Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 87 of 93
Found at i:14087871 original size:18 final size:18
Alignment explanation
Indices: 14087836--14087873 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14087826 TTTAATATAA
*
14087836 TTTATTGATATTTATTAT
1 TTTATTGATACTTATTAT
14087854 TTTATTGAATACTT-TTAT
1 TTTATTG-ATACTTATTAT
14087872 TT
1 TT
14087874 AATTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTATTGATACTTATTAT
Found at i:14091742 original size:815 final size:804
Alignment explanation
Indices: 14089811--14092230 Score: 3161
Period size: 815 Copynumber: 3.0 Consensus size: 804
14089801 TTAATATTTT
* * * *
14089811 ATCAAGTGAAATCATATTTAATGAAATATACATGTATCAATCAAATATAAATTCATAAGATATTT
1 ATCAAATGAAATCATATTTAATGAAATATAAATGTATCAATCAAATATAAATTAATAAAATATTT
* * * * *
14089876 TATTTCATTAACTTAATTATGGAGAATTAATTTGAGATATTTTCTTTATATATTTAC---GTATA
66 TATTCCATTAATTTAATTATAGAGAATTAATTTGATATATTTACTTTATATATTTACTATGTATA
*
14089938 TCATGAAATACATAAATTACTCAAAT-AGATACTATATTTAATCAAATATAAATGTATCAAATAA
131 TCA-GAAATACATTAATTACTCAAATGA-ATACTATATTTAATCAAATATAAATGTATCAAATAA
* * * * *
14090002 TTAATTAGATAATTAATTATTTTATAACTT-AAATTATAGTA--T-TT-ATTTATTTATTATATA
194 TTAATTAGAGAATCAACTA-TTTATAA-TTGTAATTATAGTATTTATTAATTTATTAATTATATA
* * *
14090062 TTGATTGATTGATTTTGTCAAATTAAGCAATTTTTAAAATTTTAATACTTTTAATATAAATTGAA
257 TTGATTGATTTAATTTGTCAAATTAA-TAATTTTTAAAATTTTAATACTTTTAATATAAATTGAA
*
14090127 TTGAGAGTGATTTAAAATCAATAATAAAAATATAAATATAATCAATTTAATTTTTTTTAATTATA
321 TTGAGAGTGATTTAAAATCAATAATAAAAATATAAATATAATCAATTT-AGTTTTTTTAATTATA
* * * *
14090192 ATTGCTTTTATATATTTACACATAAAATAC-GTCAATTACTGAATGCTATATTTAATCAAATATA
385 TTTGC-TTTATATATTTACACATAAAATACACT-AATTATTG-ATACTATATTTAATCAAATATA
* * *
14090256 AATGTATTAAATAATTGATTAGATAATTAACAATTTTATAATTGTAATTGTAGTATTTATTAATT
447 AATGTATTAAATAATTGATTA-AAAATAAACTATTTTATAATTGTAATTGTAGTATTTATTAATT
* * *
14090321 TATTAATTATATATTGATTAATTTAAAATTT-T-AAATTAATAAA-TTATTAAAATTTTATTACT
511 TATTAATTATATATTGATTAATTT--AATTTGTCAAATAAAAAAATTTA-TAAAATTTTAATACT
14090383 TTTAATATGAATTGAATTGAGAGTGATTTAAGATTAATAATAAAAACATAAATATAATCAAATTA
573 TTTAATATGAATTGAATTGAGAGTGATTTAAGATTAATAATAAAAACATAAATATAAT-AAATTA
* *
14090448 GTTTTTTGAATTATTTTTAAATTAAAAATGTATAAAATAAAATAAAATGCATTTATTAGATGTT-
637 GTTTTTTAAATTATTTTTAAATTAAAAATGTATAAAATAAAATAAAATGTATTTATTAGAT-TTC
* *
14090512 ACGTGATGATTTTTAAGA-TCATCTACATA-TCAACATTTTAAG----C-CGT-CGATTTTTTTC
701 ACGTGATGATTTTTAAGACT-AT-T-CATATTCAACATTTTAAGCTTCCACATAAGATTTTTTTC
** *
14090569 ATTTTTACCAAATGCTTTGGTTTTTATATATTTATATAAGAAA
763 ATTTTTACCAAAAACTTT-GCTTTTATATATTTATATAAGAAA
*
14090612 ATCAAATGAAAATCATATTTAATGAAATATAAATGTATTAATCAAATATAAATTAATAAAATATT
1 ATCAAATG-AAATCATATTTAATGAAATATAAATGTATCAATCAAATATAAATTAATAAAATATT
* *
14090677 TTATTCCATTAATTTAA-TA-ACGAATAATTAATTTGATATATTTGCTTTATATA-TT--TAT-T
65 TTATTCCATTAATTTAATTATA-G-AGAATTAATTTGATATATTTACTTTATATATTTACTATGT
* * * *
14090736 -TAT--GAAATATATTAATTACTCAAATTG-ATATTATATTTAATCAATTTTAAATGTATCAAAT
128 ATATCAGAAATACATTAATTACTCAAA-TGAATACTATATTTAATCAAATATAAATGTATCAAAT
*
14090797 AATTAATTAGAGAATCAACTATTCTATAATTGTAATTGTAGTATTTATTAATTTATTAATTATAT
192 AATTAATTAGAGAATCAACTATT-TATAATTGTAATTATAGTATTTATTAATTTATTAATTATAT
* * *
14090862 ATTGATTGATTTAATTGGTGAAATTAATAAATTTTAAAATTTTTAATACTTTTAATATAAATTGA
256 ATTGATTGATTTAATTTGTCAAATTAATAATTTTTAAAA-TTTTAATACTTTTAATATAAATTGA
*
14090927 ATTGAGAGTGATTTAAAATCAATAATAAAAATATAAATATAA-CTAATTTAGTTTTTTTAATGAT
320 ATTGAGAGTGATTTAAAATCAATAATAAAAATATAAATATAATC-AATTTAGTTTTTTTAATTAT
* *
14090991 ATTTGCTTTATATATCTACACATGAAATACACTAATTATTTGATACTATATTTAATCAAATATAA
384 ATTTGCTTTATATATTTACACATAAAATACACTAATTA-TTGATACTATATTTAATCAAATATAA
*
14091056 ATGTATTAAATAATTGATTATAAAATCAACTATTTTTATAATTGTAATTGTAGTATTTATTAATT
448 ATGTATTAAATAATTGATTA-AAAATAAACTA-TTTTATAATTGTAATTGTAGTATTTATTAATT
*
14091121 TATTAATTATATATTGATTGATTTAATTTGTCAAATAAAAAAAGTTTATAAAATTTTAATACTTT
511 TATTAATTATATATTGATTAATTTAATTTGTCAAATAAAAAAA-TTTATAAAATTTTAATACTTT
* * * * **
14091186 TAATATGAATTTAATTGAGAGTGGTTTGAGATTAATAATAAAAACATAAATATAATGAATTAAAA
575 TAATATGAATTGAATTGAGAGTGATTTAAGATTAATAATAAAAACATAAATATAATAAATT-AGT
* * * * * *
14091251 TATTT-ATTTATTTTTAAATTAATAATGCATTAAATAAAATAAAATGTATTTATTAAATTTCACG
639 TTTTTAAATTATTTTTAAATTAAAAATGTATAAAATAAAATAAAATGTATTTATTAGATTTCACG
* * *
14091315 TGATAATTTTTAAGACTATTCATATGTCAACATTTTAAGCTATCCACATAGGATTTTTTTCATCT
704 TGATGATTTTTAAGACTATTCATAT-TCAACATTTTAAGCT-TCCACATAAGATTTTTTTCATTT
* *
14091380 TTGCCAAAACCTTTGCTTTTATATATTTATATAA-AAA
767 TTACCAAAAACTTTGCTTTTATATATTTATATAAGAAA
* *
14091417 ATCAAATGAAATCATATTTAATGAAATA-AAATGTGTCAATAAAATATAAATTAATAAAATATTT
1 ATCAAATGAAATCATATTTAATGAAATATAAATGTATCAATCAAATATAAATTAATAAAATATTT
*
14091481 TATTCCATTAATTTAATTATAGAGAATTAATTTAATATATTTACTTTATATATTTACATATGAAA
66 TATTCCATTAATTTAATTATAGAGAATTAATTTGATATATTTACTTTATATATTTAC-TATG---
14091546 TATATCACGAAATACATTAATTACTCAAATGAATACTATATTTAATCAAATATAAATGTATCAAA
127 TATATCA-GAAATACATTAATTACTCAAATGAATACTATATTTAATCAAATATAAATGTATCAAA
* *
14091611 TAATTAATTAGAGAATCAACTATTTAATAATTGTGATTTTAGTATTTATTAATTTATTAATTATA
191 TAATTAATTAGAGAATCAACTATTT-ATAATTGTAATTATAGTATTTATTAATTTATTAATTATA
* *
14091676 TATTGATTGATTTAATTTGTTAAATTAATATATTTTTAAAATTTTAATACTTTTAATATGAATTG
255 TATTGATTGATTTAATTTGTCAAATTAATA-ATTTTTAAAATTTTAATACTTTTAATATAAATTG
* * * *
14091741 AATTTAGAGTGATTTAAAATGAATAATAAAAACATAAATATAATCAATTTAGTTTTTTGAATTAT
319 AATTGAGAGTGATTTAAAATCAATAATAAAAATATAAATATAATCAATTTAGTTTTTTTAATTAT
* * * *
14091806 ATTTGCTTTATATATTTACACATAAAACACATTAATTGCTTAATACTATATTTAATCAAATATAA
384 ATTTGCTTTATATATTTACACATAAAATACACTAATT-ATTGATACTATATTTAATCAAATATAA
* * *
14091871 ATGTATCAAATAATTGATTAAAGAATAAACTATTTTATAATTATAATTATAGTATTTATTAATTT
448 ATGTATTAAATAATTGATTAAA-AATAAACTATTTTATAATTGTAATTGTAGTATTTATTAATTT
* ** *
14091936 ATTAATTATATATTGATTAATTTAATTTGTCAATTTATGAAAATTT-TAAAATTTTAGTACTTTT
512 ATTAATTATATATTGATTAATTTAATTTGTCAA-ATAAAAAAATTTATAAAATTTTAATACTTTT
* * *
14092000 AATATAAATTGAATTGAGAGTGATTTAAAATTAATAATAAAAACATAAATATAATCAATTTAGTT
576 AATATGAATTGAATTGAGAGTGATTTAAGATTAATAATAAAAACATAAATATAAT-AAATTAGTT
* * * * **
14092065 TTTTAAATTATTTTTAAATTAAAAATATATAAAATAAAATAAAATATATTTACTAGATGTCATAT
640 TTTTAAATTATTTTTAAATTAAAAATGTATAAAATAAAATAAAATGTATTTATTAGATTTCACGT
* * * * * * *
14092130 AACGATTTTTAATACTATTCACATATCAATATTTTAAACTGTCCATATAAGA-TTTTTTCTATTT
705 GATGATTTTTAAGACTATTCATAT-TCAACATTTTAAGCT-TCCACATAAGATTTTTTTC-ATTT
* *
14092194 TTATCAAAAACTTTGACTTTTATATGTTTATATAAGA
767 TTACCAAAAACTTTG-CTTTTATATATTTATATAAGA
14092231 CATAAGATTA
Statistics
Matches: 1420, Mismatches: 138, Indels: 107
0.85 0.08 0.06
Matches are distributed among these distances:
796 4 0.00
797 82 0.06
798 10 0.01
799 82 0.06
800 184 0.13
801 197 0.14
802 97 0.07
803 76 0.05
804 25 0.02
805 13 0.01
806 21 0.01
807 27 0.02
811 1 0.00
812 3 0.00
813 79 0.06
814 179 0.13
815 329 0.23
816 11 0.01
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (804 bp):
ATCAAATGAAATCATATTTAATGAAATATAAATGTATCAATCAAATATAAATTAATAAAATATTT
TATTCCATTAATTTAATTATAGAGAATTAATTTGATATATTTACTTTATATATTTACTATGTATA
TCAGAAATACATTAATTACTCAAATGAATACTATATTTAATCAAATATAAATGTATCAAATAATT
AATTAGAGAATCAACTATTTATAATTGTAATTATAGTATTTATTAATTTATTAATTATATATTGA
TTGATTTAATTTGTCAAATTAATAATTTTTAAAATTTTAATACTTTTAATATAAATTGAATTGAG
AGTGATTTAAAATCAATAATAAAAATATAAATATAATCAATTTAGTTTTTTTAATTATATTTGCT
TTATATATTTACACATAAAATACACTAATTATTGATACTATATTTAATCAAATATAAATGTATTA
AATAATTGATTAAAAATAAACTATTTTATAATTGTAATTGTAGTATTTATTAATTTATTAATTAT
ATATTGATTAATTTAATTTGTCAAATAAAAAAATTTATAAAATTTTAATACTTTTAATATGAATT
GAATTGAGAGTGATTTAAGATTAATAATAAAAACATAAATATAATAAATTAGTTTTTTAAATTAT
TTTTAAATTAAAAATGTATAAAATAAAATAAAATGTATTTATTAGATTTCACGTGATGATTTTTA
AGACTATTCATATTCAACATTTTAAGCTTCCACATAAGATTTTTTTCATTTTTACCAAAAACTTT
GCTTTTATATATTTATATAAGAAA
Found at i:14091944 original size:15 final size:14
Alignment explanation
Indices: 14091904--14091963 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
14091894 AATAAACTAT
14091904 TTTA-TAATTATAA
1 TTTATTAATTATAA
* *
14091917 TTATAGTATTTATTAA
1 TT-TATTAATTA-TAA
14091933 TTTATTAATTATATA
1 TTTATTAATTATA-A
*
14091948 TTGATTAATT-TAA
1 TTTATTAATTATAA
14091961 TTT
1 TTT
14091964 GTCAATTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
13 5 0.13
14 6 0.16
15 22 0.58
16 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTATTAATTATAA
Found at i:14092058 original size:270 final size:270
Alignment explanation
Indices: 14091577--14092075 Score: 829
Period size: 270 Copynumber: 1.8 Consensus size: 270
14091567 TACTCAAATG
* *
14091577 AATACTATATTTAATCAAATATAAATGTATCAAATAATTAATTAGAGAATCAACTATTTAATAAT
1 AATACTATATTTAATCAAATATAAATGTATCAAATAATTAATTAAAGAATAAACTATTTAATAAT
* * * * *
14091642 TGTGATTTTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTGTTAAATTAATAT
66 TATAATTATAGTATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTTAAATTAATAA
* * *
14091707 ATTTTTAAAATTTTAATACTTTTAATATGAATTGAATTTAGAGTGATTTAAAATGAATAATAAAA
131 AATTTTAAAATTTTAATACTTTTAATATAAATTGAATTGAGAGTGATTTAAAATGAATAATAAAA
*
14091772 ACATAAATATAATCAATTTAGTTTTTTGAATTATATTTGCTTTATATATTTACACATAAAACACA
196 ACATAAATATAATCAATTTAGTTTTTTAAATTATATTTGCTTTATATATTTACACATAAAACACA
14091837 TTAATTGCTT
261 TTAATTGCTT
* *
14091847 AATACTATATTTAATCAAATATAAATGTATCAAATAATTGATTAAAGAATAAACTATTTTATAAT
1 AATACTATATTTAATCAAATATAAATGTATCAAATAATTAATTAAAGAATAAACTATTTAATAAT
* *
14091912 TATAATTATAGTATTTATTAATTTATTAATTATATATTGATTAATTTAATTTG-TCAATTTATGA
66 TATAATTATAGTATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTTAAATTAAT-A
* *
14091976 AAATTTTAAAATTTTAGTACTTTTAATATAAATTGAATTGAGAGTGATTTAAAATTAATAATAAA
130 AAATTTTAAAATTTTAATACTTTTAATATAAATTGAATTGAGAGTGATTTAAAATGAATAATAAA
14092041 AACATAAATATAATCAATTTAGTTTTTTAAATTAT
195 AACATAAATATAATCAATTTAGTTTTTTAAATTAT
14092076 TTTTAAATTA
Statistics
Matches: 211, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
269 7 0.03
270 204 0.97
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (270 bp):
AATACTATATTTAATCAAATATAAATGTATCAAATAATTAATTAAAGAATAAACTATTTAATAAT
TATAATTATAGTATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTTAAATTAATAA
AATTTTAAAATTTTAATACTTTTAATATAAATTGAATTGAGAGTGATTTAAAATGAATAATAAAA
ACATAAATATAATCAATTTAGTTTTTTAAATTATATTTGCTTTATATATTTACACATAAAACACA
TTAATTGCTT
Found at i:14092311 original size:14 final size:14
Alignment explanation
Indices: 14092292--14092318 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14092282 ATTAAAAAAT
14092292 AAAATTAAATATTG
1 AAAATTAAATATTG
14092306 AAAATTAAATATT
1 AAAATTAAATATT
14092319 TTTTATACAA
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:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAATTAAATATTG
Found at i:14093856 original size:20 final size:19
Alignment explanation
Indices: 14093818--14093860 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
14093808 ATTAGAATCG
14093818 AATTTATATTTAATATTAA
1 AATTTATATTTAATATTAA
*
14093837 TAATTTATATATTTAT-TTAA
1 -AATTTATAT-TTAATATTAA
14093857 AATT
1 AATT
14093861 GATTCGATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTATATTTAATATTAA
Found at i:14093970 original size:8 final size:8
Alignment explanation
Indices: 14093957--14093984 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
14093947 AATTTATATA
14093957 AAAAAATT
1 AAAAAATT
14093965 AAAAAATT
1 AAAAAATT
14093973 AAAAAATT
1 AAAAAATT
14093981 AAAA
1 AAAA
14093985 TTAACATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAAATT
Found at i:14098794 original size:18 final size:18
Alignment explanation
Indices: 14098754--14098795 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
14098744 CATTTGAAGC
*
14098754 AGCATCTTTTCCGGTTTT
1 AGCATCTTTTCCGATTTT
*
14098772 GGCATCTTTTCC-ATCTTT
1 AGCATCTTTTCCGAT-TTT
14098790 AGCATC
1 AGCATC
14098796 CTTTGCTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.14, C:0.26, G:0.14, T:0.45
Consensus pattern (18 bp):
AGCATCTTTTCCGATTTT
Found at i:14099601 original size:18 final size:18
Alignment explanation
Indices: 14099578--14099614 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14099568 TTACATAAAC
14099578 TTTGAGAAAAGATAATTT
1 TTTGAGAAAAGATAATTT
*
14099596 TTTGAGCAAAGATAATTT
1 TTTGAGAAAAGATAATTT
14099614 T
1 T
14099615 GACCCATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (18 bp):
TTTGAGAAAAGATAATTT
Found at i:14099627 original size:17 final size:17
Alignment explanation
Indices: 14099607--14099663 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
14099597 TTGAGCAAAG
14099607 ATAATTTTGACCCATAA
1 ATAATTTTGACCCATAA
*
14099624 ATAAATTTTTTGA-GCA-AA
1 AT-AA--TTTTGACCCATAA
14099642 GATAATTTTGACCCATAA
1 -ATAATTTTGACCCATAA
14099660 ATAA
1 ATAA
14099664 ATTATCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 6 0.19
17 8 0.25
18 8 0.25
19 4 0.12
20 6 0.19
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (17 bp):
ATAATTTTGACCCATAA
Found at i:14099630 original size:18 final size:18
Alignment explanation
Indices: 14099609--14099666 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
14099599 GAGCAAAGAT
14099609 AATTTTGACCCATAAATA
1 AATTTTGACCCATAAATA
*
14099627 AATTTTTTGA-GCA-AAGAT-
1 AA--TTTTGACCCATAA-ATA
14099645 AATTTTGACCCATAAATA
1 AATTTTGACCCATAAATA
14099663 AATT
1 AATT
14099667 ATCTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 6 0.19
17 4 0.12
18 12 0.38
19 4 0.12
20 6 0.19
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (18 bp):
AATTTTGACCCATAAATA
Found at i:14099631 original size:36 final size:36
Alignment explanation
Indices: 14099591--14099666 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
14099581 GAGAAAAGAT
14099591 AATTTTTTGAGCAAAGATAATTTTGACCCATAAATA
1 AATTTTTTGAGCAAAGATAATTTTGACCCATAAATA
14099627 AATTTTTTGAGCAAAGATAATTTTGACCCATAAATA
1 AATTTTTTGAGCAAAGATAATTTTGACCCATAAATA
14099663 AATT
1 AATT
14099667 ATCTTAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (36 bp):
AATTTTTTGAGCAAAGATAATTTTGACCCATAAATA
Found at i:14110722 original size:16 final size:17
Alignment explanation
Indices: 14110701--14110733 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14110691 TATGTATAAT
14110701 TTAAAT-ATAATTTATA
1 TTAAATAATAATTTATA
*
14110717 TTAAATAATATTTTATA
1 TTAAATAATAATTTATA
14110734 AATATGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATAATAATTTATA
Found at i:14111577 original size:14 final size:14
Alignment explanation
Indices: 14111558--14111607 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
14111548 TCTGATTTGA
14111558 TATATATATAAAA-
1 TATATATATAAAAT
14111571 T-TATATATAAAAT
1 TATATATATAAAAT
* * *
14111584 TATTTATTTAATAT
1 TATATATATAAAAT
*
14111598 TATATTTATA
1 TATATATATA
14111608 TTTATTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 11 0.38
13 2 0.07
14 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATATATAAAAT
Found at i:14111603 original size:12 final size:12
Alignment explanation
Indices: 14111560--14111632 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
14111550 TGATTTGATA
* *
14111560 TATATATAAAAT
1 TATATTTAATAT
* *
14111572 TATATATAAAAT
1 TATATTTAATAT
14111584 TATTTATTTAATAT
1 TA--TATTTAATAT
14111598 TATATTT-ATAT
1 TATATTTAATAT
14111609 T-TATTTAAT-T
1 TATATTTAATAT
14111619 TAATATTT-ATAT
1 T-ATATTTAATAT
14111631 TA
1 TA
14111633 AAATAATATT
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
10 7 0.13
11 10 0.19
12 26 0.49
14 10 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATTTAATAT
Found at i:14111609 original size:22 final size:22
Alignment explanation
Indices: 14111584--14111631 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
14111574 TATATAAAAT
14111584 TATTTATTTAATATT-ATATTTA
1 TATTTATTTAAT-TTAATATTTA
14111606 TATTTATTTAATTTAATATTTA
1 TATTTATTTAATTTAATATTTA
14111628 TATT
1 TATT
14111632 AAAATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTATTTAATTTAATATTTA
Found at i:14111624 original size:16 final size:16
Alignment explanation
Indices: 14111583--14111653 Score: 55
Period size: 17 Copynumber: 4.7 Consensus size: 16
14111573 ATATATAAAA
14111583 TTATTT-ATTTAATA-
1 TTATTTAATTTAATAT
14111597 TTA--T-ATTT-ATAT
1 TTATTTAATTTAATAT
14111609 TTATTTAATTTAATAT
1 TTATTTAATTTAATAT
**
14111625 TTATATTAAAATAATAT
1 TTAT-TTAATTTAATAT
*
14111642 TGTATTAAATTT
1 T-TATTTAATTT
14111654 TAATTAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
11 3 0.07
12 8 0.18
14 4 0.09
15 4 0.09
16 8 0.18
17 15 0.33
18 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (16 bp):
TTATTTAATTTAATAT
Found at i:14122069 original size:2 final size:2
Alignment explanation
Indices: 14122062--14122100 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
14122052 TAGTATTCCC
*
14122062 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
14122101 TTTTTGTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (2 bp):
TG
Found at i:14125607 original size:33 final size:33
Alignment explanation
Indices: 14125568--14125633 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
14125558 TGTTATAAAA
*
14125568 TTTT-AAAATTTAATTTAAATATAAATTAAATTT
1 TTTTAAAAAATTAATTT-AATATAAATTAAATTT
* *
14125601 TTTTAAAAAATTAATTTGATTTAAATTAAATTT
1 TTTTAAAAAATTAATTTAATATAAATTAAATTT
14125634 GATTTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
TTTTAAAAAATTAATTTAATATAAATTAAATTT
Found at i:14125626 original size:15 final size:16
Alignment explanation
Indices: 14125608--14125638 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14125598 TTTTTTTAAA
14125608 AAATT-AATTTGATTT
1 AAATTAAATTTGATTT
14125623 AAATTAAATTTGATTT
1 AAATTAAATTTGATTT
14125639 TTTAAGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
AAATTAAATTTGATTT
Found at i:14125648 original size:14 final size:14
Alignment explanation
Indices: 14125613--14125657 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
14125603 TTAAAAAATT
14125613 AATTTGATTTAAATTA
1 AATTTGATTT--ATTA
*
14125629 AATTTGATTTTTTA
1 AATTTGATTTATTA
*
14125643 AGTTTGATTTATTA
1 AATTTGATTTATTA
14125657 A
1 A
14125658 TTTTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 16 0.62
16 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (14 bp):
AATTTGATTTATTA
Found at i:14125674 original size:22 final size:22
Alignment explanation
Indices: 14125635--14125700 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
14125625 ATTAAATTTG
* * *
14125635 ATTTTTTAAGTTTGATTTATTA
1 ATTTTTAAATTTTTATTTATTA
*
14125657 ATTTTTAAATTTTTATTTATCA
1 ATTTTTAAATTTTTATTTATTA
* *
14125679 TTTTTTAAAATTTTTATATATT
1 ATTTTT-AAATTTTTATTTATT
14125701 TAAATAAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 23 0.64
23 13 0.36
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (22 bp):
ATTTTTAAATTTTTATTTATTA
Found at i:14132408 original size:2 final size:2
Alignment explanation
Indices: 14132403--14132437 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14132393 ATCTTGCAAA
14132403 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14132438 ATGGCAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14133775 original size:15 final size:15
Alignment explanation
Indices: 14133755--14133789 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14133745 ACAAATAAAA
14133755 AAAAAAACACATAAC
1 AAAAAAACACATAAC
* *
14133770 AAAAAAATACATAAT
1 AAAAAAACACATAAC
14133785 AAAAA
1 AAAAA
14133790 CTAATAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAACACATAAC
Found at i:14138374 original size:9 final size:9
Alignment explanation
Indices: 14138360--14138401 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
14138350 TGATTTGGAG
14138360 GAAGAGGAA
1 GAAGAGGAA
14138369 GAAGAGGAA
1 GAAGAGGAA
*
14138378 GAAGAGGAG
1 GAAGAGGAA
* *
14138387 GAGGAGGAG
1 GAAGAGGAA
14138396 GAAGAG
1 GAAGAG
14138402 CAGATCGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (9 bp):
GAAGAGGAA
Found at i:14141026 original size:2 final size:2
Alignment explanation
Indices: 14141019--14141061 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14141009 ATACGAACCC
14141019 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
14141061 T
1 T
14141062 TTGTTTTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14141618 original size:2 final size:2
Alignment explanation
Indices: 14141611--14141647 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14141601 GATGCCTGTG
*
14141611 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14141648 CCAAGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14143265 original size:22 final size:22
Alignment explanation
Indices: 14143237--14143311 Score: 150
Period size: 22 Copynumber: 3.4 Consensus size: 22
14143227 TAAAATCAAA
14143237 CTTAATTATCCTTCACTAGTGG
1 CTTAATTATCCTTCACTAGTGG
14143259 CTTAATTATCCTTCACTAGTGG
1 CTTAATTATCCTTCACTAGTGG
14143281 CTTAATTATCCTTCACTAGTGG
1 CTTAATTATCCTTCACTAGTGG
14143303 CTTAATTAT
1 CTTAATTAT
14143312 TTGCACATGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (22 bp):
CTTAATTATCCTTCACTAGTGG
Found at i:14150414 original size:16 final size:16
Alignment explanation
Indices: 14150393--14150423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14150383 TCTATTCCAT
*
14150393 AAAAAGACAAAGAAAG
1 AAAAAGAAAAAGAAAG
14150409 AAAAAGAAAAAGAAA
1 AAAAAGAAAAAGAAA
14150424 ATTGTATCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAG
Found at i:14153956 original size:21 final size:21
Alignment explanation
Indices: 14153940--14153980 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
14153930 ATATTTATTT
14153940 TTTAAAAAATAATATTTTATA
1 TTTAAAAAATAATATTTTATA
14153961 TTTAAAAAATAATATTTTAT
1 TTTAAAAAATAATATTTTAT
14153981 TAATTTCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAAAATAATATTTTATA
Found at i:14163872 original size:57 final size:57
Alignment explanation
Indices: 14163772--14163895 Score: 133
Period size: 57 Copynumber: 2.2 Consensus size: 57
14163762 GGATACATTA
** * * ** *
14163772 GGAGGAGGTGGTTGAAGTGGTGCCCCGGTAGCCATTACTTTTGACTGCAATGGGAG-T
1 GGAGGAGGTGGAGGAAGGGGTGCCCCGGTAGCCACTAAATTTGAATGCAATGGG-GCT
* * *
14163829 GGAGGAGGTGGAGGAAGGGGTGCCCCTGTCGCCACTAAATTTGAATTCAATGGGGCT
1 GGAGGAGGTGGAGGAAGGGGTGCCCCGGTAGCCACTAAATTTGAATGCAATGGGGCT
*
14163886 GGAGGTGGTG
1 GGAGGAGGTG
14163896 TTGGCGGCAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 1 0.02
57 54 0.98
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.23
Consensus pattern (57 bp):
GGAGGAGGTGGAGGAAGGGGTGCCCCGGTAGCCACTAAATTTGAATGCAATGGGGCT
Found at i:14168878 original size:82 final size:82
Alignment explanation
Indices: 14168741--14168902 Score: 315
Period size: 82 Copynumber: 2.0 Consensus size: 82
14168731 CCCTTCAATG
*
14168741 TTGCAAATTGTGCTAAGATTCTTTATTCTTTAACATAAAAATCTCATTTCCCTTCAAATTCAACG
1 TTGCAAATTGTACTAAGATTCTTTATTCTTTAACATAAAAATCTCATTTCCCTTCAAATTCAACG
14168806 TGCCCCAAATTTAAGGT
66 TGCCCCAAATTTAAGGT
14168823 TTGCAAATTGTACTAAGATTCTTTATTCTTTAACATAAAAATCTCATTTCCCTTCAAATTCAACG
1 TTGCAAATTGTACTAAGATTCTTTATTCTTTAACATAAAAATCTCATTTCCCTTCAAATTCAACG
14168888 TGCCCCAAATTTAAG
66 TGCCCCAAATTTAAG
14168903 TGCAGTTTAT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.38
Consensus pattern (82 bp):
TTGCAAATTGTACTAAGATTCTTTATTCTTTAACATAAAAATCTCATTTCCCTTCAAATTCAACG
TGCCCCAAATTTAAGGT
Found at i:14169854 original size:5 final size:5
Alignment explanation
Indices: 14169847--14169879 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
14169837 TCCATAGAGG
*
14169847 CCAGG CCAGA CCAGA CCAGA CCAGA -CAGA CCAG
1 CCAGA CCAGA CCAGA CCAGA CCAGA CCAGA CCAG
14169880 TCAAGAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.36, C:0.39, G:0.24, T:0.00
Consensus pattern (5 bp):
CCAGA
Found at i:14176777 original size:3 final size:3
Alignment explanation
Indices: 14176769--14176804 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14176759 CTATAAACTA
14176769 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
14176805 TTTATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14181966 original size:11 final size:11
Alignment explanation
Indices: 14181950--14181974 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14181940 TCAGGATAAG
14181950 TATATTTTAGC
1 TATATTTTAGC
14181961 TATATTTTAGC
1 TATATTTTAGC
14181972 TAT
1 TAT
14181975 GTTATTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATTTTAGC
Found at i:14186448 original size:26 final size:23
Alignment explanation
Indices: 14186407--14186471 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 23
14186397 TTTTTATATT
*
14186407 TATATTATTTTTATATAAAATTA
1 TATATTATTTTTATATAAAAATA
14186430 TATATTATTGTATTAATATAAAAATA
1 TATATTATT-T-TT-ATATAAAAATA
*
14186456 TAAAATATATTTTTAT
1 T-ATAT-TATTTTTAT
14186472 TTTATTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
23 9 0.26
24 1 0.03
25 4 0.11
26 13 0.37
27 4 0.11
28 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATATTATTTTTATATAAAAATA
Found at i:14186515 original size:23 final size:22
Alignment explanation
Indices: 14186470--14186517 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
14186460 ATATATTTTT
*
14186470 ATTTTATTAAATTTACATCTAA
1 ATTTTATTAAATTTAAATCTAA
14186492 ATTTTATTAAAATTTTAAAT-TAA
1 ATTTTATT-AAA-TTTAAATCTAA
14186515 ATT
1 ATT
14186518 ATTTTAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 9 0.39
24 6 0.26
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTATTAAATTTAAATCTAA
Found at i:14188140 original size:19 final size:20
Alignment explanation
Indices: 14188096--14188141 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
14188086 AAATATTTTA
14188096 TTAATTAAAATAATAAAAAT
1 TTAATTAAAATAATAAAAAT
*
14188116 AT-ATTAAAAT-ATAAAAAT
1 TTAATTAAAATAATAAAAAT
14188134 TTAATTAA
1 TTAATTAA
14188142 GCTCATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 13 0.57
20 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAATTAAAATAATAAAAAT
Found at i:14199410 original size:2 final size:2
Alignment explanation
Indices: 14199398--14199428 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14199388 TTTCTGTCTG
*
14199398 TC TC TC AC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14199429 GTGTCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:14208815 original size:18 final size:17
Alignment explanation
Indices: 14208780--14208820 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
14208770 AATTAATTTT
*
14208780 TATAATTAAAAAATTAA
1 TATAATTAAAAAAATAA
*
14208797 TTTAATTAATAAAAATAA
1 TATAATTAA-AAAAATAA
14208815 TATAAT
1 TATAAT
14208821 ATATTTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATAATTAAAAAAATAA
Found at i:14209504 original size:25 final size:27
Alignment explanation
Indices: 14209465--14209523 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
14209455 TATTTATATA
*
14209465 ATATAAAATATTTATAT-TTATATATTT
1 ATATAAAATATTTATATATAATA-ATTT
14209492 ATATAAAA-A-TTATATATAATAATTT
1 ATATAAAATATTTATATATAATAATTT
*
14209517 ATGTAAA
1 ATATAAA
14209524 TATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 16 0.55
26 5 0.17
27 8 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
ATATAAAATATTTATATATAATAATTT
Found at i:14210240 original size:4 final size:4
Alignment explanation
Indices: 14210231--14210280 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
14210221 ATTTTACTCG
*
14210231 AATT AATT AATT AAATT AATT AATT -ATT AAATT AATT --TT AATC AATT
1 AATT AATT AATT -AATT AATT AATT AATT -AATT AATT AATT AATT AATT
14210278 AAT
1 AAT
14210281 AAAATAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 27 0.69
5 7 0.18
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:14210249 original size:13 final size:13
Alignment explanation
Indices: 14210231--14210256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14210221 ATTTTACTCG
14210231 AATTAATTAATTA
1 AATTAATTAATTA
14210244 AATTAATTAATTA
1 AATTAATTAATTA
14210257 TTAAATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:14210571 original size:19 final size:18
Alignment explanation
Indices: 14210544--14210579 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14210534 TAAAATTTTT
14210544 AATTAAATCGATTGAATTA
1 AATTAAATCGATT-AATTA
*
14210563 AATTTAATCGATTAATT
1 AATTAAATCGATTAATT
14210580 TTTAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (18 bp):
AATTAAATCGATTAATTA
Found at i:14210604 original size:27 final size:27
Alignment explanation
Indices: 14210574--14210635 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
14210564 ATTTAATCGA
*
14210574 TTAATTTTTAAAATTAA-TAAATTTAAT
1 TTAATTTTTAAAAATAATTAAA-TTAAT
** *
14210601 TTAATTAATAAAAATAATTTAATTAAT
1 TTAATTTTTAAAAATAATTAAATTAAT
14210628 TTAATTTT
1 TTAATTTT
14210636 AAATAATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAATTTTTAAAAATAATTAAATTAAT
Found at i:14210608 original size:18 final size:18
Alignment explanation
Indices: 14210585--14210627 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
14210575 TAATTTTTAA
**
14210585 AATTAATAAATTTAATTT
1 AATTAATAAAAATAATTT
14210603 AATTAATAAAAATAATTT
1 AATTAATAAAAATAATTT
14210621 AATTAAT
1 AATTAAT
14210628 TTAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAATAAAAATAATTT
Found at i:14210642 original size:15 final size:15
Alignment explanation
Indices: 14210618--14210654 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
14210608 ATAAAAATAA
*
14210618 TTTAATTAATTTAAT
1 TTTAAATAATTTAAT
14210633 TTTAAATAATTTAAT
1 TTTAAATAATTTAAT
*
14210648 TTAAAAT
1 TTTAAAT
14210655 TAATCGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAAATAATTTAAT
Found at i:14213875 original size:3 final size:3
Alignment explanation
Indices: 14213867--14213895 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14213857 AATTTTCCTT
14213867 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14213896 GAAATGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14216713 original size:25 final size:25
Alignment explanation
Indices: 14216679--14216729 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
14216669 TTTCCCTTTA
14216679 TGTTGATTCAATTTGGACCTGTTGC
1 TGTTGATTCAATTTGGACCTGTTGC
*
14216704 TGTTGGTTCAATTTGGACCTGTTGC
1 TGTTGATTCAATTTGGACCTGTTGC
14216729 T
1 T
14216730 CTTTAAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (25 bp):
TGTTGATTCAATTTGGACCTGTTGC
Found at i:14218390 original size:54 final size:54
Alignment explanation
Indices: 14218331--14218684 Score: 168
Period size: 54 Copynumber: 6.6 Consensus size: 54
14218321 AAACTGTGCA
* **
14218331 GGAAGTCAAATTTCTAGAATGGAAGCAACTTCTAGC-TCTGA-GGGAAGCATTACT
1 GGAAGTCAAATTTCTAGAAGGGAAGCAACCCCTA-CTTCTGATGGG-AGCATTACT
* * * * *
14218385 GGAAGTGAGATTTATAGAAGGGAATCAACCCCTACTTCTGATGGGATCATTACT
1 GGAAGTCAAATTTCTAGAAGGGAAGCAACCCCTACTTCTGATGGGAGCATTACT
** * * ** * * * *
14218439 GG-AGATCAAATTTCTAGAAGGGAATTAA-ACTTCACCCCTGGTAGGATCATTTCT
1 GGAAG-TCAAATTTCTAGAAGGGAAGCAACCCCT-ACTTCTGATGGGAGCATTACT
* * * * * * *
14218493 GGAAATCAAACTTCTAGAAAGGAATCAACCTTCGC-AC--CTGATAGGATCAATACT
1 GGAAGTCAAATTTCTAGAAGGGAAGCAACC--C-CTACTTCTGATGGGAGCATTACT
* * * * * *
14218547 GGAAATCAAATTTCTAGAAGGGAATCAACCTCTGCTT-TGGATGGGATCGTTACT
1 GGAAGTCAAATTTCTAGAAGGGAAGCAACCCCTACTTCT-GATGGGAGCATTACT
** * * * * * * * *
14218601 GGAAACCTAATTACAAGAAGGGAATCAACTTCC-ATTTCTGATGGGATCATTTCT
1 GGAAGTCAAATTTCTAGAAGGGAAGCAAC-CCCTACTTCTGATGGGAGCATTACT
* * *
14218655 AGAAATCAACTTTCTAGAAGGGAAGCAACC
1 GGAAGTCAAATTTCTAGAAGGGAAGCAACC
14218685 TCTGCTAATG
Statistics
Matches: 232, Mismatches: 53, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 6 0.03
54 215 0.93
55 6 0.03
56 2 0.01
57 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (54 bp):
GGAAGTCAAATTTCTAGAAGGGAAGCAACCCCTACTTCTGATGGGAGCATTACT
Found at i:14218594 original size:108 final size:106
Alignment explanation
Indices: 14218422--14218690 Score: 281
Period size: 108 Copynumber: 2.5 Consensus size: 106
14218412 ACCCCTACTT
* * * ** *
14218422 CTGATGGGATCATTACTGGAGATCAAATTTCTAGAAGGGAATTAAACTTCACCCCTGGTAGGATC
1 CTGATGGGATCATTACTGGAAATCAAATTTCTAGAAGGGAA-TCAACCTCTGCTCTGGTAGGATC
* * *
14218487 ATTTCTGGAAATCAAACTT-CTAGAAAGGAATCAACCTTCGCA-C
65 ATTACTGGAAACCAAA-TTACAAGAAAGGAATCAA-CTTC-CATC
* * * *
14218530 CTGATAGGATCAATACTGGAAATCAAATTTCTAGAAGGGAATCAACCTCTGCTTTGGATGGGATC
1 CTGATGGGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACCTCTGCTCTGG-TAGGATC
* * * *
14218595 GTTACTGGAAACCTAATTACAAGAAGGGAATCAACTTCCATTT
65 ATTACTGGAAACCAAATTACAAGAAAGGAATCAACTTCCA-TC
* * * *
14218638 CTGATGGGATCATTTCTAGAAATCAACTTTCTAGAAGGGAAGCAACCTCTGCT
1 CTGATGGGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACCTCTGCT
14218691 AATGATAGGA
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
106 2 0.01
107 16 0.12
108 116 0.87
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (106 bp):
CTGATGGGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACCTCTGCTCTGGTAGGATCA
TTACTGGAAACCAAATTACAAGAAAGGAATCAACTTCCATC
Found at i:14218622 original size:162 final size:162
Alignment explanation
Indices: 14218394--14218685 Score: 374
Period size: 162 Copynumber: 1.8 Consensus size: 162
14218384 TGGAAGTGAG
* * * *
14218394 ATTTATAGAAGGGAATCAACCCCTACTTCTGATGGGATCATTACTGGAGATCAAATTTCTAGAAG
1 ATTTATAGAAGGGAATCAACCCCTACTTCTGATGGGATCATTACTGGAAACCAAATTACAAGAAG
* * *
14218459 GGAATTAAACTT-CACCCCTGGTAGGATCATTTCTGGAAATCAAAC-TTCTAGAAAGGAATCAAC
66 GGAA-TAAACTTCCACCCCTGATAGGATCATTTCTAGAAATC-AACTTTCTAGAAAGGAAGCAAC
14218522 CTTCGCACCTGATAGGATCAATACTGGAAATCAA
129 CTTCGCACCTGATAGGATCAATACTGGAAATCAA
* * * * *
14218556 ATTTCTAGAAGGGAATCAACCTCTGCTT-TGGATGGGATCGTTACTGGAAACCTAATTACAAGAA
1 ATTTATAGAAGGGAATCAACCCCTACTTCT-GATGGGATCATTACTGGAAACCAAATTACAAGAA
* *** * *
14218620 GGGAATCAACTTCCATTTCTGATGGGATCATTTCTAGAAATCAACTTTCTAGAAGGGAAGCAACC
65 GGGAATAAACTTCCACCCCTGATAGGATCATTTCTAGAAATCAACTTTCTAGAAAGGAAGCAACC
14218685 T
130 T
14218686 CTGCTAATGA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
161 10 0.09
162 99 0.91
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (162 bp):
ATTTATAGAAGGGAATCAACCCCTACTTCTGATGGGATCATTACTGGAAACCAAATTACAAGAAG
GGAATAAACTTCCACCCCTGATAGGATCATTTCTAGAAATCAACTTTCTAGAAAGGAAGCAACCT
TCGCACCTGATAGGATCAATACTGGAAATCAA
Found at i:14219459 original size:297 final size:297
Alignment explanation
Indices: 14218920--14219521 Score: 1159
Period size: 297 Copynumber: 2.0 Consensus size: 297
14218910 TTAGCTGTTT
* *
14218920 ATTTGTGGATATAATTGGAGGATTTTAGGTGTTGCTTTTTTTTTTTTTTTTTCTTGGAATTGCAT
1 ATTTTTGGATATAATTGGAGGATTTTAGGTGTTACTTTTTTTTTTTTTTTTTCTTGGAATTGCAT
14218985 AATCAATGGAGTGCAGAATATTATACTAGTAGTTATGGTTTAGAACATGTGCACGTGCATCTAAA
66 AATCAATGGAGTGCAGAATATTATACTAGTAGTTATGGTTTAGAACATGTGCACGTGCATCTAAA
14219050 CATCTATGACGGGTGGCAAACTTTTGTTCTGGCGAAAAGAAAGCAATTTAAGTTTGGTAAAAAGA
131 CATCTATGACGGGTGGCAAACTTTTGTTCTGGCGAAAAGAAAGCAATTTAAGTTTGGTAAAAAGA
*
14219115 AAATGGGAAAAGAAATCTCCATCATTTATGTTTCAGTACTTTGTTTGCCTCTGATCTTATTTATT
196 AAATGGGAAAAGAAATCTCCATCATTCATGTTTCAGTACTTTGTTTGCCTCTGATCTTATTTATT
14219180 TATTTATTTTTCATTCTTTGGTTGGATTTCTTAATTG
261 TATTTATTTTTCATTCTTTGGTTGGATTTCTTAATTG
14219217 ATTTTTGGATATAATTGGAGGATTTTAGGTGTTACTTTTTTTTTTTTTTTTTCTTGGAATTGCAT
1 ATTTTTGGATATAATTGGAGGATTTTAGGTGTTACTTTTTTTTTTTTTTTTTCTTGGAATTGCAT
*
14219282 AATCAATGGAGTGTAGAATATTATACTAGTAGTTATGGTTTAGAACATGTGCACGTGCATCTAAA
66 AATCAATGGAGTGCAGAATATTATACTAGTAGTTATGGTTTAGAACATGTGCACGTGCATCTAAA
*
14219347 CATCTATGACGGGTGGCAAACTTTTGTTCTGGTGAAAAGAAAGCAATTTAAGTTTGGTAAAAAGA
131 CATCTATGACGGGTGGCAAACTTTTGTTCTGGCGAAAAGAAAGCAATTTAAGTTTGGTAAAAAGA
14219412 AAATGGGAAAAGAAATCTCCATCATTCATGTTTCAGTACTTTGTTTGCCTCTGATCTTATTTATT
196 AAATGGGAAAAGAAATCTCCATCATTCATGTTTCAGTACTTTGTTTGCCTCTGATCTTATTTATT
14219477 TATTTATTTTTCATTCTTTGGTTGGATTTCTTAATTG
261 TATTTATTTTTCATTCTTTGGTTGGATTTCTTAATTG
14219514 ATTTTTGG
1 ATTTTTGG
14219522 TGAACGTGTA
Statistics
Matches: 300, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
297 300 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.43
Consensus pattern (297 bp):
ATTTTTGGATATAATTGGAGGATTTTAGGTGTTACTTTTTTTTTTTTTTTTTCTTGGAATTGCAT
AATCAATGGAGTGCAGAATATTATACTAGTAGTTATGGTTTAGAACATGTGCACGTGCATCTAAA
CATCTATGACGGGTGGCAAACTTTTGTTCTGGCGAAAAGAAAGCAATTTAAGTTTGGTAAAAAGA
AAATGGGAAAAGAAATCTCCATCATTCATGTTTCAGTACTTTGTTTGCCTCTGATCTTATTTATT
TATTTATTTTTCATTCTTTGGTTGGATTTCTTAATTG
Found at i:14230883 original size:12 final size:12
Alignment explanation
Indices: 14230863--14230893 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14230853 CTTGTAATGT
*
14230863 TGAAGCCGAAGC
1 TGAAACCGAAGC
14230875 TGAAACCGAAGC
1 TGAAACCGAAGC
14230887 TGAAACC
1 TGAAACC
14230894 TTGACCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.26, T:0.10
Consensus pattern (12 bp):
TGAAACCGAAGC
Found at i:14231559 original size:13 final size:13
Alignment explanation
Indices: 14231541--14231567 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14231531 TCCTTAAATT
14231541 TAATTTATTTTTC
1 TAATTTATTTTTC
14231554 TAATTTATTTTTC
1 TAATTTATTTTTC
14231567 T
1 T
14231568 TCTTCATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
TAATTTATTTTTC
Found at i:14237130 original size:2 final size:2
Alignment explanation
Indices: 14237123--14237156 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14237113 TTGCACCAAG
14237123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14237157 CAATATGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14237402 original size:14 final size:14
Alignment explanation
Indices: 14237378--14237414 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14237368 TATTAATATT
14237378 TTTAT-TAAAAATA
1 TTTATCTAAAAATA
14237391 TTTATCTAAAAATA
1 TTTATCTAAAAATA
*
14237405 TATATC-AAAA
1 TTTATCTAAAA
14237415 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTATCTAAAAATA
Found at i:14251810 original size:19 final size:22
Alignment explanation
Indices: 14251776--14251818 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
14251766 GTCTTAGGCC
14251776 ATTTATTATCGAATTT-GTAAA
1 ATTTATTATCGAATTTAGTAAA
14251797 ATTTATT-T-GAATTTAGTAAA
1 ATTTATTATCGAATTTAGTAAA
14251817 AT
1 AT
14251819 AGGAAAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTTATTATCGAATTTAGTAAA
Found at i:14253877 original size:48 final size:48
Alignment explanation
Indices: 14253775--14253877 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
14253765 AATTCCAAAT
* * ** *
14253775 CATCAGCCTCAATGGCTGAATCTGTAAAGCAGGAGGTTACGACTACTC
1 CATCAGTCTCAAAGGCTGAATCAATAAAGCAGGAGGTTAAGACTACTC
* * * * *
14253823 CTTCAGTCTCAAAGGCTGAATCAATAAAGCGGGATGTTAATACTACTG
1 CATCAGTCTCAAAGGCTGAATCAATAAAGCAGGAGGTTAAGACTACTC
14253871 CATCAGT
1 CATCAGT
14253878 AGCATCACCC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (48 bp):
CATCAGTCTCAAAGGCTGAATCAATAAAGCAGGAGGTTAAGACTACTC
Found at i:14256710 original size:80 final size:80
Alignment explanation
Indices: 14256577--14256732 Score: 260
Period size: 80 Copynumber: 1.9 Consensus size: 80
14256567 GAACTAAAGG
* * *
14256577 ATAATGATAAAGTTTCTATATTTTTCGTTTTTGATGATGAAGAAATCATAAAGTTCATGTTTTTC
1 ATAATGATAAAATTTCTATATTTTTCGTGTTTGATGATGAACAAATCATAAAGTTCATGTTTTTC
14256642 TTTCTGGGTATAAGA
66 TTTCTGGGTATAAGA
*
14256657 ATAATGTTAAAATTT-TGATATTTTTCGTGTTTGATGATGAACAAATCATAAAGTTCATGTTTTT
1 ATAATGATAAAATTTCT-ATATTTTTCGTGTTTGATGATGAACAAATCATAAAGTTCATGTTTTT
14256721 CTTTCTGGGTAT
65 CTTTCTGGGTAT
14256733 CTTTCATTTC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
79 1 0.01
80 70 0.99
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (80 bp):
ATAATGATAAAATTTCTATATTTTTCGTGTTTGATGATGAACAAATCATAAAGTTCATGTTTTTC
TTTCTGGGTATAAGA
Found at i:14264942 original size:16 final size:16
Alignment explanation
Indices: 14264921--14264952 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14264911 TCGATTTGAT
14264921 TGATAATGATGATTTA
1 TGATAATGATGATTTA
14264937 TGATAATGATGATTTA
1 TGATAATGATGATTTA
14264953 CGATGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
TGATAATGATGATTTA
Found at i:14274503 original size:14 final size:14
Alignment explanation
Indices: 14274481--14274510 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14274471 AAGGTTTACT
14274481 TCAAAGTAATATAG
1 TCAAAGTAATATAG
*
14274495 TCAAGGTAATATAG
1 TCAAAGTAATATAG
14274509 TC
1 TC
14274511 GTATTGCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (14 bp):
TCAAAGTAATATAG
Found at i:14274552 original size:23 final size:23
Alignment explanation
Indices: 14274522--14274571 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
14274512 TATTGCATCT
* * *
14274522 TGGTCTCAGGACGTGATATAAAG
1 TGGTCTCAGAACATGACATAAAG
14274545 TGGTCTCAGAACATGACATAAAG
1 TGGTCTCAGAACATGACATAAAG
14274568 TGGT
1 TGGT
14274572 ATCATAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGTCTCAGAACATGACATAAAG
Found at i:14290660 original size:2 final size:2
Alignment explanation
Indices: 14290643--14290681 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
14290633 ATACAATCTC
* *
14290643 TA TA -A TA TA TA AA TA TA TA AA TA TA TA TA TA 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
14290682 ACAATTTTTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:14292993 original size:25 final size:25
Alignment explanation
Indices: 14292965--14293014 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14292955 TTTAAATTAA
14292965 CAGTCATCGAAGAAGAGTTAATGCT
1 CAGTCATCGAAGAAGAGTTAATGCT
* **
14292990 CAGTCATTGAAGGGGAGTTAATGCT
1 CAGTCATCGAAGAAGAGTTAATGCT
14293015 AAGTATGCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (25 bp):
CAGTCATCGAAGAAGAGTTAATGCT
Found at i:14293731 original size:3 final size:3
Alignment explanation
Indices: 14293723--14293757 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14293713 CTTAATTGCT
14293723 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14293758 GTTGAAACTG
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):
TAA
Found at i:14298672 original size:3 final size:3
Alignment explanation
Indices: 14298664--14298688 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14298654 ATAGAAAAAG
14298664 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
14298689 AGAACATTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14298856 original size:3 final size:3
Alignment explanation
Indices: 14298848--14298886 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
14298838 TGATAAAGGA
*
14298848 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG TAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14298887 CATTATCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:14305794 original size:12 final size:12
Alignment explanation
Indices: 14305777--14305814 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14305767 AATATAATTT
14305777 AAAATTTTAATA
1 AAAATTTTAATA
*
14305789 AAAATTATAA-A
1 AAAATTTTAATA
*
14305800 TAAATTTTAATA
1 AAAATTTTAATA
14305812 AAA
1 AAA
14305815 TAAATACGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAATTTTAATA
Found at i:14307031 original size:3 final size:3
Alignment explanation
Indices: 14307023--14307052 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
14307013 TGAGAGGATC
14307023 ATG ATG ATG ATG ATG ATG ATG ATTG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG A-TG ATG AT
14307053 TACCATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (3 bp):
ATG
Found at i:14309314 original size:27 final size:27
Alignment explanation
Indices: 14309282--14309353 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
14309272 ATCATCATCA
14309282 GCATCTGCTGGCTCATCAGGGACACCG
1 GCATCTGCTGGCTCATCAGGGACACCG
*
14309309 GCATCTGCTGGCTCATCAGGGGCACCG
1 GCATCTGCTGGCTCATCAGGGACACCG
*
14309336 GCATCTGCTGGCACATCA
1 GCATCTGCTGGCTCATCA
14309354 AGGGCAGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.18, C:0.33, G:0.29, T:0.19
Consensus pattern (27 bp):
GCATCTGCTGGCTCATCAGGGACACCG
Found at i:14318351 original size:26 final size:25
Alignment explanation
Indices: 14318322--14318377 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
14318312 TTTTATTTCA
* *
14318322 AAATAAATTTTTTTAATAAATTATTT
1 AAATAAATATTTTGAAT-AATTATTT
*
14318348 AAATTGAATATTTTGAATAATTATTT
1 AAA-TAAATATTTTGAATAATTATTT
14318374 AAAT
1 AAAT
14318378 TGAAATCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 14 0.54
27 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
AAATAAATATTTTGAATAATTATTT
Found at i:14318378 original size:26 final size:27
Alignment explanation
Indices: 14318331--14318381 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
14318321 AAAATAAATT
*
14318331 TTTTTAATAAATTATTTAAATTGAATA
1 TTTTGAATAAATTATTTAAATTGAATA
14318358 TTTTGAAT-AATTATTTAAATTGAA
1 TTTTGAATAAATTATTTAAATTGAA
14318382 ATCAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (27 bp):
TTTTGAATAAATTATTTAAATTGAATA
Found at i:14325531 original size:11 final size:11
Alignment explanation
Indices: 14325515--14325561 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
14325505 ATAATACGAT
14325515 AATATAATATA
1 AATATAATATA
14325526 AATATAATATA
1 AATATAATATA
* *
14325537 AAAATTAAATAGA
1 AATA-T-AATATA
14325550 AATATAATATA
1 AATATAATATA
14325561 A
1 A
14325562 TTTAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 20 0.67
12 2 0.07
13 8 0.27
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
AATATAATATA
Found at i:14325729 original size:39 final size:39
Alignment explanation
Indices: 14325595--14325734 Score: 105
Period size: 37 Copynumber: 3.6 Consensus size: 39
14325585 ATATAAATTT
* * *
14325595 AATA-AAATAAAAAATTA-AATTT-TATATTTTTATGTC
1 AATATAAATTAAAATTTATAATTTATATATTTTTATATC
* * * * *
14325631 GATATAAATTATAATATATAATTTTTATATAAAATATTATATAC
1 AATATAAATTAAAATTTATAA--TTTATAT--ATTTTTATAT-C
14325675 ATATATAAATT----TTTATAATTTATATATTTTTATATC
1 A-ATATAAATTAAAATTTATAATTTATATATTTTTATATC
14325711 AATATAAATTAAAATTTATAATTT
1 AATATAAATTAAAATTTATAATTT
14325735 TCATAAATAT
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
35 9 0.11
36 5 0.06
37 17 0.22
38 2 0.03
39 17 0.22
40 3 0.04
41 9 0.11
43 7 0.09
44 1 0.01
45 9 0.11
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (39 bp):
AATATAAATTAAAATTTATAATTTATATATTTTTATATC
Found at i:14326860 original size:2 final size:2
Alignment explanation
Indices: 14326853--14326877 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14326843 GTTATATGTA
14326853 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
14326878 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:14326923 original size:2 final size:2
Alignment explanation
Indices: 14326877--14326905 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14326867 TCTCTCTCTC
14326877 TA TA 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 TA TA T
14326906 GTATTTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14327093 original size:25 final size:24
Alignment explanation
Indices: 14327039--14327093 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
14327029 CCACAATGAG
14327039 ATTTGAATTCAAATTCAATTTAAA
1 ATTTGAATTCAAATTCAATTTAAA
* * *
14327063 AATTGAGATTCGAAATTCGATTT-GA
1 ATTTGA-ATTC-AAATTCAATTTAAA
14327088 ATTTGA
1 ATTTGA
14327094 TCGAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 5 0.20
25 10 0.40
26 10 0.40
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (24 bp):
ATTTGAATTCAAATTCAATTTAAA
Found at i:14327273 original size:9 final size:9
Alignment explanation
Indices: 14327259--14327288 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
14327249 AATATTTTAT
14327259 TAATTAAAA
1 TAATTAAAA
14327268 TAATTAAAA
1 TAATTAAAA
14327277 TATATTAAAA
1 TA-ATTAAAA
14327287 TA
1 TA
14327289 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:14327285 original size:10 final size:10
Alignment explanation
Indices: 14327261--14327290 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14327251 TATTTTATTA
14327261 ATTAAAATA-
1 ATTAAAATAT
14327270 ATTAAAATAT
1 ATTAAAATAT
14327280 ATTAAAATAT
1 ATTAAAATAT
14327290 A
1 A
14327291 AAATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:14327292 original size:26 final size:26
Alignment explanation
Indices: 14327245--14327294 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14327235 GAGCTCAAGT
* *
14327245 TTAAAATATTTTATTAATTAAAATAA
1 TTAAAATATATTATAAATTAAAATAA
14327271 TTAAAATATATTA-AAATATAAAAT
1 TTAAAATATATTATAAAT-TAAAAT
14327295 TTTTATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAAAATATATTATAAATTAAAATAA
Found at i:14328488 original size:21 final size:22
Alignment explanation
Indices: 14328455--14328495 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14328445 TTGGGGAATC
14328455 TTTTAATTTTAATCAAAAATTA
1 TTTTAATTTTAATCAAAAATTA
*
14328477 TTTTAA-TTTAATTAAAAAT
1 TTTTAATTTTAATCAAAAAT
14328496 AAAAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAATTTTAATCAAAAATTA
Found at i:14339141 original size:2 final size:2
Alignment explanation
Indices: 14339134--14339167 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14339124 GGACTGTGGA
14339134 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14339168 CAGCTCCTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14341392 original size:11 final size:11
Alignment explanation
Indices: 14341376--14341439 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
14341366 AAAAAGTGTG
*
14341376 AATTTAAGTTT
1 AATTTAAATTT
14341387 AATTTAAAATTT
1 AATTT-AAATTT
14341399 ATTATTTAAAATTT
1 A--ATTT-AAATTT
14341413 AATTTAAATTT
1 AATTTAAATTT
*
14341424 GA-TTAAATTTT
1 AATTTAAA-TTT
14341435 AATTT
1 AATTT
14341440 TTAAATTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 5 0.11
11 16 0.36
12 12 0.27
14 12 0.27
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:14341435 original size:22 final size:23
Alignment explanation
Indices: 14341404--14341449 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
14341394 AATTTATTAT
14341404 TTAAAATTTAA-TTTAAATTTGA
1 TTAAAATTTAATTTTAAATTTGA
*
14341426 TTAAATTTTAATTTTTAAATTTGA
1 TTAAAATTTAA-TTTTAAATTTGA
14341450 GTTTGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTAAAATTTAATTTTAAATTTGA
Found at i:14341636 original size:23 final size:21
Alignment explanation
Indices: 14341595--14341643 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 21
14341585 ATATATAAAC
*
14341595 AAAATAATAATTTTTAAA-TT
1 AAAATAATAATTTTAAAATTT
14341615 AAAATAATAAATATATTAAAATTT
1 AAAATAAT-AAT-T-TTAAAATTT
14341639 AAAAT
1 AAAAT
14341644 TTTGATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.33
21 3 0.12
22 1 0.04
23 5 0.21
24 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATAATAATTTTAAAATTT
Found at i:14345754 original size:2 final size:2
Alignment explanation
Indices: 14345749--14345785 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14345739 CTTCCCAAAC
14345749 AT AT AT 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 AT AT AT A
14345786 ACAATAACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14346904 original size:2 final size:2
Alignment explanation
Indices: 14346897--14346924 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14346887 CACTTTCATG
14346897 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14346925 AAATCCAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14351720 original size:9 final size:9
Alignment explanation
Indices: 14351698--14351797 Score: 64
Period size: 9 Copynumber: 11.1 Consensus size: 9
14351688 TGATTTTTAT
14351698 TTAA-TAAA
1 TTAATTAAA
14351706 -TAATTAAA
1 TTAATTAAA
14351714 TTAATTAAA
1 TTAATTAAA
**
14351723 TATTTTTAAA
1 T-TAATTAAA
14351733 -TAATTAATA
1 TTAATTAA-A
* *
14351742 ATAATTGAA
1 TTAATTAAA
*
14351751 TCAATTAAAA
1 TTAATT-AAA
* *
14351761 TTAATTTGAT
1 TTAA-TTAAA
*
14351771 TTAATTAAT
1 TTAATTAAA
14351780 TTAATTAAA
1 TTAATTAAA
14351789 -TAATTAAA
1 TTAATTAAA
14351797 T
1 T
14351798 GTTTTTATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
7 3 0.04
8 17 0.24
9 27 0.38
10 22 0.31
11 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (9 bp):
TTAATTAAA
Found at i:14351765 original size:19 final size:18
Alignment explanation
Indices: 14351731--14351796 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
14351721 AATATTTTTA
14351731 AATAATTAATAA-TAATTG
1 AATAATTAA-AATTAATTG
14351749 AATCAATTAAAATTAATTTG
1 AAT-AATTAAAATTAA-TTG
* * *
14351769 ATTTAATT-AATTTAATTA
1 A-ATAATTAAAATTAATTG
14351787 AATAATTAAA
1 AATAATTAAA
14351797 TGTTTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
19 15 0.38
20 8 0.21
21 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (18 bp):
AATAATTAAAATTAATTG
Found at i:14352013 original size:18 final size:18
Alignment explanation
Indices: 14351990--14352024 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14351980 ATTAAAAATC
*
14351990 AATCGAATTAATAAATTT
1 AATCGAATTAAAAAATTT
*
14352008 AATCGATTTAAAAAATT
1 AATCGAATTAAAAAATT
14352025 AATTATAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
AATCGAATTAAAAAATTT
Found at i:14361290 original size:23 final size:24
Alignment explanation
Indices: 14361252--14361323 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
14361242 GCATAACCTT
14361252 CATTGAGAAAAAAATAATAACCCA
1 CATTGAGAAAAAAATAATAACCCA
14361276 CATTGAG-AAAAAATAATAACCCA
1 CATTGAGAAAAAAATAATAACCCA
14361299 CATTGAGAAAAAAATAATAACCCA
1 CATTGAGAAAAAAATAATAACCCA
14361323 C
1 C
14361324 GATTAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
23 23 0.49
24 24 0.51
ACGTcount: A:0.57, C:0.18, G:0.08, T:0.17
Consensus pattern (24 bp):
CATTGAGAAAAAAATAATAACCCA
Found at i:14361332 original size:23 final size:23
Alignment explanation
Indices: 14361252--14361334 Score: 123
Period size: 23 Copynumber: 3.5 Consensus size: 23
14361242 GCATAACCTT
14361252 CATTGAGAAAAAAATAATAACCCA
1 CATTGA-AAAAAAATAATAACCCA
*
14361276 CATTGAGAAAAAATAATAACCCA
1 CATTGAAAAAAAATAATAACCCA
14361299 CATTGAGAAAAAAATAATAACCCA
1 CATTGA-AAAAAAATAATAACCCA
14361323 CGATT-AAAAAAA
1 C-ATTGAAAAAAA
14361335 CCAAACAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
23 28 0.51
24 24 0.44
25 3 0.05
ACGTcount: A:0.59, C:0.16, G:0.08, T:0.17
Consensus pattern (23 bp):
CATTGAAAAAAAATAATAACCCA
Found at i:14361333 original size:24 final size:23
Alignment explanation
Indices: 14361259--14361334 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 23
14361249 CTTCATTGAG
*
14361259 AAAAAAATAATAACCCACATTGA
1 AAAAAAATAATAACCCACATTAA
* *
14361282 GAAAAAATAATAACCCACATTGAG
1 AAAAAAATAATAACCCACATT-AA
14361306 AAAAAAATAATAACCCACGATTAA
1 AAAAAAATAATAACCCAC-ATTAA
14361330 AAAAA
1 AAAAA
14361335 CCAAACAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 20 0.43
24 23 0.50
25 3 0.07
ACGTcount: A:0.62, C:0.16, G:0.07, T:0.16
Consensus pattern (23 bp):
AAAAAAATAATAACCCACATTAA
Found at i:14366464 original size:2 final size:2
Alignment explanation
Indices: 14366457--14366493 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14366447 TCTATCTATC
14366457 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
14366494 TCATTTCATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14370337 original size:2 final size:2
Alignment explanation
Indices: 14370330--14370356 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14370320 TTTATGTAGG
14370330 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14370357 GTAAGTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14384813 original size:7 final size:7
Alignment explanation
Indices: 14384790--14384830 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
14384780 AAAGACAAAT
14384790 ATAA-AA
1 ATAATAA
14384796 ATAAT-A
1 ATAATAA
14384802 ATAATAA
1 ATAATAA
14384809 ATAATAA
1 ATAATAA
*
14384816 ATAACAA
1 ATAATAA
*
14384823 AAAATAA
1 ATAATAA
14384830 A
1 A
14384831 AAATGGCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
6 10 0.33
7 20 0.67
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
ATAATAA
Found at i:14391088 original size:10 final size:10
Alignment explanation
Indices: 14391071--14391103 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
14391061 TTTTCTTAAA
14391071 TTTT-AATTT
1 TTTTCAATTT
*
14391080 TTTTCAATTA
1 TTTTCAATTT
14391090 TTTTCAATTT
1 TTTTCAATTT
14391100 TTTT
1 TTTT
14391104 GTTTCGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTCAATTT
Found at i:14401278 original size:14 final size:14
Alignment explanation
Indices: 14401259--14401285 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14401249 TTAGTTAAAG
14401259 AAAAATCAAAATAA
1 AAAAATCAAAATAA
14401273 AAAAATCAAAATA
1 AAAAATCAAAATA
14401286 GAAAGAAATG
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:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATCAAAATAA
Found at i:14401616 original size:175 final size:175
Alignment explanation
Indices: 14401322--14401892 Score: 883
Period size: 175 Copynumber: 3.2 Consensus size: 175
14401312 TTATGTAGGA
*
14401322 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGA
* *
14401387 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGAGGAAAATTGATACTTT
66 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTT
*
14401452 CAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAAGG
131 CAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTCTAAGG
* *
14401497 AAAATTGATACCTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGA
*
14401562 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTT
66 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTT
* *
14401627 CAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGG
131 CAACTTTTCCTCAAAAATATTTTTTTTGAAAATTT-ATTTCTAAGG
* * * *
14401673 AAAATTGATACTTTCAACTTTTCCTCGAAAATCTTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCC-CCAAAA--ATATTTTTTGGAAATTTATTTTTAAGGAAAAT
* *
14401738 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAACTTTGATCT-TAAGGAAAATTGA
63 TGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTTGAAA-TTT-ATTTCTAAGGAAAATTGA
* * * * *
14401802 TACTTTCAATTTTTCCTCGAAAATCTTTTTTTTTGAAAATTTATTTTTAAGA
125 TACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTTGAAAATTTATTTCTAAGG
14401854 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
14401893 TTTGAAAAAA
Statistics
Matches: 360, Mismatches: 28, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
175 157 0.44
176 32 0.09
177 5 0.01
178 7 0.02
179 55 0.15
180 17 0.05
181 69 0.19
182 18 0.05
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (175 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTT
CAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTCTAAGG
Found at i:14401900 original size:60 final size:59
Alignment explanation
Indices: 14401322--14401900 Score: 810
Period size: 59 Copynumber: 9.8 Consensus size: 59
14401312 TTATGTAGGA
* *
14401322 AAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
* * *
14401379 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTG-AAATTTATTTCTGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTTATTTTTAAGG
*
14401438 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
* * *
14401497 AAAATTGATACCTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
* *
14401554 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
* * **
14401613 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTT-ATTTTTAAGG
* * *
14401673 AAAATTGATACTTTCAACTTTTCCTCGAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTTGAAAATTTATTTTTAAGG
* * *
14401733 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAACTTTGA-TCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGAAAATTT-ATTTTTAAGG
* * * * *
14401794 AAAATTGATACTTTCAATTTTTCCTCGAAAATCTTTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTTGAAAATTTATTTTTAAGG
14401854 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAA
14401901 AATTTGATTT
Statistics
Matches: 472, Mismatches: 36, Indels: 25
0.89 0.07 0.05
Matches are distributed among these distances:
57 84 0.18
58 9 0.02
59 162 0.34
60 149 0.32
61 67 0.14
62 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
Found at i:14401980 original size:17 final size:18
Alignment explanation
Indices: 14401951--14401994 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
14401941 ATAAATGAAT
14401951 AATAAAAAGTAAAACAAA
1 AATAAAAAGTAAAACAAA
*
14401969 AATAAAAA-TAAAACTAA
1 AATAAAAAGTAAAACAAA
*
14401986 GATAAAAAG
1 AATAAAAAG
14401995 AATATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (18 bp):
AATAAAAAGTAAAACAAA
Found at i:14402033 original size:12 final size:12
Alignment explanation
Indices: 14402016--14402050 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
14402006 AACCTAATAT
14402016 AATAAATAAACA
1 AATAAATAAACA
14402028 AATAAATAAACA
1 AATAAATAAACA
14402040 AATAAA-AAACA
1 AATAAATAAACA
14402051 TTCAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (12 bp):
AATAAATAAACA
Found at i:14402526 original size:31 final size:31
Alignment explanation
Indices: 14402491--14402555 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
14402481 ACTGGGTTGA
* *
14402491 TCGCCGAAAACTTCAAGA-TTGGCCGGAATAT
1 TCGCCGAAAAATTCAA-ACTTCGCCGGAATAT
*
14402522 TCGCCGAAAAATTCAAACTTCGCCGGAATGT
1 TCGCCGAAAAATTCAAACTTCGCCGGAATAT
14402553 TCG
1 TCG
14402556 TCGGAATCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (31 bp):
TCGCCGAAAAATTCAAACTTCGCCGGAATAT
Found at i:14403013 original size:9 final size:8
Alignment explanation
Indices: 14402992--14403029 Score: 58
Period size: 9 Copynumber: 4.5 Consensus size: 8
14402982 TTAGATAAGT
14402992 AAAAATAA
1 AAAAATAA
14403000 AAAAATAA
1 AAAAATAA
14403008 ATAAAATAA
1 A-AAAATAA
14403017 AAAAGATAA
1 AAAA-ATAA
14403026 AAAA
1 AAAA
14403030 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 12 0.43
9 16 0.57
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:14403015 original size:17 final size:18
Alignment explanation
Indices: 14402993--14403026 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14402983 TAGATAAGTA
14402993 AAAATAAAAAA-ATAAAT
1 AAAATAAAAAAGATAAAT
14403010 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
14403027 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAT
Found at i:14403071 original size:16 final size:16
Alignment explanation
Indices: 14403052--14403156 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
14403042 TATTAGTAAT
14403052 AATACATAAATAATAA
1 AATACATAAATAATAA
*
14403068 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
14403086 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
14403103 AATATATACAT-ATATT
1 AATACATAAATAATA-A
14403119 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
14403132 AATA-ATAAATAATAC
1 AATACATAAATAATAA
14403147 AATACATAAA
1 AATACATAAA
14403157 ATACAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
15 7 0.10
16 27 0.39
17 9 0.13
18 12 0.17
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:14403079 original size:79 final size:79
Alignment explanation
Indices: 14402999--14403152 Score: 172
Period size: 79 Copynumber: 2.0 Consensus size: 79
14402989 AGTAAAAATA
* * * *
14402999 AAAAAATAA-ATAAAATAAAAAAGATAAA-AAATATATATA-TACATA-TTAGTAATAATACATA
1 AAAAAATAACAAAAAATAAAAAA-ATAAATAAATACATATATTA-ATACATAATAATAATA-ATA
14403060 AATAATAAAATACACAT
63 AATAATAAAATACACAT
* * * *
14403077 AAATATTAACAAAAAATAAATAAATAAATATATACATATATTAATACATAATAATAATAATAAAT
1 AAAAAATAACAAAAAATAAAAAAATAAATAAATACATATATTAATACATAATAATAATAATAAAT
*
14403142 AATACAATACA
66 AATAAAATACA
14403153 TAAAATACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
78 12 0.19
79 39 0.62
80 12 0.19
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (79 bp):
AAAAAATAACAAAAAATAAAAAAATAAATAAATACATATATTAATACATAATAATAATAATAAAT
AATAAAATACACAT
Found at i:14403081 original size:83 final size:78
Alignment explanation
Indices: 14402994--14403152 Score: 171
Period size: 83 Copynumber: 2.0 Consensus size: 78
14402984 AGATAAGTAA
14402994 AAATA-AAAAAATAAATAAAATAAAAAAGATA-AAAAATATA-TATATACATATTAGTAATAATA
1 AAATATAAAAAA-AAAT-AAATAAAAAA-ATATAAAAATATATTA-ATACATA--A-TAATAATA
14403056 CATAAATAATAAAATACACAT
59 -ATAAATAATAAAATACACAT
* * * *
14403077 AAATATTAACAAAAAATAAATAAATAAATATATACATATATTAATACATAATAATAATAATAAAT
1 AAATA-TAAAAAAAAATAAATAAAAAAATATAAAAATATATTAATACATAATAATAATAATAAAT
*
14403142 AATACAATACA
65 AATAAAATACA
14403153 TAAAATACAA
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
79 16 0.24
80 8 0.12
81 1 0.01
82 3 0.04
83 28 0.42
84 6 0.09
85 5 0.07
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (78 bp):
AAATATAAAAAAAAATAAATAAAAAAATATAAAAATATATTAATACATAATAATAATAATAAATA
ATAAAATACACAT
Found at i:14403130 original size:35 final size:34
Alignment explanation
Indices: 14403022--14403147 Score: 100
Period size: 35 Copynumber: 3.6 Consensus size: 34
14403012 AATAAAAAAG
* *
14403022 ATAAA-AAATATATATATACATATTAGTAATAATA
1 ATAAATAAATAAATATATACATA-TATTAATAATA
* * *
14403056 CATAAAT-AATAAA-ATACACATAAATATTAACAAAAA
1 -ATAAATAAATAAATATATACAT--ATATTAA-TAATA
14403092 ATAAATAAATAAATATATACATATATTAATACATA
1 ATAAATAAATAAATATATACATATATTAATA-ATA
14403127 AT-AATAATAATAAATA-ATACA
1 ATAAAT-A-AATAAATATATACA
14403148 ATACATAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
34 11 0.15
35 38 0.51
36 18 0.24
37 7 0.09
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (34 bp):
ATAAATAAATAAATATATACATATATTAATAATA
Found at i:14403242 original size:20 final size:20
Alignment explanation
Indices: 14403217--14403293 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
14403207 CTTACCCATT
14403217 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
14403237 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
14403257 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
* *
14403277 TGGGCCTGACCCAATTG
1 TGGGCCAGGCCCAATTG
14403294 GGTGTCTACA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (20 bp):
TGGGCCAGGCCCAATTGATC
Found at i:14403394 original size:1 final size:1
Alignment explanation
Indices: 14403390--14403437 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
14403380 CATTTTTTGG
* * * * *
14403390 TTTTTTTGTTGTTTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14403438 ACCAAAGCTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:14403395 original size:8 final size:8
Alignment explanation
Indices: 14403382--14403434 Score: 74
Period size: 8 Copynumber: 6.9 Consensus size: 8
14403372 CAACTCAACA
*
14403382 TTTTTTGG
1 TTTTTTTG
14403390 TTTTTTTG
1 TTTTTTTG
*
14403398 -TTGTTT-
1 TTTTTTTG
14403404 TTTTTTTG
1 TTTTTTTG
14403412 TTTTTTTG
1 TTTTTTTG
14403420 TTTTTTTG
1 TTTTTTTG
14403428 TTTTTTT
1 TTTTTTT
14403435 TTTACCAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
7 10 0.25
8 30 0.75
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:14403403 original size:11 final size:11
Alignment explanation
Indices: 14403389--14403426 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
14403379 ACATTTTTTG
14403389 GTTTTTTTGTT
1 GTTTTTTTGTT
*
14403400 GTTTTTTTTTT
1 GTTTTTTTGTT
14403411 GTTTTTTTGTT
1 GTTTTTTTGTT
14403422 -TTTTT
1 GTTTTT
14403427 GTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
GTTTTTTTGTT
Found at i:14403409 original size:22 final size:22
Alignment explanation
Indices: 14403382--14403432 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
14403372 CAACTCAACA
14403382 TTTTTTGGTTTTTTTGTTGTTT
1 TTTTTTGGTTTTTTTGTTGTTT
* *
14403404 TTTTTTTGTTTTTTTGTTTTTT
1 TTTTTTGGTTTTTTTGTTGTTT
14403426 TGTTTTT
1 T-TTTTT
14403433 TTTTTACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (22 bp):
TTTTTTGGTTTTTTTGTTGTTT
Found at i:14403570 original size:41 final size:41
Alignment explanation
Indices: 14403444--14403940 Score: 650
Period size: 42 Copynumber: 12.0 Consensus size: 41
14403434 TTTTACCAAA
* * * *
14403444 GCTCTTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATT
14403487 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
* * *
14403529 GCTCCTCTAAACAGAGGTACCATGATTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
14403570 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTG-GAAAGTAAATT
* *
14403610 GCTTCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATT
14403652 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGG-AAAGTAAATT
*
14403692 GCTCCTCTAAACAGAGGCACCATGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
* **
14403734 GCTCCTCTAAACAGAGGTACCACGACTTTAAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GGAAAGTAAATT
* *
14403776 GCTTCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
14403817 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
14403858 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG--AAAGTAAATT
*
14403901 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTG-GAAAGTAAAT
14403941 ACTCCTAGAC
Statistics
Matches: 410, Mismatches: 27, Indels: 36
0.87 0.06 0.08
Matches are distributed among these distances:
39 5 0.01
40 64 0.16
41 132 0.32
42 145 0.35
43 60 0.15
44 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:14403667 original size:82 final size:81
Alignment explanation
Indices: 14403444--14403940 Score: 642
Period size: 82 Copynumber: 6.0 Consensus size: 81
14403434 TTTTACCAAA
* * * *
14403444 GCTCTTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCA--A
*
14403509 CGACTTTTG-GAAAGTAAATT
62 CGAC-TTTGAAAAAGTAAATT
* * * *
14403529 GCTCCTCTAAACAGAGGTACCATGATTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-A
14403594 C-TTGAAAAAGTAAATT
65 CTTTGAAAAAGTAAATT
*
14403610 GCTTCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
*
14403675 AC-TTGGAAAAGTAAATT
64 ACTTTGAAAAAGTAAATT
* * *
14403692 GCTCCTCTAAACAGAGGCACCATGACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
*
14403757 GACTTTAAAAAAGTAAATT
63 GACTTTGAAAAAGTAAATT
* * * *
14403776 GCTTCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
*
14403841 ACTTTG-GAAAGTAAATT
64 ACTTTGAAAAAGTAAATT
14403858 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCACCACGACTTT-G-AAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
14403923 AACTTTGAAAAAGTAAAT
64 -ACTTTGAAAAAGTAAAT
14403941 ACTCCTAGAC
Statistics
Matches: 366, Mismatches: 33, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
80 3 0.01
81 40 0.11
82 142 0.39
83 77 0.21
84 80 0.22
85 24 0.07
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
TTTGAAAAAGTAAATT
Found at i:14409369 original size:100 final size:99
Alignment explanation
Indices: 14409264--14409466 Score: 347
Period size: 100 Copynumber: 2.0 Consensus size: 99
14409254 CAAAAATATT
14409264 TTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTT
1 TTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA--TTTTT
*
14409328 TTGAAATTTATTTC-AAGGAAAATTGATACTTTCAAC
63 TGGAAATTTATTTCTAAGGAAAATTGATACTTTCAAC
*
14409364 TTTTTTTGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGG
1 TTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGG
14409429 AAATTTATTTCTAAGGAAAATTGATACTTTCAAC
66 AAATTTATTTCTAAGGAAAATTGATACTTTCAAC
14409463 TTTT
1 TTTT
14409467 CCTCAAAAAT
Statistics
Matches: 99, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
98 18 0.18
99 26 0.26
100 48 0.48
101 7 0.07
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (99 bp):
TTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGG
AAATTTATTTCTAAGGAAAATTGATACTTTCAAC
Found at i:14409375 original size:41 final size:42
Alignment explanation
Indices: 14409323--14409410 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
14409313 TAAAAATATT
14409323 TTTTTTTGAAATTTA-TTTCAAGGAAAATTGATACTTTCAAC
1 TTTTTTTGAAATTTATTTTCAAGGAAAATTGATACTTTCAAC
*
14409364 TTTTTTTGAAATTTATTTTTAAGGAAAATTGATACTTTCAAC
1 TTTTTTTGAAATTTATTTTCAAGGAAAATTGATACTTTCAAC
14409406 TTTTT
1 TTTTT
14409411 CCCAAAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 15 0.33
42 30 0.67
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (42 bp):
TTTTTTTGAAATTTATTTTCAAGGAAAATTGATACTTTCAAC
Found at i:14409393 original size:58 final size:56
Alignment explanation
Indices: 14409007--14409367 Score: 626
Period size: 58 Copynumber: 6.4 Consensus size: 56
14408997 TTTTTTTTGT
14409007 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTT-TA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTT-GAAATTTATTTCTA
14409063 A-GAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTGAAATTTATTT-TA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTCTA
14409116 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTGAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTCTA
14409171 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTCTA
14409227 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATA--TTTTTTTGAAATTTATTTCTA
14409285 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTC-A
1 AGGAAAATTGATACTTTCAACTTTTCCC-AAAAATA--TTTTTTTGAAATTTATTTCTA
14409343 AGGAAAATTGATACTTTCAACTTTT
1 AGGAAAATTGATACTTTCAACTTTT
14409368 TTTGAAATTT
Statistics
Matches: 299, Mismatches: 0, Indels: 10
0.97 0.00 0.03
Matches are distributed among these distances:
53 14 0.05
54 56 0.19
55 70 0.23
56 56 0.19
58 75 0.25
59 28 0.09
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (56 bp):
AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTCTA
Done.