Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 97 of 129
Found at i:16100671 original size:15 final size:15
Alignment explanation
Indices: 16100647--16100677 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16100637 ACTTTGCATA
16100647 TAATGCCATGAACTT
1 TAATGCCATGAACTT
*
16100662 TAATGGCATGAACTT
1 TAATGCCATGAACTT
16100677 T
1 T
16100678 TCTTTGCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (15 bp):
TAATGCCATGAACTT
Found at i:16100999 original size:24 final size:24
Alignment explanation
Indices: 16100944--16100989 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
16100934 AAAAGAAGAG
*
16100944 AATTTGCTAGTGAAAAGTTGTTGA
1 AATTTGCTAGAGAAAAGTTGTTGA
16100968 AATTTGCTAGAGAAAAGTTGTT
1 AATTTGCTAGAGAAAAGTTGTT
16100990 TTTATTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (24 bp):
AATTTGCTAGAGAAAAGTTGTTGA
Found at i:16101612 original size:21 final size:21
Alignment explanation
Indices: 16101582--16101627 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16101572 TCAATCGATC
16101582 CCCCCCTAAG-AGAGGATCAAT
1 CCCCCCTAAGAAG-GGATCAAT
* *
16101603 CCCCCTTAAGAAGGGATCGAT
1 CCCCCCTAAGAAGGGATCAAT
16101624 CCCC
1 CCCC
16101628 TCATGCCCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.28, C:0.37, G:0.20, T:0.15
Consensus pattern (21 bp):
CCCCCCTAAGAAGGGATCAAT
Found at i:16104885 original size:21 final size:21
Alignment explanation
Indices: 16104861--16104920 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
16104851 TACTTTTTAT
*
16104861 TTATAATAATAATTTTTTACG
1 TTATAATAATAATTTTTTACA
* ** *
16104882 TTATTAAT-TTAATTACTTATA
1 TTA-TAATAATAATTTTTTACA
16104903 TTATAATAATATATTTTT
1 TTATAATAATA-ATTTTT
16104921 ACACTTGTTC
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
20 4 0.14
21 16 0.57
22 8 0.29
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATAATAATAATTTTTTACA
Found at i:16105255 original size:213 final size:217
Alignment explanation
Indices: 16104847--16105258 Score: 491
Period size: 213 Copynumber: 1.9 Consensus size: 217
16104837 TTTTAGTTTG
* *
16104847 GAATTACTTTTTATTTATAATAATAATTTTTTACGTTATTAATTTAATTACTTATATTATAATAA
1 GAATTACTTTTTATTTATAATAATAATTTTTTACGTTATCAACTTAATTACTTATATTATAATAA
* * * *
16104912 TATATTTTTACACTTGTTCTTATATATTATTATATTTAGAATTATCATAACTTTTTTCTTAAGGT
66 TATATTTTTACACTTGTTCTTACATATTATTACATTTAGAATTATCATAACTTCTTCCTTAAGGT
* * * ***
16104977 GTTATAATACTTCTAATATATTTTATGTCAAATGATACAAATTTTACGATTGTTCTCACATTTTT
131 GTTACAATACTTCTAACATATTTTATGTCAAATAATACAAATTTTACGACCATTCTCACATTTTT
16105042 ACGTAAACACATATTTTTTCTT
196 ACGTAAACACATATTTTTTCTT
* *
16105064 GAATTA-TGTTTTATTTATAATAATAATTTTTTATGTTGTCAACTTAATT-CTT-TACTT-TAA-
1 GAATTACT-TTTTATTTATAATAATAATTTTTTACGTTATCAACTTAATTACTTATA-TTATAAT
* ** * *
16105124 AATAATTTTTTTATGCTTGTTCTTACAT-TTCATTACATTTAGAATTCTTATAAC-TCTTCCTTA
64 AAT-ATATTTTTACACTTGTTCTTACATATT-ATTACATTTAGAATTATCATAACTTCTTCCTTA
* * * * * *
16105187 GGGTTTTACAATAGTTC-AACCTATTTTAT-TCCAAATAATACTAATTTTACGACCATTCTCATA
127 AGGTGTTACAATACTTCTAACATATTTTATGT-CAAATAATACAAATTTTACGACCATTCTCACA
16105250 TTTTTACGT
191 TTTTTACGT
16105259 TATGATACTT
Statistics
Matches: 165, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
212 1 0.01
213 45 0.27
214 25 0.15
215 45 0.27
216 6 0.04
217 43 0.26
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (217 bp):
GAATTACTTTTTATTTATAATAATAATTTTTTACGTTATCAACTTAATTACTTATATTATAATAA
TATATTTTTACACTTGTTCTTACATATTATTACATTTAGAATTATCATAACTTCTTCCTTAAGGT
GTTACAATACTTCTAACATATTTTATGTCAAATAATACAAATTTTACGACCATTCTCACATTTTT
ACGTAAACACATATTTTTTCTT
Found at i:16105393 original size:20 final size:19
Alignment explanation
Indices: 16105370--16105407 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16105360 TTTATAATAA
16105370 TAATT-TTTATGTTATCAATT
1 TAATTATTTA-GTTA-CAATT
16105390 TAATTATTTAGTTACAAT
1 TAATTATTTAGTTACAAT
16105408 AAATTTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
TAATTATTTAGTTACAATT
Found at i:16105770 original size:18 final size:17
Alignment explanation
Indices: 16105744--16105786 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
16105734 ATTTTTACCA
*
16105744 TTTTATTTAACTCTTATT
1 TTTTATTTAAAT-TTATT
*
16105762 TTTTGTTTAAATTTATT
1 TTTTATTTAAATTTATT
16105779 TTTTATTT
1 TTTTATTT
16105787 TTGATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTATTTAAATTTATT
Found at i:16106648 original size:210 final size:214
Alignment explanation
Indices: 16106227--16106763 Score: 505
Period size: 210 Copynumber: 2.5 Consensus size: 214
16106217 AATTATTCCA
* * * *
16106227 AATTTT-CAATTATT-TTCACATTTTTACGTTAAAACATTATTTTTTTTGTTTAGAA-AATTTTT
1 AATTTTACAATTATTCTTCAC-GTTTTACGTTAACAC-TTA--TTTTTTGATT-GAATTATTTTT
* * *
16106289 TATTTATAATAATATTTTTTTTATATTGTCAACTTATATTTATGTTATCACAAAATCTTTTACGA
61 TATTTATAATAATAATTTTTTTACATTATCAACTTATATTTATGTTATCACAAAATCTTTTACGA
* *
16106354 TTGTTCTTACTTTTATTATATTTAAAATTATCACAAGTTTTTCTTAAGGTATTACGATATTTCTA
126 TTGTTCTTACTTTTATTACATTTAAAATTATCACAAGTTTTTCTTAAAGTATTACGATATTTCTA
16106419 ATATATTTTACACTAAATAATATC
191 ATATATTTTACACTAAATAATATC
*
16106443 AATTTTACGATTATTC-TCACGTTTTTAC-TTAACACTTATTTTTTGATTGAATTATTTTTTATT
1 AATTTTACAATTATTCTTCACG-TTTTACGTTAACACTTATTTTTTGATTGAATTATTTTTTATT
** *
16106506 TATAATTTTAATTTTTTTGCATTATCAA-TT-TA-TTATGTT-TCA-ATAATATCTTTTTAC-AT
65 TATAATAATAATTTTTTTACATTATCAACTTATATTTATGTTATCACA-AA-ATC-TTTTACGA-
* * * *
16106565 TTGTTGTTACTTTTCATTACATTTAGAATTATTAC-A-TTTTTTTTAAAG-ATGTAACGAT-TCT
126 TTGTTCTTACTTTT-ATTACATTTAAAATTATCACAAGTTTTTCTTAAAGTAT-T-ACGATAT-T
* *
16106626 TCTAA-CTATTTTACATTAAATAATATC
187 TCTAATATATTTTACACTAAATAATATC
* * * * *
16106653 AATTTTATAATTATTCTTCCCGTTTTACGTTAACTCTTAACTTTTT-ATTTAAAATTATTTTTTT
1 AATTTTACAATTATTCTTCACGTTTTACGTTAACACTT-ATTTTTTGA-TT-GAATTA-TTTTTT
* ** * * *
16106717 ACTCGTAATAATAGTTTTTTTATATTATTAACTTAATTATTTATGTT
62 ATTTATAATAATAATTTTTTTACATTATCAACTT-A-TATTTATGTT
16106764 TTAATAATAT
Statistics
Matches: 264, Mismatches: 34, Indels: 43
0.77 0.10 0.13
Matches are distributed among these distances:
208 1 0.00
209 7 0.03
210 63 0.24
211 46 0.17
212 30 0.11
213 46 0.17
214 28 0.11
215 5 0.02
216 12 0.05
217 17 0.06
218 2 0.01
219 7 0.03
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (214 bp):
AATTTTACAATTATTCTTCACGTTTTACGTTAACACTTATTTTTTGATTGAATTATTTTTTATTT
ATAATAATAATTTTTTTACATTATCAACTTATATTTATGTTATCACAAAATCTTTTACGATTGTT
CTTACTTTTATTACATTTAAAATTATCACAAGTTTTTCTTAAAGTATTACGATATTTCTAATATA
TTTTACACTAAATAATATC
Found at i:16106811 original size:219 final size:215
Alignment explanation
Indices: 16106283--16106893 Score: 536
Period size: 210 Copynumber: 2.8 Consensus size: 215
16106273 TGTTTAGAAA
* * * * * * * *
16106283 ATTTTTTATTTATAATAATATTTTTTTTATATTGTCAACTTA-TATTTATGTTATCACAAAATC-
1 ATTTTTTACTCATAATAATAATTTTTTTATATTATCAACTTATTATTTATGTTTTAATAATATCT
* * * * * *
16106346 TTTTACGATTGTTCTTA-CTTTTATTATATTTAAAATTATCACAAGTTTTTCTTAAGGTATTACG
66 TTTTACGATTGTTATTACCTTTCATTATATTTAGAATTATTACAA-TTTTTTTTAAAGTATTACG
*
16106410 ATATTTCTAATATATTTTACACTAAATAATATCAATTTTACGATTATTCTCACGTTTTTACTTAA
130 ATATTTCTAATATATTTTACACTAAATAATATCAATTTTACAATTATTCTCACGTTTTTACTTAA
* *
16106475 CACTTATTTTTTGATTGAATT
195 CACTTACTTTTTGATTAAATT
* * ** ** *
16106496 ATTTTTTATTTATAATTTTAATTTTTTTGCATTATCAA--T-TTA-TTATGTTTCAATAATATCT
1 ATTTTTTACTCATAATAATAATTTTTTTATATTATCAACTTATTATTTATGTTTTAATAATATCT
* * *
16106557 TTTTAC-ATTTGTTGTTACTTTTCATTACATTTAGAATTATTAC-ATTTTTTTTAAAG-ATGTAA
66 TTTTACGA-TTGTTATTACCTTTCATTATATTTAGAATTATTACAATTTTTTTTAAAGTAT-T-A
* * * *
16106619 CGAT-TCTTCTAA-CTATTTTACATTAAATAATATCAATTTTATAATTATTCTTCCCG-TTTTAC
128 CGATAT-TTCTAATATATTTTACACTAAATAATATCAATTTTACAATTATTC-TCACGTTTTTAC
*
16106681 GTTAACTCTTAACTTTTT-ATTTAAAATT
191 -TTAACACTT-ACTTTTTGA-TT-AAATT
* * *
16106709 ATTTTTTTACTCGTAATAATAGTTTTTTTATATTATTAACTTAATTATTTATGTTTTAATAATAT
1 A-TTTTTTACTCATAATAATAATTTTTTTATATTATCAACTT-ATTATTTATGTTTTAATAATAT
* * * *
16106774 CTTTTTATGCTTGTTATTACCTTTCATTATGTTTAGAAGTATTACAAATTTTTTCTTAAAAGTAT
64 CTTTTTACGATTGTTATTACCTTTCATTATATTTAGAATTATTAC-AATTTTTT-TT-AAAGTAT
* * * * * * *
16106839 TATGACACTTCAAAT-TATTTTAC-GTCAAATAATA-CTAATTTTACGATTACTCTCA
126 TACGATATTTCTAATATATTTTACACT-AAATAATATC-AATTTTACAATTATTCTCA
16106894 TTTTTTTATA
Statistics
Matches: 317, Mismatches: 53, Indels: 48
0.76 0.13 0.11
Matches are distributed among these distances:
209 2 0.01
210 66 0.21
211 42 0.13
212 28 0.09
213 37 0.12
214 28 0.09
216 1 0.00
218 3 0.01
219 53 0.17
221 11 0.03
222 39 0.12
223 5 0.02
224 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (215 bp):
ATTTTTTACTCATAATAATAATTTTTTTATATTATCAACTTATTATTTATGTTTTAATAATATCT
TTTTACGATTGTTATTACCTTTCATTATATTTAGAATTATTACAATTTTTTTTAAAGTATTACGA
TATTTCTAATATATTTTACACTAAATAATATCAATTTTACAATTATTCTCACGTTTTTACTTAAC
ACTTACTTTTTGATTAAATT
Found at i:16106931 original size:17 final size:18
Alignment explanation
Indices: 16106896--16106954 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
16106886 TACTCTCATT
* *
16106896 TTTTTATATTAACATTTA
1 TTTTTATTTTAACAATTA
16106914 TTTTTATTTTAA-AATTA
1 TTTTTATTTTAACAATTA
* *
16106931 TTAATTATTTGTAATAA-TA
1 TT-TTTATTT-TAACAATTA
16106950 TTTTT
1 TTTTT
16106955 TCTCGTTGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 6 0.18
18 19 0.56
19 7 0.21
20 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTATTTTAACAATTA
Found at i:16107061 original size:933 final size:927
Alignment explanation
Indices: 16105296--16107910 Score: 2629
Period size: 933 Copynumber: 2.8 Consensus size: 927
16105286 AAATTATATT
** * ** *
16105296 AATTTTATGATTATTATCACATTTTTACGTTAACAC-TTATTTTTAGGTTTTGAATTATTTTTTA
1 AATTTTACAATTATTATCACATTTTTACGTTAAAACATTATTTTTTTG-TTTGAA-AATTTTTTA
* * * *
16105360 TTTATAATAATAATTTTTATGTTATCAATTTAATTATTTAGTTA-CAATAAATTTTGCTATGCTT
64 TTTATAATAATATTTTTTATATTATCAACTTAATTATTTAGTTATCAA-AAATTTT--TACGCTT
* * *
16105424 ATTCTTACATTTTATTATATTTAGAATTATCATC-ACTTTTTCTTAA-GTATTATGATACTTCAA
126 GTTCTTAC-TTTTATTATATTTAGAATTATCA-CAACTTTTTCTTAAGGTATTACGATACTTCTA
* * * * * * * * *
16105487 ACATATTTTTC-GTCAAATTATACCAATTTTACTATT-TT-TTATC-TTTTTACTTTTATATTTA
189 A-ATATTTTACACT-AAATAATATCAATTTTACAATTATTCTTATCGTTTTTACATTAACACTTA
* *
16105548 TTTTTT-ATTTAGAATTA-TTTTTATTTATAATACTAATTTTTTT-ATGATATAAATTTATTACG
252 TTTTTTGA-TT-GAATTATTTTTTATTTATAATACTAATTTTTTTCAT--TATCAATTTATTATG
* * * *
16105610 TTTCAATAATATCTTTTTACTTTTATTATTACTTTTCATTATGTTTAAAATTATTACAATTTTTT
313 TTTCAATAATATCTTTTTACATTTGTTATTACTTTTCATTACGTTTAGAATTATTACAATTTTTT
*
16105675 TACTAAAGTGTAACAATACTTCTAACCATTTTACGTAAAATAATACTAATTTTATAATTATTTTT
378 T--TAAAGTGTAACGATACTTCTAACCATTTTACGTAAAATAATACTAATTTTATAATTA-TTTT
* * * * *
16105740 ACCATTTTA-TTTAACTCTTATTTTTTGTTTAAATTTATTTTTTATTTTTGATAATAA-A-TTTT
440 CCCATTTTACATTAACTCTTATTTTTTATTTAAAATTATTTTTT-TATTTG-TAATAATATTTTT
* *
16105802 TTACATTACCAACTTAATTATTTATGTTATAATAATTAT-TTTTTATGCTTGTTGTTATCTTTCA
503 TTACATTACCAACTTAATTATTTATGTTATAATAA-TATCTTTTTATGCTTGTTATTACCTTTCA
* * * * * * * * *
16105866 TTACATTT-AAG-ATTATCATAACTTTTTGTTAAATGTGTTACAACATTTCTAATCATTTTATGC
567 TTACGTTTAAAGTATTA-CA-AACTTTTTATTAAAAGTATTACGACACTTCAAATCATTTTACGT
* * *
16105929 CAAATAATA-TCAATTTTATGATTACTCTCATATTTTTATATTAACATTTATTTTTTTGTTTAGA
630 CAAATAATACT-AATTTTACGATTACTCTCATATTTTTATATTAACATTTATTTTTAT-TTTAAA
* * *
16105993 ATTATTATTTATTTGTAATAATAATTCTTTTATGTTGCCAAAAATATTATTTATGTTACAATAAT
693 ATTATTAATTATTTGTAATAATAATTCTTTTATGTTGCAAAAAATATTATTTATATTACAATAAT
* * * * * * **
16106058 TTTTTTTATACTTGTTCTTACTTTTTATTGCATTTATAATTATCATAATTTTGTTGTTAAAGTGT
758 TTTGTTTACACTTGTTCTTACTTTTTATTACATTTATAATTATCACAACTCTGTTGTTAAAGCAT
* * * * *
16106123 TACAACACTTTTAATCTAATTTATGTCAAATAATAC-C-AATTTTACAACTATTTTTATCTTTTT
823 TACAACAATTCTAATCCAATTTATATCAAAT--TACTCTAATTTTACAACTATTCTTA-CTTTTT
* *
16106186 -ACATTACAACA-TTGAAACATA-TTTTAAACCAAATTATTCC
885 AACATTACAACACTTCAAACATACTTTTAAACCAAATGATTCC
*
16106226 AAATTTT-CAATTATTTTCACATTTTTACGTTAAAACATTATTTTTTTTGTTTAGAAAATTTTTT
1 -AATTTTACAATTATTATCACATTTTTACGTTAAAACATTA-TTTTTTTGTTT-GAAAATTTTTT
*
16106290 ATTTATAATAATATTTTTTTTATATTGTCAACTT-A-TATTTATGTTATCACAAAATCTTTTACG
63 ATTTATAATAATA--TTTTTTATATTATCAACTTAATTATTTA-GTTATCA-AAAAT-TTTTACG
* * * *
16106353 ATTGTTCTTACTTTTATTATATTTAAAATTATCACAAGTTTTTCTTAAGGTATTACGATATTTCT
123 CTTGTTCTTACTTTTATTATATTTAGAATTATCACAACTTTTTCTTAAGGTATTACGATACTTCT
* *
16106418 AATATATTTTACACTAAATAATATCAATTTTACGATTATTCTCA-CGTTTTTAC-TTAACACTTA
188 AA-ATATTTTACACTAAATAATATCAATTTTACAATTATTCTTATCGTTTTTACATTAACACTTA
**
16106481 TTTTTTGATTGAATTATTTTTTATTTATAATTTTAATTTTTTTGCATTATCAATTTATTATGTTT
252 TTTTTTGATTGAATTATTTTTTATTTATAATACTAATTTTTTT-CATTATCAATTTATTATGTTT
* *
16106546 CAATAATATCTTTTTACATTTGTTGTTACTTTTCATTACATTTAGAATTATTAC-ATTTTTTTTA
316 CAATAATATCTTTTTACATTTGTTATTACTTTTCATTACGTTTAGAATTATTACAATTTTTTTTA
* * * *
16106610 AAGATGTAACGATTCTTCTAACTATTTTACATTAAATAATA-TCAATTTTATAATTATTCTTCCC
381 AAG-TGTAACGATACTTCTAACCATTTTACGTAAAATAATACT-AATTTTATAATTATT-TTCCC
* * * * *
16106674 GTTTTACGTTAACTCTTAACTTTTTATTTAAAATTATTTTTTTACTCGTAATAATAGTTTTTTTA
443 ATTTTACATTAACTCTT-ATTTTTTATTTAAAATTATTTTTTTATTTGTAATAATA-TTTTTTTA
* ** * *
16106739 TATTATTAACTTAATTATTTATGTTTTAATAATATCTTTTTATGCTTGTTATTACCTTTCATTAT
506 CATTACCAACTTAATTATTTATGTTATAATAATATCTTTTTATGCTTGTTATTACCTTTCATTAC
* * * *
16106804 GTTTAGAAGTATTACAAATTTTTTCTTAAAAGTATTATGACACTTCAAATTATTTTACGTCAAAT
571 GTTTA-AAGTATTACAAACTTTTTATTAAAAGTATTACGACACTTCAAATCATTTTACGTCAAAT
*
16106869 AATACTAATTTTACGATTACTCTCATTTTTTTATATTAACATTTATTTTTATTTTAAAATTATTA
635 AATACTAATTTTACGATTACTCTCATATTTTTATATTAACATTTATTTTTATTTTAAAATTATTA
*
16106934 ATTATTTGTAATAAT-ATT-TTTTCTCGTTGCAAAAAATATTATTTATATTACAATAATATTTGT
700 ATTATTTGTAATAATAATTCTTTTAT-GTTGCAAAAAATATTATTTATATTACAATAAT-TTTGT
* * * ***
16106997 TTACACTTGTTTTTATTTTTTATTATATTTA-AATTTATCACAACTCT-TTGTTGGGGCATTACA
763 TTACACTTGTTCTTACTTTTTATTACATTTATAA-TTATCACAACTCTGTTGTTAAAGCATTACA
* * *
16107060 ACAATTCTAATCCAATTTATATCAAGTTACTCTAATTTTACAATTATTCTTACTTTTTAACGTTA
827 ACAATTCTAATCCAATTTATATCAAATTACTCTAATTTTACAACTATTCTTACTTTTTAACATTA
* ***
16107125 CAACACTTCTAACATACTTTTACGTCAAATGATTCC
892 CAACACTTCAAACATACTTTTAAACCAAATGATTCC
* * * * **
16107161 AATTTTACAATTACTGTCACTTTTTTACATT--AACA-CGTTTTTTTGTTT-AAAATTATTTTAT
1 AATTTTACAATTATTATCACATTTTTACGTTAAAACATTATTTTTTTGTTTGAAAATT-TTTTAT
16107222 TTATAATAATAAATTTTTTATATTATCAACTTAATTATTTACGTTAT-AATAATATTTTTTTTAC
65 TTATAATAAT--ATTTTTTATATTATCAACTTAATTATTTA-GTTATCAA-AA-A---TTTTTAC
* ** ** * * * *
16107286 GCTTGTTGTTACCTTTTCATTACGTTTAGGGTTATCATAACTTTTTTTTAAAGATGTTACGATAC
122 GCTTGTTCTTA-CTTTT-ATTATATTTAGAATTATCACAACTTTTTCTT-AAGGTATTACGATAC
* * * * * *
16107351 TTCTAACTATCTTACACAAAAAAATATCAAATTTATAATTATTCTTATCGTTTTTACATTAACAC
184 TTCTAAATATTTTACACTAAATAATATCAATTTTACAATTATTCTTATCGTTTTTACATTAACAC
* * * *
16107416 ATATTTTTTGGTATAGAATTATTTTTTATTTATAATACTAACTTTTTTACATTACCAATTTAATT
249 TTATTTTTT-G-ATTGAATTATTTTTTATTTATAATACTAA-TTTTTTTCATTATCAA--T--TT
* * * * * ***
16107481 ATTTATGTTTTAATAATATTTTTTTACACTTGTTATTATTTTTCATTACGTTTAGGATTACCGCA
307 A-TTATGTTTCAATAATATCTTTTTACATTTGTTATTACTTTTCATTACGTTTAGAATTATTACA
* * * * * **
16107546 ATGTTTTATTAAGGTGTAACGAAACTTGTAACCATTTTACGTCAAATAATACTAATTTTACGATT
371 AT-TTTTTTTAAAGTGTAACGATACTTCTAACCATTTTACGTAAAATAATACTAATTTTATAATT
** * *
16107611 ATTTTCACTTTTTTACATTAACTTTTATTTTTTGATTTAAAAATATTTTTTTATTTGTAATAATA
435 ATTTTC-CCATTTTACATTAACTCTTATTTTTT-ATTTAAAATTATTTTTTTATTTGTAATAATA
* * * *
16107676 TTTCTTTTACATTACCGACTTAATTATTTTTGTTACAATAATATCTTTTTATAG-ATGTTATT-C
498 TTT-TTTTACATTACCAACTTAATTATTTATGTTATAATAATATCTTTTTAT-GCTTGTTATTAC
* * ** ** *
16107739 CTTTAATTACGTTTATAACTACCAC-AACTTTTTATT-AGGGTATTACGATACTT-ATAACTCAT
561 CTTTCATTACGTTTA-AAGTATTACAAACTTTTTATTAAAAGTATTACGACACTTCA-AA-TCAT
* * * * ** * **
16107801 TTTACGTTAAATGACACTAATTTTACGATTACTTTCATATTTTTACGTTAGCATTTATTTATTGG
623 TTTACGTCAAATAATACTAATTTTACGATTACTCTCATATTTTTATATTAACATTTATTT-TTAT
**
16107866 TTTAAAATTATTCTTTGAGTTT-TAGATAATAATTCTTTTATGTTG
687 TTTAAAATTATTAATT-A-TTTGTA-ATAATAATTCTTTTATGTTG
16107911 TCAACTTAAT
Statistics
Matches: 1400, Mismatches: 205, Indels: 141
0.80 0.12 0.08
Matches are distributed among these distances:
929 6 0.00
930 69 0.05
931 149 0.11
932 120 0.09
933 251 0.18
934 173 0.12
935 128 0.09
936 62 0.04
937 31 0.02
938 15 0.01
939 1 0.00
940 34 0.02
941 6 0.00
942 2 0.00
943 15 0.01
944 67 0.05
945 100 0.07
946 140 0.10
947 19 0.01
948 7 0.00
949 5 0.00
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.52
Consensus pattern (927 bp):
AATTTTACAATTATTATCACATTTTTACGTTAAAACATTATTTTTTTGTTTGAAAATTTTTTATT
TATAATAATATTTTTTATATTATCAACTTAATTATTTAGTTATCAAAAATTTTTACGCTTGTTCT
TACTTTTATTATATTTAGAATTATCACAACTTTTTCTTAAGGTATTACGATACTTCTAAATATTT
TACACTAAATAATATCAATTTTACAATTATTCTTATCGTTTTTACATTAACACTTATTTTTTGAT
TGAATTATTTTTTATTTATAATACTAATTTTTTTCATTATCAATTTATTATGTTTCAATAATATC
TTTTTACATTTGTTATTACTTTTCATTACGTTTAGAATTATTACAATTTTTTTTAAAGTGTAACG
ATACTTCTAACCATTTTACGTAAAATAATACTAATTTTATAATTATTTTCCCATTTTACATTAAC
TCTTATTTTTTATTTAAAATTATTTTTTTATTTGTAATAATATTTTTTTACATTACCAACTTAAT
TATTTATGTTATAATAATATCTTTTTATGCTTGTTATTACCTTTCATTACGTTTAAAGTATTACA
AACTTTTTATTAAAAGTATTACGACACTTCAAATCATTTTACGTCAAATAATACTAATTTTACGA
TTACTCTCATATTTTTATATTAACATTTATTTTTATTTTAAAATTATTAATTATTTGTAATAATA
ATTCTTTTATGTTGCAAAAAATATTATTTATATTACAATAATTTTGTTTACACTTGTTCTTACTT
TTTATTACATTTATAATTATCACAACTCTGTTGTTAAAGCATTACAACAATTCTAATCCAATTTA
TATCAAATTACTCTAATTTTACAACTATTCTTACTTTTTAACATTACAACACTTCAAACATACTT
TTAAACCAAATGATTCC
Found at i:16107702 original size:220 final size:220
Alignment explanation
Indices: 16107142--16107947 Score: 690
Period size: 220 Copynumber: 3.7 Consensus size: 220
16107132 TCTAACATAC
* * * * * *
16107142 TTTTACGTCAAATGATTCCAATTTTACAATTACTGTCACTTTTTTACATTAACACGT-TTTTTT-
1 TTTTACGTCAAATAATACTAATTTTACGATTACTTTCACTTTTTTACATTAACACTTATTTTTTG
* * * *
16107205 GTTT--AAA-ATTATTTTATTTATAATAATAAATTTTTTATATTATCAACTTAATTATTTACGTT
66 GTTTAAAAATATTTTTTTATTTATAATAATAAATTTTTTACATTACCAACTTAATTATTTATGTT
* * * * * *
16107267 ATAATAATATTTTTTTTACGCTTGTTGTTACCTTTTCATTACGTTTAGGGTTATCATAACTTTTT
131 ATAATAATA-TCTTTTTACACTTGTTATTA-CTTTTCATTACGTTTAGGATTACCACAACTTTTT
* * * *
16107332 TTTAAAGATGTTACGATACTTCTAACTA
194 ATT-AAGGTGTTACGATACTTATAACCA
* * * * * * *
16107360 TCTTAC-ACAAAAAAATATCAAATTTATA--ATTA-TTCTTATCGTTTTTACATTAACACATATT
1 TTTTACGTC-AAATAATA-CTAATTT-TACGATTACTT-TCA-CTTTTTTACATTAACACTTATT
* * * * * *
16107421 TTTTGGTATAGAATTA-TTTTTTATTTATAATACTAACTTTTTTACATTACCAATTTAATTATTT
61 TTTTGGTTTAAAAATATTTTTTTATTTATAATAATAAATTTTTTACATTACCAACTTAATTATTT
* * * *
16107485 ATGTTTTAATAATATTTTTTTACACTTGTTATTATTTTTCATTACGTTTAGGATTACCGCAA-TG
126 ATGTTATAATAATATCTTTTTACACTTGTTATTACTTTTCATTACGTTTAGGATTACCACAACT-
* * *
16107549 TTTTATTAAGGTGTAACGAAACTTGTAACCA
190 TTTTATTAAGGTGTTACGATACTTATAACCA
* **
16107580 TTTTACGTCAAATAATACTAATTTTACGATTATTTTCACTTTTTTACATTAACTTTTATTTTTTG
1 TTTTACGTCAAATAATACTAATTTTACGATTACTTTCACTTTTTTACATTAACACTTATTTTTTG
* * * * *
16107645 ATTTAAAAATATTTTTTTATTTGTAATAAT-ATTTCTTTTACATTACCGACTTAATTATTTTTGT
66 GTTTAAAAATATTTTTTTATTTATAATAATAAATT-TTTTACATTACCAACTTAATTATTTATGT
* * ** * * ** *
16107709 TACAATAATATCTTTTTATAGATGTTATT-CCTTTAATTACGTTTATAACTACCACAACTTTTTA
130 TATAATAATATCTTTTTACACTTGTTATTACTTTTCATTACGTTTAGGATTACCACAACTTTTTA
* *
16107773 TTAGGGTATTACGATACTTATAACTCA
195 TTAAGGTGTTACGATACTTATAAC-CA
* * * * * * *
16107800 TTTTACGTTAAATGACACTAATTTTACGATTACTTTCA-TATTTTTACGTTAGCATTTATTTATT
1 TTTTACGTCAAATAATACTAATTTTACGATTACTTTCACT-TTTTTACATTAACACTTATTTTTT
* * * ** **
16107864 GGTTTAAAATTATTCTTTGAGTTT-TAGATAAT-AATTCTTTTATGTTGTCAACTTAATTATTTA
65 GGTTTAAAAATATTTTTTTA-TTTATA-ATAATAAATT-TTTTACATTACCAACTTAATTATTTA
* *
16107927 TATTATTATAATATCTTTTTA
127 TGTTATAATAATATCTTTTTA
16107948 TGATTGTTCT
Statistics
Matches: 474, Mismatches: 92, Indels: 41
0.78 0.15 0.07
Matches are distributed among these distances:
217 2 0.00
218 18 0.04
219 108 0.23
220 186 0.39
221 85 0.18
222 18 0.04
223 56 0.12
224 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (220 bp):
TTTTACGTCAAATAATACTAATTTTACGATTACTTTCACTTTTTTACATTAACACTTATTTTTTG
GTTTAAAAATATTTTTTTATTTATAATAATAAATTTTTTACATTACCAACTTAATTATTTATGTT
ATAATAATATCTTTTTACACTTGTTATTACTTTTCATTACGTTTAGGATTACCACAACTTTTTAT
TAAGGTGTTACGATACTTATAACCA
Found at i:16108025 original size:221 final size:219
Alignment explanation
Indices: 16107564--16108008 Score: 486
Period size: 221 Copynumber: 2.0 Consensus size: 219
16107554 TTAAGGTGTA
* * * *
16107564 ACGAAACTTGTAACCATTTTACGTCAAATAATACTAATTTTACGATTATTTTCACTTTTTTACAT
1 ACGACACTTATAACCATTTTACGTCAAATAACACTAATTTTACGATTACTTTCACTTTTTTACAT
* * * * * *
16107629 TAACTTTTATTTTTTGATTTAAAAATATTTTTTTATTTGTAATAATATTTCTTTTACATTACCGA
66 TAACATTTATTTATTGATTTAAAAATATTCTTTGATTTGTAATAATAATTCTTTTACATTACCAA
* * * *
16107694 CTTAATTATTTTTGTTACAATAATATCTTTTTATAGATGTTATTCCTTTAATTACGTTTATAACT
131 CTTAATTATTTATATTACAATAATATCTTTTTATAGATGTTATTCCTTCAATTACATTTATAACT
* *
16107759 ACCACAACTTTTTATTAGGGTATT
196 ACCACAACTCTTTATTAGAGTATT
* * *
16107783 ACGATACTTATAACTCATTTTACGTTAAATGACACTAATTTTACGATTACTTTCA-TATTTTTAC
1 ACGACACTTATAAC-CATTTTACGTCAAATAACACTAATTTTACGATTACTTTCACT-TTTTTAC
* * * * ** *
16107847 GTTAGCATTTATTTATTGGTTTAAAATTATTCTTTGAGTTT-TAGATAATAATTCTTTTATGTTG
64 ATTAACATTTATTTATTGATTTAAAAATATTCTTTGA-TTTGTA-ATAATAATTCTTTTACATTA
* ** *
16107911 TCAACTTAATTATTTATATTATTATAATATCTTTTTAT-GATTGTTCTTACCTTCAA-TACATTT
127 CCAACTTAATTATTTATATTACAATAATATCTTTTTATAGA-TGTTATT-CCTTCAATTACATTT
* * * *
16107974 -TGAATTATCACAACTCTTTCTTAGAGTGTT
190 AT-AACTACCACAACTCTTTATTAGAGTATT
16108004 ACGAC
1 ACGAC
16108009 GTTTCTAACA
Statistics
Matches: 185, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
219 13 0.07
220 77 0.42
221 89 0.48
222 6 0.03
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (219 bp):
ACGACACTTATAACCATTTTACGTCAAATAACACTAATTTTACGATTACTTTCACTTTTTTACAT
TAACATTTATTTATTGATTTAAAAATATTCTTTGATTTGTAATAATAATTCTTTTACATTACCAA
CTTAATTATTTATATTACAATAATATCTTTTTATAGATGTTATTCCTTCAATTACATTTATAACT
ACCACAACTCTTTATTAGAGTATT
Found at i:16108425 original size:15 final size:15
Alignment explanation
Indices: 16108392--16108425 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16108382 AGCTTTTAGC
**
16108392 TTTTATTTTTTATTT
1 TTTTATTTTTTATAA
16108407 TTTTATTTTTTATAA
1 TTTTATTTTTTATAA
16108422 TTTT
1 TTTT
16108426 TTACAACAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTATAA
Found at i:16109153 original size:2 final size:2
Alignment explanation
Indices: 16109099--16109137 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
16109089 ATAGTACCTC
* *
16109099 AT AT AT AC AT AT AT AT AT AT AT AT AT AT -T AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16109138 TACACACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16110629 original size:38 final size:38
Alignment explanation
Indices: 16110578--16110653 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
16110568 TTATTCAAAA
* *
16110578 GCAACAAATTAGTTTCAGAAGTAGCTTCTAATATCTTT
1 GCAACAAATTAGTTTCAAAAGTAGCATCTAATATCTTT
* *
16110616 GCAACAAATTAGTTTTAAAAGTAGCATCTACTATCTTT
1 GCAACAAATTAGTTTCAAAAGTAGCATCTAATATCTTT
16110654 TTTCACTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (38 bp):
GCAACAAATTAGTTTCAAAAGTAGCATCTAATATCTTT
Found at i:16112123 original size:14 final size:14
Alignment explanation
Indices: 16112104--16112131 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16112094 ACATAGGCGG
16112104 TTGCCAGGTTTTTA
1 TTGCCAGGTTTTTA
16112118 TTGCCAGGTTTTTA
1 TTGCCAGGTTTTTA
16112132 GGTGTGAGAA
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:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (14 bp):
TTGCCAGGTTTTTA
Found at i:16115888 original size:17 final size:17
Alignment explanation
Indices: 16115866--16115925 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
16115856 ATTCTTCAGT
16115866 TTATTTAGAGACTGTTG
1 TTATTTAGAGACTGTTG
* * *
16115883 TTATTTA-AAATTCTTCAG
1 TTATTTAGAGACTGTT--G
16115901 TTTATTTAGAGACTGTTG
1 -TTATTTAGAGACTGTTG
16115919 TTATTTA
1 TTATTTA
16115926 AAATTCTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 5 0.15
17 14 0.42
18 2 0.06
19 7 0.21
20 5 0.15
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.52
Consensus pattern (17 bp):
TTATTTAGAGACTGTTG
Found at i:16115903 original size:36 final size:36
Alignment explanation
Indices: 16115856--16115937 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
16115846 TATTAACTGG
16115856 ATTCTTCAGTTTATTTAGAGACTGTTGTTATTTAAA
1 ATTCTTCAGTTTATTTAGAGACTGTTGTTATTTAAA
16115892 ATTCTTCAGTTTATTTAGAGACTGTTGTTATTTAAA
1 ATTCTTCAGTTTATTTAGAGACTGTTGTTATTTAAA
16115928 ATTCTTCAGT
1 ATTCTTCAGT
16115938 GTTCATTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (36 bp):
ATTCTTCAGTTTATTTAGAGACTGTTGTTATTTAAA
Found at i:16116834 original size:36 final size:36
Alignment explanation
Indices: 16116785--16116858 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
16116775 TTCACAAGTT
*
16116785 CATTACAATGAACACTAGTACACAAATGCCTACTTC
1 CATTACAATGAACACTAGTACACAAATACCTACTTC
* *
16116821 CATTACAGA-GAACACTATTACATAAATACCTACTTC
1 CATTACA-ATGAACACTAGTACACAAATACCTACTTC
16116857 CA
1 CA
16116859 AAACAAGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.26
Consensus pattern (36 bp):
CATTACAATGAACACTAGTACACAAATACCTACTTC
Found at i:16120390 original size:21 final size:19
Alignment explanation
Indices: 16120348--16120403 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
16120338 TTCTCGATTT
*
16120348 TTTTTTTTTTTAACTTTCC
1 TTTTTTTTTTTAACTTTAC
*
16120367 TTTTTTTTTTTAGCTCCTTAC
1 TTTTTTTTTTTAACT--TTAC
16120388 -TTTTTTTTTTAACTTT
1 TTTTTTTTTTTAACTTT
16120404 TAGAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.06
19 14 0.44
20 13 0.41
21 3 0.09
ACGTcount: A:0.11, C:0.14, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTTTTTTAACTTTAC
Found at i:16121024 original size:15 final size:15
Alignment explanation
Indices: 16120992--16121042 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
16120982 AAAATCTTTA
** *
16120992 AAATATATATTTATT
1 AAATATATAAATAAT
16121007 AAATATATAAATAAT
1 AAATATATAAATAAT
*
16121022 AAATA-ATAAAAAAT
1 AAATATATAAATAAT
16121036 AACATAT
1 AA-ATAT
16121043 TCTTAATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATATATAAATAAT
Found at i:16123004 original size:20 final size:19
Alignment explanation
Indices: 16122955--16123005 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
16122945 CCTATTTTAA
*
16122955 GATTCGTTTATATTCGTTT
1 GATTCATTTATATTCGTTT
16122974 GAGTTCATTTATATTCGTTT
1 GA-TTCATTTATATTCGTTT
*
16122994 GGATTCTTTTAT
1 -GATTCATTTAT
16123006 GTTCATTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.18, C:0.10, G:0.16, T:0.57
Consensus pattern (19 bp):
GATTCATTTATATTCGTTT
Found at i:16123096 original size:26 final size:23
Alignment explanation
Indices: 16123042--16123097 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
16123032 TTTATTTAGT
16123042 TATGATTTATTTATTATTCATGAA
1 TATG-TTTATTTATTATTCATGAA
* *
16123066 CATGTTTATTTATATATATTAGTGAA
1 TATGTTTATTTAT-TAT-TCA-TGAA
16123092 TATGTT
1 TATGTT
16123098 CGTTTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.35
24 6 0.23
25 2 0.08
26 9 0.35
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
TATGTTTATTTATTATTCATGAA
Found at i:16132758 original size:20 final size:21
Alignment explanation
Indices: 16132733--16132785 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
16132723 TGCCTTACCC
16132733 GATCGATCTCTTGC-TTGAGG-
1 GATCGATCTCTT-CTTTGAGGT
* *
16132753 GATCGATCTGTTCTTTTAGGT
1 GATCGATCTCTTCTTTGAGGT
16132774 GATCGATCTCTT
1 GATCGATCTCTT
16132786 TTCTAGGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 16 0.57
21 11 0.39
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (21 bp):
GATCGATCTCTTCTTTGAGGT
Found at i:16132893 original size:21 final size:20
Alignment explanation
Indices: 16132844--16132897 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
16132834 TCCCTTTAAG
*
16132844 AGGGGATCGATCCCTTGCCTT
1 AGGGGATCGATCCCTTG-CTA
*
16132865 AGGTGATCGATCCTCTATG-TA
1 AGGGGATCGATCC-CT-TGCTA
16132886 AGGGGATCGATC
1 AGGGGATCGATC
16132898 TCTTTTATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 24 0.86
22 2 0.07
23 2 0.07
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (20 bp):
AGGGGATCGATCCCTTGCTA
Found at i:16133623 original size:18 final size:20
Alignment explanation
Indices: 16133587--16133624 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
16133577 AATACTTTTA
*
16133587 TTAATGATATATATTAAATT
1 TTAATGATATATATAAAATT
16133607 TTAAT-ATA-ATATAAAATT
1 TTAATGATATATATAAAATT
16133625 AACTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TTAATGATATATATAAAATT
Found at i:16135085 original size:52 final size:51
Alignment explanation
Indices: 16135007--16135110 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
16134997 TATAACCATA
* * *
16135007 CAAACTTGCTTATTAAGAATCTTTTTCCTCTT-AGAATTTTTTTTCTGTAAGT
1 CAAACTTACCTATTAAGAATCTTTTT-CT-TTAAAAATTTTTTTTCTGTAAGT
* *
16135059 CAAACTTACCTATTAAGAATTTTTTTCTTTAAAAATTTTTTTTTTGTAAGT
1 CAAACTTACCTATTAAGAATCTTTTTCTTTAAAAATTTTTTTTCTGTAAGT
16135110 C
1 C
16135111 TTCTTGTCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 2 0.04
51 21 0.46
52 23 0.50
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCTTTTTCTTTAAAAATTTTTTTTCTGTAAGT
Found at i:16135107 original size:51 final size:52
Alignment explanation
Indices: 16135007--16135110 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 52
16134997 TATAACCATA
* * *
16135007 CAAACTTGCTTATTAAGAATCTTTTTCCTCTTAGAATTTTTTTTCTGTAAGT
1 CAAACTTACCTATTAAGAATCTTTTTCCTCTTAAAATTTTTTTTCTGTAAGT
* *
16135059 CAAACTTACCTATTAAGAAT-TTTTTTCT-TTAAAAATTTTTTTTTTGTAAGT
1 CAAACTTACCTATTAAGAATCTTTTTCCTCTT-AAAATTTTTTTTCTGTAAGT
16135110 C
1 C
16135111 TTCTTGTCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 2 0.04
51 26 0.57
52 18 0.39
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTTTTTCCTCTTAAAATTTTTTTTCTGTAAGT
Found at i:16136108 original size:145 final size:145
Alignment explanation
Indices: 16135868--16136413 Score: 518
Period size: 145 Copynumber: 3.8 Consensus size: 145
16135858 GAGAAAGGCC
* ** * * *
16135868 AAATTACCAAAATA-CCCTTATATGTGGTATTTTTTTAATTTGACCTTTTCGAGCT-TGAATTTT
1 AAATTACCAAAATATCCCTTATAAG-GGTATTTTCATAATTTGGCCTTTCCGAGCTCAGAA-TTT
* * * * * *
16135931 CGTGAAA-TCTTTCAGACCTTAATCTTATAATATTTAATGATTTTTGATGCATTTAAAATCACAA
64 CTTGAAACT-TTTCAGATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCATAA
*
16135995 TGGTATGCCGAAAAGTGTG
128 TAGTAT-CCGAAAAGTGTG
*
16136014 AAATTACCAAAATA-CCCTTATAAGGGTATTTTTC-TAATTTGGCCTTCCCGAGCTCAGAATTTC
1 AAATTACCAAAATATCCCTTATAAGGGTA-TTTTCATAATTTGGCCTTTCCGAGCTCAGAATTTC
* * * * ** * *
16136077 TTGAAACTTTTCAGATCTCACTTTTGTAATATTTCATGATTTTTGGTGGGTTTGGAATCATAGTA
65 TTGAAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCATAATA
*
16136142 GTATCCTGATAAGTGTG
130 GTATCC-GAAAAGTGTG
* * * * *
16136159 AAATTACCAAAATACCCCTT-GAGGGGTATTTTCATAATTTGGGCTTTCCGAGCTCAAAATTT-T
1 AAATTACCAAAATATCCCTTATAAGGGTATTTTCATAATTTGGCCTTTCCGAGCTCAGAATTTCT
* * * *
16136222 ACGAAAAC-TTTCAGATCTTAGTTTTATAATATTTCATGATTTTTGATGTATTTGAAATCATAAC
66 -TG-AAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCATAAT
* *
16136286 AGTACCCCCAAAAGTGTG
129 AGTA-TCCGAAAAGTGTG
* * * *
16136304 AAATTATCAAAATATTCCC--ATACGGGTATTTTCATAATTTAGCCTTTTCGAGCTCAGAATTTC
1 AAATTACCAAAATA-TCCCTTATAAGGGTATTTTCATAATTTGGCCTTTCCGAGCTCAGAATTTC
*** * * * **
16136367 ACAAAATTTTTCATATCATAATCCTATAATATTTCATGATTTTTGAT
65 TTGAAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGAT
16136414 ATTTTAAAAT
Statistics
Matches: 331, Mismatches: 56, Indels: 27
0.80 0.14 0.07
Matches are distributed among these distances:
144 11 0.03
145 275 0.83
146 45 0.14
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (145 bp):
AAATTACCAAAATATCCCTTATAAGGGTATTTTCATAATTTGGCCTTTCCGAGCTCAGAATTTCT
TGAAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCATAATAG
TATCCGAAAAGTGTG
Found at i:16141548 original size:15 final size:14
Alignment explanation
Indices: 16141528--16141580 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
16141518 ATTACCCGAT
16141528 AAAATAATAAAA-TG
1 AAAATAA-AAAACTG
16141542 AATAATAAAAAACTG
1 AA-AATAAAAAACTG
*
16141557 AAAATAAAGAAAAT-
1 AAAATAAA-AAACTG
16141571 AAAATAAAAA
1 AAAATAAAAA
16141581 CTTCAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 2 0.06
14 20 0.57
15 13 0.37
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (14 bp):
AAAATAAAAAACTG
Found at i:16141563 original size:29 final size:29
Alignment explanation
Indices: 16141528--16141606 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 29
16141518 ATTACCCGAT
16141528 AAAATAATAAAATGAATAATAAAAAACTG
1 AAAATAATAAAATGAATAATAAAAAACTG
* *
16141557 AAAATAAAGAAAAT-AA-AAT-AAAAACTT
1 AAAAT-AATAAAATGAATAATAAAAAACTG
*
16141584 CAAAT-ATAAAATG-ATAA-AAAAAA
1 AAAATAATAAAATGAATAATAAAAAA
16141607 GATAGTCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
25 7 0.17
26 7 0.17
27 11 0.26
28 3 0.07
29 7 0.17
30 7 0.17
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (29 bp):
AAAATAATAAAATGAATAATAAAAAACTG
Found at i:16142348 original size:37 final size:37
Alignment explanation
Indices: 16142285--16142394 Score: 141
Period size: 37 Copynumber: 3.0 Consensus size: 37
16142275 TTCTCTGCAT
**
16142285 GAATTATGC-CCAACAAATCCGAGATTGAATCACCAA
1 GAATTATGCTCCAACGGATCCGAGATTGAATCACCAA
* *
16142321 GAATTATGCTCTAACGGATCCGTGATTGAATCACCAA
1 GAATTATGCTCCAACGGATCCGAGATTGAATCACCAA
* * * *
16142358 GAATTGTTCTCCAATGGATCTGAGATTGAATCACCAA
1 GAATTATGCTCCAACGGATCCGAGATTGAATCACCAA
16142395 TTTTCTTCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
36 9 0.14
37 54 0.86
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (37 bp):
GAATTATGCTCCAACGGATCCGAGATTGAATCACCAA
Found at i:16142436 original size:3 final size:3
Alignment explanation
Indices: 16142430--16142525 Score: 101
Period size: 3 Copynumber: 32.7 Consensus size: 3
16142420 CTTTTTTTAA
16142430 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
16142478 AA- AACT -AT GTAC AAT -AT CAT AAT AAT AAT AAT GAC AAT AAT -AT
1 AAT AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16142521 AAT AA
1 AAT AA
16142526 AGTACAATAA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
2 7 0.09
3 71 0.90
4 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16142531 original size:41 final size:41
Alignment explanation
Indices: 16142455--16142534 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
16142445 AATAATAATA
* *
16142455 ATAATAATAATAATAATAATAATAAAACTATGTACAATATC
1 ATAATAATAATAATAACAATAATAAAACTAAGTACAATATC
* *
16142496 ATAATAATAATAATGACAATAATATAA-TAAAGTACAATA
1 ATAATAATAATAATAACAATAATAAAACT-AAGTACAATA
16142535 AAATTGACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (41 bp):
ATAATAATAATAATAACAATAATAAAACTAAGTACAATATC
Found at i:16142532 original size:18 final size:18
Alignment explanation
Indices: 16142496--16142535 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16142486 GTACAATATC
*
16142496 ATAATAATAATAATGACA
1 ATAATAATAATAAAGACA
16142514 ATAAT-ATAATAAAGTACA
1 ATAATAATAATAAAG-ACA
16142532 ATAA
1 ATAA
16142536 AATTGACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAATAATAATAAAGACA
Found at i:16143233 original size:65 final size:65
Alignment explanation
Indices: 16143100--16143244 Score: 157
Period size: 65 Copynumber: 2.2 Consensus size: 65
16143090 GATCGGGATG
* * * * *
16143100 AAATCGTAAGTCTAAAGATGAAGCGACCAAAATCGAATCGAGATCAAAATTGCCTAATCGAGACA
1 AAATCATAAGTCTAAAGATAAAGCGACCAAAACCGAATCGAGATCAAAATTGCCTAACCAAGACA
* * * * * * * *
16143165 AAATCATAAGTCTAAAGATAAAGTGATCAAGACCGAGTCGAGGTCAAAATTGGCTGACCAAGATA
1 AAATCATAAGTCTAAAGATAAAGCGACCAAAACCGAATCGAGATCAAAATTGCCTAACCAAGACA
*
16143230 AAATCACAAGT-TAAA
1 AAATCATAAGTCTAAA
16143245 AAATGATCTA
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
64 4 0.06
65 62 0.94
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (65 bp):
AAATCATAAGTCTAAAGATAAAGCGACCAAAACCGAATCGAGATCAAAATTGCCTAACCAAGACA
Found at i:16144728 original size:14 final size:14
Alignment explanation
Indices: 16144711--16144737 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16144701 GTTTTTGTTG
16144711 TTTCTTTTTTTGCC
1 TTTCTTTTTTTGCC
16144725 TTTCTTTTTTTGC
1 TTTCTTTTTTTGC
16144738 ACTCATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.74
Consensus pattern (14 bp):
TTTCTTTTTTTGCC
Found at i:16145039 original size:1 final size:1
Alignment explanation
Indices: 16145028--16145075 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
16145018 GCTCCATCAA
* ** * *
16145028 TTTTCTTTTTTTTTTTTTTTTTGCTTTTTTTTATTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16145076 ATGAAGTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.02, C:0.04, G:0.04, T:0.90
Consensus pattern (1 bp):
T
Found at i:16145054 original size:19 final size:19
Alignment explanation
Indices: 16145028--16145075 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
16145018 GCTCCATCAA
16145028 TTTTCTTTTTTTT-TTTTT
1 TTTTCTTTTTTTTATTTTT
16145046 TTTTGCTTTTTTTTATTTTT
1 TTTT-CTTTTTTTTATTTTT
16145066 TGTTT-TTTTT
1 T-TTTCTTTTT
16145076 ATGAAGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 14 0.52
20 6 0.22
21 3 0.11
ACGTcount: A:0.02, C:0.04, G:0.04, T:0.90
Consensus pattern (19 bp):
TTTTCTTTTTTTTATTTTT
Found at i:16145055 original size:17 final size:16
Alignment explanation
Indices: 16145035--16145077 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
16145025 CAATTTTCTT
*
16145035 TTTTTTTTTTTTTTTG
1 TTTTTTTTATTTTTTG
16145051 CTTTTTTTTATTTTTTG
1 -TTTTTTTTATTTTTTG
16145068 TTTTTTTTAT
1 TTTTTTTTAT
16145078 GAAGTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.05, C:0.02, G:0.05, T:0.88
Consensus pattern (16 bp):
TTTTTTTTATTTTTTG
Found at i:16145790 original size:41 final size:41
Alignment explanation
Indices: 16145745--16145828 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
16145735 AATCAACCTC
16145745 CTTAAAATTATGCTCTTGGATGATTGGGTGACGGGTTACTA
1 CTTAAAATTATGCTCTTGGATGATTGGGTGACGGGTTACTA
* *
16145786 CTTAAAATTATGCTTTTGGATGATTGGGTGATGGGTTACTA
1 CTTAAAATTATGCTCTTGGATGATTGGGTGACGGGTTACTA
16145827 CT
1 CT
16145829 AACATTAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (41 bp):
CTTAAAATTATGCTCTTGGATGATTGGGTGACGGGTTACTA
Found at i:16147960 original size:47 final size:46
Alignment explanation
Indices: 16147895--16147990 Score: 174
Period size: 47 Copynumber: 2.1 Consensus size: 46
16147885 ATATATATAC
16147895 AATAAATAAATAATTAAGCAAGTATAAGCAATGAAAAGAAGTAAAA
1 AATAAATAAATAATTAAGCAAGTATAAGCAATGAAAAGAAGTAAAA
*
16147941 AATAAATAAAATAATTAAGCAAGTGTAAGCAATGAAAAGAAGTAAAA
1 AATAAAT-AAATAATTAAGCAAGTATAAGCAATGAAAAGAAGTAAAA
16147988 AAT
1 AAT
16147991 CTCAAATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 7 0.15
47 41 0.85
ACGTcount: A:0.62, C:0.04, G:0.14, T:0.20
Consensus pattern (46 bp):
AATAAATAAATAATTAAGCAAGTATAAGCAATGAAAAGAAGTAAAA
Found at i:16148844 original size:29 final size:29
Alignment explanation
Indices: 16148812--16148890 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 29
16148802 ATTACCCGAT
16148812 AAAATAATAAAATGAATAATAAAAAACTA
1 AAAATAATAAAATGAATAATAAAAAACTA
* *
16148841 AAAATAAAATAAAT-AA-AAT-AAAAACTT
1 AAAATAATA-AAATGAATAATAAAAAACTA
*
16148868 TAAAT-ATAAAATG-ATAA-AAAAAA
1 AAAATAATAAAATGAATAATAAAAAA
16148891 GGATAAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
25 5 0.12
26 9 0.21
27 11 0.26
28 3 0.07
29 10 0.24
30 4 0.10
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (29 bp):
AAAATAATAAAATGAATAATAAAAAACTA
Found at i:16148846 original size:14 final size:13
Alignment explanation
Indices: 16148810--16148864 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
16148800 AAATTACCCG
*
16148810 ATAAAATAATAAA
1 ATAAAATAAAAAA
16148823 ATGAATAATAAAAAA
1 AT-AA-AATAAAAAA
*
16148838 CTAAAAATAAAATAA
1 AT-AAAATAAAA-AA
16148853 ATAAAATAAAAA
1 ATAAAATAAAAA
16148865 CTTTAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 3 0.09
14 18 0.51
15 14 0.40
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:16148862 original size:20 final size:22
Alignment explanation
Indices: 16148810--16148864 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
16148800 AAATTACCCG
16148810 ATAAAATAATAAAATGAATAATAA
1 ATAAAAT-A-AAAATGAATAATAA
*
16148834 A-AAACTAAAAAT-AA-AATAA
1 ATAAAATAAAAATGAATAATAA
16148853 ATAAAATAAAAA
1 ATAAAATAAAAA
16148865 CTTTAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 6 0.21
20 11 0.39
21 5 0.18
22 1 0.04
23 4 0.14
24 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
ATAAAATAAAAATGAATAATAA
Found at i:16148896 original size:20 final size:21
Alignment explanation
Indices: 16148873--16148911 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16148863 AACTTTAAAT
*
16148873 ATAAAATGATAAA-AAAAAGG
1 ATAAAATCATAAATAAAAAGG
16148893 ATAAAATCATAAATAAAAA
1 ATAAAATCATAAATAAAAA
16148912 TTTGCCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (21 bp):
ATAAAATCATAAATAAAAAGG
Found at i:16149636 original size:37 final size:37
Alignment explanation
Indices: 16149586--16149679 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
16149576 TGCCCAACAA
* **
16149586 ATCTGGGATTGAATCACCAAGAAGCATGCTGTAACGG
1 ATCTGAGATTGAATCACCAAGAAGCATGCTCCAACGG
* * *
16149623 ATCTGTGATTGAATCACCAAGAATCATGCTCCGACGG
1 ATCTGAGATTGAATCACCAAGAAGCATGCTCCAACGG
**
16149660 ATCCAAGATTGAATCACCAA
1 ATCTGAGATTGAATCACCAA
16149680 TTTTCTTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (37 bp):
ATCTGAGATTGAATCACCAAGAAGCATGCTCCAACGG
Found at i:16149731 original size:3 final size:3
Alignment explanation
Indices: 16149725--16149832 Score: 114
Period size: 3 Copynumber: 36.3 Consensus size: 3
16149715 CTTTTTTTTA
*
16149725 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
16149773 AAAT TAT GTAC AAT -AT CAT AAT AAT AAT AAT ACT AAT AAC AAT AAT
1 -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16149819 AAT -AT AAT AA- AAT A
1 AAT AAT AAT AAT AAT A
16149833 CAATAAAATT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
2 6 0.07
3 78 0.88
4 5 0.06
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16150079 original size:15 final size:16
Alignment explanation
Indices: 16150050--16150087 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16150040 TTATATAAAA
16150050 AATTAAAAAATTAATT
1 AATTAAAAAATTAATT
*
16150066 AATTAAAATA-TAATT
1 AATTAAAAAATTAATT
*
16150081 AAATAAA
1 AATTAAA
16150088 TTAAATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAAAAAATTAATT
Found at i:16150295 original size:3 final size:3
Alignment explanation
Indices: 16150284--16150321 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
16150274 GACGACGACG
*
16150284 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16150322 CTTAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:16151850 original size:32 final size:33
Alignment explanation
Indices: 16151814--16151879 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
16151804 GCTTCTGGGA
16151814 TAATTCTACTATATTTT-ATAAGATAGGATCTT
1 TAATTCTACTATATTTTGATAAGATAGGATCTT
* *
16151846 TAATTCTACTCTATTTTGTTAAGATAGGATCTT
1 TAATTCTACTATATTTTGATAAGATAGGATCTT
16151879 T
1 T
16151880 CCTGGAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (33 bp):
TAATTCTACTATATTTTGATAAGATAGGATCTT
Found at i:16158999 original size:4 final size:4
Alignment explanation
Indices: 16158990--16159014 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
16158980 CAATTATATA
16158990 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
16159015 AAACATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:16164722 original size:19 final size:20
Alignment explanation
Indices: 16164687--16164726 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
16164677 AAGGTATAAT
16164687 CCTAACTACACGATTAGACA
1 CCTAACTACACGATTAGACA
*
16164707 CCTAAC-ACATGATTAGACA
1 CCTAACTACACGATTAGACA
16164726 C
1 C
16164727 TTAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.40, C:0.30, G:0.10, T:0.20
Consensus pattern (20 bp):
CCTAACTACACGATTAGACA
Found at i:16165107 original size:2 final size:2
Alignment explanation
Indices: 16165100--16165124 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16165090 TTGTTTAGAC
16165100 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16165125 TAGAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16165317 original size:2 final size:2
Alignment explanation
Indices: 16165312--16165359 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
16165302 TATTAATTTT
16165312 TA TA TA -A TA TA TA -A TA TA TA TA -A TA T- TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16165349 TA TA TA TA TA T
1 TA TA TA TA TA T
16165360 TAAAAACTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
1 5 0.12
2 36 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16174409 original size:12 final size:12
Alignment explanation
Indices: 16174392--16174417 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16174382 AATAGCTAGC
16174392 CCCGGAATACAA
1 CCCGGAATACAA
16174404 CCCGGAATACAA
1 CCCGGAATACAA
16174416 CC
1 CC
16174418 AATTTTAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.08
Consensus pattern (12 bp):
CCCGGAATACAA
Found at i:16175107 original size:23 final size:25
Alignment explanation
Indices: 16175053--16175126 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
16175043 TTTTTCATTT
*
16175053 TAATTTTTTATTTAA-AAATATTGAAA
1 TAATTTTTTATTTAATATA-ATT-AAA
16175079 TAATTTTTTATTTAATATAATT-AA
1 TAATTTTTTATTTAATATAATTAAA
*
16175103 T-ATTTTTAATATT-ATATAA-TAAA
1 TAATTTTTTAT-TTAATATAATTAAA
16175126 T
1 T
16175127 TAATAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
22 1 0.02
23 17 0.40
24 5 0.12
26 18 0.42
27 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
TAATTTTTTATTTAATATAATTAAA
Found at i:16177529 original size:17 final size:18
Alignment explanation
Indices: 16177507--16177544 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
16177497 AAGTCATTTG
16177507 ATTTTTATTCATTTTT-T
1 ATTTTTATTCATTTTTCT
* *
16177524 ATTTTTCTTTATTTTTCT
1 ATTTTTATTCATTTTTCT
16177542 ATT
1 ATT
16177545 ATCTTTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTATTCATTTTTCT
Found at i:16178377 original size:6 final size:6
Alignment explanation
Indices: 16178366--16178398 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
16178356 CCTAATTCCC
*
16178366 TTTCTT TTTCTT TTTCTT TTTCCT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
16178399 TGTTTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:16178383 original size:12 final size:12
Alignment explanation
Indices: 16178361--16178398 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
16178351 TGGTGCCTAA
*
16178361 TTCCCTTTCTTT
1 TTCCTTTTCTTT
*
16178373 TTCTTTTTCTTT
1 TTCCTTTTCTTT
16178385 TTCCTTTTCTTT
1 TTCCTTTTCTTT
16178397 TT
1 TT
16178399 TGTTTTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCCTTTTCTTT
Found at i:16178936 original size:16 final size:18
Alignment explanation
Indices: 16178917--16178950 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
16178907 AAAAAGTATA
16178917 TATTTTAT-TA-TATATT
1 TATTTTATATACTATATT
16178933 TATTTTATATACTATATT
1 TATTTTATATACTATATT
16178951 AACAAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTATATACTATATT
Found at i:16179971 original size:26 final size:26
Alignment explanation
Indices: 16179935--16179995 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
16179925 TCTAAGTGAA
16179935 TGAGCAATACATAAGCTTTAAATCAT
1 TGAGCAATACATAAGCTTTAAATCAT
16179961 TGAGCAATACATAAGCTTTAAATCAT
1 TGAGCAATACATAAGCTTTAAATCAT
*
16179987 TGAGTAATA
1 TGAGCAATA
16179996 GACACGTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (26 bp):
TGAGCAATACATAAGCTTTAAATCAT
Found at i:16182788 original size:24 final size:24
Alignment explanation
Indices: 16182731--16182788 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
16182721 ACTACATGCT
* *
16182731 AAAAATAAATGTCTAATCAAATAAT
1 AAAAA-AAATGTCCAATCAAATAAC
**
16182756 AAACTAAATGTCCAATCAAATAAC
1 AAAAAAAATGTCCAATCAAATAAC
16182780 AAAAAAAAT
1 AAAAAAAAT
16182789 CTTTGTAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (24 bp):
AAAAAAAATGTCCAATCAAATAAC
Found at i:16184824 original size:24 final size:24
Alignment explanation
Indices: 16184786--16184842 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
16184776 AAAATGTAAA
*
16184786 AAATAAAAAAGAATATAAAA-ATTT
1 AAATAATAAA-AATATAAAATATTT
16184810 AAATTAATAAAAATATAAAATATTT
1 AAA-TAATAAAAATATAAAATATTT
*
16184835 TAATAATA
1 AAATAATA
16184843 TTTAATCGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATAATAAAAATATAAAATATTT
Found at i:16185662 original size:19 final size:18
Alignment explanation
Indices: 16185638--16185687 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
16185628 GGTTCAATTT
16185638 GGTTTAAGGTTTGCATGAG
1 GGTTTAAGGTTTGCATG-G
* * *
16185657 GGTTTACGATTTGCTTGG
1 GGTTTAAGGTTTGCATGG
16185675 GTGTTTAAGGTTT
1 G-GTTTAAGGTTT
16185688 AGGTTCATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.16, C:0.06, G:0.34, T:0.44
Consensus pattern (18 bp):
GGTTTAAGGTTTGCATGG
Found at i:16185851 original size:56 final size:55
Alignment explanation
Indices: 16185729--16185857 Score: 132
Period size: 56 Copynumber: 2.3 Consensus size: 55
16185719 TTAGGGTTTG
* ** * * * * ** *
16185729 GTTAGGGTTTAGGTTCAATTTTTGTTTGGTTTAGGGTCTAGGTTAGGGTTGGAGG
1 GTTAGGGTTTTGGTTTGATTTGTGTTAGGTTTAAGGTCTAGGTTAGGGATAAAGA
*
16185784 GTTTTGGGTTTTGGTTTGATTTGTGTTAGGTTTAAGGTCTAGGTTAGGGATAAAGA
1 G-TTAGGGTTTTGGTTTGATTTGTGTTAGGTTTAAGGTCTAGGTTAGGGATAAAGA
*
16185840 GTTAGGCGTTTTGATTTG
1 GTTAGG-GTTTTGGTTTG
16185858 GGGTTATAGG
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
55 5 0.08
56 54 0.92
ACGTcount: A:0.16, C:0.03, G:0.36, T:0.45
Consensus pattern (55 bp):
GTTAGGGTTTTGGTTTGATTTGTGTTAGGTTTAAGGTCTAGGTTAGGGATAAAGA
Found at i:16185888 original size:27 final size:27
Alignment explanation
Indices: 16185852--16185906 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
16185842 TAGGCGTTTT
* *
16185852 GATTTGGGGTTATAGGTTT-GTGTTTAA
1 GATTTAGGGTT-TAGGTTTAGGGTTTAA
*
16185879 GATTTAGGGTTTATGTTTAGGGTTTAA
1 GATTTAGGGTTTAGGTTTAGGGTTTAA
16185906 G
1 G
16185907 GTTTGCATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (27 bp):
GATTTAGGGTTTAGGTTTAGGGTTTAA
Found at i:16185935 original size:39 final size:39
Alignment explanation
Indices: 16185881--16186178 Score: 163
Period size: 39 Copynumber: 7.8 Consensus size: 39
16185871 GTGTTTAAGA
* * *
16185881 TTTAGGGTTTATGTTTAGGGTTTAAGGTTTGCATGGGAG
1 TTTAGGATTTGTGTTTGGGGTTTAAGGTTTGCATGGGAG
* *
16185920 TTTAGGATTTGTGTTTGGGGTTTATGGTTTGCATGGGTG
1 TTTAGGATTTGTGTTTGGGGTTTAAGGTTTGCATGGGAG
* * * * **
16185959 ATTAAGG-TTTGTATTTTGAGTTTAAGGTTTGTGTTTGGG-G
1 -TTTAGGATTTGTGTTTGGGGTTTAAGG-TT-TGCATGGGAG
** *
16185999 TTTAGGA-TT-TGCATGGGGCTTTATGGTTTGCAT-GGAGG
1 TTTAGGATTTGTGTTTGGGG-TTTAAGGTTTGCATGGGA-G
* * * *
16186037 TTTAGGA--TGTGTTTGGGGTTTATGGTTTACAAGGGTG
1 TTTAGGATTTGTGTTTGGGGTTTAAGGTTTGCATGGGAG
* * * *
16186074 TTTACGG-TTTGTATTTTGGGTTTAAGGTTTTTG-TTTGGAG
1 TTTA-GGATTTGTGTTTGGGGTTTAAGG--TTTGCATGGGAG
* ** * * * *
16186114 TTTAGGGTTTG-CATAGGGGTTTATGGTTTACATGGGGG
1 TTTAGGATTTGTGTTTGGGGTTTAAGGTTTGCATGGGAG
*
16186152 TTTAGG--GTGTGTTTGGGGTTT-AGGTTT
1 TTTAGGATTTGTGTTTGGGGTTTAAGGTTT
16186179 TTGTTTTAGG
Statistics
Matches: 194, Mismatches: 48, Indels: 37
0.70 0.17 0.13
Matches are distributed among these distances:
36 9 0.05
37 32 0.16
38 35 0.18
39 90 0.46
40 19 0.10
41 9 0.05
ACGTcount: A:0.14, C:0.03, G:0.36, T:0.46
Consensus pattern (39 bp):
TTTAGGATTTGTGTTTGGGGTTTAAGGTTTGCATGGGAG
Found at i:16185949 original size:59 final size:56
Alignment explanation
Indices: 16185898--16186179 Score: 204
Period size: 59 Copynumber: 4.9 Consensus size: 56
16185888 TTTATGTTTA
16185898 GGGTTTAAGGTTTGCATGGGAGTTTAGGATTTGTGTTTGGGGTTTATGG-TTTGCAT
1 GGGTTTAAGGTTTGCATGGGAGTTTAGG-TTTGTGTTTGGGGTTTATGGTTTTGCAT
* ** *
16185954 GGGTGATTAAGGTTTGTATTTTGAGTTTAAGGTTTGTGTTTGGGGTTTA-GGATTTGCAT
1 GGGT--TTAAGGTTTGCA-TGGGAGTTT-AGGTTTGTGTTTGGGGTTTATGGTTTTGCAT
* * * *
16186013 GGGGCTTTATGGTTTGCAT-GGAGGTTTAGG-ATGTGTTTGGGGTTTATGG-TTTACAAG
1 -GGG-TTTAAGGTTTGCATGGGA-GTTTAGGTTTGTGTTTGGGGTTTATGGTTTTGC-AT
* * * * * *
16186070 GGTGTTTACGGTTTGTATTTTGG-GTTTAAGGTTTTTGTTTGGAGTTTA-GGGTTTGCAT
1 GG-GTTTAAGGTTTGCA--TGGGAGTTT-AGGTTTGTGTTTGGGGTTTATGGTTTTGCAT
* * * *
16186128 AGGGGTTTATGGTTTACATGGGGGTTTAGG-GTGTGTTTGGGGTTTA-GGTTTT
1 --GGGTTTAAGGTTTGCATGGGAGTTTAGGTTTGTGTTTGGGGTTTATGGTTTT
16186180 TGTTTTAGGG
Statistics
Matches: 182, Mismatches: 24, Indels: 40
0.74 0.10 0.16
Matches are distributed among these distances:
56 54 0.30
57 19 0.10
58 29 0.16
59 71 0.39
60 8 0.04
61 1 0.01
ACGTcount: A:0.14, C:0.03, G:0.37, T:0.46
Consensus pattern (56 bp):
GGGTTTAAGGTTTGCATGGGAGTTTAGGTTTGTGTTTGGGGTTTATGGTTTTGCAT
Found at i:16186073 original size:115 final size:114
Alignment explanation
Indices: 16185898--16186178 Score: 395
Period size: 115 Copynumber: 2.4 Consensus size: 114
16185888 TTTATGTTTA
* * *
16185898 GGGTTTAAGGTTTGCATGGGAGTTTAGGATTTGTGTTTGGGGTTTATGGTTTGCATGGGTGATTA
1 GGGTTTATGGTTTGCATGGG-GTTTAGGA--TGTGTTTGGGGTTTATGGTTTACAAGGGTGATTA
*
16185963 AGGTTTGTATTTTGAGTTTAAGGTTTGTGTTTGGGGTTTAGGATTTGCAT-G
63 AGGTTTGTATTTTGAGTTTAAGGTTTGTGTTTGGAGTTTAGGATTTGCATAG
* *
16186014 GGGCTTTATGGTTTGCATGGAGGTTTAGGATGTGTTTGGGGTTTATGGTTTACAAGGGTGTTTAC
1 GGG-TTTATGGTTTGCATGG-GGTTTAGGATGTGTTTGGGGTTTATGGTTTACAAGGGTGATTAA
* * *
16186079 GGTTTGTATTTTGGGTTTAAGGTTTTTGTTTGGAGTTTAGGGTTTGCATAG
64 GGTTTGTATTTTGAGTTTAAGGTTTGTGTTTGGAGTTTAGGATTTGCATAG
* *
16186130 GGGTTTATGGTTTACATGGGGGTTTAGGGTGTGTTTGGGGTTTA-GGTTT
1 GGGTTTATGGTTTGCAT-GGGGTTTAGGATGTGTTTGGGGTTTATGGTTT
16186179 TTGTTTTAGG
Statistics
Matches: 150, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
114 5 0.03
115 112 0.75
116 9 0.06
117 23 0.15
118 1 0.01
ACGTcount: A:0.14, C:0.03, G:0.37, T:0.46
Consensus pattern (114 bp):
GGGTTTATGGTTTGCATGGGGTTTAGGATGTGTTTGGGGTTTATGGTTTACAAGGGTGATTAAGG
TTTGTATTTTGAGTTTAAGGTTTGTGTTTGGAGTTTAGGATTTGCATAG
Found at i:16186141 original size:19 final size:19
Alignment explanation
Indices: 16185898--16186178 Score: 100
Period size: 19 Copynumber: 14.7 Consensus size: 19
16185888 TTTATGTTTA
*
16185898 GGGTTTAAGGTTTGCA-TG
1 GGGTTTATGGTTTGCATTG
**
16185916 GGAGTTTA-GGATTTGTGTTTG
1 GG-GTTTATGG-TTTG-CATTG
16185937 GGGTTTATGGTTTGCA-TG
1 GGGTTTATGGTTTGCATTG
* * * *
16185955 GGTGATTAAGGTTTGTATTTT
1 GG-GTTTATGGTTTGCA-TTG
* * **
16185976 GAGTTTAAGGTTTGTGTTTG
1 GGGTTTATGGTTTG-CATTG
16185996 GGGTTTA-GGATTTGCA-TG
1 GGGTTTATGG-TTTGCATTG
16186014 GGGCTTTATGGTTTGCA-TG
1 GGG-TTTATGGTTTGCATTG
* *
16186033 GAGGTTTA-GGATGTG-TTTG
1 G-GGTTTATGG-TTTGCATTG
* *
16186052 GGGTTTATGGTTTACA-AG
1 GGGTTTATGGTTTGCATTG
* * *
16186070 GGTGTTTACGGTTTGTATTTT
1 GG-GTTTATGGTTTGCA-TTG
* *
16186091 GGGTTTAAGGTTTTTG-TTTG
1 GGGTTTATGG--TTTGCATTG
* * *
16186111 GAGTTTAGGGTTTGCATAG
1 GGGTTTATGGTTTGCATTG
* *
16186130 GGGTTTATGGTTTACATGG
1 GGGTTTATGGTTTGCATTG
* * *
16186149 GGGTTTAGGGTGTG-TTTG
1 GGGTTTATGGTTTGCATTG
16186167 GGGTTTA-GGTTT
1 GGGTTTATGGTTT
16186179 TTGTTTTAGG
Statistics
Matches: 196, Mismatches: 44, Indels: 47
0.68 0.15 0.16
Matches are distributed among these distances:
17 4 0.02
18 39 0.20
19 86 0.44
20 53 0.27
21 10 0.05
22 4 0.02
ACGTcount: A:0.14, C:0.03, G:0.37, T:0.46
Consensus pattern (19 bp):
GGGTTTATGGTTTGCATTG
Found at i:16186183 original size:19 final size:18
Alignment explanation
Indices: 16185847--16186213 Score: 94
Period size: 20 Copynumber: 18.9 Consensus size: 18
16185837 AGAGTTAGGC
16185847 GTTTTGATTTGGGGTTATAG
1 GTTTTG-TTTGGGGTT-TAG
** *
16185867 GTTTGTGTTTAAGATTTAGG
1 GTTT-TGTTTGGGGTTTA-G
*
16185887 GTTTATGTTTAGGGTTTAAG
1 GTTT-TGTTTGGGGTTT-AG
**
16185907 G-TTTGCATGGGAGTTTAG
1 GTTTTGTTTGGG-GTTTAG
16185925 GATTTGTGTTTGGGGTTTATG
1 G-TTT-TGTTTGGGGTTTA-G
** *
16185946 G-TTTGCATGGGTGATTAAG
1 GTTTTGTTTGGG-G-TTTAG
* * *
16185965 GTTTGTATTTTGAGTTTAAG
1 GTTT-TGTTTGGGGTTT-AG
16185985 GTTTGTGTTTGGGGTTTAG
1 GTTT-TGTTTGGGGTTTAG
* **
16186004 GATTTGCATGGGGCTTTATG
1 GTTTTGTTTGGGG-TTTA-G
**
16186024 G-TTTGCATGGAGGTTTAG
1 GTTTTGTTTGG-GGTTTAG
* *
16186042 GATGTGTTTGGGGTTTATG
1 GTTTTGTTTGGGGTTTA-G
****
16186061 G-TTTACAAGGGTGTTTACG
1 GTTTTGTTTGGG-GTTTA-G
* *
16186080 GTTTGTATTTTGGGTTTAAG
1 GTTT-TGTTTGGGGTTT-AG
*
16186100 GTTTTTGTTTGGAGTTTAG
1 G-TTTTGTTTGGGGTTTAG
* * *
16186119 GGTTTGCATAGGGGTTTATG
1 GTTTTG-TTTGGGGTTTA-G
*** *
16186139 GTTTACATGGGGGTTTAG
1 GTTTTGTTTGGGGTTTAG
* *
16186157 GGTGTGTTTGGGGTTTAG
1 GTTTTGTTTGGGGTTTAG
*
16186175 GTTTTTGTTTTAGGGTTTGAG
1 G-TTTTG-TTTGGGGTTT-AG
* *
16186196 ATTTGTGTTTTGGGTTTA
1 GTTT-TGTTTGGGGTTTA
16186214 TATGGGCATT
Statistics
Matches: 257, Mismatches: 61, Indels: 59
0.68 0.16 0.16
Matches are distributed among these distances:
18 52 0.20
19 77 0.30
20 102 0.40
21 26 0.10
ACGTcount: A:0.14, C:0.02, G:0.35, T:0.48
Consensus pattern (18 bp):
GTTTTGTTTGGGGTTTAG
Found at i:16186653 original size:20 final size:20
Alignment explanation
Indices: 16186628--16186667 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16186618 TTATTAAACA
*
16186628 TATAGAAAACATAGAAATCT
1 TATAGAAAACATAAAAATCT
16186648 TATAGAAAACATAAAAATCT
1 TATAGAAAACATAAAAATCT
16186668 AACTAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.25
Consensus pattern (20 bp):
TATAGAAAACATAAAAATCT
Found at i:16186676 original size:20 final size:20
Alignment explanation
Indices: 16186629--16186678 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16186619 TATTAAACAT
* *
16186629 ATAGAAAACATAGAAATCTT
1 ATAGAAAACATAAAAATCTA
16186649 ATAGAAAACATAAAAATCTA
1 ATAGAAAACATAAAAATCTA
16186669 ACTA-AAAACA
1 A-TAGAAAACA
16186679 CAAGCAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.20
Consensus pattern (20 bp):
ATAGAAAACATAAAAATCTA
Found at i:16187294 original size:21 final size:22
Alignment explanation
Indices: 16187249--16187294 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
16187239 AAACCAAAGA
*
16187249 AAACTAATATAGAAAAGCATAG
1 AAACTAACATAGAAAAGCATAG
16187271 AAACTAACAT-GAAAATGCAT-G
1 AAACTAACATAGAAAA-GCATAG
16187292 AAA
1 AAA
16187295 GGTAGAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.59, C:0.11, G:0.13, T:0.17
Consensus pattern (22 bp):
AAACTAACATAGAAAAGCATAG
Found at i:16189110 original size:22 final size:21
Alignment explanation
Indices: 16189064--16189111 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
16189054 AAACATATAT
*
16189064 ATTATTTTTTTAAATTTGTAC
1 ATTATTTTTTTAAATTTGTAA
16189085 ATTATTTTTATTAAAATTT-TAA
1 ATTATTTTT-TT-AAATTTGTAA
16189107 ATTAT
1 ATTAT
16189112 ATAACATCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 9 0.38
23 6 0.25
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATTTTTTTAAATTTGTAA
Found at i:16191364 original size:32 final size:34
Alignment explanation
Indices: 16191323--16191436 Score: 103
Period size: 35 Copynumber: 3.4 Consensus size: 34
16191313 TTCCTGCTAT
*
16191323 TGAACCTCTTG-A-AACAA-CTGATTTTTTAGATA
1 TGAACCTCTTGCAGAACAAGC-AATTTTTTAGATA
16191355 TGAACCTCTTGCAGTAACAAGCAATTTTTTAGATA
1 TGAACCTCTTGCAG-AACAAGCAATTTTTTAGATA
* * * *
16191390 TGAACCTCCTGCAAGAA-AGAGCTA-TTTTTAGGTG
1 TGAACCTCTTGC-AGAACA-AGCAATTTTTTAGATA
*
16191424 TGAACCTCCTGCA
1 TGAACCTCTTGCA
16191437 AGGATACTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
32 11 0.15
33 2 0.03
34 21 0.30
35 34 0.48
36 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (34 bp):
TGAACCTCTTGCAGAACAAGCAATTTTTTAGATA
Found at i:16198896 original size:3 final size:3
Alignment explanation
Indices: 16198888--16198914 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16198878 ATAAACAAAT
16198888 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
16198915 CTGCACTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16200671 original size:16 final size:17
Alignment explanation
Indices: 16200650--16200684 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16200640 ATTATTTTAA
16200650 TTCGATT-TAATCAATT
1 TTCGATTGTAATCAATT
*
16200666 TTCGATTGTAATCGATT
1 TTCGATTGTAATCAATT
16200683 TT
1 TT
16200685 AAGATCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (17 bp):
TTCGATTGTAATCAATT
Found at i:16202669 original size:29 final size:30
Alignment explanation
Indices: 16202629--16202693 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
16202619 TTATATTTTC
*
16202629 ATTATTTGAATATAATTTTATT-TTTATTT
1 ATTATTTGAATATAATTTAATTATTTATTT
*
16202658 ATTATTTTAATATAATTTAATTATTTATTT
1 ATTATTTGAATATAATTTAATTATTTATTT
*
16202688 TTTATT
1 ATTATT
16202694 GTTTGGATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (30 bp):
ATTATTTGAATATAATTTAATTATTTATTT
Found at i:16202704 original size:33 final size:31
Alignment explanation
Indices: 16202619--16202708 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 31
16202609 TATTACTTTA
* *
16202619 TTATATTTTCATTATTTGAATATAATTTTATTT
1 TTAT-TTTTTATT-TTTGAATATAATTTAATTT
*
16202652 TTATTTATTA-TTTT-AATATAATTTAATTAT
1 TTATTTTTTATTTTTGAATATAATTTAATT-T
*
16202682 TTATTTTTTATTGTTTGGATATAATTT
1 TTATTTTTTATT-TTTGAATATAATTT
16202709 GATCACTTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 13 0.27
30 13 0.27
31 2 0.04
32 7 0.15
33 13 0.27
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (31 bp):
TTATTTTTTATTTTTGAATATAATTTAATTT
Found at i:16205980 original size:20 final size:19
Alignment explanation
Indices: 16205947--16205984 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
16205937 AATTTTTAAT
16205947 TATTTATTTAATTTTATATC
1 TATTTATTTAA-TTTATATC
16205967 TATTTA-TTATATTTATAT
1 TATTTATTTA-ATTTATAT
16205985 TAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTATTTAATTTATATC
Found at i:16208144 original size:2 final size:2
Alignment explanation
Indices: 16208137--16208167 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16208127 TATAAAAATA
16208137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16208168 ACAAATGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16221070 original size:60 final size:61
Alignment explanation
Indices: 16220996--16221131 Score: 138
Period size: 60 Copynumber: 2.3 Consensus size: 61
16220986 AAAAATTTCT
* *
16220996 AAAAATACTTAAAAAATTCTAAA-AACCCTAAAATGT-TTTTAAAAATTAT-AAAAAAGTTAA
1 AAAAATTC-TAAAAAATTCTAAACAACCCTAAAAT-TATTATAAAAATTATAAAAAAAGTTAA
* ** * *
16221056 ATAAAATTCT-AAAAATTTTAAACAATTCTAAAATTATTATAAAAATTTTAAAAAAAGTTCA
1 A-AAAATTCTAAAAAATTCTAAACAACCCTAAAATTATTATAAAAATTATAAAAAAAGTTAA
*
16221117 AAGAATTC-AAAAAAT
1 AAAAATTCTAAAAAAT
16221132 ATTTTTTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
59 12 0.19
60 34 0.54
61 17 0.27
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (61 bp):
AAAAATTCTAAAAAATTCTAAACAACCCTAAAATTATTATAAAAATTATAAAAAAAGTTAA
Found at i:16221076 original size:21 final size:20
Alignment explanation
Indices: 16221036--16221109 Score: 62
Period size: 21 Copynumber: 3.7 Consensus size: 20
16221026 AAATGTTTTT
* **
16221036 AAAAATTATAAAAAAGTTAA
1 AAAAATTCTAAAAATTTTAA
16221056 ATAAAATTCTAAAAATTTT-A
1 A-AAAATTCTAAAAATTTTAA
* *
16221076 AACAATTCT-AAAATTATTAT
1 AAAAATTCTAAAAATT-TTAA
*
16221096 AAAAATTTTAAAAA
1 AAAAATTCTAAAAA
16221110 AAGTTCAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 6 0.14
19 9 0.21
20 10 0.23
21 18 0.42
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (20 bp):
AAAAATTCTAAAAATTTTAA
Found at i:16221212 original size:10 final size:10
Alignment explanation
Indices: 16221199--16221265 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
16221189 TTTTAAATTC
16221199 AAAAAATTTT
1 AAAAAATTTT
16221209 -AAAAATTTGT
1 AAAAAATTT-T
16221219 AAAAAATTTT
1 AAAAAATTTT
* * *
16221229 AAGAACTTTAA
1 AAAAAATTT-T
16221240 AAAAAATTTT
1 AAAAAATTTT
*
16221250 --AAAATTTA
1 AAAAAATTTT
16221258 AAAAAATT
1 AAAAAATT
16221266 GATAATAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
8 7 0.16
9 8 0.18
10 15 0.33
11 15 0.33
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:16221243 original size:21 final size:19
Alignment explanation
Indices: 16221199--16221263 Score: 85
Period size: 21 Copynumber: 3.3 Consensus size: 19
16221189 TTTTAAATTC
**
16221199 AAAAAATTTTAAAAATTTGT
1 AAAAAATTTT-AAAATTTAA
16221219 AAAAAATTTTAAGAACTTTAA
1 AAAAAATTTTAA-AA-TTTAA
16221240 AAAAAATTTTAAAATTTAA
1 AAAAAATTTTAAAATTTAA
16221259 AAAAA
1 AAAAA
16221264 TTGATAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
19 12 0.29
20 14 0.34
21 15 0.37
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAAAATTTTAAAATTTAA
Found at i:16221253 original size:9 final size:9
Alignment explanation
Indices: 16221200--16221242 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
16221190 TTTAAATTCA
16221200 AAAAATTTT
1 AAAAATTTT
16221209 AAAAATTTGT
1 AAAAATTT-T
16221219 AAAAAATTTT
1 -AAAAATTTT
* *
16221229 AAGAACTTT
1 AAAAATTTT
16221238 AAAAA
1 AAAAA
16221243 AAATTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 19 0.66
10 2 0.07
11 8 0.28
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (9 bp):
AAAAATTTT
Found at i:16221403 original size:10 final size:10
Alignment explanation
Indices: 16221388--16221424 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
16221378 TTTCAAACAC
16221388 TTAAAAATTT
1 TTAAAAATTT
*
16221398 TTAAAAATTC
1 TTAAAAATTT
*
16221408 TAAAAAATTT
1 TTAAAAATTT
16221418 TTAAAAA
1 TTAAAAA
16221425 CTAAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:16221413 original size:20 final size:18
Alignment explanation
Indices: 16221376--16221432 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
16221366 GAGCAAAATT
* *
16221376 TTTTTCAAACACTTAAAAA
1 TTTTT-AAAAACTAAAAAA
16221395 TTTTTAAAAATTCTAAAAAA
1 TTTTTAAAAA--CTAAAAAA
16221415 TTTTTAAAAACTAAAAAA
1 TTTTTAAAAACTAAAAAA
16221433 ATATGTGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 12 0.35
19 5 0.15
20 17 0.50
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTTTAAAAACTAAAAAA
Found at i:16221572 original size:17 final size:17
Alignment explanation
Indices: 16221552--16221586 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16221542 AAATTTTTTA
16221552 AAAATTAAAAAAAAATT
1 AAAATTAAAAAAAAATT
**
16221569 AAAATTTTAAAAAAATT
1 AAAATTAAAAAAAAATT
16221586 A
1 A
16221587 TTTTTCTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTAAAAAAAAATT
Found at i:16221849 original size:10 final size:10
Alignment explanation
Indices: 16221836--16222142 Score: 116
Period size: 10 Copynumber: 31.0 Consensus size: 10
16221826 ATTCTTTTTG
16221836 AATTTTTTAA
1 AATTTTTTAA
*
16221846 AATTTTCTAA
1 AATTTTTTAA
* *
16221856 AATTTTCTAG
1 AATTTTTTAA
* *
16221866 AA-CTTTTAG
1 AATTTTTTAA
*
16221875 AATTCTTT--
1 AATTTTTTAA
16221883 AATTTTTTAA
1 AATTTTTTAA
*
16221893 AA-TTTTAAA
1 AATTTTTTAA
* *
16221902 AATATTTTAG
1 AATTTTTTAA
*
16221912 AACTTTTTAA
1 AATTTTTTAA
16221922 AACGTTTCTTTTAA
1 AA---TT-TTTTAA
16221936 AATTTTTT--
1 AATTTTTTAA
*
16221944 -ATATTTTAA
1 AATTTTTTAA
16221953 AATTTTTATAA
1 AATTTTT-TAA
*
16221964 AAGTTTTTAA
1 AATTTTTTAA
*
16221974 AA-ATTTTAA
1 AATTTTTTAA
* *
16221983 AGTTTTTCAA
1 AATTTTTTAA
16221993 AA-TTTTTAA
1 AATTTTTTAA
**
16222002 AATTTTTTTG
1 AATTTTTTAA
* *
16222012 AACTTTCTAA
1 AATTTTTTAA
**
16222022 AATTTTTTGG
1 AATTTTTTAA
*
16222032 AATTATTTTAG
1 AATT-TTTTAA
* *
16222043 CA-TGTTTAGA
1 AATTTTTTA-A
* *
16222053 ACTTTTTTAG
1 AATTTTTTAA
*
16222063 AA-TTATT-A
1 AATTTTTTAA
*
16222071 AATTTTTAAAA
1 AATTTTT-TAA
** * *
16222082 AAAATTTCAG
1 AATTTTTTAA
16222092 AATTTTTTAAA
1 AATTTTTT-AA
** *
16222103 AAAATTTTAG
1 AATTTTTTAA
*
16222113 AATTTTTTAG
1 AATTTTTTAA
*
16222123 AATTTATTAA
1 AATTTTTTAA
16222133 AATTTTTTAA
1 AATTTTTTAA
16222143 TTTTCTATTT
Statistics
Matches: 213, Mismatches: 63, Indels: 42
0.67 0.20 0.13
Matches are distributed among these distances:
7 6 0.03
8 9 0.04
9 41 0.19
10 113 0.53
11 35 0.16
13 1 0.00
14 8 0.04
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.52
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:16221851 original size:9 final size:9
Alignment explanation
Indices: 16221839--16222008 Score: 110
Period size: 9 Copynumber: 17.6 Consensus size: 9
16221829 CTTTTTGAAT
16221839 TTTTTAAAA
1 TTTTTAAAA
16221848 TTTTCTAAAA
1 TTTT-TAAAA
*
16221858 TTTTCTAGAA
1 TTTT-TAAAA
* *
16221868 CTTTTAGAA
1 TTTTTAAAA
*
16221877 TTCTTT-AAT
1 TT-TTTAAAA
16221886 TTTTTAAAA
1 TTTTTAAAA
*
16221895 TTTTAAAAA
1 TTTTTAAAA
*
16221904 TATTTTAGAAC
1 T-TTTTA-AAA
16221915 TTTTTAAAA
1 TTTTTAAAA
16221924 CGTTTCTTTTAAAA
1 ----T-TTTTAAAA
* *
16221938 TTTTTTATA
1 TTTTTAAAA
16221947 -TTTTAAAA
1 TTTTTAAAA
16221955 TTTTTATAAAA
1 -TTTT-TAAAA
16221966 GTTTTTAAAA
1 -TTTTTAAAA
* *
16221976 ATTTTAAAG
1 TTTTTAAAA
16221985 TTTTTCAAAA
1 TTTTT-AAAA
16221995 TTTTTAAAA
1 TTTTTAAAA
16222004 TTTTT
1 TTTTT
16222009 TTGAACTTTC
Statistics
Matches: 128, Mismatches: 19, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
8 9 0.07
9 52 0.41
10 46 0.36
11 12 0.09
13 1 0.01
14 8 0.06
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:16221882 original size:11 final size:10
Alignment explanation
Indices: 16221830--16222253 Score: 80
Period size: 10 Copynumber: 43.3 Consensus size: 10
16221820 CCTTTAATTC
16221830 TTTTT-GAAT
1 TTTTTAGAAT
*
16221839 TTTTTAAAAT
1 TTTTTAGAAT
* *
16221849 TTTCTAAAAT
1 TTTTTAGAAT
*
16221859 TTTCTAGAA-
1 TTTTTAGAAT
*
16221868 CTTTTAGAAT
1 TTTTTAGAAT
*
16221878 TCTTT--AAT
1 TTTTTAGAAT
*
16221886 TTTTTA-AAA
1 TTTTTAGAAT
* *
16221895 TTTTAAAAAT
1 TTTTTAGAAT
* *
16221905 ATTTTAGAAC
1 TTTTTAGAAT
*
16221915 TTTTTAAAACGTT
1 TTTTTAGAA---T
*
16221928 TCTTTTAAAAT
1 T-TTTTAGAAT
16221939 TTTTT---AT
1 TTTTTAGAAT
* *
16221946 ATTTTAAAAT
1 TTTTTAGAAT
* *
16221956 TTTTATAAAAG
1 TTTT-TAGAAT
*
16221967 TTTTTA-AAA
1 TTTTTAGAAT
*
16221976 ATTTTA-AAGT
1 TTTTTAGAA-T
* *
16221986 TTTTCA-AAA
1 TTTTTAGAAT
*
16221995 TTTTTAAAAT
1 TTTTTAGAAT
* *
16222005 TTTTTTGAAC
1 TTTTTAGAAT
* *
16222015 TTTCTAAAAT
1 TTTTTAGAAT
*
16222025 TTTTTGGAAT
1 TTTTTAGAAT
*
16222035 TATTTTAGCA-
1 T-TTTTAGAAT
*
16222045 TGTTTAGAACT
1 TTTTTAGAA-T
16222056 TTTTTAGAA-
1 TTTTTAGAAT
*
16222065 TTATTA-AAT
1 TTTTTAGAAT
* * *
16222074 TTTTAAAAAAA
1 TTTT-TAGAAT
* *
16222085 ATTTCAGAAT
1 TTTTTAGAAT
* *
16222095 TTTTTAAAAAA
1 TTTTT-AGAAT
*
16222106 ATTTTAGAAT
1 TTTTTAGAAT
16222116 TTTTTAGAAT
1 TTTTTAGAAT
* *
16222126 TTATTAAAAT
1 TTTTTAGAAT
16222136 TTTTT--AAT
1 TTTTTAGAAT
* **
16222144 TTTCTA-TTT
1 TTTTTAGAAT
**
16222153 TTTTTTTAA-
1 TTTTTAGAAT
* *
16222162 CTTTT-GATTT
1 TTTTTAGA-AT
* *
16222172 TTTTTTGAAA
1 TTTTTAGAAT
*
16222182 TTTTTA-TAT
1 TTTTTAGAAT
*
16222191 TTTTTATAA-
1 TTTTTAGAAT
16222200 TTTTTAGAAT
1 TTTTTAGAAT
* *
16222210 TTTTGAAAAT
1 TTTTTAGAAT
* *
16222220 TTGTTGGAATT
1 TTTTTAGAA-T
*
16222231 TTTTTTGAAT
1 TTTTTAGAAT
*
16222241 TTTTTTGAAT
1 TTTTTAGAAT
16222251 TTT
1 TTT
16222254 CTTTTAAAAA
Statistics
Matches: 297, Mismatches: 89, Indels: 57
0.67 0.20 0.13
Matches are distributed among these distances:
7 6 0.02
8 17 0.06
9 71 0.24
10 147 0.49
11 47 0.16
13 1 0.00
14 8 0.03
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.57
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:16221981 original size:61 final size:61
Alignment explanation
Indices: 16221868--16221983 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 61
16221858 TTTTCTAGAA
* * **
16221868 CTTTTAGAATTCTTTAATTTTTTAAAATTTTAAAAATATTTTAGAACTTTTTAAAACGTTT
1 CTTTTAAAATTCTTTAATATTTTAAAATTTTAAAAATATTTTAGAAAATTTTAAAACGTTT
*
16221929 CTTTTAAAATT-TTTTATATTTTAAAATTTTTATAAAAGT-TTTTA-AAAATTTTAAA
1 CTTTTAAAATTCTTTAATATTTTAAAA-TTTTA-AAAA-TATTTTAGAAAATTTTAAA
16221984 GTTTTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
60 13 0.28
61 24 0.51
62 9 0.19
63 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.53
Consensus pattern (61 bp):
CTTTTAAAATTCTTTAATATTTTAAAATTTTAAAAATATTTTAGAAAATTTTAAAACGTTT
Found at i:16221986 original size:18 final size:19
Alignment explanation
Indices: 16221963--16222008 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
16221953 AATTTTTATA
16221963 AAAGTTTTT-AAAAATTTT
1 AAAGTTTTTCAAAAATTTT
*
16221981 AAAGTTTTTCAAAATTTTT
1 AAAGTTTTTCAAAAATTTT
*
16222000 AAAATTTTT
1 AAAGTTTTT
16222009 TTGAACTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
AAAGTTTTTCAAAAATTTT
Found at i:16222120 original size:21 final size:21
Alignment explanation
Indices: 16222063--16222121 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
16222053 ACTTTTTTAG
*
16222063 AATTATTA-AATTTTTAAAAAA
1 AATT-TTAGAATTTTTTAAAAA
*
16222084 AATTTCAGAATTTTTTAAAAA
1 AATTTTAGAATTTTTTAAAAA
16222105 AATTTTAGAATTTTTTA
1 AATTTTAGAATTTTTTA
16222122 GAATTTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (21 bp):
AATTTTAGAATTTTTTAAAAA
Found at i:16222156 original size:18 final size:17
Alignment explanation
Indices: 16222135--16222205 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 17
16222125 TTTATTAAAA
16222135 TTTTTTAATTTTCTATTTT
1 TTTTTTAATTTT-TA-TTT
*
16222154 TTTTTTAACTTTTGATTT
1 TTTTTTAA-TTTTTATTT
16222172 TTTTTTGAAATTTTTATATT
1 TTTTTT--AATTTTTAT-TT
*
16222192 TTTTATAATTTTTA
1 TTTTTTAATTTTTA
16222206 GAATTTTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 17 0.38
19 15 0.33
20 13 0.29
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTTAATTTTTATTT
Found at i:16222157 original size:19 final size:18
Alignment explanation
Indices: 16222135--16222205 Score: 79
Period size: 19 Copynumber: 3.8 Consensus size: 18
16222125 TTTATTAAAA
16222135 TTTTTTAATTTTCTATTTT
1 TTTTTTAATTTT-TATTTT
*
16222154 TTTTTTAACTTTTGATTTT
1 TTTTTTAA-TTTTTATTTT
* *
16222173 TTTTTGAAATTTTTATATT
1 TTTTT-TAATTTTTATTTT
*
16222192 TTTTATAATTTTTA
1 TTTTTTAATTTTTA
16222206 GAATTTTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 8 0.18
19 30 0.68
20 6 0.14
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTTTAATTTTTATTTT
Found at i:16222212 original size:18 final size:19
Alignment explanation
Indices: 16222173--16222233 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
16222163 TTTTGATTTT
*
16222173 TTTTTG-AAATTTTTA-TA
1 TTTTTGAAAATTTTTAGAA
* *
16222190 TTTTTTATAATTTTTAGAA
1 TTTTTGAAAATTTTTAGAA
*
16222209 TTTTTGAAAATTTGTTGGAA
1 TTTTTGAAAATTT-TTAGAA
16222229 TTTTT
1 TTTTT
16222234 TTTGAATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
17 5 0.14
18 8 0.23
19 12 0.34
20 10 0.29
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTTTGAAAATTTTTAGAA
Found at i:16222241 original size:21 final size:22
Alignment explanation
Indices: 16222217--16222258 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16222207 AATTTTTGAA
16222217 AATTTGTTGGAATTTT-TTTTG
1 AATTTGTTGGAATTTTCTTTTG
* *
16222238 AATTTTTTTGAATTTTCTTTT
1 AATTTGTTGGAATTTTCTTTT
16222259 AAAAATGACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (22 bp):
AATTTGTTGGAATTTTCTTTTG
Found at i:16227893 original size:17 final size:17
Alignment explanation
Indices: 16227873--16227905 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16227863 ATTTATATTC
16227873 AAATAAATTTTAATTTT
1 AAATAAATTTTAATTTT
*
16227890 AAATAAATTTTTATTT
1 AAATAAATTTTAATTT
16227906 ATATTAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATAAATTTTAATTTT
Found at i:16228007 original size:33 final size:33
Alignment explanation
Indices: 16227917--16228007 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 33
16227907 TATTAAGAGC
* * * *
16227917 TTATATAAGTATAAATTAAAAATT--AATAACT
1 TTATTTAAATATAAATTAAAAATTAAAAAAAAT
* * *
16227948 TT-TTT-AACATAAATTAAAAGTAAAAAAAAAT
1 TTATTTAAATATAAATTAAAAATTAAAAAAAAT
16227979 TTATTTAAATATAAATTAAAAATTAAAAA
1 TTATTTAAATATAAATTAAAAATTAAAAA
16228008 TTTATTTAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
29 13 0.28
30 2 0.04
31 9 0.20
32 3 0.07
33 19 0.41
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (33 bp):
TTATTTAAATATAAATTAAAAATTAAAAAAAAT
Found at i:16228053 original size:29 final size:28
Alignment explanation
Indices: 16227973--16228054 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
16227963 AAAAGTAAAA
16227973 AAAAATTTATTTAAATATAAATTAAAAATT
1 AAAAATTTATTTAAATA-AAA-TAAAAATT
* ** *
16228003 AAAAATTTATTTAGATGTAATAAAGATAT
1 AAAAATTTATTTAAATAAAATAAAAAT-T
*
16228032 AAATATTTATTTAAATAAAATAA
1 AAAAATTTATTTAAATAAAATAA
16228055 TAAAGTTTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
28 6 0.14
29 22 0.51
30 15 0.35
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (28 bp):
AAAAATTTATTTAAATAAAATAAAAATT
Found at i:16229253 original size:28 final size:28
Alignment explanation
Indices: 16229213--16229267 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
16229203 ATTCAAAGTA
* *
16229213 AGAGTTCAGCATTATACTAATAATTTAC
1 AGAGTTCAACATTATACCAATAATTTAC
16229241 AGAGTTCAACATTATACCAATAATTTA
1 AGAGTTCAACATTATACCAATAATTTA
16229268 TACTGTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (28 bp):
AGAGTTCAACATTATACCAATAATTTAC
Found at i:16229340 original size:19 final size:18
Alignment explanation
Indices: 16229305--16229340 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
16229295 ATTTGATGCT
16229305 AAATTATAAATATAAAAA
1 AAATTATAAATATAAAAA
16229323 AAATGTAT-AATATAAAAA
1 AAAT-TATAAATATAAAAA
16229341 TCAAATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATTATAAATATAAAAA
Found at i:16229806 original size:23 final size:22
Alignment explanation
Indices: 16229763--16229806 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
16229753 TGTAGACGGT
*
16229763 TTTAAAAAAATATTATGTTTTC
1 TTTAAAAAAATATTATATTTTC
* *
16229785 TTTAATAAATATATTTTATTTT
1 TTTAA-AAAAATATTATATTTT
16229807 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTAAAAAAATATTATATTTTC
Found at i:16231233 original size:7 final size:6
Alignment explanation
Indices: 16231210--16231239 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
16231200 TAAAATGATT
16231210 AAATTA AAATTA AAATTAA AAATTA AAATT
1 AAATTA AAATTA AAATT-A AAATTA AAATT
16231240 GTTAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:16231251 original size:14 final size:13
Alignment explanation
Indices: 16231210--16231239 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16231200 TAAAATGATT
16231210 AAATT-AAAATTA
1 AAATTAAAAATTA
16231222 AAATTAAAAATTA
1 AAATTAAAAATTA
16231235 AAATT
1 AAATT
16231240 GTTAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATTAAAAATTA
Found at i:16234795 original size:20 final size:20
Alignment explanation
Indices: 16234772--16234821 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
16234762 ATTTATAAAA
16234772 TAAAATAATT-ATTTTATAT
1 TAAAATAATTAATTTTATAT
*
16234791 TTAAATATATTAAATTTTATAT
1 TAAAATA-ATT-AATTTTATAT
16234813 TAAAATAAT
1 TAAAATAAT
16234822 ATATAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
21 2 0.08
22 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATAATTAATTTTATAT
Found at i:16234810 original size:22 final size:24
Alignment explanation
Indices: 16234782--16234828 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
16234772 TAAAATAATT
*
16234782 ATTTTATATTTAAAT-ATAT-TAA
1 ATTTTATATTAAAATAATATATAA
16234804 ATTTTATATTAAAATAATATATAA
1 ATTTTATATTAAAATAATATATAA
16234828 A
1 A
16234829 AGAAAGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 4 0.18
24 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTTATATTAAAATAATATATAA
Found at i:16241462 original size:34 final size:34
Alignment explanation
Indices: 16241404--16241468 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
16241394 TTTAGTAAGT
* * *
16241404 TACCGAAAATTTATTTTTGAAAACTTTTTCATTG
1 TACCAAAAATTTATTTTAGAAAACTTCTTCATTG
16241438 TACCAAAAATTTATTTTCAG-AAACTTCTTCA
1 TACCAAAAATTTATTTT-AGAAAACTTCTTCA
16241469 CTATATCGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.43
Consensus pattern (34 bp):
TACCAAAAATTTATTTTAGAAAACTTCTTCATTG
Found at i:16242818 original size:15 final size:15
Alignment explanation
Indices: 16242774--16242820 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
16242764 TACAATATTC
*
16242774 ATATTAAATTAAT-T
1 ATATTAAATTACTAT
*
16242788 ATATAAAACTTAACTAT
1 ATATTAAA-TT-ACTAT
16242805 ATATTAAATTACTAT
1 ATATTAAATTACTAT
16242820 A
1 A
16242821 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.26
15 8 0.30
16 4 0.15
17 8 0.30
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATTAAATTACTAT
Found at i:16243083 original size:3 final size:3
Alignment explanation
Indices: 16243075--16243109 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16243065 AAATGTATTT
16243075 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
16243110 TTTTAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16243720 original size:4 final size:4
Alignment explanation
Indices: 16243711--16243780 Score: 59
Period size: 4 Copynumber: 16.5 Consensus size: 4
16243701 ATATTTATAA
* * *
16243711 AATT AATT AAGT AATT AATT AATA AATCAT AATT AAATT ACAAT AATT
1 AATT AATT AATT AATT AATT AATT AAT--T AATT -AATT A-ATT AATT
* *
16243759 AAAT AATT AATT AATA AATT AA
1 AATT AATT AATT AATT AATT AA
16243781 AACATAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
4 42 0.81
5 7 0.13
6 3 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (4 bp):
AATT
Found at i:16244805 original size:8 final size:8
Alignment explanation
Indices: 16244781--16244922 Score: 64
Period size: 8 Copynumber: 17.6 Consensus size: 8
16244771 TGTTATTAAC
16244781 AATATAAT
1 AATATAAT
16244789 AATAT--T
1 AATATAAT
16244795 AATATAAT
1 AATATAAT
*
16244803 AATAT-TT
1 AATATAAT
* * *
16244810 TATTTATT
1 AATATAAT
*
16244818 AATATATT
1 AATATAAT
* *
16244826 ATTTTAAT
1 AATATAAT
*
16244834 -ATATTAT
1 AATATAAT
16244841 AATATAAT
1 AATATAAT
*
16244849 -TTATTAATAT
1 AATA-T-A-AT
16244859 AATATAAT
1 AATATAAT
16244867 AATATAAT
1 AATATAAT
16244875 ACATTATTAATT
1 A-A-TA-TAA-T
16244887 AATATAAT
1 AATATAAT
*
16244895 -AT-TATT
1 AATATAAT
*
16244901 TATATAAT
1 AATATAAT
16244909 AAATATAAT
1 -AATATAAT
16244918 AATAT
1 AATAT
16244923 TTATTAATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 30
0.68 0.11 0.20
Matches are distributed among these distances:
6 9 0.09
7 14 0.14
8 51 0.50
9 13 0.13
10 7 0.07
11 6 0.06
12 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.49
Consensus pattern (8 bp):
AATATAAT
Found at i:16244818 original size:23 final size:23
Alignment explanation
Indices: 16244791--16244974 Score: 85
Period size: 23 Copynumber: 7.7 Consensus size: 23
16244781 AATATAATAA
16244791 TATTAATATAATAATATTTTATT
1 TATTAATATAATAATATTTTATT
*
16244814 TATTAATAT-AT--TATTTTA-A
1 TATTAATATAATAATATTTTATT
* *
16244833 TA-TATTATAAT-ATAATTTATT
1 TATTAATATAATAATATTTTATT
*
16244854 AATATAATATAATAATATAATACATTATT
1 TAT-TAATATAATAATAT--T---TTATT
* *
16244883 AATTAATATAATATTA-TTTATAT
1 TATTAATATAATAATATTTTAT-T
* *
16244906 AATAAATATAATAATATTTATTAATAT
1 TATTAATATAATAATA-TT-TT-AT-T
* * *
16244933 GATATTTATATAATAAAAATATTATT
1 --TATTAATATAAT-AATATTTTATT
16244959 TTATTAATATAATAAT
1 -TATTAATATAATAAT
16244975 TATAACATCA
Statistics
Matches: 124, Mismatches: 18, Indels: 37
0.69 0.10 0.21
Matches are distributed among these distances:
18 5 0.04
19 4 0.03
20 13 0.10
21 1 0.01
22 6 0.05
23 32 0.26
24 5 0.04
25 13 0.10
26 4 0.03
27 6 0.05
28 14 0.11
29 18 0.15
30 3 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (23 bp):
TATTAATATAATAATATTTTATT
Found at i:16244830 original size:20 final size:22
Alignment explanation
Indices: 16244791--16244937 Score: 90
Period size: 23 Copynumber: 6.6 Consensus size: 22
16244781 AATATAATAA
16244791 TATTAATATAATAATATTTTATT
1 TATTAATATAAT-ATATTTTATT
*
16244814 TATTAATAT-AT-TATTTTA-A
1 TATTAATATAATATATTTTATT
* *
16244833 TA-TATTATAATATAATTTATT
1 TATTAATATAATATATTTTATT
* ** *
16244854 AATATAATATAATAATATAATACAT
1 TAT-TAATATAAT-ATATTTTA-TT
*
16244879 TATTAAT-TAATATAATATTATT
1 TATTAATATAATAT-ATTTTATT
**
16244901 TATATAATA-AATATAATAATATT
1 TAT-TAATATAATAT-ATTTTATT
*
16244924 TATTAATATGATAT
1 TATTAATATAATAT
16244938 TTATATAATA
Statistics
Matches: 98, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
18 5 0.05
19 4 0.04
20 13 0.13
21 1 0.01
22 13 0.13
23 50 0.51
24 9 0.09
25 3 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (22 bp):
TATTAATATAATATATTTTATT
Found at i:16244833 original size:36 final size:35
Alignment explanation
Indices: 16244781--16244972 Score: 142
Period size: 36 Copynumber: 5.3 Consensus size: 35
16244771 TGTTATTAAC
*
16244781 AATATAATAATATTAATATAATAATATTTTATTTATT
1 AATATAAT-ATTTTAATATAATAATA-TTTATTTATT
* *
16244818 AATATATTATTTTAATATATTATAATA-TAATTTATT
1 AATATAATATTTTAATATA--ATAATATTTATTTATT
** * *
16244854 AATATAATATAATAATATAAT-ACA-TTATTAATT
1 AATATAATATTTTAATATAATAATATTTATTTATT
*
16244887 AATATAATATTATTTATATAATAAATATAATAATATTTATT
1 AATATAATATT-TTAATATAAT-AATAT--T--TATTTATT
* *
16244928 AATATGATA-TTT-ATATAATAAAAATATTATTTTATT
1 AATATAATATTTTAATATAAT-AATAT-TTA-TTTATT
16244964 AATATAATA
1 AATATAATA
16244973 ATTATAACAT
Statistics
Matches: 127, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
33 19 0.15
34 10 0.08
35 2 0.02
36 50 0.39
37 9 0.07
38 18 0.14
39 3 0.02
40 1 0.01
41 15 0.12
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
AATATAATATTTTAATATAATAATATTTATTTATT
Done.