Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 166 of 204
Found at i:49938131 original size:352 final size:351
Alignment explanation
Indices: 49937374--49938145 Score: 1092
Period size: 352 Copynumber: 2.2 Consensus size: 351
49937364 GCCACCAGTC
* * * *
49937374 CTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTC-TGTCTCCCTAAGCAGTAGT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGATT-CAGA-TCATATCTCCCTAAGCAGTAGT
* * *
49937438 GGAGCAGATCGAAAATGGTGAATCTTATCTTCCTAAGATAGTGGAGAAGCAAATTTAAGCCATTA
64 GGAGCAGATCGAAAATGGTAAATCTTATCTTCCTAAGATAGTGAAGAAACAAATTTAAGCCATTA
* * * *
49937503 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTGTCTCCTTAAGCAGTA
129 GTCCTACCTCCCCAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTATCTCCCTAAGCAGTA
* * *
49937568 GTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCAT
194 GTGGAGCAGATCGAAGATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCAT
*
49937633 TAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAG
259 TAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAG
* * * *
49937698 TAGTGGAGTAGGTTGAAGATTGCAGATT
324 TAGTGGAGCAGATCGAAGATTGCAGAAT
* * * *
49937726 CTGTCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTATGTCTCCCTAAGCAGTAGTG
1 CTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGATT-CAGATCATATCTCCCTAAGCAGTAGTG
* *
49937791 GAGCAGATCGAAGATGGTAAATCTTATCTT-CTCAAGATAGTGAAGAAACAGATTTAAGCCATTA
65 GAGCAGATCGAAAATGGTAAATCTTATCTTCCT-AAGATAGTGAAGAAACAAATTTAAGCCATTA
* *
49937855 GTCCTACCTCCCCAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTATCTCCCTAAGCAGTA
129 GTCCTACCTCCCCAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTATCTCCCTAAGCAGTA
*
49937920 GTGGAGCAGATCGAATATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCAT
194 GTGGAGCAGATCGAAGATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCAT
49937985 TAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAG
259 TAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAG
* **
49938050 TAGTGGAGCATATCGAAGA-TGGTGAAT
324 TAGTGGAGCAGATCGAAGATTGCAGAAT
* *
49938077 CTTATCTTCCC-AAG-A-TAGTGGAGAAGTAGATTTAAGCCATT-AG-TCCTATCTCCCTAAGCA
1 C-TATC-TCCCTAAGCAGTAGT-G-G-AGTAGATTAAAG--ATTCAGATCATATCTCCCTAAGCA
49938137 GTAGTGGAG
59 GTAGTGGAG
49938146 TAGGTTGAAT
Statistics
Matches: 378, Mismatches: 33, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
350 4 0.01
351 11 0.03
352 344 0.91
353 16 0.04
355 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (351 bp):
CTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGATTCAGATCATATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAAATGGTAAATCTTATCTTCCTAAGATAGTGAAGAAACAAATTTAAGCCATTAGT
CCTACCTCCCCAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTA
GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGATTGCAGAAT
Found at i:49938187 original size:176 final size:176
Alignment explanation
Indices: 49937993--49938361 Score: 612
Period size: 176 Copynumber: 2.1 Consensus size: 176
49937983 ATTAGTCCTA
*
49937993 TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGAAGTAGTGGAG
* * *
49938058 CATATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCC
66 CAAATCGAAGACGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCC
* * * *
49938123 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAATATTACAGATTCTG
131 TATCTCCCTAAGCAGTAGTAGAGTAGGATAAAGATTACAGATTCTG
* *
49938169 TCTCCCTAAGCAGTAGTGGAGTAGGTTTAAGATTGTAGATTCTGTCTCCCTAAGAAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGAAGTAGTGGAG
*
49938234 CAAATCGAAGACGGTGAATTTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAAATCGAAGACGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCC
* * *
49938299 TATCTCCCTAAGCAGTAGTAGAGTAGGATAAAGATTGCAGCTTTTG
131 TATCTCCCTAAGCAGTAGTAGAGTAGGATAAAGATTACAGATTCTG
49938345 TCTCCCTAAGCAGTAGT
1 TCTCCCTAAGCAGTAGT
49938362 AGAGCAGATC
Statistics
Matches: 179, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
176 179 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (176 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGAAGTAGTGGAG
CAAATCGAAGACGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCC
TATCTCCCTAAGCAGTAGTAGAGTAGGATAAAGATTACAGATTCTG
Found at i:49938305 original size:88 final size:86
Alignment explanation
Indices: 49938037--49938317 Score: 277
Period size: 88 Copynumber: 3.2 Consensus size: 86
49938027 GCAGATTCTG
* *
49938037 TCTCCCTAAGCAGTAGTGGAGCATATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGA-GGTGAATTTTATCTTCCCAAGATAGTGGAGAA
49938102 GTAGATTTAAGCCATTAGTCCTA
65 G-AGATTTAAGCCATTAGTCCTA
* ** * * * * * *
49938125 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAATA-TTACAGATTCTGTC-TCCCTAAGCAGTAGTGG
1 TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGAGGT-GA-ATTTTATCTTCCC-AAG-A-TAGTGG
* * *
49938188 AGTAG-G-TTTAAG--ATTGTAGATTCTG
61 AGAAGAGATTTAAGCCA-T-TAG-TCCTA
*
49938213 TCTCCCTAAGAAGTAGTGGAGCAAATCGAAGACGGTGAATTTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGA-GGTGAATTTTATCTTCCCAAGATAGTGGAGAA
49938278 GCAGATTTAAGCCATTAGTCCTA
65 G-AGATTTAAGCCATTAGTCCTA
49938301 TCTCCCTAAGCAGTAGT
1 TCTCCCTAAGCAGTAGT
49938318 AGAGTAGGAT
Statistics
Matches: 150, Mismatches: 27, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
85 1 0.01
86 12 0.08
87 15 0.10
88 94 0.63
89 15 0.10
90 12 0.08
91 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (86 bp):
TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGAGGTGAATTTTATCTTCCCAAGATAGTGGAGAAG
AGATTTAAGCCATTAGTCCTA
Found at i:49938455 original size:308 final size:307
Alignment explanation
Indices: 49937370--49938471 Score: 1172
Period size: 308 Copynumber: 3.6 Consensus size: 307
49937360 TGAAGCCACC
* *
49937370 AGTCCTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGT
* * * *
49937435 AGTGGAGCAGATCGAAAATGGTGAATCTTATCTTCCTAAGATAGTGGAGAAGCAAATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAATCAGATTTAAGCCA
* * *
49937500 TTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTGTCTCCTTAAGCA
131 TTAGTCCTATCTCCCTAAGCAGTAATGGAGTAGGTTAAACATTACAGATTCTGTCTCCCTAAGCA
* * * * * * **
49937565 GTAGTGGAGCAGATCGAAGATGGT-GAATCTTATCTTCCC-AAGA-TAGTGGAGAAGTAGATTTA
196 GTAGTGGAGTAGGTTGAAGATTGTAGATTC-TATC-TCCCTAAGAGTAGTGGAGCA--A-ATCGA
** * * * * *
49937627 AG-CCATTAGTCCTATC-TCCCTAAGCAGTAGTGGAGTAG--G-TTGAAG--ATT
256 AGACGGTAAATCTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGCCATT
* * *
49937675 GCAGATTCTGTCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGC
1 --AG-TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGC
* * ** * ** *
49937740 AGTAGTGGAGTAGGTTAAAGAT--TGCAGATTATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAA
63 AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCT-TCCC-AAG-A-TAGTGGAG-A-ATC--A
* ** * * ** * *
49937803 GATGGTAAATC-TTA-T-CT-TCT--C-AAGATAGTGAA-GAAACAGATTTAAGCCATT--AG-T
120 GAT-TTAAGCCATTAGTCCTATCTCCCTAAG-CAGT-AATGGAGTAG-GTTAA-ACATTACAGAT
* ** * *
49937857 CCTACCTCCCCAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTATCTCCCTAAGCAGTAGT
180 TCTGTCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTATCTCCCTAAG-AGTAGT
* * * *
49937922 GGAGCAGATCGAATATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATT
244 GGAGCAAATCGAAGACGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATT
49937986 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGT
*
49938051 AGTGGAGCATATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGT-AGATTTAAGCC
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA-TCAGATTTAAGCC
* * *
49938115 ATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAATATTACAGATTCTGTCTCCCTAAGC
130 ATTAGTCCTATCTCCCTAAGCAGTAATGGAGTAGGTTAAACATTACAGATTCTGTCTCCCTAAGC
* *
49938180 AGTAGTGGAGTAGGTTTAAGATTGTAGATTCTGTCTCCCTAAGAAGTAGTGGAGCAAATCGAAGA
195 AGTAGTGGAGTAGGTTGAAGATTGTAGATTCTATCTCCCTAAG-AGTAGTGGAGCAAATCGAAGA
* *
49938245 CGGTGAATTTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATT
259 CGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATT
* * * *
49938294 AGTCCTATCTCCCTAAGCAGTAGTAGAGTAGGATAAAGATTGCAGCTTTTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGT
*
49938359 AGTAGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAATCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAATCAGATTTAAGCCA
* * *
49938424 TTAGTCCTATCTCCCTAAGTAGTAATGGAGTAGGTTAAAGATTGCAGA
131 TTAGTCCTATCTCCCTAAGCAGTAATGGAGTAGGTTAAACATTACAGA
49938472 ACCCTAAGCA
Statistics
Matches: 655, Mismatches: 100, Indels: 79
0.79 0.12 0.09
Matches are distributed among these distances:
301 4 0.01
302 7 0.01
303 1 0.00
304 3 0.00
305 8 0.01
306 30 0.05
307 26 0.04
308 491 0.75
309 30 0.05
310 30 0.05
311 10 0.02
312 4 0.01
313 1 0.00
314 6 0.01
315 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (307 bp):
AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAATCAGATTTAAGCCA
TTAGTCCTATCTCCCTAAGCAGTAATGGAGTAGGTTAAACATTACAGATTCTGTCTCCCTAAGCA
GTAGTGGAGTAGGTTGAAGATTGTAGATTCTATCTCCCTAAGAGTAGTGGAGCAAATCGAAGACG
GTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATT
Found at i:49938897 original size:50 final size:50
Alignment explanation
Indices: 49938638--49939194 Score: 350
Period size: 50 Copynumber: 11.2 Consensus size: 50
49938628 CGAAGATGGC
* ** *
49938638 GAATCTTACTTCCCAGGCAGTGCAGTGGATTAGATTGAAGC-ACAATGGT
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
* *** * * * * * * ** * **
49938687 GAATCTTGCTTCCCCAACATTGTAAT-TAAAATATTGTGGCCACAACGAC
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
* *
49938736 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAATGGT
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
** * * * * * * * ** **
49938786 GAATCTCGCTTCCCCGACATTGCAAT-TAAAAGATTGAGGCCCCAACGAC
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
**
49938835 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAGTGGT
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
* * * * * * * * *
49938885 GAATCTTGCTTCCCTGACATTGCAAT-TAAAAGATTGAGGCCACAACGGC
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
* * *
49938934 GAATCTTACTT-CTTAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGAT
1 GAATCTTACTTCCCT-GGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
** *** * * ** * * *
49938984 GAATCTCGCTTCCCCAACATTGCAATTAAAAAGATTGAAGCTACAACAGC
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
* * * * *
49939034 GAATCTTACTTCCCAGGCAGTACAGTGGAACATATTGAAGATACAATGGT
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
* * * ** * * * *
49939084 GAATCTTGCTTCCCCGGCATTGCAGTTAAAAAGATTGAAGCTATAACAGC
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
* * ** * *
49939134 AAATCTTACTTCTCAAGCGGTGCAGTGGAACATATTGAAGCTACAACGGT
1 GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
49939184 GAATCTTACTT
1 GAATCTTACTT
49939195 TCTCGACATT
Statistics
Matches: 357, Mismatches: 145, Indels: 11
0.70 0.28 0.02
Matches are distributed among these distances:
48 10 0.03
49 110 0.31
50 236 0.66
51 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (50 bp):
GAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGT
Found at i:49939079 original size:100 final size:99
Alignment explanation
Indices: 49938636--49939247 Score: 762
Period size: 99 Copynumber: 6.2 Consensus size: 99
49938626 ATCGAAGATG
**
49938636 GCGAATCTTACTTCCCAGGCAGTGCAGTGGATTAGATTGAAGC-ACAATGGTGAATCTTGCTTCC
1 GCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTGAAGCTACAATGGTGAATCTTGCTTCC
* * * **
49938700 CCAACATTGTAATTAAAATATTGTGGCCACAAC-
66 CCGACATTGCAATTAAAAGATTGAAGCCACAACA
* * *
49938733 GACGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAATGGTGAATCTCGCTTC
1 G-CGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTGAAGCTACAATGGTGAATCTTGCTTC
* *
49938798 CCCGACATTGCAATTAAAAGATTGAGGCCCCAAC-
65 CCCGACATTGCAATTAAAAGATTGAAGCCACAACA
* *
49938832 GACGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAGTGGTGAATCTTGCTTC
1 G-CGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTGAAGCTACAATGGTGAATCTTGCTTC
* * *
49938897 CCTGACATTGCAATTAAAAGATTGAGGCCACAACG
65 CCCGACATTGCAATTAAAAGATTGAAGCCACAACA
** * * * *
49938932 GCGAATCTTACTTCTTAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGATGAATCTCGCTTCC
1 GCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTGAAGCTACAATGGTGAATCTTGCTTCC
* *
49938997 CCAACATTGCAATTAAAAAGATTGAAGCTACAACA
66 CCGACATTGCAATT-AAAAGATTGAAGCCACAACA
* * *
49939032 GCGAATCTTACTTCCCAGGCAGTACAGTGGAACATATTGAAGATACAATGGTGAATCTTGCTTCC
1 GCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTGAAGCTACAATGGTGAATCTTGCTTCC
* * * *
49939097 CCGGCATTGCAGTTAAAAAGATTGAAGCTATAACA
66 CCGACATTGCAATT-AAAAGATTGAAGCCACAACA
* * * * * * * *
49939132 GCAAATCTTACTTCTCAAGCGGTGCAGTGGAACATATTGAAGCTACAACGGTGAATCTTACTTTC
1 GCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTGAAGCTACAATGGTGAATCTTGCTTCC
* * *
49939197 TCGACATTGTAATTAAATAGATTGAAGCTACAACA
66 CCGACATTGCAATTAAA-AGATTGAAGCCACAACA
*
49939232 GCGAATCTTATTTCCC
1 GCGAATCTTACTTCCC
49939248 TAGTGAACAG
Statistics
Matches: 452, Mismatches: 58, Indels: 7
0.87 0.11 0.01
Matches are distributed among these distances:
97 1 0.00
98 38 0.08
99 213 0.47
100 200 0.44
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (99 bp):
GCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTGAAGCTACAATGGTGAATCTTGCTTCC
CCGACATTGCAATTAAAAGATTGAAGCCACAACA
Found at i:49941415 original size:3 final size:3
Alignment explanation
Indices: 49941409--49941452 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
49941399 TTTGATATTA
*
49941409 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTC TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
49941453 ATTATACTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.02, G:0.30, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:49941612 original size:16 final size:16
Alignment explanation
Indices: 49941591--49941627 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
49941581 ATTATTATCC
*
49941591 TTATTATTATTAATTT
1 TTATTATCATTAATTT
49941607 TTATTATCATTAATTT
1 TTATTATCATTAATTT
49941623 TTATT
1 TTATT
49941628 TGCTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTATCATTAATTT
Found at i:49941791 original size:6 final size:6
Alignment explanation
Indices: 49941784--49941830 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
49941774 AAAATCTTAT
* * * *
49941784 TATTAT TATTAC TATTAC TATTAA TATTAC TAGTAT TATTA- TATTAC
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
49941831 ACTTAAATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (6 bp):
TATTAC
Found at i:49942257 original size:71 final size:72
Alignment explanation
Indices: 49942155--49942296 Score: 250
Period size: 71 Copynumber: 2.0 Consensus size: 72
49942145 TCTTTTCAAA
* * *
49942155 CTCAAGTTTTAAACGATTTCGGGAATTAAGAAGAGATTGTGTCCTAACTTACTGGGCATGATC-C
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTC
49942219 TTTTTTC
66 TTTTTTC
49942226 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTC
49942291 TTTTTT
66 TTTTTT
49942297 AAATCCGAGA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 60 0.90
72 7 0.10
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTC
TTTTTTC
Found at i:49943488 original size:9 final size:9
Alignment explanation
Indices: 49943474--49943540 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
49943464 TTTGGTTAAA
49943474 AATTAACCG
1 AATTAACCG
49943483 AATTAACCG
1 AATTAACCG
* *
49943492 AATTACCCA
1 AATTAACCG
49943501 AATTAACCG
1 AATTAACCG
* *
49943510 AATTACCCA
1 AATTAACCG
*
49943519 AATTAACCA
1 AATTAACCG
*
49943528 AATTAACTG
1 AATTAACCG
49943537 AATT
1 AATT
49943541 GAATCACTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:49943511 original size:27 final size:27
Alignment explanation
Indices: 49943473--49943540 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
49943463 TTTTGGTTAA
* *
49943473 AAATTAACCGAATTAACCGAATTACCC
1 AAATTAACCGAATTAACCAAATTAACC
*
49943500 AAATTAACCGAATTACCCAAATTAACC
1 AAATTAACCGAATTAACCAAATTAACC
*
49943527 AAATTAACTGAATT
1 AAATTAACCGAATT
49943541 GAATCACTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (27 bp):
AAATTAACCGAATTAACCAAATTAACC
Found at i:49943540 original size:18 final size:18
Alignment explanation
Indices: 49943483--49943532 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
49943473 AAATTAACCG
49943483 AATTAACCGAATTACCCA
1 AATTAACCGAATTACCCA
49943501 AATTAACCGAATTACCCA
1 AATTAACCGAATTACCCA
*
49943519 AATTAACCAAATTA
1 AATTAACCGAATTA
49943533 ACTGAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCA
Found at i:49946062 original size:5 final size:5
Alignment explanation
Indices: 49946036--49946093 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
49946026 ATGTGTTAAA
* *
49946036 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
49946085 ATATT ATAT
1 ATATT ATAT
49946094 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:49946072 original size:10 final size:9
Alignment explanation
Indices: 49946037--49946094 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
49946027 TGTGTTAAAA
49946037 TATATATAT
1 TATATATAT
*
49946046 TAAAT-TAT
1 TATATATAT
49946054 TAT-TATAT
1 TATATATAT
49946062 TATAGTATAT
1 TATA-TATAT
49946072 TATAT-TA-
1 TATATATAT
49946079 TATATTATAT
1 TATA-TATAT
49946089 TATATA
1 TATATA
49946095 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:49946084 original size:12 final size:12
Alignment explanation
Indices: 49946039--49946094 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
49946029 TGTTAAAATA
*
49946039 TATATATTAAAT
1 TATATATTATAT
49946051 TAT-TATTATATT
1 TATATATTATA-T
49946063 ATAGTATATTATAT
1 -TA-TATATTATAT
49946077 TATATATTATAT
1 TATATATTATAT
49946089 TATATA
1 TATATA
49946095 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:49947430 original size:18 final size:19
Alignment explanation
Indices: 49947407--49947445 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
49947397 ATATATAGAT
49947407 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
49947425 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
49947444 AT
1 AT
49947446 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:49947731 original size:41 final size:40
Alignment explanation
Indices: 49947683--49947782 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 40
49947673 TCGACCTCGA
*
49947683 GTCGATGAGACACTGGGTGTCACTATA-TTTCTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCA-ACTTTCTTCGGATAG
* ** *
49947723 ATTCGATGAGGTACT-GG-GT-ACCAACTTTCTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCAACTTTCTTCGGATAG
*
49947761 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
49947783 AATATTGCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
37 11 0.24
38 17 0.37
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCAACTTTCTTCGGATAG
Found at i:49947962 original size:18 final size:19
Alignment explanation
Indices: 49947941--49947981 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49947931 AATGAAATGA
49947941 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
49947959 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
49947978 GAAA
1 GAAA
49947982 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:49952493 original size:5 final size:5
Alignment explanation
Indices: 49952467--49952524 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
49952457 ATGTGTTAAA
* *
49952467 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
49952516 ATATT ATAT
1 ATATT ATAT
49952525 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:49952503 original size:10 final size:9
Alignment explanation
Indices: 49952468--49952525 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
49952458 TGTGTTAAAA
49952468 TATATATAT
1 TATATATAT
*
49952477 TAAAT-TAT
1 TATATATAT
49952485 TAT-TATAT
1 TATATATAT
49952493 TATAGTATAT
1 TATA-TATAT
49952503 TATAT-TA-
1 TATATATAT
49952510 TATATTATAT
1 TATA-TATAT
49952520 TATATA
1 TATATA
49952526 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:49952515 original size:12 final size:12
Alignment explanation
Indices: 49952470--49952525 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
49952460 TGTTAAAATA
*
49952470 TATATATTAAAT
1 TATATATTATAT
49952482 TAT-TATTATATT
1 TATATATTATA-T
49952494 ATAGTATATTATAT
1 -TA-TATATTATAT
49952508 TATATATTATAT
1 TATATATTATAT
49952520 TATATA
1 TATATA
49952526 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:49953862 original size:18 final size:19
Alignment explanation
Indices: 49953839--49953877 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
49953829 ATATATAGAT
49953839 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
49953857 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
49953876 AT
1 AT
49953878 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:49954227 original size:39 final size:39
Alignment explanation
Indices: 49954117--49954251 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
49954107 GACCTCGAGT
* * * *
49954117 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
49954158 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
49954196 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
49954235 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
49954252 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:49954395 original size:18 final size:19
Alignment explanation
Indices: 49954374--49954414 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49954364 AATGAAATGA
49954374 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
49954392 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
49954411 GAAA
1 GAAA
49954415 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:49956594 original size:5 final size:5
Alignment explanation
Indices: 49956579--49956623 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
49956569 TATATATAAA
*
49956579 ATTATT ATTAT ATTAT AGTAT ATTAT ATTATAT ATTAT ATTAT AT
1 ATTA-T ATTAT ATTAT ATTAT ATTAT A-T-TAT ATTAT ATTAT AT
49956624 AATAAGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 25 0.71
6 6 0.17
7 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:49956602 original size:10 final size:9
Alignment explanation
Indices: 49956568--49956624 Score: 50
Period size: 8 Copynumber: 6.6 Consensus size: 9
49956558 TATGTGTTAA
*
49956568 ATATATATA
1 ATATATATT
*
49956577 AAAT-TATT
1 ATATATATT
49956585 AT-TATATT
1 ATATATATT
49956593 ATAGTATATT
1 ATA-TATATT
49956603 ATAT-TA-T
1 ATATATATT
49956610 ATATTATATT
1 ATA-TATATT
49956620 ATATA
1 ATATA
49956625 ATAAGTAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
7 5 0.13
8 13 0.33
9 8 0.21
10 13 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
ATATATATT
Found at i:49956614 original size:12 final size:12
Alignment explanation
Indices: 49956569--49956624 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
49956559 ATGTGTTAAA
* *
49956569 TATATATAAAAT
1 TATATATTATAT
49956581 TAT-TATTATATT
1 TATATATTATA-T
49956593 ATAGTATATTATAT
1 -TA-TATATTATAT
49956607 TATATATTATAT
1 TATATATTATAT
49956619 TATATA
1 TATATA
49956625 ATAAGTAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 5 0.13
12 20 0.53
13 4 0.11
14 2 0.05
15 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
TATATATTATAT
Found at i:49956645 original size:9 final size:10
Alignment explanation
Indices: 49956631--49956680 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
49956621 TATAATAAGT
49956631 AAAGAAACA-
1 AAAGAAACAG
49956640 AAAGAAACAG
1 AAAGAAACAG
*
49956650 AATGAAAGCA-
1 AAAGAAA-CAG
*
49956660 AACGAAACAG
1 AAAGAAACAG
49956670 AGAAGAAACAG
1 A-AAGAAACAG
49956681 GGGAGAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 11 0.32
10 13 0.38
11 10 0.29
ACGTcount: A:0.66, C:0.12, G:0.20, T:0.02
Consensus pattern (10 bp):
AAAGAAACAG
Found at i:49957065 original size:22 final size:19
Alignment explanation
Indices: 49957032--49957079 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 19
49957022 GTATGGATGA
49957032 AATTTGAATAGAAATAAGTATG
1 AATTT-AATAG-AA-AAGTATG
*
49957054 AATTTAAGTAGAAAAGTGTG
1 AATTTAA-TAGAAAAGTATG
49957074 AATTTA
1 AATTTA
49957080 GTTAGAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 12 0.50
21 4 0.17
22 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (19 bp):
AATTTAATAGAAAAGTATG
Found at i:49957949 original size:19 final size:19
Alignment explanation
Indices: 49957925--49957964 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
49957915 ATATATATAG
49957925 ATATATAATTGAATA-TTGA
1 ATATAT-ATTGAATATTTGA
*
49957944 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
49957963 AT
1 AT
49957965 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:49958063 original size:17 final size:17
Alignment explanation
Indices: 49958041--49958074 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
49958031 GAAAGTGAAT
49958041 TGAATTGTAT-TGAATTA
1 TGAATT-TATGTGAATTA
49958058 TGAATTTATGTGAATTA
1 TGAATTTATGTGAATTA
49958075 ATTAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (17 bp):
TGAATTTATGTGAATTA
Found at i:49958473 original size:12 final size:12
Alignment explanation
Indices: 49958453--49958482 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49958443 GCTTATTGAA
49958453 TGAAATGAGAAT
1 TGAAATGAGAAT
*
49958465 TGAATTGAGAAT
1 TGAAATGAGAAT
49958477 TGAAAT
1 TGAAAT
49958483 TGTGAGATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (12 bp):
TGAAATGAGAAT
Found at i:49963024 original size:5 final size:5
Alignment explanation
Indices: 49962998--49963054 Score: 69
Period size: 5 Copynumber: 10.8 Consensus size: 5
49962988 ATGTGTTAAA
* *
49962998 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATT ATATAT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATATT ATAT-T
49963046 ATATT ATAT
1 ATATT ATAT
49963055 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
5 32 0.71
6 13 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:49963032 original size:26 final size:25
Alignment explanation
Indices: 49962999--49963055 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
49962989 TGTGTTAAAA
49962999 TATATATATTAAATTAT-TATTATAT
1 TATATATATTAAATTATATA-TATAT
*
49963024 TATAGTATATTATATTATATATATAT
1 TATA-TATATTAAATTATATATATAT
49963050 TATATA
1 TATATA
49963056 AATAAGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.21
26 21 0.72
27 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TATATATATTAAATTATATATATAT
Found at i:49964392 original size:18 final size:19
Alignment explanation
Indices: 49964369--49964407 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
49964359 ATATATAGAT
49964369 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
49964387 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
49964406 AT
1 AT
49964408 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:49964924 original size:18 final size:19
Alignment explanation
Indices: 49964903--49964943 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49964893 AATGAAATGA
49964903 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
49964921 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
49964940 GAAA
1 GAAA
49964944 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:49969458 original size:5 final size:5
Alignment explanation
Indices: 49969432--49969489 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
49969422 ATGTGTTAAA
* *
49969432 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
49969481 ATATT ATAT
1 ATATT ATAT
49969490 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:49969468 original size:10 final size:9
Alignment explanation
Indices: 49969433--49969490 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
49969423 TGTGTTAAAA
49969433 TATATATAT
1 TATATATAT
*
49969442 TAAAT-TAT
1 TATATATAT
49969450 TAT-TATAT
1 TATATATAT
49969458 TATAGTATAT
1 TATA-TATAT
49969468 TATAT-TA-
1 TATATATAT
49969475 TATATTATAT
1 TATA-TATAT
49969485 TATATA
1 TATATA
49969491 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:49969480 original size:12 final size:12
Alignment explanation
Indices: 49969435--49969490 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
49969425 TGTTAAAATA
*
49969435 TATATATTAAAT
1 TATATATTATAT
49969447 TAT-TATTATATT
1 TATATATTATA-T
49969459 ATAGTATATTATAT
1 -TA-TATATTATAT
49969473 TATATATTATAT
1 TATATATTATAT
49969485 TATATA
1 TATATA
49969491 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:49970827 original size:18 final size:19
Alignment explanation
Indices: 49970804--49970842 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
49970794 ATATATAGAT
49970804 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
49970822 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
49970841 AT
1 AT
49970843 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:49971357 original size:18 final size:19
Alignment explanation
Indices: 49971336--49971376 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49971326 AATGAAATGA
49971336 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
49971354 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
49971373 GAAA
1 GAAA
49971377 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:49978323 original size:19 final size:19
Alignment explanation
Indices: 49978282--49978326 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49978272 AATTAGAAAT
* *
49978282 AAATTTTAGATAAATTATT
1 AAATTTTAGATAAAATATA
49978301 AAATTTTA-ATAAAAATATA
1 AAATTTTAGAT-AAAATATA
49978320 AAATTTT
1 AAATTTT
49978327 CAAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATTTTAGATAAAATATA
Found at i:49978331 original size:27 final size:27
Alignment explanation
Indices: 49978293--49978406 Score: 85
Period size: 27 Copynumber: 4.1 Consensus size: 27
49978283 AATTTTAGAT
49978293 AAATTATT-AAATTTTAATAAAAATATA
1 AAATT-TTAAAATTTTAATAAAAATATA
* *
49978320 AAATTTTCAAA-TTTATTAAAAAT-TA
1 AAATTTTAAAATTTTAATAAAAATATA
*
49978345 GAAATTTTTATAAAAATTGTAA-AAAAATTATA
1 -AAA--TTT-T-AAAATTTTAATAAAAA-TATA
*
49978377 AAATTATAAAATTTT-ATAAAAATCATA
1 AAATTTTAAAATTTTAATAAAAAT-ATA
49978404 AAA
1 AAA
49978407 AAATTATAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
25 2 0.03
26 18 0.26
27 26 0.37
28 4 0.06
29 3 0.04
30 8 0.11
31 7 0.10
32 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (27 bp):
AAATTTTAAAATTTTAATAAAAATATA
Found at i:49978361 original size:38 final size:38
Alignment explanation
Indices: 49978334--49978418 Score: 127
Period size: 38 Copynumber: 2.3 Consensus size: 38
49978324 TTTCAAATTT
*
49978334 ATTA-AAAATTAGAAATTTTTATAAAAATTGTAAAAAA
1 ATTATAAAATTAGAAAATTTTATAAAAATTGTAAAAAA
* **
49978371 ATTATAAAATTATAAAATTTTATAAAAATCATAAAAAA
1 ATTATAAAATTAGAAAATTTTATAAAAATTGTAAAAAA
49978409 ATTATAAAAT
1 ATTATAAAAT
49978419 ACATCAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (38 bp):
ATTATAAAATTAGAAAATTTTATAAAAATTGTAAAAAA
Found at i:49978379 original size:9 final size:9
Alignment explanation
Indices: 49978352--49978417 Score: 53
Period size: 11 Copynumber: 6.9 Consensus size: 9
49978342 TTAGAAATTT
49978352 TTATAAAAA
1 TTATAAAAA
*
49978361 TTGTAAAAAAA
1 -T-TATAAAAA
49978372 TTAT-AAAA
1 TTATAAAAA
*
49978380 TTATAAAATT
1 TTATAAAA-A
49978390 TTATAAAAA
1 TTATAAAAA
*
49978399 TCATAAAAAAA
1 T--TATAAAAA
49978410 TTATAAAA
1 TTATAAAA
49978418 TACATCAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
8 8 0.18
9 12 0.27
10 10 0.22
11 15 0.33
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TTATAAAAA
Found at i:49978393 original size:18 final size:18
Alignment explanation
Indices: 49978316--49978397 Score: 58
Period size: 19 Copynumber: 4.4 Consensus size: 18
49978306 TTAATAAAAA
* *
49978316 TATAAAATTTTCAAA-TT
1 TATAAAATTATAAAATTT
* *
49978333 TATTAAAAATTAGAAATTTT
1 TA-T-AAAATTATAAAATTT
* **
49978353 TATAAAAATTGTAAAAAAAT
1 TAT-AAAATTAT-AAAATTT
49978373 TATAAAATTATAAAATTT
1 TATAAAATTATAAAATTT
49978391 TATAAAA
1 TATAAAA
49978398 ATCATAAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
17 2 0.04
18 13 0.27
19 23 0.47
20 11 0.22
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (18 bp):
TATAAAATTATAAAATTT
Found at i:49978418 original size:57 final size:56
Alignment explanation
Indices: 49978293--49978418 Score: 123
Period size: 57 Copynumber: 2.2 Consensus size: 56
49978283 AATTTTAGAT
* * * *
49978293 AAATTATTAAATTTTAATAAAAATATAAAATTTTCAAATTTATTAAAAATTAGAAA
1 AAATTATAAAATTGTAATAAAAATATAAAATTATAAAATTTATTAAAAATTAGAAA
***
49978349 TTTTTATAAAAATTGTAA-AAAAATTATAAAATTATAAAATTT-TATAAAAATCATA-AAA
1 AAATTAT-AAAATTGTAATAAAAA-TATAAAATTATAAAATTTAT-TAAAAAT--TAGAAA
49978407 AAATTATAAAAT
1 AAATTATAAAAT
49978419 ACATCAAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
56 10 0.18
57 36 0.65
58 7 0.13
59 2 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (56 bp):
AAATTATAAAATTGTAATAAAAATATAAAATTATAAAATTTATTAAAAATTAGAAA
Found at i:49978427 original size:20 final size:19
Alignment explanation
Indices: 49978366--49978430 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
49978356 AAAAATTGTA
*
49978366 AAAAAATTATAAAAT-TAT
1 AAAAAATTATAAAATACAT
**
49978384 AAAATTTTATAAAA-ATCAT
1 AAAAAATTATAAAATA-CAT
49978403 AAAAAAATTATAAAATACAT
1 -AAAAAATTATAAAATACAT
49978423 CAAAAAAT
1 -AAAAAAT
49978431 CCCTTTAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 12 0.32
19 2 0.05
20 22 0.59
21 1 0.03
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAATTATAAAATACAT
Found at i:49978691 original size:20 final size:19
Alignment explanation
Indices: 49978666--49978747 Score: 73
Period size: 20 Copynumber: 4.3 Consensus size: 19
49978656 TTCTTTCGAA
49978666 TTTATAGAATTTTATAATTT
1 TTTATA-AATTTTATAATTT
*
49978686 TTTAT--ATTTCTAT-ATAT
1 TTTATAAATTT-TATAATTT
*
49978703 TTTATAATATTTTATGA-TT
1 TTTATAA-ATTTTATAATTT
*
49978722 TTTATAAAATTTTACAATTT
1 TTTAT-AAATTTTATAATTT
49978742 TTTATA
1 TTTATA
49978748 TTTTTACGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
17 12 0.24
18 3 0.06
19 17 0.33
20 19 0.37
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTATAAATTTTATAATTT
Found at i:49980623 original size:19 final size:20
Alignment explanation
Indices: 49980576--49980632 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
49980566 TATAAAAGAT
*
49980576 TGAAATATCATTATAATAATA
1 TGAAATATTATT-TAATAATA
49980597 T--AAT-TTATTTAA-AATA
1 TGAAATATTATTTAATAATA
49980613 TGAAATATTATTTTAATAAT
1 TGAAATATTA-TTTAATAAT
49980633 TTTCCTTGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 7 0.23
19 6 0.20
20 5 0.17
21 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TGAAATATTATTTAATAATA
Found at i:49985739 original size:3 final size:3
Alignment explanation
Indices: 49985727--49985828 Score: 50
Period size: 3 Copynumber: 34.0 Consensus size: 3
49985717 ATTTTATGTG
* * * *
49985727 ATT A-T ATT ATT ATC ATAT ATT TTT A-T ATT ATT -TC ACT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
49985770 ATC ATT ATT ATC ATAT AGT ATT ATT AATT GAAT ATT -TT TTT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT -ATT -ATT ATT ATT ATT ATT ATT
*
49985817 GTT ATT ATT ATT
1 ATT ATT ATT ATT
49985829 GTATTCACTA
Statistics
Matches: 72, Mismatches: 20, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
2 7 0.10
3 57 0.79
4 8 0.11
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:49985752 original size:21 final size:21
Alignment explanation
Indices: 49985727--49985793 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
49985717 ATTTTATGTG
49985727 ATTATATTATTATCATATATT
1 ATTATATTATTATCATATATT
* *
49985748 TTTATATTATT-TCA-CTATT
1 ATTATATTATTATCATATATT
*
49985767 ATTATCATTATTATCATATAGT
1 ATTAT-ATTATTATCATATATT
49985789 ATTAT
1 ATTAT
49985794 TAATTGAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.21
20 9 0.24
21 13 0.34
22 8 0.21
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (21 bp):
ATTATATTATTATCATATATT
Found at i:49986981 original size:15 final size:18
Alignment explanation
Indices: 49986947--49986985 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
49986937 GCAATTAAAA
49986947 TGTATTTCATACTATTTT
1 TGTATTTCATACTATTTT
49986965 TGTATTT-A-ACT-TTTT
1 TGTATTTCATACTATTTT
49986980 TGTATT
1 TGTATT
49986986 ATTTTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 3 0.14
17 1 0.05
18 7 0.33
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.64
Consensus pattern (18 bp):
TGTATTTCATACTATTTT
Found at i:50002100 original size:25 final size:25
Alignment explanation
Indices: 50002072--50002119 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
50002062 AAGATCATGT
50002072 GAGCTGTATAAC-AGAAAGCTTATCC
1 GAGCTGTATAACGA-AAAGCTTATCC
50002097 GAGCTGTATAACGAAAAGCTTAT
1 GAGCTGTATAACGAAAAGCTTAT
50002120 AAGAGCCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (25 bp):
GAGCTGTATAACGAAAAGCTTATCC
Found at i:50002125 original size:25 final size:25
Alignment explanation
Indices: 50002072--50002125 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
50002062 AAGATCATGT
**
50002072 GAGCTGTATAACAGAAAGCTTATCC
1 GAGCTGTATAACAGAAAGCTTATAA
50002097 GAGCTGTATAAC-GAAAAGCTTATAA
1 GAGCTGTATAACAG-AAAGCTTATAA
50002122 GAGC
1 GAGC
50002126 CATATTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
GAGCTGTATAACAGAAAGCTTATAA
Found at i:50007952 original size:36 final size:36
Alignment explanation
Indices: 50007905--50007978 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
50007895 GTCGGGTACC
50007905 ACTTGTTTTCCTAATCAAGGCATCTTCGTTTGTATG
1 ACTTGTTTTCCTAATCAAGGCATCTTCGTTTGTATG
50007941 ACTTGTTTTCCTAATCAAGGCATCTTCGTTTGTATG
1 ACTTGTTTTCCTAATCAAGGCATCTTCGTTTGTATG
50007977 AC
1 AC
50007979 GGGGCGAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (36 bp):
ACTTGTTTTCCTAATCAAGGCATCTTCGTTTGTATG
Found at i:50011440 original size:27 final size:27
Alignment explanation
Indices: 50011385--50011440 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
50011375 TTTCAGCATG
* *
50011385 ATATAGTAATAACTTTTAAATATATAT
1 ATATAGTAATAACTTTTAAAAATAAAT
50011412 ATATA-TATATAA-TTTTAAAAAATAAAT
1 ATATAGTA-ATAACTTTT-AAAAATAAAT
50011439 AT
1 AT
50011441 TTAAACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
ATATAGTAATAACTTTTAAAAATAAAT
Found at i:50012114 original size:21 final size:20
Alignment explanation
Indices: 50012080--50012118 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50012070 TATAATATAT
* *
50012080 GAATTGGTTGAATGATTATTA
1 GAATTGATTAAATG-TTATTA
50012101 GAATTGATTAAATGTTAT
1 GAATTGATTAAATGTTAT
50012119 AAAGTTGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (20 bp):
GAATTGATTAAATGTTATTA
Found at i:50013838 original size:22 final size:24
Alignment explanation
Indices: 50013813--50013857 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
50013803 ATATTTGAAT
50013813 ATTT-ATATAAATAT-ATAAAAAA
1 ATTTAATATAAATATGATAAAAAA
*
50013835 ATTTAAATATAATTATGATAAAA
1 ATTT-AATATAAATATGATAAAA
50013858 TATATAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTTAATATAAATATGATAAAAAA
Found at i:50015254 original size:22 final size:23
Alignment explanation
Indices: 50015225--50015293 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 23
50015215 TCGATCAGCC
50015225 GAGGGATTGGAAGGTTGCTCACT
1 GAGGGATTGGAAGGTTGCTCACT
* * * *
50015248 GA-GGATT-AAAGCTTGTTCAGAT
1 GAGGGATTGGAAGGTTGCTCA-CT
*
50015270 GAGGGATTGGAAGGTTGCCCACT
1 GAGGGATTGGAAGGTTGCTCACT
50015293 G
1 G
50015294 GTTTCGGCCG
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
21 9 0.26
22 8 0.24
23 9 0.26
24 8 0.24
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (23 bp):
GAGGGATTGGAAGGTTGCTCACT
Found at i:50023620 original size:6 final size:6
Alignment explanation
Indices: 50023609--50023636 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50023599 AAGAGAAACC
50023609 CCATGA CCATGA CCATGA CCATGA CCAT
1 CCATGA CCATGA CCATGA CCATGA CCAT
50023637 CCAACAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (6 bp):
CCATGA
Found at i:50033842 original size:41 final size:41
Alignment explanation
Indices: 50033785--50033893 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
50033775 TTTAACATAT
*
50033785 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT-CAGA
*
50033826 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
50033867 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
50033894 AAGTCTGAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.03
41 61 0.97
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:50033912 original size:41 final size:40
Alignment explanation
Indices: 50033785--50033930 Score: 172
Period size: 41 Copynumber: 3.6 Consensus size: 40
50033775 TTTAACATAT
*
50033785 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAA
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT-CAA
*
50033826 TCACCGGCACTTAGCCTGCTAGGTTTATAA-CCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATTCA-A
* * *
50033867 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-ATT
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTCA-A
50033908 TCACCGGC-CTTAAGCCTGCTAGG
1 TCACCGGCACTT-AGCCTGCTAGG
50033931 TTTTAAACCT
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
40 7 0.08
41 81 0.88
42 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAA
Found at i:50033924 original size:82 final size:81
Alignment explanation
Indices: 50033785--50033942 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
50033775 TTTAACATAT
* *
50033785 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAATCACCGGCACTTAGCCTGCTAGG-
1 TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATT-CAATCACCGGCACTTAGCCTGCTAGGT
50033849 TTTATAACCTGATTCAGA
65 TTTA-AACCTGATTCAGA
* *
50033867 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-ATTTCACCGGC-CTTAAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTG-ATTCA-ATCACCGGCACTT-AGCCTGCTAG
50033930 GTTTTAAACCTGA
63 GTTTTAAACCTGA
50033943 AAATTTCAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
81 4 0.06
82 57 0.84
83 7 0.10
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (81 bp):
TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATTCAATCACCGGCACTTAGCCTGCTAGGTT
TTAAACCTGATTCAGA
Found at i:50035838 original size:15 final size:16
Alignment explanation
Indices: 50035818--50035850 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50035808 TATATATATA
50035818 AATTCAA-TCAACTTC
1 AATTCAATTCAACTTC
*
50035833 AATTCAATTCAATTTC
1 AATTCAATTCAACTTC
50035849 AA
1 AA
50035851 AGTGACAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTCAATTCAACTTC
Found at i:50037443 original size:29 final size:29
Alignment explanation
Indices: 50037398--50037456 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
50037388 GGTTCAAAGC
50037398 TTAGTCTACCATACAATTTCGATTAACTT
1 TTAGTCTACCATACAATTTCGATTAACTT
* *
50037427 TTAGTCTACCATGCAATTTTGATTAACTT
1 TTAGTCTACCATACAATTTCGATTAACTT
50037456 T
1 T
50037457 AATATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (29 bp):
TTAGTCTACCATACAATTTCGATTAACTT
Found at i:50041474 original size:16 final size:16
Alignment explanation
Indices: 50041453--50041506 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
50041443 TTTGGTTCGC
50041453 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
50041469 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGG
50041485 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
50041501 CGTAAT
1 TGTAAT
50041507 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:50041539 original size:45 final size:44
Alignment explanation
Indices: 50041488--50041580 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
50041478 ATAGAGCTGT
* *
50041488 AATGGAATAGAGGC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGA-ACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATAG
*
50041533 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATAG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATAG
50041577 AATG
1 AATG
50041581 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 23 0.53
45 19 0.44
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATAG
Found at i:50043283 original size:29 final size:30
Alignment explanation
Indices: 50043251--50043315 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
50043241 AAATGACCTC
*
50043251 TTTATAATT-TTTATAATTTATT-TGAATTT
1 TTTATAATTCTTTATAAGTTATTATG-ATTT
50043280 TTTAT-ATTCTTTATAAGTTATTATGATTT
1 TTTATAATTCTTTATAAGTTATTATGATTT
50043309 TTTATAA
1 TTTATAA
50043316 GTTATCATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.09
29 26 0.81
30 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTATAATTCTTTATAAGTTATTATGATTT
Found at i:50043313 original size:10 final size:10
Alignment explanation
Indices: 50043251--50043315 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
50043241 AAATGACCTC
50043251 TTTATAA-TT
1 TTTATAATTT
50043260 TTTATAATTT
1 TTTATAATTT
*
50043270 ATTT-GAATTT
1 -TTTATAATTT
*
50043280 TTTAT-ATTC
1 TTTATAATTT
*
50043289 TTTATAAGTT
1 TTTATAATTT
* *
50043299 ATTATGATTT
1 TTTATAATTT
50043309 TTTATAA
1 TTTATAA
50043316 GTTATCATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
9 18 0.43
10 21 0.50
11 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (10 bp):
TTTATAATTT
Found at i:50046268 original size:21 final size:21
Alignment explanation
Indices: 50046242--50046284 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50046232 ATATATATGG
50046242 ATTCATGTTTGATGGAAATTA
1 ATTCATGTTTGATGGAAATTA
50046263 ATTCATGTTTGATGGAAATTA
1 ATTCATGTTTGATGGAAATTA
50046284 A
1 A
50046285 GTATAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.42
Consensus pattern (21 bp):
ATTCATGTTTGATGGAAATTA
Found at i:50050261 original size:10 final size:9
Alignment explanation
Indices: 50050246--50050287 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
50050236 TTGTTATTTC
50050246 AAATGAAACA
1 AAATGAAA-A
50050256 AAATG-AAA
1 AAATGAAAA
*
50050264 AAATAAAAGA
1 AAATGAAA-A
50050274 AAATGAAAA
1 AAATGAAAA
50050283 AAATG
1 AAATG
50050288 TATAACGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 5 0.18
9 10 0.36
10 13 0.46
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (9 bp):
AAATGAAAA
Found at i:50051417 original size:27 final size:27
Alignment explanation
Indices: 50051368--50051423 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
50051358 GCACCTTTTG
* * * *
50051368 CCAAAGGTACCAGTGGCAGAGGCGGCA
1 CCAAAGGTACCACTGCCACAGGCGACA
*
50051395 CCAAAGGTGCCACTGCCACAGGCGACA
1 CCAAAGGTACCACTGCCACAGGCGACA
50051422 CC
1 CC
50051424 TGTGCCATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.34, G:0.30, T:0.07
Consensus pattern (27 bp):
CCAAAGGTACCACTGCCACAGGCGACA
Found at i:50051536 original size:15 final size:15
Alignment explanation
Indices: 50051475--50051537 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
50051465 TCAGCTGCAC
*
50051475 GAAGGAGAAGAAAGAA
1 GAAGGAGGAG-AAGAA
50051491 -AAGGAAAGGAGAAGAA
1 GAAGG--AGGAGAAGAA
* *
50051507 AAAGGAGAAGAAGAA
1 GAAGGAGGAGAAGAA
*
50051522 GAAGGAGGAGGAGAA
1 GAAGGAGGAGAAGAA
50051537 G
1 G
50051538 GAGAGGGCGG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 26 0.67
16 5 0.13
17 8 0.21
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
GAAGGAGGAGAAGAA
Found at i:50051539 original size:9 final size:9
Alignment explanation
Indices: 50051475--50051541 Score: 52
Period size: 9 Copynumber: 7.9 Consensus size: 9
50051465 TCAGCTGCAC
50051475 GAAGGAGAA
1 GAAGGAGAA
50051484 GAA--AGAA
1 GAAGGAGAA
50051491 -AAGGA-AA
1 GAAGGAGAA
* *
50051498 GGAGAAGAA
1 GAAGGAGAA
*
50051507 AAAGGAGAA
1 GAAGGAGAA
*
50051516 GAAGAAGAA
1 GAAGGAGAA
* *
50051525 GGAGGAGGA
1 GAAGGAGAA
50051534 GAAGGAGA
1 GAAGGAGA
50051542 GGGCGGTGCC
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
6 2 0.05
7 6 0.14
8 4 0.10
9 30 0.71
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (9 bp):
GAAGGAGAA
Found at i:50051610 original size:20 final size:20
Alignment explanation
Indices: 50051573--50051611 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50051563 AAGAAAAGAA
*
50051573 GAGAAAGAGAATAGAGAAAG
1 GAGAAAGAGAAGAGAGAAAG
50051593 GAGAAAGA-AAGAGAAGAAA
1 GAGAAAGAGAAGAG-AGAAA
50051612 AAAATAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
GAGAAAGAGAAGAGAGAAAG
Found at i:50051682 original size:12 final size:11
Alignment explanation
Indices: 50051665--50051699 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
50051655 CTTGTTATTA
50051665 TTTTTTTGTATG
1 TTTTTTTGT-TG
50051677 TTTTTTTGTTG
1 TTTTTTTGTTG
50051688 -TTTTTTGTTG
1 TTTTTTTGTTG
50051698 TT
1 TT
50051700 AGTTTAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 3 0.14
12 9 0.41
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.80
Consensus pattern (11 bp):
TTTTTTTGTTG
Found at i:50051996 original size:76 final size:76
Alignment explanation
Indices: 50051797--50052014 Score: 214
Period size: 76 Copynumber: 2.9 Consensus size: 76
50051787 TAGTTTTTAA
* * **
50051797 TAATTATTA--TTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATGGTTAGTTATTAGG
1 TAATTATTATGTTAGTTAGTATTATTGTTAGTAAAAAAC---TATTATTATTGTTAGTTATTATT
50051860 ATTAATAAAAACCC
63 ATTAATAAAAACCC
* * *** * * *
50051874 TAATTATTATTTTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTTT
1 TAATTATTATGTTAGTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTATTAT
*
50051938 TAGT-AAAACCC
65 TAATAAAAACCC
*
50051949 TAATTATTATAGTTAGTTAGTATTATCT-TTAGTAAAAAACTATTATTATTATTA-TTATTATTA
1 TAATTATTAT-GTTAGTTAGTATTAT-TGTTAGTAAAAAACTATTATTATTGTTAGTTATTATTA
50052012 TTA
64 TTA
50052015 TTATTTTGTT
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
75 33 0.29
76 48 0.42
77 12 0.11
79 18 0.16
80 3 0.03
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (76 bp):
TAATTATTATGTTAGTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTATTATT
AATAAAAACCC
Found at i:50051997 original size:3 final size:3
Alignment explanation
Indices: 50051989--50052038 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
50051979 AGTAAAAAAC
*
50051989 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TGT TAGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
50052034 GAT TA
1 TAT TA
50052039 GTGGTTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:50054234 original size:17 final size:17
Alignment explanation
Indices: 50054214--50054252 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
50054204 ATTTCAATGT
50054214 ATTTTTCTGATTTTCAG
1 ATTTTTCTGATTTTCAG
* *
50054231 ATTTTTCTTATTTTCGG
1 ATTTTTCTGATTTTCAG
50054248 ATTTT
1 ATTTT
50054253 ATTACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.10, T:0.64
Consensus pattern (17 bp):
ATTTTTCTGATTTTCAG
Found at i:50054489 original size:157 final size:158
Alignment explanation
Indices: 50054306--50054748 Score: 674
Period size: 158 Copynumber: 2.8 Consensus size: 158
50054296 TATTATTTTA
*
50054306 AAATGTATTATTTTAGTGTGTGTTTTATATAAATTTAGT-AAAAACCCTTATTTTGGCCATTTGT
1 AAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGT
* * * * *
50054370 TCATATTTTTATTATTTTTGAATTTTATTTCTTTCAAAAAATATACTATTTTCGTATTTTATTAT
66 TCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTAT
*
50054435 TTTGTATTATTTTAGTACATAAAGTTTG
131 TTTATATTATTTTAGTACATAAAGTTTG
* * *
50054463 AAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCTTTATTTTGGCTATTTGT
1 AAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGT
* * *
50054528 TCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACAATTTTCTTATTTTATTAT
66 TCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTAT
*
50054593 TTTATATTATTTTAGTACATAATGTTTG
131 TTTATATTATTTTAGTACATAAAGTTTG
* * * *
50054621 AAATGTATTATTTTAGTATATTTTTTATATAAATTTAGTAAAAAACACTTATTTTGGCCCTTTGT
1 AAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGT
** *
50054686 TCGTATTTTTCTT-TTTTTCGGATTTTATTACTTTCAGTAAATATACTATTTTCATTTTTTATT
66 TCGTATTTTTCTTATTTTT-GGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATT
50054749 TCTTTTCGTA
Statistics
Matches: 258, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
157 41 0.16
158 217 0.84
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.55
Consensus pattern (158 bp):
AAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGT
TCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTAT
TTTATATTATTTTAGTACATAAAGTTTG
Found at i:50054937 original size:30 final size:26
Alignment explanation
Indices: 50054903--50054969 Score: 98
Period size: 26 Copynumber: 2.4 Consensus size: 26
50054893 AAATTAAATA
50054903 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATA-AA--TA-ATAACAT
50054933 AAATAATAAAACATAAATAATAACAT
1 AAATAATAAAACATAAATAATAACAT
50054959 AAATAATAAAA
1 AAATAATAAAA
50054970 TAATAAGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 18 0.49
27 2 0.05
29 2 0.05
30 15 0.41
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.22
Consensus pattern (26 bp):
AAATAATAAAACATAAATAATAACAT
Found at i:50054957 original size:12 final size:12
Alignment explanation
Indices: 50054926--50054972 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
50054916 TAGAATGTAC
50054926 ATAACATAAATA
1 ATAACATAAATA
50054938 ATAAAACATAAATA
1 AT--AACATAAATA
50054952 ATAACATAAATA
1 ATAACATAAATA
*
50054964 ATAAAATAA
1 ATAACATAA
50054973 TAAGACATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 20 0.62
14 12 0.38
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:50055198 original size:11 final size:11
Alignment explanation
Indices: 50055184--50055278 Score: 96
Period size: 11 Copynumber: 8.9 Consensus size: 11
50055174 ATTTTTTTAA
50055184 TTTTAAAATAT
1 TTTTAAAATAT
50055195 TTTTAAAATAT
1 TTTTAAAATAT
50055206 TTTTAAAATACTTT
1 TTTTAAAATA---T
50055220 TTTTAAAA-AT
1 TTTTAAAATAT
50055230 TTTT--AA-A-
1 TTTTAAAATAT
50055237 TTTTAAAATAT
1 TTTTAAAATAT
50055248 TTTTAAAATACT
1 TTTTAAAATA-T
*
50055260 TTTT-TAA-AT
1 TTTTAAAATAT
50055269 TTTTAAAATA
1 TTTTAAAATA
50055279 AATTTTTAGT
Statistics
Matches: 72, Mismatches: 2, Indels: 20
0.77 0.02 0.21
Matches are distributed among these distances:
7 4 0.06
8 3 0.04
9 7 0.10
10 9 0.12
11 34 0.47
12 5 0.07
13 1 0.01
14 9 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50055241 original size:42 final size:39
Alignment explanation
Indices: 50055195--50055275 Score: 135
Period size: 42 Copynumber: 2.0 Consensus size: 39
50055185 TTTAAAATAT
50055195 TTTTAAAATATTTTTAAAATACTTTTTTTAAAAATTTTTAAA
1 TTTTAAAATATTTTTAAAATAC-TTTTTT--AAATTTTTAAA
50055237 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTAAA
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTAAA
50055276 ATAAATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
39 11 0.28
41 6 0.15
42 22 0.56
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (39 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTAAA
Found at i:50055284 original size:21 final size:22
Alignment explanation
Indices: 50055246--50055303 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
50055236 ATTTTAAAAT
**
50055246 ATTTTTAAAATACTTTTTTA-A
1 ATTTTTAAAATAAATTTTTAGA
*
50055267 ATTTTTAAAATAAATTTTTAGT
1 ATTTTTAAAATAAATTTTTAGA
50055289 ATTTATTAAAA-AAAT
1 ATTT-TTAAAATAAAT
50055304 GGGCCGGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.56
22 8 0.25
23 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTTTAAAATAAATTTTTAGA
Found at i:50055761 original size:13 final size:14
Alignment explanation
Indices: 50055730--50055772 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
50055720 CCCTCCCTCT
*
50055730 TCTTTTTCTCCTTC
1 TCTTTTTCTTCTTC
*
50055744 TCTTTTTCTTTTTC
1 TCTTTTTCTTCTTC
50055758 -CTTTTTCTTCCTTC
1 TCTTTTTCTT-CTTC
50055772 T
1 T
50055773 GCGCCTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TCTTTTTCTTCTTC
Found at i:50055794 original size:3 final size:3
Alignment explanation
Indices: 50055786--50055824 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
50055776 CCTCCTTCCC
50055786 CTT CTT CTT CTT CTT C-T CTT CTT C-T CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
50055825 CCTTTCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:50055843 original size:20 final size:21
Alignment explanation
Indices: 50055727--50055848 Score: 83
Period size: 20 Copynumber: 5.8 Consensus size: 21
50055717 CTTCCCTCCC
*
50055727 TCTTCTTTTTCTCC-TTCTCT
1 TCTTCTTCTTCTCCTTTCTCT
* *
50055747 TTTTCTT-TT-TCCTTTTTCT
1 TCTTCTTCTTCTCCTTTCTCT
* ** *
50055766 TCCTTCTGCGCCTCCTTCCCCTTCT
1 T-CTTCTTCTTCTCCTT--TC-TCT
*
50055791 TCTTCTTCTTCTCTTCTTCTCT
1 TCTTCTTCTTCTCCT-TTCTCT
50055813 TCTTCTTCTTCTCCTTTC-CT
1 TCTTCTTCTTCTCCTTTCTCT
50055833 T-TTCTTTCTTCTCCTT
1 TCTTC-TTCTTCTCCTT
50055849 CGTGCAGCTG
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
18 3 0.04
19 11 0.14
20 24 0.30
21 3 0.04
22 22 0.28
23 1 0.01
24 10 0.13
25 5 0.06
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (21 bp):
TCTTCTTCTTCTCCTTTCTCT
Found at i:50055936 original size:27 final size:27
Alignment explanation
Indices: 50055887--50055946 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
50055877 TATAAGGCTG
* * * *
50055887 GGTGCCGCCTGTGGCAGTGGCACCTTT
1 GGTGCCGCCTCTGCCACTAGCACCTTT
50055914 GGTGCCGCCTCTGCCACTAGCACCTTT
1 GGTGCCGCCTCTGCCACTAGCACCTTT
50055941 GGTGCC
1 GGTGCC
50055947 ACCTATGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.08, C:0.35, G:0.32, T:0.25
Consensus pattern (27 bp):
GGTGCCGCCTCTGCCACTAGCACCTTT
Found at i:50065040 original size:172 final size:172
Alignment explanation
Indices: 50064748--50065081 Score: 569
Period size: 172 Copynumber: 1.9 Consensus size: 172
50064738 CAAAGCACCC
* * *
50064748 AAGAACTTAGGCAAATGTAAACACAAATTCCTAGATGTACAAAGCATTAGCAAAATACTCCAAAT
1 AAGAACTTAGGCAAATGTAAACACAAATCCCTAGAAGTACAAAGCATTAGCAAAATACTCCAAAC
* * *
50064813 TATTATAGTAAAGACTAGTGAGACATCAGACCAAAGAAGAAACTTTATAAGGTTAAAAGAAACAA
66 TATTATAGTAAAGACTAGAGAGACATCAGACCAAAGAAGAAACTTGACAAGGTTAAAAGAAACAA
50064878 TTGAAGGGATAAAAATATAGAAGAATAAAAAATATAATAGTA
131 TTGAAGGGATAAAAATATAGAAGAATAAAAAATATAATAGTA
* *
50064920 AAGAATTTAGGCAAATGTAAACACAAATCCCTAGAAGTACAAAGCATTAGGAAAATACTCCAAAC
1 AAGAACTTAGGCAAATGTAAACACAAATCCCTAGAAGTACAAAGCATTAGCAAAATACTCCAAAC
**
50064985 TATTATAGTAAAGACTAGAGAGACATCAGACTGAAGAAGAAACTTGACAAGGTTAAAAGAAACAA
66 TATTATAGTAAAGACTAGAGAGACATCAGACCAAAGAAGAAACTTGACAAGGTTAAAAGAAACAA
*
50065050 TTGAAGGGATAAAAATATAGAAGAATCAAAAA
131 TTGAAGGGATAAAAATATAGAAGAATAAAAAA
50065082 CCACGAGTTA
Statistics
Matches: 151, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
172 151 1.00
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (172 bp):
AAGAACTTAGGCAAATGTAAACACAAATCCCTAGAAGTACAAAGCATTAGCAAAATACTCCAAAC
TATTATAGTAAAGACTAGAGAGACATCAGACCAAAGAAGAAACTTGACAAGGTTAAAAGAAACAA
TTGAAGGGATAAAAATATAGAAGAATAAAAAATATAATAGTA
Found at i:50068409 original size:29 final size:29
Alignment explanation
Indices: 50068353--50068409 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
50068343 ATCAATAAAA
* *
50068353 GCCGTTTTTTTTTTAATTTATCGAAATGG
1 GCCGTTTTTTTATTAATTTACCGAAATGG
*
50068382 GCCGATTTTTTTATT-ATTTACCGGAATG
1 GCCG-TTTTTTTATTAATTTACCGAAATG
50068410 ATCTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (29 bp):
GCCGTTTTTTTATTAATTTACCGAAATGG
Found at i:50068676 original size:22 final size:22
Alignment explanation
Indices: 50068648--50068698 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
50068638 CTCTCTAATC
50068648 CTCTCAATTTCCTCCCAAAATT
1 CTCTCAATTTCCTCCCAAAATT
*
50068670 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTCCCAAAATT
50068692 CTCTCAA
1 CTCTCAA
50068699 ACCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCTCAATTTCCTCCCAAAATT
Found at i:50068726 original size:51 final size:51
Alignment explanation
Indices: 50068670--50068782 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
50068660 TCCCAAAATT
50068670 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
50068721 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
50068772 CCCTCAATTTC
1 CTCTCAATTTC
50068783 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:50070266 original size:124 final size:125
Alignment explanation
Indices: 50069957--50070308 Score: 582
Period size: 124 Copynumber: 2.8 Consensus size: 125
50069947 CCCAAACTTG
50069957 CTACTGTAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTAG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTAG
*
50070022 TAGAAGCGATTTTATACTAATTGCTCAGAAACGTCAAAAAAAAATTTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAA-TTATTTCTTACATGAC
* ** *
50070083 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTAG
50070148 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAA-TATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * *
50070207 TTACTGTAGCGAAATCGCGTCCATGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTAG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTAG
* *
50070272 TAGAAGTGATTTTATACTATTT-CACCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGC-TCAGAAACGTCAA
50070309 CTCAAAATAA
Statistics
Matches: 211, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
123 1 0.00
124 106 0.50
126 104 0.49
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTAG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:50076940 original size:21 final size:21
Alignment explanation
Indices: 50076915--50076983 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
50076905 CAGCAACTTA
* *
50076915 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
50076936 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
50076957 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
50076978 AAGCAG
1 AAGCAG
50076984 CGAGAGAAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.43, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:50076985 original size:12 final size:12
Alignment explanation
Indices: 50076948--50077007 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
50076938 GCAGAGGCTA
50076948 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
50076960 CA--GAG-GCCG
1 CAGCGAGAGAAG
50076969 CAGCGAGAGAAG
1 CAGCGAGAGAAG
50076981 CAGCGAGAGAAG
1 CAGCGAGAGAAG
* *
50076993 CAGCAATAGAAG
1 CAGCGAGAGAAG
50077005 CAG
1 CAG
50077008 AGGTTCAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 29 0.74
ACGTcount: A:0.40, C:0.20, G:0.38, T:0.02
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:50077479 original size:42 final size:41
Alignment explanation
Indices: 50077414--50077550 Score: 152
Period size: 43 Copynumber: 3.2 Consensus size: 41
50077404 TCAAAACAGT
*
50077414 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTTTG-AATAAGCGCCGCTAAAGAACA-TACTTTTAGC
* *
50077457 GGCGTTTTTGAATAAGCGCCGCTATAGAACATTACTTTTAGA
1 GGCGTTTTTGAATAAGCGCCGCTAAAGAACA-TACTTTTAGC
**
50077499 GGCGTTTCCTTCCA-AAGCGCCGCTAAAGAACATGA-TCTTTAGC
1 GGCGTTT--TTGAATAAGCGCCGCTAAAGAACAT-ACT-TTTAGC
50077542 GGCGTTTTT
1 GGCGTTTTT
50077551 TCCTGTCAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 38 0.46
43 39 0.48
44 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
GGCGTTTTTGAATAAGCGCCGCTAAAGAACATACTTTTAGC
Found at i:50077529 original size:43 final size:42
Alignment explanation
Indices: 50077425--50077550 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 42
50077415 GCGTTTGTGA
* *
50077425 AATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTG
1 AATAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTC
* *
50077467 AATAAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTCCTTC
1 AATAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTT--TTC
* *
50077511 CA-AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTT
1 AATAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTT
50077551 TCCTGTCAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.03
42 37 0.51
43 31 0.42
44 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (42 bp):
AATAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTC
Found at i:50078002 original size:20 final size:20
Alignment explanation
Indices: 50077963--50078002 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50077953 CGAATATAAT
*
50077963 AAATATATTTTTTATTTTTA
1 AAATATATTTTTTATGTTTA
50077983 AAATA-ATTTTTTAATGTTTA
1 AAATATATTTTTT-ATGTTTA
50078003 TTAAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
AAATATATTTTTTATGTTTA
Found at i:50078417 original size:23 final size:25
Alignment explanation
Indices: 50078391--50078444 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
50078381 AGAAATTCTA
*
50078391 AAAATATAT-AAAAA-AAAGT-AGAT
1 AAAATAT-TCAAAAATAAAGTGAGAG
*
50078414 AAAAAATTCAAAAATAAAGTGAGAG
1 AAAATATTCAAAAATAAAGTGAGAG
50078439 AAAATA
1 AAAATA
50078445 AGGAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 11 0.44
24 5 0.20
25 8 0.32
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.19
Consensus pattern (25 bp):
AAAATATTCAAAAATAAAGTGAGAG
Found at i:50088282 original size:11 final size:11
Alignment explanation
Indices: 50088268--50088324 Score: 64
Period size: 11 Copynumber: 5.3 Consensus size: 11
50088258 TACAATATCT
50088268 AAATAATAATA
1 AAATAATAATA
50088279 AAATAATAA-A
1 AAATAATAATA
*
50088289 AATATAATAACA
1 AA-ATAATAATA
*
50088301 AAATGATAAT-
1 AAATAATAATA
*
50088311 AAATAACAATA
1 AAATAATAATA
50088322 AAA
1 AAA
50088325 AAATTAGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 11 0.28
11 25 0.64
12 3 0.08
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (11 bp):
AAATAATAATA
Found at i:50097385 original size:6 final size:6
Alignment explanation
Indices: 50097374--50097401 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50097364 TATATTTCTG
50097374 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
50097402 TGAATTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:50106717 original size:21 final size:23
Alignment explanation
Indices: 50106670--50106723 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
50106660 CATTCAAGAT
**
50106670 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
50106693 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
50106714 AAAAT-ATATA
1 AAAATAATATA
50106724 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:50106944 original size:44 final size:44
Alignment explanation
Indices: 50106896--50107016 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 44
50106886 CATATATAAG
*
50106896 AAAAAAAGTAAT-AAT-GAAA-ATAATATTAGTATATAAATAGAAAT
1 AAAAAAA-TAATAAATAGAAATATAATAATAGTA-A-AAATAGAAAT
* *
50106940 AAAAATATAATAAATAGAAATATAATAATAGTAAAAATATAAAT
1 AAAAAAATAATAAATAGAAATATAATAATAGTAAAAATAGAAAT
* * *
50106984 AGATAATTAA-AAATTAGATAA-ATAATAATAGTA
1 AAAAAAATAATAAA-TAGA-AATATAATAATAGTA
50107017 TTAGAATAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
43 7 0.11
44 40 0.62
45 7 0.11
46 11 0.17
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.28
Consensus pattern (44 bp):
AAAAAAATAATAAATAGAAATATAATAATAGTAAAAATAGAAAT
Found at i:50106954 original size:21 final size:24
Alignment explanation
Indices: 50106902--50107016 Score: 92
Period size: 21 Copynumber: 5.2 Consensus size: 24
50106892 TAAGAAAAAA
*
50106902 AGTAAT-AAT-GAAA-ATAATATT
1 AGTAATAAATAGAAATATAATAAT
50106923 AGTATATAAATAGAAATA-AA-AAT
1 AGTA-ATAAATAGAAATATAATAAT
50106946 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATAGAAATATAATAAT
* *
50106969 AGTAA-AAATATAAATA-GATAAT
1 AGTAATAAATAGAAATATAATAAT
50106991 --TAA-AAATTAGATAA-ATAATAAT
1 AGTAATAAA-TAGA-AATATAATAAT
50107013 AGTA
1 AGTA
50107017 TTAGAATAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
20 6 0.08
21 21 0.27
22 18 0.23
23 20 0.26
24 11 0.14
25 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.30
Consensus pattern (24 bp):
AGTAATAAATAGAAATATAATAAT
Found at i:50106960 original size:15 final size:15
Alignment explanation
Indices: 50106936--50107011 Score: 63
Period size: 15 Copynumber: 5.1 Consensus size: 15
50106926 ATATAAATAG
*
50106936 AAATAAAAATATAAT
1 AAATAGAAATATAAT
50106951 AAATAGAAATATAAT
1 AAATAGAAATATAAT
*
50106966 -AATAGTAAAAAT-AT
1 AAATAG-AAATATAAT
50106980 AAATAGATAAT-TAA-
1 AAATAGA-AATATAAT
50106994 AAATTAGATAA-ATAAT
1 AAA-TAGA-AATATAAT
50107010 AA
1 AA
50107012 TAGTATTAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
14 12 0.24
15 37 0.73
16 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:50107008 original size:19 final size:20
Alignment explanation
Indices: 50106930--50107009 Score: 65
Period size: 23 Copynumber: 3.9 Consensus size: 20
50106920 ATTAGTATAT
*
50106930 AAATAGAAATAAA-AATATAA
1 AAATATAAATAAATAAT-TAA
*
50106950 TAAATAGAAATATAATAATAGTAA
1 -AAATATAAATA-AATAAT--TAA
*
50106974 AAATATAAATAGATAATTAA
1 AAATATAAATAAATAATTAA
*
50106994 AAAT-TAGATAAATAAT
1 AAATATAAATAAATAAT
50107010 AATAGTATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 10 0.20
20 7 0.14
21 11 0.22
22 7 0.14
23 13 0.25
24 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (20 bp):
AAATATAAATAAATAATTAA
Found at i:50115566 original size:46 final size:46
Alignment explanation
Indices: 50115506--50115733 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
50115496 TTTGACATGA
* * * * * *
50115506 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
50115552 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
50115598 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
50115644 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
50115690 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
50115734 AGAGCACACT
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 165 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:50119509 original size:41 final size:40
Alignment explanation
Indices: 50119464--50119587 Score: 185
Period size: 41 Copynumber: 3.0 Consensus size: 40
50119454 ACACACTGAA
*
50119464 ACAAAGCCTGCTAGGCACAGAGTCTGATATAAATCACCGGC
1 ACAAAGCCTGCTAGGCACAGAG-CTGATATAAATCACCAGC
* * *
50119505 ACAAAGCTTGCTAGGCACAGAGCCTGATATAAATTATCAGC
1 ACAAAGCCTGCTAGGCACAGAG-CTGATATAAATCACCAGC
50119546 ACAAAGCCTGCTAGGCACAGAGCTTGATATAAATCACCAGC
1 ACAAAGCCTGCTAGGCACAGAGC-TGATATAAATCACCAGC
50119587 A
1 A
50119588 TGAAGCTTGC
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 73 0.99
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (40 bp):
ACAAAGCCTGCTAGGCACAGAGCTGATATAAATCACCAGC
Found at i:50123529 original size:78 final size:78
Alignment explanation
Indices: 50123385--50123541 Score: 217
Period size: 78 Copynumber: 2.0 Consensus size: 78
50123375 TGGACAATTA
* *
50123385 ATCAATAAGTTTGATTCAATCCCAGAAGAGATTATATATATATATATTTGAAACTGATCACCGGA
1 ATCAATAAGTTGGACTCAATCCCAGAAGAGA-TATATATATATATATTTGAAACTGATCACCGGA
*
50123450 GAATACGGGCTAAC
65 GAATACAGGCTAAC
* * * *
50123464 ATCAATAAGTTCGGACTCAATCCCAGGAGAGA-GTATATATATATATTTGAAGCTGATCACTGGA
1 ATCAATAAGTT-GGACTCAATCCCAGAAGAGATATATATATATATATTTGAAACTGATCACCGGA
*
50123528 GAGTACAGGCTAAC
65 GAATACAGGCTAAC
50123542 TAATAGACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
78 41 0.59
79 11 0.16
80 17 0.25
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (78 bp):
ATCAATAAGTTGGACTCAATCCCAGAAGAGATATATATATATATATTTGAAACTGATCACCGGAG
AATACAGGCTAAC
Found at i:50137530 original size:41 final size:41
Alignment explanation
Indices: 50137485--50137611 Score: 182
Period size: 41 Copynumber: 3.1 Consensus size: 41
50137475 CACCGAAACA
* * *
50137485 AAGCTTGCTAGGCACAAAGTCTGATATAAATCATCAGCACG
1 AAGCTTGCTAGGCACAGAGCCTGATATAAATCACCAGCACG
* * **
50137526 AAGCTTACTAGGCACAGAGCCTGATACAAATCACCAAAACG
1 AAGCTTGCTAGGCACAGAGCCTGATATAAATCACCAGCACG
*
50137567 AAGCTTGCTAGGCACAGAGCCTGATATAAATCACCAGCATG
1 AAGCTTGCTAGGCACAGAGCCTGATATAAATCACCAGCACG
50137608 AAGC
1 AAGC
50137612 ATACTAGACT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
AAGCTTGCTAGGCACAGAGCCTGATATAAATCACCAGCACG
Found at i:50141997 original size:8 final size:8
Alignment explanation
Indices: 50141984--50142009 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
50141974 TATATATACT
50141984 AAATAATA
1 AAATAATA
50141992 AAATAATA
1 AAATAATA
50142000 AAATAATA
1 AAATAATA
50142008 AA
1 AA
50142010 GTATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATAATA
Found at i:50147566 original size:30 final size:27
Alignment explanation
Indices: 50147504--50147572 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 27
50147494 TCAATTCAAA
50147504 AAAATCAA-TCAATCAATTCATAATAT
1 AAAATCAATTCAATCAATTCATAATAT
* *
50147530 -ATATCAATTCAATCAATTCCCATCAATTT
1 AAAATCAATTCAATCAATT--CAT-AATAT
50147559 AAAATCAATTCAAT
1 AAAATCAATTCAAT
50147573 ATGAAAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 6 0.17
26 10 0.29
28 3 0.09
29 4 0.11
30 12 0.34
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAATCAATTCAATCAATTCATAATAT
Found at i:50148285 original size:31 final size:31
Alignment explanation
Indices: 50148247--50148319 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
50148237 TTCTTTCCTT
* *
50148247 TTTCTTTCTTTTTC-CCTTCTATTTCGTTTTC
1 TTTCTTTCTTTTTCTACTTCTATTTC-TTTTA
*
50148278 TTTCTTTC-TTTTCTATTTCTATTTCTTTTA
1 TTTCTTTCTTTTTCTACTTCTATTTCTTTTA
*
50148308 TTTCTTTGTTTT
1 TTTCTTTCTTTT
50148320 ATATTATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.44
31 20 0.56
ACGTcount: A:0.05, C:0.19, G:0.03, T:0.73
Consensus pattern (31 bp):
TTTCTTTCTTTTTCTACTTCTATTTCTTTTA
Found at i:50148291 original size:25 final size:24
Alignment explanation
Indices: 50148246--50148314 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 24
50148236 TTTCTTTCCT
50148246 TTTTCTTTCTTT-TTCCCTTCTATTTC
1 TTTTCTTTCTTTCTT---TTCTATTTC
50148272 GTTTTCTTTCTTTCTTTTCTATTTC
1 -TTTTCTTTCTTTCTTTTCTATTTC
*
50148297 TATTTCTTTTATTTCTTT
1 T-TTTC-TTTCTTTCTTT
50148315 GTTTTATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 1 0.03
25 13 0.34
26 10 0.26
27 12 0.32
28 2 0.05
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.72
Consensus pattern (24 bp):
TTTTCTTTCTTTCTTTTCTATTTC
Found at i:50148346 original size:7 final size:7
Alignment explanation
Indices: 50148319--50148358 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
50148309 TTCTTTGTTT
*
50148319 TATATTA
1 TATAATA
*
50148326 TATTATA
1 TATAATA
50148333 TTATAATA
1 -TATAATA
50148341 TATAATA
1 TATAATA
50148348 TATAATA
1 TATAATA
50148355 TATA
1 TATA
50148359 TACTTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TATAATA
Found at i:50150578 original size:23 final size:23
Alignment explanation
Indices: 50150549--50150616 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
50150539 GTGATAATTT
*
50150549 GTGATTTCAACACTTTGGTGCTA
1 GTGATTTCAACACTTTAGTGCTA
* *
50150572 GTGATTTCAGCACTTCAGTGCTA
1 GTGATTTCAACACTTTAGTGCTA
*
50150595 GTG-TTTCCAACACTTTTGTGCT
1 GTGATTT-CAACACTTTAGTGCT
50150617 CGTGTATCGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 3 0.08
23 35 0.92
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (23 bp):
GTGATTTCAACACTTTAGTGCTA
Found at i:50151164 original size:61 final size:61
Alignment explanation
Indices: 50151064--50151181 Score: 218
Period size: 61 Copynumber: 1.9 Consensus size: 61
50151054 ATAATGAAAT
* *
50151064 CTCAGAAGTGTTTTTAAGAAAATGTATGAAATAATTAAGCTCTAGGTTGTTTTGATTAAAG
1 CTCACAAGTGTTTATAAGAAAATGTATGAAATAATTAAGCTCTAGGTTGTTTTGATTAAAG
50151125 CTCACAAGTGTTTATAAGAAAATGTATGAAATAATTAAGCTCTAGGTTGTTTTGATT
1 CTCACAAGTGTTTATAAGAAAATGTATGAAATAATTAAGCTCTAGGTTGTTTTGATT
50151182 GATCTTTAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (61 bp):
CTCACAAGTGTTTATAAGAAAATGTATGAAATAATTAAGCTCTAGGTTGTTTTGATTAAAG
Done.