGAGAAA
9835209 GGAAATGAACAAG
1 GGAAATGAACAAG
9835222 GGAAATGAACAAG
1 GGAAATGAACAAG
9835235 TTTACAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.31, T:0.08
Consensus pattern (13 bp):
GGAAATGAACAAG
Found at i:9844416 original size:94 final size:94
Alignment explanation
Indices: 9844255--9844438 Score: 307
Period size: 94 Copynumber: 2.0 Consensus size: 94
9844245 TCTTTCTCAG
* * *
9844255 GATGGGTCCTTACAAACACTTCTATTGGGAAATAGGAAAACTAGTGGAGCTCTTAAGTTGAACTC
1 GATGGGTCCTCACAAACACTTCTATTGGAAAAAAGGAAAACTAGTGGAGCTCTTAAGTTGAACTC
9844320 CATATTGATCTTAATTCTGGCGGATCCAA
66 CATATTGATCTTAATTCTGGCGGATCCAA
* *
9844349 GATGGGTCCTCATAAACACTTCTCTTGGAAAACAAGG-AAACTAGTGGAGCTCTTAAGTTGAACT
1 GATGGGTCCTCACAAACACTTCTATTGGAAAA-AAGGAAAACTAGTGGAGCTCTTAAGTTGAACT
9844413 CCATATTGATCTTAATTCTGGCGGAT
65 CCATATTGATCTTAATTCTGGCGGAT
9844439 TCTCATACTG
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
94 81 0.96
95 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (94 bp):
GATGGGTCCTCACAAACACTTCTATTGGAAAAAAGGAAAACTAGTGGAGCTCTTAAGTTGAACTC
CATATTGATCTTAATTCTGGCGGATCCAA
Found at i:9845851 original size:25 final size:25
Alignment explanation
Indices: 9845801--9845851 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
9845791 CTTGAATGAC
* *
9845801 AGCTTGTGTGAGTAGGCTTATGATT
1 AGCTTGTGTGAGTAGCCCTATGATT
*
9845826 AGCTTGTGTGCG-AGCCCTATGTATT
1 AGCTTGTGTGAGTAGCCCTATG-ATT
9845851 A
1 A
9845852 CGAGATATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (25 bp):
AGCTTGTGTGAGTAGCCCTATGATT
Found at i:9849251 original size:43 final size:43
Alignment explanation
Indices: 9849185--9849302 Score: 136
Period size: 42 Copynumber: 2.8 Consensus size: 43
9849175 AACTCGTACA
*
9849185 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACATGAAATCAAATA-CG
** *
9849228 ATGCC-ACTGTCCCAGACAGGGTCTTACAAAAAATCATATACG
1 ATGCCAACTGTCCCAGACAGGGTCTTACATGAAATCAAATACG
* *
9849270 ATGCCGA-TGTCCCAGACATGGTCTTACATGAAA
1 ATGCCAACTGTCCCAGACAGGGTCTTACATGAAA
9849303 ACACATCTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
42 32 0.49
43 32 0.49
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACATGAAATCAAATACG
Found at i:9849285 original size:42 final size:43
Alignment explanation
Indices: 9849185--9849297 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
9849175 AACTCGTACA
***
9849185 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACAAAAAATCAAATATCG
*
9849228 ATGCCACTGTCCCAGACAGGGTCTTACAAAAAATCATATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACAAAAAATCAAATATCG
*
9849270 ATGCCGA-TGTCCCAGACATGGTCTTACA
1 ATGCC-ACTGTCCCAGACAGGGTCTTACA
9849298 TGAAAACACA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 29 0.47
43 32 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACAAAAAATCAAATATCG
Found at i:9850433 original size:13 final size:13
Alignment explanation
Indices: 9850415--9850439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9850405 ACAAACGATA
9850415 AAATTTTCACACG
1 AAATTTTCACACG
9850428 AAATTTTCACAC
1 AAATTTTCACAC
9850440 ATTTTAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:9856305 original size:42 final size:43
Alignment explanation
Indices: 9856215--9856311 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 43
9856205 GTCCTAGACG
* * * *
9856215 TGGTCTTACATGTAATCAAGTATTGATGCCACTGTCCCAGACA
1 TGGTCTTACATGAAATCAAGTATCGATGCCAATGTCCCAAACA
*
9856258 AGGTCTTACATGAAATC-A-TATACGATGCCAATGTCCCAAACA
1 TGGTCTTACATGAAATCAAGTAT-CGATGCCAATGTCCCAAACA
9856300 TGGTCTTACATG
1 TGGTCTTACATG
9856312 GAAACACATC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.06
42 29 0.62
43 15 0.32
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAGTATCGATGCCAATGTCCCAAACA
Found at i:9857448 original size:13 final size:13
Alignment explanation
Indices: 9857430--9857456 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9857420 CACAAATGAT
9857430 AAAATTTTCACAC
1 AAAATTTTCACAC
9857443 AAAATTTTCACAC
1 AAAATTTTCACAC
9857456 A
1 A
9857457 TTTTAATTCA
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:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:9858315 original size:21 final size:20
Alignment explanation
Indices: 9858291--9858332 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
9858281 TCATCATGAT
9858291 CATGCATCACA-ACATATGTTC
1 CATGCA-CACACACA-ATGTTC
*
9858312 CATGTACACACACAATGTTC
1 CATGCACACACACAATGTTC
9858332 C
1 C
9858333 CTCATAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (20 bp):
CATGCACACACACAATGTTC
Found at i:9863946 original size:15 final size:16
Alignment explanation
Indices: 9863920--9863949 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9863910 TGTTTAAATT
9863920 AAATGTTATGATTGTG
1 AAATGTTATGATTGTG
9863936 AAATG-TATGATTGT
1 AAATGTTATGATTGT
9863950 CATAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (16 bp):
AAATGTTATGATTGTG
Found at i:9870253 original size:27 final size:27
Alignment explanation
Indices: 9870219--9870309 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
9870209 TATTTACTTG
* *
9870219 AAAATGACTAAAATACCCCCATAGGGT
1 AAAATGACTAAAATACCCCAATAGGAT
* * *
9870246 AAATTGACCAAAATACCCTAATAGGAT
1 AAAATGACTAAAATACCCCAATAGGAT
** **
9870273 AAAATGACTGTAATACCCCTGTGAGG-T
1 AAAATGACTAAAATACCCCAAT-AGGAT
9870300 AAAATGACTA
1 AAAATGACTA
9870310 TTTTGCCCTT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 47 0.94
28 3 0.06
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAATGACTAAAATACCCCAATAGGAT
Found at i:9870329 original size:27 final size:27
Alignment explanation
Indices: 9870297--9870425 Score: 143
Period size: 27 Copynumber: 4.8 Consensus size: 27
9870287 ACCCCTGTGA
9870297 GGTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * * *
9870324 GATAAACTGACTATTTTTCCCTCATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
** *
9870351 GGTAAAATGAGGGA-TTTGCCCTTATAT
1 GGTAAAATGA-CTATTTTGCCCTTATGT
* *
9870378 GGTAAAATGACTAATTTGCCCTTAAGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* *
9870405 GGTAAGATGACTGTTTTGCCC
1 GGTAAAATGACTATTTTGCCC
9870426 CTACGTGATG
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 80 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:9870811 original size:18 final size:18
Alignment explanation
Indices: 9870762--9870811 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
9870752 CTGCATATTG
* *
9870762 TTACTGCTACTATACTGT
1 TTACTGTTACTGTACTGT
*
9870780 TTACTGTTATTGTACTGT
1 TTACTGTTACTGTACTGT
9870798 TTACTGTTACTGTA
1 TTACTGTTACTGTA
9870812 ATGGGGCAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (18 bp):
TTACTGTTACTGTACTGT
Found at i:9873762 original size:8 final size:8
Alignment explanation
Indices: 9873749--9873786 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
9873739 TCCAAAGGTT
9873749 GAAAAGCC
1 GAAAAGCC
9873757 GAAAAGCC
1 GAAAAGCC
*
9873765 -AAAAGGCT
1 GAAAA-GCC
9873773 GAAAAGCC
1 GAAAAGCC
9873781 GAAAAG
1 GAAAAG
9873787 TGAGTGGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 4 0.15
8 18 0.69
9 4 0.15
ACGTcount: A:0.53, C:0.18, G:0.26, T:0.03
Consensus pattern (8 bp):
GAAAAGCC
Found at i:9874264 original size:27 final size:27
Alignment explanation
Indices: 9874216--9874320 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
9874206 ACCCCTATAA
* *
9874216 GGTAAAATGACTGTTTTTCCCTTATGC
1 GGTAAAATGACTATTTTGCCCTTATGC
* * *
9874243 GAG-AAATTGACTATTTTGCCCTCATGT
1 G-GTAAAATGACTATTTTGCCCTTATGC
*
9874270 GGTAAAATGAC-AGTTTTGCCCTTATGT
1 GGTAAAATGACTA-TTTTGCCCTTATGC
* *
9874297 GGTAAAATGACTAATTTACCCTTA
1 GGTAAAATGACTATTTTGCCCTTA
9874321 GATGTTAAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 61 0.94
28 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGC
Found at i:9874308 original size:54 final size:54
Alignment explanation
Indices: 9874216--9874352 Score: 152
Period size: 54 Copynumber: 2.5 Consensus size: 54
9874206 ACCCCTATAA
* * * * *
9874216 GGTAAAATGACTGTTTTTCCCTTATGCGAGAAATTGACTATTTTGCCCTCATG-T
1 GGTAAAATGACTGTTTTGCCCTTATGTGAGAAAATGACTAATTTACCCTCA-GAT
* *
9874270 GGTAAAATGACAGTTTTGCCCTTATGTG-GTAAAATGACTAATTTACCCTTAGAT
1 GGTAAAATGACTGTTTTGCCCTTATGTGAG-AAAATGACTAATTTACCCTCAGAT
* * *
9874324 GTTAAGATGACTGTTTTGCCCCTATGTGA
1 GGTAAAATGACTGTTTTGCCCTTATGTGA
9874353 TGTATGTGTA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.03
54 67 0.97
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (54 bp):
GGTAAAATGACTGTTTTGCCCTTATGTGAGAAAATGACTAATTTACCCTCAGAT
Found at i:9874663 original size:24 final size:24
Alignment explanation
Indices: 9874618--9874663 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
9874608 TTATCCCCAC
* *
9874618 ATGGTGTGTAGGGTTGGTATGGAG
1 ATGGTGTGAAGGGCTGGTATGGAG
9874642 ATGGTGTGAAGGGGCTGG-ATGG
1 ATGGTGTGAA-GGGCTGGTATGG
9874664 GTAGGACCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.17, C:0.02, G:0.52, T:0.28
Consensus pattern (24 bp):
ATGGTGTGAAGGGCTGGTATGGAG
Found at i:9880823 original size:27 final size:27
Alignment explanation
Indices: 9880793--9880853 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
9880783 TATTTACTTG
9880793 AAAATGACCAAAATACCCCCA-TAGGAT
1 AAAATGACCAAAAT-CCCCCAGTAGGAT
** * *
9880820 AAAATGACTGAAATTCCCTAGTAGGAT
1 AAAATGACCAAAATCCCCCAGTAGGAT
9880847 AAAATGA
1 AAAATGA
9880854 TTGTAATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.20
Consensus pattern (27 bp):
AAAATGACCAAAATCCCCCAGTAGGAT
Found at i:9880934 original size:27 final size:27
Alignment explanation
Indices: 9880872--9881007 Score: 121
Period size: 27 Copynumber: 5.1 Consensus size: 27
9880862 CCCCTGTAAA
**
9880872 ATAAAATGACTATTTT-CCCTTATGCA
1 ATAAAATGACTATTTTGCCCTTATGTG
* * *
9880898 ACAAACTGACTATTTTGCCCTCATGTG
1 ATAAAATGACTATTTTGCCCTTATGTG
* ** *
9880925 GTAAAATGACGGTTTTCCCCTTATGTG
1 ATAAAATGACTATTTTGCCCTTATGTG
* * * *
9880952 GTAAAATGACTAATTTACCCTTAGGTG
1 ATAAAATGACTATTTTGCCCTTATGTG
* * *
9880979 ATAAGATGACTATTTTGCCCCTACGTG
1 ATAAAATGACTATTTTGCCCTTATGTG
9881006 AT
1 AT
9881008 GTATGTGTAT
Statistics
Matches: 86, Mismatches: 23, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
26 14 0.16
27 72 0.84
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (27 bp):
ATAAAATGACTATTTTGCCCTTATGTG
Found at i:9886721 original size:46 final size:46
Alignment explanation
Indices: 9886651--9886866 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 46
9886641 GGTAAGGTGC
* * * *
9886651 CGATGCAATGTCCCAAACACGGTCTTACACTGGCCA-CATCTCAAGT
1 CGATGC-ATGTCCCAGACATGGTCTTACACTGACTATCATCTCAAGT
* *
9886697 CGATGTCATGTCCCAGACATGGTCTTACATTGACTATTATCT--AGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGACTATCATCTCAAGT
* * * *
9886742 AACCGATGCATATCCCAGACAT-GTCTTACACTGGCT-TACGTATCAAGT
1 ---CGATGCATGTCCCAGACATGGTCTTACACTGACTAT-CATCTCAAGT
* * *
9886790 CGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCGAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGACTATCATCTC-AAGT
* *
9886838 CGACGCATGTCCCAGACAT-ATCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
9886867 AGCACTTGTC
Statistics
Matches: 136, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
45 9 0.07
46 64 0.47
47 48 0.35
48 15 0.11
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGACTATCATCTCAAGT
Found at i:9886824 original size:93 final size:91
Alignment explanation
Indices: 9886649--9886962 Score: 308
Period size: 93 Copynumber: 3.3 Consensus size: 91
9886639 TGGGTAAGGT
* * * * *
9886649 GCCGATGCAATGTCCCAAACACGGTCTTACACTGGCCACATCTCAAGTCGATGTCATGTCCCAGA
1 GCCGATGC-ATGTCCCAGACA-TGTCTTACACTGG-CACGTCTCAAGTCGATGCCATGTCCCAAA
* *
9886714 CATGGTCTTACATTGACTATTATCTAGTA
63 CATGGTCTTACACTGACTATCATCTAGTA
* * *
9886743 ACCGATGCATATCCCAGACATGTCTTACACTGGCTTACGTATCAAGTCGATGCCATGTCCCAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC--ACGTCTCAAGTCGATGCCATGTCCCAAAC
*
9886808 ATGGTCTTACACTGACTATCATCTCG-A
64 ATGGTCTTACACTGACTATCATCTAGTA
* * * * * * *
9886835 GGCCGACGCATGTCCCAGACATATCTTACACTAGCACTTGTCTTAATGCCGACGCCATGTCCTAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC--GTCTCAA-GTCGATGCCATGTCCCAA
* * * *
9886900 ACATGGTCACTTACACTGGCTCTCAT-AATGTG
62 ACATGGT--CTTACACTGACTATCATCTA-GTA
9886932 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
9886963 ATCCCACACA
Statistics
Matches: 182, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
91 3 0.02
92 13 0.07
93 92 0.51
94 29 0.16
96 45 0.25
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACGTCTCAAGTCGATGCCATGTCCCAAACAT
GGTCTTACACTGACTATCATCTAGTA
Found at i:9894453 original size:47 final size:47
Alignment explanation
Indices: 9894384--9894644 Score: 230
Period size: 47 Copynumber: 5.6 Consensus size: 47
9894374 AGGTGCCGAA
*
9894384 GCCATGTCCCAGACACGGTCTTACACTGGCTTACATCTCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGTCGAT
** *
9894431 GCCATGTCCCAGACATGGTCTTACACT-GAATATCATCTCGTAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTC-AAGTCGAT
** * *
9894479 G-CATGTCCCACTCAT-GTCTTATACTGGCTTACGTCTCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGTCGAT
* * *
9894524 GCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTC-AAGTCGAT
** * * * * * * *
9894572 -ATATGTCCTAGGCAT-GTCTTGCACTAGCACT-CATCTCAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCAA-GTCGAT
*
9894618 GCCATGTCCTAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
9894645 AGCTCTCATA
Statistics
Matches: 171, Mismatches: 31, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
45 9 0.05
46 52 0.30
47 86 0.50
48 24 0.14
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGTCGAT
Found at i:9894578 original size:93 final size:93
Alignment explanation
Indices: 9894401--9894644 Score: 312
Period size: 93 Copynumber: 2.6 Consensus size: 93
9894391 CCCAGACACG
9894401 GTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGAATATCA
1 GTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGAATATCA
* * *
9894466 TCTCGTAGTCGATGCATGTCCCACTCAT
66 TCTCGTAGCCGATACATGTCCCACGCAT
* * *
9894494 GTCTTATACTGGCTTACGTCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA
1 GTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGAATATCA
* * *
9894559 TCTCG-AGGCCGATATATGTCCTAGGCAT
66 TCTCGTA-GCCGATACATGTCCCACGCAT
* * * * * *
9894587 GTCTTGCACTAGCACT-CATCTCAATGCCAATGCCATGTCCTAGACATGGTCTTACACT
1 GTCTTACACTGGC-TTACATCTCAA-GTCGATGCCATGTCCCAGACATGGTCTTACACT
9894645 AGCTCTCATA
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
92 1 0.01
93 99 0.76
94 31 0.24
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (93 bp):
GTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGAATATCA
TCTCGTAGCCGATACATGTCCCACGCAT
Found at i:9894663 original size:94 final size:94
Alignment explanation
Indices: 9894429--9894693 Score: 245
Period size: 93 Copynumber: 2.8 Consensus size: 94
9894419 TCTCAAGTCG
* * * * * **
9894429 ATGCCATGTCCCAGACATGGTCTTACACTGAATATCATCTCGTA-GTCGATGCATGTCCCACTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATCG-AGGCCGATACATGTCTCAGGCA
* * * * * * *
9894493 TGTCTTATACTGGC-TTACGTCTCAA-GTCG
65 TATCTTACACTAGCACT-CATCTCAATGCCA
* *
9894522 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAGGCCGATATATGTC-CTAGGCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATCGAGGCCGATACATGTCTC-AGGCA
* *
9894586 TGTCTTGCACTAGCACTCATCTCAATGCCA
65 TATCTTACACTAGCACTCATCTCAATGCCA
* * * *
9894616 ATGCCATGTCCTAGACATGGTCTTACACT-AGCTCTCATAAT-GTGGCCGATGCATGTCTCAGGC
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCAT-ATCGAGGCCGATACATGTCTCAGGC
9894679 ATATCTTACACTAGC
64 ATATCTTACACTAGC
9894694 CCACACACAA
Statistics
Matches: 144, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
92 2 0.01
93 73 0.51
94 67 0.47
95 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATCGAGGCCGATACATGTCTCAGGCAT
ATCTTACACTAGCACTCATCTCAATGCCA
Found at i:9894671 original size:47 final size:47
Alignment explanation
Indices: 9894520--9894693 Score: 112
Period size: 47 Copynumber: 3.7 Consensus size: 47
9894510 CGTCTCAAGT
* * * *
9894520 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCAT-CTCGAGGC
1 CGATGCCATGTCCTAGACAT-GTCTTACACTAG-CTCTCATAAT-GTGGC
** * * *
9894568 CGAT-ATATGTCCTAGGCATGTCTTGCACTAGCACTCATCTCAA--T-GC
1 CGATGCCATGTCCTAGACATGTCTTACACTAGCTCTCA--T-AATGTGGC
*
9894614 CAATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATGTGGC
1 CGATGCCATGTCCTAGACAT-GTCTTACACTAGCTCTCATAATGTGGC
* *
9894662 CGATG-CATGT-CTCAGGCATATCTTACACTAGC
1 CGATGCCATGTCCT-AGACATGTCTTACACTAGC
9894694 CCACACACAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
45 2 0.02
46 33 0.34
47 35 0.36
48 27 0.28
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCTAGACATGTCTTACACTAGCTCTCATAATGTGGC
Found at i:9895113 original size:30 final size:30
Alignment explanation
Indices: 9895026--9895113 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
9895016 TAATTTACAT
* * *
9895026 CTTTGGTAAAATGACCATTTTACCTCAAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
* *
9895056 CTTTGGCAAAATAACCATTTTATCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
*
9895086 CTTTGGCAAAATGACTATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
9895114 TGATCGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:9905914 original size:13 final size:13
Alignment explanation
Indices: 9905896--9905927 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
9905886 AACACACGAG
9905896 CGTGTGTCTTGAC
1 CGTGTGTCTTGAC
9905909 CGTGTGTCTTGAC
1 CGTGTGTCTTGAC
9905922 CGTGTG
1 CGTGTG
9905928 AATCCTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.34, T:0.38
Consensus pattern (13 bp):
CGTGTGTCTTGAC
Found at i:9907028 original size:5 final size:5
Alignment explanation
Indices: 9907014--9907056 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
9907004 CCATTCTTCC
* *
9907014 TTCTT TTCCT TTCCT TTCTT TTCTT TTCTT TTCTT TT-TT TTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
9907057 CCATCTATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTCTT
Found at i:9907871 original size:8 final size:8
Alignment explanation
Indices: 9907858--9907892 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
9907848 CTAGATCGGC
9907858 AAAAGCCG
1 AAAAGCCG
9907866 AAAAGCCG
1 AAAAGCCG
*
9907874 AAATGCCG
1 AAAAGCCG
*
9907882 AAATGCCG
1 AAAAGCCG
9907890 AAA
1 AAA
9907893 GGCTAGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.49, C:0.23, G:0.23, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:9908185 original size:28 final size:28
Alignment explanation
Indices: 9908145--9908209 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
9908135 ATGTACTATT
*
9908145 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATGACCATA
* *
9908173 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATA
9908201 ATACCCCTA
1 ATACCCCTA
9908210 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATA
Found at i:9908373 original size:27 final size:27
Alignment explanation
Indices: 9908325--9908404 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
9908315 CTGGTGGTTA
*
9908325 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAA-TATCTGTTCTGGTGGCAC
* *
9908353 TGCCACATATATCTGTTCTGGTGGCAT
1 TGCCACAAATATCTGTTCTGGTGGCAC
9908380 TGCCACAAAATATCTGTATCTGGTG
1 TGCCAC-AAATATCTGT-TCTGGTG
9908405 ACTCTGTCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 22 0.48
28 17 0.37
29 7 0.15
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTGGCAC
Found at i:9908423 original size:55 final size:56
Alignment explanation
Indices: 9908325--9908429 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 56
9908315 CTGGTGGTTA
* *
9908325 TGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-TCTGGTGGCAT
1 TGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTATCTGGTGGCAT
* * *
9908380 TGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTATCTGG
9908430 AAGCCATGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
55 22 0.51
56 21 0.49
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (56 bp):
TGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTATCTGGTGGCAT
Found at i:9914767 original size:5 final size:5
Alignment explanation
Indices: 9914750--9914787 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
9914740 CCATTCTTCC
*
9914750 TTCTT TTCCT TTCTT TTCTT TTCTT TTCTT TT-TT TTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
9914788 CCATCTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:9915613 original size:16 final size:15
Alignment explanation
Indices: 9915587--9915618 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
9915577 GCTAGATCGG
9915587 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
9915602 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
9915618 C
1 C
9915619 GGTATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:9915924 original size:28 final size:28
Alignment explanation
Indices: 9915862--9915926 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
9915852 TAGATGTACT
*
9915862 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATAACC
*
9915890 ATAATACCCCTATGTATGCAAAATAACC
1 ATTATACCCCTATGTATGCAAAATAACC
*
9915918 TTTATACCC
1 ATTATACCC
9915927 TAGGGTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATAACC
Found at i:9916096 original size:27 final size:28
Alignment explanation
Indices: 9916044--9916107 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
9916034 CTGGTGGTTA
*
9916044 TGCCACAAATTATATGTTCTGGTGGCCC
1 TGCCACAAATTATATGTTCTGGTGGCAC
* * *
9916072 TGCCACATA-TATCTGTTCTGGTGGCAT
1 TGCCACAAATTATATGTTCTGGTGGCAC
9916099 TGCCACAAA
1 TGCCACAAA
9916108 ATANNNNNNN
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (28 bp):
TGCCACAAATTATATGTTCTGGTGGCAC
Found at i:9916952 original size:11 final size:10
Alignment explanation
Indices: 9916924--9916957 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9916914 AGCTTGTAAG
9916924 TATTCTGAAT
1 TATTCTGAAT
*
9916934 TTTTCTGAAT
1 TATTCTGAAT
9916944 ATATTCTGAAT
1 -TATTCTGAAT
9916955 TAT
1 TAT
9916958 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:9922844 original size:8 final size:8
Alignment explanation
Indices: 9922831--9922861 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9922821 CTAGATCGGC
9922831 AAAAGCCG
1 AAAAGCCG
9922839 AAAAGCCG
1 AAAAGCCG
*
9922847 AAATGCCG
1 AAAAGCCG
9922855 AAAAGCC
1 AAAAGCC
9922862 CGTATTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:9923141 original size:28 final size:28
Alignment explanation
Indices: 9923109--9923201 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
9923099 ATTTACTAGA
*
9923109 ATACCCCTATGTATGCAATATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
9923137 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
9923165 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
9923193 ATACCCCTA
1 ATACCCCTA
9923202 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:9923365 original size:27 final size:27
Alignment explanation
Indices: 9923307--9923396 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
9923297 AGGAAGCGTC
9923307 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
9923335 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
9923362 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
9923391 CTGGTG
1 CTGGTG
9923397 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:9923415 original size:55 final size:56
Alignment explanation
Indices: 9923307--9923421 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
9923297 AGGAAGCGTC
* *
9923307 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
9923362 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
9923418 CTGG
1 CTGG
9923422 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:9925703 original size:26 final size:26
Alignment explanation
Indices: 9925666--9925749 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9925656 TGATACAAAT
* *
9925666 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9925692 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9925718 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9925744 TGATAA
1 TGATAA
9925750 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:9927473 original size:27 final size:27
Alignment explanation
Indices: 9927369--9927483 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
9927359 TGGAGGAAGC
*
9927369 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
**
9927396 AATCTGGTGGCTCTGCCAC-ATATATCT
1 GTTCTGGTGGCTCTGCCACAAT-TATCT
*
9927423 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
* *
9927450 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTCTGCCACAATTATCT
9927477 GTTCTGG
1 GTTCTGG
9927484 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAATTATCT
Found at i:9927476 original size:54 final size:54
Alignment explanation
Indices: 9927369--9927483 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
9927359 TGGAGGAAGC
*
9927369 GTTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGACTCTGCCACATATATCT
* * * *
9927423 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT-AATCTGGTGACTCTGCCACATATATCT
9927477 GTTCTGG
1 GTTCTGG
9927484 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGACTCTGCCACATATATCT
Found at i:9938423 original size:29 final size:28
Alignment explanation
Indices: 9938390--9938444 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
9938380 AAGTTATACC
*
9938390 AATTTGGCCTCGGGCCATGAATATCAGAT
1 AATTTGGCCTCGGGCAATG-ATATCAGAT
*
9938419 AATTTGGCTTCGGGCAATGATATCAG
1 AATTTGGCCTCGGGCAATGATATCAG
9938445 TATTTCGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (28 bp):
AATTTGGCCTCGGGCAATGATATCAGAT
Found at i:9944669 original size:13 final size:13
Alignment explanation
Indices: 9944653--9944677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9944643 GATATAATAA
9944653 AATAAAATAAAAT
1 AATAAAATAAAAT
9944666 AATAAAATAAAA
1 AATAAAATAAAA
9944678 GTATTGATTG
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:9958116 original size:40 final size:40
Alignment explanation
Indices: 9958059--9958240 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
9958049 CTAACGAGGT
* * * * * *
9958059 TAAGTCCAGAAGACATTTGTGCTAGTGATTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
9958099 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
9958139 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
9958179 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
9958219 TAAGTCCCGAAGGCATTTGTGC
1 TAAGTCCCGAAGGCATTTGTGC
9958241 TAGTGGCCAT
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.01
40 130 0.99
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:9958253 original size:40 final size:40
Alignment explanation
Indices: 9958059--9958308 Score: 267
Period size: 40 Copynumber: 6.3 Consensus size: 40
9958049 CTAACGAGGT
* * * * *
9958059 TAAGTCCAGAAGACATTTGTGCTAGTGATTA-ATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
*
9958099 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
* *
9958139 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-TCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTA-TATCCGGGC
*
9958179 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * * *
9958219 TAAGTCCCGAAGGCATTTGTGCTAGTGGCCATATCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * * **
9958259 TAAGACCCGACGGC-CTTGTGCGAGTGGTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
9958297 TAAATCCCGAAG
1 TAAGTCCCGAAG
9958309 ATAATTGGGT
Statistics
Matches: 185, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 12 0.06
39 18 0.10
40 155 0.84
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
Found at i:9970939 original size:28 final size:26
Alignment explanation
Indices: 9970903--9970969 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
9970893 TCATTATTCA
* *
9970903 TTTTGTGTTTATAAAAATTCTCTTTGAG
1 TTTTCTGTTTA-AAAAATTCTC-ATGAG
* *
9970931 TTTTCTGTTTAAGAATTTCTCATGAG
1 TTTTCTGTTTAAAAAATTCTCATGAG
9970957 TTTTCT-TTTAAAA
1 TTTTCTGTTTAAAA
9970970 GTGTTTTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 6 0.18
26 10 0.29
27 8 0.24
28 10 0.29
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.54
Consensus pattern (26 bp):
TTTTCTGTTTAAAAAATTCTCATGAG
Found at i:9972590 original size:13 final size:14
Alignment explanation
Indices: 9972572--9972606 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
9972562 TCTTGAACCA
9972572 CAAACCTTGAA-CT
1 CAAACCTTGAATCT
9972585 CAAACCTTGAATCT
1 CAAACCTTGAATCT
*
9972599 TAAACCTT
1 CAAACCTT
9972607 TAACCCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.29
Consensus pattern (14 bp):
CAAACCTTGAATCT
Found at i:9972678 original size:20 final size:20
Alignment explanation
Indices: 9972645--9972698 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
9972635 GGGTTAAGGA
* * *
9972645 TTTAAGGTTGAAGGTTGAAG
1 TTTAGGGTTCAAGGTTCAAG
*
9972665 TTTGGGGTTCAAGGTTCAAG
1 TTTAGGGTTCAAGGTTCAAG
*
9972685 TTTAGTGTTCAAGG
1 TTTAGGGTTCAAGG
9972699 GTTTGGGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.06, G:0.33, T:0.37
Consensus pattern (20 bp):
TTTAGGGTTCAAGGTTCAAG
Found at i:9972747 original size:14 final size:15
Alignment explanation
Indices: 9972728--9972765 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
9972718 AAGTTTGAGA
9972728 TTTAGGGTTCTA-GG
1 TTTAGGGTTCTATGG
9972742 TTTAGGGTT-TATGG
1 TTTAGGGTTCTATGG
*
9972756 TTTATGGTTC
1 TTTAGGGTTC
9972766 ATGATTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.13, C:0.05, G:0.32, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTCTATGG
Found at i:9979878 original size:41 final size:41
Alignment explanation
Indices: 9979785--9979888 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 41
9979775 CTACTCGCTC
*
9979785 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACA
* * *
9979825 AATGCCTTCGGGACTTAGCCCGGAA-CTAGTCACT-AGCGCAA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCA-CAC-A
9979866 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
9979889 TTATCATCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 29 0.51
41 27 0.47
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (41 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACA
Found at i:9987438 original size:40 final size:40
Alignment explanation
Indices: 9987345--9987522 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
9987335 AAGCCAAGTA
* * *
9987345 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCGCAAATG
* *
9987383 CCTTCGGGACATAGCCCGGATATAGTAACTCGCGCCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
* * *
9987423 CCTTCGGGACGTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
* * * *
9987463 CCTTCTGGACTTAGCCCAGA-ACTAGTCACTAGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCGC-AAATG
9987504 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
9987523 TTATCATCCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 12 0.10
39 18 0.15
40 67 0.56
41 22 0.18
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
Found at i:9991775 original size:47 final size:46
Alignment explanation
Indices: 9991700--9991964 Score: 232
Period size: 47 Copynumber: 5.7 Consensus size: 46
9991690 GGTAAAGTGT
* * *
9991700 CGATGCCATGTCCCTGACACGGTCTTACACTGGCTCACATCTCAAGT
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCAAGC
* * * *
9991747 CGATGCCATGTCCCAGACATGGTTTTACACT-GATTATCATCTCGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTC-AAGC
* * *
9991795 CGATG-AATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGT
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGC
** *
9991840 CGATGCCATGTCCCAGACATGTTCTTACACTCACT-ATCATCTCGAGGC
1 CGATGCCATGTCCCAGACATG-TCTTACACTGGCTCA-CATCTC-AAGC
* * * * ***
9991888 CGGTG-CATGTCCTAGACATGTCTTACACTAGCACTTGTCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GC
*
9991934 CGATGCCATGTCCTAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACAT-GTCTTACACT
9991965 ATATCTCATA
Statistics
Matches: 179, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
45 8 0.04
46 53 0.30
47 95 0.53
48 23 0.13
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGC
Found at i:9991880 original size:93 final size:90
Alignment explanation
Indices: 9991700--9992010 Score: 333
Period size: 93 Copynumber: 3.3 Consensus size: 90
9991690 GGTAAAGTGT
* *
9991700 CGATGCCATGTCCCTGACACGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGAC
1 CGATG-CATGTCCCAGACA-TGTCTTACACTGGCT-ACATCTCAAGTCGATGCCATGTCCCAGAC
9991765 ATGGTT-TTACACTGATTATCATCTCGTAGC
63 AT-GTTCTTACACT-A-TATCATCTCGTAGC
*
9991795 CGATGAATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TACATCTCAAGTCGATGCCATGTCCCAGACAT
9991860 GTTCTTACACTCACTATCATCTCG-AGGC
65 GTTCTTACACT-A-TATCATCTCGTA-GC
* * * * * *
9991888 CGGTGCATGTCCTAGACATGTCTTACACTAGC-ACTTGTCTCAATGCCGATGCCATGTCCTAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAC--ATCTCAA-GTCGATGCCATGTCCCAGAC
* * *
9991952 ATGGTCTTACACTATATC-TCATAATGTGGC
63 ATGTTCTTACACTATATCATC-T--CGTAGC
*
9991982 CGATGCATGCCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
9992011 AGCCCACACA
Statistics
Matches: 188, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
91 4 0.02
92 9 0.05
93 99 0.53
94 71 0.38
95 5 0.03
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (90 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCAAGTCGATGCCATGTCCCAGACATG
TTCTTACACTATATCATCTCGTAGC
Found at i:9992990 original size:26 final size:26
Alignment explanation
Indices: 9992954--9993005 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
9992944 CTTTTAAGAC
*
9992954 CCCCAATTTTTATTCTCTAGCTATTT
1 CCCCAAGTTTTATTCTCTAGCTATTT
9992980 CCCCAAGTTTTATTCTCTAGCTATTT
1 CCCCAAGTTTTATTCTCTAGCTATTT
9993006 GACACCTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.27, G:0.06, T:0.48
Consensus pattern (26 bp):
CCCCAAGTTTTATTCTCTAGCTATTT
Found at i:9995482 original size:28 final size:28
Alignment explanation
Indices: 9995451--9995549 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
9995441 ACACCCGATC
9995451 TCGCACACATAGTGCTCGGTTAATAATT
1 TCGCACACATAGTGCTCGGTTAATAATT
* ** *
9995479 TCGCGCACATAGTGC-C--TTACACCCGATC
1 TCGCACACATAGTGCTCGGTTA-A--TAATT
9995507 TCGCACACATAGTGCTCGGTTAATAATT
1 TCGCACACATAGTGCTCGGTTAATAATT
9995535 TCGCACACATAGTGC
1 TCGCACACATAGTGC
9995550 ATATATTCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 1 0.02
28 47 0.82
29 1 0.02
30 1 0.02
31 3 0.05
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAATAATT
Found at i:9995497 original size:56 final size:56
Alignment explanation
Indices: 9995426--9995549 Score: 230
Period size: 56 Copynumber: 2.2 Consensus size: 56
9995416 TAATTTCACA
*
9995426 CACACACAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAATTTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAATTTCG
*
9995482 CGCACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAATTTCG
1 CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAATTTCG
9995538 CACACATAGTGC
1 CACACATAGTGC
9995550 ATATATTCAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (56 bp):
CACACATAGTGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAATTTCG
Found at i:10012827 original size:47 final size:48
Alignment explanation
Indices: 10012755--10013010 Score: 212
Period size: 47 Copynumber: 5.4 Consensus size: 48
10012745 GGTAAGGTGC
** *
10012755 CAATGCCATGTCCCAGACACAGTCTTACA-TTAGCTCA-CATCTC-AAGT
1 CAATGCCATGTCCCAGACATGGTCTTACACTGA-CT-ATCATCTCGAAGT
*
10012802 CAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAG-
1 CAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGT
* * *
10012849 CTGATG-CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAGGC
1 C-AATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGT
* *
10012897 CGATG-CATGTCCCAGACAT-GTCTTACACT-AGC-ACTCGTCTC-AA-T
1 CAATGCCATGTCCCAGACATGGTCTTACACTGA-CTA-TCATCTCGAAGT
* * * ** ** *
10012941 GCAGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAACGTGGC
1 -CA-ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGT
10012991 CAATG-CATGTCCCAGACATG
1 CAATGCCATGTCCCAGACATG
10013011 TTTAACACTA
Statistics
Matches: 173, Mismatches: 21, Indels: 30
0.77 0.09 0.13
Matches are distributed among these distances:
45 4 0.02
46 21 0.12
47 120 0.69
48 26 0.15
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGT
Found at i:10012953 original size:94 final size:95
Alignment explanation
Indices: 10012757--10013022 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 95
10012747 TAAGGTGCCA
** * * *
10012757 ATGCCATGTCCCAGACACAGTCTTACA-TTAGCTCA-CATCTC-AAGTCAATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CT-ATCATCTCGAGGCCAATG-CATGTCCCAGA
* *
10012819 CATGGTCTTACACT-G-ACTATCATCTCGTAGCTG
63 CAT-GTCTTACACTAGCAC-ATCATCTCATAGCAG
*
10012852 ATG-CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAGGCCAATGCATGTCCCAGACAT
*
10012916 GTCTTACACTAGCAC-TCGTCTCA-ATGCAG
66 GTCTTACACTAGCACATCATCTCATA-GCAG
* * * ** *
10012945 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAACGTGGCCAATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAGGCCAATGCATGTCCCAGACAT
10013010 GT-TTAACACTAGC
66 GTCTT-ACACTAGC
10013023 CCACACACAA
Statistics
Matches: 147, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
92 1 0.01
93 25 0.17
94 108 0.73
95 13 0.09
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAGGCCAATGCATGTCCCAGACAT
GTCTTACACTAGCACATCATCTCATAGCAG
Found at i:10013412 original size:30 final size:30
Alignment explanation
Indices: 10013355--10013412 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
10013345 AAATTCACAT
* * * *
10013355 CTTTGGTAAAATGATCATTTTGCCCCTAGA
1 CTTTGGCAAAATAACCATTTTACCCCTAGA
*
10013385 CTTTGGCAAAATAACCATTTTATCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
10013413 TTCTTGAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGA
Found at i:10016383 original size:26 final size:26
Alignment explanation
Indices: 10016308--10016384 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
10016298 ACACTAATAT
* *
10016308 CGCAGCAAAGCTGCCAGTAATAATAC
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* * * *
10016334 CACAACAAAGTTGGCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
10016360 CGCAGCAAAGCTGCCAGTATTAGTA
1 CGCAGCAAAGCTGCCAGTAATAGTA
10016385 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:10020112 original size:17 final size:17
Alignment explanation
Indices: 10020092--10020125 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10020082 CCCACTAGTA
10020092 TATATTATATATAACAC
1 TATATTATATATAACAC
10020109 TATATTATATATAACAC
1 TATATTATATATAACAC
10020126 CAAAACCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATTATATATAACAC
Found at i:10020646 original size:13 final size:13
Alignment explanation
Indices: 10020628--10020655 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10020618 GTTTTTAAAA
10020628 CAGGGTTACAGAG
1 CAGGGTTACAGAG
10020641 CAGGGTTACAGAG
1 CAGGGTTACAGAG
10020654 CA
1 CA
10020656 TCACCGGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.36, T:0.14
Consensus pattern (13 bp):
CAGGGTTACAGAG
Found at i:10025009 original size:17 final size:15
Alignment explanation
Indices: 10024958--10025009 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 15
10024948 TCAAACCTGG
10024958 TTTTATTT-TTAATA
1 TTTTATTTATTAATA
*
10024972 TTTTA-TTATTACTA
1 TTTTATTTATTAATA
10024986 TTATTATTTAATTAATCA
1 TT-TTATTT-ATTAAT-A
10025004 TTTTAT
1 TTTTAT
10025010 CCTATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 3 0.10
16 2 0.06
17 9 0.29
18 3 0.10
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATTTATTAATA
Found at i:10026534 original size:23 final size:22
Alignment explanation
Indices: 10026482--10026535 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
10026472 TTTACATATA
*
10026482 AAAATGTAGTAAAATAATTAAT
1 AAAATATAGTAAAATAATTAAT
*
10026504 ATATATATAGTAAAA-ATATATAAT
1 A-AAATATAGTAAAATA-AT-TAAT
10026528 AAAATATA
1 AAAATATA
10026536 AATGGAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 19 0.73
24 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (22 bp):
AAAATATAGTAAAATAATTAAT
Found at i:10027359 original size:17 final size:18
Alignment explanation
Indices: 10027337--10027374 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10027327 TTAAATGGAC
*
10027337 TGTTTAA-TTTTATTTTT
1 TGTTTAATTTTTAATTTT
10027354 TGTTTAATTTTTAATTTT
1 TGTTTAATTTTTAATTTT
10027372 TGT
1 TGT
10027375 AAGCCGTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TGTTTAATTTTTAATTTT
Found at i:10027985 original size:44 final size:44
Alignment explanation
Indices: 10027532--10027960 Score: 655
Period size: 44 Copynumber: 9.8 Consensus size: 44
10027522 GATGTCCTTG
* * *
10027532 AGAGACGCCAAATCTGCT-TCTTCGATTTTGTTC-CTTATCAATAC
1 AGAGACGCCAAATCTGCTATCTTCGA-TCTGCTCTCTGA-CAATAC
* * *
10027576 AGAGACGCCAAATCCGCTATCTTCAATCTGCTCTCTGACAATAT
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
* * *
10027620 AGAGGCGCCAAATCTACTATCTTTGATCTGCTCTCTGACAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
10027664 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
* *
10027708 AGAGACACCAAATCTGCGATCTTCGATCTGCTCTCTGACAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
* *
10027752 AGAGACGCCAAATCTACTATTTTCGATCTGCTCTCTGACAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
* * *
10027796 AAAGACGCCAAATCTGCTATCTTCGATCTACTTTCTGACAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
*
10027840 AGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
*
10027884 AGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
*
10027928 AGAGAGGCCAAATCTGCTATCTTCGATCTGCTC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTC
10027961 CTTGTAAACG
Statistics
Matches: 349, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
44 340 0.97
45 9 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
Found at i:10034983 original size:104 final size:104
Alignment explanation
Indices: 10034803--10035010 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
10034793 TTAAAATAAT
*
10034803 TTTGTATTAACAAATGATTTAATAATTGAAATAAAAGGATTTAAATAAAAGAGAAGAAGGAGGAT
1 TTTGTATTAACAAATGATTTAATAATTGAAATAAAAGGAATTAAATAAAAGAGAAGAAGGAGGAT
10034868 GGTGTTCATCTTCTTCTCATACCTCCCTCAAGCCGAAAC
66 GGTGTTCATCTTCTTCTCATACCTCCCTCAAGCCGAAAC
10034907 TTTGTATTAACAAATGATTTAATAATTGAAATAAAAGGAATTAAATAAAAGAGAAGAAGGAGGAT
1 TTTGTATTAACAAATGATTTAATAATTGAAATAAAAGGAATTAAATAAAAGAGAAGAAGGAGGAT
10034972 GGTGTTCATCTTCTTCTCATACCTCCCTCAAGCCGAAAC
66 GGTGTTCATCTTCTTCTCATACCTCCCTCAAGCCGAAAC
10035011 AAGGATGAAA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (104 bp):
TTTGTATTAACAAATGATTTAATAATTGAAATAAAAGGAATTAAATAAAAGAGAAGAAGGAGGAT
GGTGTTCATCTTCTTCTCATACCTCCCTCAAGCCGAAAC
Done.