Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 24 of 29
Found at i:3906468 original size:22 final size:22
Alignment explanation
Indices: 3906443--3906484 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3906433 CATTAGTTTA
* * *
3906443 ATTAATTTAATTTGTTTAATGG
1 ATTAAATTAAATTATTTAATGG
3906465 ATTAAATTAAATTATTTAAT
1 ATTAAATTAAATTATTTAAT
3906485 TAATAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
ATTAAATTAAATTATTTAATGG
Found at i:3906511 original size:15 final size:16
Alignment explanation
Indices: 3906473--3906523 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
3906463 GGATTAAATT
3906473 AAATTAT-TTAATTAA
1 AAATTATATTAATTAA
*
3906488 TAATT-TATTAA-TAA
1 AAATTATATTAATTAA
3906502 AAATTATATTTAACTTAA
1 AAATTATA-TTAA-TTAA
3906520 AAAT
1 AAAT
3906524 ATAATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 8 0.28
15 10 0.34
16 4 0.14
18 7 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTATATTAATTAA
Found at i:3906558 original size:28 final size:27
Alignment explanation
Indices: 3906518--3906571 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
3906508 TATTTAACTT
* *
3906518 AAAAATATAATTTTTAAT-ATATCACTA
1 AAAAATA-AAATTTAAATCATATCACTA
3906545 AAAAATTAAAATTTAAATCATATCACT
1 AAAAA-TAAAATTTAAATCATATCACT
3906572 TATAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAATAAAATTTAAATCATATCACTA
Found at i:3906662 original size:20 final size:20
Alignment explanation
Indices: 3906637--3906677 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3906627 TTGTTAACTT
*
3906637 TTTTTTA-TCATTTTATCATA
1 TTTTTTACTAATTTTAT-ATA
3906657 TTTTTTACTAATTTTATATA
1 TTTTTTACTAATTTTATATA
3906677 T
1 T
3906678 ATCATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTTACTAATTTTATATA
Found at i:3908009 original size:22 final size:22
Alignment explanation
Indices: 3907982--3908035 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
3907972 AAAATTTTAA
3907982 AAATATTTTTAT-ATTAATATTT
1 AAATATTTTTATAATTAA-ATTT
*
3908004 ATATA-TTTTATAATTAAATTT
1 AAATATTTTTATAATTAAATTT
3908025 AAATAATTTTT
1 AAAT-ATTTTT
3908036 TTGATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 13 0.48
22 10 0.37
23 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AAATATTTTTATAATTAAATTT
Found at i:3908228 original size:20 final size:19
Alignment explanation
Indices: 3908208--3908245 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3908198 AAATATCTTA
3908208 AAAT-TTATATAATAAAATT
1 AAATATTATATAA-AAAATT
*
3908227 AATTATTATATAAAAAATT
1 AAATATTATATAAAAAATT
3908246 TCTAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATATTATATAAAAAATT
Found at i:3909955 original size:16 final size:17
Alignment explanation
Indices: 3909934--3909967 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3909924 TAAATTTGAG
3909934 TAAATATTAAATA-AAA
1 TAAATATTAAATATAAA
*
3909950 TAAATATTTAATATAAA
1 TAAATATTAAATATAAA
3909967 T
1 T
3909968 TTATTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATATTAAATATAAA
Found at i:3909997 original size:20 final size:20
Alignment explanation
Indices: 3909980--3910018 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
3909970 ATTAATTTTT
3909980 AAAATTAT-TTATATATTTAA
1 AAAATTATATT-TATATTTAA
3910000 AAAATTATATTTATATTTA
1 AAAATTATATTTATATTTA
3910019 TATCTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATTATATTTATATTTAA
Found at i:3910849 original size:32 final size:32
Alignment explanation
Indices: 3910782--3910847 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
3910772 GATTTGATAA
**
3910782 TTTATTTTAATATTTAAAAATATTTAAAATAT
1 TTTATTTTAATATTTAAAAATAAATAAAATAT
**
3910814 TTTATTTT-ATATTTAAATTTAAATAAAATAT
1 TTTATTTTAATATTTAAAAATAAATAAAATAT
3910845 TTT
1 TTT
3910848 TAATTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TTTATTTTAATATTTAAAAATAAATAAAATAT
Found at i:3911724 original size:422 final size:422
Alignment explanation
Indices: 3910940--3911786 Score: 1480
Period size: 422 Copynumber: 2.0 Consensus size: 422
3910930 GCCTCGTGAT
* *
3910940 ACTTAGCTAGGGCGGGATCTTTCACCTTTACGTGCCATTGACCTGGTTGGCGACCAGTTGCGAGT
1 ACTTAGCTAGGGCGAGATCTTTCACCTCTACGTGCCATTGACCTGGTTGGCGACCAGTTGCGAGT
* *
3911005 CCGTATAGGTTAACAGGCTGTCGGCTCGCAAAGTTCTTGCAAGTTTCAAGCCGGCTATCAGGGTT
66 CCGTATAGGTTAACAGGCGGTCGGCTCGCAAAGTTCTTGCAAGTTTCAAGCCGGCTATCAGGGCT
* *
3911070 TTGTATTCAGCGATATTAGTGGTGAAACCGAAAGACAAGTCGTACTACCATTCCTGTCCCTGTGG
131 TCGTATTCAGCGATATTAGTGGTGAAACCGAAAGACAAGTCGTACTACCATTCCTGTCCCTGTAG
* **
3911135 GTTAACCAATACCACTTCGGCACCTGATCCTCCCTTAGTCGATGATCCATCGACATACAGTGTCC
196 GTCAACCAATACCACTTCGGCACCTGATCCTCCCTTAGTCGATGATCCATCGACATACAGCATCC
*
3911200 ACTGGTTGTCCAATGTATCGTTTACGGGTCGTGGTTCTGATTCTTTTGCGATGGGTTATCTCACG
261 ACTGGTTGTCCAATGTATCGTTTACGGGTCGTGGTTCTGATTCTTCTGCGATGGGTTATCTCACG
*
3911265 GTTTCCACTGTCAGGTCAGTGGTAAAGGAGCATTCAGCTATAAAATCGGCCAAGACTTGGGCCTT
326 GTTTCCACTGTCAGGTCAGTAGTAAAGGAGCATTCAGCTATAAAATCGGCCAAGACTTGGGCCTT
*
3911330 GATTGACTTCCTAG-GGAAGTAATTAAGATCGA
391 GATTGACTT-CTAGAGGAAGTAATTAAGACCGA
* *
3911362 ACTTAGCTTGGGCGAGATCTTTCACCTCTACGTGCCATTGACCTGGTTGGCGACCATTTGCGAGT
1 ACTTAGCTAGGGCGAGATCTTTCACCTCTACGTGCCATTGACCTGGTTGGCGACCAGTTGCGAGT
3911427 CCGTATAGGTTAACAGGCGGTCGGCTCGCAAAGTTCTTGCAAGTTTCAAGCCGGCTATCAGGGCT
66 CCGTATAGGTTAACAGGCGGTCGGCTCGCAAAGTTCTTGCAAGTTTCAAGCCGGCTATCAGGGCT
*
3911492 TCGTATTCAGCGATATTAGTGGTGAAACCGAAGGACAAGTCGTACTACCATTCCTGTCCCTGTAG
131 TCGTATTCAGCGATATTAGTGGTGAAACCGAAAGACAAGTCGTACTACCATTCCTGTCCCTGTAG
* *
3911557 GTCAACCAATACCACTTCGGCACCTGATCCTCCCTTGGTCGATGATCCATTGACATACAGCATCC
196 GTCAACCAATACCACTTCGGCACCTGATCCTCCCTTAGTCGATGATCCATCGACATACAGCATCC
* *
3911622 ACTGGTTGTCCAATGTATCGTTTGCGGGTCGTGGTTCTGATTCTTCTGTGATGGGTTATCTCACG
261 ACTGGTTGTCCAATGTATCGTTTACGGGTCGTGGTTCTGATTCTTCTGCGATGGGTTATCTCACG
3911687 GTTTCCACTGTCAGGTCAGTAGTAAAGGAGCATTCAGCTATAAAATCGGCCAAGACTTGGGCCTT
326 GTTTCCACTGTCAGGTCAGTAGTAAAGGAGCATTCAGCTATAAAATCGGCCAAGACTTGGGCCTT
** *
3911752 GATTTCCTTCTTGAGGAAGTAATTAAGACCGA
391 GATTGACTTCTAGAGGAAGTAATTAAGACCGA
3911784 ACT
1 ACT
3911787 CGTTCAGTTC
Statistics
Matches: 402, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
421 3 0.01
422 399 0.99
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (422 bp):
ACTTAGCTAGGGCGAGATCTTTCACCTCTACGTGCCATTGACCTGGTTGGCGACCAGTTGCGAGT
CCGTATAGGTTAACAGGCGGTCGGCTCGCAAAGTTCTTGCAAGTTTCAAGCCGGCTATCAGGGCT
TCGTATTCAGCGATATTAGTGGTGAAACCGAAAGACAAGTCGTACTACCATTCCTGTCCCTGTAG
GTCAACCAATACCACTTCGGCACCTGATCCTCCCTTAGTCGATGATCCATCGACATACAGCATCC
ACTGGTTGTCCAATGTATCGTTTACGGGTCGTGGTTCTGATTCTTCTGCGATGGGTTATCTCACG
GTTTCCACTGTCAGGTCAGTAGTAAAGGAGCATTCAGCTATAAAATCGGCCAAGACTTGGGCCTT
GATTGACTTCTAGAGGAAGTAATTAAGACCGA
Found at i:3915656 original size:2 final size:2
Alignment explanation
Indices: 3915649--3915679 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3915639 AATGTGAGTC
3915649 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 T
3915680 TTTTCAAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3915710 original size:2 final size:2
Alignment explanation
Indices: 3915703--3915729 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3915693 AAAGTTCTTT
3915703 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 T
3915730 GGAGGATCGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3915834 original size:2 final size:2
Alignment explanation
Indices: 3915827--3915852 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3915817 TACTTTTCTG
3915827 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
3915853 TACATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3919889 original size:3 final size:3
Alignment explanation
Indices: 3919881--3919923 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
3919871 ATTCTAATTG
* *
3919881 TTA TTA TTA TGA -TA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3919924 TTGGAGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3931966 original size:30 final size:30
Alignment explanation
Indices: 3931930--3931993 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
3931920 TTAAAGCTCC
3931930 GAACAAAAAATGCCTACCAACATAGTTGTG
1 GAACAAAAAATGCCTACCAACATAGTTGTG
3931960 GAACAAAAAATGCCTACCAACATAGTTGTG
1 GAACAAAAAATGCCTACCAACATAGTTGTG
3931990 GAAC
1 GAAC
3931994 TCCAGTCCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (30 bp):
GAACAAAAAATGCCTACCAACATAGTTGTG
Found at i:3936330 original size:18 final size:17
Alignment explanation
Indices: 3936291--3936330 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
3936281 GCCGGTTTTT
*
3936291 TTTTTTTTCATATTTAG
1 TTTTTCTTCATATTTAG
*
3936308 CTTTTCTTCTATATTTAG
1 TTTTTCTTC-ATATTTAG
3936326 TTTTT
1 TTTTT
3936331 AATTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTTCTTCATATTTAG
Found at i:3936444 original size:19 final size:19
Alignment explanation
Indices: 3936422--3936470 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
3936412 AAAAAAATAA
3936422 ATAAAATATGAATTA-TTTT
1 ATAAAATAT-AATTATTTTT
*
3936441 ATAATTATATAATTATTTTT
1 ATAA-AATATAATTATTTTT
3936461 ATAAAATATA
1 ATAAAATATA
3936471 TAAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAAAATATAATTATTTTT
Found at i:3936460 original size:20 final size:20
Alignment explanation
Indices: 3936427--3936464 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3936417 AATAAATAAA
3936427 ATATGAATTATTTTATAATT
1 ATATGAATTATTTTATAATT
3936447 ATAT-AATTATTTTTATAA
1 ATATGAATTA-TTTTATAA
3936465 AATATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATGAATTATTTTATAATT
Found at i:3942320 original size:27 final size:27
Alignment explanation
Indices: 3942282--3942375 Score: 104
Period size: 27 Copynumber: 3.5 Consensus size: 27
3942272 AAAATTAATG
3942282 TTAATAT-T-AAATATCATAATTTATA
1 TTAATATATAAAATATCATAATTTATA
* *
3942307 TTAATTTATAAAATACCATAATTTATA
1 TTAATATATAAAATATCATAATTTATA
* *
3942334 TTAATATATAAAATATTATCTACTTTA-A
1 TTAATATATAAAATATCA--TAATTTATA
3942362 TTAATATATTAAAA
1 TTAATATA-TAAAA
3942376 ATTTTATTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
25 6 0.10
26 1 0.02
27 31 0.53
28 9 0.16
29 11 0.19
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAATATATAAAATATCATAATTTATA
Found at i:3943598 original size:11 final size:12
Alignment explanation
Indices: 3943555--3943595 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
3943545 ACGTAAAAAA
3943555 TATAATTATTTT
1 TATAATTATTTT
3943567 TATAATTA-TTT
1 TATAATTATTTT
3943578 TATAATTATTTT
1 TATAATTATTTT
3943590 TATAAT
1 TATAAT
3943596 ATTATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATAATTATTTT
Found at i:3943612 original size:20 final size:20
Alignment explanation
Indices: 3943589--3943674 Score: 58
Period size: 20 Copynumber: 4.3 Consensus size: 20
3943579 ATAATTATTT
3943589 TTATAATATTATAATTTATA
1 TTATAATATTATAATTTATA
* *
3943609 TTATAAAAATT-TTA-TTATA
1 TTAT-AATATTATAATTTATA
3943628 TTTATATATACTTATAAATTT-TA
1 -TTATA-ATA-TTAT-AATTTATA
3943651 --AT-ATATTAATAATTTATA
1 TTATAATATT-ATAATTTATA
3943669 TTATAA
1 TTATAA
3943675 AAATTTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 23
0.65 0.05 0.30
Matches are distributed among these distances:
17 7 0.14
18 7 0.14
19 6 0.12
20 16 0.32
21 8 0.16
22 1 0.02
23 3 0.06
24 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATAATATTATAATTTATA
Found at i:3943621 original size:32 final size:31
Alignment explanation
Indices: 3943587--3943689 Score: 133
Period size: 31 Copynumber: 3.4 Consensus size: 31
3943577 TTATAATTAT
*
3943587 TTTTATAATATTATAATTTATATTATAAAAA
1 TTTTATTATATTATAATTTATATTATAAAAA
*
3943618 TTTTATTATATT-T-ATATATACTTAT--AAA
1 TTTTATTATATTATAATTTATA-TTATAAAAA
*
3943646 TTTTAATATATTAATAATTTATATTATAAAAA
1 TTTTATTATATT-ATAATTTATATTATAAAAA
3943678 TTTTATTATATT
1 TTTTATTATATT
3943690 TTTATTTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
28 14 0.23
29 6 0.10
30 10 0.16
31 17 0.28
32 14 0.23
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTTATTATATTATAATTTATATTATAAAAA
Found at i:3943626 original size:14 final size:14
Alignment explanation
Indices: 3943601--3943687 Score: 52
Period size: 14 Copynumber: 5.9 Consensus size: 14
3943591 ATAATATTAT
3943601 AATTTATATTATAAA
1 AATTT-TATTATAAA
**
3943616 AATTTTATTATATT
1 AATTTTATTATAAA
* *
3943630 TATATATACTTAT--A
1 AAT-TTTA-TTATAAA
*
3943644 AATTTTAATATATTAAT
1 AATTTT-AT-TA-TAAA
3943661 AATTTATATTATAAA
1 AATTT-TATTATAAA
3943676 AATTTTATTATA
1 AATTTTATTATA
3943688 TTTTTATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
13 3 0.05
14 21 0.38
15 17 0.31
16 6 0.11
17 7 0.13
18 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTATTATAAA
Found at i:3944666 original size:2 final size:2
Alignment explanation
Indices: 3944659--3944697 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3944649 TTATTTTCAG
3944659 TC TC TC TC TC TC TC 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 TC TC TC TC TC TC TC T
3944698 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:3944702 original size:2 final size:2
Alignment explanation
Indices: 3944697--3944721 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3944687 TCTCTCTCTC
3944697 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
3944722 CTCTTTGCTG
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:3944913 original size:3 final size:3
Alignment explanation
Indices: 3944905--3944967 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
3944895 AGTAATTTTG
3944905 AAT AAT AAT AA- AA- AAT AATT AA- AAT -AT AAT AAT AAT ACAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A-AT AAT
*
3944948 -AT AA- AAT -AT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
3944968 ATAAATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
2 14 0.28
3 30 0.60
4 6 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3944921 original size:10 final size:10
Alignment explanation
Indices: 3944908--3944964 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 10
3944898 AATTTTGAAT
3944908 AATAATAAAA
1 AATAATAAAA
3944918 AATAATTAAAA
1 AATAA-TAAAA
*
3944929 TATAATAATAA
1 AATAATAA-AA
3944940 TACATAATATAAA
1 -A-ATAATA-AAA
3944953 ATATAATAAAA
1 A-ATAATAAAA
3944964 A
1 A
3944965 TAAATAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 8 0.21
11 15 0.38
12 7 0.18
13 8 0.21
14 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAATAAAA
Found at i:3945016 original size:32 final size:33
Alignment explanation
Indices: 3944964--3945052 Score: 110
Period size: 32 Copynumber: 2.7 Consensus size: 33
3944954 TATAATAAAA
3944964 ATAA-ATAAATATATAAATATATTAAAATTTAT
1 ATAATATAAATATATAAATATATTAAAATTTAT
* *
3944996 ATAATATAAAT-TATTAATATATTAAATTTTAT
1 ATAATATAAATATATAAATATATTAAAATTTAT
*
3945028 ATAAATATATAATATTTTAAATATA
1 AT-AATATA-AATA-TATAAATATA
3945053 ATTATAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
32 25 0.52
33 12 0.25
34 3 0.06
36 8 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAATATAAATATATAAATATATTAAAATTTAT
Found at i:3945021 original size:16 final size:16
Alignment explanation
Indices: 3944969--3945023 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
3944959 TAAAAATAAA
*
3944969 TAAATATATAAATATAT
1 TAAAT-TATTAATATAT
*
3944986 TAAA--ATTTATATAAT
1 TAAATTATTAATAT-AT
3945001 ATAAATTATTAATATAT
1 -TAAATTATTAATATAT
3945018 TAAATT
1 TAAATT
3945024 TTATATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 6 0.19
15 2 0.06
16 10 0.32
17 6 0.19
18 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATTATTAATATAT
Found at i:3945044 original size:20 final size:19
Alignment explanation
Indices: 3944973--3945060 Score: 66
Period size: 20 Copynumber: 4.8 Consensus size: 19
3944963 AATAAATAAA
*
3944973 TATATAAATATATTAAAATT
1 TATATAAATATA-TAAATTT
3944993 TATAT--A-ATATAAA--T
1 TATATAAATATATAAATTT
3945007 TAT-T-AATATATTAAATTT
1 TATATAAATATA-TAAATTT
3945025 TATATAAATATATAATATTT
1 TATATAAATATATAA-ATTT
*
3945045 TAAATATAAT-TATAAA
1 TATATA-AATATATAAA
3945061 AAAATAATAC
Statistics
Matches: 58, Mismatches: 1, Indels: 19
0.74 0.01 0.24
Matches are distributed among these distances:
13 1 0.02
14 5 0.09
15 3 0.05
16 8 0.14
17 3 0.05
18 5 0.09
19 5 0.09
20 25 0.43
21 3 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATAAATATATAAATTT
Found at i:3945305 original size:31 final size:30
Alignment explanation
Indices: 3945270--3945327 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
3945260 AAATAATTAT
3945270 TTATTATATATAA-TTATTAAATAATAAACAC
1 TTATTATA-ATAATTTATTAAA-AATAAACAC
*
3945301 TTATTTTAATAATTTATTAAAAATAAA
1 TTATTATAATAATTTATTAAAAATAAA
3945328 TCTTAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTATAATAATTTATTAAAAATAAACAC
Found at i:3945697 original size:26 final size:27
Alignment explanation
Indices: 3945650--3945728 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
3945640 AATTAATTTA
*
3945650 ATATTTTTATTATAATAATTAAAAATG
1 ATATTTTTAATATAATAATTAAAAATG
* * *
3945677 ATATTTTTAATAT-ATATTTAATAATT
1 ATATTTTTAATATAATAATTAAAAATG
*
3945703 A-ATTTTT-ATATCAATAAATTATAAAT
1 ATATTTTTAATAT-AAT-AATTAAAAAT
3945729 ATTTTTAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 4 0.10
25 6 0.14
26 13 0.31
27 19 0.45
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
ATATTTTTAATATAATAATTAAAAATG
Found at i:3945761 original size:24 final size:24
Alignment explanation
Indices: 3945716--3945794 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
3945706 TTTTATATCA
* *
3945716 ATAAATTATAAATATTTTTAATTAAT
1 ATAAA-TA-AAATATATATAATTAAT
* ** *
3945742 TTAAATTTAATATATATAATTTAT
1 ATAAATAAAATATATATAATTAAT
3945766 ATAAATAAAATATATA-AATT-AT
1 ATAAATAAAATATATATAATTAAT
3945788 A-AAATAA
1 ATAAATAA
3945795 TATAAAATTA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
21 6 0.14
22 3 0.07
23 4 0.09
24 26 0.59
25 1 0.02
26 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAAATAAAATATATATAATTAAT
Found at i:3945781 original size:22 final size:21
Alignment explanation
Indices: 3945753--3945794 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
3945743 TAAATTTAAT
*
3945753 ATATATAATTTATATAAATAAA
1 ATATATAAATTATA-AAATAAA
3945775 ATATATAAATTATAAAATAA
1 ATATATAAATTATAAAATAA
3945795 TATAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATAAATTATAAAATAAA
Found at i:3946294 original size:22 final size:21
Alignment explanation
Indices: 3946248--3946301 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
3946238 ATTTTCAAAA
3946248 AAATT-ATTTTAAAATGAATC
1 AAATTAATTTTAAAATGAATC
* * *
3946268 TAATTAATTATTAGAATGATTC
1 AAATTAATT-TTAAAATGAATC
3946290 AAATTAAATTTT
1 AAATT-AATTTT
3946302 TAACATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
21 3 0.11
22 16 0.59
23 4 0.15
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (21 bp):
AAATTAATTTTAAAATGAATC
Found at i:3946738 original size:2 final size:2
Alignment explanation
Indices: 3946733--3946769 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3946723 CACATAGGCA
*
3946733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3946770 AAGAAAAAGA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3947490 original size:30 final size:30
Alignment explanation
Indices: 3947427--3947491 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
3947417 CATATTTTAA
*
3947427 ATTAA-AAAATATAAATTTATATTTAATAT
1 ATTAATAAAATATAAATTTATATATAATAT
* *
3947456 ATTAATAATATATAAATTT-TATATATTAT
1 ATTAATAAAATATAAATTTATATATAATAT
3947485 CATTAAT
1 -ATTAAT
3947492 TTATATCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTAATAAAATATAAATTTATATATAATAT
Found at i:3948417 original size:16 final size:16
Alignment explanation
Indices: 3948396--3948432 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
3948386 CTTTATTTAT
*
3948396 TTATATATAAATAAAA
1 TTATATAAAAATAAAA
3948412 TTATATAAAAATAAAA
1 TTATATAAAAATAAAA
*
3948428 ATATA
1 TTATA
3948433 GATTTAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTATATAAAAATAAAA
Found at i:3948515 original size:21 final size:21
Alignment explanation
Indices: 3948471--3948513 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
3948461 ATTTTAAATG
3948471 TAAAATAAAATAAATATTTTT
1 TAAAATAAAATAAATATTTTT
3948492 TAAAA-AAAATATACATATTTTT
1 TAAAATAAAATA-A-ATATTTTT
3948514 AACTAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAATAAAATAAATATTTTT
Found at i:3950027 original size:2 final size:2
Alignment explanation
Indices: 3950020--3950045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3950010 GTAAACACCC
3950020 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
3950046 GAGCAACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3951981 original size:16 final size:16
Alignment explanation
Indices: 3951962--3951996 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3951952 AGATATTTTT
* *
3951962 TAAAAATTAATTAAAA
1 TAAAAATAAAATAAAA
3951978 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
3951994 TAA
1 TAA
3951997 TTATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:3952069 original size:21 final size:21
Alignment explanation
Indices: 3952034--3952075 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3952024 AAAATATTAT
3952034 AATATTAATAATTTTAATAAAA
1 AATATTAATAATTTT-ATAAAA
*
3952056 AATATTTA-AATTTTATAAAA
1 AATATTAATAATTTTATAAAA
3952076 TAATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTAATAATTTTATAAAA
Found at i:3952178 original size:27 final size:28
Alignment explanation
Indices: 3952143--3952198 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
3952133 TTATTCTAAA
3952143 ATTTTATAAAATAAAT-TATAATAAATT
1 ATTTTATAAAATAAATATATAATAAATT
*
3952170 ATTTTATAAAATAAATATTTAATAAATT
1 ATTTTATAAAATAAATATATAATAAATT
3952198 A
1 A
3952199 AATAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTTATAAAATAAATATATAATAAATT
Found at i:3952194 original size:16 final size:16
Alignment explanation
Indices: 3952162--3952202 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3952152 AATAAATTAT
*
3952162 AATAAATTATTTTATAA
1 AATAAA-TATTTAATAA
3952179 AATAAATATTTAATAA
1 AATAAATATTTAATAA
*
3952195 ATTAAATA
1 AATAAATA
3952203 ACTATATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATAAATATTTAATAA
Found at i:3952253 original size:32 final size:31
Alignment explanation
Indices: 3952217--3952306 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
3952207 TATTACAATA
3952217 TTAAATAAATTTATAATAAAATAACAATAAAT
1 TTAAATAAATTTATAA-AAAATAACAATAAAT
* *
3952249 TTAAA-AATTTTATAAATAAATAAAAATAAAT
1 TTAAATAAATTTATAAA-AAATAACAATAAAT
** * *
3952280 TTTTAT-AATTTTTAAAAAATATCAATA
1 TTAAATAAATTTATAAAAAATAACAATA
3952307 TTAATCATCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
30 10 0.21
31 33 0.69
32 5 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TTAAATAAATTTATAAAAAATAACAATAAAT
Found at i:3952270 original size:31 final size:31
Alignment explanation
Indices: 3952181--3952306 Score: 87
Period size: 31 Copynumber: 3.9 Consensus size: 31
3952171 TTTTATAAAA
* *
3952181 TAAATATTTAATAAATTAAATAACTATATTACAATAT
1 TAAAAATTTTATAAA-TAAATAAC-A-A-TA-AAT-T
*
3952218 TAAATAAATTTAT-AATAAAATAACAATAAATT
1 TAAA-AATTTTATAAAT-AAATAACAATAAATT
*
3952250 TAAAAATTTTATAAATAAATAAAAATAAATTT
1 TAAAAATTTTATAAATAAATAACAATAAA-TT
* * *
3952282 TTATAATTTT-TAAA-AAATATCAATA
1 TAAAAATTTTATAAATAAATAACAATA
3952307 TTAATCATCA
Statistics
Matches: 76, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
30 9 0.12
31 23 0.30
32 18 0.24
33 3 0.04
34 2 0.03
35 1 0.01
36 2 0.03
37 13 0.17
38 5 0.07
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAATTTTATAAATAAATAACAATAAATT
Found at i:3960347 original size:3 final size:3
Alignment explanation
Indices: 3960339--3960367 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3960329 ATGCGAACTA
3960339 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
3960368 GTTCCTTTCG
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:3964700 original size:15 final size:15
Alignment explanation
Indices: 3964680--3964714 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
3964670 TTACCAGGTC
3964680 AAGAGTTAAGGGTTG
1 AAGAGTTAAGGGTTG
3964695 AAGAGTTAAGGGTTG
1 AAGAGTTAAGGGTTG
3964710 AAGAG
1 AAGAG
3964715 AACTTATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.40, T:0.23
Consensus pattern (15 bp):
AAGAGTTAAGGGTTG
Found at i:3966841 original size:7 final size:7
Alignment explanation
Indices: 3966825--3966856 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
3966815 ATCATTTTGT
3966825 AAAAACA
1 AAAAACA
*
3966832 AAAAAAA
1 AAAAACA
3966839 AAAAACA
1 AAAAACA
3966846 AAAAACA
1 AAAAACA
3966853 AAAA
1 AAAA
3966857 TTTGACAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:3968604 original size:2 final size:2
Alignment explanation
Indices: 3968597--3968622 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3968587 AGAATCCTGC
3968597 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
3968623 TTTAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3969140 original size:2 final size:2
Alignment explanation
Indices: 3969133--3969159 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3969123 AGCTATCATC
3969133 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 A
3969160 TTTTATGTTT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3976358 original size:20 final size:21
Alignment explanation
Indices: 3976330--3976369 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3976320 GAGAAAAATT
3976330 TATTGTTTTTCAAAAA-AATAC
1 TATTGTTTTT-AAAAATAATAC
3976351 TATT-TTTTTAAAAATAATA
1 TATTGTTTTTAAAAATAATA
3976370 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
TATTGTTTTTAAAAATAATAC
Found at i:3977342 original size:19 final size:19
Alignment explanation
Indices: 3977314--3977352 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3977304 TTTATTTTTT
3977314 ATATAATATA-AATTTAAAA
1 ATATAATATATAA-TTAAAA
*
3977333 ATATATTATATAATTAAAA
1 ATATAATATATAATTAAAA
3977352 A
1 A
3977353 AATGTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATAATATATAATTAAAA
Found at i:3977343 original size:21 final size:20
Alignment explanation
Indices: 3977313--3977353 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3977303 ATTTATTTTT
*
3977313 TATATAATATAAATTTAAAAA
1 TATATAATAT-AATTAAAAAA
*
3977334 TATATTATATAATTAAAAAA
1 TATATAATATAATTAAAAAA
3977354 ATGTTGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TATATAATATAATTAAAAAA
Found at i:3978618 original size:19 final size:19
Alignment explanation
Indices: 3978594--3978630 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3978584 AATTTTAACC
3978594 TTTT-AAAAATAATATATTT
1 TTTTAAAAAATAAT-TATTT
3978613 TTTTAAAAAATAATTATT
1 TTTTAAAAAATAATTATT
3978631 GATTCTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAAAAATAATTATTT
Found at i:3984333 original size:2 final size:2
Alignment explanation
Indices: 3984326--3984362 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3984316 GGATGCATGC
3984326 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
3984363 AATGTGTGCA
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:3990393 original size:34 final size:34
Alignment explanation
Indices: 3990336--3990554 Score: 253
Period size: 34 Copynumber: 6.5 Consensus size: 34
3990326 AAGTGGGAGA
3990336 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* *
3990369 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* *
3990403 ATTGTTGAATAAATGGGAGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* * ** * *
3990437 ATTATTGATTAAATGAGAAATTTGGTAGCTTACT
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* * * *
3990471 ATTATTGATTAAATGGGTGATTTTGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* * * *
3990505 ATTGTTGACTAAAT-AGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGTTTACC
3990539 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
3990555 TGGTTTTTAC
Statistics
Matches: 156, Mismatches: 27, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
33 16 0.10
34 140 0.90
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
Found at i:3990489 original size:102 final size:101
Alignment explanation
Indices: 3990340--3990554 Score: 295
Period size: 102 Copynumber: 2.1 Consensus size: 101
3990330 GGGAGAATTG
** * * * *
3990340 TTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCAT
* *
3990405 TGTTGAATAAATGGGAGATTTGGTAGTTTACCATTA
66 TGTTGAATAAATAGGAGATTTGGTAGGTTACCATTA
* *
3990441 TTGATTAAATGAGAAATTTGGTAGCTTACTATTATTGATTAAATGGGTGATTTTGTGGCTTACCA
1 TTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCA
* * * *
3990506 TTGTTGACTAAATAGTAGATTTGGTAGGTTGCCATTG
65 TTGTTGAATAAATAGGAGATTTGGTAGGTTACCATTA
3990543 TTGATTAAATGG
1 TTGATTAAATGG
3990555 TGGTTTTTAC
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 12 0.12
102 87 0.88
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.42
Consensus pattern (101 bp):
TTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCAT
TGTTGAATAAATAGGAGATTTGGTAGGTTACCATTA
Found at i:3991316 original size:17 final size:17
Alignment explanation
Indices: 3991253--3991317 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
3991243 ATAAAAATTA
*
3991253 AATTAAATTTAATTAGTC
1 AATTAAATTTAATTA-TT
* * *
3991271 AA-AAAATTAAATTGAGT
1 AATTAAATTTAATT-ATT
* *
3991288 AAATATATTTAATTATT
1 AATTAAATTTAATTATT
3991305 AATTAAATTTAAT
1 AATTAAATTTAAT
3991318 AAAAATTAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
17 24 0.69
18 11 0.31
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (17 bp):
AATTAAATTTAATTATT
Found at i:3991595 original size:21 final size:21
Alignment explanation
Indices: 3991569--3991608 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3991559 CCCAGACTAG
*
3991569 AATTCTAGAAGGGGATAAATT
1 AATTCTAGAAGGAGATAAATT
3991590 AATTCTAGAAGGAGATAAA
1 AATTCTAGAAGGAGATAAA
3991609 CTAAGAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (21 bp):
AATTCTAGAAGGAGATAAATT
Found at i:3993073 original size:2 final size:2
Alignment explanation
Indices: 3993066--3993098 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3993056 TAACGTGGAA
3993066 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 A
3993099 TGATATCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3997202 original size:66 final size:66
Alignment explanation
Indices: 3997117--3997241 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
3997107 ACATGTGACA
* ** * *
3997117 ATAATATCAAAATTAATTTTTAACTATTTAATTTTACGTCAAATATTTCAAAAAAGATAGATGAT
1 ATAATATCAAAATTAATTTTTAACTATTCAATTTTACAACAAACATCTCAAAAAAGATAGATGAT
3997182 C
66 C
* * * *
3997183 ATAATATCAAAGTTGATTTTTAACTCTTCGATTTTACAACAAACATCTCAAAAAAGATA
1 ATAATATCAAAATTAATTTTTAACTATTCAATTTTACAACAAACATCTCAAAAAAGATA
3997242 TGTAAAATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (66 bp):
ATAATATCAAAATTAATTTTTAACTATTCAATTTTACAACAAACATCTCAAAAAAGATAGATGAT
C
Found at i:4014376 original size:15 final size:15
Alignment explanation
Indices: 4014343--4014378 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4014333 AAAAATATTT
* *
4014343 TTAAATTTATAATAT
1 TTAAATTTATAAAAA
4014358 TTAAATTTATAAAAA
1 TTAAATTTATAAAAA
4014373 TTAAAT
1 TTAAAT
4014379 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATTTATAAAAA
Found at i:4014744 original size:16 final size:16
Alignment explanation
Indices: 4014724--4014787 Score: 76
Period size: 16 Copynumber: 3.9 Consensus size: 16
4014714 AAAACTACTT
4014724 TATTTTAAA-ATAAAA
1 TATTTTAAATATAAAA
*
4014739 TAATTTAAAATATTAAAA
1 T-ATTTTAAATA-TAAAA
*
4014757 TTTATTTAAATATAAAA
1 TAT-TTTAAATATAAAA
4014774 TATTTTAAATATAA
1 TATTTTAAATATAA
4014788 TTATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 18 0.44
17 9 0.22
18 13 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATTTTAAATATAAAA
Found at i:4014747 original size:15 final size:16
Alignment explanation
Indices: 4014727--4014810 Score: 73
Period size: 16 Copynumber: 5.1 Consensus size: 16
4014717 ACTACTTTAT
4014727 TTTAAA-ATAAAATAA
1 TTTAAATATAAAATAA
*
4014742 TTTAAAATATTAAAATTTA
1 TTT-AAATA-TAAAA-TAA
*
4014761 TTTAAATATAAAATAT
1 TTTAAATATAAAATAA
*
4014777 TTTAAATATAATTATAA
1 TTTAAATATAA-AATAA
*
4014794 -TAAAATATATAAATAA
1 TTTAAATATA-AAATAA
4014810 T
1 T
4014811 AAATAAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
15 3 0.05
16 27 0.49
17 10 0.18
18 10 0.18
19 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATATAAAATAA
Found at i:4014757 original size:18 final size:18
Alignment explanation
Indices: 4014734--4014796 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
4014724 TATTTTAAAA
4014734 TAAAATAATTTAAAATAT
1 TAAAATAATTTAAAATAT
*
4014752 TAAAATTTATTT-AAATA-
1 TAAAA-TAATTTAAAATAT
*
4014769 TAAAATATTTTAAATATAAT
1 TAAAATAATTTAAA-AT-AT
*
4014789 TATAATAA
1 TAAAATAA
4014797 AATATATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.11
17 7 0.20
18 12 0.34
19 6 0.17
20 6 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATAATTTAAAATAT
Found at i:4014824 original size:25 final size:25
Alignment explanation
Indices: 4014746--4014829 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
4014736 AAATAATTTA
* **
4014746 AAATATTA-AAATTTATTTAAATAT
1 AAATATTATAAATATAAATAAATAT
* *
4014770 AAAATATTTTAAATATAATTATAATA-
1 -AAATATTATAAATATAAATA-AATAT
4014796 AAATA-TATAAATAATAAATAAATAT
1 AAATATTATAAAT-ATAAATAAATAT
4014821 AAATTATTA
1 AAA-TATTA
4014830 GATTCCTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
24 10 0.21
25 21 0.44
26 11 0.23
27 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAATATTATAAATATAAATAAATAT
Found at i:4014952 original size:18 final size:17
Alignment explanation
Indices: 4014930--4014975 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
4014920 TTAATATACT
4014930 TATTATATAAAATTTTA
1 TATTATATAAAATTTTA
4014947 TCATTA-ATTATAAATTTTA
1 T-ATTATA-TA-AAATTTTA
4014966 TATT-TATAAA
1 TATTATATAAA
4014976 TAATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.08
17 4 0.16
18 10 0.40
19 9 0.36
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATATAAAATTTTA
Found at i:4017120 original size:22 final size:23
Alignment explanation
Indices: 4017087--4017147 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
4017077 TATTTTATTA
*
4017087 TATTATAATTATATTTAAAATAT
1 TATTATATTTATATTTAAAATAT
*
4017110 T-TTATATTTATAAATTTAATATAT
1 TATTATATTTAT--ATTTAAAATAT
*
4017134 TACTA-ATTTATATT
1 TATTATATTTATATT
4017148 ATATAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 12 0.38
23 1 0.03
24 17 0.53
25 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTATATTTATATTTAAAATAT
Found at i:4017159 original size:16 final size:15
Alignment explanation
Indices: 4017095--4017159 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 15
4017085 TATATTATAA
*
4017095 TTATATTTAAAATATT
1 TTATATTTATAA-ATT
4017111 TTATATTTATAAATT
1 TTATATTTATAAATT
*
4017126 TAATATATTACT-AA-T
1 TTATAT-TTA-TAAATT
4017141 TTATATTATATAAATT
1 TTATATT-TATAAATT
4017157 TTA
1 TTA
4017160 AAAATATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
14 2 0.05
15 18 0.44
16 20 0.49
17 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATTTATAAATT
Found at i:4017182 original size:13 final size:13
Alignment explanation
Indices: 4017166--4017205 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
4017156 TTTAAAAATA
* *
4017166 TATTTTTTTATCT
1 TATTATTTTATAT
*
4017179 TATTATATTATAT
1 TATTATTTTATAT
4017192 TATTATTTTATAT
1 TATTATTTTATAT
4017205 T
1 T
4017206 TATATGTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:4017291 original size:2 final size:2
Alignment explanation
Indices: 4017284--4017320 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4017274 ACCTTTCCTC
*
4017284 AG AG AG AG AG AG AA 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 AG A
4017321 AGCAACTTTA
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:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4017709 original size:24 final size:24
Alignment explanation
Indices: 4017682--4017728 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4017672 TGTGTGAAAT
4017682 AAATCACAA-TTTAAAAATTAAAAA
1 AAATCA-AATTTTAAAAATTAAAAA
* *
4017706 AAATTAAATTTTAAATATTAAAA
1 AAATCAAATTTTAAAAATTAAAA
4017729 TTCAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATCAAATTTTAAAAATTAAAAA
Found at i:4018268 original size:21 final size:19
Alignment explanation
Indices: 4018226--4018268 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
4018216 TTTAAAATTA
4018226 TAATAAATAAAAAATT-TGT
1 TAATAAATAAAAAATTAT-T
4018245 TAATAATATTAAAAAATTATT
1 TAATAA-A-TAAAAAATTATT
4018266 TAA
1 TAA
4018269 ATATTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 13 0.62
22 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TAATAAATAAAAAATTATT
Found at i:4019028 original size:4 final size:4
Alignment explanation
Indices: 4019019--4019044 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4019009 TTTAGATTTT
4019019 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
4019045 ATATTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:4036972 original size:28 final size:25
Alignment explanation
Indices: 4036937--4037032 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 25
4036927 AGTTTTTTTT
4036937 ATAA-ATTAATTAAATTTTAAAAATA
1 ATAATATTAATTAAATTTTAAAAA-A
*
4036962 ATAATGTATTAATTATTATTTTTAATAAAA
1 ATAA--TATTAATTA--AATTTTAA-AAAA
* *
4036992 ATAATATTAATTAACTTTAAAAAAA
1 ATAATATTAATTAAATTTTAAAAAA
*
4037017 ATTATATTAA-TAAATT
1 ATAATATTAATTAAATT
4037033 AAAATATTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
24 5 0.08
25 17 0.28
26 6 0.10
28 17 0.28
30 12 0.20
31 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
ATAATATTAATTAAATTTTAAAAAA
Found at i:4037236 original size:123 final size:125
Alignment explanation
Indices: 4036985--4037326 Score: 413
Period size: 124 Copynumber: 2.8 Consensus size: 125
4036975 TATTATTTTT
* *
4036985 AATAAAAATAATA-TTAATTAACTTTAAAAAAAATTATATTAATAAATTAAAATATTAA-T-TTA
1 AATAAAAATAATATTTAATTAAGTTT--AAAAAATTATATTAACAAATTAAAATATTAATTATTA
* * *
4037047 -A----A-AAAAATAAAAAATTTTAAATAAAAATAAAAGGGTTTATTATTATTATTTTTTTATAA
64 TATTTTATAAAAATAAAAAATTTT-AA-AATAA-AAAAGGGTTTATTATTATTAATTTTTAATAA
4037106 AATTAAAAATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAAT-TTAATTATTAT
1 AA-TAAAAATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAATATTAATTATTAT
* *
4037170 ATTTTTATAAAAATTAAAAATTTTAAAATAAAAAA-GGTTTTTTATTA-TAATTTTTAATAA
65 A-TTTTATAAAAATAAAAAATTTTAAAATAAAAAAGGGTTTATTATTATTAATTTTTAATAA
* *
4037230 AATAAAACATAATATTTAATTAAGTTTAAAAATTTACATTAACAAATTAAAATATTAATTATTAT
1 AATAAAA-ATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAATATTAATTATTAT
* * *
4037295 GTTTT-TAAAAATAAAAAAATTTAAATTAAAAA
65 ATTTTATAAAAATAAAAAATTTTAAAATAAAAA
4037327 CAATTTATTG
Statistics
Matches: 195, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
120 4 0.02
121 28 0.14
122 14 0.07
123 41 0.21
124 60 0.31
125 22 0.11
126 4 0.02
127 4 0.02
128 3 0.02
129 15 0.08
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (125 bp):
AATAAAAATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAATATTAATTATTATA
TTTTATAAAAATAAAAAATTTTAAAATAAAAAAGGGTTTATTATTATTAATTTTTAATAA
Found at i:4037684 original size:23 final size:23
Alignment explanation
Indices: 4037613--4037687 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
4037603 GAATAGAGGA
*
4037613 TTTTTT-ATTTGAATAATGATAAAT
1 TTTTTTAATTTG-TTAATG-TAAAT
* * *
4037637 TTTTTTAATTTCTTAA-ATATTAT
1 TTTTTTAATTTGTTAATGTA-AAT
4037660 TTTTTTAATTTGTTAATGTAAAT
1 TTTTTTAATTTGTTAATGTAAAT
4037683 TTTTT
1 TTTTT
4037688 AAAATTTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
22 2 0.05
23 24 0.59
24 11 0.27
25 4 0.10
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (23 bp):
TTTTTTAATTTGTTAATGTAAAT
Found at i:4037694 original size:47 final size:48
Alignment explanation
Indices: 4037613--4037704 Score: 118
Period size: 47 Copynumber: 1.9 Consensus size: 48
4037603 GAATAGAGGA
* *
4037613 TTTTTTATTTGAATAATGATAAATTTTTTTAATTT-CTTAAATATTAT
1 TTTTTTATTTGAATAATGATAAATTTTTTAAATTTAATTAAATATTAT
*
4037660 TTTTTTAATTTG-TTAATG-TAAATTTTTTAAAATTTAATTAAATAT
1 TTTTTT-ATTTGAATAATGATAAATTTTTT-AAATTTAATTAAATAT
4037705 CACTTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
46 10 0.26
47 16 0.41
48 13 0.33
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (48 bp):
TTTTTTATTTGAATAATGATAAATTTTTTAAATTTAATTAAATATTAT
Found at i:4037712 original size:47 final size:47
Alignment explanation
Indices: 4037626--4037722 Score: 108
Period size: 47 Copynumber: 2.1 Consensus size: 47
4037616 TTTATTTGAA
* * * * *
4037626 TAATGATAAATTTTTTTAATTTCTTAAATATTATTTTTTTAATTTGT
1 TAATGATAAATTTTTTAAATTTATTAAATATCATCTTTTTAATTTAT
*
4037673 TAATG-TAAATTTTTTAAAATTTAATTAAATATCA-CTTTTTATTTTAT
1 TAATGATAAATTTTTT-AAATTT-ATTAAATATCATCTTTTTAATTTAT
4037720 TAA
1 TAA
4037723 AAAATAATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
46 10 0.24
47 23 0.55
48 9 0.21
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (47 bp):
TAATGATAAATTTTTTAAATTTATTAAATATCATCTTTTTAATTTAT
Found at i:4037856 original size:110 final size:113
Alignment explanation
Indices: 4037662--4037940 Score: 345
Period size: 118 Copynumber: 2.4 Consensus size: 113
4037652 AATATTATTT
* *
4037662 TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATCACTTTTT-ATTTTATTAAAAA
1 TTTTAATTTGTTAATGT-AATTTTTTTAAATTTAATTAAATATTA-TTTTTAATTTTATTAAAAA
*
4037726 ATAATAATAATAAGTAC-TTTT-A-T-TTTTGTA-AAAACATATAATTAATA
64 ATAATAATAATAAATACTTTTTAATTATTTTGTATAAAA-A-ATAATTAATA
*
4037773 TTTTAATTTGTTAATGTAATTTTTTTGAATTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
* * *
4037838 AATAATAATAAATCCTTTTTAATTTAATTTTTTATTTTTAAAAATAATTAATA
66 AATAATAATAAATACTTTTTAA-TT-ATTTTGTA---TAAAAAATAATTAATA
* * *
4037891 TTTTAATTTATTAATATAATTTTTTTAAAGTTAATTAAATATTATTTTTA
1 TTTTAATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTA
4037941 TTAAAAATAA
Statistics
Matches: 146, Mismatches: 11, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
109 5 0.03
110 52 0.36
111 21 0.14
112 1 0.01
114 1 0.01
116 6 0.04
118 56 0.38
119 1 0.01
120 3 0.02
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (113 bp):
TTTTAATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
AATAATAATAAATACTTTTTAATTATTTTGTATAAAAAATAATTAATA
Found at i:4037885 original size:25 final size:26
Alignment explanation
Indices: 4037857--4037912 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
4037847 AAATCCTTTT
*
4037857 TAATTTAAT-TTTTTATTT-TTAAAAA
1 TAATTTAATATTTTAATTTATT-AAAA
*
4037882 TAA-TTAATATTTTAATTTATTAATA
1 TAATTTAATATTTTAATTTATTAAAA
4037907 TAATTT
1 TAATTT
4037913 TTTTAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 17 0.65
26 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TAATTTAATATTTTAATTTATTAAAA
Found at i:4037985 original size:30 final size:29
Alignment explanation
Indices: 4037921--4037985 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
4037911 TTTTTTAAAG
4037921 TTAATTAAATATTATTTTTATTAAAAATA
1 TTAATTAAATATTATTTTTATTAAAAATA
* *
4037950 ATAATTAATATATTATTATTTATT-AAAATT
1 TTAATTAA-ATATTATT-TTTATTAAAAATA
4037980 TTAATT
1 TTAATT
4037986 TAATTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 18 0.58
31 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAATTAAATATTATTTTTATTAAAAATA
Found at i:4038385 original size:20 final size:21
Alignment explanation
Indices: 4038350--4038390 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
4038340 ATAATTAAAT
4038350 TTAAATAAAAAATTTATATTA
1 TTAAATAAAAAATTTATATTA
*
4038371 TTAAAT-AATAATTTATATTA
1 TTAAATAAAAAATTTATATTA
4038391 AATTTAATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATAAAAAATTTATATTA
Found at i:4043827 original size:3 final size:3
Alignment explanation
Indices: 4043819--4043847 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4043809 CAAATTAAAA
4043819 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4043848 AAAGCTTGGC
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4046291 original size:20 final size:20
Alignment explanation
Indices: 4046258--4046301 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4046248 TAAAAAATTT
* *
4046258 TTAAAAAT-ATTTTATATTA
1 TTAAAAATAATTTAATATAA
4046277 TTAAATAATAATTTAATATAA
1 TTAAA-AATAATTTAATATAA
4046298 TTAA
1 TTAA
4046302 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 3 0.14
21 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAAAATAATTTAATATAA
Found at i:4046316 original size:17 final size:15
Alignment explanation
Indices: 4046281--4046322 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
4046271 ATATTATTAA
4046281 ATAA-TAATTT-AAT
1 ATAATTAATTTAAAT
4046294 ATAATTAATTTAAATT
1 ATAATTAATTTAAA-T
4046310 ATAAATTAATTTA
1 AT-AATTAATTTA
4046323 TTTAAATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.16
14 6 0.24
15 2 0.08
16 3 0.12
17 10 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAATTAATTTAAAT
Found at i:4053223 original size:27 final size:25
Alignment explanation
Indices: 4053191--4053243 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
4053181 AACGTTATTT
4053191 TTAAATCAAT-TGATATTATATTAAAAA
1 TTAAATCAATAT-ATATT-T-TTAAAAA
*
4053218 TTAAATTAATATATATTTTTAAAAA
1 TTAAATCAATATATATTTTTAAAAA
4053243 T
1 T
4053244 ATTAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.33
26 1 0.04
27 14 0.58
28 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAAATCAATATATATTTTTAAAAA
Found at i:4054133 original size:17 final size:17
Alignment explanation
Indices: 4054084--4054133 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
4054074 TATTTTTTAA
4054084 AAATAATTCAATAAATTC
1 AAAT-ATTCAATAAATTC
* * *
4054102 AGATATTTAATAAATTT
1 AAATATTCAATAAATTC
*
4054119 AAATATTCAACAAAT
1 AAATATTCAATAAAT
4054134 ATTGCTCTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATATTCAATAAATTC
Found at i:4055478 original size:2 final size:2
Alignment explanation
Indices: 4055471--4055507 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4055461 GATCCTTCAT
4055471 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
4055508 TTGTATGTGT
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:4069909 original size:11 final size:11
Alignment explanation
Indices: 4069893--4069917 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4069883 CTCATGTTAT
4069893 TAATTATTGAA
1 TAATTATTGAA
4069904 TAATTATTGAA
1 TAATTATTGAA
4069915 TAA
1 TAA
4069918 ATCTAATTAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
TAATTATTGAA
Found at i:4070701 original size:28 final size:27
Alignment explanation
Indices: 4070648--4070712 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
4070638 TCACCCATTT
* *
4070648 ATTTGTAAAAAATGATGGTTATTTTGT
1 ATTTGTCAAAAATGATGGTTATTTTGA
* * *
4070675 GTTTGTCAAAAATGGTGGTTTTCTTTGA
1 ATTTGTCAAAAATGATGGTTAT-TTTGA
4070703 ATTTGTCAAA
1 ATTTGTCAAA
4070713 TATAAAGGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (27 bp):
ATTTGTCAAAAATGATGGTTATTTTGA
Found at i:4081132 original size:3 final size:3
Alignment explanation
Indices: 4081124--4081165 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
4081114 CATCTGTCTC
*
4081124 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4081166 AAATTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4081237 original size:16 final size:16
Alignment explanation
Indices: 4081216--4081249 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4081206 ACATGAAAAA
4081216 CGCATAAAAAATTACT
1 CGCATAAAAAATTACT
4081232 CGCATAAAAAATTACT
1 CGCATAAAAAATTACT
4081248 CG
1 CG
4081250 TATCTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (16 bp):
CGCATAAAAAATTACT
Found at i:4113913 original size:2 final size:2
Alignment explanation
Indices: 4113906--4113934 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4113896 GATCCTTCAT
4113906 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
4113935 TTGTATGTGT
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:4119408 original size:50 final size:50
Alignment explanation
Indices: 4119333--4119592 Score: 371
Period size: 50 Copynumber: 5.2 Consensus size: 50
4119323 AGTTGCTTAG
* *
4119333 AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
*
4119383 AGTCAACAATT-CTGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAGTT
1 AGTCAACAATTAC-GGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGA-AT
** * *
4119434 A-TCAACAATTACAACCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* *
4119483 AGTCAACAATTATGGCCACCTCTCTCAATTCTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* * * *
4119533 AGTCAACAATTACGGCTACCTCTCTCGATTGTCAAAGGTTGGTAAAAAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
4119583 AGTCAACAAT
1 AGTCAACAAT
4119593 GGCAACACTT
Statistics
Matches: 186, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
49 3 0.02
50 180 0.97
51 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
Found at i:4119508 original size:100 final size:100
Alignment explanation
Indices: 4119333--4119592 Score: 423
Period size: 100 Copynumber: 2.6 Consensus size: 100
4119323 AGTTGCTTAG
* * *
4119333 AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTCTGG
1 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAATAGTCAACAATTATGG
* *
4119398 CCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAGTT
66 CCACCTCTCTCAATTCTCAAAGGTTGGTGAAGA-AT
*
4119434 A-TCAACAATTACAACCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAATAGTCAACAATTATGG
1 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAATAGTCAACAATTATGG
4119498 CCACCTCTCTCAATTCTCAAAGGTTGGTGAAGAAT
66 CCACCTCTCTCAATTCTCAAAGGTTGGTGAAGAAT
* * *
4119533 AGTCAACAATTACGGCTACCTCTCTCGATTGTCAAAGGTTGGTAAAAAATAGTCAACAAT
1 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAATAGTCAACAAT
4119593 GGCAACACTT
Statistics
Matches: 148, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
99 2 0.01
100 145 0.98
101 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (100 bp):
AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAATAGTCAACAATTATGG
CCACCTCTCTCAATTCTCAAAGGTTGGTGAAGAAT
Found at i:4120047 original size:130 final size:130
Alignment explanation
Indices: 4119814--4120076 Score: 481
Period size: 130 Copynumber: 2.0 Consensus size: 130
4119804 CATATCCACA
*
4119814 GTTCCGTCCTCCATTACTTCTCGAACAAAATGATATTGTACTCCGATGTGCTTCGTCCTTGAATG
1 GTTCCGTCCTCCATTACTTCTCGAACAAAATGATATTGTACTCCGATGTGCTTCATCCTTGAATG
*
4119879 AAATACCAGATTTCTTGTAATGTGCAAGGCACTTTGACTGTCACAAAATAAAGGAATTTTACCTT
66 AAATACCAGATTTCTTGTAATGTGCAAGGCACTCTGACTGTCACAAAATAAAGGAATTTTACCTT
* * *
4119944 GTTCCGTCCTCCATTATTTCTCGAACAAAATGATATTTTACTCTGATGTGCTTCATCCTTGAATG
1 GTTCCGTCCTCCATTACTTCTCGAACAAAATGATATTGTACTCCGATGTGCTTCATCCTTGAATG
4120009 AAATACCAGATTTCTTGTAATGTGCAAGGCACTCTGACTGTCACAAAATAAAGGAATTTTACCTT
66 AAATACCAGATTTCTTGTAATGTGCAAGGCACTCTGACTGTCACAAAATAAAGGAATTTTACCTT
4120074 GTT
1 GTT
4120077 TGTACCCGAG
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 128 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (130 bp):
GTTCCGTCCTCCATTACTTCTCGAACAAAATGATATTGTACTCCGATGTGCTTCATCCTTGAATG
AAATACCAGATTTCTTGTAATGTGCAAGGCACTCTGACTGTCACAAAATAAAGGAATTTTACCTT
Found at i:4123372 original size:13 final size:13
Alignment explanation
Indices: 4123354--4123378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4123344 CATAAAATGT
4123354 TGTATCGATACAA
1 TGTATCGATACAA
4123367 TGTATCGATACA
1 TGTATCGATACA
4123379 TTTTTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4123460 original size:13 final size:13
Alignment explanation
Indices: 4123442--4123466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4123432 ATTACTCACA
4123442 TGTATCGATACAT
1 TGTATCGATACAT
4123455 TGTATCGATACA
1 TGTATCGATACA
4123467 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4123531 original size:52 final size:52
Alignment explanation
Indices: 4123475--4123599 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
4123465 CACTGATCTT
*
4123475 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4123527 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
4123579 TGTATCGATAAATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
4123600 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4131813 original size:31 final size:31
Alignment explanation
Indices: 4131775--4131856 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
4131765 ATACCTTTTT
4131775 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
1 AAAGTCCACGACTCAGTGGCAAT-TCTGTCTC
*
4131806 AAAGTCCACGACTCAGTGGC-ATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATTCTGTCTC
* *
4131836 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
4131857 CCTCCTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 2 0.04
30 24 0.52
31 20 0.43
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATTCTGTCTC
Found at i:4131941 original size:34 final size:34
Alignment explanation
Indices: 4131836--4132779 Score: 1072
Period size: 34 Copynumber: 28.0 Consensus size: 34
4131826 ATTTTGTCTC
* *
4131836 AAAGTCCACAACTCCGTGGCACC----TCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
4131866 AAAGCCCATAATTCCGTGGCAACCTATTTCTTTTC
1 AAAGCCCACAACTCCGTGGC-ACCTTTTTCTTTTT
* *
4131901 AAAGCCCACCACTCCGTGGCA-CTTTTTCTTCTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTT-TTT
*
4131935 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
* *
4131972 AAAGCCCACAATTCCGTGGTACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
4132006 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
4132043 AAAGCCCACAATTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
4132077 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
4132111 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
4132145 AAAATCCACAACTCCGTGGCACATTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
4132179 AAAATCCACAACTCCGTGGCACCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
4132213 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
* * *
4132250 AAAGCCTACAATTCCGTGACACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
4132284 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
4132318 AAAACCCACAACTCCGTGGCACTTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
4132352 AAAGCCCACAACTTCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
4132386 AAAATCCACAACTCCGTGGCACCTTTTGCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
4132420 AAAATCCACAACTCCGTGGCACCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
4132454 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
4132491 AAAGCCCACAATTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
4132525 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** * * * * *
4132559 AAAATCCACAACTCTGTGACCCTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* * *
4132594 -AAGTCCACAACTCTGTGGCA-C-----CATTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
4132621 -AAGCCCACAACTCCGTGGCATCTTTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
4132653 AAAGCCCACAACTACGTGGCACAC-TTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* * *
4132687 -AAGTCCACAACTCTGTGGCA-C-----CATTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
4132714 -AAGCCCACAACTCCGTGGCATCTTTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
4132746 AAAGCCCACAACTACGTGGCACTCTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
4132780 AAGTCCACAC
Statistics
Matches: 798, Mismatches: 78, Indels: 71
0.84 0.08 0.07
Matches are distributed among these distances:
27 45 0.06
28 2 0.00
30 17 0.02
31 4 0.01
32 7 0.01
33 70 0.09
34 467 0.59
35 52 0.07
36 30 0.04
37 101 0.13
38 3 0.00
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:4132226 original size:207 final size:206
Alignment explanation
Indices: 4131834--4132779 Score: 1147
Period size: 207 Copynumber: 4.7 Consensus size: 206
4131824 GCATTTTGTC
* * * * *
4131834 TCAAAGTCCACAACTCCGTGGCACC----TCCTTTTAAAGCCCATAATTCCGTGGCAACCTATTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGC-ACCTTTTT
* * *
4131895 CTTTTCAAAGCCCACCACTCCGTGGCA-CTTTTTCTTCTTCAAAGCCCACAACTCCGTGGCACTC
65 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT-TTTAAAGCCCACAACTCCGTGGCAC-C
* ** * *
4131959 TTTTTCCCTTTTCAAAGCCCACAATTCCGTGGTACCTTTTTCTTTTTAAAGCCCACAACTCCGTG
128 TTTTT--CTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTG
4132024 GCACTCTTTTTCCCTTT
191 GCACTCTTTTT-CCTTT
*
4132041 TCAAAGCCCACAATTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
** *
4132106 TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAATCCACAACTCCGTGGCACATTT
66 TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
*
4132171 TTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACT
131 TTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACT
4132236 CTTTTTCCCTTT
196 CTTTTT-CCTTT
* * *
4132248 TCAAAGCCTACAATTCCGTGACACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
* * *
4132313 TTTTTAAAACCCACAACTCCGTGGCACTTTTTTCTTTTTAAAGCCCACAACTTCGTGGCACCTTT
66 TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
* **
4132378 TTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTGCTTTTTAAAATCCACAACTCCGTGGCAC-
131 TTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACT
4132442 CTTTTT-CTTT
196 CTTTTTCCTTT
* *
4132452 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTTAAAGCCCACAACTCCGTGGCACCTTT
** * * *
4132517 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAATCCACAACTCTGTGACCCT
63 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-
* * * * *
4132582 CTTTTTCCTTCT-AAGTCCACAACTCTGTGGCA-C-----CATTTT-AAGCCCACAACTCCGTGG
127 CTTTTTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGG
4132639 CA-TCTTTTTCC-TT
192 CACTCTTTTTCCTTT
* * * *
4132652 T-AAAGCCCACAACTACGTGGCACAC-TTTTCCTTTT-AAGTCCACAACTCTGTGGCA-C-----
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* * * *
4132708 CATTTT-AAGCCCACAACTCCGTGGCATCTTTTTC-CTTTAAAGCCCACAACTACGTGGCACTCT
65 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CT
*
4132771 TTTCCTTTT
129 TTTTCTTTT
4132780 AAGTCCACAC
Statistics
Matches: 659, Mismatches: 69, Indels: 42
0.86 0.09 0.05
Matches are distributed among these distances:
187 28 0.04
188 27 0.04
189 5 0.01
194 1 0.00
195 17 0.03
196 4 0.01
198 4 0.01
199 22 0.03
200 27 0.04
201 6 0.01
204 25 0.04
205 6 0.01
206 7 0.01
207 378 0.57
208 10 0.02
209 5 0.01
210 54 0.08
211 33 0.05
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (206 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
TTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACT
CTTTTTCCTTT
Found at i:4132290 original size:241 final size:240
Alignment explanation
Indices: 4131841--4132779 Score: 1126
Period size: 241 Copynumber: 4.0 Consensus size: 240
4131831 GTCTCAAAGT
* * * *
4131841 CCACAACTCCGTGGCACC----TCCTTTTAAAGCCCATAATTCCGTGGCAACCTATTTCTTTTCA
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGC-ACCTTTTTCTTTTTA
** * * **
4131902 AAGCCCACCACTCCGTGGCACTTTTTCTTCTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
65 AAATCCACAACTCCGTGGCACTTTTTCTT-TTTAAAATCCACAACTCCGTGGCAC-CTTTTT--C
* * * *
4131967 TTTTCAAAGCCCACAATTCCGTGGTAC-CTTTTT--CTTTTTAAAGCCCACAACTCCGTGGCACT
126 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCAC-
* * *
4132029 CTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTTCTTTTTAAAGC
190 CTTTTT--CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAAC
*
4132082 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAA
4132147 AATCCACAACTCCGTGGCACATTTTTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTT
66 AATCCACAACTCCGTGGCAC-TTTTTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTT
* *
4132212 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCTACAATTCCGTGACACCTTTT
130 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTT
4132277 TCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAAC
195 TCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAAC
* * *
4132323 CCACAACTCCGTGGCACTTTTTTCTTTTTAAAGCCCACAACTTCGTGGCACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAA
*
4132388 AATCCACAACTCCGTGGCACCTTTTGCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTT
66 AATCCACAACTCCGTGGCA-CTTTTTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTT
4132453 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTT
130 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTT
*
4132518 TCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAAT
195 TCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAAC
* * * * * * *
4132564 CCACAACTCTGTGACCCTCTTTTTCCTTCT-AAGTCCACAACTCTGTGGCA-C-----CATTTT-
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
** * ** * *
4132621 AAGCCCACAACTCCGTGGCATCTTTTTC-CTTTAAAGCCCACAACTACGTGGCACACTTTTCCTT
65 AAATCCACAACTCCGTGGCA-CTTTTTCTTTTTAAAATCCACAACTCCGTGGCAC-CTTTTTCTT
* * * * *
4132685 TT--AAGTCCACAACTCTGTGGCA--------CCATTTT--AAGCCCACAACTCCGTGGCATCTT
128 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTT
* * *
4132738 TTTC-CTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTTT
193 TTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
4132780 AAGTCCACAC
Statistics
Matches: 633, Mismatches: 53, Indels: 43
0.87 0.07 0.06
Matches are distributed among these distances:
221 24 0.04
222 36 0.06
224 6 0.01
232 18 0.03
233 22 0.03
234 34 0.05
235 5 0.01
240 1 0.00
241 350 0.55
242 16 0.03
243 12 0.02
244 77 0.12
245 32 0.05
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (240 bp):
CCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAA
AATCCACAACTCCGTGGCACTTTTTCTTTTTAAAATCCACAACTCCGTGGCACCTTTTTCTTTTC
AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTT
CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAAC
Found at i:4132623 original size:27 final size:28
Alignment explanation
Indices: 4132593--4132773 Score: 107
Period size: 33 Copynumber: 6.0 Consensus size: 28
4132583 TTTTTCCTTC
* *
4132593 TAAGTCCACAACTCTGTGGCAC-CATTT
1 TAAGCCCACAACTCCGTGGCACTCATTT
*
4132620 TAAGCCCACAACTCCGTGGCATCTTTTTCCTTT
1 TAAGCCCACAACTCCGTGGCA-C----TCATTT
* * *
4132653 AAAGCCCACAACTACGTGGCACACTTTTCCTTT
1 TAAGCCCACAACTCCGTGG--CAC---TCATTT
* *
4132686 TAAGTCCACAACTCTGTGGCAC-CATTT
1 TAAGCCCACAACTCCGTGGCACTCATTT
*
4132713 TAAGCCCACAACTCCGTGGCATCTTTTTCCTTT
1 TAAGCCCACAACTCCGTGGCA-C----TCATTT
* *
4132746 AAAGCCCACAACTACGTGGCACTC-TTT
1 TAAGCCCACAACTCCGTGGCACTCATTT
4132773 T
1 T
4132774 CCTTTTAAGT
Statistics
Matches: 124, Mismatches: 16, Indels: 28
0.74 0.10 0.17
Matches are distributed among these distances:
27 45 0.36
28 4 0.03
31 3 0.02
32 1 0.01
33 68 0.55
34 1 0.01
35 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.31
Consensus pattern (28 bp):
TAAGCCCACAACTCCGTGGCACTCATTT
Found at i:4132718 original size:60 final size:60
Alignment explanation
Indices: 4132654--4132767 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
4132644 TTTTCCTTTA
* *
4132654 AAGCCCACAACTACGTGGCA-CACTTTTCCTTTTAAGTCCACAACT-CTGTGGCACCATTTT
1 AAGCCCACAACTACGTGGCATC-CTTTTCCTTTAAAGCCCACAACTAC-GTGGCACCATTTT
* *
4132714 AAGCCCACAACTCCGTGGCATCTTTTTCCTTTAAAGCCCACAACTACGTGGCAC
1 AAGCCCACAACTACGTGGCATCCTTTTCCTTTAAAGCCCACAACTACGTGGCAC
4132768 TCTTTTCCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 46 0.96
61 2 0.04
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.27
Consensus pattern (60 bp):
AAGCCCACAACTACGTGGCATCCTTTTCCTTTAAAGCCCACAACTACGTGGCACCATTTT
Found at i:4132851 original size:33 final size:32
Alignment explanation
Indices: 4132784--4132913 Score: 219
Period size: 32 Copynumber: 4.1 Consensus size: 32
4132774 CCTTTTAAGT
4132784 CCACACAAGTCGGTGGCAACCCTCTCTAAAGC
1 CCACACAAGTCGGTGGCAACCCTCTCTAAAGC
*
4132816 CCACACAAGTCGGTGGCAACCTTCTCCTAAAGC
1 CCACACAAGTCGGTGGCAACCCTCT-CTAAAGC
*
4132849 CCACACAAGTCAGTGGCAACCCTCTCTAAAGC
1 CCACACAAGTCGGTGGCAACCCTCTCTAAAGC
4132881 CCACACAAGTCGGTGGCAACCCT-TCT-AAGC
1 CCACACAAGTCGGTGGCAACCCTCTCTAAAGC
4132911 CCA
1 CCA
4132914 ATATAGCTGG
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
30 7 0.08
31 3 0.03
32 53 0.57
33 30 0.32
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (32 bp):
CCACACAAGTCGGTGGCAACCCTCTCTAAAGC
Found at i:4132853 original size:65 final size:66
Alignment explanation
Indices: 4132784--4132906 Score: 230
Period size: 65 Copynumber: 1.9 Consensus size: 66
4132774 CCTTTTAAGT
*
4132784 CCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCTCCTAAAG
1 CCACACAAGTCAGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCCTAAAG
4132848 C
66 C
4132849 CCACACAAGTCAGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 CCACACAAGTCAGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
4132907 AAGCCCAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 50 0.89
66 6 0.11
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.17
Consensus pattern (66 bp):
CCACACAAGTCAGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCCTAAAG
C
Found at i:4132970 original size:49 final size:49
Alignment explanation
Indices: 4132906--4133344 Score: 628
Period size: 49 Copynumber: 8.9 Consensus size: 49
4132896 GCAACCCTTC
* * * * *
4132906 TAAGCCCAATATAGCTGGCATTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
*
4132955 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
* * *
4133004 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
* * *
4133052 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
4133101 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
* *
4133150 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
* *
4133199 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTTACCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
* * * *
4133248 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TTT--ATCTT
* * *
4133300 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CCTTT
4133345 TTCTCATCTT
Statistics
Matches: 353, Mismatches: 32, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
48 43 0.12
49 264 0.75
50 3 0.01
52 41 0.12
53 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
Found at i:4133175 original size:146 final size:147
Alignment explanation
Indices: 4132906--4133335 Score: 691
Period size: 146 Copynumber: 2.9 Consensus size: 147
4132896 GCAACCCTTC
* *
4132906 TAAGCCCAATATAGCTGGCATTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
4132971 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
4133036 ATTGGCACC-TCACCAT
131 ATTGGCACCTTCACCAT
4133052 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
4133117 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
*
4133182 ATTGGCACCTTCACCTT
131 ATTGGCACCTTCACCAT
* * * * * *
4133199 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACATTTACCTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * * * *
4133264 GGCCTTGAATCAACATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAG
66 GGCCTTGACTCAGCACATTGGCACC-TTT--ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
4133329 CACATTG
128 CACATTG
4133336 ACATCCTTTT
Statistics
Matches: 265, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
146 136 0.51
147 87 0.33
148 3 0.01
150 39 0.15
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (147 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
ATTGGCACCTTCACCAT
Found at i:4134291 original size:33 final size:33
Alignment explanation
Indices: 4134254--4134320 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4134244 TTCAACGATT
4134254 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
4134287 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
4134320 T
1 T
4134321 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:4134292 original size:13 final size:13
Alignment explanation
Indices: 4134274--4134298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4134264 CATAAAATGT
4134274 TGTATCGATACAA
1 TGTATCGATACAA
4134287 TGTATCGATACA
1 TGTATCGATACA
4134299 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4134381 original size:13 final size:13
Alignment explanation
Indices: 4134363--4134387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4134353 ATTACTCACA
4134363 TGTATCGATACAT
1 TGTATCGATACAT
4134376 TGTATCGATACA
1 TGTATCGATACA
4134388 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4134452 original size:52 final size:52
Alignment explanation
Indices: 4134396--4134520 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
4134386 CACTGATCTT
*
4134396 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4134448 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4134500 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
4134521 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4138360 original size:19 final size:19
Alignment explanation
Indices: 4138336--4138378 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
4138326 TTTTACGTGC
*
4138336 ACAGTAACCGTATATGTGA
1 ACAGTAACCATATATGTGA
*
4138355 ACAGTACCCATATATGTGA
1 ACAGTAACCATATATGTGA
4138374 ACAGT
1 ACAGT
4138379 GCATCGACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (19 bp):
ACAGTAACCATATATGTGA
Found at i:4138702 original size:50 final size:50
Alignment explanation
Indices: 4138631--4138840 Score: 289
Period size: 50 Copynumber: 4.2 Consensus size: 50
4138621 AGTTGCTTAG
* *
4138631 AGTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCTACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * * *
4138681 AATCAATAATTATGGCTACCTCTCTC-AGTTGTCAAAGGTTGGTGAAGAGT
1 AGTCAACAATTACGGCTACCTCTCTCGA-TTGTCAAAGGTTGGTGAAGAAT
* *
4138731 CGTCAGCAATTACGGCTACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCTACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * *
4138781 AGTCAACAATTAC-GATCACCTCTCTCGATTGTCAAAGATTGATGAAGAAT
1 AGTCAACAATTACGGCT-ACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
4138831 AGTCAACAAT
1 AGTCAACAAT
4138841 GACAACACTT
Statistics
Matches: 141, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
49 3 0.02
50 137 0.97
51 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTACGGCTACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
Found at i:4139089 original size:3 final size:3
Alignment explanation
Indices: 4139081--4139119 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4139071 GAGATCCATA
4139081 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4139120 AATAAAGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4142978 original size:2 final size:2
Alignment explanation
Indices: 4142965--4143002 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4142955 CCCTTTGTAA
*
4142965 AT AT AT AC 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 AT AT
4143003 TACACTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4145611 original size:13 final size:14
Alignment explanation
Indices: 4145593--4145638 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4145583 CGAAAAATTA
4145593 ATATAATTAT-TTT
1 ATATAATTATATTT
4145606 ATATAATTATATTT
1 ATATAATTATATTT
* * *
4145620 AAAAAATAATATTT
1 ATATAATTATATTT
4145634 A-ATAA
1 ATATAA
4145639 ATTTAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 13 0.46
14 15 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATAATTATATTT
Done.