Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 273 of 333
Found at i:90303597 original size:27 final size:26
Alignment explanation
Indices: 90303549--90303608 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
90303539 GCGAAGCTGC
* *
90303549 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
90303576 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
90303602 CAGATAT
1 CAGATAT
90303609 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:90303986 original size:27 final size:27
Alignment explanation
Indices: 90303954--90304185 Score: 275
Period size: 27 Copynumber: 8.6 Consensus size: 27
90303944 TACTGCACAA
* * *
90303954 GGGTATCTCGGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* **
90303981 GAGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
90304008 GGGTATTTTGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
90304035 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
** *
90304062 GGGTATTTTAGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
90304089 GGGTATTTCGGTATTTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
90304116 GGGCATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
90304143 GGGTATTTCGGCATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
90304170 AGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
90304186 TTATAAACTG
Statistics
Matches: 174, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:90304068 original size:81 final size:81
Alignment explanation
Indices: 90303950--90304182 Score: 304
Period size: 81 Copynumber: 2.9 Consensus size: 81
90303940 ATTTTACTGC
* * * * *
90303950 ACAAGGGTATCTCGGTAATTCTACCTTATAGGAGTATTTCAATAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATT
*
90304015 TTGGTATTTCTACCCT
66 TCGGTATTTCTACCCT
* * *
90304031 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATT
90304096 TCGGTATTTCTACCCT
66 TCGGTATTTCTACCCT
* * * * *** * *
90304112 ACAGGGGCATTTCGGTATTTCTACCCTACAAGGGTATTTCGGCATTTCTACCCTACAAAGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATT
90304177 TCGGTA
66 TCGGTA
90304183 ATTTTATAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 133 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATT
TCGGTATTTCTACCCT
Found at i:90304253 original size:27 final size:26
Alignment explanation
Indices: 90304217--90304510 Score: 148
Period size: 27 Copynumber: 10.9 Consensus size: 26
90304207 GTAATTCTGT
* *
90304217 AAATCAAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTA-TTTAGTAATTTTAC
* *
90304244 AAGTCGAGGGTATTTCAATAATTTTAC
1 AAATCGAGGGTATTT-AGTAATTTTAC
** *
90304271 AGGTCGAGGGTATTTCAGTAATTTCAC
1 AAATCGAGGGTATTT-AGTAATTTTAC
*
90304298 AAATC-AGGGGTATTTTAATAATTTTAC
1 AAATCGA-GGGTA-TTTAGTAATTTTAC
* * *
90304325 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTA-TTTAGTAATTTTAC
* *
90304352 AAAT-TAGGGGTATTTTAGTAATTTTAT
1 AAATCGA-GGGTA-TTTAGTAATTTTAC
* * **
90304379 AAA-CCAGGGGTATTTTGGTAATTTTGT
1 AAATCGA-GGGTA-TTTAGTAATTTTAC
* *
90304406 AAA-CAAAGGGTATTTTGGTAATTTTAC
1 AAATC-GAGGGTA-TTTAGTAATTTTAC
* * * *
90304433 AAA-CTAGGGGTATTTTGGTGATTTTAT
1 AAATCGA-GGGTA-TTTAGTAATTTTAC
* * *
90304460 AAACCAAGGGTATTTTATTAATTTTAC
1 AAATCGAGGGTA-TTTAGTAATTTTAC
* * *
90304487 AAACCAAGGGTATTTTGGTAATTT
1 AAATCGAGGGTA-TTTAGTAATTT
90304511 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.03
27 211 0.94
28 7 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (26 bp):
AAATCGAGGGTATTTAGTAATTTTAC
Found at i:90304302 original size:81 final size:81
Alignment explanation
Indices: 90304217--90304501 Score: 250
Period size: 81 Copynumber: 3.5 Consensus size: 81
90304207 GTAATTCTGT
* * ** * **
90304217 AAATCAAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGA-GGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAAT-GAGGGG
90304281 TATTTCAGTAATTTCAC
65 TATTTCAGTAATTTCAC
** *** *
90304298 AAATCAGGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATTAGGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAATGAGGGGT
* * *
90304363 ATTTTAGTAATTTTAT
66 ATTTCAGTAATTTCAC
* ** * ***
90304379 AAACCAGGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACT-AGGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAA-TGAGGGG
** * * *
90304443 TATTTTGGTGATTTTAT
65 TATTTCAGTAATTTCAC
* * **
90304460 AAACCAAGGGTATTTTATTAATTTTACAAACCAAGGGTATTT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
90304502 TGGTAATTTG
Statistics
Matches: 172, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 170 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAATGAGGGGT
ATTTCAGTAATTTCAC
Found at i:90304517 original size:27 final size:27
Alignment explanation
Indices: 90304277--90304510 Score: 252
Period size: 27 Copynumber: 8.7 Consensus size: 27
90304267 TTACAGGTCG
** * * *
90304277 AGGGTATTTCAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* ** *
90304304 GGGGTATTTTAATAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* **
90304331 AGGGTATTTTGGTAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
90304358 GGGGTATTTTAGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
90304385 GGGGTATTTTGGTAATTTTGTAAACAA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
90304412 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
90304439 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
** *
90304466 AGGGTATTTTATTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
90304493 AGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
90304511 GGTAAACTAA
Statistics
Matches: 174, Mismatches: 33, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:90304517 original size:54 final size:54
Alignment explanation
Indices: 90304221--90304510 Score: 287
Period size: 54 Copynumber: 5.4 Consensus size: 54
90304211 TTCTGTAAAT
* * * * * * ***
90304221 CAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTATAA-ACAAAGGGTATTTTAGTAATTTTACAAAC
* ** * * * *
90304275 CGAGGGTATTTCAGTAATTTCACAAATC-AGGGGTATTTTAATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAA-CAAAGGGTATTTTAGTAATTTTACAAAC
* ** * *
90304329 CAAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
* * *
90304383 CAGGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
* * * * *
90304437 TAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTATTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
90304491 CAAGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
90304511 GGTAAACTAA
Statistics
Matches: 198, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
54 198 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
Found at i:90304519 original size:81 final size:81
Alignment explanation
Indices: 90304278--90304510 Score: 331
Period size: 81 Copynumber: 2.9 Consensus size: 81
90304268 TACAGGTCGA
* * * * *
90304278 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
*
90304343 TAATTTTACAAATTAG
66 TAATTTTACAAACTAG
* ** ** *
90304359 GGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
90304424 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
* * *
90304440 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTATTAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
90304505 TAATTT
66 TAATTT
90304511 GGTAAACTAA
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 134 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
TAATTTTACAAACTAG
Found at i:90306516 original size:6 final size:6
Alignment explanation
Indices: 90306486--90306593 Score: 78
Period size: 6 Copynumber: 17.7 Consensus size: 6
90306476 ACGAAACATT
* * * *
90306486 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * *
90306535 ATCAGA ATCAGA ATCAGA ATCAGA ATGAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
90306584 ATCAGT ATCA
1 ATCAGA ATCA
90306594 AGTAACGGAA
Statistics
Matches: 79, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
5 3 0.04
6 68 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:90306548 original size:37 final size:37
Alignment explanation
Indices: 90306495--90306593 Score: 144
Period size: 37 Copynumber: 2.7 Consensus size: 37
90306485 TATCAGAACT
* * **
90306495 AGAATCAAAATGAGAATCAGAATCAGAATTCGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
90306532 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
* *
90306569 AGAATTAGAATCAGAATCAGTATCA
1 AGAATCAGAATCAGAATCAGAATCA
90306594 AGTAACGGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
Found at i:90306783 original size:27 final size:26
Alignment explanation
Indices: 90306735--90306794 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
90306725 GCGAGGCTGC
* *
90306735 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
90306762 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
90306788 CAGATAT
1 CAGATAT
90306795 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:90307162 original size:27 final size:27
Alignment explanation
Indices: 90307129--90307377 Score: 288
Period size: 27 Copynumber: 9.3 Consensus size: 27
90307119 GGGGTAAAAT
* * *
90307129 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90307156 GGAAATTCTACCTTA-TAGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
90307183 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90307210 GGTATTTCTACCCCACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90307237 GGTAATTCTACCCTACAGGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90307263 AGTAATTCTACCCTAC-AGCGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * *
90307290 AGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90307317 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90307344 GGCATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90307371 GATAATT
1 GGTAATT
90307378 TTGTAAATTG
Statistics
Matches: 189, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
25 1 0.01
26 25 0.13
27 160 0.85
28 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:90307307 original size:107 final size:107
Alignment explanation
Indices: 90307132--90307369 Score: 343
Period size: 107 Copynumber: 2.2 Consensus size: 107
90307122 GTAAAATGGT
* * ** * * *
90307132 AATTTTACCCCACAAGGGTATCTCGGAAATTCTACCTTATAGGAGTATTTCAGTAATTCTACCCT
1 AATTCTACCCTACAAGGGTAT-TTAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
*
90307197 ACAGGGGTATTTCGGTATTTCTACCCCACAAGGGTATTTCGGT
65 ACAGGGGTATTTCGGTATTTCTACCCCACAAGGGTATTTCGGC
* *
90307240 AATTCTACCCTACAGGGGTATTTAGTAATTCTACCCTACAGCG-GTATTTCAGTATTTCTACCCT
1 AATTCTACCCTACAAGGGTATTTAGTAATTCTACCCTACAG-GAGTATTTCAGTAATTCTACCCT
*
90307304 ACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGC
65 ACAGGGGTATTTCGGTATTTCTACCCCACAAGGGTATTTCGGC
*
90307347 ATTTCTACCCTACAAGGGTATTT
1 AATTCTACCCTACAAGGGTATTT
90307370 CGATAATTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
107 97 0.84
108 19 0.16
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (107 bp):
AATTCTACCCTACAAGGGTATTTAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCTA
CAGGGGTATTTCGGTATTTCTACCCCACAAGGGTATTTCGGC
Found at i:90307507 original size:81 final size:81
Alignment explanation
Indices: 90307398--90307729 Score: 371
Period size: 81 Copynumber: 4.1 Consensus size: 81
90307388 AGGGTAAAAC
** ** * * *
90307398 GGTAATTTTGTAAATCAAAGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCAATAATTTTA
1 GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAA-ACGAGGGGTATTTTAATAATTTTA
** * *
90307462 CAGGCCGAGGGTATTTC
65 CAAACCAAGGGTATTTT
* * * *
90307479 AGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTAC
1 GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAATAATTTTAC
*
90307544 AAACCAGGGGTATTTT
66 AAACCAAGGGTATTTT
* * * * ** **
90307560 GGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTATAAACTAGGGGTACTTTGGTAATTTTGT
1 GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAATAATTTTAC
90307625 AAACCAAGGGTATTTT
66 AAACCAAGGGTATTTT
* * * * *
90307641 GGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCGA-GGGTATTTTAGTACTTTTA
1 GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CGAGGGGTATTTTAATAATTTTA
90307705 CAAACCAAGGGTATTTT
65 CAAACCAAGGGTATTTT
90307722 GGTAATTT
1 GGTAATTT
90307730 GGTAAACTAA
Statistics
Matches: 215, Mismatches: 34, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 211 0.98
82 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAATAATTTTAC
AAACCAAGGGTATTTT
Found at i:90307736 original size:27 final size:27
Alignment explanation
Indices: 90307417--90307729 Score: 335
Period size: 27 Copynumber: 11.6 Consensus size: 27
90307407 GTAAATCAAA
* **
90307417 GGTACTTTGGTAATTTTACAAGTC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
*** **
90307444 GGTATTTCAATAATTTTACAGGCC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
** * *
90307471 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
90307498 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
90307525 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
**
90307552 GGTATTTTGGTAATTTTACAAATTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
90307579 GGTATTTTGGTAATTTTATAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* ** *
90307606 GGTACTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
90307633 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
90307660 GGTATTTTGGTGATTTTATAAACC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
* * *
90307687 GGTATTTTAGTACTTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
90307714 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
90307730 GGTAAACTAA
Statistics
Matches: 243, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 241 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:90309077 original size:26 final size:26
Alignment explanation
Indices: 90309048--90309100 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
90309038 ATAGGCGAAA
90309048 AGCTAAAACCTTGTTAAAAATTATTT
1 AGCTAAAACCTTGTTAAAAATTATTT
*
90309074 AGCTAAAACTTTGTTAAAAATTATTT
1 AGCTAAAACCTTGTTAAAAATTATTT
90309100 A
1 A
90309101 AGTCCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (26 bp):
AGCTAAAACCTTGTTAAAAATTATTT
Found at i:90311011 original size:20 final size:20
Alignment explanation
Indices: 90310986--90311030 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
90310976 AGGGGCTAAA
* *
90310986 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
90311006 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
90311026 ATGAA
1 ATGAA
90311031 TACATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:90313325 original size:27 final size:27
Alignment explanation
Indices: 90313295--90313472 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90313285 ATATTGAGTC
* * * *
90313295 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
90313322 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90313349 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
90313377 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
90313404 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
90313431 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90313458 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90313473 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:90313434 original size:82 final size:81
Alignment explanation
Indices: 90313316--90313471 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90313306 TGCTATATAA
* *
90313316 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
90313381 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90313398 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90313462 CACTTAGTGC
65 CACTTAGTGC
90313472 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90318299 original size:43 final size:43
Alignment explanation
Indices: 90318252--90318334 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
90318242 GTCGACATCA
* * *
90318252 TATTTGATTTCGTGTAAG-ACCCTATCTGGGACAGTGGCATCGG
1 TATTTGATTACATGTAAGAACAC-ATCTGGGACAGTGGCATCGG
*
90318295 TATTTGATTACATGTAAGAACACATCTGGGACATTGGCAT
1 TATTTGATTACATGTAAGAACACATCTGGGACAGTGGCAT
90318335 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 32 0.91
44 3 0.09
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TATTTGATTACATGTAAGAACACATCTGGGACAGTGGCATCGG
Found at i:90328294 original size:24 final size:24
Alignment explanation
Indices: 90328259--90328314 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
90328249 AGTTGGCTAT
*
90328259 GGTCGTGATCGAGAAGGACATGAC
1 GGTCGTGGTCGAGAAGGACATGAC
*
90328283 GGTCGTGGTCGAGAAGGACATGGC
1 GGTCGTGGTCGAGAAGGACATGAC
*
90328307 AGTCGTGG
1 GGTCGTGG
90328315 AGAACCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.16, G:0.43, T:0.18
Consensus pattern (24 bp):
GGTCGTGGTCGAGAAGGACATGAC
Found at i:90335548 original size:13 final size:13
Alignment explanation
Indices: 90335530--90335569 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
90335520 GCTCGACAGG
90335530 GACACGCCCGTGT
1 GACACGCCCGTGT
90335543 GACACGCCCGTGT
1 GACACGCCCGTGT
90335556 GACACGCCCGTGT
1 GACACGCCCGTGT
90335569 G
1 G
90335570 CGATTACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.38, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:90336510 original size:43 final size:43
Alignment explanation
Indices: 90336436--90336518 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
90336426 ATCGACATCG
* * *
90336436 TATTTGATTTCGTGTAAGACCCTATCTAGGACAG-TGGCATCAA
1 TATTTGATTACATGTAAGACCCTATCGAGGAC-GTTGGCATCAA
90336479 TATTTGATTACATGTAAGACCAC-ATCGAGGACGTTGGCAT
1 TATTTGATTACATGTAAGACC-CTATCGAGGACGTTGGCAT
90336519 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACCCTATCGAGGACGTTGGCATCAA
Found at i:90337371 original size:19 final size:19
Alignment explanation
Indices: 90337347--90337384 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
90337337 TGTATGATTT
90337347 GGATTTGAAATTGGTTGAA
1 GGATTTGAAATTGGTTGAA
90337366 GGATTTGAAATTGGTTGAA
1 GGATTTGAAATTGGTTGAA
90337385 AATATGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.37
Consensus pattern (19 bp):
GGATTTGAAATTGGTTGAA
Found at i:90342324 original size:27 final size:27
Alignment explanation
Indices: 90342284--90342338 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
90342274 CTTGACGACC
*
90342284 CTAAGAAGTTATTTAAGTAGATGAGGT
1 CTAAGAAGTAATTTAAGTAGATGAGGT
90342311 CTAAGAAGTAATTTAAGTAGATGAGGT
1 CTAAGAAGTAATTTAAGTAGATGAGGT
90342338 C
1 C
90342339 AGAAGAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (27 bp):
CTAAGAAGTAATTTAAGTAGATGAGGT
Found at i:90342392 original size:55 final size:55
Alignment explanation
Indices: 90342331--90342454 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 55
90342321 ATTTAAGTAG
*
90342331 ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTGTCCTAGTTTGAACT
1 ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTATCCTAGTTTGAACT
* * * * *
90342386 ATGAGGTCGGAAGAATTGTCTATTGAGCATCTCTTAACTTATCCTGGTTTGAATT
1 ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTATCCTAGTTTGAACT
90342441 ATGAGGTCAGAAGA
1 ATGAGGTCAGAAGA
90342455 TAAGTAGTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (55 bp):
ATGAGGTCAGAAGAATAGTCTATTGAGCATCTCTCAACTTATCCTAGTTTGAACT
Found at i:90362511 original size:27 final size:27
Alignment explanation
Indices: 90362480--90362657 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90362470 TAAATTGTAC
90362480 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90362507 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90362533 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90362561 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90362589 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90362616 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90362643 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90362658 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90362594 original size:82 final size:81
Alignment explanation
Indices: 90362481--90362636 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90362471 AAATTGTACA
* *
90362481 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90362545 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90362562 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90362627 TGCGAGTTGA
65 TGCGAATTGA
90362637 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90362648 original size:82 final size:81
Alignment explanation
Indices: 90362477--90362657 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90362467 GATTAAATTG
* *
90362477 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90362542 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90362558 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90362622 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90362640 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90362658 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90373317 original size:18 final size:19
Alignment explanation
Indices: 90373288--90373323 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
90373278 GCATGTTTGC
*
90373288 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
90373307 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
90373324 CGCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:90378666 original size:44 final size:43
Alignment explanation
Indices: 90378603--90378756 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 43
90378593 TATGTGTTAT
*
90378603 CGTGTAAGACCAAGTCTGGGACGTTGGCATCGATTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTT-TGATTTA
* * *
90378647 CGTGTAAGACCATGTCTGGGATGTTGGCATTGTTTTTGATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTTGATTTA
* * *
90378689 CGTGTAAGACCCTGTCTGGGA-GAGTGGCATCGATACTTGA-TTA
1 CGTGTAAGACCATGTCTGGGACG-TTGGCATCGAT-TTTGATTTA
* *
90378732 CATGTACA-ACCACGTCTGGGACGTT
1 CGTGTA-AGACCATGTCTGGGACGTT
90378757 TTGTACGAGC
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 27 0.29
44 34 0.37
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTTGATTTA
Found at i:90378705 original size:42 final size:43
Alignment explanation
Indices: 90378602--90378756 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 43
90378592 ATATGTGTTA
*
90378602 TCGTGTAAGACCAAGTCTGGGACGTTGGCATCGATTTATGATT
1 TCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
* * *
90378645 TACGTGTAAGACCATGTCTGGGATGTTGGCATTG-TTTTTGATT
1 T-CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
* * *
90378688 TCGTGTAAGACCCTGTCTGGGA-GAGTGGCATCGATACT-TGATT
1 TCGTGTAAGACCATGTCTGGGACG-TTGGCATCGAT-TTATGATT
* * *
90378731 ACATGTACA-ACCACGTCTGGGACGTT
1 TCGTGTA-AGACCATGTCTGGGACGTT
90378757 TTGTACGAGC
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 33 0.35
44 32 0.34
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
Found at i:90384869 original size:79 final size:78
Alignment explanation
Indices: 90384766--90384983 Score: 242
Period size: 79 Copynumber: 2.7 Consensus size: 78
90384756 GCTCCTCGTT
*** *
90384766 CAAATGCCTTCGGGACAAAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCTGG
1 CAAATGCCTTCGGGTTTAA-CCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
90384831 ATTTAGTAACTAGCA
64 ATTTAGTAACTAGCA
*
90384846 CAAATGCCTTCGGGTTTAACCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGTTTAACCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCGG
* *
90384910 ATTTAGTATCTCGCA
64 ATTTAGTAACTAGCA
* ** * * *
90384925 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGT-TTAACCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTA
90384984 GCCCAGACAT
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 65 0.55
80 40 0.34
81 9 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGTTTAACCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTAGCA
Found at i:90384876 original size:39 final size:40
Alignment explanation
Indices: 90384766--90384983 Score: 239
Period size: 40 Copynumber: 5.5 Consensus size: 40
90384756 GCTCCTCGTT
* *
90384766 CAAATGCCTTCGGGAC-AAAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
* *
90384806 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
90384846 CAAATGCCTTCGGG-TTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
90384885 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
90384925 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
90384966 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
90384984 GCCCAGACAT
Statistics
Matches: 154, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
39 37 0.24
40 102 0.66
41 15 0.10
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:90392417 original size:40 final size:40
Alignment explanation
Indices: 90392354--90392558 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
90392344 CAGCACAATG
*
90392354 CCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAA
1 CCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAA
* * * *
90392394 TCTGGATTTAGTAACTAGCACAAATGCCTTCGGG-TTTAA
1 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
* * *
90392433 CCCGGAATTAGTATCTCGCACAAATGCCTTTGGGACTTAA
1 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
* *
90392473 CCCGGATTTAGTATCTCGCACAAATGCCTTC-GGATCTTAG
1 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAA
* * * * * *
90392513 TCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAG
1 CCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAA
90392553 CCCGGA
1 CCCGGA
90392559 CATCATTCAA
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 35 0.25
40 90 0.65
41 13 0.09
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (40 bp):
CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
Found at i:90396512 original size:42 final size:42
Alignment explanation
Indices: 90396407--90396566 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
90396397 ATATGTGTTA
* * *
90396407 TCGTGTAAGACCATGTCTGGGACGTTGGCATC-AACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATT
*
90396450 TACGTGTAAGACCACATCTGGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
* * *
90396493 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATTGGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATT
* * *
90396536 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCAT
90396567 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 40 0.40
44 31 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
Found at i:90398059 original size:42 final size:42
Alignment explanation
Indices: 90398007--90398122 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
90397997 GTTAGGGGTG
*
90398007 TTACA-GTAAGACCATACTTGGGATATGGCATCGATATAAGA
1 TTACATGTAAGACCATACTTGGGATATGGCATCGATACAAGA
**
90398048 CTT-TTTGTAAGACCATAGC-TGGGATATTGGCATCGATACAAGA
1 -TTACATGTAAGACCATA-CTTGGGATA-TGGCATCGATACAAGA
*
90398091 TTACATGTAAGACCATATTTGGGATATGGCAT
1 TTACATGTAAGACCATACTTGGGATATGGCAT
90398123 TGGTATGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCATACTTGGGATATGGCATCGATACAAGA
Found at i:90398677 original size:56 final size:56
Alignment explanation
Indices: 90398615--90398733 Score: 202
Period size: 56 Copynumber: 2.1 Consensus size: 56
90398605 ACTCAATGCA
90398615 ATGGCTTATAATCGTCAAAGGCTTGTTTTACTATTTGGCCATGTAAGTTGGCTTAT
1 ATGGCTTATAATCGTCAAAGGCTTGTTTTACTATTTGGCCATGTAAGTTGGCTTAT
* * *
90398671 ATGGCTTGTAATCGTCAAAGGCTTGTTTTGCTATTTGGTCATGTAAGTTGGCTTAT
1 ATGGCTTATAATCGTCAAAGGCTTGTTTTACTATTTGGCCATGTAAGTTGGCTTAT
90398727 ATTGGCT
1 A-TGGCT
90398734 AACATGGTTG
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
56 54 0.92
57 5 0.08
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.42
Consensus pattern (56 bp):
ATGGCTTATAATCGTCAAAGGCTTGTTTTACTATTTGGCCATGTAAGTTGGCTTAT
Found at i:90398769 original size:14 final size:14
Alignment explanation
Indices: 90398750--90398779 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90398740 GTTGTAAGCC
90398750 TAAGTATACTCATA
1 TAAGTATACTCATA
90398764 TAAGTATACTCATA
1 TAAGTATACTCATA
90398778 TA
1 TA
90398780 TGGTGATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
TAAGTATACTCATA
Found at i:90403746 original size:40 final size:40
Alignment explanation
Indices: 90403715--90403845 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
90403705 GGACTAAGAT
*
90403715 CCGAAGGCATTTGTGCAAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
90403755 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
90403795 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
90403835 CCGAAGGCATT
1 CCGAAGGCATT
90403846 GTATGAGTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 80 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:90403866 original size:39 final size:38
Alignment explanation
Indices: 90403715--90403882 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 38
90403705 GGACTAAGAT
* * *
90403715 CCGAAGGCATTTGTGCAAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCA-TTGTGCGAGTTACTAA-ACCGGGTTAAGTC
* * *
90403755 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAA-ACCGGGTTAAGTC
*
90403795 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GTGCGAGTTACT-AAA-CCGGGTTAAGTC
** * *
90403835 CCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTA-AACCGGGTTAAGTC
90403874 CCGAAGGCA
1 CCGAAGGCA
90403883 CTTGAACAAG
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 31 0.28
40 77 0.71
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:90406925 original size:13 final size:13
Alignment explanation
Indices: 90406907--90406938 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90406897 ATGCTGTTGA
*
90406907 CCGTGGTGGCACT
1 CCGTGGCGGCACT
90406920 CCGTGGCGGCACT
1 CCGTGGCGGCACT
90406933 CCGTGG
1 CCGTGG
90406939 ATGAGCCGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.34, G:0.41, T:0.19
Consensus pattern (13 bp):
CCGTGGCGGCACT
Found at i:90409496 original size:17 final size:17
Alignment explanation
Indices: 90409474--90409506 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
90409464 ACCCCCCCCC
90409474 CCAAAACAA-AAAAAAAA
1 CCAAAA-AACAAAAAAAA
90409491 CCAAAAAACAAAAAAA
1 CCAAAAAACAAAAAAA
90409507 GAGAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (17 bp):
CCAAAAAACAAAAAAAA
Found at i:90410108 original size:17 final size:17
Alignment explanation
Indices: 90410086--90410119 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90410076 ATCCACTAAT
*
90410086 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
90410103 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
90410120 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:90414747 original size:17 final size:17
Alignment explanation
Indices: 90414725--90414758 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90414715 ATCCACTAAT
*
90414725 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
90414742 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
90414759 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:90419323 original size:15 final size:14
Alignment explanation
Indices: 90419289--90419323 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
90419279 TCATATTTGA
90419289 AATTTAATTTTTAT
1 AATTTAATTTTTAT
*
90419303 ATTTTAATTTATTAT
1 AATTTAATTT-TTAT
90419318 AATTTA
1 AATTTA
90419324 GTTCTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:90419533 original size:17 final size:17
Alignment explanation
Indices: 90419500--90419549 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
90419490 CATAATAAAT
90419500 ATATATATG-TA--GTA
1 ATATATATGTTAGGGTA
90419514 ATATATATGTTAGGGTA
1 ATATATATGTTAGGGTA
*
90419531 ATATCTATGTTAGGGTA
1 ATATATATGTTAGGGTA
90419548 AT
1 AT
90419550 GTTCAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
17 21 0.66
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (17 bp):
ATATATATGTTAGGGTA
Found at i:90422272 original size:3 final size:3
Alignment explanation
Indices: 90422264--90422304 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
90422254 GGCAGTAGGT
*
90422264 GAA GAA GAA G-A GAA GAA AAA GAA -AA -AA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
90422305 CAAGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 6 0.18
3 28 0.82
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:90428364 original size:21 final size:21
Alignment explanation
Indices: 90428314--90428364 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
90428304 TGCAGCGATA
90428314 TCATGACACAAGGGTTCTATG
1 TCATGACACAAGGGTTCTATG
*** *
90428335 TCGCAACACCAGGGTTCGT-TG
1 TCATGACACAAGGGTTC-TATG
90428356 TCATGACAC
1 TCATGACAC
90428365 GCTTTGAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (21 bp):
TCATGACACAAGGGTTCTATG
Found at i:90429371 original size:18 final size:17
Alignment explanation
Indices: 90429344--90429380 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
90429334 CAGATTGTGT
90429344 AATTATTATATACATGA
1 AATTATTATATACATGA
*
90429361 AATTGATTATATATATGA
1 AATT-ATTATATACATGA
90429379 AA
1 AA
90429381 GTGTCTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (17 bp):
AATTATTATATACATGA
Found at i:90433259 original size:64 final size:64
Alignment explanation
Indices: 90433158--90433286 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
90433148 GGCCGTGTGT
*
90433158 CACACACAGCTAAGACACACGCCTGTGTCTCTGCCCATATGGACAAAATAAGGCCATTTCCAAG
1 CACACACAGCTAAGACACACGCCTGTGTCTCTACCCATATGGACAAAATAAGGCCATTTCCAAG
* *
90433222 CACACACGGCTAAGACACACGCTTGTGTCTCTACCCATATGGACAAAATAAGGCCATTTCCAAG
1 CACACACAGCTAAGACACACGCCTGTGTCTCTACCCATATGGACAAAATAAGGCCATTTCCAAG
90433286 C
1 C
90433287 CTTATTTCTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (64 bp):
CACACACAGCTAAGACACACGCCTGTGTCTCTACCCATATGGACAAAATAAGGCCATTTCCAAG
Found at i:90434184 original size:25 final size:25
Alignment explanation
Indices: 90434140--90434213 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
90434130 AGCCCTCTCT
* *
90434140 CGAGCCATATAAC-AGAAAGCTCATG
1 CGAGCAATATAACGAG-AAGCTCATC
* ** *
90434165 TGAGCTGTATAACGAGAAGCTTATC
1 CGAGCAATATAACGAGAAGCTCATC
90434190 CGAGCAATATAACGAGAAGCTCAT
1 CGAGCAATATAACGAGAAGCTCAT
90434214 AAGAGCCATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
25 37 0.95
26 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (25 bp):
CGAGCAATATAACGAGAAGCTCATC
Found at i:90446660 original size:21 final size:21
Alignment explanation
Indices: 90446636--90446678 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
90446626 GGTTCGCTGT
*
90446636 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
90446657 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
90446678 A
1 A
90446679 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:90446678 original size:16 final size:16
Alignment explanation
Indices: 90446659--90446691 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
90446649 TGTATTGGAT
*
90446659 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
90446675 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
90446691 T
1 T
90446692 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:90446736 original size:45 final size:44
Alignment explanation
Indices: 90446670--90446764 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
90446660 GGATTAGAGG
* *
90446670 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
90446715 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
90446759 TGTAAT
1 TGTAAT
90446765 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:90446946 original size:18 final size:17
Alignment explanation
Indices: 90446925--90446959 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90446915 TTATTATTAA
*
90446925 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
90446943 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
90446960 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:90455004 original size:20 final size:20
Alignment explanation
Indices: 90454967--90455009 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
90454957 ATTCAACCAG
* *
90454967 TTTTGGGTCTTAGTCTCAGT
1 TTTTGGGTCTTAGGCTCAAT
* *
90454987 TTTTGGTTCTTGGGCTCAAT
1 TTTTGGGTCTTAGGCTCAAT
90455007 TTT
1 TTT
90455010 CGATCTCAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.53
Consensus pattern (20 bp):
TTTTGGGTCTTAGGCTCAAT
Found at i:90466397 original size:4 final size:4
Alignment explanation
Indices: 90466384--90466451 Score: 56
Period size: 4 Copynumber: 17.5 Consensus size: 4
90466374 ATTAAAACGT
* *
90466384 TTTC -TTC TTTC TTTTC TTTT TTTC TTTC -TT- TTTC TTTTC TTTT TTTC
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC
90466431 TTTC -TT- TTTC TTTTC TTTC TT
1 TTTC TTTC TTTC -TTTC TTTC TT
90466452 GATATTTGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
3 11 0.21
4 29 0.56
5 12 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (4 bp):
TTTC
Found at i:90466400 original size:12 final size:11
Alignment explanation
Indices: 90466383--90466448 Score: 87
Period size: 12 Copynumber: 5.7 Consensus size: 11
90466373 GATTAAAACG
90466383 TTTTCTTCTTTC
1 TTTTCTT-TTTC
*
90466395 TTTTCTTTTTT
1 TTTTCTTTTTC
90466406 TCTTTCTTTTTC
1 T-TTTCTTTTTC
*
90466418 TTTTCTTTTTT
1 TTTTCTTTTTC
90466429 TCTTTCTTTTTC
1 T-TTTCTTTTTC
90466441 TTTTCTTT
1 TTTTCTTT
90466449 CTTGATATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
11 21 0.44
12 27 0.56
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:90466420 original size:23 final size:23
Alignment explanation
Indices: 90466384--90466448 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
90466374 ATTAAAACGT
90466384 TTTCTTCTTTCTTTTCTTTTTTTC
1 TTTCTT-TTTCTTTTCTTTTTTTC
90466408 TTTCTTTTTCTTTTCTTTTTTTC
1 TTTCTTTTTCTTTTCTTTTTTTC
90466431 TTTCTTTTTCTTTTCTTT
1 TTTCTTTTTCTTTTCTTT
90466449 CTTGATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 35 0.85
24 6 0.15
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTCTTTTTCTTTTCTTTTTTTC
Found at i:90467146 original size:63 final size:63
Alignment explanation
Indices: 90467025--90467151 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 63
90467015 GTCATGTGGT
* * * *
90467025 AGGTCGTGTAACTCACTATTTTGGAATTAAAGTCACACGGGTCAGAGATATAGACGTGTGTCC
1 AGGTCGTGTAACTCACTATTTTGGAATTAAAGTCACACGAGCCAGAGACAGAGACGTGTGTCC
* * *
90467088 AGGTCGTGTAACTCACTGTTTTGGAATTAGAGTCATACGAGCCAGAGACACGAG-CGTGTGTCC
1 AGGTCGTGTAACTCACTATTTTGGAATTAAAGTCACACGAGCCAGAGACA-GAGACGTGTGTCC
90467151 A
1 A
90467152 AGCCGTGTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 54 0.96
64 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (63 bp):
AGGTCGTGTAACTCACTATTTTGGAATTAAAGTCACACGAGCCAGAGACAGAGACGTGTGTCC
Found at i:90467891 original size:22 final size:22
Alignment explanation
Indices: 90467863--90467907 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
90467853 GGTAGGAATT
90467863 TGCATCTGTATCTGATATGTTC
1 TGCATCTGTATCTGATATGTTC
* *
90467885 TGCATCTGTATTTGATCTGTTC
1 TGCATCTGTATCTGATATGTTC
90467907 T
1 T
90467908 ATATCTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (22 bp):
TGCATCTGTATCTGATATGTTC
Found at i:90467913 original size:22 final size:22
Alignment explanation
Indices: 90467865--90467918 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
90467855 TAGGAATTTG
*
90467865 CATCTGTATCTGATATGTTCTG
1 CATCTGTATCTGATATGTTCTA
* *
90467887 CATCTGTATTTGATCTGTTCTA
1 CATCTGTATCTGATATGTTCTA
* *
90467909 TATCTATATC
1 CATCTGTATC
90467919 GAGTATCCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (22 bp):
CATCTGTATCTGATATGTTCTA
Found at i:90469582 original size:61 final size:58
Alignment explanation
Indices: 90469474--90469589 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 58
90469464 TTCACTTTAA
*
90469474 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATT
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATT
* *
90469532 TATTAAATTAATAGAATATTTATCCATAAGATAAATATTTA-ATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTAT-C--AAGATAAATA-TTAGATTAAATTTAATATTAA
90469590 GATAATAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 21 0.41
59 1 0.02
61 26 0.51
62 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATT
Found at i:90469621 original size:25 final size:25
Alignment explanation
Indices: 90469574--90469621 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
90469564 AAATATTTAA
*
90469574 TTTAATTTAATATTAAGATAATAAT
1 TTTAATTTAATATTAAGAAAATAAT
*
90469599 TTTAATATTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
90469622 CTATCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAT
Found at i:90471655 original size:27 final size:27
Alignment explanation
Indices: 90471625--90471799 Score: 172
Period size: 27 Copynumber: 6.4 Consensus size: 27
90471615 TTGAGCCCGT
* * * *
90471625 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* *
90471652 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
90471679 ACACTTAGTGCCACATAGTCCATCTCGC
1 ACACTTAGTGCTACATAGT-CAAATCGC
** * *
90471707 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
90471734 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
*
90471761 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
90471788 ACACTTAGTGCT
1 ACACTTAGTGCT
90471800 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:90471762 original size:82 final size:81
Alignment explanation
Indices: 90471643--90471798 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
90471633 TGCTATATAA
* * **
90471643 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCA
90471708 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90471725 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90471789 CACTTAGTGC
65 CACTTAGTGC
90471799 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90471782 original size:54 final size:54
Alignment explanation
Indices: 90471647--90471798 Score: 198
Period size: 54 Copynumber: 2.8 Consensus size: 54
90471637 ATATAATCAA
* * *
90471647 CTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTG-CACATAGTCCAT
** * * *
90471702 CTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATA-TTCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCA-CATAGTCCAT
*
90471756 TTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
90471799 TGTACAATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 44 0.52
55 40 0.48
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (54 bp):
CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCACATAGTCCAT
Found at i:90478743 original size:18 final size:18
Alignment explanation
Indices: 90478722--90478764 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
90478712 AAAGTTGTAT
90478722 TAACTAATAAATAATGTG
1 TAACTAATAAATAATGTG
90478740 TAACTAATAAATAATGTG
1 TAACTAATAAATAATGTG
90478758 TAACTAA
1 TAACTAA
90478765 AAGAACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (18 bp):
TAACTAATAAATAATGTG
Found at i:90479814 original size:20 final size:20
Alignment explanation
Indices: 90479789--90479841 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
90479779 ACGGCTGTAG
* * *
90479789 CACACGGGCGTGTTCTAGGC
1 CACACGGGCATGTCCTAAGC
*
90479809 CACACGAGCATGTCCTAAGC
1 CACACGGGCATGTCCTAAGC
90479829 CACACGGGCATGT
1 CACACGGGCATGT
90479842 GCCCCTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (20 bp):
CACACGGGCATGTCCTAAGC
Found at i:90487211 original size:20 final size:19
Alignment explanation
Indices: 90487186--90487238 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 19
90487176 AATGCCGCAG
*
90487186 CACACGAGCATGTCCCAGGC
1 CACACG-GCATGTCCCAAGC
90487206 CACACGG-ATGTGTCCCAAGC
1 CACACGGCA--TGTCCCAAGC
90487226 CACACGCGCATGT
1 CACACG-GCATGT
90487239 GCCCTTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 1 0.04
19 1 0.04
20 24 0.86
21 1 0.04
22 1 0.04
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.13
Consensus pattern (19 bp):
CACACGGCATGTCCCAAGC
Found at i:90495536 original size:27 final size:26
Alignment explanation
Indices: 90495505--90495682 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
90495495 TAAATTGTAC
90495505 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
90495532 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
90495558 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
90495586 GGCACTAAGTGTGCGAGTCTGACGATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
90495614 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
90495641 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
90495668 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90495683 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:90495629 original size:82 final size:81
Alignment explanation
Indices: 90495506--90495661 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
90495496 AAATTGTACA
* * * *
90495506 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACGATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90495570 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90495587 GCACTAAGTGTGCGAGTCTGACGATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACGATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90495652 TGCGAGTTGA
65 TGCGAATTGA
90495662 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 47 0.72
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACGATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90495673 original size:82 final size:81
Alignment explanation
Indices: 90495502--90495682 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
90495492 GATTAAATTG
* * * *
90495502 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACGATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90495567 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90495583 TGCGGCACTAAGTGTGCGAGTCTGACGATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACGATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90495647 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90495665 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90495683 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACGATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90495693 original size:27 final size:27
Alignment explanation
Indices: 90495587--90495693 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
90495577 TGACCATGCG
* ** *
90495587 GCACTAAGTGTGCGAGTCTGACGATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
90495615 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
90495642 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
90495669 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
90495694 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 51 0.77
28 15 0.23
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:90503561 original size:27 final size:26
Alignment explanation
Indices: 90503530--90503706 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
90503520 TAAATTGTAC
90503530 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
90503557 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
90503583 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
90503611 GGCACTAAGTGTGCGAGTCTGAC-ATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
90503638 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
90503665 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
90503692 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90503707 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.03
27 117 0.92
28 6 0.05
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:90503643 original size:81 final size:81
Alignment explanation
Indices: 90503531--90503685 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
90503521 AAATTGTACA
* * *
90503531 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90503595 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90503612 GCACTAAGTGTGCGAGTCTGAC-ATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90503676 TGCGAGTTGA
65 TGCGAATTGA
90503686 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 61 0.94
82 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90503697 original size:81 final size:81
Alignment explanation
Indices: 90503527--90503706 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
90503517 GATTAAATTG
* * *
90503527 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90503592 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90503608 TGCGGCACTAAGTGTGCGAGTCTGAC-ATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90503671 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90503689 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90503707 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 78 0.95
82 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90503717 original size:27 final size:27
Alignment explanation
Indices: 90503612--90503717 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
90503602 TGACCATGCG
* * *
90503612 GCACTAAGTGTGCGAG-TCTGACATGTA
1 GCACTAAGTGTGCGAGCTC-AATATATA
** * * **
90503639 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
90503666 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
90503693 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
90503718 CATTCGTGAA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 63 0.98
28 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:90510377 original size:75 final size:75
Alignment explanation
Indices: 90510254--90510403 Score: 273
Period size: 75 Copynumber: 2.0 Consensus size: 75
90510244 AGAAATGGGC
*
90510254 CCAAAAGGCACCAGGAGAGGATGGTTTTCCGGTAATATTCTACCAGAAATGCTGGTCGATTATAG
1 CCAAAAGGCACCAGGAGAGGATGGTTTTCCGGTAATATTCTACCAGAAATGCTGGTCGATTATAA
*
90510319 GGGAATAAGT
66 GGGAAGAAGT
*
90510329 CCAAAAGGCACCAGGAGAGGATGTTTTTCCGGTAATATTCTACCAGAAATGCTGGTCGATTATAA
1 CCAAAAGGCACCAGGAGAGGATGGTTTTCCGGTAATATTCTACCAGAAATGCTGGTCGATTATAA
90510394 GGGAAGAAGT
66 GGGAAGAAGT
90510404 TTCATCTTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (75 bp):
CCAAAAGGCACCAGGAGAGGATGGTTTTCCGGTAATATTCTACCAGAAATGCTGGTCGATTATAA
GGGAAGAAGT
Found at i:90518092 original size:23 final size:23
Alignment explanation
Indices: 90518056--90518109 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
90518046 CAGGTCATCG
* *
90518056 GAGCTTACCGTTTCAGCTCAGATA
1 GAGCTTACCATTTCACCTC-GATA
*
90518080 -AGCTTATCATTTCACCTCGATA
1 GAGCTTACCATTTCACCTCGATA
90518102 GAGCTTAC
1 GAGCTTAC
90518110 TGTTTATCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (23 bp):
GAGCTTACCATTTCACCTCGATA
Found at i:90524091 original size:39 final size:37
Alignment explanation
Indices: 90524024--90524116 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
90524014 ACCAGAATGG
* *
90524024 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
90524063 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
90524100 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
90524117 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:90524493 original size:6 final size:6
Alignment explanation
Indices: 90524484--90524520 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
90524474 ATAATAACAA
* *
90524484 TAATAC TAATAA TAATAC TAATAC TAATAT TAATAC T
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC T
90524521 TACCTCACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (6 bp):
TAATAC
Found at i:90524501 original size:12 final size:12
Alignment explanation
Indices: 90524471--90524518 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
90524461 ATTCCCACTC
* *
90524471 ATAATAATAACA
1 ATAATACTAATA
90524483 ATAATACTAATA
1 ATAATACTAATA
90524495 ATAATACTAATA
1 ATAATACTAATA
* *
90524507 CTAATATTAATA
1 ATAATACTAATA
90524519 CTTACCTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:90524517 original size:18 final size:18
Alignment explanation
Indices: 90524472--90524520 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
90524462 TTCCCACTCA
* *
90524472 TAATAATAACAATAATAC
1 TAATAATAATACTAATAC
90524490 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
90524508 TAATATTAATACT
1 TAATAATAATACT
90524521 TACCTCACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:90525195 original size:11 final size:11
Alignment explanation
Indices: 90525181--90525206 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90525171 CTTTTTCTTC
90525181 TTTCTCCCCTG
1 TTTCTCCCCTG
90525192 TTTCTCCCCTG
1 TTTCTCCCCTG
90525203 TTTC
1 TTTC
90525207 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:90525588 original size:21 final size:21
Alignment explanation
Indices: 90525564--90525606 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
90525554 AATAATAACT
90525564 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
90525585 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
90525606 A
1 A
90525607 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:90538099 original size:6 final size:6
Alignment explanation
Indices: 90538090--90538126 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
90538080 ATAATAACAA
* *
90538090 TAATAC TAATAA TAATAC TAATAC TAATAT TAATAC T
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC T
90538127 TACCTCACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (6 bp):
TAATAC
Found at i:90538107 original size:12 final size:12
Alignment explanation
Indices: 90538077--90538124 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
90538067 ATTCCCACTC
* *
90538077 ATAATAATAACA
1 ATAATACTAATA
90538089 ATAATACTAATA
1 ATAATACTAATA
90538101 ATAATACTAATA
1 ATAATACTAATA
* *
90538113 CTAATATTAATA
1 ATAATACTAATA
90538125 CTTACCTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:90538123 original size:18 final size:18
Alignment explanation
Indices: 90538078--90538126 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
90538068 TTCCCACTCA
* *
90538078 TAATAATAACAATAATAC
1 TAATAATAATACTAATAC
90538096 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
90538114 TAATATTAATACT
1 TAATAATAATACT
90538127 TACCTCACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:90538800 original size:11 final size:11
Alignment explanation
Indices: 90538786--90538811 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90538776 CTTTTTCTTC
90538786 TTTCTCCCCTG
1 TTTCTCCCCTG
90538797 TTTCTCCCCTG
1 TTTCTCCCCTG
90538808 TTTC
1 TTTC
90538812 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:90539193 original size:21 final size:21
Alignment explanation
Indices: 90539169--90539211 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
90539159 AATAATAACT
90539169 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
90539190 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
90539211 A
1 A
90539212 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:90546353 original size:29 final size:29
Alignment explanation
Indices: 90546313--90546373 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
90546303 CATATTTTTA
90546313 GAATAAAATTTTATCATTTTTATAAATTG
1 GAATAAAATTTTATCATTTTTATAAATTG
* *
90546342 GAATAAAGTTTTATCATTTTTATAACTTG
1 GAATAAAATTTTATCATTTTTATAAATTG
90546371 GAA
1 GAA
90546374 CTTAAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (29 bp):
GAATAAAATTTTATCATTTTTATAAATTG
Found at i:90557382 original size:3 final size:3
Alignment explanation
Indices: 90557374--90557521 Score: 54
Period size: 3 Copynumber: 48.7 Consensus size: 3
90557364 CTAACGTATC
* * *
90557374 ATT ATT ATT ACTT -TT ATT TTT ATC ATT ATT ATC ATT ATT -TT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
90557418 ATT TTT ACT ATT ATT ACTT A-T ATT CTTT AAT ATC GTT ATT AGT GTT
1 ATT ATT ATT ATT ATT A-TT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
* * * * *
90557464 ATCT -CT ATT -TT CTT CACT ATT ATT TTT ATT ATC ATT ATTT ATT CATT
1 AT-T ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT A-TT ATT -ATT
90557511 ATT ATT ATT AT
1 ATT ATT ATT AT
90557522 CATATTATAT
Statistics
Matches: 102, Mismatches: 31, Indels: 24
0.65 0.20 0.15
Matches are distributed among these distances:
2 9 0.09
3 78 0.76
4 15 0.15
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:90557424 original size:35 final size:33
Alignment explanation
Indices: 90557292--90557424 Score: 88
Period size: 35 Copynumber: 3.8 Consensus size: 33
90557282 TTTTACTTAC
* * ** *
90557292 ATCACTATTATCATTAATTTTTTATTATTATCATC
1 ATCATTATTATCATT-A-TTTTTATTTTTATTTTT
* *
90557327 ATTATTATTATCACTATTTTTA-TTTTATTTTT
1 ATCATTATTATCATTATTTTTATTTTTATTTTT
* * * * *
90557359 ATAACCTAACGTATCATTATTATTACTTTTATTTTT
1 AT--CATTA-TTATCATTATTTTTATTTTTATTTTT
90557395 ATCATTATTATCATTATTTTATTATTTTTA
1 ATCATTATTATCATTA-TTT-TTATTTTTA
90557425 CTATTATTAC
Statistics
Matches: 74, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
32 8 0.11
33 14 0.19
34 8 0.11
35 32 0.43
36 12 0.16
ACGTcount: A:0.29, C:0.11, G:0.01, T:0.59
Consensus pattern (33 bp):
ATCATTATTATCATTATTTTTATTTTTATTTTT
Found at i:90557512 original size:26 final size:26
Alignment explanation
Indices: 90557482--90557532 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
90557472 TTTCTTCACT
*
90557482 ATTATTTTTATTATCATTATT-TATTC
1 ATTATTATTATTATCA-TATTATATTC
90557508 ATTATTATTATTATCATATTATATT
1 ATTATTATTATTATCATATTATATT
90557533 TTTTCATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTATTATTATTATCATATTATATTC
Found at i:90557517 original size:17 final size:17
Alignment explanation
Indices: 90557481--90557539 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 17
90557471 TTTTCTTCAC
90557481 TATTATTT-TT-ATTAT
1 TATTATTTATTCATTAT
*
90557496 CATTATTTATTCATTAT
1 TATTATTTATTCATTAT
90557513 TATTA-TTA-TCA-TAT
1 TATTATTTATTCATTAT
*
90557527 TA-TATTTTTTCAT
1 TATTATTTATTCAT
90557540 ATACGTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
13 2 0.06
14 7 0.19
15 13 0.36
16 5 0.14
17 9 0.25
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTTATTCATTAT
Found at i:90561858 original size:37 final size:39
Alignment explanation
Indices: 90561812--90561896 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 39
90561802 AAAAATAATG
* *
90561812 TTATTTTAATAGT-TTAATATTAAATTTAAT-TT-AATA-C
1 TTATCTTAATAGTATT-ATATT-AATTTAATATTAAATAGA
*
90561849 TTATCTTAATAGTATTTTATTAATTTAATATTAAATAGA
1 TTATCTTAATAGTATTATATTAATTTAATATTAAATAGA
90561888 TTATCTTAA
1 TTATCTTAA
90561897 GATTAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 8 0.20
37 18 0.44
38 6 0.15
39 9 0.22
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (39 bp):
TTATCTTAATAGTATTATATTAATTTAATATTAAATAGA
Found at i:90562987 original size:2 final size:2
Alignment explanation
Indices: 90562980--90563007 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
90562970 TATAATTGTG
90562980 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
90563008 GAGATGATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90565628 original size:50 final size:49
Alignment explanation
Indices: 90565527--90565637 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 49
90565517 CCTATTTTCC
* **
90565527 TATTTTTAGTTTTTTATTTTTATTTTATTTTACTTTATTATTCTTCCTAT
1 TATTTTTAGTTTGTTATTTTTATTTTATTTTACTTTATTATTAAT-CTAT
* *
90565577 TATTTTTTGTTTGTTATTTTATATTTTATATTTATTCTTATTA-TAAT-TAT
1 TATTTTTAGTTTGTTATTTT-TATTTTAT-TTTACT-TTATTATTAATCTAT
90565627 TATTTTTAGTT
1 TATTTTTAGTT
90565638 CCTTTCTTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
50 31 0.60
51 8 0.15
52 7 0.13
53 6 0.12
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.71
Consensus pattern (49 bp):
TATTTTTAGTTTGTTATTTTTATTTTATTTTACTTTATTATTAATCTAT
Found at i:90571651 original size:68 final size:64
Alignment explanation
Indices: 90571535--90571793 Score: 242
Period size: 68 Copynumber: 3.9 Consensus size: 64
90571525 TGGATGATAC
** * * *
90571535 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
90571599 AAG
64 --G
* *
90571602 ACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTA
90571666 CG
63 CG
* * *
90571668 AGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
90571731 TACG
61 TACG
* * *
90571735 AGATAAAT-TAGCTCGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGC
90571794 CGAACTATAT
Statistics
Matches: 161, Mismatches: 18, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
61 2 0.01
62 4 0.02
63 19 0.12
64 20 0.12
65 5 0.03
66 20 0.12
67 37 0.23
68 51 0.32
69 2 0.01
70 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:90575282 original size:36 final size:36
Alignment explanation
Indices: 90575241--90575312 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
90575231 ATGATTATTC
* *
90575241 TACAATTTGAAAGATAATACGATTCAAGTTTCTACT
1 TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
*
90575277 TACAATCTGAAAGATAATACAATTTAAGTTTCTACT
1 TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
90575313 CATGCTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (36 bp):
TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
Found at i:90577202 original size:16 final size:16
Alignment explanation
Indices: 90577181--90577211 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90577171 TTCACTATTA
*
90577181 TATCTTTTGTATTTTC
1 TATCTTTTATATTTTC
90577197 TATCTTTTATATTTT
1 TATCTTTTATATTTT
90577212 GCATGCATAC
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:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (16 bp):
TATCTTTTATATTTTC
Found at i:90587112 original size:24 final size:24
Alignment explanation
Indices: 90587054--90587128 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
90587044 AGGCTGAGTG
*
90587054 ATGCAGACCAGTGCCTTGGGCTGA
1 ATGCAGACCAGTGTCTTGGGCTGA
* *
90587078 ATAG-TGGCCAGTGTCTTGGGCTGA
1 AT-GCAGACCAGTGTCTTGGGCTGA
* * *
90587102 ATGCAGACCAGTATATTAGGCTGA
1 ATGCAGACCAGTGTCTTGGGCTGA
90587126 ATG
1 ATG
90587129 GTCCTAGTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (24 bp):
ATGCAGACCAGTGTCTTGGGCTGA
Found at i:90604589 original size:28 final size:29
Alignment explanation
Indices: 90604535--90604589 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
90604525 ACAGGGGTTT
90604535 TCACACGGCCAAGCACACGCTCGTGTCCC
1 TCACACGGCCAAGCACACGCTCGTGTCCC
*
90604564 TCACACGGCCTAGACACAC-C-CGTGTC
1 TCACACGGCCAAG-CACACGCTCGTGTC
90604590 GTCGCCCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 13 0.54
30 5 0.21
ACGTcount: A:0.22, C:0.44, G:0.20, T:0.15
Consensus pattern (29 bp):
TCACACGGCCAAGCACACGCTCGTGTCCC
Found at i:90616950 original size:14 final size:14
Alignment explanation
Indices: 90616931--90616958 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90616921 AACTGTTGTT
90616931 TTATATAAAAAAAA
1 TTATATAAAAAAAA
90616945 TTATATAAAAAAAA
1 TTATATAAAAAAAA
90616959 AACTCTCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TTATATAAAAAAAA
Found at i:90620062 original size:13 final size:13
Alignment explanation
Indices: 90620044--90620069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90620034 ATCATTTTTA
90620044 TCAAATTCTCCTT
1 TCAAATTCTCCTT
90620057 TCAAATTCTCCTT
1 TCAAATTCTCCTT
90620070 AATCCATAAC
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:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
TCAAATTCTCCTT
Found at i:90622480 original size:28 final size:28
Alignment explanation
Indices: 90622440--90622497 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
90622430 CATTTTAACT
90622440 CACCCTGCCTTGATTTGATCTTGAATGG
1 CACCCTGCCTTGATTTGATCTTGAATGG
90622468 CACCCTGCCTTGATTTGATCTTGAATGG
1 CACCCTGCCTTGATTTGATCTTGAATGG
90622496 CA
1 CA
90622498 TCATTCTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (28 bp):
CACCCTGCCTTGATTTGATCTTGAATGG
Found at i:90624153 original size:21 final size:20
Alignment explanation
Indices: 90624129--90624178 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
90624119 ATGGTAAGAA
*
90624129 AATATTATTATTATTTTAATT
1 AATATTATTATTATGTT-ATT
* *
90624150 AATATCATTATTATGTTGTT
1 AATATTATTATTATGTTATT
90624170 AATATTATT
1 AATATTATT
90624179 GTATTACTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
AATATTATTATTATGTTATT
Found at i:90627194 original size:20 final size:20
Alignment explanation
Indices: 90627146--90627194 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
90627136 AATTTTAGCT
* *
90627146 TTTATCTTCATTTATTTTTA
1 TTTATCTTTATTTATTTGTA
*
90627166 ATTATCTTTATTTATTTGTA
1 TTTATCTTTATTTATTTGTA
90627186 TTTATCTTT
1 TTTATCTTT
90627195 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATCTTTATTTATTTGTA
Found at i:90633854 original size:16 final size:16
Alignment explanation
Indices: 90633823--90633864 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
90633813 TGTTTAAGAA
*
90633823 TAATCTAATTATGAAGT
1 TAATCT-ATCATGAAGT
90633840 TAATCTATCATGAAGT
1 TAATCTATCATGAAGT
90633856 TAATCTATC
1 TAATCTATC
90633865 TTCTATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (16 bp):
TAATCTATCATGAAGT
Found at i:90637026 original size:61 final size:61
Alignment explanation
Indices: 90636961--90637097 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 61
90636951 ATTTTTTTAA
* * *
90636961 TTTTTAGAGTTAGGACTA-AATTGAC-AGATTGT-GTAAATATTGAGGGCCAAATTTATTGAAT
1 TTTTTAGAATTAGGACTAGAA-TGACAAG-TT-TAGTAAACATTGAGAGCCAAATTTATTGAAT
* * * *
90637022 TTTTTAGAATTAGAACTAGAATGGCAAGTTTAGTAAGCATTGAGAGCTAAATTTATTGAAT
1 TTTTTAGAATTAGGACTAGAATGACAAGTTTAGTAAACATTGAGAGCCAAATTTATTGAAT
* *
90637083 TTTTTATATTTAGGA
1 TTTTTAGAATTAGGA
90637098 TCAAATTAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
60 1 0.02
61 58 0.92
62 4 0.06
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (61 bp):
TTTTTAGAATTAGGACTAGAATGACAAGTTTAGTAAACATTGAGAGCCAAATTTATTGAAT
Found at i:90638889 original size:16 final size:17
Alignment explanation
Indices: 90638868--90638907 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
90638858 TGGTCCTAAG
90638868 TTAAAA-AGTCAATTAC
1 TTAAAAGAGTCAATTAC
*
90638884 TTAAAATGTGTCAATTAC
1 TTAAAA-GAGTCAATTAC
90638902 TTAAAA
1 TTAAAA
90638908 TGTGTAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
18 15 0.71
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (17 bp):
TTAAAAGAGTCAATTAC
Found at i:90638898 original size:18 final size:18
Alignment explanation
Indices: 90638875--90638912 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
90638865 AAGTTAAAAA
90638875 GTCAATTACTTAAAATGT
1 GTCAATTACTTAAAATGT
90638893 GTCAATTACTTAAAATGT
1 GTCAATTACTTAAAATGT
90638911 GT
1 GT
90638913 AGTCCACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (18 bp):
GTCAATTACTTAAAATGT
Found at i:90659517 original size:10 final size:10
Alignment explanation
Indices: 90659485--90659518 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
90659475 CGTTTTGTCC
90659485 CTTTTTGGCT
1 CTTTTTGGCT
90659495 CGTTTTTGGCT
1 C-TTTTTGGCT
*
90659506 CTTTTTGACT
1 CTTTTTGGCT
90659516 CTT
1 CTT
90659519 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:90662585 original size:49 final size:49
Alignment explanation
Indices: 90662402--90662624 Score: 183
Period size: 49 Copynumber: 4.7 Consensus size: 49
90662392 GTGGTATATG
* * * * * * *
90662402 AGCTAGTGTAAGACATGTCTGGAAAAT-GCATCGGCCTCGAGATATACA
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATAGATGCA
* * * *
90662450 AGCTAGTGTAAGACCTATCTGGGACATGGCGTCAG-CTTG-TTG-TGC-
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATAGATGCA
* * * *
90662495 -GTTAGTGTAAGACCTGTCTGAGACATAGCATC-GACAC-CGATAGATGCG
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAG-C-CTCGATAGATGCA
* * * * *
90662543 AGCTAGTGTAAGACCTGTCTGGCACATGGCATTAGCCTCGATATACGAA
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATAGATGCA
*
90662592 AGTTAGTGTAAGACCTGTCTGGGACATGGCATC
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATC
90662625 GACTTTAATG
Statistics
Matches: 135, Mismatches: 30, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 27 0.20
45 1 0.01
46 5 0.04
47 3 0.02
48 27 0.20
49 70 0.52
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (49 bp):
AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATAGATGCA
Found at i:90665541 original size:14 final size:14
Alignment explanation
Indices: 90665524--90665553 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90665514 ATACAAAACT
90665524 AAGAAAAAAAAAGA
1 AAGAAAAAAAAAGA
*
90665538 AAGAAAAATAAAGA
1 AAGAAAAAAAAAGA
90665552 AA
1 AA
90665554 AGGAGAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAGAAAAAAAAAGA
Found at i:90665888 original size:16 final size:16
Alignment explanation
Indices: 90665863--90665896 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90665853 ATGAATATAT
* *
90665863 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
90665879 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
90665895 AT
1 AT
90665897 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:90669340 original size:55 final size:55
Alignment explanation
Indices: 90669271--90669407 Score: 213
Period size: 55 Copynumber: 2.5 Consensus size: 55
90669261 TGTGTGCGAG
*
90669271 TAAGACCATCGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
1 TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
90669326 TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
1 TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
* * *
90669381 CAGGGA-CAGTGGCATCAATATGTGATT
1 TA-AGACCA-TGGCATCGATATGTGATT
90669408 ACATGTAAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
55 57 0.75
56 19 0.25
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (55 bp):
TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
Found at i:90672260 original size:16 final size:15
Alignment explanation
Indices: 90672239--90672278 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
90672229 TTATATATAC
90672239 TAATAAAATAATAATA
1 TAATAAAAT-ATAATA
*
90672255 TAATAAAATATCATA
1 TAATAAAATATAATA
*
90672270 TAAAAAAAT
1 TAATAAAAT
90672279 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAAAATATAATA
Done.