Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 63 of 125
Found at i:12615660 original size:20 final size:20
Alignment explanation
Indices: 12615626--12615775 Score: 119
Period size: 20 Copynumber: 7.3 Consensus size: 20
12615616 GTATATTTTG
12615626 TTGCATGATTTATATTGTTAA
1 TTGCATGA-TTATATTGTTAA
*
12615647 TTGCATGATTATATAGTTAA
1 TTGCATGATTATATTGTTAA
12615667 TTGCATGATTATATAT-TT-A
1 TTGCATGATTATAT-TGTTAA
* *
12615686 TTGGCATCATTTATATTGTCAA
1 TT-GCATGA-TTATATTGTTAA
* *
12615708 TTGCAAGATTAGATAT-TTAA
1 TTGCATGATTATAT-TGTTAA
* * *
12615728 TTACATGTTTTACATTGTTAA
1 TTGCATG-ATTATATTGTTAA
*
12615749 TTGCATAATTATATAT-TTAA
1 TTGCATGATTATAT-TGTTAA
*
12615769 CTGCATG
1 TTGCATG
12615776 TCTATTTCCA
Statistics
Matches: 102, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
19 3 0.03
20 61 0.60
21 35 0.34
22 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (20 bp):
TTGCATGATTATATTGTTAA
Found at i:12615700 original size:41 final size:41
Alignment explanation
Indices: 12615626--12615775 Score: 162
Period size: 41 Copynumber: 3.7 Consensus size: 41
12615616 GTATATTTTG
*
12615626 TTGCATGATT-TATATTGTTAATTGCATGA-TTATATAGTTAA
1 TTGCATGATTATATA-T-TTAATTGCATGATTTATATTGTTAA
* *
12615667 TTGCATGATTATATATTT-ATTGGCATCATTTATATTGTCAA
1 TTGCATGATTATATATTTAATT-GCATGATTTATATTGTTAA
* * * * *
12615708 TTGCAAGATTAGATATTTAATTACATGTTTTACATTGTTAA
1 TTGCATGATTATATATTTAATTGCATGATTTATATTGTTAA
* *
12615749 TTGCATAATTATATATTTAACTGCATG
1 TTGCATGATTATATATTTAATTGCATG
12615776 TCTATTTCCA
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 7 0.08
41 73 0.81
42 7 0.08
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (41 bp):
TTGCATGATTATATATTTAATTGCATGATTTATATTGTTAA
Found at i:12615761 original size:61 final size:60
Alignment explanation
Indices: 12615626--12615765 Score: 147
Period size: 61 Copynumber: 2.3 Consensus size: 60
12615616 GTATATTTTG
* * * * * *
12615626 TTGCATGATTTATATTGTTAATTGCATGATTATATAGTTAATTGCATGATTATATATTTA
1 TTGCATCATTTATATTGTCAATTGCAAGATTAGATAGTTAATTACATGATTACATATTTA
* *
12615686 TTGGCATCATTTATATTGTCAATTGCAAGATTAGATATTTAATTACATGTTTTACAT-TGTTAA
1 TT-GCATCATTTATATTGTCAATTGCAAGATTAGATAGTTAATTACATG-ATTACATAT-TT-A
*
12615749 TTGCATAATTATATATT
1 TTGCATCATT-TATATT
12615766 TAACTGCATG
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
60 2 0.03
61 41 0.62
62 14 0.21
63 9 0.14
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (60 bp):
TTGCATCATTTATATTGTCAATTGCAAGATTAGATAGTTAATTACATGATTACATATTTA
Found at i:12615828 original size:32 final size:33
Alignment explanation
Indices: 12615792--12615856 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
12615782 TCCATGAGTA
* **
12615792 TTAATTTATTTATTTGTATGATT-GTATTATTG
1 TTAATATATTTATTTACATGATTAGTATTATTG
*
12615824 TTAATATATTTATTTACATGATTATTATTATTG
1 TTAATATATTTATTTACATGATTAGTATTATTG
12615857 CATGATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (33 bp):
TTAATATATTTATTTACATGATTAGTATTATTG
Found at i:12615867 original size:19 final size:19
Alignment explanation
Indices: 12615828--12615881 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
12615818 TTATTGTTAA
* *
12615828 TATATTTATTTACATGATTA
1 TATATTTA-TTGCATGATTT
12615848 T-TA-TTATTGCATGATTT
1 TATATTTATTGCATGATTT
12615865 TATATTTATTGCATGAT
1 TATATTTATTGCATGAT
12615882 ATGATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 10 0.33
18 5 0.17
19 14 0.47
20 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.56
Consensus pattern (19 bp):
TATATTTATTGCATGATTT
Found at i:12615888 original size:19 final size:19
Alignment explanation
Indices: 12615851--12615894 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12615841 ATGATTATTA
* *
12615851 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
12615870 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
12615889 TATATT
1 T-TATT
12615895 AATTTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:12616021 original size:19 final size:19
Alignment explanation
Indices: 12615966--12616021 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
12615956 TATTACTAAC
12615966 ATATTTGTATGATTA-TAT
1 ATATTTGTATGATTATTAT
* *
12615984 TTGATTTGCATGA-TATTAT
1 AT-ATTTGTATGATTATTAT
*
12616003 ATATTTATATGATTATTAT
1 ATATTTGTATGATTATTAT
12616022 TGCATGATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (19 bp):
ATATTTGTATGATTATTAT
Found at i:12622630 original size:24 final size:25
Alignment explanation
Indices: 12622610--12622660 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
12622600 GTAAAAATGC
12622610 AAAACAAAAAAC-AAAACAAAATAA
1 AAAACAAAAAACAAAAACAAAATAA
**
12622634 AAAAGTAAAAACAAAAACAAAA-AA
1 AAAACAAAAAACAAAAACAAAATAA
12622658 AAA
1 AAA
12622661 GAAAAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.84, C:0.10, G:0.02, T:0.04
Consensus pattern (25 bp):
AAAACAAAAAACAAAAACAAAATAA
Found at i:12622637 original size:31 final size:31
Alignment explanation
Indices: 12622590--12622668 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 31
12622580 AAGAGATGTG
* *
12622590 CAAAAAAAAGGTAAAAATGC-AAAACAAAAAA
1 CAAAAAAAAAGAAAAAATGCAAAAAC-AAAAA
* * *
12622621 CAAAACAAAATAAAAAA-GTAAAAACAAAAA
1 CAAAAAAAAAGAAAAAATGCAAAAACAAAAA
12622651 CAAAAAAAAAGAAAAAAT
1 CAAAAAAAAAGAAAAAAT
12622669 AGGAAATAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 21 0.54
31 18 0.46
ACGTcount: A:0.78, C:0.09, G:0.06, T:0.06
Consensus pattern (31 bp):
CAAAAAAAAAGAAAAAATGCAAAAACAAAAA
Found at i:12622686 original size:7 final size:7
Alignment explanation
Indices: 12622676--12622701 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12622666 AATAGGAAAT
12622676 AGGAATA
1 AGGAATA
12622683 AGGAATA
1 AGGAATA
12622690 AGGAATA
1 AGGAATA
12622697 AGGAA
1 AGGAA
12622702 ACTTAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.31, T:0.12
Consensus pattern (7 bp):
AGGAATA
Found at i:12624203 original size:43 final size:43
Alignment explanation
Indices: 12624142--12624312 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
12624132 GGTAAGATCA
*
12624142 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGGAG
* ** *
12624185 CATTTTA-TTTTCAAAAAGTTTCAATGCCTCAATTACGAGGGAG
1 CATTTTATTTTTC-AAAAGTTTCAAAGCCTCAATTGTGGGGGAG
* * * * *
12624228 AATTTTATTTTTCAAAAATTCCAAAGCCTCAATTTTGGAGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGGAG
* *
12624271 CATTTT-TTTTTCAAAAGTTTCAAAGCCTTAGTTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGGAG
12624313 TGTTTTTCAA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 35 0.33
43 66 0.62
44 5 0.05
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.37
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGGAG
Found at i:12625254 original size:16 final size:16
Alignment explanation
Indices: 12625235--12625294 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
12625225 TTTTACATGA
12625235 ATTTGCATGATAATTT
1 ATTTGCATGATAATTT
* * *
12625251 ATTTGCCTAATATTTT
1 ATTTGCATGATAATTT
*
12625267 ATTTACATGATTAATTT
1 ATTTGCATGA-TAATTT
12625284 ATTTGCATGAT
1 ATTTGCATGAT
12625295 TTATTAATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 21 0.60
17 14 0.40
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (16 bp):
ATTTGCATGATAATTT
Found at i:12625363 original size:20 final size:20
Alignment explanation
Indices: 12625276--12625367 Score: 130
Period size: 20 Copynumber: 4.5 Consensus size: 20
12625266 TATTTACATG
12625276 ATTAATTTATTTGCATGATTT
1 ATTAATTTATTTGCATGA-TT
* *
12625297 ATTAATATATTTGCATGACT
1 ATTAATTTATTTGCATGATT
* *
12625317 ATTAATATGTTTGCATGATT
1 ATTAATTTATTTGCATGATT
12625337 ATTAATTTATTTGCATGATT
1 ATTAATTTATTTGCATGATT
*
12625357 ATCAATTTATT
1 ATTAATTTATT
12625368 ATTTGTGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
20 47 0.73
21 17 0.27
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.52
Consensus pattern (20 bp):
ATTAATTTATTTGCATGATT
Found at i:12625474 original size:20 final size:20
Alignment explanation
Indices: 12625449--12625520 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
12625439 GTATTATTAT
12625449 ATATTTAATTGCATGATAAA
1 ATATTTAATTGCATGATAAA
* ***
12625469 ATATTTATTTGCATG-TTTG
1 ATATTTAATTGCATGATAAA
*
12625488 ATATTGTTAATTGCATGATAAT
1 ATA-T-TTAATTGCATGATAAA
12625510 ATATTTAATTG
1 ATATTTAATTG
12625521 AATGTTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 4 0.10
20 22 0.54
21 11 0.27
22 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (20 bp):
ATATTTAATTGCATGATAAA
Found at i:12625573 original size:80 final size:83
Alignment explanation
Indices: 12625445--12625627 Score: 236
Period size: 80 Copynumber: 2.3 Consensus size: 83
12625435 ATTTGTATTA
*
12625445 TTATA-TATTTAATTGCATGATAAAATATTTATTTGCATGTTTGATATTGTTAATTGCATGATAA
1 TTATATTA-TTAATTGCATGAT-AAATATATATTTGCATGTTTGATATTGTTAATTGCATG-TAA
12625509 TATA-T-TTAATTGAATG-TT
63 TATATTGTTAATTGAATGATT
* **
12625527 TTATATTATTAATTGCATGAT-AATATATATTTGCATGTTTTATATTGTTAATTGCATGTTTTAT
1 TTATATTATTAATTGCATGATAAATATATATTTGCATGTTTGATATTGTTAATTGCATGTAATAT
*
12625591 ATTGTTAATTGCATGATT
66 ATTGTTAATTGAATGATT
*
12625609 ATATATT-TT-ATTGCATGAT
1 TTATATTATTAATTGCATGAT
12625628 TTATATTGTT
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 5 0.05
80 46 0.51
81 12 0.13
82 26 0.29
83 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (83 bp):
TTATATTATTAATTGCATGATAAATATATATTTGCATGTTTGATATTGTTAATTGCATGTAATAT
ATTGTTAATTGAATGATT
Found at i:12625596 original size:101 final size:103
Alignment explanation
Indices: 12625411--12625697 Score: 348
Period size: 101 Copynumber: 2.8 Consensus size: 103
12625401 TAATTGCATG
* * * * * * * * *
12625411 TTTATTTGCATGATTTATATTATTATTTGTATTATTATATATTTAATTGCATGA-TAAAATAT-T
1 TTTAATTGAATGATTTATATTATTAATTGCATGATTATATATATATTTGCATGATTTATAT-TGT
* *
12625474 TATTTGCATGTTTGATATTGTTAATTGCATGATAATATA
65 TAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
* *
12625513 TTTAATTGAATGTTTTATATTATTAATTGCATGA-TA-ATATATATTTGCATGTTTTATATTGTT
1 TTTAATTGAATGATTTATATTATTAATTGCATGATTATATATATATTTGCATGATTTATATTGTT
*
12625576 AATTGCATGTTTTATATTGTTAATTGCATGATTATATA
66 AATTGCATGTTTTATATTGTTAATTGCATGATAATATA
* * * * * *
12625614 TTTTATTGCATGATTTATATTGTTAATTGCATGATTATTTGTTTATTTGCATGATTTATATTGTT
1 TTTAATTGAATGATTTATATTATTAATTGCATGATTATATATATATTTGCATGATTTATATTGTT
12625679 AATTGCATGTTTATATATT
66 AATTGCATGTTT-TATATT
12625698 TATTTGTATG
Statistics
Matches: 158, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
100 14 0.09
101 73 0.46
102 30 0.19
103 35 0.22
104 6 0.04
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (103 bp):
TTTAATTGAATGATTTATATTATTAATTGCATGATTATATATATATTTGCATGATTTATATTGTT
AATTGCATGTTTTATATTGTTAATTGCATGATAATATA
Found at i:12625646 original size:183 final size:186
Alignment explanation
Indices: 12625416--12625779 Score: 499
Period size: 183 Copynumber: 2.0 Consensus size: 186
12625406 GCATGTTTAT
* *
12625416 TTGCATGATTTATATTATTATTTGTATTATTATATATTTAATTGCATGATAAAATATTTATTTGC
1 TTGCATGATTTATATTATTATTTGCATGATTATATATTTAATTGCATGATAAAATATTTATTTGC
*
12625481 ATG-TTTGATATTGTTAATTGCATGATAATATATTTAATTGAATGTTTTATATTATTAATTGCAT
66 ATGATTT-ATATTGTTAATTGCATGATAATATATTTAATTGAATGTTTTACATTATTAATTGCAT
* * * *
12625545 GA-TA-ATATATATTTGCATGTTTTATATTGTTAATTGCATG-TTTTATATTGTTAA
130 GATTACATATATAATTACATGTTTTACATTGTTAATTGCATGATTATATATTGTTAA
* ** *
12625599 TTGCATGATTATATATT-TTA-TTGCATGATT-TATATTGTTAATTGCATGATTATTTGTTTATT
1 TTGCATGATT-TATATTATTATTTGCATGATTATATA-T-TTAATTGCATGATAAAATATTTATT
* * * *
12625661 TGCATGATTTATATTGTTAATTGCATGTTTATATATTTATTTGTATGTTTTACATTATTAATTGC
63 TGCATGATTTATATTGTTAATTGCATGATAATATATTTAATTGAATGTTTTACATTATTAATTGC
*
12625726 ATGATTACATATTTAATTACATGTTTTACATTGTTAATTGCATGATTATATATT
128 ATGATTACATATATAATTACATGTTTTACATTGTTAATTGCATGATTATATATT
12625780 TAATTACATG
Statistics
Matches: 158, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
181 4 0.03
182 9 0.06
183 94 0.59
184 11 0.07
185 32 0.20
186 8 0.05
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.54
Consensus pattern (186 bp):
TTGCATGATTTATATTATTATTTGCATGATTATATATTTAATTGCATGATAAAATATTTATTTGC
ATGATTTATATTGTTAATTGCATGATAATATATTTAATTGAATGTTTTACATTATTAATTGCATG
ATTACATATATAATTACATGTTTTACATTGTTAATTGCATGATTATATATTGTTAA
Found at i:12625790 original size:41 final size:41
Alignment explanation
Indices: 12625411--12625790 Score: 303
Period size: 41 Copynumber: 9.3 Consensus size: 41
12625401 TAATTGCATG
* * * * * *
12625411 TTTATTTGCATGATTTATATTATTATTTGTATTATTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * * *
12625452 TTTAATTGCATG-ATAAAATAT-TTATTTGCATGTTTGATAT-
1 TTTAATTGCATGTTTTATAT-TGTTAATTGCATGATT-ATATA
* * * *
12625492 TGTTAATTGCATG-ATAATATAT-TTAATTGAATG-TTTTATA
1 T-TTAATTGCATGTTTTATAT-TGTTAATTGCATGATTATATA
* * * * *
12625532 TTATTAATTGCATG-ATAATA-T-ATATTTGCATG-TTTTATA
1 -T-TTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
12625571 TTGTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
1 -T-TTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * *
12625614 TTTTATTGCATGATTTATATTGTTAATTGCATGATTATTTG
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * *
12625655 TTTATTTGCATGATTTATATTGTTAATTGCATGTTTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * * *
12625696 TTTATTTGTATGTTTTACATTATTAATTGCATGATTACATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* *
12625737 TTTAATTACATGTTTTACATTGTTAATTGCATGATTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
*
12625778 TTTAATTACATGT
1 TTTAATTGCATGT
12625791 CTATTTGCAT
Statistics
Matches: 289, Mismatches: 41, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.11
40 22 0.08
41 219 0.76
42 10 0.03
43 6 0.02
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (41 bp):
TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
Found at i:12625838 original size:32 final size:30
Alignment explanation
Indices: 12625802--12625870 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 30
12625792 TATTTGCATG
*
12625802 ATTATTAATTTATTTATTTG-TGTGATTGTATT
1 ATTATTAATATATTTATTTGCT-TGA-T-TATT
12625834 ATTATTAATATATTTATTTGCTTGATTATT
1 ATTATTAATATATTTATTTGCTTGATTATT
12625864 ATTATTA
1 ATTATTA
12625871 CTACATGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 11 0.31
31 1 0.03
32 22 0.63
33 1 0.03
ACGTcount: A:0.29, C:0.01, G:0.09, T:0.61
Consensus pattern (30 bp):
ATTATTAATATATTTATTTGCTTGATTATT
Found at i:12625884 original size:19 final size:20
Alignment explanation
Indices: 12625856--12625898 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
12625846 TTTATTTGCT
12625856 TGATTATTAT-TATTACTACA
1 TGATTATTATAT-TTACTACA
*
12625876 TGATT-TTATATTTATTACA
1 TGATTATTATATTTACTACA
12625895 TGAT
1 TGAT
12625899 ATGATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (20 bp):
TGATTATTATATTTACTACA
Found at i:12625905 original size:19 final size:20
Alignment explanation
Indices: 12625872--12625912 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
12625862 TTATTATTAC
* *
12625872 TACATGATTTTATATT-TAT
1 TACATGATATGATATTATAT
12625891 TACATGATATGATATTATAT
1 TACATGATATGATATTATAT
12625911 TA
1 TA
12625913 ATTTTGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (20 bp):
TACATGATATGATATTATAT
Found at i:12626038 original size:19 final size:19
Alignment explanation
Indices: 12625983--12626042 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
12625973 TATTACTAGC
12625983 ATATTTGTATGATTA-TAT
1 ATATTTGTATGATTATTAT
*
12626001 TTGATTTGTATGA-TATTAT
1 AT-ATTTGTATGATTATTAT
*
12626020 ATATTTATATGATTATTAT
1 ATATTTGTATGATTATTAT
12626039 -TATT
1 ATATT
12626043 GCATAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 16 0.44
19 20 0.56
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (19 bp):
ATATTTGTATGATTATTAT
Found at i:12634060 original size:25 final size:27
Alignment explanation
Indices: 12634026--12634083 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
12634016 GGATATGTGT
*
12634026 AAAAAAGAAAGAAGAAG-AAAAA-ATG
1 AAAAAAGAAAAAAGAAGAAAAAATATG
* *
12634051 AAAAAAGAAAAAATATGAAAAAATATG
1 AAAAAAGAAAAAAGAAGAAAAAATATG
12634078 AAAAAA
1 AAAAAA
12634084 AGGGAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 14 0.50
26 5 0.18
27 9 0.32
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (27 bp):
AAAAAAGAAAAAAGAAGAAAAAATATG
Found at i:12634068 original size:17 final size:18
Alignment explanation
Indices: 12634026--12634083 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
12634016 GGATATGTGT
*
12634026 AAAAAA-GAAAGAAGAAG
1 AAAAAATGAAAAAAGAAG
12634043 AAAAAATGAAAAAAGAA-
1 AAAAAATGAAAAAAGAAG
* * *
12634060 AAAATATGAAAAAATATG
1 AAAAAATGAAAAAAGAAG
12634078 AAAAAA
1 AAAAAA
12634084 AGGGAAAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 20 0.59
18 14 0.41
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (18 bp):
AAAAAATGAAAAAAGAAG
Found at i:12634070 original size:10 final size:10
Alignment explanation
Indices: 12634057--12634083 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
12634047 AATGAAAAAA
12634057 GAAAAAATAT
1 GAAAAAATAT
12634067 GAAAAAATAT
1 GAAAAAATAT
12634077 GAAAAAA
1 GAAAAAA
12634084 AGGGAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (10 bp):
GAAAAAATAT
Found at i:12635811 original size:21 final size:22
Alignment explanation
Indices: 12635765--12635816 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
12635755 AAGAAATTTT
* *
12635765 GCATTTGCATCTTCGCATAGAA
1 GCATTTGCATCTTCGCAAAAAA
*
12635787 -CATTTGCATCTTTG-AAAAAA
1 GCATTTGCATCTTCGCAAAAAA
12635807 GCATTTGCAT
1 GCATTTGCAT
12635817 TTGCATTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (22 bp):
GCATTTGCATCTTCGCAAAAAA
Found at i:12636402 original size:32 final size:33
Alignment explanation
Indices: 12636252--12636403 Score: 103
Period size: 33 Copynumber: 4.7 Consensus size: 33
12636242 CTAAATATTA
** * *
12636252 ACATTTTAAAACTTTAG--TCATTAAAGTCAAT
1 ACATTTTAAAACTTTAGTTTCATCCAGGTAAAT
* * * * *
12636283 TCATTTTAAGACTCTAGTTTCATCCAGGTCAAC
1 ACATTTTAAAACTTTAGTTTCATCCAGGTAAAT
** * * * **
12636316 ACATTTTTCAACTGTGGTTTAATCCAAATAAAT
1 ACATTTTAAAACTTTAGTTTCATCCAGGTAAAT
** *
12636349 TTATTTTAAAACTTTAATTTCATCCAGGT-AAT
1 ACATTTTAAAACTTTAGTTTCATCCAGGTAAAT
*
12636381 ACATTTTAAAACTTTGGTTTCAT
1 ACATTTTAAAACTTTAGTTTCAT
12636404 TTAAGTCGAT
Statistics
Matches: 87, Mismatches: 32, Indels: 3
0.71 0.26 0.02
Matches are distributed among these distances:
31 14 0.16
32 22 0.25
33 51 0.59
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (33 bp):
ACATTTTAAAACTTTAGTTTCATCCAGGTAAAT
Found at i:12636434 original size:65 final size:66
Alignment explanation
Indices: 12636252--12636444 Score: 180
Period size: 65 Copynumber: 3.0 Consensus size: 66
12636242 CTAAATATTA
* *
12636252 ACATTTTAAAACTTTAG--TCATTAAAGTCAATTCATTTTAAGAC-TCTAGTTTCATCCAGGTCA
1 ACATTTTAAAACTTTGGTTTCATTAAAGTCAATTCATTTTAAGACTTC-AATTTCATCCAGGTCA
12636314 AC
65 AC
** * * * * * * *
12636316 ACATTTTTCAACTGTGGTTTAATCCAAA-TAAATTTATTTTAAAACTTTAATTTCATCCAGGT-A
1 ACATTTTAAAACTTTGGTTTCAT-TAAAGTCAATTCATTTTAAGACTTCAATTTCATCCAGGTCA
*
12636379 AT
65 AC
* * * * *
12636381 ACATTTTAAAACTTTGGTTTCATTTAAGTCGATTCATTTTCAGACTTCGATTTCATCCAAGTCA
1 ACATTTTAAAACTTTGGTTTCATTAAAGTCAATTCATTTTAAGACTTCAATTTCATCCAGGTCA
12636445 CTTTATTTTA
Statistics
Matches: 97, Mismatches: 26, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
64 15 0.15
65 47 0.48
66 31 0.32
67 4 0.04
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (66 bp):
ACATTTTAAAACTTTGGTTTCATTAAAGTCAATTCATTTTAAGACTTCAATTTCATCCAGGTCAA
C
Found at i:12636608 original size:99 final size:98
Alignment explanation
Indices: 12636479--12636778 Score: 309
Period size: 99 Copynumber: 3.0 Consensus size: 98
12636469 TCCTAGCCTA
* * *
12636479 ATCTAGGTCACTCTATTTTTAGACTTCAATTTTATCCAAGTTATTACATTTTAAAATTTCGATTT
1 ATCTAGGTCACTCTA-TTTTAGACTTCAATTTCATCCAAGTCATTACATTTTAAAATTTCAATTT
** * *
12636544 TGTCTAAGTCATTTCATTTTAAGATTTTGGTTTC
65 CATCTAAATCATTTCATTTTAAGACTTTGGTTTC
* * * *
12636578 ATTTAGGTCACTCTATTGTTAGACTTCAATTTCATCCAAGTCATTTCATTTTTAAACTTCAATTT
1 ATCTAGGTCACTCTATT-TTAGACTTCAATTTCATCCAAGTCATTACATTTTAAAATTTCAATTT
*
12636643 CATCTAAATCATTTCATTTTCAGACTTTGGTTTC
65 CATCTAAATCATTTCATTTTAAGACTTTGGTTTC
* * * * * * * ***
12636677 ATCTAGATCAATTTATTTTAAAACTACAATTTCATCTAAGTCAATACATTTTAATAATTT--GGC
1 ATCTAGGTCACTCTATTTT-AGACTTCAATTTCATCCAAGTCATTACATTTTAA-AATTTCAATT
* *
12636740 TCAATCCAAGTCATTTCATTTTCAA-ACTTTGGTTTC
64 TC-ATCTAAATCATTTCATTTT-AAGACTTTGGTTTC
12636776 ATC
1 ATC
12636779 CAAGTCAATT
Statistics
Matches: 167, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
98 6 0.04
99 156 0.93
100 5 0.03
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (98 bp):
ATCTAGGTCACTCTATTTTAGACTTCAATTTCATCCAAGTCATTACATTTTAAAATTTCAATTTC
ATCTAAATCATTTCATTTTAAGACTTTGGTTTC
Found at i:12636637 original size:33 final size:33
Alignment explanation
Indices: 12636493--12636785 Score: 112
Period size: 33 Copynumber: 8.9 Consensus size: 33
12636483 AGGTCACTCT
* * * *
12636493 ATTTTTAGACTTCAATTTTATCCAAGTTATTAC
1 ATTTTTAAACTTCAATTTCATCCAAGTCATTTC
* * * ** *
12636526 ATTTTAAAATTTCGATTTTGTCTAAGTCATTTC
1 ATTTTTAAACTTCAATTTCATCCAAGTCATTTC
* *** ** * *
12636559 A-TTTTAAGATTTTGGTTTCATTTAGGTCA-CTC
1 ATTTTTAA-ACTTCAATTTCATCCAAGTCATTTC
* *
12636591 TATTGTTAGACTTCAATTTCATCCAAGTCATTTC
1 -ATTTTTAAACTTCAATTTCATCCAAGTCATTTC
* *
12636625 ATTTTTAAACTTCAATTTCATCTAAATCATTTC
1 ATTTTTAAACTTCAATTTCATCCAAGTCATTTC
* * *** *
12636658 ATTTTCAGACTTTGGTTTCAT-CTAGATCAATTT-
1 ATTTTTAAACTTCAATTTCATCCAAG-TC-ATTTC
* * * * *
12636691 ATTTTAAAACTACAATTTCATCTAAGTCAATAC
1 ATTTTTAAACTTCAATTTCATCCAAGTCATTTC
* ****
12636724 A-TTTTAATAATT-TGGCTCAATCCAAGTCATTTC
1 ATTTTTAA-ACTTCAATTTC-ATCCAAGTCATTTC
* ***
12636757 ATTTTCAAACTTTGGTTTCATCCAAGTCA
1 ATTTTTAAACTTCAATTTCATCCAAGTCA
12636786 ATTTGTTTTA
Statistics
Matches: 185, Mismatches: 63, Indels: 24
0.68 0.23 0.09
Matches are distributed among these distances:
32 17 0.09
33 148 0.80
34 20 0.11
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (33 bp):
ATTTTTAAACTTCAATTTCATCCAAGTCATTTC
Found at i:12636761 original size:66 final size:66
Alignment explanation
Indices: 12636609--12636767 Score: 171
Period size: 66 Copynumber: 2.4 Consensus size: 66
12636599 GACTTCAATT
* * * * * *
12636609 TCATCCAAGTCATTTCATTTTTAAACTTCAATTTCATCTAAATCATTTCATTTTCAGACTTTGGT
1 TCATCCAAGTCATTTCATTTTAAAACTACAATTTCATCTAAATCAATACATTTTAAGAATTTGGT
*
12636674 T
66 C
* * *
12636675 TCAT-CTAGATCAATTT-ATTTTAAAACTACAATTTCATCTAAGTCAATACATTTTAATAATTTG
1 TCATCCAAG-TC-ATTTCATTTTAAAACTACAATTTCATCTAAATCAATACATTTTAAGAATTTG
12636738 G-C
64 GTC
*
12636740 TCAATCCAAGTCATTTCATTTTCAAACT
1 TC-ATCCAAGTCATTTCATTTTAAAACT
12636768 TTGGTTTCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
65 9 0.12
66 60 0.79
67 7 0.09
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (66 bp):
TCATCCAAGTCATTTCATTTTAAAACTACAATTTCATCTAAATCAATACATTTTAAGAATTTGGT
C
Found at i:12636776 original size:66 final size:66
Alignment explanation
Indices: 12636706--12636849 Score: 157
Period size: 66 Copynumber: 2.2 Consensus size: 66
12636696 AAAACTACAA
* * *
12636706 TTTCATCTAAGTCAATACATTTTAATAATTTGGCTCAATCCAAG-TCATTTCATTTTCAAACTTT
1 TTTCATCCAAGTCAATACATTTTAAGAATTTGGCTCAATCC-AGTTCAATTCATTTTCAAACTTT
12636770 GG
65 GG
*** * * * *
12636772 TTTCATCCAAGTCAATTTGTTTTAAGACTTTGGCTCAATTCAGTTCAATTCATTTTTAGACTTT-
1 TTTCATCCAAGTCAATACATTTTAAGAATTTGGCTCAATCCAGTTCAATTCATTTTCAAACTTTG
12636836 G
66 G
*
12636837 ATTCAATCCAAGT
1 TTTC-ATCCAAGT
12636850 TATAAAATTT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 6 0.09
66 59 0.91
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.43
Consensus pattern (66 bp):
TTTCATCCAAGTCAATACATTTTAAGAATTTGGCTCAATCCAGTTCAATTCATTTTCAAACTTTG
G
Found at i:12636802 original size:33 final size:33
Alignment explanation
Indices: 12636549--12636804 Score: 116
Period size: 33 Copynumber: 7.8 Consensus size: 33
12636539 GATTTTGTCT
* **
12636549 AAGTC-ATTTCATTTTAAGATTTTGGTTTCATTT
1 AAGTCAATTT-ATTTTAAGACTTTGGTTTCATCC
* * * ***
12636582 AGGTCACTCTATTGTT-AGACTTCAATTTCATCC
1 AAGTCAATTTATT-TTAAGACTTTGGTTTCATCC
*** *
12636615 AAGTC-ATTTCATTTTTAA-ACTTCAATTTCATCT
1 AAGTCAATTT-A-TTTTAAGACTTTGGTTTCATCC
* *
12636648 AAATC-ATTTCATTTTCAGACTTTGGTTTCAT-C
1 AAGTCAATTT-ATTTTAAGACTTTGGTTTCATCC
* * **** *
12636680 TAGATCAATTTATTTTAAAACTACAATTTCATCT
1 AAG-TCAATTTATTTTAAGACTTTGGTTTCATCC
** * * *
12636714 AAGTCAATACATTTTAATAATTTGG-CTCAATCC
1 AAGTCAATTTATTTTAAGACTTTGGTTTC-ATCC
12636747 AAGTC-ATTTCATTTTCAA-ACTTTGGTTTCATCC
1 AAGTCAATTT-ATTTT-AAGACTTTGGTTTCATCC
*
12636780 AAGTCAATTTGTTTTAAGACTTTGG
1 AAGTCAATTTATTTTAAGACTTTGG
12636805 CTCAATTCAG
Statistics
Matches: 164, Mismatches: 44, Indels: 30
0.69 0.18 0.13
Matches are distributed among these distances:
32 14 0.09
33 129 0.79
34 21 0.13
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.45
Consensus pattern (33 bp):
AAGTCAATTTATTTTAAGACTTTGGTTTCATCC
Found at i:12637060 original size:33 final size:33
Alignment explanation
Indices: 12636821--12637182 Score: 187
Period size: 33 Copynumber: 11.0 Consensus size: 33
12636811 TCAGTTCAAT
** * *
12636821 TCATTTTTAGACTTTGATTCAATCCAAGTTATA
1 TCATTTTTAGACTTCAATTCAGTCCAAGTCATA
** * ** *
12636854 AAATTTTTAGGCTTCAATTCAGTCTTAGTCATT
1 TCATTTTTAGACTTCAATTCAGTCCAAGTCATA
* *
12636887 TCATTTTTAGGCTT-AAGTTCAGTCCAAGTTATA
1 TCATTTTTAGACTTCAA-TTCAGTCCAAGTCATA
* * ** * *
12636920 GCTTTTTTAGGTTTCAGTTTAGTCCAAGTCATA
1 TCATTTTTAGACTTCAATTCAGTCCAAGTCATA
* ** * * *
12636953 ACATTTTTAGACTTTGATTTAATCCAGGTCATTA
1 TCATTTTTAGACTTCAATTCAGTCCAAGTCA-TA
* ** *
12636987 T-ATTTTTATACTTTGATTCAG-CTTAAGTCATA
1 TCATTTTTAGACTTCAATTCAGTC-CAAGTCATA
* * *
12637019 GCAGTTTTAGACTTCAATTCAGTCCAGGTCAT-
1 TCATTTTTAGACTTCAATTCAGTCCAAGTCATA
* ** * * *
12637051 TCTATTTTTAAACTTCAGCTCAATCTAAGTCATG
1 TC-ATTTTTAGACTTCAATTCAGTCCAAGTCATA
* * * * *
12637085 TCACTTCTAGGCTTCAATTCTGTCCATGTCA-A
1 TCATTTTTAGACTTCAATTCAGTCCAAGTCATA
* * *
12637117 TTCATTTTTAGACTTCGATTTAGTCCAAGTCGTA
1 -TCATTTTTAGACTTCAATTCAGTCCAAGTCATA
* * * *
12637151 GCATTTTCA-AGTTTCAGTTCAGTCCAAGTCAT
1 TCATTTTTAGA-CTTCAATTCAGTCCAAGTCAT
12637183 GGTATTTTTT
Statistics
Matches: 240, Mismatches: 78, Indels: 22
0.71 0.23 0.06
Matches are distributed among these distances:
32 7 0.03
33 226 0.94
34 7 0.03
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (33 bp):
TCATTTTTAGACTTCAATTCAGTCCAAGTCATA
Found at i:12637352 original size:32 final size:32
Alignment explanation
Indices: 12637315--12637380 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
12637305 GTTGTTGTAT
* *
12637315 TTTTAGACTTCGATTCATTCCAAGTCATTTCA
1 TTTTAGACTTCGACTCAGTCCAAGTCATTTCA
**
12637347 TTTTAGGGTTCGACTCAGTCCAAGTCATTTCA
1 TTTTAGACTTCGACTCAGTCCAAGTCATTTCA
12637379 TT
1 TT
12637381 CTAAAGCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (32 bp):
TTTTAGACTTCGACTCAGTCCAAGTCATTTCA
Found at i:12637468 original size:23 final size:20
Alignment explanation
Indices: 12637438--12637485 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
12637428 ATTTATTTTC
*
12637438 AAAAAACAA-AGAAATGAAA
1 AAAAAACAACAAAAATGAAA
*
12637457 AAAATAACAACAAAAATTAAA
1 AAAA-AACAACAAAAATGAAA
12637478 AAAAAACA
1 AAAAAACA
12637486 CTTTTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 9 0.36
21 12 0.48
ACGTcount: A:0.79, C:0.08, G:0.04, T:0.08
Consensus pattern (20 bp):
AAAAAACAACAAAAATGAAA
Found at i:12640371 original size:19 final size:18
Alignment explanation
Indices: 12640347--12640408 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
12640337 TATACCCTTG
*
12640347 CTAAACCTTAGATTAAACC
1 CTAAACCTTAG-TCAAACC
12640366 CTAAACCTATAGTCAAACC
1 CTAAACCT-TAGTCAAACC
* *
12640385 TTAAACCTTAAGTCAAGCC
1 CTAAACCTT-AGTCAAACC
12640404 CTAAA
1 CTAAA
12640409 ACCCTAGCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 33 0.89
20 3 0.08
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (18 bp):
CTAAACCTTAGTCAAACC
Found at i:12640710 original size:24 final size:25
Alignment explanation
Indices: 12640666--12640746 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 25
12640656 CCTTAAAGTC
* * *
12640666 AAACCT-TAAAATCGAATCCTTGTCT
1 AAACCTCTAAATTTGAA-CCTTGTCA
*
12640691 AAACCTC-AAATTTGAACCTTCCTCA
1 AAACCTCTAAATTTGAACCTT-GTCA
* *
12640716 AAACC-CTAAATTTGATCCTTTGTCC
1 AAACCTCTAAATTTGAACC-TTGTCA
12640741 AAACCT
1 AAACCT
12640747 AGAAACCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
24 5 0.11
25 37 0.84
26 2 0.05
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (25 bp):
AAACCTCTAAATTTGAACCTTGTCA
Found at i:12640744 original size:25 final size:26
Alignment explanation
Indices: 12640681--12640745 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 26
12640671 TTAAAATCGA
*
12640681 ATCC-TTGTCTAAA-CCTCAAATTTG
1 ATCCTTTGTCAAAACCCTCAAATTTG
* **
12640705 AACCTTCCTCAAAACCCT-AAATTTG
1 ATCCTTTGTCAAAACCCTCAAATTTG
*
12640730 ATCCTTTGTCCAAACC
1 ATCCTTTGTCAAAACC
12640746 TAGAAACCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
24 3 0.10
25 25 0.81
26 3 0.10
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCCTTTGTCAAAACCCTCAAATTTG
Found at i:12647764 original size:2 final size:2
Alignment explanation
Indices: 12647757--12647828 Score: 94
Period size: 2 Copynumber: 36.0 Consensus size: 2
12647747 TACACCATTC
12647757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* *
12647799 AT AT AGT -T AT AT AG AT AT AT AG AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
12647829 GAAACACTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.03
2 58 0.94
3 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12649780 original size:2 final size:2
Alignment explanation
Indices: 12649773--12649800 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12649763 TTAAAAACAC
12649773 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
12649801 TCTTTTGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12649834 original size:105 final size:103
Alignment explanation
Indices: 12649674--12649882 Score: 323
Period size: 105 Copynumber: 2.0 Consensus size: 103
12649664 TGAACATACA
*
12649674 ATATAATATATAATAATATATATTCTTTGATCTGATGGAACACATATTGTTGAGAAAAAAAG-GT
1 ATATAATATATAATAATATATATTCTTTGATCTGATGGAACACATATTGTTGAGAAAAAAAGAGC
12649738 GCGGTAG-AAACAATTACTTTAAAATTTAAAAACACAT
66 GCGGTAGAAAACAATTACTTTAAAATTTAAAAACACAT
* **
12649775 ATATATATATATATATATATATATATTCTTTTGATCTTATGGAACATGTATTGTTGAGAAAAAAA
1 ATATA-ATATATA-ATA-ATATATATTC-TTTGATCTGATGGAACACATATTGTTGAGAAAAAAA
*
12649840 GAGCGCGGTAGAAAACAATTACTTTAAAATTTAAACACACAT
62 GAGCGCGGTAGAAAACAATTACTTTAAAATTTAAAAACACAT
12649882 A
1 A
12649883 ATTTCCTCAG
Statistics
Matches: 97, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
101 5 0.05
102 7 0.07
103 3 0.03
104 10 0.10
105 34 0.35
106 8 0.08
107 30 0.31
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (103 bp):
ATATAATATATAATAATATATATTCTTTGATCTGATGGAACACATATTGTTGAGAAAAAAAGAGC
GCGGTAGAAAACAATTACTTTAAAATTTAAAAACACAT
Found at i:12652386 original size:18 final size:19
Alignment explanation
Indices: 12652365--12652402 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
12652355 AAAAAAATTT
12652365 AAAG-AAAAGCAAAAAAAA
1 AAAGAAAAAGCAAAAAAAA
*
12652383 AAAGCAAAAAGGAAAAAAAA
1 AAAG-AAAAAGCAAAAAAAA
12652403 GAAAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAGCAAAAAAAA
Found at i:12652398 original size:13 final size:13
Alignment explanation
Indices: 12652365--12652398 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12652355 AAAAAAATTT
12652365 AAAGAAAAGCAAA
1 AAAGAAAAGCAAA
*
12652378 AAAAAAAAGCAAA
1 AAAGAAAAGCAAA
*
12652391 AAGGAAAA
1 AAAGAAAA
12652399 AAAAGAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGCAAA
Found at i:12656018 original size:20 final size:21
Alignment explanation
Indices: 12655983--12656024 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
12655973 ATGCATCTCA
12655983 TATTGGATAAACAAATTTAAT
1 TATTGGATAAACAAATTTAAT
*
12656004 TATTGG-TAAATAAATTTAAT
1 TATTGGATAAACAAATTTAAT
12656024 T
1 T
12656025 TTTGTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (21 bp):
TATTGGATAAACAAATTTAAT
Found at i:12656333 original size:21 final size:21
Alignment explanation
Indices: 12656309--12656348 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12656299 TTTAAAGCCA
* *
12656309 ATTTTTTTTTTTATTGTTTCT
1 ATTTTCTTATTTATTGTTTCT
12656330 ATTTTCTTATTTATTGTTT
1 ATTTTCTTATTTATTGTTT
12656349 TAACAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (21 bp):
ATTTTCTTATTTATTGTTTCT
Found at i:12664251 original size:2 final size:2
Alignment explanation
Indices: 12664244--12664297 Score: 74
Period size: 2 Copynumber: 27.0 Consensus size: 2
12664234 TACACCATTC
*
12664244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT -T AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
12664286 AT AG AT AT AT AT
1 AT AT AT AT AT AT
12664298 GAAACACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
1 1 0.02
2 44 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (2 bp):
AT
Found at i:12666105 original size:274 final size:270
Alignment explanation
Indices: 12665579--12666127 Score: 796
Period size: 274 Copynumber: 2.0 Consensus size: 270
12665569 ATTCAATTAT
*
12665579 AATGGTACTCATAACAAAAATGTAGATTATAGGAAATTTTGTAATGCTAACTTCCTCTCTTAGCT
1 AATGGTACTCATAACAAAAATGTAGATAATAGGAAATTTTGTAATGCTAACTTCCTCTCTTAGCT
* * *
12665644 ATTATGCTGTTGACCCATGAGAGTGAAAAATGACTTTGTTTACACAAAAATACTACAGACAATTT
66 ATTATGCTGTTGACCCATGAGAGTAAAAAATGACTTTGTTTACACAAAAATACTACAGACAACTC
* * *
12665709 GAAAAGGTTTATGGTTTTTTGGACCTTTGTTTGAACAAAAAACAAAGGTTTAACATCAATTACCT
131 GAAAAGGTTTATGGTCTTTTGGACCTTTATTTGAACAAAAAACAAAGGTATAACATCAATTACCT
*** ** * * * *
12665774 GCTTTGCAGAATTGTTTGCAATGATTGTAGTAAATTTGGAATATTTAATAGTTTTTTCATTGTTA
196 GCAAAGCAGAATTACTTGCAATAATAGAAGCAAATTTGGAATATTTAATAGTTTTTTCATTGTTA
12665839 ATAAAATGGA
261 ATAAAATGGA
*
12665849 AATGGTACTCATAACAAAAATGTAGATAATAGGAAAATTTTGTAATGCTAAAGTT-CTCTCTTAG
1 AATGGTACTCATAACAAAAATGTAGATAATAGG-AAATTTTGTAATGCT-AACTTCCTCTCTTAG
* * * *
12665913 CTATTTTTATGCTGTTGACCCATGAGAGTAAAAAATGCCTTTGTTTACTCAAAAATAGTACAGTC
64 CTA---TTATGCTGTTGACCCATGAGAGTAAAAAATGACTTTGTTTACACAAAAATACTACAGAC
* * * *
12665978 AACTCGAAAATGTTTCTGGTCTTTTGGCCCTTTATTATGAACAAAGAACAAAGGTATAACATCAA
126 AACTCGAAAAGGTTTATGGTCTTTTGGACCTTTATT-TGAACAAAAAACAAAGGTATAACATCAA
*
12666043 TTACCTGCAAAGCAGAATTACTTGCAATAATAGAAGCCAATTTGGAATA-TTAATAGTTTTTTCA
190 TTACCTGCAAAGCAGAATTACTTGCAATAATAGAAGCAAATTTGGAATATTTAATAGTTTTTTCA
12666107 TTGTTAATAAAATGGA
255 TTGTTAATAAAATGGA
12666123 AATGG
1 AATGG
12666128 AAATTGAACA
Statistics
Matches: 247, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
270 32 0.13
271 27 0.11
272 4 0.02
274 119 0.48
275 65 0.26
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (270 bp):
AATGGTACTCATAACAAAAATGTAGATAATAGGAAATTTTGTAATGCTAACTTCCTCTCTTAGCT
ATTATGCTGTTGACCCATGAGAGTAAAAAATGACTTTGTTTACACAAAAATACTACAGACAACTC
GAAAAGGTTTATGGTCTTTTGGACCTTTATTTGAACAAAAAACAAAGGTATAACATCAATTACCT
GCAAAGCAGAATTACTTGCAATAATAGAAGCAAATTTGGAATATTTAATAGTTTTTTCATTGTTA
ATAAAATGGA
Found at i:12666300 original size:97 final size:97
Alignment explanation
Indices: 12666150--12666345 Score: 356
Period size: 97 Copynumber: 2.0 Consensus size: 97
12666140 CAATATATAT
*
12666150 ATATATATATATATATTCTTTTGATCTGATGGAACACATATTGTTGAGAAAAAAAGAGTGCGGTA
1 ATATATATATATATATTCTTTTGATCTGATGGAACACATATTGTTGAGAAAAAAAGAGCGCGGTA
12666215 GAAAACAATTACTTTAAAATTTAAAACACATA
66 GAAAACAATTACTTTAAAATTTAAAACACATA
* **
12666247 ATATATATATATATATTCTTTTGATCTTATGGAACATGTATTGTTGAGAAAAAAAGAGCGCGGTA
1 ATATATATATATATATTCTTTTGATCTGATGGAACACATATTGTTGAGAAAAAAAGAGCGCGGTA
12666312 GAAAACAATTACTTTAAAATTTAAAACACATA
66 GAAAACAATTACTTTAAAATTTAAAACACATA
12666344 AT
1 AT
12666346 TTCCTCAGTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (97 bp):
ATATATATATATATATTCTTTTGATCTGATGGAACACATATTGTTGAGAAAAAAAGAGCGCGGTA
GAAAACAATTACTTTAAAATTTAAAACACATA
Found at i:12670212 original size:31 final size:29
Alignment explanation
Indices: 12670143--12670214 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
12670133 ACACCTAAAC
* *
12670143 AAGTTTAGAAAAAAAAATACAAGAATAGT
1 AAGTTTAAAAAAAAAAATAAAAGAATAGT
*
12670172 AAGTCTAAAAAAAAAAATAAAAGTGAATCA-T
1 AAGTTTAAAAAAAAAAATAAAA--GAAT-AGT
12670203 AAGTTTAAAAAA
1 AAGTTTAAAAAA
12670215 TACATTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.53
31 16 0.44
32 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.21
Consensus pattern (29 bp):
AAGTTTAAAAAAAAAAATAAAAGAATAGT
Found at i:12673916 original size:18 final size:17
Alignment explanation
Indices: 12673876--12673916 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
12673866 CATATATGTG
*
12673876 TGTATGCTTAATATATG
1 TGTATGCTTAATATATA
*
12673893 TATATGCCTTAATATATA
1 TGTATG-CTTAATATATA
12673911 TGTATG
1 TGTATG
12673917 TTGAATTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (17 bp):
TGTATGCTTAATATATA
Found at i:12676407 original size:16 final size:17
Alignment explanation
Indices: 12676388--12676427 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
12676378 TTAATATATA
12676388 TTTTTTAAT-TATTAAT
1 TTTTTTAATGTATTAAT
*
12676404 TTTTTTAATGTATTTAT
1 TTTTTTAATGTATTAAT
*
12676421 TGTTTTA
1 TTTTTTA
12676428 GTGTCATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTTTAATGTATTAAT
Found at i:12677073 original size:16 final size:16
Alignment explanation
Indices: 12677049--12677083 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12677039 AATTTAAATT
12677049 ATTTAAATTATTTTAA
1 ATTTAAATTATTTTAA
*
12677065 ATTTGAATTATTTTAA
1 ATTTAAATTATTTTAA
12677081 ATT
1 ATT
12677084 CGATTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTAAATTATTTTAA
Found at i:12679903 original size:22 final size:22
Alignment explanation
Indices: 12679846--12679893 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
12679836 TTGACAAATT
* *
12679846 AAATCAATCAATATATAATTAC
1 AAATTAATAAATATATAATTAC
12679868 TAAATTAATAAATACTATAATTAC
1 -AAATTAATAAATA-TATAATTAC
12679892 AA
1 AA
12679894 TTATGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTAATAAATATATAATTAC
Found at i:12680847 original size:31 final size:32
Alignment explanation
Indices: 12680774--12680849 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
12680764 TATTAAATAT
* * *
12680774 GATTTCATTTGGTAAAATACTAATGCATGTTT
1 GATTTCATTTGATAAAATACTAATGCATCTTG
*
12680806 GATTTCATTTGATAAAATATTAATGCA-CTTG
1 GATTTCATTTGATAAAATACTAATGCATCTTG
*
12680837 GATTTTATTTGAT
1 GATTTCATTTGAT
12680850 TTCATTTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 14 0.36
32 25 0.64
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (32 bp):
GATTTCATTTGATAAAATACTAATGCATCTTG
Found at i:12680964 original size:691 final size:661
Alignment explanation
Indices: 12679745--12681108 Score: 1824
Period size: 691 Copynumber: 2.0 Consensus size: 661
12679735 CAAAAAACTA
* * * * *
12679745 AATTGATTATATTTATGTTTTTATTATTAATTTTAAATCACTCTCAATTCAATTCATATTAAAAT
1 AATTGACTATATTTATGTTTTAATTATTAACTTTAAAGCACTCTCAATTCAATTCATATTAAAAG
*
12679810 TATTAAAATTTTAAAATTTTCTTAATTTGACAAATTAAATCAATCAATATATAATTACTAAATTA
66 TATTAAAATTTTAAAATTTTCTTAATTTGACAAATTAAATCAACCAATATATAATTACTAAATTA
* * * *
12679875 ATAAATACTATAATTACAATTATGAAATAGTTTATTCTCTAATTAATTATTCGATACATTTATAT
131 ATAAATACTACAATTACAATTATAAAATAATTGATTCTCTAATTAATTATTCGATACATTTATAT
* *
12679940 TTGATTAAATATAGTATTCATTTGAGTAATTGATATATTTCATGATGTATCTCATGTGTAAATAT
196 TTGATTAAATATAGCATTAATTTGAGTAATTGATATA-TT-AT-ATG----T-ATGTGTAAATAT
* *
12680005 ATAAAGCAAATATATCAAATTAATTCTCTACAATTAAATTAATGGAATAAAATATTTTATTAATT
253 AGAAAGCAAATATATCAAATTAATTCTCCACAATTAAATTAATGGAATAAAATATTTTATTAATT
12680070 TATATTTGATTGATACATTTATATTTCATTAAATATGATTTAATTTGTTTTCATTTGATAAAATA
318 TATATTTGATTGATACATTTATATTTCATTAAATATGATTTAATTTGTTTTCATTTGATAAAATA
* * * * * *
12680135 TTAATCCATGTTGATTTCATTTGTTTTTATTTGTAACGTTTTATAATTTTATAATTTAATATTAA
383 TTAATCCATGTGGATTTCATTTGATTTCATTTGTAACGTTTTATAATATTAAAATCTAATATTAA
** * * *
12680200 TGCATGTTGATTTAATTAAAATTTATTTTATTTTATTGTCTTTATTAAATACAATAAATTTAATT
448 TGCACATTGATTTAATTAAAAATTAATTTATTTTATTGCCTTTATTAAATACAATAAATTTAATT
* * *
12680265 TTTTTTATTGTTCTAAATTAAG-GAATCTCTAAATATTAATTGCAAAATAAAATATTTTAATATC
513 TGTTTTATTGTTCTAAATTAAGAG-ATCTCTAAATATTAATGGCAAAATAAAATATTTCAATATC
* * * * *
12680329 AATTAACTTGCCATTGTTATA-CATTTATTTACTCACAATTTTTATTATTTCATTTTTAACTTTC
577 AATCAACTTGCCATTGTTAGACCA-TTATTCACTCACAATTTTTATTATTTCAATATTAACTTTC
12680393 ATAATTTAAAATTATATTATT
641 ATAATTTAAAATTATATTATT
* *
12680414 AATTGACTATATTTATGTTTTAATTATTGACTTTACAGCACTCTCAATTCAATTCATATTAAAAG
1 AATTGACTATATTTATGTTTTAATTATTAACTTTAAAGCACTCTCAATTCAATTCATATTAAAAG
* *
12680479 TATTAATATTTTAAAATTTTCTTAATTTGACAAATTAAATCAACCAATATATAATTAATTAATAA
66 TATTAAAATTTTAAAATTTTCTTAATTTGACAAATTAAATCAACCAATATATAATT-ACT-A-AA
*
12680544 TTTAATAAATACTACAATTACAATTATAAAATAATTGATTCTCTAATCAATTATCAATTATTTGA
128 -TTAATAAATACTACAATTACAATTATAAAATAATTGATTCTC---T-AA-T-T-AATTATTCGA
*
12680609 TACATTTATATTTGATTAAATATAGCATTAATTTGAGTAATTGATGTA-T-T-TG-ATGTGTAAA
185 TACATTTATATTTGATTAAATATAGCATTAATTTGAGTAATTGATATATTATATGTATGTGTAAA
*
12680670 TATAGAAAGCAAATATATCAAATTAATTCTCCATAATTAAATTAATGGAATAAAATATTTTATTA
250 TATAGAAAGCAAATATATCAAATTAATTCTCCACAATTAAATTAATGGAATAAAATATTTTATTA
* *
12680735 ATTTATATTTGATTGATAGATTTATATTTTATTAAATATGATTTCATTTGGTAAAATACTAATGC
315 ATTTATATTTGATTGATACATTTATATTTCATTAAATATG-----A-TT--T---A-A-T--T--
* *
12680800 ATGTTTGATTTCATTTGATAAAATATTAATGCACT-TGGATTTTATTTGATTTCATTTGTAACGT
363 -TG--T--TTTCATTTGATAAAATATTAATCCA-TGTGGATTTCATTTGATTTCATTTGTAACGT
*
12680864 TTTATAATATTAAAATCTAGATATTAATGCACATTGATTTAATTAAAAATTAATTTGTTTTATTG
422 TTTATAATATTAAAATCTA-ATATTAATGCACATTGATTTAATTAAAAATTAATTTATTTTATTG
*
12680929 CCTTTATTAAATATAATAAATTTAATTTGTTTTATTGTTCTAAATTAAGAGATCTCTAAATATTA
486 CCTTTATTAAATACAATAAATTTAATTTGTTTTATTGTTCTAAATTAAGAGATCTCTAAATATTA
* * *
12680994 ATGGTAGAATAAAATATTTCAATATCAATCAACTTGTCATTGTTAGACCATTATTCACTCACAAT
551 ATGGCAAAATAAAATATTTCAATATCAATCAACTTGCCATTGTTAGACCATTATTCACTCACAAT
*
12681059 TTTTATTATTTCAATATTAACTTTCATAATTTAAAATTATCTTATT
616 TTTTATTATTTCAATATTAACTTTCATAATTTAAAATTATATTATT
12681105 AATT
1 AATT
12681109 AACTTACATC
Statistics
Matches: 608, Mismatches: 50, Indels: 52
0.86 0.07 0.07
Matches are distributed among these distances:
668 109 0.18
669 112 0.18
670 2 0.00
671 1 0.00
672 2 0.00
673 39 0.06
674 4 0.01
676 3 0.00
677 2 0.00
678 2 0.00
679 2 0.00
680 55 0.09
681 1 0.00
683 1 0.00
686 2 0.00
688 1 0.00
690 65 0.11
691 202 0.33
692 3 0.00
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.47
Consensus pattern (661 bp):
AATTGACTATATTTATGTTTTAATTATTAACTTTAAAGCACTCTCAATTCAATTCATATTAAAAG
TATTAAAATTTTAAAATTTTCTTAATTTGACAAATTAAATCAACCAATATATAATTACTAAATTA
ATAAATACTACAATTACAATTATAAAATAATTGATTCTCTAATTAATTATTCGATACATTTATAT
TTGATTAAATATAGCATTAATTTGAGTAATTGATATATTATATGTATGTGTAAATATAGAAAGCA
AATATATCAAATTAATTCTCCACAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTG
ATTGATACATTTATATTTCATTAAATATGATTTAATTTGTTTTCATTTGATAAAATATTAATCCA
TGTGGATTTCATTTGATTTCATTTGTAACGTTTTATAATATTAAAATCTAATATTAATGCACATT
GATTTAATTAAAAATTAATTTATTTTATTGCCTTTATTAAATACAATAAATTTAATTTGTTTTAT
TGTTCTAAATTAAGAGATCTCTAAATATTAATGGCAAAATAAAATATTTCAATATCAATCAACTT
GCCATTGTTAGACCATTATTCACTCACAATTTTTATTATTTCAATATTAACTTTCATAATTTAAA
ATTATATTATT
Found at i:12686566 original size:66 final size:66
Alignment explanation
Indices: 12686495--12686685 Score: 240
Period size: 67 Copynumber: 2.8 Consensus size: 66
12686485 TGCTCTTTTG
* * * *
12686495 GGCTTTCTTTACCTTTTT-ATTTTCTTCAATTTAAAACTAATATTTATCAATTAATTGTGTTTTC
1 GGCTTTCTTTA-CTTTTTCATTTTCTTCATTTTAAAAATAATATTTATCAATTAATTGTGTATAC
12686559 TT
65 TT
* *
12686561 GGCTTTCTTTGCTTTTTCATTTTCTTCGATTTTAAAAATAATATTTATTAATTAATTGTGTATAC
1 GGCTTTCTTTACTTTTTCATTTTCTTC-ATTTTAAAAATAATATTTATCAATTAATTGTGTATAC
12686626 TT
65 TT
* * * * *
12686628 GGTTTTCTTTATTTTTTCAATTTTTTTTAGTTTTAAAAATAATATTTATCTATTAATT
1 GGCTTTCTTTACTTTTTC-ATTTTCTTCA-TTTTAAAAATAATATTTATCAATTAATT
12686686 ATGATCATTG
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
65 6 0.06
66 19 0.18
67 50 0.46
68 33 0.31
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.58
Consensus pattern (66 bp):
GGCTTTCTTTACTTTTTCATTTTCTTCATTTTAAAAATAATATTTATCAATTAATTGTGTATACT
T
Found at i:12694236 original size:309 final size:307
Alignment explanation
Indices: 12693730--12694370 Score: 683
Period size: 309 Copynumber: 2.1 Consensus size: 307
12693720 CGAACTCGCC
* * * * **
12693730 TTCAATAATCCAATTAATAAATTTTTAGTTTGG-ATTATTAAA---GGTAATTTTTGTCAAAAAT
1 TTCAATAATCCAATCAATAAATTTTTAG-TTGGTATTATTAAAGGCGGT-TTTTTTTTTAAAACC
** * * ** * * * ** *
12693791 GTCTTAAATAATCCATACACAAAAGTTGGAATGGATTCTTGAAGGTGTTTTTGGCTTAAAACGCC
64 ACCTTCAATAATCCATACAAAAAAGTTAAAACGGATTCTTGAAGATATTTTTGGCCCAAAACACC
* * * * * * * *
12693856 TTTAATATTCTATACGATAAATTTGAATAGTTAAATTATTGAAGGCAGTTTTTGTCAATAATGCC
129 TTTAATATACCATACAATAAATTTGAATAGTGAAATTATTGAAGGCAGTTTTGGTAAAAAATGCA
** *
12693921 TTCAATAACATTTTGTTAGAGATTATTCAAGGCA-TTTC-TGATAGAA-AAACACCTTTAATAAT
194 TTCAATAACATTTTACTAGAGATAATTCAAGGCATTTTCTTGATA-AATAAAC-CC-TTAATAAT
* * *
12693983 CCATAGAAAAATATATCAAACGGATTCTTGAAGGCATTTTT-GGTCGAAAGTTCA
256 CCATAGAAAAA-ATATCAAACGGATGCTTAAAGGCATTTTTGGGT-G-AAGTGCA
* *
12694037 TTCAATAATCCATTCAATTAATTTTTAGTTGGTATTATTAAAGGCGGTTTTTTTTTTAAAACCAC
1 TTCAATAATCCAATCAATAAATTTTTAGTTGGTATTATTAAAGGCGGTTTTTTTTTTAAAACCAC
12694102 CTTCAATAATCCATACAAAAAAGTTAAAACGGATTCTTGAAGATATTTTTGGCCCAAAACACCTT
66 CTTCAATAATCCATACAAAAAAGTTAAAACGGATTCTTGAAGATATTTTTGGCCCAAAACACCTT
* * **
12694167 TAATATACCATATAATAAATTCT-TA-AGTGGGATTATTGAAGGC-GATTTTGGTAAAAAAATGC
131 TAATATACCATACAATAAATT-TGAATAGTGAAATTATTGAAGGCAG-TTTTGGT-AAAAAATGC
* * * **
12694229 ATTCAATAATATTTTACTAGGGATAATTCAAGGCATTTTCTTGCTAAATATGCCCTTAATAATCC
193 ATTCAATAACATTTTACTAGAGATAATTCAAGGCATTTTCTTGATAAATAAACCCTTAATAATCC
* * *
12694294 ATAGAAAAAATATGAAATGGATGCTTAAAGGCATTTTTGGGTGAAGTGCC
258 ATAGAAAAAATATCAAACGGATGCTTAAAGGCATTTTTGGGTGAAGTGCA
*
12694344 TTTAATAATCCAATCAATAAATTTTTA
1 TTCAATAATCCAATCAATAAATTTTTA
12694371 AAAGAGATTA
Statistics
Matches: 274, Mismatches: 49, Indels: 22
0.79 0.14 0.06
Matches are distributed among these distances:
306 4 0.01
307 64 0.23
308 47 0.17
309 141 0.51
310 12 0.04
311 6 0.02
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (307 bp):
TTCAATAATCCAATCAATAAATTTTTAGTTGGTATTATTAAAGGCGGTTTTTTTTTTAAAACCAC
CTTCAATAATCCATACAAAAAAGTTAAAACGGATTCTTGAAGATATTTTTGGCCCAAAACACCTT
TAATATACCATACAATAAATTTGAATAGTGAAATTATTGAAGGCAGTTTTGGTAAAAAATGCATT
CAATAACATTTTACTAGAGATAATTCAAGGCATTTTCTTGATAAATAAACCCTTAATAATCCATA
GAAAAAATATCAAACGGATGCTTAAAGGCATTTTTGGGTGAAGTGCA
Found at i:12694388 original size:63 final size:63
Alignment explanation
Indices: 12694321--12694466 Score: 168
Period size: 64 Copynumber: 2.3 Consensus size: 63
12694311 TGGATGCTTA
* * *
12694321 AAGGCATTTTTGGGTGAAGTGCCTTTAATAATCCA-ATCAATAAATTTTTAAAAGAGATTATTG
1 AAGGCATTTTTGGCTAAAATGCCTTTAATAATCCACA-CAATAAATTTTTAAAAGAGATTATTG
* * * ***
12694384 AAGGCATTTTTGTCCTAAAATGCCTTTAATATTCCACACAATATATTTTTAGGTGAGATTATTG
1 AAGGCATTTTTG-GCTAAAATGCCTTTAATAATCCACACAATAAATTTTTAAAAGAGATTATTG
* *
12694448 AAGGCAATTTTGGTTAAAA
1 AAGGCATTTTTGGCTAAAA
12694467 ACACTTTCAA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
63 17 0.25
64 51 0.74
65 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (63 bp):
AAGGCATTTTTGGCTAAAATGCCTTTAATAATCCACACAATAAATTTTTAAAAGAGATTATTG
Found at i:12694426 original size:64 final size:64
Alignment explanation
Indices: 12694340--12694459 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
12694330 TTGGGTGAAG
*
12694340 TGCCTTTAATAATCCAATCAATAAATTTTTAAAAGAGATTATTGAAGGCATTTTTGTCCTAAAA
1 TGCCTTTAATAATCCAATCAATAAATTTTTAAAAGAGATTATTGAAGGCAATTTTGTCCTAAAA
* * ***
12694404 TGCCTTTAATATTCCACA-CAATATATTTTTAGGTGAGATTATTGAAGGCAATTTTG
1 TGCCTTTAATAATCCA-ATCAATAAATTTTTAAAAGAGATTATTGAAGGCAATTTTG
12694460 GTTAAAAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
64 48 0.98
65 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (64 bp):
TGCCTTTAATAATCCAATCAATAAATTTTTAAAAGAGATTATTGAAGGCAATTTTGTCCTAAAA
Found at i:12694615 original size:35 final size:35
Alignment explanation
Indices: 12694569--12694638 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
12694559 TGTATATGTC
* *
12694569 AAGTCAGTTGTAGGTTTATGCCCAAAAAACATTTG
1 AAGTCAATTGTAGATTTATGCCCAAAAAACATTTG
* * *
12694604 AAGTCAATTGTATATTTATGTCCAGAAAACATTTG
1 AAGTCAATTGTAGATTTATGCCCAAAAAACATTTG
12694639 GTTTATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (35 bp):
AAGTCAATTGTAGATTTATGCCCAAAAAACATTTG
Found at i:12695432 original size:21 final size:22
Alignment explanation
Indices: 12695377--12695433 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
12695367 TACCCTAAAT
12695377 TGAAAAAAAGAAAATTACTTAA
1 TGAAAAAAAGAAAATTACTTAA
* * *
12695399 T-ACATAAATAAAATTACTT-A
1 TGAAAAAAAGAAAATTACTTAA
12695419 TGAAAAAAAGAAAAT
1 TGAAAAAAAGAAAAT
12695434 ATATAATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.89
22 1 0.04
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (22 bp):
TGAAAAAAAGAAAATTACTTAA
Found at i:12697896 original size:12 final size:12
Alignment explanation
Indices: 12697861--12697900 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
12697851 AGACACACCC
12697861 TTTAGCAAACCA
1 TTTAGCAAACCA
*
12697873 -TTAGAAACACCA
1 TTTAGCAA-ACCA
12697885 TTTAGCAAACCA
1 TTTAGCAAACCA
12697897 TTTA
1 TTTA
12697901 ACATATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 6 0.25
12 12 0.50
13 6 0.25
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (12 bp):
TTTAGCAAACCA
Found at i:12698998 original size:187 final size:185
Alignment explanation
Indices: 12698710--12699125 Score: 545
Period size: 187 Copynumber: 2.2 Consensus size: 185
12698700 TAAAAAACAT
*
12698710 CTTTAATAATCCCAAAAATTTTTAAAAGAAAGTTATTGAAGGTGTTTGTTCTAAAAAAATACCTT
1 CTTTAATAATCCCAAAAATTTTTAAAAGAAA-TTATTGAAGGTGTTTATTCTAAAAAAATACCTT
* *
12698775 CAATAATTATGTACAAAAATTAAAAAGAAGTAGTGAAGGCTTTTTTCTAGAATAAA-CACTTTCA
65 CAATAATTATGTACAAAAATTAAAAAGAAGTAGTGAAGGCATTTTTCTAAAATAAAGC-CTTT-A
*
12698839 CTAA-TCATCTTAAAATTTAAGTACT-GATATATTGAAGGCATTTTTCACTAAAAGATGC
128 CTAACT-ATCTTAAAATTTAAGTACTGGA-ATATTGAAGGCATTTTTCACTAAAAGACGC
* * * *
12698897 CTTTAATAATCTCAAAAAATTTTAAAAAGAAATTATTGAAGGTGTTTATTCTTAAAAAATGCCTT
1 CTTTAATAATC-CCAAAAATTTTTAAAAGAAATTATTGAAGGTGTTTATTCTAAAAAAATACCTT
*
12698962 CAATAATTATGTA-AATAAATT-AAAAGAAATTAGTGAAGGCATTTTTCTAAAATAAATGCCTTT
65 CAATAATTATGTACAA-AAATTAAAAAG-AAGTAGTGAAGGCATTTTTCTAAAATAAA-GCCTTT
* * * ** * *
12699025 ACTAACTATTTTAAAATTTGAGTAGTGGAATATTGAAGGTGTTTTTCACTAGAAGACGT
127 ACTAACTATCTTAAAATTTAAGTACTGGAATATTGAAGGCATTTTTCACTAAAAGACGC
* *
12699084 TTTTAATAATCCCAAAAATTTTTAAAAGAAAATTATTAAAGG
1 CTTTAATAATCCCAAAAATTTTTAAAAG-AAATTATTGAAGG
12699126 CATTTTTTTG
Statistics
Matches: 201, Mismatches: 20, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
186 22 0.11
187 153 0.76
188 25 0.12
189 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (185 bp):
CTTTAATAATCCCAAAAATTTTTAAAAGAAATTATTGAAGGTGTTTATTCTAAAAAAATACCTTC
AATAATTATGTACAAAAATTAAAAAGAAGTAGTGAAGGCATTTTTCTAAAATAAAGCCTTTACTA
ACTATCTTAAAATTTAAGTACTGGAATATTGAAGGCATTTTTCACTAAAAGACGC
Found at i:12699217 original size:125 final size:124
Alignment explanation
Indices: 12698981--12699218 Score: 323
Period size: 125 Copynumber: 1.9 Consensus size: 124
12698971 TGTAAATAAA
* *
12698981 TTAAAAGAAATTAGTGAAGGCATTTTTCTAAAATAAATGCCTTTACTAACTATTTTAAAATTTGA
1 TTAAAAGAAATTAGTAAAGGCATTTTTCTAAAATAAATGCCTTTACTAACCATTTTAAAATTTGA
* * ** ** *
12699046 GTAGTGGAATATTGAAGGTGTTTTTCACTAGAAGACGTTTTTAATAATCCCAAAAATTT
66 GTAGTGGAACATTAAAGGCATTTTTCACTAGAAGACGCCTTCAATAATCCCAAAAATTT
* * ** *
12699105 TTAAAAGAAAATTATTAAAGGCATTTTTTTGGAATAAATGCCTTTACTAACCGTTTTAAAATTTG
1 TTAAAAG-AAATTAGTAAAGGCATTTTTCTAAAATAAATGCCTTTACTAACCATTTTAAAATTTG
**
12699170 AGTAGTGGAACATTAAAGGCATTTTTCGTTAGAAGACGCCTTCAATAAT
65 AGTAGTGGAACATTAAAGGCATTTTTCACTAGAAGACGCCTTCAATAAT
12699219 TCCTTTAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
124 7 0.07
125 90 0.93
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (124 bp):
TTAAAAGAAATTAGTAAAGGCATTTTTCTAAAATAAATGCCTTTACTAACCATTTTAAAATTTGA
GTAGTGGAACATTAAAGGCATTTTTCACTAGAAGACGCCTTCAATAATCCCAAAAATTT
Found at i:12700419 original size:24 final size:24
Alignment explanation
Indices: 12700385--12700466 Score: 155
Period size: 24 Copynumber: 3.4 Consensus size: 24
12700375 TATAGTCAAG
*
12700385 ATTTGTACTTGAAATACCAACTTC
1 ATTTGTGCTTGAAATACCAACTTC
12700409 ATTTGTGCTTGAAATACCAACTTC
1 ATTTGTGCTTGAAATACCAACTTC
12700433 ATTTGTGCTTGAAATACCAACTTC
1 ATTTGTGCTTGAAATACCAACTTC
12700457 ATTTGTGCTT
1 ATTTGTGCTT
12700467 AAGTCATTGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (24 bp):
ATTTGTGCTTGAAATACCAACTTC
Found at i:12701139 original size:139 final size:139
Alignment explanation
Indices: 12700905--12701164 Score: 312
Period size: 139 Copynumber: 1.9 Consensus size: 139
12700895 CAAATTAACA
* **
12700905 GTTATTGTTCTATTTTAATGGTTTTGATAGTTTCAATACATGATATTAAACTTATCCAAATTTTG
1 GTTATTGTTCTATTTTAATGGTTTGGATAACTTCAATACATGATATTAAACTTATCCAAATTTTG
* *
12700970 AACTTAGTTGACACAGATGATATGTATGAAAAAGTTATTGTTTACGTCTATTTAGGTAAAAATAC
66 AACTTAGTTGACACAGATGATATGGATGAAAAAGTTATCGTTTACGTCTATTTAGGTAAAAATAC
12701035 AAATTTGTT
131 AAATTTGTT
* * *
12701044 GTTATT-TTGTATTTTAACT-GTTTGGATAACTTCAATACTTGATATTAAACTTGTCC-AATTGA
1 GTTATTGTTCTATTTTAA-TGGTTTGGATAACTTCAATACATGATATTAAACTTATCCAAATT--
* *** * * * *
12701106 TTGAACTTGGTTTTTA-TGATTGATATGGGTGAAAAAGTTGTCGTTTATGTCTATTTAGG
63 TTGAACTTAGTTGACACAGA-TGATATGGATGAAAAAGTTATCGTTTACGTCTATTTAGG
12701165 ACTATTTTTG
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
137 4 0.04
138 44 0.44
139 53 0.52
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (139 bp):
GTTATTGTTCTATTTTAATGGTTTGGATAACTTCAATACATGATATTAAACTTATCCAAATTTTG
AACTTAGTTGACACAGATGATATGGATGAAAAAGTTATCGTTTACGTCTATTTAGGTAAAAATAC
AAATTTGTT
Found at i:12702541 original size:41 final size:41
Alignment explanation
Indices: 12702473--12702550 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
12702463 ATACATTTAT
* **
12702473 TAATTTCGCGACATTTGCATTCAAAAATGTCATTAAATAAA
1 TAATTTAGCGACATTTGCATTCAAAAATACCATTAAATAAA
* *
12702514 TAATTTAGTGACATTTGTA-TCATAAAATACCATTAAA
1 TAATTTAGCGACATTTGCATTCA-AAAATACCATTAAA
12702551 AGTAGCAGCG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.10
41 28 0.90
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (41 bp):
TAATTTAGCGACATTTGCATTCAAAAATACCATTAAATAAA
Found at i:12703097 original size:16 final size:16
Alignment explanation
Indices: 12703076--12703109 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12703066 TGATATAAAT
12703076 TTTTATATATTTTATA
1 TTTTATATATTTTATA
* *
12703092 TTTTATTTATTTTTTA
1 TTTTATATATTTTATA
12703108 TT
1 TT
12703110 CATTAATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATATATTTTATA
Found at i:12704332 original size:13 final size:14
Alignment explanation
Indices: 12704295--12704327 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
12704285 TTTGTTCACA
*
12704295 AAAAACAATTTTTG
1 AAAAACGATTTTTG
12704309 AAAAACGATTTTTG
1 AAAAACGATTTTTG
12704323 AAAAA
1 AAAAA
12704328 TATTTGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (14 bp):
AAAAACGATTTTTG
Found at i:12709518 original size:126 final size:127
Alignment explanation
Indices: 12709288--12709518 Score: 267
Period size: 126 Copynumber: 1.8 Consensus size: 127
12709278 ATGGAGAGAA
* *
12709288 TATTAAAGGCATTTTTTATAGAGAAACGCCATTAATAATCGATAGGAAAAATATGAAACCGATTC
1 TATTAAAGGCAGTTTTTATAGAGAAACGCCATTAATAATCCATAGGAAAAATATGAAACCGATTC
** * * * *
12709353 TTGAAGGTGTTTTTGGTTGAAATCGTATTCTATAATTCAATCAATAAATTTTTAGTTAGGAT
66 TTGAAGGCATTTTTGCTTGAAAACGCATTCAATAATTCAATCAATAAATTTTTAGTTAGGAT
* * *
12709415 TATTAAAGGCAGTTTTTATCA-A-AAATGCC-TTCAATAATCCATA-GACAAAACT-TGGAACGG
1 TATTAAAGGCAGTTTTTAT-AGAGAAACGCCATT-AATAATCCATAGGA-AAAA-TATGAAACCG
*
12709475 ATTCTTGAAGGCATTTTTAGCTT-AAAACGCATTCAATATTTCAA
62 ATTCTTGAAGGCATTTTT-GCTTGAAAACGCATTCAATAATTCAA
12709519 AGAATTAATT
Statistics
Matches: 87, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
125 4 0.05
126 59 0.68
127 23 0.26
128 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (127 bp):
TATTAAAGGCAGTTTTTATAGAGAAACGCCATTAATAATCCATAGGAAAAATATGAAACCGATTC
TTGAAGGCATTTTTGCTTGAAAACGCATTCAATAATTCAATCAATAAATTTTTAGTTAGGAT
Found at i:12710263 original size:35 final size:35
Alignment explanation
Indices: 12710217--12710286 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
12710207 TGTATATATC
*
12710217 AAGTCAGTTGTAGGTTTATGCCCAGAAAACATTTG
1 AAGTCAGTTGTAGATTTATGCCCAGAAAACATTTG
*
12710252 AAGTCAGTTGTATATTTATGCCCAGAAAACATTTG
1 AAGTCAGTTGTAGATTTATGCCCAGAAAACATTTG
12710287 GTTTATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (35 bp):
AAGTCAGTTGTAGATTTATGCCCAGAAAACATTTG
Found at i:12713493 original size:12 final size:12
Alignment explanation
Indices: 12713448--12713495 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
12713438 ATACAAAAAC
*
12713448 ACCATTCAGCAA
1 ACCATTCAACAA
12713460 ACCATTCATA-AA
1 ACCATTCA-ACAA
*
12713472 CCCTATTCAACAA
1 ACC-ATTCAACAA
12713485 ACCATTCAACA
1 ACCATTCAACA
12713496 TACAATTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (12 bp):
ACCATTCAACAA
Found at i:12714379 original size:186 final size:185
Alignment explanation
Indices: 12714068--12715222 Score: 1194
Period size: 186 Copynumber: 6.2 Consensus size: 185
12714058 TTTTGAAAGG
* * * * ** * **
12714068 AAATTATTAAAGGCATTT-TTCCTCAGAAAACGCCTTTGATAATTATGTACAAAAATTAAAAAGA
1 AAATTATTGAAGGCATTTGAT-CTCAAAAAACACCTTCAATAATTATGCACGTAAATT-AAAAGA
* * * * * ** *
12714132 ATTAGTAAAGGCATTTTTCTAGAATAAACATCTTCATTAACCGTTTCAACCTTTTAGTTATGGAA
64 ATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTCAAAATTTAAGTTATGGAA
* * *
12714197 TATTGAAGGCATTTTTTACTGGAAGATACCTTTAATAATTTTAAAAATTTTAAGAAA
129 TATTGAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTCAAAAATTTTAAGAAA
* * * *
12714254 AAATTATTGAAGGCGTTTGATCTTAAAAAACACCTTCAGTAATTGTGCACGTAAATTAAAAGGAA
1 AAATTATTGAAGGCATTTGATCTCAAAAAACACCTTCAATAATTATGCACGTAAATTAAAA-GAA
*
12714319 TTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTCAAAATTTAAGTTATGGAAT
65 TTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTCAAAATTTAAGTTATGGAAT
* *
12714384 ATTGAAGGCATTTTTCACTGGAAGATGACCCCTTTAATAATCTCAAAACTTTTAAGAGA
130 ATTGAAGGCATTTTTCACTGGAAGAT-A--CCTTTAATAATCTCAAAAATTTTAAGAAA
* * *
12714443 AAATTATTGAAGGCATTTGATCTCAAAAGACACCTTTAATAATTATGCACGTAAATTAGAAGGAA
1 AAATTATTGAAGGCATTTGATCTCAAAAAACACCTTCAATAATTATGCACGTAAATTA-AAAGAA
* * * * *
12714508 TTAGTGAAGGCATTTTTTTGGAATAAACACCTTTACTAACTATCTCAAAATTTAAGTTATAGAAT
65 TTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTCAAAATTTAAGTTATGGAAT
* * * * * **
12714573 ATTGATA--CGTTTTTTACTAGAAGATGCCTTTAATAATTTCAAAAATTTTAAGAGG
130 ATTGA-AGGCATTTTTCACTGGAAGATACCTTTAATAATCTCAAAAATTTTAAGAAA
* * *
12714628 AAATTATTAAAGGCATTTGATCTCAAAAGACA-CTTGCAATAATTATGCACGTAAATTAGAAGAA
1 AAATTATTGAAGGCATTTGATCTCAAAAAACACCTT-CAATAATTATGCACGTAAATTAAAAGAA
** * * * * *
12714692 TTAGTGAAACCGTTATTCTAAAATAAACGCCTTTACTAACCATCTCAAAATTTGAA-TTATGGAA
65 TTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTCAAAATTT-AAGTTATGGAA
* * * *
12714756 TATTGAAGGCGTTTTTCACTGGAAAACACCTTTAATAAGCTCAAAAATTTTAA-AAGA
129 TATTGAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTCAAAAATTTTAAGAA-A
* * * *
12714813 AAATTGTTGAAGGCATTTGATCTCAAAAGAA-GCTTTCAATAATTATGCACGTAAATTTGAAAGA
1 AAATTATTGAAGGCATTTGATCTCAAAA-AACACCTTCAATAATTATGCACGTAAA-TTAAAAGA
* ** * * ** * *
12714877 ATTAGTGAAAGTGTTATTCTGGAATAAACACCTTCACTAACTGTCTCAAAATTTGAGTTATGAAA
64 ATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTCAAAATTTAAGTTATGGAA
* **** * *
12714942 TATTGAAGGCATTTTTCACTAGAAGCCGTCTTTAGTAATCCCAAAAATTTTAAGAAA
129 TATTGAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTCAAAAATTTTAAGAAA
* * * * * * * *
12714999 AAATTATTAAAGGCATTTGATCTTAAAAGACACTTTCAATAATTGTGCACATACATTTGAAAGAA
1 AAATTATTGAAGGCATTTGATCTCAAAAAACACCTTCAATAATTATGCACGTA-AATTAAAAGAA
** * * * ** * *
12715064 TTAGTGAAGGTGTTTTTTTGGAATAAACGCCTTCACTAACTGTCTCAAAAGTTAAGTTGTGGAAT
65 TTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTCAAAATTTAAGTTATGGAAT
* * * * * * *
12715129 ATTGAAGACATTTTTTACTGGAAGATGCCTTTATTAATC-CTAACAATTTTACGAGA
130 ATTGAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTC-AAAAATTTTAAGAAA
*
12715185 AAATTATTGAAGGCATTT-ATTCTCAAGAAACACCTTCA
1 AAATTATTGAAGGCATTTGA-TCTCAAAAAACACCTTCA
12715223 CTAACCATCG
Statistics
Matches: 821, Mismatches: 127, Indels: 42
0.83 0.13 0.04
Matches are distributed among these distances:
183 1 0.00
184 65 0.08
185 170 0.21
186 418 0.51
187 5 0.01
188 15 0.02
189 144 0.18
190 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (185 bp):
AAATTATTGAAGGCATTTGATCTCAAAAAACACCTTCAATAATTATGCACGTAAATTAAAAGAAT
TAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTCAAAATTTAAGTTATGGAATA
TTGAAGGCATTTTTCACTGGAAGATACCTTTAATAATCTCAAAAATTTTAAGAAA
Found at i:12719879 original size:67 final size:67
Alignment explanation
Indices: 12719763--12719896 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
12719753 ATCGATGAAC
12719763 CTTATGTTTTTTCATCTCAAGTCAAAAAAGGTTTTTATTCTAAAGATCCCAAAGAATTGGGTTGG
1 CTTATGTTTTTTCATCTCAAGTCAAAAAAGGTTTTTATTCTAAAGATCCCAAAGAATTGGGTTGG
12719828 TT
66 TT
* * *
12719830 CTTATGTTTTTTCATCTCAAGTTAAACAAGTTTTTTATTCTGAAA-ATCCCAAAGAATTGGGTTG
1 CTTATGTTTTTTCATCTCAAGTCAAAAAAGGTTTTTATTCT-AAAGATCCCAAAGAATTGGGTTG
12719894 GTT
65 GTT
12719897 TGTTGTTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 60 0.95
68 3 0.05
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (67 bp):
CTTATGTTTTTTCATCTCAAGTCAAAAAAGGTTTTTATTCTAAAGATCCCAAAGAATTGGGTTGG
TT
Found at i:12722445 original size:21 final size:21
Alignment explanation
Indices: 12722419--12722470 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
12722409 AGAACATGAG
12722419 CATGCTAAAATTGAGAAAGAA
1 CATGCTAAAATTGAGAAAGAA
* * *
12722440 CGTGCTAGAA-TGAGCAAGAA
1 CATGCTAAAATTGAGAAAGAA
12722460 CATGC-AAAATT
1 CATGCTAAAATT
12722471 TTAGCAGTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.12
20 14 0.56
21 8 0.32
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (21 bp):
CATGCTAAAATTGAGAAAGAA
Found at i:12723023 original size:34 final size:33
Alignment explanation
Indices: 12722985--12723085 Score: 94
Period size: 34 Copynumber: 3.0 Consensus size: 33
12722975 AACGTGTCAA
*
12722985 AGATACAAATGCTGCTAATATAGCAGCATTTTCC
1 AGATACAAACGCTGCTAATATAGC-GCATTTTCC
* * * *
12723019 AGATACATACGTTGCTAATATAACGACATTTTTC
1 AGATACAAACGCTGCTAATATAGCG-CATTTTCC
* * * *
12723053 AAATACAAACGCCGTTAATGTAGCGGCATTTTC
1 AGATACAAACGCTGCTAATATAGC-GCATTTTC
12723086 TATTTTTCAC
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
33 1 0.02
34 50 0.96
35 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (33 bp):
AGATACAAACGCTGCTAATATAGCGCATTTTCC
Found at i:12726538 original size:9 final size:10
Alignment explanation
Indices: 12726528--12726559 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
12726518 AAAAAAACCA
12726528 CCCACCTCAC
1 CCCACCTCAC
12726538 CCCACC-CAC
1 CCCACCTCAC
12726547 CCCACCT-AC
1 CCCACCTCAC
12726556 CCCA
1 CCCA
12726560 TCCCATTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.22, C:0.72, G:0.00, T:0.06
Consensus pattern (10 bp):
CCCACCTCAC
Found at i:12726570 original size:19 final size:19
Alignment explanation
Indices: 12726528--12726564 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
12726518 AAAAAAACCA
12726528 CCCACCTCACCCCACCCAC
1 CCCACCTCACCCCACCCAC
12726547 CCCACCT-ACCCCATCCCA
1 CCCACCTCACCCCA-CCCA
12726565 TTCCACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.70, G:0.00, T:0.08
Consensus pattern (19 bp):
CCCACCTCACCCCACCCAC
Found at i:12727521 original size:17 final size:18
Alignment explanation
Indices: 12727499--12727533 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12727489 TATGGTACAG
12727499 ATCTAT-TTTTTTATTTT
1 ATCTATATTTTTTATTTT
12727516 ATCTATATTTTTTATTTT
1 ATCTATATTTTTTATTTT
12727534 TGATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
ATCTATATTTTTTATTTT
Found at i:12728638 original size:22 final size:22
Alignment explanation
Indices: 12728591--12728632 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12728581 TGTTAAAGAG
*
12728591 AAAAAGCAAAGAGTAAAATAAT
1 AAAAAGCAAAGAGAAAAATAAT
12728613 AAAAGAGCAAA-AGAAAAATA
1 AAAA-AGCAAAGAGAAAAATA
12728633 CAAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.71, C:0.05, G:0.14, T:0.10
Consensus pattern (22 bp):
AAAAAGCAAAGAGAAAAATAAT
Found at i:12729347 original size:7 final size:7
Alignment explanation
Indices: 12729335--12729360 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12729325 TTGTTAATAT
12729335 AAAATTA
1 AAAATTA
12729342 AAAATTA
1 AAAATTA
12729349 AAAATTA
1 AAAATTA
12729356 AAAAT
1 AAAAT
12729361 AAATAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:12730260 original size:19 final size:19
Alignment explanation
Indices: 12730232--12730276 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12730222 GATTAAATTT
*
12730232 AAAAAATATATAAAA-TAA
1 AAAAAATATAAAAAAGTAA
12730250 AAAAAAGTATAAAAAAGTAA
1 AAAAAA-TATAAAAAAGTAA
*
12730270 AATAAAT
1 AAAAAAT
12730277 TTTGAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 8 0.35
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (19 bp):
AAAAAATATAAAAAAGTAA
Found at i:12730748 original size:50 final size:51
Alignment explanation
Indices: 12730643--12730752 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
12730633 TAAAAACAAG
* * *
12730643 AAAAAAATTTTCTAAATAGGCCCAAATGGTAGAAAATTTAGAAATTCTGAA
1 AAAAAAAATTTCTAAATAGACCCAAATGATAGAAAATTTAGAAATTCTGAA
*
12730694 AAAAAAAATTTCTAAATTGACCCAAATGAT-GAAAAATTTAGAAA-TCT-AA
1 AAAAAAAATTTCTAAATAGACCCAAATGATAG-AAAATTTAGAAATTCTGAA
12730743 CAAAAAAAAT
1 -AAAAAAAAT
12730753 AAATAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
49 2 0.04
50 13 0.25
51 38 0.72
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (51 bp):
AAAAAAAATTTCTAAATAGACCCAAATGATAGAAAATTTAGAAATTCTGAA
Found at i:12732103 original size:17 final size:17
Alignment explanation
Indices: 12732069--12732101 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12732059 AAATATATTT
*
12732069 TTTAAAAAATTGCTAAA
1 TTTAAAAAATTGCAAAA
12732086 TTTAAAAAATT-CAAAA
1 TTTAAAAAATTGCAAAA
12732102 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (17 bp):
TTTAAAAAATTGCAAAA
Found at i:12732130 original size:23 final size:22
Alignment explanation
Indices: 12732089--12732140 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
12732079 TGCTAAATTT
12732089 AAAAAATTCAAAAATATTTTTA
1 AAAAAATTCAAAAATATTTTTA
* *
12732111 AAAAAATTGAAATATGATTTTTA
1 AAAAAATTCAAAAAT-ATTTTTA
*
12732134 AGAAAAT
1 AAAAAAT
12732141 AAAAGAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (22 bp):
AAAAAATTCAAAAATATTTTTA
Found at i:12738468 original size:64 final size:64
Alignment explanation
Indices: 12738395--12738593 Score: 190
Period size: 62 Copynumber: 3.2 Consensus size: 64
12738385 GTCGAAAGCG
* * * * *
12738395 CCTTTAATAATCCAATCAATAAATTTTTGTAAGGGATTATTGAAAGCAGTTTTGGTAAAAAATG
1 CCTTCAATAATCCAATCAATAAATTTTTGTAATGGATTATTGAAGGCAGTTTTGGTCAAAAATA
* ** * * * * * *
12738459 CCTTCAATAAT-CTATACAA-AAA-AGTTGGAATGGATTATTGAAGGCATTTTTAGCCCAAAACA
1 CCTTCAATAATCCAAT-CAATAAATTTTTGTAATGGATTATTGAAGGCAGTTTTGGTCAAAAATA
* * * * *
12738521 CATTCAATAATCCACTCAATAAATTTTTATATTGGATTATTG-AGGCGGTTTTGGTCAAAAATA
1 CCTTCAATAATCCAATCAATAAATTTTTGTAATGGATTATTGAAGGCAGTTTTGGTCAAAAATA
12738584 CCTTCAATAA
1 CCTTCAATAA
12738594 CATTTTGTTA
Statistics
Matches: 102, Mismatches: 29, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
62 41 0.40
63 35 0.34
64 26 0.25
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (64 bp):
CCTTCAATAATCCAATCAATAAATTTTTGTAATGGATTATTGAAGGCAGTTTTGGTCAAAAATA
Found at i:12738493 original size:126 final size:126
Alignment explanation
Indices: 12738325--12738593 Score: 308
Period size: 126 Copynumber: 2.1 Consensus size: 126
12738315 TTTTCGACAG
* * * ** * * *
12738325 AAAAATGCCTTCAATAGTTCATAGAAAAAAATTTGGAATGGATTCTTGAAAGTGTTTTTGGTCGA
1 AAAAATGCCTTCAATAATTCATAGAAAAAAAGTTGGAATGGATTATTGAAAGCATTTTTAGCCCA
* * * * *
12738390 AAGCGCCTTTAATAATCCAATCAATAAATTTTTGTAAGGGATTATTGAAAGCAGTTTTGGTA
66 AAACACATTCAATAATCCAATCAATAAATTTTTATAAGGGATTATTG-AAGCAGTTTTGGTA
* *
12738452 AAAAATGCCTTCAATAA-TCTATA-CAAAAAAGTTGGAATGGATTATTGAAGGCATTTTTAGCCC
1 AAAAATGCCTTCAATAATTC-ATAGAAAAAAAGTTGGAATGGATTATTGAAAGCATTTTTAGCCC
* ** * * *
12738515 AAAACACATTCAATAATCCACTCAATAAATTTTTATATTGGATTATTGAGGCGGTTTTGGTC
65 AAAACACATTCAATAATCCAATCAATAAATTTTTATAAGGGATTATTGAAGCAGTTTTGGTA
*
12738577 AAAAATACCTTCAATAA
1 AAAAATGCCTTCAATAA
12738594 CATTTTGTTA
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
125 27 0.23
126 73 0.61
127 19 0.16
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (126 bp):
AAAAATGCCTTCAATAATTCATAGAAAAAAAGTTGGAATGGATTATTGAAAGCATTTTTAGCCCA
AAACACATTCAATAATCCAATCAATAAATTTTTATAAGGGATTATTGAAGCAGTTTTGGTA
Found at i:12741896 original size:13 final size:13
Alignment explanation
Indices: 12741860--12741921 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
12741850 TACTATGTAC
* *
12741860 AGAAACATCATTC
1 AGAAACACCATTT
*
12741873 AGCAA-ACCATTT
1 AGAAACACCATTT
* *
12741885 AAAAACACCATTC
1 AGAAACACCATTT
*
12741898 AGGAA-ACCATTT
1 AGAAACACCATTT
12741910 AGAAACACCATT
1 AGAAACACCATT
12741922 CAGCAAACTA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
12 18 0.49
13 19 0.51
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (13 bp):
AGAAACACCATTT
Found at i:12741896 original size:25 final size:25
Alignment explanation
Indices: 12741862--12741929 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
12741852 CTATGTACAG
*
12741862 AAACATCATTCAGCAAACCATTTAA
1 AAACACCATTCAGCAAACCATTTAA
* *
12741887 AAACACCATTCAGGAAACCATTTAG
1 AAACACCATTCAGCAAACCATTTAA
12741912 AAACACCATTCAGCAAAC
1 AAACACCATTCAGCAAAC
12741930 TAATATCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.19
Consensus pattern (25 bp):
AAACACCATTCAGCAAACCATTTAA
Found at i:12742740 original size:61 final size:60
Alignment explanation
Indices: 12742654--12742844 Score: 156
Period size: 61 Copynumber: 3.1 Consensus size: 60
12742644 ATCTCCTCGT
* *
12742654 TAAAATTTAAG-GAAATTATTGAAGGCGTATTATGCAAAAAATGCCTTCAATAAATTTTTC
1 TAAAAATTAAGTG-AATTATTGAAGGCGTATTATGCAAAAAATACCTTCAATAAATTTTTC
* * * * ** * *
12742714 TAAAAATTGAAGTGAATTATTAAAGGCAT-TTTTAGTAGAAAACCACCTTTACTAATATTCCTTT
1 TAAAAATT-AAGTGAATTATTGAAGGCGTATTAT-GCA-AAAAATACCTTCAATAA-ATT--TTT
*
12742778 AA
60 -C
* *
12742780 TAAAAATTAA-TGGGATTATTGAAGGCGTATTATGCAAAAAATACCTTTAATAAATTTTT-
1 TAAAAATTAAGT-GAATTATTGAAGGCGTATTATGCAAAAAATACCTTCAATAAATTTTTC
12742839 TAAAAA
1 TAAAAA
12742845 ACTTTAAGGG
Statistics
Matches: 102, Mismatches: 19, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
59 6 0.06
60 10 0.10
61 21 0.21
62 13 0.13
63 6 0.06
64 15 0.15
65 20 0.20
66 11 0.11
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (60 bp):
TAAAAATTAAGTGAATTATTGAAGGCGTATTATGCAAAAAATACCTTCAATAAATTTTTC
Found at i:12743285 original size:426 final size:427
Alignment explanation
Indices: 12742696--12743547 Score: 1017
Period size: 426 Copynumber: 2.0 Consensus size: 427
12742686 TGCAAAAAAT
* * *
12742696 GCCTTCAATAAATTTTTCTAAAAATTGAAGTGAATTATTAAAGGCATTTTTAGTAGAAAACCACC
1 GCCTCCAATAAATTTTTCTAAAAATTGAAGTGAATTATTAAAGGCATTTTTAGTAAAAAACCACA
* * * * * *
12742761 TTTACTAATATTCCTTTAATAAAAATTAATGGGATTATTGAAGGCGTATTATGCAAAAAATACCT
66 TTCACCAATATTCCCTTAATAAAAATGAATAGGATAATTGAAGGCGTATTATGCAAAAAATACCT
* * * * * ** ** * *
12742826 TTAATAAATTTTTTAAAAAACTTTAAGGGAATTAGTGAGGGTGTTTATAGTCAAAAGCGCCTTT-
131 TCAATAAATTCTTCAAAAAACTTTAAAGGAATTAGTAAAAGCATTTATAGTAAAAAACG-CTTTC
* *
12742890 AATAAACCCTTTAAAATTTTACTACAAAATTATTGAA-ACAT-TTTTAACTAAAAAATGCCTTTA
195 AATAAACCATTTAAAATTTTACTACAAAATTATTGAAGACATCTTTTAACTAAAAAATACCTTTA
* *
12742953 ATAATCTCAAAAAATTTTTAATAAGAATTTATTAAAGGCATTTTTTTAAGAAAATGCCTTC-AAT
260 ATAATCTC-AAAAACTTTTAAAAAGAATTTATTAAAGGCATTTTTTT-AGAAAATGCCTTCAAAT
* *
12743017 -A-ATTCGACCCATTTTTTCAATACCTTGTTTATTCGAGACGTTTTATG-CTAAAAATGCCTTTA
323 CACATTCGACCCATTTTTTCAATACCTTGTTTATTAGAGACGTTTTATGTC-AAAAATACCTTTA
* *
12743079 ATAATCTTGCCTAAAAACATTACGAGGATTATTAGAGGAAC
387 ATAATCTTGCCCAAAAACATTACCAGGATTATTAGAGGAAC
*
12743120 GCCTCCAATAAATTCTTT-TAAAAAATT-AGAGTGGATTATTAAAGGCATTTTT-GATAAAAAAA
1 GCCTCCAATAAATT-TTTCT-AAAAATTGA-AGTGAATTATTAAAGGCATTTTTAG-T-AAAAAA
* * *
12743182 CTACATTCACCAATATTCCCTTGATAAAAATGGAA-AGGATAATTGAAGGCGTATTATGCAAAGA
61 CCACATTCACCAATATTCCCTTAATAAAAAT-GAATAGGATAATTGAAGGCGTATTATGCAAAAA
* * *
12743246 ATGCCTTCAATAAATTCCTTCAAAAAAC-TTAAAGGAATTAGTAAAAGCATTTGTAGTAAAAAAT
125 ATACCTTCAATAAATT-CTTCAAAAAACTTTAAAGGAATTAGTAAAAGCATTTATAGTAAAAAAC
* * * * * * * *
12743310 GCTTTCAATGATCTATTTAAAATTTTACTACGAGATTATTGAAGGCATCTTTTTACTAAAAGATA
189 GCTTTCAATAAACCATTTAAAATTTTACTACAAAATTATTGAAGACATCTTTTAACTAAAAAATA
* **
12743375 CCTTTAATAATCTCAAAAACTTTTAAAAAGAATTTATTGAAGGTGTTTTTTTAGAAAATGCCTTC
254 CCTTTAATAATCTCAAAAACTTTTAAAAAGAATTTATTAAAGGCATTTTTTTAGAAAATGCCTTC
* **
12743440 AATAATCCAATCCATTCGATCCATTTTTTCAATACCTTGTTTATTAGAGGTGTTTTATGTCAAAA
319 -A-AAT-C-A--CATTCGACCCATTTTTTCAATACCTTGTTTATTAGAGACGTTTTATGTCAAAA
*
12743505 ATATCTTTAATAATCTTGCCCAAAAACATTACCAGGATTATTA
378 ATACCTTTAATAATCTTGCCCAAAAACATTACCAGGATTATTA
12743548 AAGGTGTATT
Statistics
Matches: 358, Mismatches: 50, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
424 16 0.04
425 37 0.10
426 141 0.39
427 47 0.13
428 27 0.08
429 3 0.01
432 1 0.00
435 85 0.24
436 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (427 bp):
GCCTCCAATAAATTTTTCTAAAAATTGAAGTGAATTATTAAAGGCATTTTTAGTAAAAAACCACA
TTCACCAATATTCCCTTAATAAAAATGAATAGGATAATTGAAGGCGTATTATGCAAAAAATACCT
TCAATAAATTCTTCAAAAAACTTTAAAGGAATTAGTAAAAGCATTTATAGTAAAAAACGCTTTCA
ATAAACCATTTAAAATTTTACTACAAAATTATTGAAGACATCTTTTAACTAAAAAATACCTTTAA
TAATCTCAAAAACTTTTAAAAAGAATTTATTAAAGGCATTTTTTTAGAAAATGCCTTCAAATCAC
ATTCGACCCATTTTTTCAATACCTTGTTTATTAGAGACGTTTTATGTCAAAAATACCTTTAATAA
TCTTGCCCAAAAACATTACCAGGATTATTAGAGGAAC
Found at i:12743722 original size:435 final size:424
Alignment explanation
Indices: 12742899--12743746 Score: 917
Period size: 435 Copynumber: 2.0 Consensus size: 424
12742889 TAATAAACCC
*
12742899 TTTAAAATTTTACTACAAAATTATTGAAACATTTTTAACTAAAAAATGCCTTTAATAATCTCAAA
1 TTTAAAATTTTACTACAAAATTATTGAAACATTTTTAACTAAAAAATACCTTTAATAATCTCAAA
* *
12742964 AAATTTTTAATAAGAATTTATTAAAGGCATTTTTTTAAGAAAATGCCTTCAATAATTCGACCCAT
66 AAACTTTTAAAAAGAATTTATTAAAGGCATTTTTTTAAGAAAATGCCTTCAATAATTCGACCCAT
* * *
12743029 TTTTTCAATACCTTGTTTATTCGAGACGTTTTATGCTAAAAATGCCTTTAATAATCTTGCCTAAA
131 TTTTTCAATACCTTGTTTATTAGAGACGTTTTATGCTAAAAATACCTTTAATAATCTTGCCCAAA
* * * * * ** *
12743094 AACATTACGAGGATTATTAGAGGAACGCCTCCAATAAATTCTTTTAAAAAATTAGAGTGGATTAT
196 AACATTACCAGGATTATTAAAGG-ACGACTCAAACAAACACTTCTAAAAAATTAGAGTGGATTAT
* * *
12743159 TAAAGGCATTTTTGATAAAAAAACTACATTCACCAATATTCCCTTGATAAAAATGGAAAGGATAA
260 TAAAGGCATTTTAGATAAAAAAACTACATT-ACCAATAATCCCTCGATAAAAATGGAAAGGATAA
* * * * *
12743224 TTGAAGGCGTATTATGCAAAGAATGCCTTCAATAAATTCCTTCAAAAAACTTAAAGGAATTAGTA
324 TTGAAGGCATATTATGCAAAAAACGCCTTCAATAAATACCCTCAAAAAACTTAAAGGAATTAGTA
*
12743289 AAAGCATTTGTAGTAAAAAATGCTTTCAATGATCTA
389 AAAGCATTTGAAGTAAAAAATGCTTTCAATGATCTA
* * * * *
12743325 TTTAAAATTTTACTACGAGATTATTGAAGGCATCTTTTTACTAAAAGATACCTTTAATAATCTC-
1 TTTAAAATTTTACTACAAAATTATTGAA-ACAT-TTTTAACTAAAAAATACCTTTAATAATCTCA
* **
12743389 AAAAACTTTTAAAAAGAATTTATTGAAGGTGTTTTTTT-AGAAAATGCCTTCAATAATCCAATCC
64 AAAAACTTTTAAAAAGAATTTATTAAAGGCATTTTTTTAAGAAAATGCCTTC---AAT---A---
* ** *
12743453 ATTCGATCCATTTTTTCAATACCTTGTTTATTAGAGGTGTTTTATG-TCAAAAATATCTTTAATA
120 ATTCGACCCATTTTTTCAATACCTTGTTTATTAGAGACGTTTTATGCT-AAAAATACCTTTAATA
* * * * *
12743517 ATCTTGCCCAAAAACATTACCAGGATTATTAAAGG-TGTATTATAAACAAACACTTCTAATAATT
184 ATCTTGCCCAAAAACATTACCAGGATTATTAAAGGACG-ACT-CAAACAAACACTTCTAAAAAAT
* * * *
12743581 TTGAAGATGAGATTATTAAAGGCGTTTCTAG-T-AAAAAA-TAC-TT-TCAATAATCATCTCG-T
247 TAG-AG-TG-GATTATTAAAGGCATTT-TAGATAAAAAAACTACATTACCAATAATC-CCTCGAT
* ** * * *
12743640 TAAAATTTAATGGGATTATTGAAGGCATATTATGCAAAAAACGCCTTCAATAAATACCCT-ATTA
307 AAAAATGGAA-AGGATAATTGAAGGCATATTATGCAAAAAACGCCTTCAATAAATACCCTCA-AA
* * * *
12743704 AAATTTTAAGGCAATTAGTAAAGGCGTTTGAAGTAAAAAATGC
370 AAACTTAAAGG-AATTAGTAAAAGCATTTGAAGTAAAAAATGC
12743747 CTATAATAAT
Statistics
Matches: 346, Mismatches: 54, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
426 39 0.11
427 36 0.10
428 27 0.08
429 3 0.01
432 1 0.00
433 17 0.05
434 57 0.16
435 134 0.39
436 5 0.01
437 8 0.02
438 17 0.05
439 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (424 bp):
TTTAAAATTTTACTACAAAATTATTGAAACATTTTTAACTAAAAAATACCTTTAATAATCTCAAA
AAACTTTTAAAAAGAATTTATTAAAGGCATTTTTTTAAGAAAATGCCTTCAATAATTCGACCCAT
TTTTTCAATACCTTGTTTATTAGAGACGTTTTATGCTAAAAATACCTTTAATAATCTTGCCCAAA
AACATTACCAGGATTATTAAAGGACGACTCAAACAAACACTTCTAAAAAATTAGAGTGGATTATT
AAAGGCATTTTAGATAAAAAAACTACATTACCAATAATCCCTCGATAAAAATGGAAAGGATAATT
GAAGGCATATTATGCAAAAAACGCCTTCAATAAATACCCTCAAAAAACTTAAAGGAATTAGTAAA
AGCATTTGAAGTAAAAAATGCTTTCAATGATCTA
Found at i:12751292 original size:18 final size:18
Alignment explanation
Indices: 12751265--12751299 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12751255 AATAAATATT
*
12751265 AAAAGAAAATTTTTTAAA
1 AAAAGAAAATTTCTTAAA
*
12751283 AAAAGTAAATTTCTTAA
1 AAAAGAAAATTTCTTAA
12751300 TTTCGTGACG
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:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAAGAAAATTTCTTAAA
Found at i:12756761 original size:164 final size:165
Alignment explanation
Indices: 12756475--12756782 Score: 519
Period size: 164 Copynumber: 1.9 Consensus size: 165
12756465 CTAAGAACTT
* * * *
12756475 TAAAAGTTACTGGTTTGGGAATAAGCTTATTTATGACCAATTTCAGCTTTTCATTATAGTAAATT
1 TAAAAGTTACTAGTTTGGGAATAAGCTTATTTATGACCAATTTCAACTTTTCACTATAGCAAATT
* *
12756540 ATCCTAGGTTTTAACACCAACTTCAATGATATGTTGTTGGTGGATACCTTAGCATTTTTACAAGT
66 ATCATAGGTTTTAACACCAACTTCAATGATATGTCGTTGGTGGATACCTTAGCATTTTTACAAGT
12756605 CTCTCATTCTTCATGGAATGAAAGACTAGGAACCC
131 CTCTCATTCTTCATGGAATGAAAGACTAGGAACCC
12756640 TAAAAGTTACTAGTTTGGGAATAAGCTTATTTATGACCAATTTCAACTTTTCACTAT-GCAAATT
1 TAAAAGTTACTAGTTTGGGAATAAGCTTATTTATGACCAATTTCAACTTTTCACTATAGCAAATT
* ** *
12756704 ATCATAGGTTTTGACACCAACTTTGATGATATGTCGTTGGTGGATACCTTGGCATTTTTACAAGT
66 ATCATAGGTTTTAACACCAACTTCAATGATATGTCGTTGGTGGATACCTTAGCATTTTTACAAGT
12756769 CTCTCATTCTTCAT
131 CTCTCATTCTTCAT
12756783 AGAACTTAAT
Statistics
Matches: 133, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
164 79 0.59
165 54 0.41
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (165 bp):
TAAAAGTTACTAGTTTGGGAATAAGCTTATTTATGACCAATTTCAACTTTTCACTATAGCAAATT
ATCATAGGTTTTAACACCAACTTCAATGATATGTCGTTGGTGGATACCTTAGCATTTTTACAAGT
CTCTCATTCTTCATGGAATGAAAGACTAGGAACCC
Found at i:12763518 original size:39 final size:38
Alignment explanation
Indices: 12763464--12763540 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 38
12763454 ATGAAAGTTA
* * *
12763464 TTAAATCTTCTAATAGTTTGGTAAGATTTAATTTAAAAT
1 TTAAATCTTCTAATAGTTTGATAA-AATTAAGTTAAAAT
12763503 TTAAATCTTCTAATAGTTTGATAAAATTAAGTTAAAAT
1 TTAAATCTTCTAATAGTTTGATAAAATTAAGTTAAAAT
12763541 ATTTTTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 12 0.34
39 23 0.66
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (38 bp):
TTAAATCTTCTAATAGTTTGATAAAATTAAGTTAAAAT
Found at i:12763702 original size:11 final size:11
Alignment explanation
Indices: 12763688--12763716 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
12763678 ATCAATTTAT
12763688 ATAAAATTAGC
1 ATAAAATTAGC
12763699 ATAAAATTAGC
1 ATAAAATTAGC
12763710 ATAAAAT
1 ATAAAAT
12763717 AAATTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (11 bp):
ATAAAATTAGC
Found at i:12764616 original size:27 final size:24
Alignment explanation
Indices: 12764573--12764625 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
12764563 AGATAAATAT
* *
12764573 AAAATATAAAATAAATAACGATAAA
1 AAAATAGAAAATAAATAA-AATAAA
12764598 AAAATAGATAAATACAATAAAATAAA
1 AAAATAGA-AAATA-AATAAAATAAA
12764624 AA
1 AA
12764626 GGATAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 12 0.50
27 5 0.21
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAATAGAAAATAAATAAAATAAA
Found at i:12765026 original size:14 final size:15
Alignment explanation
Indices: 12765004--12765099 Score: 60
Period size: 14 Copynumber: 6.3 Consensus size: 15
12764994 AAGCAATAGG
12765004 TAAAGATAAA-ATAA
1 TAAAGATAAAGATAA
*
12765018 TAAATATAAAGATAAA
1 TAAAGATAAAGAT-AA
12765034 TTAAA-AGTAAA-ATAAAA
1 -TAAAGA-TAAAGAT--AA
12765051 TAAAGATAAATGA-AA
1 TAAAGATAAA-GATAA
12765066 TAAAGATAATA-A-AA
1 TAAAGATAA-AGATAA
*
12765080 TAATGATAAAGATAAA
1 TAAAGATAAAGAT-AA
12765096 TAAA
1 TAAA
12765100 ATGATAATAA
Statistics
Matches: 67, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
13 1 0.01
14 21 0.31
15 13 0.19
16 19 0.28
17 12 0.18
18 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (15 bp):
TAAAGATAAAGATAA
Found at i:12765027 original size:20 final size:20
Alignment explanation
Indices: 12765004--12765116 Score: 79
Period size: 20 Copynumber: 5.5 Consensus size: 20
12764994 AAGCAATAGG
12765004 TAAAGATAAA-ATAATAAATA
1 TAAAGATAAATATAATAAA-A
*
12765024 TAAAGATAAATTAAAAGTAAAA
1 TAAAGATAAA-TATAA-TAAAA
* *
12765046 TAAA-ATAAAGATAAATGAAA
1 TAAAGATAAATAT-AATAAAA
* *
12765066 TAAAGAT-AATAAAATAATGA
1 TAAAGATAAATATAATAA-AA
* *
12765086 TAAAGATAAATAAAATGATAA
1 TAAAGATAAATATAAT-AAAA
*
12765107 TAATGATAAA
1 TAAAGATAAA
12765117 ATCAAATAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
19 4 0.05
20 30 0.41
21 27 0.36
22 9 0.12
23 4 0.05
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (20 bp):
TAAAGATAAATATAATAAAA
Found at i:12765110 original size:35 final size:34
Alignment explanation
Indices: 12765041--12765131 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 34
12765031 AAATTAAAAG
*
12765041 TAAAATAAAATAAAGATAAATGAAATAAAGATAA
1 TAAAATAAAATAAAGATAAATAAAATAAAGATAA
*
12765075 TAAAATAATGATAAAGATAAATAAAAT---GATAA
1 TAAAATAA-AATAAAGATAAATAAAATAAAGATAA
* *
12765107 TAATGATAAAATCAA-ATAAATAAAA
1 TAA-AATAAAATAAAGATAAATAAAA
12765132 AAGAAAGATG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
31 10 0.20
32 12 0.24
33 4 0.08
34 8 0.16
35 16 0.32
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (34 bp):
TAAAATAAAATAAAGATAAATAAAATAAAGATAA
Found at i:12765116 original size:62 final size:61
Alignment explanation
Indices: 12765004--12765130 Score: 147
Period size: 62 Copynumber: 2.1 Consensus size: 61
12764994 AAGCAATAGG
12765004 TAAAGATAAAATAATAAATATAAAGATAAATTAAAAGTAAAATAAAATAAAGAT-AAATGAAA
1 TAAAGATAAAATAATAAATATAAAGATAAATTAAAAGTAAAATAAAATAAA-ATCAAAT-AAA
* *
12765066 TAAAGATAATAA-AAT-AATGATAAAGATAAA-TAAAA-TGATAATAATGATAAAATCAAATAAA
1 TAAAGATAA-AATAATAAAT-ATAAAGATAAATTAAAAGT-AAAATAA-AATAAAATCAAATAAA
12765127 TAAA
1 TAAA
12765131 AAAGAAAGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
60 1 0.02
61 23 0.40
62 32 0.55
63 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.24
Consensus pattern (61 bp):
TAAAGATAAAATAATAAATATAAAGATAAATTAAAAGTAAAATAAAATAAAATCAAATAAA
Found at i:12765169 original size:21 final size:22
Alignment explanation
Indices: 12765144--12765184 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
12765134 GAAAGATGAC
*
12765144 ATAAAGATA-CATAAAATAAGA
1 ATAAAGATAGAATAAAATAAGA
12765165 ATAAAGATAGAATAAAATAA
1 ATAAAGATAGAATAAAATAA
12765185 TTATAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (22 bp):
ATAAAGATAGAATAAAATAAGA
Found at i:12765723 original size:77 final size:77
Alignment explanation
Indices: 12765596--12765748 Score: 306
Period size: 77 Copynumber: 2.0 Consensus size: 77
12765586 AATGCAATCT
12765596 GAAAGTTCCTATGCTTGGAGGGATGTTCCTAGTCTATATATTTTCTATTGTTCTTTGGTAGAAGA
1 GAAAGTTCCTATGCTTGGAGGGATGTTCCTAGTCTATATATTTTCTATTGTTCTTTGGTAGAAGA
12765661 GAGAATAGAGTA
66 GAGAATAGAGTA
12765673 GAAAGTTCCTATGCTTGGAGGGATGTTCCTAGTCTATATATTTTCTATTGTTCTTTGGTAGAAGA
1 GAAAGTTCCTATGCTTGGAGGGATGTTCCTAGTCTATATATTTTCTATTGTTCTTTGGTAGAAGA
12765738 GAGAATAGAGT
66 GAGAATAGAGT
12765749 TTTCTTTATC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (77 bp):
GAAAGTTCCTATGCTTGGAGGGATGTTCCTAGTCTATATATTTTCTATTGTTCTTTGGTAGAAGA
GAGAATAGAGTA
Found at i:12769919 original size:22 final size:21
Alignment explanation
Indices: 12769889--12769930 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
12769879 TTGCTGGAGC
12769889 TTTTTTAATTGAATAATATTT
1 TTTTTTAATTGAATAATATTT
*
12769910 TTTTTGTAATTGAATAGTATT
1 TTTTT-TAATTGAATAATATT
12769931 ATTTATTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
TTTTTTAATTGAATAATATTT
Found at i:12774299 original size:3 final size:3
Alignment explanation
Indices: 12774291--12774320 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
12774281 TTAAAAATAG
12774291 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12774321 TATTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:12775164 original size:49 final size:49
Alignment explanation
Indices: 12775081--12775229 Score: 208
Period size: 50 Copynumber: 3.0 Consensus size: 49
12775071 TTTTTTTCAT
* *
12775081 TTTATTTTCTATTTACTTTTTTATTCATTTTATTTTTCTAGATTTTCTTA
1 TTTATTTTCTATTTAC-ATTTTATTTATTTTATTTTTCTAGATTTTCTTA
* *
12775131 TTTATTTTCTATTTACATTTAATTTATTTTATTTTTCTAGATTTTTTTTA
1 TTTATTTTCTATTTACATTTTATTTATTTTATTTTTCTAGA-TTTTCTTA
* * *
12775181 TTTATTTTCTGTTTACATTTTATTTATTGTATTCTTTTTAGATTTTCTT
1 TTTATTTTCTATTTACATTTTATTTATTTTATT-TTTCTAGATTTTCTT
12775230 TAATTTCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
49 22 0.25
50 59 0.67
51 7 0.08
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (49 bp):
TTTATTTTCTATTTACATTTTATTTATTTTATTTTTCTAGATTTTCTTA
Found at i:12775183 original size:28 final size:27
Alignment explanation
Indices: 12775097--12775188 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 27
12775087 TTCTATTTAC
*
12775097 TTTTTTATTCATTTTATTTTTCTAGAT
1 TTTTTTATTTATTTTATTTTTCTAGAT
* * * *
12775124 TTTCTTATTTATTTT-CTATT-TACA-
1 TTTTTTATTTATTTTATTTTTCTAGAT
*
12775148 --TTTAATTTATTTTATTTTTCTAGATT
1 TTTTTTATTTATTTTATTTTTCTAGA-T
12775174 TTTTTTATTTATTTT
1 TTTTTTATTTATTTT
12775189 CTGTTTACAT
Statistics
Matches: 48, Mismatches: 11, Indels: 11
0.69 0.16 0.16
Matches are distributed among these distances:
22 11 0.23
23 3 0.06
24 3 0.06
25 3 0.06
26 3 0.06
27 13 0.27
28 12 0.25
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTTTTATTTATTTTATTTTTCTAGAT
Found at i:12786905 original size:66 final size:66
Alignment explanation
Indices: 12786827--12787038 Score: 193
Period size: 64 Copynumber: 3.2 Consensus size: 66
12786817 TTGATTCTTA
* * *
12786827 TCACTCATTTTTTTATCTCAATTTGATCTAGATCATATTATTTTTTTGACTCACGGTTCGATCTC
1 TCACTCA-TTTTTTATCTCAATTTGATCTAGATCATATTATTTTTTTGACTCGCGATTAGATCTC
*
12786892 AG
65 GG
* * * * * *
12786894 TCACTTA-TTTTTATC-CTAGTTT-AGTCTAGATCATGTTATTTTTTTTGACTCGTGCTTTGATC
1 TCACTCATTTTTTATCTC-AATTTGA-TCTAGATCATATTA-TTTTTTTGACTCGCGATTAGATC
*
12786956 CCGG
63 TCGG
** * * *
12786960 TCACTCATTTTTTATCTCACCTTG-GCTCAAATCATATTA-TTTTTT-ACTTGCGATTAGATCTC
1 TCACTCATTTTTTATCTCAATTTGATCT-AGATCATATTATTTTTTTGACTCGCGATTAGATCTC
12787022 GG
65 GG
12787024 TCACTCATTTTTTAT
1 TCACTCATTTTTTAT
12787039 TTTGGCTCGA
Statistics
Matches: 118, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
64 31 0.26
65 31 0.26
66 29 0.25
67 26 0.22
68 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (66 bp):
TCACTCATTTTTTATCTCAATTTGATCTAGATCATATTATTTTTTTGACTCGCGATTAGATCTCG
G
Found at i:12787783 original size:3 final size:3
Alignment explanation
Indices: 12787775--12787835 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
12787765 TTGGTCTAAC
12787775 TAT TAT TAT 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 TAT TAT TAT
12787823 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
12787836 TTAATTTTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12788642 original size:25 final size:24
Alignment explanation
Indices: 12788560--12788662 Score: 84
Period size: 25 Copynumber: 4.1 Consensus size: 24
12788550 TCATTTTATT
12788560 TTTTATTTACATTTTTATTTATTTTA
1 TTTT-TTTACA-TTTTATTTATTTTA
* * *
12788586 TTTTTCTAAATTTT-CTTA-TTTA
1 TTTTTTTACATTTTATTTATTTTA
12788608 TTTATGTTTACATTTTATTTATTTTA
1 TTT-T-TTTACATTTTATTTATTTTA
* * *
12788634 TTCTTTTTAGATTTTCTTTAATTTCA
1 TT-TTTTTACATTTTATTT-ATTTTA
12788660 TTT
1 TTT
12788663 ATTATCATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
22 7 0.11
23 4 0.06
24 12 0.19
25 20 0.32
26 18 0.29
27 1 0.02
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTTTACATTTTATTTATTTTA
Found at i:12790430 original size:18 final size:18
Alignment explanation
Indices: 12790392--12790431 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12790382 GTGATACACT
*
12790392 TTTTGGGCTTGTATTTTC
1 TTTTGGGCTTCTATTTTC
12790410 TTTTGGGCTTCT-TTTTAC
1 TTTTGGGCTTCTATTTT-C
12790428 TTTT
1 TTTT
12790432 TGCAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.05, C:0.12, G:0.17, T:0.65
Consensus pattern (18 bp):
TTTTGGGCTTCTATTTTC
Found at i:12791936 original size:63 final size:63
Alignment explanation
Indices: 12791760--12792228 Score: 318
Period size: 63 Copynumber: 7.4 Consensus size: 63
12791750 TGAAACACAG
* * * ** ** ** *
12791760 TAATTGATAATTGTAATTTTTTCTCAAATGATCAATTGCTGCATTGTTTTGTTTTATAATGCAG
1 TAATTGATCATTGTAATTCTTT-TAAAACAATCAATTATTGCATTACTTTGTTTTATAATGCAA
* * * * ** ** ** * * *
12791824 TGATTGGTAATTGTAATTGTAATAAAATGATTGATTACTACATTACTTTGTTTTATTATGCAA
1 TAATTGATCATTGTAATTCTTTTAAAACAATCAATTATTGCATTACTTTGTTTTATAATGCAA
* * * *
12791887 T-ATTGATTATTGTAATATCTTTTCAAACAATCAATTATTGCATTGCTTTGGTTTATAATGCAA
1 TAATTGATCATTGTAAT-TCTTTTAAAACAATCAATTATTGCATTACTTTGTTTTATAATGCAA
* * * * * * *
12791950 TATTTGATCATTGTAA-TCGTTTTAAAACAATCAATTACTACATTTCTTTATTTTATAACGCAG
1 TAATTGATCATTGTAATTC-TTTTAAAACAATCAATTATTGCATTACTTTGTTTTATAATGCAA
* * * * * ** ** *
12792013 TAATTAATAATTTTAATT-TTAATCAAATGATCAATTATTGTGTTACTTTGTTTTATAATGTAA
1 TAATTGATCATTGTAATTCTT-TTAAAACAATCAATTATTGCATTACTTTGTTTTATAATGCAA
* * * * *
12792076 TAATTGATCATTGTAATTGTTTTAAAACAATAAATTATTGCATTGCTTTGTTTTATAACGTAA
1 TAATTGATCATTGTAATTCTTTTAAAACAATCAATTATTGCATTACTTTGTTTTATAATGCAA
* * * ** ** *
12792139 TAATT-AACAATTGTAATT-TTAATAAAATAATCAATTATCACGGTATTTTGTTTTATAATGCAA
1 TAATTGATC-ATTGTAATTCTT-TTAAAACAATCAATTATTGCATTACTTTGTTTTATAATGCAA
* *
12792202 TAATTAATCATTGTAATTTTTTTAAAA
1 TAATTGATCATTGTAATTCTTTTAAAA
12792229 TAGTAAATTA
Statistics
Matches: 313, Mismatches: 82, Indels: 21
0.75 0.20 0.05
Matches are distributed among these distances:
62 21 0.07
63 256 0.82
64 36 0.12
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.47
Consensus pattern (63 bp):
TAATTGATCATTGTAATTCTTTTAAAACAATCAATTATTGCATTACTTTGTTTTATAATGCAA
Found at i:12791963 original size:126 final size:124
Alignment explanation
Indices: 12791760--12792219 Score: 382
Period size: 126 Copynumber: 3.6 Consensus size: 124
12791750 TGAAACACAG
** * *
12791760 TAATTGATAATTGTAATTTTTTCTCAAATGATCAATTGCTGCATTGTTTTGTTTTATAATGCAGT
1 TAATTGATAATTGTAA-TTTTT-TCAAATGATCAATTATTGCATTGCTTTGTTTTATAATGCAAT
* * ** ** * * *
12791825 GATTGGTAATTGTAATTGTAATAAAATGATTGATTACTACATTACTTTGTTTTATTATGCAA
64 -ATTGATCATTGTAATTGTAATAAAACAATCAATTACTACATTACTTTATTTTATAACGCAA
* ** *
12791887 T-ATTGATTATTGTAATATCTTTTCAAACAATCAATTATTGCATTGCTTTGGTTTATAATGCAAT
1 TAATTGATAATTGTAAT-T-TTTTCAAATGATCAATTATTGCATTGCTTTGTTTTATAATGCAAT
* ** * *
12791951 ATTTGATCATTGTAATCGTTTTAAAACAATCAATTACTACATTTCTTTATTTTATAACGCAG
64 A-TTGATCATTGTAATTGTAATAAAACAATCAATTACTACATTACTTTATTTTATAACGCAA
* * * ** * *
12792013 TAATTAATAATTTTAATTTTAATCAAATGATCAATTATTGTGTTACTTTGTTTTATAATGTAATA
1 TAATTGATAATTGTAATTTT-TTCAAATGATCAATTATTGCATTGCTTTGTTTTATAATGCAAT-
** * * * * * *
12792078 ATTGATCATTGTAATTGTTTTAAAACAATAAATTATTGCATTGCTTTGTTTTATAACGTAA
64 ATTGATCATTGTAATTGTAATAAAACAATCAATTACTACATTACTTTATTTTATAACGCAA
* * * * * ** ** **
12792139 TAATTAACAATTGTAATTTTAATAAAATAATCAATTATCACGGTATTTTGTTTTATAATGCAATA
1 TAATTGATAATTGTAATTTT-TTCAAATGATCAATTATTGCATTGCTTTGTTTTATAATGCAAT-
*
12792204 ATTAATCATTGTAATT
64 ATTGATCATTGTAATT
12792220 TTTTTAAAAT
Statistics
Matches: 275, Mismatches: 52, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
125 4 0.01
126 254 0.92
127 17 0.06
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (124 bp):
TAATTGATAATTGTAATTTTTTCAAATGATCAATTATTGCATTGCTTTGTTTTATAATGCAATAT
TGATCATTGTAATTGTAATAAAACAATCAATTACTACATTACTTTATTTTATAACGCAA
Found at i:12792096 original size:32 final size:31
Alignment explanation
Indices: 12792060--12792234 Score: 101
Period size: 32 Copynumber: 5.5 Consensus size: 31
12792050 TTGTGTTACT
12792060 TTGTTTTATAATGTAATAATTGATCATTGTAA
1 TTGTTTTATAATGTAATAATT-ATCATTGTAA
**
12792092 TTGTTTTA-AA-ACAATAAATTATTGCATTGCT--
1 TTGTTTTATAATGTAAT-AATTA-T-CATTG-TAA
* *
12792123 TTGTTTTATAACGTAATAATTAACAATTGTAA
1 TTGTTTTATAATGTAATAATTATC-ATTGTAA
* ** ** *
12792155 -T-TTTAATAAAATAATCAATTATCACGGTATT
1 TTGTTTTATAATGTAAT-AATTATCATTGTA-A
*
12792186 TTGTTTTATAATGCAATAATTAATCATTGTAA
1 TTGTTTTATAATGTAATAATT-ATCATTGTAA
* *
12792218 TTTTTTTAAAATAGTAA
1 TTGTTTTATAAT-GTAA
12792235 ATTACTGCGC
Statistics
Matches: 106, Mismatches: 22, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
30 21 0.20
31 26 0.25
32 35 0.33
33 24 0.23
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (31 bp):
TTGTTTTATAATGTAATAATTATCATTGTAA
Found at i:12792195 original size:189 final size:187
Alignment explanation
Indices: 12791806--12792221 Score: 462
Period size: 189 Copynumber: 2.2 Consensus size: 187
12791796 TGCTGCATTG
* ** * **
12791806 TTTTGTTTTATAATGCAGTGATTGGTAATTGTAATTGTAATAAAATGATTGATTACTACATTACT
1 TTTTGTTTTATAATGCAGTAATTAATAATTGTAATTTTAATAAAATGATCAATTACTACATTACT
* * * *
12791871 TTGTTTTATTATGCAATATTGATTATTGTAATATCTTTTCAAACAATCAATTATTGCATTGCTTT
66 TTGTTTTATAATGCAATATTGATCATTGTAATATCTTTTAAAACAATAAATTATTGCATTGCTTT
* * * *
12791936 GGTTTATAATGCAATATTTGATCATTGTAATCGTTTTAAAACAATCAATTACTACATT
131 GGTTTATAACGCAATAATTGAACATTGTAATC-TTTTAAAACAATCAATTACTACATA
* * * * * ***
12791994 TCTTTATTTTATAACGCAGTAATTAATAATTTTAATTTTAATCAAATGATCAATTATTGTGTTAC
1 T-TTTGTTTTATAATGCAGTAATTAATAATTGTAATTTTAATAAAATGATCAATTACTACATTAC
* *
12792059 TTTGTTTTATAATGTAATAATTGATCATTGTAAT-TGTTTTAAAACAATAAATTATTGCATTGCT
65 TTTGTTTTATAATGCAAT-ATTGATCATTGTAATATCTTTTAAAACAATAAATTATTGCATTGCT
* * * *
12792123 TTGTTTTATAACGTAATAATT-AACAATTGTAAT-TTTAATAAAATAATCAATTA-TCACGGTA
129 TTGGTTTATAACGCAATAATTGAAC-ATTGTAATCTTT--TAAAACAATCAATTACT-AC-ATA
* *
12792184 TTTTGTTTTATAATGCAATAATTAATCATTGTAATTTT
1 TTTTGTTTTATAATGCAGTAATTAATAATTGTAATTTT
12792222 TTTAAAATAG
Statistics
Matches: 188, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
187 3 0.02
188 4 0.02
189 165 0.88
190 16 0.09
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (187 bp):
TTTTGTTTTATAATGCAGTAATTAATAATTGTAATTTTAATAAAATGATCAATTACTACATTACT
TTGTTTTATAATGCAATATTGATCATTGTAATATCTTTTAAAACAATAAATTATTGCATTGCTTT
GGTTTATAACGCAATAATTGAACATTGTAATCTTTTAAAACAATCAATTACTACATA
Found at i:12792225 original size:126 final size:126
Alignment explanation
Indices: 12791932--12792240 Score: 402
Period size: 126 Copynumber: 2.5 Consensus size: 126
12791922 TATTGCATTG
* * * * *
12791932 CTTTGGTTTATAATGCAATATTTGATCATTGTAATCGTTTTAAAACAATCAATTACTACATTTCT
1 CTTTGTTTTATAATGCAATAATTGATCATTGTAATTGTTTTAAAACAATAAATTACTACATTGCT
* * * * * *** *
12791997 TTATTTTATAACGCAGTAATTAATAATTTTAATTTTAATCAAATGATCAATTATTGTGTTA
66 TTATTTTATAACGCAATAATTAACAATTGTAATTTTAATAAAATAATCAATTATCACGGTA
* * *
12792058 CTTTGTTTTATAATGTAATAATTGATCATTGTAATTGTTTTAAAACAATAAATTATTGCATTGCT
1 CTTTGTTTTATAATGCAATAATTGATCATTGTAATTGTTTTAAAACAATAAATTACTACATTGCT
* *
12792123 TTGTTTTATAACGTAATAATTAACAATTGTAATTTTAATAAAATAATCAATTATCACGGTA
66 TTATTTTATAACGCAATAATTAACAATTGTAATTTTAATAAAATAATCAATTATCACGGTA
* * * * *
12792184 TTTTGTTTTATAATGCAATAATTAATCATTGTAATTTTTTTAAAATAGTAAATTACT
1 CTTTGTTTTATAATGCAATAATTGATCATTGTAATTGTTTTAAAACAATAAATTACT
12792241 GCGCTAATAG
Statistics
Matches: 157, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
126 157 1.00
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (126 bp):
CTTTGTTTTATAATGCAATAATTGATCATTGTAATTGTTTTAAAACAATAAATTACTACATTGCT
TTATTTTATAACGCAATAATTAACAATTGTAATTTTAATAAAATAATCAATTATCACGGTA
Found at i:12792230 original size:63 final size:63
Alignment explanation
Indices: 12791864--12792228 Score: 329
Period size: 63 Copynumber: 5.8 Consensus size: 63
12791854 TTGATTACTA
* * * * *
12791864 CATTACTTTGTTTTATTATGCAAT-ATTGATTATTGTAATATCTTTTCAAACAATCAATTATTG
1 CATTACTTTGTTTTATAATGCAATAATTAATCATTGTAAT-TTTTTTAAAACAATCAATTATTG
* * * * ** * *
12791927 CATTGCTTTGGTTTATAATGCAATATTTGATCATTGTAATCGTTTTAAAACAATCAATTACTA
1 CATTACTTTGTTTTATAATGCAATAATTAATCATTGTAATTTTTTTAAAACAATCAATTATTG
* * * * * * ** * **
12791990 CATTTCTTTATTTTATAACGCAGTAATTAATAATTTTAATTTTAATCAAATGATCAATTATTG
1 CATTACTTTGTTTTATAATGCAATAATTAATCATTGTAATTTTTTTAAAACAATCAATTATTG
** * * * *
12792053 TGTTACTTTGTTTTATAATGTAATAATTGATCATTGTAATTGTTTTAAAACAATAAATTATTG
1 CATTACTTTGTTTTATAATGCAATAATTAATCATTGTAATTTTTTTAAAACAATCAATTATTG
* * * ** * **
12792116 CATTGCTTTGTTTTATAACGTAATAATTAA-CAATTGTAATTTTAATAAAATAATCAATTATCA
1 CATTACTTTGTTTTATAATGCAATAATTAATC-ATTGTAATTTTTTTAAAACAATCAATTATTG
** *
12792179 CGGTATTTTGTTTTATAATGCAATAATTAATCATTGTAATTTTTTTAAAA
1 CATTACTTTGTTTTATAATGCAATAATTAATCATTGTAATTTTTTTAAAA
12792229 TAGTAAATTA
Statistics
Matches: 234, Mismatches: 65, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
62 1 0.00
63 219 0.94
64 14 0.06
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (63 bp):
CATTACTTTGTTTTATAATGCAATAATTAATCATTGTAATTTTTTTAAAACAATCAATTATTG
Found at i:12795079 original size:21 final size:22
Alignment explanation
Indices: 12795055--12795102 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
12795045 CCCAAAATTA
12795055 ATAAAATAATATTTT-TTAAAT
1 ATAAAATAATATTTTATTAAAT
*
12795076 ATAAAATATTATTTTATTAAAT
1 ATAAAATAATATTTTATTAAAT
12795098 ATAAA
1 ATAAA
12795103 TATATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAAATAATATTTTATTAAAT
Found at i:12797348 original size:38 final size:38
Alignment explanation
Indices: 12797302--12797377 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
12797292 ATTCATTAGC
*
12797302 TCTTTTAAGTAATCTTGAGTATTATTATTCTTGGTTAA
1 TCTTTTAAGTAATCTTGAATATTATTATTCTTGGTTAA
*
12797340 TCTTTTAAGTAATCTTGAATATTGTTATTCTTGGTTAA
1 TCTTTTAAGTAATCTTGAATATTATTATTCTTGGTTAA
12797378 CTTAGGTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (38 bp):
TCTTTTAAGTAATCTTGAATATTATTATTCTTGGTTAA
Done.