Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 53 of 84
Found at i:12242212 original size:51 final size:49
Alignment explanation
Indices: 12242157--12242295 Score: 138
Period size: 51 Copynumber: 2.7 Consensus size: 49
12242147 ATATATTAAT
* *
12242157 ATTTTTTAATATAATTTTACTT-ATAAATAATATTACACTAACAAATAAATA
1 ATTTTTTATTATAATTATA-TTAATAAATAATATTACA-T-ACAAATAAATA
* *
12242208 ATTTTTATATTATAA-TATATTAATAAATAATATTATATATAAATAAATA
1 ATTTTT-TATTATAATTATATTAATAAATAATATTACATACAAATAAATA
* *
12242257 ATTTATTATTATAATAAATATTATTATAAATAAATATTA
1 ATTTTTTATTATAAT-TATATTA--ATAAAT-AATATTA
12242296 TAATAAATAA
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
48 8 0.11
49 15 0.20
50 9 0.12
51 23 0.31
52 13 0.17
53 7 0.09
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (49 bp):
ATTTTTTATTATAATTATATTAATAAATAATATTACATACAAATAAATA
Found at i:12242243 original size:28 final size:28
Alignment explanation
Indices: 12242200--12242335 Score: 104
Period size: 28 Copynumber: 4.8 Consensus size: 28
12242190 TACACTAACA
*
12242200 AATAAATAATTTTTATATTATAATATATT
1 AATAAATAA-TATTATATTATAATATATT
12242229 AATAAATAATATTATA-TATAA-ATA--
1 AATAAATAATATTATATTATAATATATT
* * *
12242253 AATAATTTATTATTATAATA-AATATTATT
1 AATAA-ATAATATTATATTATAATA-TATT
*
12242282 -ATAAATAAATATTATAATAAATAATATTATATT
1 AATAAAT-AATATTAT-AT---T-ATAATATATT
12242315 AATAAATAATATTATATTATA
1 AATAAATAATATTATATTATA
12242336 TCAAGAAATC
Statistics
Matches: 86, Mismatches: 7, Indels: 29
0.70 0.06 0.24
Matches are distributed among these distances:
24 5 0.06
25 11 0.13
26 6 0.07
27 8 0.09
28 20 0.23
29 11 0.13
32 3 0.03
33 13 0.15
34 9 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AATAAATAATATTATATTATAATATATT
Found at i:12242375 original size:18 final size:18
Alignment explanation
Indices: 12242228--12242518 Score: 94
Period size: 18 Copynumber: 17.1 Consensus size: 18
12242218 TATAATATAT
*
12242228 TAATAAATAATATTATATA
1 TAATAAATAATATTTTA-A
12242247 TAAATAAATAAT-TTATT-A
1 T-AATAAATAATATT-TTAA
* *
12242265 TTAT-AATAA-ATATT-A
1 TAATAAATAATATTTTAA
* *
12242280 TTATAAATAA-ATATT-A
1 TAATAAATAATATTTTAA
* *
12242296 TAATAAATAATATTATAT
1 TAATAAATAATATTTTAA
* *
12242314 TAATAAATAATATTATAT
1 TAATAAATAATATTTTAA
* *
12242332 TATATCAAGA-AATCA-TATAT
1 TA-AT-AA-ATAAT-ATTTTAA
12242352 TAATAAATAATATTTTAA
1 TAATAAATAATATTTTAA
* *
12242370 TAAT-AAT-ATA--CTAT
1 TAATAAATAATATTTTAA
***
12242384 TAATAAATAATATAAAAA
1 TAATAAATAATATTTTAA
*
12242402 TAATAAAT-A-GTTTT-A
1 TAATAAATAATATTTTAA
**
12242417 TTTTAAAT-AT-TTTT-A
1 TAATAAATAATATTTTAA
12242432 TAATTAATATAATATTTTAA
1 TAA-TAA-ATAATATTTTAA
* *
12242452 TATTAAAT-AT-TATTAA
1 TAATAAATAATATTTTAA
* *
12242468 -AATATAATTATTTTTTAA
1 TAATA-AATAATATTTTAA
*
12242486 T-ATTAAT--TATTTTAA
1 TAATAAATAATATTTTAA
12242501 TAATAAATAAT-TTTTAA
1 TAATAAATAATATTTTAA
12242518 T
1 T
12242519 GTTTTAATAG
Statistics
Matches: 214, Mismatches: 29, Indels: 60
0.71 0.10 0.20
Matches are distributed among these distances:
14 6 0.03
15 35 0.16
16 49 0.23
17 27 0.13
18 55 0.26
19 14 0.07
20 26 0.12
21 2 0.01
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (18 bp):
TAATAAATAATATTTTAA
Found at i:12242376 original size:14 final size:15
Alignment explanation
Indices: 12242219--12242397 Score: 90
Period size: 15 Copynumber: 11.5 Consensus size: 15
12242209 TTTTTATATT
12242219 ATAATATATTAATAA
1 ATAATATATTAATAA
12242234 ATAATATTATATATAAATAA
1 AT-A-A-TATAT-T-AATAA
* *
12242254 ATAATTTATTATTATA
1 ATAATATATTAATA-A
12242270 ATAA-ATATTATTATAA
1 ATAATATATTA--ATAA
12242286 ATAA-ATATTATAATAA
1 ATAATATA-T-TAATAA
12242302 ATAATATTATATTAATAA
1 AT-A-A-TATATTAATAA
12242320 AT-A-ATATT-AT--
1 ATAATATATTAATAA
* *
12242330 AT--TATATCAAGAA
1 ATAATATATTAATAA
*
12242343 ATCATATATTAATAA
1 ATAATATATTAATAA
*
12242358 ATAATATTTTAAT-A
1 ATAATATATTAATAA
12242372 ATAATATACTATTAATAA
1 AT-A-ATA-TATTAATAA
12242390 ATAATATA
1 ATAATATA
12242398 AAAATAATAA
Statistics
Matches: 129, Mismatches: 11, Indels: 48
0.69 0.06 0.26
Matches are distributed among these distances:
10 6 0.05
11 1 0.01
12 2 0.02
13 7 0.05
14 3 0.02
15 34 0.26
16 27 0.21
17 16 0.12
18 20 0.16
19 3 0.02
20 10 0.08
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAATATATTAATAA
Found at i:12242407 original size:9 final size:10
Alignment explanation
Indices: 12242352--12242410 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 10
12242342 AATCATATAT
12242352 TAATAAATAA
1 TAATAAATAA
* *
12242362 TATTTTAATAA
1 TA-ATAAATAA
* *
12242373 TAATATACTAT
1 TAATA-AATAA
12242384 TAATAAATAA
1 TAATAAATAA
12242394 T-ATAAA-AA
1 TAATAAATAA
12242402 TAATAAATA
1 TAATAAATA
12242411 GTTTTATTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
8 3 0.08
9 10 0.27
10 8 0.22
11 16 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
TAATAAATAA
Found at i:12242450 original size:34 final size:35
Alignment explanation
Indices: 12242402--12242518 Score: 113
Period size: 34 Copynumber: 3.5 Consensus size: 35
12242392 AATATAAAAA
*
12242402 TAATA-AATAGTTTT-ATTTTAAATATTTTTATAAT
1 TAATATAATA-TTTTAATATTAAATATTTTTATAAT
* *
12242436 TAATATAATATTTTAATATTAAATATTATTAAAAT
1 TAATATAATATTTTAATATTAAATATTTTTATAAT
* * *
12242471 ATAAT-T-ATTTTTTAATATTAATTATTTTAATAA-
1 -TAATATAATATTTTAATATTAAATATTTTTATAAT
12242504 TAA-ATAAT-TTTTAAT
1 TAATATAATATTTTAAT
12242519 GTTTTAATAG
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
32 11 0.16
33 2 0.03
34 31 0.44
35 22 0.31
36 4 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (35 bp):
TAATATAATATTTTAATATTAAATATTTTTATAAT
Found at i:12242492 original size:17 final size:17
Alignment explanation
Indices: 12242446--12242498 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
12242436 TAATATAATA
*
12242446 TTTTAATATTAAATA-T
1 TTTTAATATTAATTATT
* *
12242462 TATTAAAATATAATTATT
1 TTTTAATAT-TAATTATT
12242480 TTTTAATATTAATTATT
1 TTTTAATATTAATTATT
12242497 TT
1 TT
12242499 AATAATAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 7 0.23
17 15 0.50
18 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAATATTAATTATT
Found at i:12242659 original size:14 final size:15
Alignment explanation
Indices: 12242635--12242663 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12242625 GTTAATTCAA
12242635 AAAATAATTATTTTT
1 AAAATAATTATTTTT
12242650 AAAA-AATTATTTTT
1 AAAATAATTATTTTT
12242664 TATGAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAAATAATTATTTTT
Found at i:12245953 original size:16 final size:16
Alignment explanation
Indices: 12245928--12245958 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12245918 ACCATGTAAA
12245928 ATTTTATTTTAACTTG
1 ATTTTATTTTAACTTG
*
12245944 ATTTTTTTTTAACTT
1 ATTTTATTTTAACTT
12245959 TTAGCTTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTTATTTTAACTTG
Found at i:12250227 original size:22 final size:24
Alignment explanation
Indices: 12250183--12250236 Score: 85
Period size: 22 Copynumber: 2.3 Consensus size: 24
12250173 TATTTATTTA
12250183 ATTTTATATTTATATTAAAAATAAT
1 ATTTTATATTTATA-TAAAAATAAT
12250208 ATTTTATATTT-TA-AAAAATAAT
1 ATTTTATATTTATATAAAAATAAT
12250230 ATTTTAT
1 ATTTTAT
12250237 TAATATCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.55
24 2 0.07
25 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTTATATTTATATAAAAATAAT
Found at i:12254559 original size:24 final size:24
Alignment explanation
Indices: 12254531--12254576 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
12254521 TTAATTAGTA
12254531 ATTATAATCATCAATTCTTTTCGC
1 ATTATAATCATCAATTCTTTTCGC
12254555 ATTATAATCATCAATTCTTTTC
1 ATTATAATCATCAATTCTTTTC
12254577 ACAATAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTATAATCATCAATTCTTTTCGC
Found at i:12265892 original size:15 final size:15
Alignment explanation
Indices: 12265874--12265922 Score: 89
Period size: 15 Copynumber: 3.3 Consensus size: 15
12265864 AGTTGTTCCT
12265874 TAAATAGTTATTATG
1 TAAATAGTTATTATG
12265889 TAAATAGTTATTATG
1 TAAATAGTTATTATG
*
12265904 TAAATAGTTATTTTG
1 TAAATAGTTATTATG
12265919 TAAA
1 TAAA
12265923 AAAATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (15 bp):
TAAATAGTTATTATG
Found at i:12265974 original size:15 final size:15
Alignment explanation
Indices: 12265954--12265984 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12265944 GTTTCGTTAC
*
12265954 ATAGTTGTTCTATAA
1 ATAGTTATTCTATAA
12265969 ATAGTTATTCTATAA
1 ATAGTTATTCTATAA
12265984 A
1 A
12265985 AAAATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (15 bp):
ATAGTTATTCTATAA
Found at i:12266582 original size:37 final size:37
Alignment explanation
Indices: 12266540--12266613 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
12266530 TTTTTCATTT
12266540 ATTAATAAAAACGTTACCTTTTAAAAATAATAAAACA
1 ATTAATAAAAACGTTACCTTTTAAAAATAATAAAACA
* * *
12266577 ATTAATAAAAATGTTACTTTTTTAAAATAATAAAACA
1 ATTAATAAAAACGTTACCTTTTAAAAATAATAAAACA
12266614 GGAGTATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (37 bp):
ATTAATAAAAACGTTACCTTTTAAAAATAATAAAACA
Found at i:12267608 original size:17 final size:17
Alignment explanation
Indices: 12267586--12267620 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12267576 CTCTAAAAAG
12267586 CTTGAACAGAACCCGAT
1 CTTGAACAGAACCCGAT
12267603 CTTGAACAGAACCCGAT
1 CTTGAACAGAACCCGAT
12267620 C
1 C
12267621 CCTCAACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (17 bp):
CTTGAACAGAACCCGAT
Found at i:12267720 original size:81 final size:81
Alignment explanation
Indices: 12267584--12267744 Score: 250
Period size: 81 Copynumber: 2.0 Consensus size: 81
12267574 CTCTCTAAAA
* ** *
12267584 AGCTTGAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAACGCAGCCCTGCTCGTTTCACCC
1 AGCTTCAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAACAAAGCCCTGCTCGTTCCACCC
*
12267649 ATTCGACGTTTGCAGC
66 ATTCGACATTTGCAGC
** *
12267665 AGCTTCAACAGAACCCGATCTTGAACAGAACTTGATCCCTCAACAAAGCCTTGCTCGTTCCACCC
1 AGCTTCAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAACAAAGCCCTGCTCGTTCCACCC
12267730 ATTCGACATTTGCAG
66 ATTCGACATTTGCAG
12267745 TAGCACCCAT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (81 bp):
AGCTTCAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAACAAAGCCCTGCTCGTTCCACCC
ATTCGACATTTGCAGC
Found at i:12267771 original size:104 final size:104
Alignment explanation
Indices: 12267644--12267956 Score: 518
Period size: 104 Copynumber: 3.0 Consensus size: 104
12267634 CTGCTCGTTT
*
12267644 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACTTGATCCCTCAAC
1 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACTCGATCCCTCAAC
* * *
12267709 AAAGCCTTGCTCGTTCCACCCATTCGACATTTGCAGTAG
66 GAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAG
* *
12267748 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACTCGATCTTGAACAGAACCCGATCCCTCAAC
1 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACTCGATCCCTCAAC
*
12267813 GAAGCCCTGCTCATTCCACCCATTCGACGTTTGCAGTAG
66 GAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAG
* * *
12267852 CACCCATTCGACGTTTGCAGCAGTTTCAACAGAACCCGATCTTGAACAAAACTCGATCCCTTAAC
1 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACTCGATCCCTCAAC
* *
12267917 GAAGCCCTACTCGTTCCACACATTCGACGTTTGCAGTAG
66 GAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAG
12267956 C
1 C
12267957 TTGAACAGAA
Statistics
Matches: 194, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
104 194 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (104 bp):
CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACTCGATCCCTCAAC
GAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAG
Found at i:12267994 original size:64 final size:64
Alignment explanation
Indices: 12267892--12268013 Score: 183
Period size: 64 Copynumber: 1.9 Consensus size: 64
12267882 AGAACCCGAT
* *
12267892 CTTGAACAAAACTCGATCCCTTAACGAAGCCCTACTCGTTCCACACATTCGACGTTTGCAGTAG
1 CTTGAACAAAACTCGATCCCTCAACAAAGCCCTACTCGTTCCACACATTCGACGTTTGCAGTAG
* * *
12267956 CTTGAACAGAAC-CTGATCTCTCAACAAAGCCCTACTCGTTCCACCCATTCGACGTTTG
1 CTTGAACAAAACTC-GATCCCTCAACAAAGCCCTACTCGTTCCACACATTCGACGTTTG
12268014 TAATAGCACC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
63 1 0.02
64 51 0.98
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (64 bp):
CTTGAACAAAACTCGATCCCTCAACAAAGCCCTACTCGTTCCACACATTCGACGTTTGCAGTAG
Found at i:12268033 original size:87 final size:87
Alignment explanation
Indices: 12267788--12268061 Score: 251
Period size: 87 Copynumber: 3.2 Consensus size: 87
12267778 AGAACTCGAT
* * * * * *
12267788 CTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCATTCCACCCATTCGACGTTTGCAGTAGC
1 CTTGAACAGAACCCGATCTCTCAACAAAGCCCTACTCGTTCCACCCATTCGACGTTTGTAATAGC
*
12267853 ACCCATTCGACGTTTGCAGCAG
66 ACCCATTCGACGTTTGCAGTAG
* * * * ** * * *** * *
12267875 TTTCAACAGAACCCGATCT-TGAACAAA-----ACTCGATCC-CTTA-ACGAAG-CCCTACTCGT
1 CTTGAACAGAACCCGATCTCTCAACAAAGCCCTACTCGTTCCACCCATTCGACGTTTGTAATAG-
*
12267931 TCCACACATTCGACGTTTGCAGTAG
65 --CACCCATTCGACGTTTGCAGTAG
*
12267956 CTTGAACAGAACCTGATCTCTCAACAAAGCCCTACTCGTTCCACCCATTCGACGTTTGTAATAGC
1 CTTGAACAGAACCCGATCTCTCAACAAAGCCCTACTCGTTCCACCCATTCGACGTTTGTAATAGC
12268021 ACCCATTCGACGTTTGCAGTAG
66 ACCCATTCGACGTTTGCAGTAG
*
12268043 CTTGAACAGAACCCAATCT
1 CTTGAACAGAACCCGATCT
12268062 TGAACAGAAC
Statistics
Matches: 138, Mismatches: 37, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
78 3 0.02
79 4 0.03
80 2 0.01
81 43 0.31
82 7 0.05
86 6 0.04
87 63 0.46
88 2 0.01
89 4 0.03
90 4 0.03
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (87 bp):
CTTGAACAGAACCCGATCTCTCAACAAAGCCCTACTCGTTCCACCCATTCGACGTTTGTAATAGC
ACCCATTCGACGTTTGCAGTAG
Found at i:12268043 original size:23 final size:23
Alignment explanation
Indices: 12267997--12268043 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
12267987 CTACTCGTTC
*
12267997 CACCCATTCGACGTTTGTAATAG
1 CACCCATTCGACGTTTGCAATAG
*
12268020 CACCCATTCGACGTTTGCAGTAG
1 CACCCATTCGACGTTTGCAATAG
12268043 C
1 C
12268044 TTGAACAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (23 bp):
CACCCATTCGACGTTTGCAATAG
Found at i:12268066 original size:168 final size:168
Alignment explanation
Indices: 12267788--12268124 Score: 505
Period size: 168 Copynumber: 2.0 Consensus size: 168
12267778 AGAACTCGAT
* * *
12267788 CTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCATTCCACCCATTCGACGTTTGCAGTAGC
1 CTTGAACAGAACCCGATCCCTCAACAAAGCCCTACTCATTCCACCCATTCGACGTTTGCAATAGC
* * *
12267853 ACCCATTCGACGTTTGCAGCAGTTTCAACAGAACCCGATCTTGAACAAAA-CTCGATCCCTTAAC
66 ACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCAATCTTGAACAAAACCT-GATCCCTCAAC
*
12267917 GAAGCCCTACTCGTTCCACACATTCGACGTTTGCAGTAG
130 GAAGCCCTACTCATTCCACACATTCGACGTTTGCAGTAG
* * * *
12267956 CTTGAACAGAACCTGATCTCTCAACAAAGCCCTACTCGTTCCACCCATTCGACGTTTGTAATAGC
1 CTTGAACAGAACCCGATCCCTCAACAAAGCCCTACTCATTCCACCCATTCGACGTTTGCAATAGC
* * * *
12268021 ACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCAATCTTGAACAGAACCTGATCCCTCAATG
66 ACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCAATCTTGAACAAAACCTGATCCCTCAACG
* *
12268086 AAGCCCTGCTCATTCCACCCATTCGACGTTTGCAGTAG
131 AAGCCCTACTCATTCCACACATTCGACGTTTGCAGTAG
12268124 C
1 C
12268125 ACCCATTCGA
Statistics
Matches: 151, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
168 149 0.99
169 2 0.01
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (168 bp):
CTTGAACAGAACCCGATCCCTCAACAAAGCCCTACTCATTCCACCCATTCGACGTTTGCAATAGC
ACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCAATCTTGAACAAAACCTGATCCCTCAACG
AAGCCCTACTCATTCCACACATTCGACGTTTGCAGTAG
Found at i:12268131 original size:23 final size:23
Alignment explanation
Indices: 12268101--12268147 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12268091 CTGCTCATTC
12268101 CACCCATTCGACGTTTGCAGTAG
1 CACCCATTCGACGTTTGCAGTAG
12268124 CACCCATTCGACGTTTGCAGTAG
1 CACCCATTCGACGTTTGCAGTAG
12268147 C
1 C
12268148 TTGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (23 bp):
CACCCATTCGACGTTTGCAGTAG
Found at i:12268136 original size:104 final size:104
Alignment explanation
Indices: 12267956--12268160 Score: 338
Period size: 104 Copynumber: 2.0 Consensus size: 104
12267946 TTTGCAGTAG
* * *
12267956 CTTGAACAGAACCTGATCTCTCAACAAAGCCCTACTCGTTCCACCCATTCGACGTTTGTAATAGC
1 CTTGAACAGAACCTGATCCCTCAACAAAGCCCTACTCATTCCACCCATTCGACGTTTGCAATAGC
12268021 ACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCAAT
66 ACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCAAT
** * *
12268060 CTTGAACAGAACCTGATCCCTCAATGAAGCCCTGCTCATTCCACCCATTCGACGTTTGCAGTAGC
1 CTTGAACAGAACCTGATCCCTCAACAAAGCCCTACTCATTCCACCCATTCGACGTTTGCAATAGC
*
12268125 ACCCATTCGACGTTTGCAGTAGCTTGAATAGAACCC
66 ACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCC
12268161 GATCCCTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 93 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (104 bp):
CTTGAACAGAACCTGATCCCTCAACAAAGCCCTACTCATTCCACCCATTCGACGTTTGCAATAGC
ACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCAAT
Found at i:12268181 original size:87 final size:86
Alignment explanation
Indices: 12268060--12268233 Score: 267
Period size: 87 Copynumber: 2.0 Consensus size: 86
12268050 AGAACCCAAT
* * *
12268060 CTTGAACAGAACCTGATCCCTCAATGAAGCCCTGCTCATTCCACCCATTCGACGTTTGCAGTAGC
1 CTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCATTCCACCCATTCGACGTTTACAGTAGC
12268125 ACCCATTCGACGTTTGCAGTAG
66 ACCCA-TCGACGTTTGCAGTAG
* * * * *
12268147 CTTGAATAGAACCCGATCCCTCAACGAAGTCCTGCTCGTTTCACCCATTTGACGTTTACAGTAGC
1 CTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCATTCCACCCATTCGACGTTTACAGTAGC
12268212 ACCCATCGACGTTTGCAGTAG
66 ACCCATCGACGTTTGCAGTAG
12268233 C
1 C
12268234 ACCCATTCGA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 17 0.22
87 62 0.78
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (86 bp):
CTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCATTCCACCCATTCGACGTTTACAGTAGC
ACCCATCGACGTTTGCAGTAG
Found at i:12268247 original size:23 final size:23
Alignment explanation
Indices: 12268188--12268256 Score: 113
Period size: 23 Copynumber: 3.0 Consensus size: 23
12268178 CTGCTCGTTT
* *
12268188 CACCCATTTGACGTTTACAGTAG
1 CACCCATTCGACGTTTGCAGTAG
12268211 CACCCA-TCGACGTTTGCAGTAG
1 CACCCATTCGACGTTTGCAGTAG
12268233 CACCCATTCGACGTTTGCAGTAG
1 CACCCATTCGACGTTTGCAGTAG
12268256 C
1 C
12268257 TTGAACAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 20 0.47
23 23 0.53
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (23 bp):
CACCCATTCGACGTTTGCAGTAG
Found at i:12268255 original size:109 final size:109
Alignment explanation
Indices: 12268101--12268342 Score: 466
Period size: 109 Copynumber: 2.2 Consensus size: 109
12268091 CTGCTCATTC
*
12268101 CACCCATTCGACGTTTGCAGTAGCACCCATTCGACGTTTGCAGTAGCTTGAATAGAACCCGATCC
1 CACCCA-TCGACGTTTGCAGTAGCACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCC
12268166 CTCAACGAAGTCCTGCTCGTTTCACCCATTTGACGTTTACAGTAG
65 CTCAACGAAGTCCTGCTCGTTTCACCCATTTGACGTTTACAGTAG
12268211 CACCCATCGACGTTTGCAGTAGCACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCCC
1 CACCCATCGACGTTTGCAGTAGCACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCCC
12268276 TCAACGAAGTCCTGCTCGTTTCACCCATTTGACGTTTACAGTAG
66 TCAACGAAGTCCTGCTCGTTTCACCCATTTGACGTTTACAGTAG
12268320 CACCCATCGACGTTTGCAGTAGC
1 CACCCATCGACGTTTGCAGTAGC
12268343 TTGAACAGAA
Statistics
Matches: 131, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
109 125 0.95
110 6 0.05
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (109 bp):
CACCCATCGACGTTTGCAGTAGCACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCCC
TCAACGAAGTCCTGCTCGTTTCACCCATTTGACGTTTACAGTAG
Found at i:12268334 original size:22 final size:23
Alignment explanation
Indices: 12268297--12268342 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
12268287 CTGCTCGTTT
*
12268297 CACCCATTTGACGTTTACAGTAG
1 CACCCATTCGACGTTTACAGTAG
*
12268320 CACCCA-TCGACGTTTGCAGTAG
1 CACCCATTCGACGTTTACAGTAG
12268342 C
1 C
12268343 TTGAACAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (23 bp):
CACCCATTCGACGTTTACAGTAG
Found at i:12268445 original size:17 final size:17
Alignment explanation
Indices: 12268423--12268457 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12268413 TTTGCAGTAG
12268423 CTTGAACAGAACCCGAT
1 CTTGAACAGAACCCGAT
*
12268440 CTTGAACAGAACCTGAT
1 CTTGAACAGAACCCGAT
12268457 C
1 C
12268458 CCTCAACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (17 bp):
CTTGAACAGAACCCGAT
Found at i:12268473 original size:81 final size:81
Alignment explanation
Indices: 12268320--12268553 Score: 353
Period size: 81 Copynumber: 2.9 Consensus size: 81
12268310 TTTACAGTAG
* *
12268320 CACCCA-TCGACGTTTGCAGTAGCTTGAACAGAATCCGATCTTGAATAGAACCTGATCCCTCAAC
1 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAAC
** *
12268384 AAAACCCTGCTCGTTC
66 GTAGCCCTGCTCGTTC
* *
12268400 CACCTATTCGATGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAAC
1 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAAC
*
12268465 GTAGCCCTGTTCGTTC
66 GTAGCCCTGCTCGTTC
* * * *
12268481 CACCCATTCAACGTTTGCAGTAACTTGAACAGAACCCGATCTTGAGCAGAACCTGATCTCTCAAC
1 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAAC
12268546 GTAGCCCT
66 GTAGCCCT
12268554 TTCTCCTCTC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 5 0.04
81 134 0.96
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (81 bp):
CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAAC
GTAGCCCTGCTCGTTC
Found at i:12268530 original size:17 final size:17
Alignment explanation
Indices: 12268504--12268539 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12268494 TTTGCAGTAA
12268504 CTTGAACAGAACCCGAT
1 CTTGAACAGAACCCGAT
* *
12268521 CTTGAGCAGAACCTGAT
1 CTTGAACAGAACCCGAT
12268538 CT
1 CT
12268540 CTCAACGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (17 bp):
CTTGAACAGAACCCGAT
Found at i:12268757 original size:25 final size:25
Alignment explanation
Indices: 12268729--12268782 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
12268719 GTTTAAATAA
*
12268729 GAATGCCTTAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
12268754 GAATGCCTAAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
12268779 GAAT
1 GAAT
12268783 ATTGTGAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACCCTTAT
Found at i:12272563 original size:23 final size:25
Alignment explanation
Indices: 12272518--12272575 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
12272508 GAGCTCGAAT
12272518 AATCGAG-TTTTTTTTCGAGTATAAA
1 AATCGAGCTTTTTTTTC-AGTATAAA
**
12272543 AATCGAGCTTTTTTTT-A-TATATT
1 AATCGAGCTTTTTTTTCAGTATAAA
12272566 AATCGAGCTT
1 AATCGAGCTT
12272576 AATCGAGCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 14 0.47
24 1 0.03
25 7 0.23
26 8 0.27
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (25 bp):
AATCGAGCTTTTTTTTCAGTATAAA
Found at i:12273055 original size:30 final size:31
Alignment explanation
Indices: 12273015--12273076 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
12273005 TTCATATCAT
* * *
12273015 AATTATAAAAATATCT-TTTTTTTATTATTG
1 AATTACAAAAATATCTCTTATCTTATTATTG
12273045 AATTACAAAAATATCTCTTATCTTATTATTG
1 AATTACAAAAATATCTCTTATCTTATTATTG
12273076 A
1 A
12273077 CCAAAATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (31 bp):
AATTACAAAAATATCTCTTATCTTATTATTG
Found at i:12273440 original size:26 final size:25
Alignment explanation
Indices: 12273391--12273461 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
12273381 CCCCTCGTAA
* *
12273391 TTATTATAATTATTATAATACCCTT
1 TTATTATAATTATCAAAATACCCTT
12273416 CTTATTATAATTA-CAAAATATCCCTT
1 -TTATTATAATTATCAAAATA-CCCTT
* *
12273442 TTAATATAATTGATTAAAAT
1 TTATTATAATT-ATCAAAAT
12273462 TACTAATACG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 15 0.39
26 18 0.47
27 5 0.13
ACGTcount: A:0.41, C:0.11, G:0.01, T:0.46
Consensus pattern (25 bp):
TTATTATAATTATCAAAATACCCTT
Found at i:12273805 original size:128 final size:129
Alignment explanation
Indices: 12273592--12273878 Score: 355
Period size: 128 Copynumber: 2.2 Consensus size: 129
12273582 AAGTTAACAT
* * ** * * *
12273592 GTGATATTTTGTTTCAAAATTACTATAATATTTCTATTAAACTATATATTAAATTTTTACGTAAT
1 GTGAAATTTTGTTTAAAAATTACTATAATATACCTATTAAACTACATATTAAATTTTAACATAAT
* *
12273657 ATAAAATTAATCACACATTAAATTATTAAAATA-TCATTACAATTACTTTATAAAAATTTGAAAG
66 ATAAAATTAATCACACATTAAATTACTAAAATACTC-TTACAATTACTTCATAAAAATTTGAAAG
* * *
12273721 GTGACATTTTATTTAAAAATTACTATAATA-ACCTATTAAATTACAT-TTGAAATTTTAACATAA
1 GTGAAATTTTGTTTAAAAATTACTATAATATACCTATTAAACTACATATT-AAATTTTAACATAA
* * * * * * *
12273784 TATAAAATTAATTACATATTAAATTACTAAAATACTCTTACCATTGCTTCATACAAATTTGACAT
65 TATAAAATTAATCACACATTAAATTACTAAAATACTCTTACAATTACTTCATAAAAATTTGAAAG
*
12273849 GTGAAATTTTGTTTAAAATTTACTATAATA
1 GTGAAATTTTGTTTAAAAATTACTATAATA
12273879 CCTTTATTAA
Statistics
Matches: 135, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
127 2 0.01
128 104 0.77
129 29 0.21
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.42
Consensus pattern (129 bp):
GTGAAATTTTGTTTAAAAATTACTATAATATACCTATTAAACTACATATTAAATTTTAACATAAT
ATAAAATTAATCACACATTAAATTACTAAAATACTCTTACAATTACTTCATAAAAATTTGAAAG
Found at i:12275124 original size:20 final size:20
Alignment explanation
Indices: 12275087--12275127 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
12275077 ATTTATTTAT
*
12275087 AAAAATTAAAAAATATATAC
1 AAAAACTAAAAAATATATAC
12275107 AAAAACTAATAAAAATATATA
1 AAAAACT-A-AAAAATATATA
12275128 ATTTGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAACTAAAAAATATATAC
Found at i:12275753 original size:21 final size:21
Alignment explanation
Indices: 12275723--12275773 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
12275713 GATATTTTAA
12275723 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
12275743 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
12275764 AATATTTTAT
1 AATATTTTAT
12275774 TAATTTCGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:12278267 original size:23 final size:23
Alignment explanation
Indices: 12278241--12278300 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
12278231 TATTCCTTTC
* * *
12278241 ATTTTTAATTTTTGAATTTATAA
1 ATTTATAAATTTTGAATTTACAA
*
12278264 ATTTATAAATTTTGTATTTACAA
1 ATTTATAAATTTTGAATTTACAA
*
12278287 ATTTAAAAACTTTT
1 ATTTATAAA-TTTT
12278301 AAGAGATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (23 bp):
ATTTATAAATTTTGAATTTACAA
Found at i:12279157 original size:148 final size:147
Alignment explanation
Indices: 12278809--12279149 Score: 356
Period size: 148 Copynumber: 2.3 Consensus size: 147
12278799 TACTCTCCTT
* * *
12278809 AACAT-ATATAATAATTCATTTATAAAAATATAAAAAAATTATTTAAGG-TATTTTTATACAGAA
1 AACATCATA-AATAATCCATTTATAAAAATATAAAAAGATTATTTAAGGTTTTTTTTATACAGAA
* *
12278872 ACACCTTAAATAATCTTTTTATGAAAATATTAACCTTAAACACTAAAATACAAAAAGACTATTTA
65 ACACCTTAAATAATCTTTTTATAAAAATATTAACCCTAAACACTAAAATACAAAAAGACTATTTA
* *
12278937 ATGTGTTTTCTATACAAA
130 AAGTATTTTCTATACAAA
* * * *
12278955 AACGTCTTAAATAATCCATTTAT---AATA-AAAATGATGCT-TTTAAGGGTTTTTTTTTTTGTA
1 AACATCATAAATAATCCATTTATAAAAATATAAAAAGAT--TATTTAA-GG---TTTTTTTTATA
*** * * *
12279015 CAGAAACGTTTTAAATAATCTTTTTATAAAAATATTAACCCTAAACCCTAAAATATAAAAA-ATT
60 CAGAAACACCTTAAATAATCTTTTTATAAAAATATTAACCCTAAACACTAAAATACAAAAAGACT
* * * *
12279079 ATTTAAAGTATTTTTTGTATAGA
125 ATTTAAAGTATTTTCTATACAAA
* *
12279102 AATATCATAAATAATCCTTTTATAAAAATATAAAAAGATTATTTAAGG
1 AACATCATAAATAATCCATTTATAAAAATATAAAAAGATTATTTAAGG
12279150 CATTTTTTCA
Statistics
Matches: 156, Mismatches: 26, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
142 6 0.04
143 9 0.06
144 3 0.02
146 17 0.11
147 40 0.26
148 62 0.40
149 3 0.02
150 9 0.06
151 7 0.04
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.38
Consensus pattern (147 bp):
AACATCATAAATAATCCATTTATAAAAATATAAAAAGATTATTTAAGGTTTTTTTTATACAGAAA
CACCTTAAATAATCTTTTTATAAAAATATTAACCCTAAACACTAAAATACAAAAAGACTATTTAA
AGTATTTTCTATACAAA
Found at i:12281262 original size:35 final size:36
Alignment explanation
Indices: 12281215--12281285 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
12281205 TAACTTATTT
12281215 TTTTATACTTTATTTTTTCAAACCAAAG-TTTATAA
1 TTTTATACTTTATTTTTTCAAACCAAAGTTTTATAA
* *
12281250 TTTTATATTTTATTTTTTCAAACCACAGTTTTATAA
1 TTTTATACTTTATTTTTTCAAACCAAAGTTTTATAA
12281286 GTATTTCAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 26 0.79
36 7 0.21
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (36 bp):
TTTTATACTTTATTTTTTCAAACCAAAGTTTTATAA
Found at i:12281302 original size:36 final size:35
Alignment explanation
Indices: 12281223--12281304 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
12281213 TTTTTTATAC
* *
12281223 TTTATTTTTTCAAACCAAAGTTTATAATTTTATAT
1 TTTATTTTTTCAAACCAAAGTTTATAATTTTACAG
*
12281258 TTTATTTTTTCAAACCACAGTTTTATAAGTATTT-CAG
1 TTTATTTTTTCAAACCAAAG-TTTATAA-T-TTTACAG
*
12281295 TTTTTTTTTT
1 TTTATTTTTT
12281305 TCAAGAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 19 0.47
36 7 0.17
37 11 0.28
38 3 0.08
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (35 bp):
TTTATTTTTTCAAACCAAAGTTTATAATTTTACAG
Found at i:12283755 original size:2 final size:2
Alignment explanation
Indices: 12283748--12283790 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
12283738 AAATACATTC
12283748 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12283789 AT
1 AT
12283791 TGATGCTCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12289951 original size:25 final size:25
Alignment explanation
Indices: 12289923--12289972 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
12289913 TTATTATTTA
*
12289923 ATTTTACTTTAAAAAATTTTCTAAT
1 ATTTTACTTTAAAAAATTTTATAAT
* *
12289948 ATTTTAGTTTAAAATATTTTATAAT
1 ATTTTACTTTAAAAAATTTTATAAT
12289973 TTTATTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTTACTTTAAAAAATTTTATAAT
Found at i:12289974 original size:23 final size:22
Alignment explanation
Indices: 12289921--12289981 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 22
12289911 AATTATTATT
*
12289921 TAATTTTACTTTAAAAAATTTTC
1 TAATTTTA-TTTAAAAAATTTTA
*
12289944 TAATATTTTAGTTTAAAATATTTTA
1 T-A-ATTTTA-TTTAAAAAATTTTA
12289969 TAATTTTATTTAA
1 TAATTTTATTTAA
12289982 GTCAAGCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 5 0.15
23 7 0.21
24 2 0.06
25 19 0.58
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (22 bp):
TAATTTTATTTAAAAAATTTTA
Found at i:12290113 original size:38 final size:38
Alignment explanation
Indices: 12290064--12290172 Score: 93
Period size: 37 Copynumber: 3.0 Consensus size: 38
12290054 ATTTTTATTT
*
12290064 TATTTT-A-ATTAAAAAATAAAATATTAATATTAATAG
1 TATTTTAATATTAAAAAATAAAATATTAATATTAATAC
* * * * *
12290100 TCTTTTGATATT-AAATATAAATATTTTAATATT-TTAC
1 TATTTTAATATTAAAAAATAAA-ATATTAATATTAATAC
* * *
12290137 TATTTTAATAATAAATAATAAAATATT-ATTTTAATA
1 TATTTTAATATTAAAAAATAAAATATTAATATTAATA
12290173 ATAAATATTG
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
36 9 0.16
37 26 0.47
38 20 0.36
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (38 bp):
TATTTTAATATTAAAAAATAAAATATTAATATTAATAC
Found at i:12290153 original size:23 final size:23
Alignment explanation
Indices: 12290127--12290181 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 23
12290117 TAAATATTTT
*
12290127 AATATTTTACTATTTTAATAATA
1 AATATTATACTATTTTAATAATA
* *
12290150 AATAATAAAATATTATTTTAATAATA
1 AAT-AT--TATACTATTTTAATAATA
12290176 AATATT
1 AATATT
12290182 GATATAGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
23 3 0.12
24 2 0.08
25 2 0.08
26 18 0.72
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATATTATACTATTTTAATAATA
Found at i:12291485 original size:26 final size:26
Alignment explanation
Indices: 12291455--12291507 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
12291445 CTAACTCTAG
*
12291455 ACATCTGAGCTTCTGTGAAAGCAGTA
1 ACATCTGAACTTCTGTGAAAGCAGTA
12291481 ACATCTGAACTTCTGTGAAAGCAGTA
1 ACATCTGAACTTCTGTGAAAGCAGTA
12291507 A
1 A
12291508 TTTTAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (26 bp):
ACATCTGAACTTCTGTGAAAGCAGTA
Found at i:12293917 original size:14 final size:14
Alignment explanation
Indices: 12293898--12293924 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12293888 CAAAAGGTTC
12293898 ATGAAATCTGAAAT
1 ATGAAATCTGAAAT
12293912 ATGAAATCTGAAA
1 ATGAAATCTGAAA
12293925 GCTTCAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
ATGAAATCTGAAAT
Found at i:12297492 original size:3 final size:3
Alignment explanation
Indices: 12297484--12297529 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
12297474 ACCCCTTTCC
12297484 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12297530 TCTGTTTGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12304010 original size:21 final size:21
Alignment explanation
Indices: 12303972--12304012 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12303962 ATTTTAGATA
*
12303972 TAATTTTAGATATGATATGAG
1 TAATTTTAGATATAATATGAG
12303993 TAATTTT-GATATAAATATGA
1 TAATTTTAGATAT-AATATGA
12304013 TCCAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
TAATTTTAGATATAATATGAG
Found at i:12304253 original size:19 final size:19
Alignment explanation
Indices: 12304219--12304258 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12304209 GATACGATTT
* *
12304219 ATATAATTATATATGAATA
1 ATATAATTAGACATGAATA
*
12304238 ATATAATTAGACATGATTA
1 ATATAATTAGACATGAATA
12304257 AT
1 AT
12304259 TTATTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (19 bp):
ATATAATTAGACATGAATA
Found at i:12304727 original size:8 final size:8
Alignment explanation
Indices: 12304700--12304740 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
12304690 TTCTTTTTCT
*
12304700 TTTTTTTA
1 TTTTTTAA
*
12304708 TATTTTATA
1 TTTTTTA-A
12304717 TTTTTTAA
1 TTTTTTAA
12304725 TTTTTTAA
1 TTTTTTAA
12304733 TTTTTTAA
1 TTTTTTAA
12304741 ATATATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:12305436 original size:6 final size:6
Alignment explanation
Indices: 12305425--12305536 Score: 71
Period size: 6 Copynumber: 17.3 Consensus size: 6
12305415 TAACTTTGAC
* * * *
12305425 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAACA AAAAAT CAAAAA TAGAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT T-AAAA-T TAAAAT TAAAAT TA-AAAT
* * * * *
12305476 TAAAAAT TAAAAAAT AAAAAAT TAAAAAT AAAAAT TAAAAG CAAAAT CAAAAT
1 T-AAAAT T--AAAAT -TAAAAT T-AAAAT TAAAAT TAAAAT TAAAAT TAAAAT
12305529 TAAAAT TA
1 TAAAAT TA
12305537 GATTAAAAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
6 50 0.60
7 27 0.32
8 7 0.08
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (6 bp):
TAAAAT
Found at i:12305481 original size:14 final size:14
Alignment explanation
Indices: 12305444--12305515 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 14
12305434 AATTAAAATT
* *
12305444 AAAATTAAAAACAA
1 AAAATAAAAAATAA
* *
12305458 AAAATCAAAAATAG
1 AAAATAAAAAATAA
* *
12305472 AAATTAAAAATTAA
1 AAAATAAAAAATAA
*
12305486 AAAATAAAAAATTA
1 AAAATAAAAAATAA
*
12305500 AAAATAAAAATTAA
1 AAAATAAAAAATAA
12305514 AA
1 AA
12305516 GCAAAATCAA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 46 1.00
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.19
Consensus pattern (14 bp):
AAAATAAAAAATAA
Found at i:12305490 original size:28 final size:27
Alignment explanation
Indices: 12305432--12305515 Score: 98
Period size: 28 Copynumber: 3.1 Consensus size: 27
12305422 GACTAAAATT
* * *
12305432 AAAATTAAAATTAAAATTAAAAA-CAA
1 AAAATAAAAAATAAAATTAAAAATTAA
*
12305458 AAAATCAAAAATAGAAATTAAAAATTAA
1 AAAATAAAAAATA-AAATTAAAAATTAA
*
12305486 AAAATAAAAAATTAAAAATAAAAATTAA
1 AAAATAAAAAA-TAAAATTAAAAATTAA
12305514 AA
1 AA
12305516 GCAAAATCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 11 0.22
27 10 0.20
28 27 0.54
29 2 0.04
ACGTcount: A:0.75, C:0.02, G:0.01, T:0.21
Consensus pattern (27 bp):
AAAATAAAAAATAAAATTAAAAATTAA
Found at i:12305864 original size:44 final size:44
Alignment explanation
Indices: 12305791--12306107 Score: 156
Period size: 44 Copynumber: 7.2 Consensus size: 44
12305781 ACTTTTTTTT
*
12305791 AAATAAAATG-T-TCCTTCACAACTGAGGCTTTGAAATTTTTTGAA
1 AAATAAAATGATCTCC-T-ACAATTGAGGCTTTGAAATTTTTTGAA
* * * *
12305835 AAATAAAATGATCTGCTACAATTGGGGCTTGGAAA-CTTTTGAA
1 AAATAAAATGATCTCCTACAATTGAGGCTTTGAAATTTTTTGAA
* ** * * * * * *
12305878 AAATGAAACAATC-CTTCACAATTGAAGCTTTGGAACTTTTGGGA
1 AAATAAAATGATCTCCT-ACAATTGAGGCTTTGAAATTTTTTGAA
* * ** * *
12305922 AAATAAAATGCTCCCCTATGACTGAGGCTCTGAAACTTTTTTGAA
1 AAATAAAATGATCTCCTACAATTGAGGCTTTGAAA-TTTTTTGAA
* * *
12305967 AAATAAAATGTTC-CCTACAATTGAGG-TTTTAGAA--CTTTGAA
1 AAATAAAATGATCTCCTACAATTGAGGCTTTGA-AATTTTTTGAA
* * * *
12306008 AAATAAAATGCTCCCCTACTTCCCTATAATTGAGGCTTTGGAA--TTTTAAA
1 AAATAAAATG-----AT-C-T-CCTACAATTGAGGCTTTGAAATTTTTTGAA
* * *
12306058 AAATAAAAT-A-CT-CTACAACTGAGACTTTGAAACTTTTTGAA
1 AAATAAAATGATCTCCTACAATTGAGGCTTTGAAATTTTTTGAA
12306099 AAATAAAAT
1 AAATAAAAT
12306108 TAGATCATTC
Statistics
Matches: 204, Mismatches: 50, Indels: 41
0.69 0.17 0.14
Matches are distributed among these distances:
39 16 0.08
41 32 0.16
42 2 0.01
43 34 0.17
44 63 0.31
45 22 0.11
46 3 0.01
47 1 0.00
50 28 0.14
51 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (44 bp):
AAATAAAATGATCTCCTACAATTGAGGCTTTGAAATTTTTTGAA
Found at i:12305899 original size:43 final size:43
Alignment explanation
Indices: 12305802--12305929 Score: 116
Period size: 43 Copynumber: 2.9 Consensus size: 43
12305792 AATAAAATGT
* * * **
12305802 TCCTTCACAACTGAGGCTTTGAAATTTTTTGAAAAATAAAATGA
1 TCCTTCACAATTGAGGCTTGGAAA-CTTTTGAAAAATAAAACAA
* * *
12305846 T-CTGCTACAATTGGGGCTTGGAAACTTTTGAAAAATGAAACAA
1 TCCTTC-ACAATTGAGGCTTGGAAACTTTTGAAAAATAAAACAA
* *
12305889 TCCTTCACAATTGAAGCTTTGG-AACTTTTGGGAAAATAAAA
1 TCCTTCACAATTGAGGC-TTGGAAACTTTT-GAAAAATAAAA
12305930 TGCTCCCCTA
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
43 35 0.52
44 32 0.48
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (43 bp):
TCCTTCACAATTGAGGCTTGGAAACTTTTGAAAAATAAAACAA
Found at i:12307365 original size:11 final size:10
Alignment explanation
Indices: 12307346--12307379 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
12307336 TCACCTTGAG
12307346 TTTTTATTTT
1 TTTTTATTTT
12307356 TTTTTCATTTT
1 TTTTT-ATTTT
12307367 TTTGTTATTTT
1 TTT-TTATTTT
12307378 TT
1 TT
12307380 ATGCAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 15 0.68
12 2 0.09
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:12311987 original size:25 final size:25
Alignment explanation
Indices: 12311939--12311987 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
12311929 ATCAATCAGG
* *
12311939 ATCTTGGCAATGGTCCATTTTTTTT
1 ATCTTGGCAATGCTCCATTGTTTTT
*
12311964 ATCTTGGCAATGCTCTATTGTTTT
1 ATCTTGGCAATGCTCCATTGTTTT
12311988 GTAAGATCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (25 bp):
ATCTTGGCAATGCTCCATTGTTTTT
Found at i:12312064 original size:19 final size:18
Alignment explanation
Indices: 12312021--12312055 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12312011 TTTTTATAAG
* *
12312021 TATTTTTTTATATTTTAC
1 TATTTTTGTATAATTTAC
12312039 TATTTTTGTATAATTTA
1 TATTTTTGTATAATTTA
12312056 TTTATTTTTA
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:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTTGTATAATTTAC
Found at i:12312591 original size:10 final size:10
Alignment explanation
Indices: 12312576--12312655 Score: 50
Period size: 10 Copynumber: 8.6 Consensus size: 10
12312566 GCAACTTGAC
12312576 TTTTTTTTCA
1 TTTTTTTTCA
12312586 TTTTTTTTC-
1 TTTTTTTTCA
12312595 ---TTTTTCA
1 TTTTTTTTCA
12312602 TCTTTTTTT--
1 T-TTTTTTTCA
* *
12312611 TTTCTTTTCC
1 TTTTTTTTCA
*
12312621 TATTTTTTGC-
1 T-TTTTTTTCA
*
12312631 -TTTCTTTCA
1 TTTTTTTTCA
12312640 TTTTTTTTCA
1 TTTTTTTTCA
12312650 TTTTTT
1 TTTTTT
12312656 GATTAGGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
6 6 0.11
8 12 0.22
9 1 0.02
10 24 0.44
11 11 0.20
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:12312599 original size:19 final size:20
Alignment explanation
Indices: 12312575--12312655 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 20
12312565 GGCAACTTGA
12312575 CTTTTTTTTCAT-TTTTTTT
1 CTTTTTTTTCATATTTTTTT
*
12312594 C---TTTTTCATCTTTTTTT
1 CTTTTTTTTCATATTTTTTT
* * *
12312611 -TTTCTTTTCCTATTTTTTG
1 CTTTTTTTTCATATTTTTTT
*
12312630 C-TTTCTTTCAT-TTTTTTT
1 CTTTTTTTTCATATTTTTTT
12312648 CATTTTTT
1 C-TTTTTT
12312656 GATTAGGTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
16 8 0.17
17 7 0.15
18 7 0.15
19 20 0.43
20 4 0.09
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (20 bp):
CTTTTTTTTCATATTTTTTT
Found at i:12312960 original size:12 final size:12
Alignment explanation
Indices: 12312943--12312971 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
12312933 GCTTTGACTA
12312943 TATATATTAAAT
1 TATATATTAAAT
12312955 TATATATTAAAT
1 TATATATTAAAT
12312967 TATAT
1 TATAT
12312972 TATATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATATTAAAT
Found at i:12312968 original size:5 final size:5
Alignment explanation
Indices: 12312957--12313045 Score: 142
Period size: 5 Copynumber: 17.4 Consensus size: 5
12312947 TATTAAATTA
*
12312957 TATAT TAAAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
*
12313007 TATAT TATAT TATAT TATATT TATAT ATGTAT TATAT TA
1 TATAT TATAT TATAT TATA-T TATAT -TATAT TATAT TA
12313046 ATAAAATGAT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
5 69 0.88
6 9 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:12313847 original size:27 final size:25
Alignment explanation
Indices: 12313808--12313859 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
12313798 TATATTAATA
* *
12313808 AAATTATTTTTAACCTTAATTTAAG
1 AAATTATTTTTAAACTTAATATAAG
12313833 AAATTAATATTTTAAACTTAATATAAG
1 AAATT-AT-TTTTAAACTTAATATAAG
12313860 GTGTTAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 2 0.09
27 16 0.70
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (25 bp):
AAATTATTTTTAAACTTAATATAAG
Found at i:12314486 original size:15 final size:14
Alignment explanation
Indices: 12314451--12314494 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12314441 CATGATAAAT
* *
12314451 AAAAAGGAAAAGTA
1 AAAAAGAAAAAGAA
12314465 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
*
12314479 AAACAAGAAAATGAA
1 AAA-AAGAAAAAGAA
12314494 A
1 A
12314495 TTCATTGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:12315089 original size:9 final size:8
Alignment explanation
Indices: 12315076--12315119 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
12315066 ATATATAAAG
12315076 AGAAAAAA
1 AGAAAAAA
*
12315084 ATGAAAAAT
1 A-GAAAAAA
*
12315093 AGGAAAAA
1 AGAAAAAA
12315101 AGAATAAAA
1 AGAA-AAAA
12315110 AGAAAAAA
1 AGAAAAAA
12315118 AG
1 AG
12315120 TGAGTTAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (8 bp):
AGAAAAAA
Found at i:12315116 original size:17 final size:17
Alignment explanation
Indices: 12315070--12315119 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
12315060 TAATATATAT
*
12315070 ATAAAGAGAAAAAAATGA
1 ATAAAAAGAAAAAAA-GA
* *
12315088 A-AAATAGGAAAAAAGA
1 ATAAAAAGAAAAAAAGA
12315104 ATAAAAAGAAAAAAAG
1 ATAAAAAGAAAAAAAG
12315120 TGAGTTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 3 0.11
17 23 0.85
18 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (17 bp):
ATAAAAAGAAAAAAAGA
Found at i:12315650 original size:29 final size:29
Alignment explanation
Indices: 12315618--12315676 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
12315608 ATTATATTTT
*
12315618 AATTATG-TA-TAAATACAATATTTTTATTA
1 AATTATGATATTAAAT--AATAATTTTATTA
12315647 AATTATGATATTAAATAATAATTTTATTA
1 AATTATGATATTAAATAATAATTTTATTA
12315676 A
1 A
12315677 TATAATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 20 0.74
30 2 0.07
31 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (29 bp):
AATTATGATATTAAATAATAATTTTATTA
Found at i:12316936 original size:115 final size:115
Alignment explanation
Indices: 12316700--12316929 Score: 281
Period size: 115 Copynumber: 2.0 Consensus size: 115
12316690 TACCCCATAC
* * * * *
12316700 TTATAATTATTTACTATAATATCTCATTTCATAATTATAAAAATACCTTTTATCTTAAATTGATT
1 TTATAATTATTTACTATAATACCTCATATCATAATTAAAAAAATACCTTCTATCTTAAATTGACT
** * *
12316765 ATTATGTTTTTATACTATAATTAAGAAAATACCCATCCTTTTATAATTAT
66 ATTATGCCTTTACACTATAATTAAGAAAATACCCATCCTCTTATAATTAT
*
12316815 TTATAATTATTTACTATGATACCTCATATCATAATTAAAAAAATACAC-TCT-T-TTAAATTGAC
1 TTATAATTATTTACTATAATACCTCATATCATAATTAAAAAAATAC-CTTCTATCTTAAATTGAC
* * * *
12316877 TATTATGCCTTTACA-TCATAATT-ATAAAATATCCTTTCTCTTATAATTAT
65 TATTATGCCTTTACACT-ATAATTAAGAAAATACCCATCCTCTTATAATTAT
12316927 TTA
1 TTA
12316930 CTATAATACC
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
112 26 0.26
113 27 0.27
114 1 0.01
115 44 0.44
116 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (115 bp):
TTATAATTATTTACTATAATACCTCATATCATAATTAAAAAAATACCTTCTATCTTAAATTGACT
ATTATGCCTTTACACTATAATTAAGAAAATACCCATCCTCTTATAATTAT
Found at i:12317001 original size:31 final size:31
Alignment explanation
Indices: 12316950--12317012 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
12316940 CTAATATTAT
* * *
12316950 AATTACGAAATTACCTTTTCTCCTATAATTG
1 AATTACAAAAATACCATTTCTCCTATAATTG
* *
12316981 AATTACAAAAATACCATTTCTCTTATTATTG
1 AATTACAAAAATACCATTTCTCCTATAATTG
12317012 A
1 A
12317013 TCAAAATTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (31 bp):
AATTACAAAAATACCATTTCTCCTATAATTG
Found at i:12323597 original size:2 final size:2
Alignment explanation
Indices: 12323590--12323624 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12323580 GGCATACCAT
12323590 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
12323625 TTTTCATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:12327055 original size:12 final size:12
Alignment explanation
Indices: 12327040--12327147 Score: 117
Period size: 12 Copynumber: 8.8 Consensus size: 12
12327030 TGTTAGTAGT
*
12327040 ATTATCATTATC
1 ATTATTATTATC
*
12327052 ATTATCATCATCATC
1 ATTAT--T-ATTATC
* *
12327067 ATCATCATTATC
1 ATTATTATTATC
12327079 ATTATTATTATC
1 ATTATTATTATC
*
12327091 ATTATTATTATT
1 ATTATTATTATC
*
12327103 ATTATTATTATT
1 ATTATTATTATC
*
12327115 ATTATTATTATT
1 ATTATTATTATC
*
12327127 ATTATTATTATT
1 ATTATTATTATC
12327139 ATTATTATT
1 ATTATTATT
12327148 TGCTTTTTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
12 76 0.89
15 9 0.11
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:12327085 original size:3 final size:3
Alignment explanation
Indices: 12327073--12327147 Score: 132
Period size: 3 Copynumber: 25.0 Consensus size: 3
12327063 CATCATCATC
* *
12327073 ATT ATC ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12327121 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
12327148 TGCTTTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:12329006 original size:10 final size:10
Alignment explanation
Indices: 12328991--12329024 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
12328981 TTTCATTAAA
12328991 ATTATTATTT
1 ATTATTATTT
*
12329001 ATTATTAATT
1 ATTATTATTT
*
12329011 ATTATTATTG
1 ATTATTATTT
12329021 ATTA
1 ATTA
12329025 GTTTTATTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
ATTATTATTT
Found at i:12329345 original size:37 final size:37
Alignment explanation
Indices: 12329302--12329373 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
12329292 TTAAAGAGGA
*
12329302 TTATTTAAGGCATTTTTATCTAAAAA-AGCCTTAAATT
1 TTATTTAAGGCATTTTTATCCAAAAACA-CCTTAAATT
*
12329339 TTATTTAAGGCATTTTTGTCCAAAAACACCTTAAA
1 TTATTTAAGGCATTTTTATCCAAAAACACCTTAAA
12329374 AAATACCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (37 bp):
TTATTTAAGGCATTTTTATCCAAAAACACCTTAAATT
Found at i:12329484 original size:66 final size:66
Alignment explanation
Indices: 12329402--12329560 Score: 196
Period size: 65 Copynumber: 2.4 Consensus size: 66
12329392 TTGAAGGGGA
** * *
12329402 TTATTTAATATATTTTTGGTCCAAAAATATCTTAAATAAGGGACAAAAAATACCTTAAATAATCC
1 TTATTTAAGGTATTTTTGGTCCAAAAATATCTTAAATAAAGGACAAAAAATACCTTAAATAATCA
12329467 T
66 T
* * * *
12329468 TTATTTAAGGTATTTTTGGAT--AAAAACATCTTAAATAAATGACCAAAAATATCTTAAATAATC
1 TTATTTAAGGTATTTTTGG-TCCAAAAATATCTTAAATAAAGGACAAAAAATACCTTAAATAATC
12329531 AT
65 AT
* * *
12329533 TTATTTAAGGCATTTTTAGACCAAAAAT
1 TTATTTAAGGTATTTTTGGTCCAAAAAT
12329561 TAATACCAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
65 55 0.71
66 22 0.28
67 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (66 bp):
TTATTTAAGGTATTTTTGGTCCAAAAATATCTTAAATAAAGGACAAAAAATACCTTAAATAATCA
T
Found at i:12330230 original size:103 final size:102
Alignment explanation
Indices: 12330044--12330230 Score: 214
Period size: 103 Copynumber: 1.8 Consensus size: 102
12330034 GTTTTGGTCC
* * * * * *
12330044 AAAAATATCTTAAATAATCTATTGAAAACCTTCAAAATGCTAGAGGGAAAAATTGAACGTAGGGC
1 AAAAATACCTTAAATAATCCATTGAAAACCTTCAAAATACTAGAGGGAAAAATCGAACCTAGAGC
* ***
12330109 CTTATGGTTAAGGTCCATAATAAGGCATTTTTAGACA
66 CTTATGATTAACAACCATAATAAGGCATTTTTAGACA
* * * * *
12330146 AAAAATACCTTAAATTATCCATTGAAAAACTTTTAAAATACTAGAGGGAGAGATCGAACCTATGA
1 AAAAATACCTTAAATAATCCATTG-AAAACCTTCAAAATACTAGAGGGAAAAATCGAACCTA-GA
12330211 G-CTTATGATTAACAACCATA
64 GCCTTATGATTAACAACCATA
12330231 GGGTTTTTCA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
102 21 0.31
103 45 0.66
104 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (102 bp):
AAAAATACCTTAAATAATCCATTGAAAACCTTCAAAATACTAGAGGGAAAAATCGAACCTAGAGC
CTTATGATTAACAACCATAATAAGGCATTTTTAGACA
Found at i:12330292 original size:36 final size:38
Alignment explanation
Indices: 12330245--12330315 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 38
12330235 TTTTCAAGGG
*
12330245 ATTATTCAAGACA-TTTTTTGTT-TAAAATGCCTTAAA
1 ATTATTCAAGACATTTTTTTGTTCAAAAATGCCTTAAA
*
12330281 ATTATTTAAGACATTTTTTTGTTCAAAAATGCCTT
1 ATTATTCAAGACATTTTTTTGTTCAAAAATGCCTT
12330316 GAATAATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 12 0.39
37 9 0.29
38 10 0.32
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.46
Consensus pattern (38 bp):
ATTATTCAAGACATTTTTTTGTTCAAAAATGCCTTAAA
Found at i:12333570 original size:10 final size:10
Alignment explanation
Indices: 12333527--12333570 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
12333517 ATTTTTATTT
*
12333527 TATAAAAATT
1 TATAAAAATA
12333537 TA-AAAAATA
1 TATAAAAATA
*
12333546 TATAAAAACA
1 TATAAAAATA
*
12333556 AATAAAAATA
1 TATAAAAATA
12333566 TATAA
1 TATAA
12333571 TTTGGTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
TATAAAAATA
Found at i:12334664 original size:129 final size:129
Alignment explanation
Indices: 12334487--12334783 Score: 371
Period size: 129 Copynumber: 2.3 Consensus size: 129
12334477 ACATGTGGCG
* * * * * * *
12334487 TTTTGTTTCAAAATTATTATAATACCTCTACTAAATTATATATTAAA-TTTAACATAATATAAAA
1 TTTTATTTAAAAATTACTATAATACCCCTATTAAATTACATATGAAATTTTAACATAATATAAAA
* * * * *
12334551 TTGACTACATATTAAATTATTAAAAATATCATTACAATTGCTTCATAAAAATTTAAAATGTGACA
66 TTAACTACATATTAAATTACT-AAAATATCATTACAATTACTTCATAAAAATTTAAAATGTAAAA
*
12334616 TTTTATTTAAAAATTACTATAATACCCCTATTAAATTACATATGAAATTTTAACATAATGTAAAA
1 TTTTATTTAAAAATTACTATAATACCCCTATTAAATTACATATGAAATTTTAACATAATATAAAA
* * * * *
12334681 TTAATTACATATTAAATTACTAAAATATCATTTCCATTACTTCATAAAAATTTGACATGTAAAA
66 TTAACTACATATTAAATTACTAAAATATCATTACAATTACTTCATAAAAATTTAAAATGTAAAA
* * * * *
12334745 TTTTATTTGAAATTTGCTATAATACTCCTATTATATTAC
1 TTTTATTTAAAAATTACTATAATACCCCTATTAAATTAC
12334784 TTATTCAATG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
129 110 0.76
130 34 0.24
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (129 bp):
TTTTATTTAAAAATTACTATAATACCCCTATTAAATTACATATGAAATTTTAACATAATATAAAA
TTAACTACATATTAAATTACTAAAATATCATTACAATTACTTCATAAAAATTTAAAATGTAAAA
Found at i:12336503 original size:22 final size:22
Alignment explanation
Indices: 12336476--12336527 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
12336466 TGTTTTATAT
*
12336476 TAATAATTAAT-AATAAGAAGAA
1 TAATAATAAATAAATAA-AAGAA
12336498 TAATAATAAATAAATAAAAGAA
1 TAATAATAAATAAATAAAAGAA
12336520 -AATAATAA
1 TAATAATAA
12336528 CAAAAAATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 8 0.29
22 15 0.54
23 5 0.18
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (22 bp):
TAATAATAAATAAATAAAAGAA
Found at i:12336534 original size:13 final size:12
Alignment explanation
Indices: 12336484--12336575 Score: 53
Period size: 12 Copynumber: 7.4 Consensus size: 12
12336474 ATTAATAATT
* *
12336484 AATAATAAGAAG
1 AATAATAAAAAA
*
12336496 AATAATAATAAA
1 AATAATAAAAAA
*
12336508 TA-AATAAAAGAA
1 AATAATAAAA-AA
12336520 AATAATAACAAAA
1 AATAATAA-AAAA
**
12336533 AATGCT-AAAAA
1 AATAATAAAAAA
12336544 AATAATAATCTAAAA
1 AATAATAA---AAAA
* *
12336559 AATGATAATAAA
1 AATAATAAAAAA
12336571 AATAA
1 AATAA
12336576 AATAATATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
11 14 0.23
12 23 0.38
13 11 0.18
14 2 0.03
15 11 0.18
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (12 bp):
AATAATAAAAAA
Found at i:12336535 original size:27 final size:26
Alignment explanation
Indices: 12336496--12336582 Score: 61
Period size: 27 Copynumber: 3.2 Consensus size: 26
12336486 TAATAAGAAG
* *
12336496 AATAATAATAAATAAATAAAAGAAAAT
1 AATAACAAAAAATAAATAAAA-AAAAT
**
12336523 AATAACAAAAAAT-GCT-AAAAAAAT
1 AATAACAAAAAATAAATAAAAAAAAT
12336547 AATAATCTAAAAAATGATAATAAAAATAAAAT
1 AATAA-C-AAAAAAT-A-AAT-AAAA-AAAAT
12336579 AATA
1 AATA
12336583 TTTTTTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
24 10 0.22
25 4 0.09
26 8 0.17
27 11 0.24
29 1 0.02
31 3 0.07
32 9 0.20
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (26 bp):
AATAACAAAAAATAAATAAAAAAAAT
Found at i:12336545 original size:24 final size:27
Alignment explanation
Indices: 12336518--12336575 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
12336508 TAAATAAAAG
*
12336518 AAAATAATAA-C-AAAAAATGCTAA-A
1 AAAATAATAATCTAAAAAATGATAATA
12336542 AAAATAATAATCTAAAAAATGATAATA
1 AAAATAATAATCTAAAAAATGATAATA
12336569 AAAATAA
1 AAAATAA
12336576 AATAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 10 0.33
25 1 0.03
26 11 0.37
27 8 0.27
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (27 bp):
AAAATAATAATCTAAAAAATGATAATA
Found at i:12336927 original size:30 final size:30
Alignment explanation
Indices: 12336881--12337092 Score: 100
Period size: 36 Copynumber: 6.8 Consensus size: 30
12336871 ACCTTAAAAT
*
12336881 CCTTA-AAACTCC-AAAATCAAAGCCCCAAA
1 CCTTAGAAAC-CCTAAAATCAAAACCCCAAA
12336910 CCTTAGAAACCCTAAAATCGAAATCAAAACCCCAAA
1 CCTTAGAAACCCT---A---AAATCAAAACCCCAAA
*
12336946 CCTTAGAAACCGTAAAATCGAAATCAAAACCCCAAA
1 CCTTAGAAACCCT---A---AAATCAAAACCCCAAA
* * *
12336982 CCTTTA-AAGA-TC-AAAATTCTAACCCCCAAA
1 CC-TTAGAA-ACCCTAAAA-TCAAAACCCCAAA
* * *
12337012 CCTT-CAAACCTTAAAATCAAAACTCCAAA
1 CCTTAGAAACCCTAAAATCAAAACCCCAAA
**
12337041 CCTTA-AAACCCTAAAA-CTAAAACCTTAAA
1 CCTTAGAAACCCTAAAATC-AAAACCCCAAA
*
12337070 CCCTT-TAAACCCTAAAATCAAAA
1 -CCTTAGAAACCCTAAAATCAAAA
12337093 ACCTAATCCC
Statistics
Matches: 149, Mismatches: 15, Indels: 37
0.74 0.07 0.18
Matches are distributed among these distances:
28 2 0.01
29 46 0.31
30 40 0.27
31 1 0.01
32 1 0.01
33 1 0.01
36 54 0.36
37 4 0.03
ACGTcount: A:0.49, C:0.30, G:0.03, T:0.18
Consensus pattern (30 bp):
CCTTAGAAACCCTAAAATCAAAACCCCAAA
Found at i:12336943 original size:36 final size:36
Alignment explanation
Indices: 12336841--12336985 Score: 184
Period size: 36 Copynumber: 3.9 Consensus size: 36
12336831 TAAATTTCTA
* * *
12336841 AAACCCTAAAATCCAAATCCTAAACCACAAACCTTA-
1 AAACCCTAAAATCGAAAT-CAAAACCCCAAACCTTAG
* * *
12336877 AAATCCTTAAAACTCCAAAATCAAAGCCCCAAACCTTAG
1 AAA-CCCTAAAA-T-CGAAATCAAAACCCCAAACCTTAG
12336916 AAACCCTAAAATCGAAATCAAAACCCCAAACCTTAG
1 AAACCCTAAAATCGAAATCAAAACCCCAAACCTTAG
*
12336952 AAACCGTAAAATCGAAATCAAAACCCCAAACCTT
1 AAACCCTAAAATCGAAATCAAAACCCCAAACCTT
12336986 TAAAGATCAA
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
36 58 0.60
37 8 0.08
38 22 0.23
39 8 0.08
ACGTcount: A:0.49, C:0.31, G:0.04, T:0.16
Consensus pattern (36 bp):
AAACCCTAAAATCGAAATCAAAACCCCAAACCTTAG
Found at i:12337049 original size:29 final size:29
Alignment explanation
Indices: 12336966--12337126 Score: 116
Period size: 30 Copynumber: 5.6 Consensus size: 29
12336956 CGTAAAATCG
**
12336966 AAATCAAAACCCCAAACCTTTAAA-GATCA
1 AAATCAAAACCCCAAACCTTTAAACCCT-A
* * * *
12336995 AAATTCTAACCCCCAAACCTTCAAACCTTA
1 AAA-TCAAAACCCCAAACCTTTAAACCCTA
* *
12337025 AAATCAAAACTCCAAACCTTAAAACCCTA
1 AAATCAAAACCCCAAACCTTTAAACCCTA
**
12337054 AAA-CTAAAACCTTAAACCCTTTAAACCCTA
1 AAATC-AAAACCCCAAA-CCTTTAAACCCTA
* * * *
12337084 AAATCAAAAACCTAATCC-CT-AACCCT-
1 AAATCAAAACCCCAAACCTTTAAACCCTA
*
12337110 AAATCAAAACCCTAAAC
1 AAATCAAAACCCCAAAC
12337127 TTTCCAAGCC
Statistics
Matches: 107, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
26 15 0.14
27 6 0.06
28 2 0.02
29 37 0.35
30 45 0.42
31 2 0.02
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (29 bp):
AAATCAAAACCCCAAACCTTTAAACCCTA
Found at i:12337079 original size:22 final size:22
Alignment explanation
Indices: 12337017--12337073 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
12337007 CCAAACCTTC
* *
12337017 AAACCTTAAAA-TC-AAAACTCC
1 AAACCTTAAAACCCTAAAACT-A
12337038 AAACCTTAAAACCCTAAAACTA
1 AAACCTTAAAACCCTAAAACTA
12337060 AAACCTT-AAACCCT
1 AAACCTTAAAACCCT
12337074 TTAAACCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 18 0.56
22 8 0.25
23 6 0.19
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCTTAAAACCCTAAAACTA
Found at i:12339160 original size:25 final size:25
Alignment explanation
Indices: 12339132--12339182 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
12339122 TAATGTAAAT
12339132 AAAA-TTAGGATAAGAAAAAAGAAGA
1 AAAAGTTAGGATAA-AAAAAAGAAGA
12339157 AAAAGTTAGGATAAAAAAAAGAAGA
1 AAAAGTTAGGATAAAAAAAAGAAGA
12339182 A
1 A
12339183 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (25 bp):
AAAAGTTAGGATAAAAAAAAGAAGA
Found at i:12339302 original size:13 final size:13
Alignment explanation
Indices: 12339284--12339308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12339274 TGGGTTATTT
12339284 TATTTTTTGTATA
1 TATTTTTTGTATA
12339297 TATTTTTTGTAT
1 TATTTTTTGTAT
12339309 CATTATCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (13 bp):
TATTTTTTGTATA
Found at i:12340563 original size:4 final size:4
Alignment explanation
Indices: 12340554--12340595 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
12340544 ATCATTTGTG
* *
12340554 CATT CATT CATT CATT CATT CATC CATT TATGT -ATT CATT CA
1 CATT CATT CATT CATT CATT CATT CATT CAT-T CATT CATT CA
12340596 ATATAATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
3 1 0.03
4 31 0.94
5 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:12342271 original size:14 final size:15
Alignment explanation
Indices: 12342248--12342276 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12342238 AAGGCCTTAA
12342248 AAAAACAAAAAAAGT
1 AAAAACAAAAAAAGT
12342263 AAAAA-AAAAAAAGT
1 AAAAACAAAAAAAGT
12342277 TTGGAGTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAACAAAAAAAGT
Found at i:12343453 original size:21 final size:21
Alignment explanation
Indices: 12343428--12343486 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
12343418 GAAAAAATAC
*
12343428 AAAAGAAAAAAAAATGAAAGG
1 AAAAGAAAAAAAAATGAAAGA
*
12343449 AAAAGAAGAATAAAA-GAAAGA
1 AAAAGAA-AAAAAAATGAAAGA
*
12343470 AAAAG-AAAAGAAATGAA
1 AAAAGAAAAAAAAATGAA
12343487 TGGGTGGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 5 0.16
20 4 0.12
21 17 0.53
22 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAAAAAATGAAAGA
Found at i:12344422 original size:31 final size:32
Alignment explanation
Indices: 12344350--12344423 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
12344340 TCAAGCCTAA
* * *
12344350 TTTAGCTGGCATCAATGAAGTTTTAAACCTAG
1 TTTAGCTAGCATCAATGAAGATTTAAACCCAG
** * *
12344382 AGTATCTAGCATCAATG-AGATTTAAGCCCAG
1 TTTAGCTAGCATCAATGAAGATTTAAACCCAG
12344413 TTTAGCTAGCA
1 TTTAGCTAGCA
12344424 CGTAAGCCTA
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (32 bp):
TTTAGCTAGCATCAATGAAGATTTAAACCCAG
Found at i:12344758 original size:32 final size:32
Alignment explanation
Indices: 12344708--12344798 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 32
12344698 TCAAATCTAT
* *
12344708 ATAAGATTTAAGCCCAGTTTAACTGGCCTTCA
1 ATAAGATTTAAGCTCAGTTTAACTGGCCATCA
* **
12344740 ATAAAATTTAAGCTCAGTTTATTTGGCCATCA
1 ATAAGATTTAAGCTCAGTTTAACTGGCCATCA
* *
12344772 ATGAAGTTTTAAGCTCAGTTTAGCTGG
1 AT-AAGATTTAAGCTCAGTTTAACTGG
12344799 TTCTTAAAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 29 0.59
33 20 0.41
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (32 bp):
ATAAGATTTAAGCTCAGTTTAACTGGCCATCA
Found at i:12345466 original size:22 final size:21
Alignment explanation
Indices: 12345441--12345506 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
12345431 ATCGATTCTT
*
12345441 TAAGACCTCTAAGCATAATTTC
1 TAAGACCT-TGAGCATAATTTC
* * *
12345463 TAAGGCCTTCGGGCATAATTTA
1 TAAGACCTT-GAGCATAATTTC
*
12345485 TAAGACATTTGAGCATAATTTC
1 TAAGAC-CTTGAGCATAATTTC
12345507 AACTCGTAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.91
23 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (21 bp):
TAAGACCTTGAGCATAATTTC
Found at i:12345679 original size:23 final size:23
Alignment explanation
Indices: 12345643--12345713 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
12345633 GTCCTAATTG
* *
12345643 ATTCTTTAAAACCTTGGAGCATA
1 ATTCTTTAAGACCTTCGAGCATA
* *
12345666 ATTCTCTAAGACC-TCAATGCATA
1 ATTCTTTAAGACCTTCGA-GCATA
*
12345689 A-TCTTTAAGACCTCCGAGCATA
1 ATTCTTTAAGACCTTCGAGCATA
12345711 ATT
1 ATT
12345714 TTGACTTACG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
22 18 0.47
23 20 0.53
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (23 bp):
ATTCTTTAAGACCTTCGAGCATA
Found at i:12345709 original size:22 final size:21
Alignment explanation
Indices: 12345645--12345712 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
12345635 CCTAATTGAT
* *
12345645 TCTTTAAAACCTTGGAGCATAA
1 TCTTTAAGACC-TCGAGCATAA
* *
12345667 TTCTCTAAGACCTCAATGCATAA
1 -TCTTTAAGACCTCGA-GCATAA
12345690 TCTTTAAGACCTCCGAGCATAA
1 TCTTTAAGACCT-CGAGCATAA
12345712 T
1 T
12345713 TTTGACTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
22 20 0.54
23 17 0.46
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.31
Consensus pattern (21 bp):
TCTTTAAGACCTCGAGCATAA
Found at i:12346171 original size:32 final size:32
Alignment explanation
Indices: 12346129--12346200 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
12346119 AGCTAGCCAC
*
12346129 CCCTACAGCCTATCCAATCCCCTT-ACCAACCA
1 CCCTATAGCCTATCCAAT-CCCTTCACCAACCA
* * * *
12346161 CCCTATAGCCTATCTAGTCCCTTCACCAGCCT
1 CCCTATAGCCTATCCAATCCCTTCACCAACCA
12346193 CCCTATAG
1 CCCTATAG
12346201 TAGCTTCTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 5 0.15
32 29 0.85
ACGTcount: A:0.24, C:0.46, G:0.07, T:0.24
Consensus pattern (32 bp):
CCCTATAGCCTATCCAATCCCTTCACCAACCA
Found at i:12347191 original size:21 final size:20
Alignment explanation
Indices: 12347145--12347202 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
12347135 ATTTAGGTAT
**
12347145 TTTTATTTTTATATTTTTTA
1 TTTTATTTTTATATTTTAAA
* *
12347165 TATTATTTTTGTTATTTTAAA
1 TTTTATTTTT-ATATTTTAAA
*
12347186 TTTTATTATTAATATTT
1 TTTTATT-TTTATATTT
12347203 ATGCATGTTC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTATATTTTAAA
Found at i:12347486 original size:20 final size:20
Alignment explanation
Indices: 12347463--12347513 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
12347453 AAAAATTAAT
12347463 TAATTAATAAATAATAATAA
1 TAATTAATAAATAATAATAA
* * * *
12347483 TAATAAATTAATAATATTAT
1 TAATTAATAAATAATAATAA
12347503 TAA-TAATAAAT
1 TAATTAATAAAT
12347514 TTTCATAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATTAATAAATAATAATAA
Found at i:12347506 original size:23 final size:24
Alignment explanation
Indices: 12347459--12347514 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
12347449 ATAAAAAAAT
*
12347459 TAATTAATTAATAAATAATAATAA
1 TAATAAATTAATAAATAATAATAA
* *
12347483 TAATAAATTAAT-AATATTATTAA
1 TAATAAATTAATAAATAATAATAA
12347506 TAATAAATT
1 TAATAAATT
12347515 TTCATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAATAAATTAATAAATAATAATAA
Found at i:12347823 original size:28 final size:29
Alignment explanation
Indices: 12347792--12347850 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
12347782 AAATCCTAAC
* *
12347792 CCCCAAACCTCCAAATCTTAAAA-TAAAA
1 CCCCAAACCTCCAAACCCTAAAACTAAAA
12347820 CCCCAAACCTCCAAACCCTAAAACTAAAA
1 CCCCAAACCTCCAAACCCTAAAACTAAAA
12347849 CC
1 CC
12347851 TTAAATCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (29 bp):
CCCCAAACCTCCAAACCCTAAAACTAAAA
Found at i:12347942 original size:22 final size:20
Alignment explanation
Indices: 12347917--12347971 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 20
12347907 TAAACTTTCC
*
12347917 AAACCCTAAAATTCAAGCCCTA
1 AAACCCTAAAATTCAA-ACC-A
*
12347939 AAACCCTTAAAACTCAAACCA
1 AAACCC-TAAAATTCAAACCA
12347960 AAACCCTAAAAT
1 AAACCCTAAAAT
12347972 CTGAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 5 0.17
21 7 0.24
22 8 0.28
23 9 0.31
ACGTcount: A:0.51, C:0.31, G:0.02, T:0.16
Consensus pattern (20 bp):
AAACCCTAAAATTCAAACCA
Found at i:12349305 original size:25 final size:28
Alignment explanation
Indices: 12349277--12349337 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
12349267 ATTAAGTGAG
*
12349277 ATAAATAATT-ATAATTT-T-TATTAAA
1 ATAAAAAATTAATAATTTATATATTAAA
*
12349302 ATAAAAAATTAAATAATTTATATTTTAAA
1 ATAAAAAATT-AATAATTTATATATTAAA
12349331 ATAAAAA
1 ATAAAAA
12349338 TATTTAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 9 0.30
27 7 0.23
28 1 0.03
29 13 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
ATAAAAAATTAATAATTTATATATTAAA
Found at i:12349325 original size:27 final size:27
Alignment explanation
Indices: 12349238--12349337 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 27
12349228 AACATGTGAT
12349238 ATTT-TATTAAAAATAATCAAAATTAAATA
1 ATTTATATT-AAAATAA--AAAATTAAATA
* * * *
12349267 A-TTA-AGTGAGATAAATAATT--ATA
1 ATTTATATTAAAATAAAAAATTAAATA
*
12349290 ATTTTTATTAAAATAAAAAATTAAATA
1 ATTTATATTAAAATAAAAAATTAAATA
12349317 ATTTATATTTTAAAATAAAAA
1 ATTTATA--TTAAAATAAAAA
12349338 TATTTAATTC
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
23 4 0.07
24 2 0.04
25 17 0.31
27 14 0.26
28 4 0.07
29 13 0.24
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (27 bp):
ATTTATATTAAAATAAAAAATTAAATA
Found at i:12352037 original size:13 final size:13
Alignment explanation
Indices: 12352019--12352056 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
12352009 AGGAAGAACC
12352019 AAATTAAAAAAAA
1 AAATTAAAAAAAA
* *
12352032 AAATTAAAGAACA
1 AAATTAAAAAAAA
12352045 AAATTAAAAAAA
1 AAATTAAAAAAA
12352057 GGAAAGGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (13 bp):
AAATTAAAAAAAA
Found at i:12352154 original size:13 final size:14
Alignment explanation
Indices: 12352136--12352164 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12352126 ATAGATATAT
12352136 ATGAAAGAAAA-AA
1 ATGAAAGAAAAGAA
12352149 ATGAAAGAAAAGAA
1 ATGAAAGAAAAGAA
12352163 AT
1 AT
12352165 ATAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (14 bp):
ATGAAAGAAAAGAA
Found at i:12353194 original size:23 final size:22
Alignment explanation
Indices: 12353151--12353196 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
12353141 ATTCTAACCC
* **
12353151 AAAAAAAGGTAAAAAGTCAAAA
1 AAAAAAAGATAAAAAACCAAAA
12353173 AAAAAAAGATAAAAAAACCAAAA
1 AAAAAAAGAT-AAAAAACCAAAA
12353196 A
1 A
12353197 TCCAAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.78, C:0.07, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAAAAAGATAAAAAACCAAAA
Found at i:12353195 original size:22 final size:22
Alignment explanation
Indices: 12353151--12353196 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
12353141 ATTCTAACCC
* **
12353151 AAAAAAAGGTAAAAAGTCAAAA
1 AAAAAAAGATAAAAAAACAAAA
*
12353173 AAAAAAAGATAAAAAAACCAAA
1 AAAAAAAGATAAAAAAACAAAA
12353195 AA
1 AA
12353197 TCCAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.78, C:0.07, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAAAAAGATAAAAAAACAAAA
Found at i:12368970 original size:18 final size:18
Alignment explanation
Indices: 12368947--12368996 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
12368937 TTATTTAATT
12368947 ACATTATTATTTTATTTA
1 ACATTATTATTTTATTTA
* *
12368965 ACATTA--A-TTCATTTT
1 ACATTATTATTTTATTTA
*
12368980 ACATTATTTTTTTATTT
1 ACATTATTATTTTATTT
12368997 TATCAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
15 12 0.48
16 1 0.04
18 12 0.48
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
ACATTATTATTTTATTTA
Found at i:12369439 original size:21 final size:22
Alignment explanation
Indices: 12369371--12369448 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
12369361 TGTAAAATTA
* *
12369371 ATAAATAAATAAAAC-TGACATG
1 ATAAATAAATGATACAT-ACATG
* * *
12369393 AAAAATAAATGATACTTACATA
1 ATAAATAAATGATACATACATG
*
12369415 ATAAATCAATGAT-CATACATG
1 ATAAATAAATGATACATACATG
*
12369436 ATAAATGAATGAT
1 ATAAATAAATGAT
12369449 TTTATATAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 18 0.39
22 27 0.59
23 1 0.02
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (22 bp):
ATAAATAAATGATACATACATG
Found at i:12369460 original size:21 final size:21
Alignment explanation
Indices: 12369395--12369448 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
12369385 CTGACATGAA
* *
12369395 AAATAAATGATACTTACATAAT
1 AAATCAATGAT-CATACATAAT
*
12369417 AAATCAATGATCATACATGAT
1 AAATCAATGATCATACATAAT
*
12369438 AAATGAATGAT
1 AAATCAATGAT
12369449 TTTATATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (21 bp):
AAATCAATGATCATACATAAT
Found at i:12377716 original size:23 final size:23
Alignment explanation
Indices: 12377690--12377735 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12377680 GATCAATCTC
12377690 AAGCACACATAAGAAGGCACATT
1 AAGCACACATAAGAAGGCACATT
12377713 AAGCACACATAAGAAGGCACATT
1 AAGCACACATAAGAAGGCACATT
12377736 CACATCGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (23 bp):
AAGCACACATAAGAAGGCACATT
Found at i:12385588 original size:24 final size:23
Alignment explanation
Indices: 12385544--12385602 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
12385534 AGAATAAAAA
12385544 TTATTATTATTTGAAACTATTTCTT
1 TTATTATTA-TTGAAACTATTT-TT
* *
12385569 TTATTTTTATTGAAATTATTTTT
1 TTATTATTATTGAAACTATTTTT
*
12385592 TTATTGTTATT
1 TTATTATTATT
12385603 ATTTTTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 12 0.39
24 11 0.35
25 8 0.26
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.66
Consensus pattern (23 bp):
TTATTATTATTGAAACTATTTTT
Found at i:12385594 original size:17 final size:17
Alignment explanation
Indices: 12385572--12385608 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
12385562 ATTTCTTTTA
12385572 TTTTTATTGAAATTATT
1 TTTTTATTGAAATTATT
**
12385589 TTTTTATTGTTATTATT
1 TTTTTATTGAAATTATT
12385606 TTT
1 TTT
12385609 GAAAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTATTGAAATTATT
Found at i:12387138 original size:14 final size:14
Alignment explanation
Indices: 12387119--12387152 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
12387109 TCTTCAACCA
12387119 TTTTTTTTT--CTT
1 TTTTTTTTTAACTT
12387131 TTTTTTTTTAACTT
1 TTTTTTTTTAACTT
12387145 TTTTTTTT
1 TTTTTTTT
12387153 CATATAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
14 11 0.55
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTAACTT
Found at i:12388657 original size:16 final size:16
Alignment explanation
Indices: 12388603--12388694 Score: 66
Period size: 17 Copynumber: 5.6 Consensus size: 16
12388593 TTGCAATTTC
12388603 GGATTTT-GAGGGCTTTT
1 GGATTTTAGAGGG--TTT
*
12388620 AGATTTTAGA-GGTTT
1 GGATTTTAGAGGGTTT
*
12388635 CGAATTTTAGAGGGTTT
1 -GGATTTTAGAGGGTTT
12388652 GGA-TTTA-AGGGATTTT
1 GGATTTTAGAGGG--TTT
**
12388668 GGATTTTAGGAGATTTT
1 GGATTTTA-GAGGGTTT
12388685 GGATTTTAGA
1 GGATTTTAGA
12388695 AGATTTTAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
14 4 0.07
15 7 0.11
16 18 0.30
17 28 0.46
18 2 0.03
19 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (16 bp):
GGATTTTAGAGGGTTT
Found at i:12388682 original size:17 final size:17
Alignment explanation
Indices: 12388649--12388701 Score: 81
Period size: 17 Copynumber: 3.2 Consensus size: 17
12388639 TTTTAGAGGG
*
12388649 TTTGGATTTAAGG-GAT
1 TTTGGATTTTAGGAGAT
12388665 TTTGGATTTTAGGAGAT
1 TTTGGATTTTAGGAGAT
*
12388682 TTTGGATTTTAGAAGAT
1 TTTGGATTTTAGGAGAT
12388699 TTT
1 TTT
12388702 AGAAACCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 12 0.35
17 22 0.65
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (17 bp):
TTTGGATTTTAGGAGAT
Done.