Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold36
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: 4808052
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18886 characters in sequence are not A, C, G, or T
File 15 of 28
Found at i:2338845 original size:2 final size:2
Alignment explanation
Indices: 2338840--2338870 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2338830 AATATATGTG
2338840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2338871 TTCACAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2339340 original size:2 final size:2
Alignment explanation
Indices: 2339333--2339359 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2339323 ACTTTGTAAC
2339333 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2339360 ATTACATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2340385 original size:2 final size:2
Alignment explanation
Indices: 2340380--2340415 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2340370 AACCCTAGTT
2340380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2340416 AAACACTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2340624 original size:24 final size:23
Alignment explanation
Indices: 2340581--2340626 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
2340571 ATTTAGATCA
2340581 TTATTTATTTAATTAAATAATATT
1 TTATTTATTTAATT-AATAATATT
2340605 TTATTTAATTTTAATT-ATAATA
1 TTATTT-A-TTTAATTAATAATA
2340627 ATATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 12 0.60
25 1 0.05
26 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATTTATTTAATTAATAATATT
Found at i:2341700 original size:25 final size:25
Alignment explanation
Indices: 2341651--2341723 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
2341641 GATCGATTAA
*
2341651 TTATATATTTTTA--ATA-TAATTT
1 TTATATATTTTTATTATATTAATAT
2341673 TTA-ATTATTTGTTATT-TATTAATAT
1 TTATA-TATTT-TTATTATATTAATAT
*
2341698 TTATATATTTTTATTATATTTATAT
1 TTATATATTTTTATTATATTAATAT
2341723 T
1 T
2341724 ATTTTTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
21 1 0.02
22 8 0.19
23 3 0.07
24 7 0.17
25 22 0.52
26 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (25 bp):
TTATATATTTTTATTATATTAATAT
Found at i:2341718 original size:19 final size:21
Alignment explanation
Indices: 2341687--2341730 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
2341677 TTATTTGTTA
2341687 TTTATTAATATTTATA-TATT
1 TTTATTAATATTTATATTATT
2341707 TTTATT-ATATTTATATTATT
1 TTTATTAATATTTATATTATT
2341727 TTTA
1 TTTA
2341731 AAATTATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATTAATATTTATATTATT
Found at i:2341730 original size:11 final size:11
Alignment explanation
Indices: 2341651--2341730 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
2341641 GATCGATTAA
2341651 TTATA-TATTT
1 TTATATTATTT
*
2341661 TTAATATAATTT
1 TT-ATATTATTT
2341673 TTA-ATTATTT
1 TTATATTATTT
*
2341683 GTTATTTATTAATAT
1 -TTA--TATT-ATTT
2341698 TTATA-TA-TT
1 TTATATTATTT
*
2341707 TT-TATTATAT
1 TTATATTATTT
2341717 TTATATTATTT
1 TTATATTATTT
2341728 TTA
1 TTA
2341731 AAATTATAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 19
0.68 0.08 0.24
Matches are distributed among these distances:
8 2 0.04
9 5 0.09
10 12 0.22
11 18 0.33
12 8 0.15
14 6 0.11
15 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (11 bp):
TTATATTATTT
Found at i:2342068 original size:2 final size:2
Alignment explanation
Indices: 2342061--2342089 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2342051 CAAACTTTTG
2342061 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2342090 TTAGATTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2342177 original size:19 final size:20
Alignment explanation
Indices: 2342148--2342185 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2342138 CCTCTGAAAA
*
2342148 AAAATTTTAATTATTTATAT
1 AAAATTTTAATTATATATAT
2342168 AAAA-TTTAATTATATATA
1 AAAATTTTAATTATATATA
2342186 AATATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAATTTTAATTATATATAT
Found at i:2342301 original size:13 final size:13
Alignment explanation
Indices: 2342280--2342310 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2342270 TCAATCATTA
*
2342280 GTTTTGTCGTAAT
1 GTTTAGTCGTAAT
2342293 GTTTAGTCGTAAT
1 GTTTAGTCGTAAT
2342306 GTTTA
1 GTTTA
2342311 TTTTTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.23, T:0.52
Consensus pattern (13 bp):
GTTTAGTCGTAAT
Found at i:2343481 original size:18 final size:19
Alignment explanation
Indices: 2343449--2343495 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2343439 AAATAAATGA
2343449 ATAAT-TAATTATATTA-T
1 ATAATATAATTATATTATT
*
2343466 ATAATATAATTTTATTATT
1 ATAATATAATTATATTATT
2343485 ATAA-ATAATTA
1 ATAATATAATTA
2343496 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 5 0.19
18 16 0.62
19 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATATAATTATATTATT
Found at i:2343697 original size:104 final size:98
Alignment explanation
Indices: 2343520--2343703 Score: 217
Period size: 104 Copynumber: 1.8 Consensus size: 98
2343510 TAATAAAATT
* * * *
2343520 TTTAAAAATAAATTTATTTTTGATACATAACTGTTTTTTTAATTTTATAAAATATCAAAATAGTA
1 TTTAAAAATAAATTTATCTTTAATACATAACTGTTTTTTTAATTTCATAAAAAATCAAAATAGTA
*
2343585 TTATATGTCT-TTTTAAAAAATATTTAATTATA
66 TTACATGTCTCTTTTAAAAAATATTTAATTATA
*
2343617 TTTAAAATATAAATTTATCTTTAATACATAGACTGTTAAAACTTTTTAATTTCATAAAAAATTAA
1 TTTAAAA-ATAAATTTATCTTTAATACATA-ACTGTT-----TTTTTAATTTCATAAAAAATCAA
* * *
2343682 AATATTTTTGCATGTCTCTTTT
59 AATAGTATTACATGTCTCTTTT
2343704 TTAATAAATT
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
97 7 0.10
98 20 0.29
99 6 0.09
104 33 0.47
105 4 0.06
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (98 bp):
TTTAAAAATAAATTTATCTTTAATACATAACTGTTTTTTTAATTTCATAAAAAATCAAAATAGTA
TTACATGTCTCTTTTAAAAAATATTTAATTATA
Found at i:2343726 original size:19 final size:21
Alignment explanation
Indices: 2343702--2343743 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
2343692 CATGTCTCTT
2343702 TTTTAATAAAT-TATATA-AA
1 TTTTAATAAATATATATATAA
*
2343721 TTTTAATATATATATATATAA
1 TTTTAATAAATATATATATAA
2343742 TT
1 TT
2343744 ATATTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 6 0.30
21 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTAATAAATATATATATAA
Found at i:2344197 original size:20 final size:20
Alignment explanation
Indices: 2344172--2344211 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2344162 ATGTAAAAAT
2344172 ATATTAAATATAAT-TATAAA
1 ATATTAAATA-AATATATAAA
*
2344192 ATATTATATAAATATATAAA
1 ATATTAAATAAATATATAAA
2344212 TTATAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATTAAATAAATATATAAA
Found at i:2344220 original size:20 final size:18
Alignment explanation
Indices: 2344174--2344220 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
2344164 GTAAAAATAT
2344174 ATTA-AATATAATTATAA
1 ATTATAATATAATTATAA
* *
2344191 AATATTATATAAATATATAA
1 ATTATAATAT-AAT-TATAA
2344211 ATTATAATAT
1 ATTATAATAT
2344221 CTAAATGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.13
18 4 0.17
19 3 0.13
20 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTATAATATAATTATAA
Found at i:2344823 original size:28 final size:28
Alignment explanation
Indices: 2344770--2344825 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2344760 CTTTTTTATA
*
2344770 TTAAACTTAAAAAAATTAAATTTAAATT
1 TTAAACTTAAAAAAATTAAATATAAATT
*
2344798 TTAAATTTAAAAAAATGT-AATATAAATT
1 TTAAACTTAAAAAAAT-TAAATATAAATT
2344826 ACTATCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
TTAAACTTAAAAAAATTAAATATAAATT
Found at i:2345680 original size:23 final size:21
Alignment explanation
Indices: 2345621--2345681 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
2345611 GCAACAAAAA
*
2345621 TATTTTAAATATTATATTAATTT
1 TATTTTAAATA-TA-ATTAATAT
*
2345644 TACTTTAAAATATAATTAACATAT
1 TA-TTTTAAATATAATT-A-ATAT
2345668 TATTTTAAATATAA
1 TATTTTAAATATAA
2345682 AATGTATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.09
23 16 0.50
24 13 0.41
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTTAAATATAATTAATAT
Found at i:2346326 original size:21 final size:20
Alignment explanation
Indices: 2346300--2346371 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
2346290 AAGTTCTTAA
2346300 AAAAACTACAAATTTATTTTT
1 AAAAACTAC-AATTTATTTTT
* *
2346321 AAAAACAATCAATTTATTCTT
1 AAAAACTA-CAATTTATTTTT
* *
2346342 -AAAACTACCTATTTGTTTTT
1 AAAAACTA-CAATTTATTTTT
2346362 AAAAAACTAC
1 -AAAAACTAC
2346372 CATAAATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 15 0.37
21 18 0.44
22 8 0.20
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (20 bp):
AAAAACTACAATTTATTTTT
Found at i:2347060 original size:16 final size:17
Alignment explanation
Indices: 2347041--2347078 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2347031 GTTTTTGAAT
2347041 TTTTTTA-TGAAAAATA
1 TTTTTTATTGAAAAATA
**
2347057 TTTTTTATTTTAAAATA
1 TTTTTTATTGAAAAATA
2347074 TTTTT
1 TTTTT
2347079 ATTTGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTTTTATTGAAAAATA
Found at i:2347079 original size:16 final size:17
Alignment explanation
Indices: 2347051--2347082 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2347041 TTTTTTATGA
2347051 AAAATATTTTTTATTTT
1 AAAATATTTTTTATTTT
2347068 AAAATA-TTTTTATTT
1 AAAATATTTTTTATTT
2347083 GTTTTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AAAATATTTTTTATTTT
Found at i:2347392 original size:3 final size:3
Alignment explanation
Indices: 2347384--2347419 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2347374 TAATTCTCTG
2347384 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2347420 TGCTCTGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2347875 original size:21 final size:22
Alignment explanation
Indices: 2347826--2347879 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
2347816 TAGATCATTT
2347826 TATTTAAAT-TTAATTATAAAA
1 TATTTAAATATTAATTATAAAA
*
2347847 TATATAAATATTAA-TATAAAA
1 TATTTAAATATTAATTATAAAA
2347868 -ATTTTAAATATT
1 TA-TTTAAATATT
2347880 TTAATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 24 0.83
22 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATTTAAATATTAATTATAAAA
Found at i:2347890 original size:10 final size:9
Alignment explanation
Indices: 2347863--2347896 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2347853 AATATTAATA
*
2347863 TAAAAATTT
1 TAAATATTT
2347872 TAAATATTT
1 TAAATATTT
2347881 TAATATATTT
1 TAA-ATATTT
2347891 TAAATA
1 TAAATA
2347897 ATGATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TAAATATTT
Found at i:2349162 original size:13 final size:13
Alignment explanation
Indices: 2349144--2349186 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
2349134 CAAAATTTTG
2349144 ATTTTATTAAATT
1 ATTTTATTAAATT
2349157 ATTTTATTAAATT
1 ATTTTATTAAATT
*
2349170 ATTTTATTGAA-T
1 ATTTTATTAAATT
2349182 ATTTT
1 ATTTT
2349187 GAATACTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 6 0.21
13 23 0.79
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
ATTTTATTAAATT
Found at i:2350492 original size:25 final size:25
Alignment explanation
Indices: 2350430--2350499 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
2350420 AATAAAAATT
*
2350430 AGCCACCAATTTTGACAAA-CAACA
1 AGCCACCAATTTTGACAAATAAACA
2350454 AGCCACCAATTTTGACAAATAAACA
1 AGCCACCAATTTTGACAAATAAACA
*
2350479 AGCCTCC-ATATTTGACAAATA
1 AGCCACCAAT-TTTGACAAATA
2350500 CAAAGGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTGACAAATAAACA
Found at i:2350545 original size:27 final size:27
Alignment explanation
Indices: 2350484--2350554 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
2350474 AAACAAGCCT
* *
2350484 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
2350512 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
2350539 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
2350555 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:2350557 original size:24 final size:24
Alignment explanation
Indices: 2350432--2350557 Score: 92
Period size: 24 Copynumber: 4.9 Consensus size: 24
2350422 TAAAAATTAG
* *
2350432 CCACCAATTTTGACAAACAACA-AG
1 CCACCATTTTTGACAAACAA-ATAA
* * *
2350456 CCACCAATTTTGACAAATAAACAA
1 CCACCATTTTTGACAAACAAATAA
* * *
2350480 GCCTCCATATTTGACAAATACAAAGGAAA
1 -CCACCATTTTTGAC-AA-ACAAA--TAA
2350509 CCACCATTTTTGACAAACACAAAATAA
1 CCACCATTTTTGAC-AA-AC-AAATAA
2350536 CCACCATTTTTGACAAACAAAT
1 CCACCATTTTTGACAAACAAAT
2350558 GGGTGGCTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
23 1 0.01
24 24 0.29
25 13 0.15
26 4 0.05
27 20 0.24
28 17 0.20
29 5 0.06
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (24 bp):
CCACCATTTTTGACAAACAAATAA
Found at i:2355083 original size:25 final size:25
Alignment explanation
Indices: 2355021--2355090 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
2355011 AATAAAAATT
*
2355021 AGCCACCAATTTTGACAAA-CAACA
1 AGCCACCAATTTTGACAAATAAACA
2355045 AGCCACCAATTTTGACAAATAAACA
1 AGCCACCAATTTTGACAAATAAACA
*
2355070 AGCCTCC-ATATTTGACAAATA
1 AGCCACCAAT-TTTGACAAATA
2355091 CAAAGGAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTGACAAATAAACA
Found at i:2355139 original size:27 final size:27
Alignment explanation
Indices: 2355075--2355145 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
2355065 AAACAAGCCT
* * *
2355075 CCATATTTGACAAATACAAAGGAAATCA
1 CCATTTTTGACAAACACAAA-GAAACCA
2355103 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
2355130 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
2355146 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:2355148 original size:24 final size:24
Alignment explanation
Indices: 2355023--2355148 Score: 83
Period size: 24 Copynumber: 4.9 Consensus size: 24
2355013 TAAAAATTAG
* *
2355023 CCACCAATTTTGACAAACAACA-AG
1 CCACCATTTTTGACAAACAA-ATAA
* * *
2355047 CCACCAATTTTGACAAATAAACAA
1 CCACCATTTTTGACAAACAAATAA
* * *
2355071 GCCTCCATATTTGACAAATACAAAGGAAA
1 -CCACCATTTTTGAC-AA-ACAAA--TAA
*
2355100 TCACCATTTTTGACAAACACAAAATAA
1 CCACCATTTTTGAC-AA-AC-AAATAA
2355127 CCACCATTTTTGACAAACAAAT
1 CCACCATTTTTGACAAACAAAT
2355149 GGGTGGCTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.01
24 24 0.29
25 13 0.16
26 4 0.05
27 19 0.23
28 16 0.20
29 5 0.06
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (24 bp):
CCACCATTTTTGACAAACAAATAA
Found at i:2355505 original size:2 final size:2
Alignment explanation
Indices: 2355498--2355529 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2355488 TATCACCATC
2355498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2355530 TCAGACATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2356411 original size:22 final size:24
Alignment explanation
Indices: 2356385--2356428 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2356375 CTCACGTTAC
2356385 TATTT-AA-TAAATAAAAATATTT
1 TATTTAAATTAAATAAAAATATTT
*
2356407 TATTTAAATTAATTAAAAATAT
1 TATTTAAATTAAATAAAAATAT
2356429 ATAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 2 0.11
24 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTTAAATTAAATAAAAATATTT
Found at i:2356487 original size:12 final size:13
Alignment explanation
Indices: 2356445--2356490 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
2356435 ATAAATATAA
2356445 AAAAATGTTTTAAT
1 AAAAAT-TTTTAAT
*
2356459 ATAAAA-TTTAAAT
1 A-AAAATTTTTAAT
2356472 AAAAATTTTTAA-
1 AAAAATTTTTAAT
2356484 AAAAATT
1 AAAAATT
2356491 CAAACGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 11 0.39
13 12 0.43
14 1 0.04
15 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
AAAAATTTTTAAT
Found at i:2357200 original size:13 final size:13
Alignment explanation
Indices: 2357182--2357209 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2357172 TGGTTTTTCT
2357182 TGCCTCATCGTGA
1 TGCCTCATCGTGA
2357195 TGCCTCATCGTGA
1 TGCCTCATCGTGA
2357208 TG
1 TG
2357210 AACAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (13 bp):
TGCCTCATCGTGA
Found at i:2359103 original size:14 final size:16
Alignment explanation
Indices: 2359077--2359122 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 16
2359067 AATAAAATAA
2359077 AAAATTA-TAAATATT
1 AAAATTATTAAATATT
2359092 AAAATT-TT-AATATT
1 AAAATTATTAAATATT
*
2359106 AAATTTATTAAATATT
1 AAAATTATTAAATATT
2359122 A
1 A
2359123 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 11 0.41
15 9 0.33
16 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAATTATTAAATATT
Found at i:2359618 original size:24 final size:27
Alignment explanation
Indices: 2359586--2359642 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 27
2359576 GTATCATTTG
2359586 ATATAAAAAAT-ATCAT-AATA-TAAA
1 ATATAAAAAATAATCATAAATATTAAA
*
2359610 ATATAAAAAATAATTATAAATATTAAA
1 ATATAAAAAATAATCATAAATATTAAA
2359637 ATATAA
1 ATATAA
2359643 TTTAAACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 11 0.38
25 4 0.14
26 4 0.14
27 10 0.34
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (27 bp):
ATATAAAAAATAATCATAAATATTAAA
Found at i:2359629 original size:20 final size:21
Alignment explanation
Indices: 2359600--2359648 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2359590 AAAAAATATC
2359600 ATAA-TATAAAATA-TAAAAA
1 ATAATTATAAAATATTAAAAA
*
2359619 ATAATTAT-AAATATTAAAAT
1 ATAATTATAAAATATTAAAAA
2359639 ATAATT-TAAA
1 ATAATTATAAA
2359649 CTTAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATTATAAAATATTAAAAA
Found at i:2365936 original size:21 final size:21
Alignment explanation
Indices: 2365903--2365977 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
2365893 CACTTGATTC
* *
2365903 AATTTAATAATTATAATATTT
1 AATTTTATTATTATAATATTT
*
2365924 AATTTTATTATTATAATAATT
1 AATTTTATTATTATAATATTT
* *
2365945 AATTTTATTATTATCATTTTTT
1 AATTTTATTATTAT-AATATTT
2365967 AAATTTTATTA
1 -AATTTTATTA
2365978 AAATTAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 32 0.70
22 4 0.09
23 10 0.22
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTTTATTATTATAATATTT
Found at i:2366350 original size:65 final size:66
Alignment explanation
Indices: 2366260--2366386 Score: 170
Period size: 65 Copynumber: 1.9 Consensus size: 66
2366250 TATTTCAATA
* * *
2366260 ATTTGATATAAATATAATATTTAATTA-TTATTAACATAAATCTAATTTTAATAT-ATATTTTTT
1 ATTTAATATAAATATAATATGTAATTATTTATT-ACATAAAT-AAATTTTAATATAATATTTTTT
2366323 ATC
64 ATC
* *
2366326 ATTTAATATAAATATAAT-TGTAATTATTTATTACATATATAAATTTTAATTTAATATTTTT
1 ATTTAATATAAATATAATATGTAATTATTTATTACATAAATAAATTTTAATATAATATTTTT
2366387 AATAATAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 10 0.19
65 22 0.41
66 22 0.41
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (66 bp):
ATTTAATATAAATATAATATGTAATTATTTATTACATAAATAAATTTTAATATAATATTTTTTAT
C
Found at i:2366529 original size:21 final size:20
Alignment explanation
Indices: 2366506--2366557 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
2366496 CACTATTACT
2366506 TTTTATCTCATCAAAATTAA
1 TTTTATCTCATCAAAATTAA
*
2366526 TTTTA-CAATGATCAAAATTAA
1 TTTTATC--TCATCAAAATTAA
2366547 TTTTATCTCAT
1 TTTTATCTCAT
2366558 ATTAATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
20 8 0.30
21 17 0.63
22 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTTATCTCATCAAAATTAA
Found at i:2366774 original size:18 final size:17
Alignment explanation
Indices: 2366740--2366794 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
2366730 TATTTAGAAT
2366740 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
2366757 ATTTTAATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
*
2366774 A-TTTAT-TTTATATTA
1 ATTTTATATTTATATAA
2366789 ATTTTA
1 ATTTTA
2366795 AAATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 4 0.12
16 7 0.21
17 7 0.21
18 6 0.18
19 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:2366814 original size:34 final size:32
Alignment explanation
Indices: 2366737--2366821 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
2366727 TCATATTTAG
* * *
2366737 AATATTTTATATTTATATAAATTTTAATATATT
1 AATAATTTAT-TTTATATTAATTTTAAAATATT
2366770 AATAATTTATTTTATATTAATTTTAAAATATAT
1 AATAATTTATTTTATATTAATTTTAAAATAT-T
* *
2366803 ATTTATATTATTTTATATT
1 AATAAT-TTATTTTATATT
2366822 TTAATAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 19 0.42
33 14 0.31
34 12 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
AATAATTTATTTTATATTAATTTTAAAATATT
Found at i:2366825 original size:30 final size:29
Alignment explanation
Indices: 2366742--2366844 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 29
2366732 TTTAGAATAT
*
2366742 TTTATATTTATATAAATTTTAATATATTAATAA
1 TTTATA-TTATATTAATTTTAATA-ATT-AT-A
*
2366775 TTTATTTTATATTAATTTTAA-AATATATA
1 TTTATATTATATTAATTTTAATAAT-TATA
* *
2366804 TTTATATTATTTTATATTTTAATAATTTTA
1 TTTATATTATATTA-ATTTTAATAATTATA
2366834 TTTATATTATA
1 TTTATATTATA
2366845 CGTATATAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
29 13 0.21
30 24 0.39
31 5 0.08
32 14 0.23
33 5 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTATATTATATTAATTTTAATAATTATA
Found at i:2367544 original size:16 final size:16
Alignment explanation
Indices: 2367523--2367565 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
2367513 TCTGAGATAC
2367523 AAGAAAGAAATAAGAA
1 AAGAAAGAAATAAGAA
*
2367539 AAGAAAAGAAA-AGGAA
1 AAG-AAAGAAATAAGAA
*
2367555 AGGAAAGAAAT
1 AAGAAAGAAAT
2367566 GGGGCTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.30
16 9 0.39
17 7 0.30
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (16 bp):
AAGAAAGAAATAAGAA
Found at i:2368985 original size:21 final size:21
Alignment explanation
Indices: 2368955--2368994 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2368945 AAAATCATAA
2368955 TAAATTTTAATTT-ATTAATG
1 TAAATTTTAATTTAATTAATG
2368975 TAAACTTTTAATTTAATTAA
1 TAAA-TTTTAATTTAATTAA
2368995 ATATGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
TAAATTTTAATTTAATTAATG
Found at i:2369044 original size:7 final size:7
Alignment explanation
Indices: 2369028--2369057 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2369018 ATTATAATAA
2369028 TTTTTA-
1 TTTTTAT
2369034 TTTTTAT
1 TTTTTAT
2369041 TTTTTAT
1 TTTTTAT
2369048 TTTTTAT
1 TTTTTAT
2369055 TTT
1 TTT
2369058 ATACAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:2369094 original size:15 final size:15
Alignment explanation
Indices: 2369074--2369114 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
2369064 ATATTAATAA
2369074 TTAATATTTAATTTG
1 TTAATATTTAATTTG
*
2369089 TTAATA--TAATTTT
1 TTAATATTTAATTTG
*
2369102 TTAAAATTTAATT
1 TTAATATTTAATT
2369115 ATATATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.50
15 11 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
TTAATATTTAATTTG
Found at i:2369160 original size:122 final size:119
Alignment explanation
Indices: 2368951--2369172 Score: 261
Period size: 122 Copynumber: 1.8 Consensus size: 119
2368941 AAAAAAAATC
* *
2368951 ATAATAAATTTTAATTTATTAATGTAAACTTTTAATTTAATTAAATATGATTTTTATTTATTAAA
1 ATAATAAATTTTAATTTATTAATATAAACTTTTAATTTAATTAAATATGATTTTAATTTATTAAA
* ** * *
2369016 AAATTATAATAATTTTTATTTTTATTTTTTATTTTTTATTTTATACAAATATTA
66 AAATAATAATAATAATTATTTTTATTATTGATTTTTTATTTTATACAAATATTA
* * ** *
2369070 ATAATTAATATTTAATTTGTTAATATAATTTTTTAAAATTTAATTATATAT-ATGTTTAATTTTA
1 ATAATAAAT-TTTAATTTATTAATATAAACTTTT--AATTTAATTAAATATGAT-TTTAA-TTTA
2369134 TT-AAAAATAATAATAATAAATT-TTTTTATTATTGATTTT
61 TTAAAAAATAATAATAAT-AATTATTTTTATTATTGATTTT
2369173 ATAATTTTGT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
119 8 0.09
120 20 0.24
121 2 0.02
122 47 0.55
123 8 0.09
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (119 bp):
ATAATAAATTTTAATTTATTAATATAAACTTTTAATTTAATTAAATATGATTTTAATTTATTAAA
AAATAATAATAATAATTATTTTTATTATTGATTTTTTATTTTATACAAATATTA
Found at i:2369299 original size:31 final size:31
Alignment explanation
Indices: 2369220--2369307 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
2369210 TATAATATAA
*
2369220 ATTT-TTAAAAA-ACTTAATTAA-ATATTATT
1 ATTTATTAAAAATA-TTAATTAATAAATTATT
* *
2369249 GTTTATTAAAAATAATAATTAATAAATTATT
1 ATTTATTAAAAATATTAATTAATAAATTATT
** * *
2369280 ATTTATTAAATTTTTTAATTAATTAATT
1 ATTTATTAAAAATATTAATTAATAAATT
2369308 TATAAAAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 3 0.06
30 14 0.30
31 30 0.64
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTTATTAAAAATATTAATTAATAAATTATT
Found at i:2369736 original size:21 final size:21
Alignment explanation
Indices: 2369704--2369746 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2369694 ATAAATAATT
2369704 TAATTTTTAATAAAATA-AAA
1 TAATTTTTAATAAAATATAAA
*
2369724 TAATTTATTAATAATATATAAA
1 TAATTT-TTAATAAAATATAAA
2369746 T
1 T
2369747 TTATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATTTTTAATAAAATATAAA
Found at i:2370509 original size:33 final size:33
Alignment explanation
Indices: 2370467--2370540 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
2370457 AAATAAAATA
*
2370467 TTTAA-AAATTTATT-TATTTATTTTTTATCA-AT
1 TTTAATAAATTTATTGTATTTA--TATTATCATAT
2370499 TTTAATAAA-TTATTGTATTTATATTATCATAT
1 TTTAATAAATTTATTGTATTTATATTATCATAT
2370531 TTTAATAAAT
1 TTTAATAAAT
2370541 AATATTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
31 7 0.19
32 21 0.57
33 9 0.24
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (33 bp):
TTTAATAAATTTATTGTATTTATATTATCATAT
Found at i:2370512 original size:32 final size:32
Alignment explanation
Indices: 2370467--2370557 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 32
2370457 AAATAAAATA
2370467 TTTAA-AAATTTATTTATTTATTTTTTATCA-AT
1 TTTAATAAA-TTATTTATTTA-TTTTTATCATAT
*
2370499 TTTAATAAATTATTGTATTTA-TATTATCATAT
1 TTTAATAAATTATT-TATTTATTTTTATCATAT
* *
2370531 TTTAATAAATAATATT-TTAATTTTTAT
1 TTTAATAAATTAT-TTATTTATTTTTAT
2370558 TAAATTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
31 10 0.20
32 30 0.60
33 10 0.20
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTAATAAATTATTTATTTATTTTTATCATAT
Found at i:2375557 original size:3 final size:3
Alignment explanation
Indices: 2375549--2375595 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2375539 ACTCTCAAAT
2375549 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2375596 TACTTTCCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2375823 original size:23 final size:23
Alignment explanation
Indices: 2375764--2375840 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
2375754 CAATTTAAGT
*
2375764 AATATAA-ATTTAAT-TTATTTA
1 AATATAATTTTTAATATTATTTA
* * *
2375785 AATTTAATTATAAATATTATTATA
1 AATATAATTTTTAATATTATT-TA
*
2375809 AA-ATAATTTTTAATATCATTTCA
1 AATATAATTTTTAATATTATTT-A
2375832 AATAGTAAT
1 AATA-TAAT
2375841 ACAGGTTTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 6 0.14
22 5 0.12
23 22 0.52
24 5 0.12
25 4 0.10
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (23 bp):
AATATAATTTTTAATATTATTTA
Found at i:2376071 original size:32 final size:31
Alignment explanation
Indices: 2376014--2376089 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
2376004 TATAATATAC
*
2376014 ATTTTTAAT-TTTTAAAATATATTTTTAATTTA
1 ATTTTTAATAATTTAAAATATATTTTT-A-TTA
2376046 ATTTTTAATAATTTAATAA-AT-TTTTTATTA
1 ATTTTTAATAATTTAA-AATATATTTTTATTA
*
2376076 AGTTTTAA-AATTTA
1 ATTTTTAATAATTTA
2376090 GATATAACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 6 0.15
30 10 0.25
31 1 0.03
32 14 0.35
33 7 0.17
34 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (31 bp):
ATTTTTAATAATTTAAAATATATTTTTATTA
Found at i:2376103 original size:32 final size:31
Alignment explanation
Indices: 2376034--2376104 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 31
2376024 TTTAAAATAT
*
2376034 ATTTTTAATTTAATTTTTAATAATTTAATAAA
1 ATTTTT-ATTTAAGTTTTAATAATTTAATAAA
*
2376066 TTTTTTA-TTAAGTTTTAA-AATTTAGATATAA
1 ATTTTTATTTAAGTTTTAATAATTTA-ATA-AA
2376097 CATTTTTA
1 -ATTTTTA
2376105 ATATTTAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 6 0.18
30 13 0.39
31 3 0.09
32 11 0.33
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (31 bp):
ATTTTTATTTAAGTTTTAATAATTTAATAAA
Found at i:2376291 original size:13 final size:14
Alignment explanation
Indices: 2376264--2376296 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2376254 AAATTGAATT
*
2376264 AATTTTTTTGTTTA
1 AATTTATTTGTTTA
2376278 AATTTATTTG-TTA
1 AATTTATTTGTTTA
2376291 AATTTA
1 AATTTA
2376297 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (14 bp):
AATTTATTTGTTTA
Found at i:2376304 original size:32 final size:29
Alignment explanation
Indices: 2376262--2376322 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 29
2376252 TTAAATTGAA
* *
2376262 TTAATTTTTTTGTTTAAATTTATTTGTTAAAT
1 TTAATATTTTTATTT-AATTT-TTT-TTAAAT
2376294 TTAATATTTTTATTTAATTTTTTTTAAAT
1 TTAATATTTTTATTTAATTTTTTTTAAAT
2376323 ATTATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 3 0.11
31 5 0.19
32 13 0.48
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (29 bp):
TTAATATTTTTATTTAATTTTTTTTAAAT
Found at i:2378659 original size:2 final size:2
Alignment explanation
Indices: 2378654--2378684 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2378644 ACACACACAC
2378654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2378685 GTTTGATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2381228 original size:11 final size:11
Alignment explanation
Indices: 2381214--2381272 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
2381204 AATATTAATG
2381214 TAATAATATTT
1 TAATAATATTT
* *
2381225 TAATACTTTTT
1 TAATAATATTT
2381236 TAA-ATATATTT
1 TAATA-ATATTT
2381247 TAA-AATATTT
1 TAATAATATTT
* *
2381257 TATTAATATAT
1 TAATAATATTT
2381268 TAATA
1 TAATA
2381273 TCAGGCGACC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 9 0.23
11 30 0.77
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (11 bp):
TAATAATATTT
Found at i:2381257 original size:23 final size:22
Alignment explanation
Indices: 2381214--2381268 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
2381204 AATATTAATG
2381214 TAATAATATTTTAATACTTTT-T
1 TAAT-ATATTTTAATACTTTTAT
2381236 TAAATATATTTTAAAATA-TTTTAT
1 T-AATATATTTT--AATACTTTTAT
2381260 TAATATATT
1 TAATATATT
2381269 AATATCAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 8 0.28
23 15 0.52
24 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATATATTTTAATACTTTTAT
Found at i:2381476 original size:23 final size:23
Alignment explanation
Indices: 2381434--2381485 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
2381424 TGATAATATT
** *
2381434 AAATATGATATATTATATAATAA
1 AAATATGATATAAAAAATAATAA
*
2381457 AAATATGATATAAAAAATAATTA
1 AAATATGATATAAAAAATAATAA
2381480 AAATAT
1 AAATAT
2381486 TACATAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATATGATATAAAAAATAATAA
Found at i:2388098 original size:37 final size:39
Alignment explanation
Indices: 2388048--2388127 Score: 119
Period size: 37 Copynumber: 2.1 Consensus size: 39
2388038 CATTTCAAAA
* *
2388048 TTAATATATAATTGAATTAAAA-ATAACTTAAAAAT-AT
1 TTAACATACAATTGAATTAAAATATAACTTAAAAATAAT
*
2388085 TTAACATACAATTGAATTAAAATATAACTTAATAATAAT
1 TTAACATACAATTGAATTAAAATATAACTTAAAAATAAT
2388124 TTAA
1 TTAA
2388128 TTTTACAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 20 0.53
38 12 0.32
39 6 0.16
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (39 bp):
TTAACATACAATTGAATTAAAATATAACTTAAAAATAAT
Found at i:2389282 original size:6 final size:6
Alignment explanation
Indices: 2389271--2389330 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
2389261 ATTGATTATT
* *
2389271 TAAATA TAAATA -AAATA TAAATTA TGAAATA T-ATTA -AAATT TAAATA
1 TAAATA TAAATA TAAATA TAAA-TA T-AAATA TAAATA TAAATA TAAATA
2389318 TAAATA T-AATA TA
1 TAAATA TAAATA TA
2389331 TTATATATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 15 0.34
6 20 0.45
7 6 0.14
8 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (6 bp):
TAAATA
Found at i:2390034 original size:22 final size:21
Alignment explanation
Indices: 2389992--2390034 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
2389982 TTATTTTTAG
* *
2389992 ATAAAAAATCATAATTTTAAA
1 ATAAAAAATCATAAATGTAAA
*
2390013 ATAAAAATATTATAAATGTAAA
1 ATAAAAA-ATCATAAATGTAAA
2390035 GATTTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAAAAATCATAAATGTAAA
Found at i:2390595 original size:15 final size:15
Alignment explanation
Indices: 2390575--2390603 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2390565 AAATTAATTA
2390575 AAATATAATATAAAT
1 AAATATAATATAAAT
2390590 AAATATAATATAAA
1 AAATATAATATAAA
2390604 ATTTAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATAATATAAAT
Found at i:2390759 original size:20 final size:21
Alignment explanation
Indices: 2390736--2390787 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
2390726 TTATCAAATA
2390736 ATATATTAAATAT-TATTTTT
1 ATATATTAAATATATATTTTT
* **
2390756 ATATAAATATTTATATATTTTT
1 ATAT-ATTAAATATATATTTTT
2390778 ATA-ATTAAAT
1 ATATATTAAAT
2390788 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
20 8 0.33
21 6 0.25
22 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATTAAATATATATTTTT
Found at i:2390777 original size:22 final size:24
Alignment explanation
Indices: 2390749--2390794 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2390739 TATTAAATAT
2390749 TATTTTTAT-A-TAAATATTTATA
1 TATTTTTATAATTAAATATTTATA
*
2390771 TATTTTTATAATTAAATTTTTATA
1 TATTTTTATAATTAAATATTTATA
2390795 AAAATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 1 0.05
24 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTTTATAATTAAATATTTATA
Found at i:2390825 original size:36 final size:36
Alignment explanation
Indices: 2390739--2390825 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 36
2390729 TCAAATAATA
* *
2390739 TATTAAATATTATTTTTATATAAATATTTATATATT
1 TATTAAATATAATTTTTATAAAAATATTTATATATT
*
2390775 T-TTATAAT-TAAATTTTTATAAAAATA-TTATTTATT
1 TATTA-AATAT-AATTTTTATAAAAATATTTATATATT
2390810 TATTAAATAATAATTT
1 TATTAAAT-ATAATTT
2390826 AAATTAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
35 16 0.37
36 26 0.60
37 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (36 bp):
TATTAAATATAATTTTTATAAAAATATTTATATATT
Found at i:2391818 original size:21 final size:21
Alignment explanation
Indices: 2391794--2391833 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2391784 GATATTTTAA
2391794 TTTA-ATTATAAAAATAATATT
1 TTTATATT-TAAAAATAATATT
*
2391815 TTTATATTTTAAAATAATA
1 TTTATATTTAAAAATAATA
2391834 AATCAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTATATTTAAAAATAATATT
Found at i:2402972 original size:18 final size:18
Alignment explanation
Indices: 2402941--2402975 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2402931 TTAATTAAAA
2402941 AAATTAAATAATTTTTTT
1 AAATTAAATAATTTTTTT
* *
2402959 AAATTTAATTATTTTTT
1 AAATTAAATAATTTTTT
2402976 ATATTCATAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATTAAATAATTTTTTT
Found at i:2408136 original size:45 final size:49
Alignment explanation
Indices: 2408037--2408145 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 49
2408027 AATTAATCAA
* **
2408037 TATATATTTATAATAATATTATATTAAATAAAATAATTATAATTTTATTTT
1 TATATATTTATAATAATATTATATT--ATAAAATAATTATAATATTATAAT
2408088 TATATA-TTATAATAATATT-T-TT-TAAAA-AATTATAAATATTATAAT
1 TATATATTTATAATAATATTATATTATAAAATAATTAT-AATATTATAAT
*
2408133 TATA-ATTTTTAAT
1 TATATATTTATAAT
2408146 TTATTCGATG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
44 7 0.13
45 23 0.44
48 2 0.04
49 1 0.02
50 13 0.25
51 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (49 bp):
TATATATTTATAATAATATTATATTATAAAATAATTATAATATTATAAT
Found at i:2409086 original size:24 final size:24
Alignment explanation
Indices: 2409058--2409104 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2409048 ATAAATTAAT
2409058 AAATTAAATAATATTAT-TTTATTA
1 AAATTAAATAAT-TTATATTTATTA
*
2409082 AAATTAAATTATTTATATTTATT
1 AAATTAAATAATTTATATTTATT
2409105 TTAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AAATTAAATAATTTATATTTATTA
Found at i:2410626 original size:16 final size:16
Alignment explanation
Indices: 2410591--2410647 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
2410581 TTTATAAATA
2410591 TATTTAAACTTATTTATAT
1 TATTTAAA-TT-TTT-TAT
2410610 TATTTAAATTTTTTAT
1 TATTTAAATTTTTTAT
* *
2410626 TTTTTAAA-TATTTA-
1 TATTTAAATTTTTTAT
2410640 TATTTAAA
1 TATTTAAA
2410648 ATATATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 7 0.20
15 5 0.14
16 10 0.29
17 3 0.09
18 2 0.06
19 8 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTAAATTTTTTAT
Found at i:2411354 original size:17 final size:17
Alignment explanation
Indices: 2411328--2411366 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2411318 TAATTATTAA
*
2411328 ATATTTAATAAAAATAT
1 ATATTAAATAAAAATAT
*
2411345 ATATTAAATATAAATAT
1 ATATTAAATAAAAATAT
*
2411362 TTATT
1 ATATT
2411367 CGATATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATTAAATAAAAATAT
Found at i:2412034 original size:17 final size:16
Alignment explanation
Indices: 2412009--2412057 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
2411999 GATTTATATT
2412009 TAAATATATATAAATA
1 TAAATATATATAAATA
**
2412025 T-GTTATATATAAATA
1 TAAATATATATAAATA
2412040 TTAAATATATATAAATA
1 -TAAATATATATAAATA
2412057 T
1 T
2412058 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 12 0.44
16 3 0.11
17 12 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TAAATATATATAAATA
Found at i:2412058 original size:17 final size:17
Alignment explanation
Indices: 2412008--2412058 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
2411998 AGATTTATAT
2412008 TTAAATATATATAAATA
1 TTAAATATATATAAATA
2412025 TGT---TATATATAAATA
1 T-TAAATATATATAAATA
2412040 TTAAATATATATAAATA
1 TTAAATATATATAAATA
2412057 TT
1 TT
2412059 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.03
15 13 0.43
17 15 0.50
18 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TTAAATATATATAAATA
Found at i:2412069 original size:32 final size:32
Alignment explanation
Indices: 2412008--2412069 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
2411998 AGATTTATAT
* *
2412008 TTAAATATATATAAATATGTTATATATAAATA
1 TTAAATATATATAAATATGTTAAAAATAAATA
*
2412040 TTAAATATATATAAATATTTTAAAAATAAA
1 TTAAATATATATAAATATGTTAAAAATAAA
2412070 AAATCAGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (32 bp):
TTAAATATATATAAATATGTTAAAAATAAATA
Found at i:2413887 original size:5 final size:5
Alignment explanation
Indices: 2413877--2413904 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2413867 AAAATTTTAA
2413877 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
2413905 TTTTCATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:2414069 original size:13 final size:13
Alignment explanation
Indices: 2414051--2414078 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2414041 AAAATTTTTA
2414051 AATTAATAATAAT
1 AATTAATAATAAT
2414064 AATTAATAATAAT
1 AATTAATAATAAT
2414077 AA
1 AA
2414079 GAAAAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAATAATAAT
Found at i:2415633 original size:2 final size:2
Alignment explanation
Indices: 2415628--2415655 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2415618 CAACCCCCCA
2415628 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
2415656 GAGATTCTTT
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:2415751 original size:6 final size:6
Alignment explanation
Indices: 2415736--2415772 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
2415726 AGAAATTTTT
* *
2415736 TTATAA TTATAT TTATAG TTATAA TTATAA TTATAA T
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA T
2415773 AAAATATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:2418113 original size:13 final size:14
Alignment explanation
Indices: 2418095--2418143 Score: 70
Period size: 13 Copynumber: 3.8 Consensus size: 14
2418085 TGATTGTGTG
2418095 TATATAT-ATAATA
1 TATATATAATAATA
2418108 TATATATAATAATA
1 TATATATAATAATA
2418122 -ATATATAATAATA
1 TATATATAATAATA
2418135 -ATA-ATAATA
1 TATATATAATA
2418144 CTAAAGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.17
13 23 0.66
14 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TATATATAATAATA
Found at i:2418121 original size:3 final size:3
Alignment explanation
Indices: 2418102--2418143 Score: 57
Period size: 3 Copynumber: 13.0 Consensus size: 3
2418092 GTGTATATAT
2418102 ATA ATA TATA TATA ATA ATA ATA TATA ATA ATA ATA ATA ATA
1 ATA ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
2418144 CTAAAGTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 27 0.73
4 10 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:2418143 original size:19 final size:17
Alignment explanation
Indices: 2418102--2418140 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
2418092 GTGTATATAT
2418102 ATAATATATATATAATA
1 ATAATATATATATAATA
2418119 ATAATATATA-ATAATA
1 ATAATATATATATAATA
2418135 ATAATA
1 ATAATA
2418141 ATACTAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATATATATATAATA
Found at i:2420718 original size:23 final size:24
Alignment explanation
Indices: 2420688--2420748 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
2420678 TTTAATGTGG
2420688 TATTTTTTATTTAT-ATATATATA
1 TATTTTTTATTTATAATATATATA
* * *
2420711 TATTTTTT-TTTGTAATGTTTATA
1 TATTTTTTATTTATAATATATATA
2420734 TATTTTATTATTTAT
1 TATTTT-TTATTTAT
2420749 TATTATCGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 4 0.13
23 21 0.68
24 2 0.06
25 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (24 bp):
TATTTTTTATTTATAATATATATA
Found at i:2422050 original size:2 final size:2
Alignment explanation
Indices: 2422043--2422075 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2422033 GTAAAGGGTG
2422043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2422076 GTCCCCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2424402 original size:3 final size:3
Alignment explanation
Indices: 2424394--2424421 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2424384 CTTTTGTTTA
2424394 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2424422 GCCATTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2425527 original size:6 final size:6
Alignment explanation
Indices: 2425521--2425573 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
2425511 TTAGCAAATA
* *
2425521 TATATA TATATA TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2425569 TATAT
1 TATAT
2425574 ATAGGGAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:2425548 original size:18 final size:18
Alignment explanation
Indices: 2425518--2425576 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
2425508 CATTTAGCAA
* *
2425518 ATATATATATATATATAT
1 ATATATATGTATATGTAT
*
2425536 ATGTATATGTATATGTAT
1 ATATATATGTATATGTAT
*
2425554 ATGTATATGTATATGTAT
1 ATATATATGTATATGTAT
2425572 ATATA
1 ATATA
2425577 GGGAAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (18 bp):
ATATATATGTATATGTAT
Found at i:2426073 original size:9 final size:9
Alignment explanation
Indices: 2426053--2426195 Score: 56
Period size: 8 Copynumber: 15.9 Consensus size: 9
2426043 ATCAGATTTG
2426053 ATATTTTAT
1 ATATTTTAT
2426062 ATATATTT-T
1 ATAT-TTTAT
2426071 ATA-TTTAT
1 ATATTTTAT
2426079 ATTATTTT-T
1 A-TATTTTAT
*
2426088 ATATTATA-
1 ATATTTTAT
2426096 ATTATATTTA-
1 A-TAT-TTTAT
* * *
2426106 AAATATTAA
1 ATATTTTAT
*
2426115 ATA-ATTAT
1 ATATTTTAT
*
2426123 ATAATTTA-
1 ATATTTTAT
2426131 ATATTTTA-
1 ATATTTTAT
2426139 ATAATTTATTAT
1 AT-A-TT-TTAT
2426151 ATATATTATAAT
1 ATAT-TT-T-AT
2426163 ATATTTTAT
1 ATATTTTAT
2426172 ATA-TTTAT
1 ATATTTTAT
2426180 AT-TATTTAT
1 ATAT-TTTAT
2426189 AT-TTTTA
1 ATATTTTA
2426196 ATAATTTTTT
Statistics
Matches: 108, Mismatches: 8, Indels: 37
0.71 0.05 0.24
Matches are distributed among these distances:
7 3 0.03
8 38 0.35
9 36 0.33
10 15 0.14
11 8 0.07
12 8 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATATTTTAT
Found at i:2426079 original size:17 final size:17
Alignment explanation
Indices: 2426057--2426192 Score: 69
Period size: 16 Copynumber: 8.2 Consensus size: 17
2426047 GATTTGATAT
2426057 TTTATATATATTTTATA
1 TTTATATATATTTTATA
2426074 TTTATAT-TATTTT-TA
1 TTTATATATATTTTATA
* *
2426089 TATTATAATTATATTTAAAA
1 T-TTAT-A-TATATTTTATA
* *
2426109 TATTAAATA-ATTATATAA
1 T-TTATATATATTTTAT-A
*
2426127 TTTA-ATAT-TTTAATAA
1 TTTATATATATTTTAT-A
*
2426143 TTTATTATATATATTATA
1 TTTA-TATATATTTTATA
2426161 ---ATATAT-TTTATATA
1 TTTATATATATTT-TATA
2426175 TTTATAT-TA-TTTATA
1 TTTATATATATTTTATA
2426190 TTT
1 TTT
2426193 TTAATAATTT
Statistics
Matches: 93, Mismatches: 11, Indels: 32
0.68 0.08 0.24
Matches are distributed among these distances:
13 2 0.02
14 9 0.10
15 11 0.12
16 26 0.28
17 19 0.20
18 10 0.11
19 10 0.11
20 6 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATATATATTTTATA
Found at i:2426112 original size:28 final size:28
Alignment explanation
Indices: 2426056--2426112 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
2426046 AGATTTGATA
* * *
2426056 TTTTATATATATTTTATATTTATATTAT
1 TTTTATATATATATTATATTTAAAATAT
2426084 TTTTATAT-TATAATTATATTTAAAATAT
1 TTTTATATATAT-ATTATATTTAAAATAT
2426112 T
1 T
2426113 AAATAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTATATATATATTATATTTAAAATAT
Found at i:2426167 original size:32 final size:28
Alignment explanation
Indices: 2426119--2426204 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
2426109 TATTAAATAA
*
2426119 TTATATAATTTA-ATATTTTAATAATTT
1 TTATATTATTTATATATTTTAATAATTT
*
2426146 ATTATATATATTATAATATATTTT-AT-ATAT
1 -TTATAT-TATT-T-ATATATTTTAATAATTT
2426176 TTATATTATTTATAT-TTTTAATAATTT
1 TTATATTATTTATATATTTTAATAATTT
2426203 TT
1 TT
2426205 TAAGTTATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
25 4 0.08
26 6 0.12
27 6 0.12
28 10 0.20
29 9 0.18
30 4 0.08
31 3 0.06
32 7 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATATTATTTATATATTTTAATAATTT
Found at i:2426195 original size:17 final size:17
Alignment explanation
Indices: 2426145--2426195 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
2426135 TTTAATAATT
* * *
2426145 TATTATATATATTATAA
1 TATTATTTATATTTTTA
*
2426162 TA-TATTTTATATATTTA
1 TATTA-TTTATATTTTTA
2426179 TATTATTTATATTTTTA
1 TATTATTTATATTTTTA
2426196 ATAATTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 2 0.07
17 23 0.85
18 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTATTTATATTTTTA
Found at i:2426202 original size:25 final size:25
Alignment explanation
Indices: 2426108--2426193 Score: 78
Period size: 24 Copynumber: 3.7 Consensus size: 25
2426098 TATATTTAAA
*
2426108 ATATTA-AATA-ATTATATA-ATTT
1 ATATTATAATATATTTTATATATTT
* *
2426130 AATATTTTAATA-A-TTTAT-TATAT
1 -ATATTATAATATATTTTATATATTT
2426153 ATATTATAATATATTTTATATATTT
1 ATATTATAATATATTTTATATATTT
*
2426178 ATATTAT-TTATATTTT
1 ATATTATAATATATTTT
2426194 TAATAATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 10 0.19
23 13 0.25
24 18 0.35
25 11 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATAATATATTTTATATATTT
Found at i:2426272 original size:4 final size:4
Alignment explanation
Indices: 2426263--2426292 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
2426253 AAATTAAAAT
2426263 TTAA TTAA TTAA TTTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA -TTAA TTAA TTAA TTAA T
2426293 ATTATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:2426278 original size:13 final size:13
Alignment explanation
Indices: 2426260--2426289 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2426250 ATAAAATTAA
2426260 AATTTAATTAATT
1 AATTTAATTAATT
2426273 AATTTAATTAATT
1 AATTTAATTAATT
2426286 AATT
1 AATT
2426290 AATATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTTAATTAATT
Found at i:2426285 original size:17 final size:17
Alignment explanation
Indices: 2426263--2426305 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
2426253 AAATTAAAAT
2426263 TTAATTAATTAAT-TTAA
1 TTAATTAATTAATATT-A
2426280 TTAATTAATTAATATTA
1 TTAATTAATTAATATTA
2426297 TTAAATTAA
1 TT-AATTAA
2426306 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATTAATTAATATTA
Found at i:2432090 original size:19 final size:17
Alignment explanation
Indices: 2432034--2432093 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 17
2432024 AAAATAAAAT
* *
2432034 ATAATATTTTTATATTTT
1 ATAATATTTTTATA-ATA
2432052 ATAATATATTTTA-AATA
1 ATAATAT-TTTTATAATA
2432069 ATAATATTTTTATTAATAA
1 ATAATATTTTTA-TAAT-A
2432088 ATAATA
1 ATAATA
2432094 ATTCGAATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.14
17 8 0.22
18 11 0.31
19 12 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATATTTTTATAATA
Found at i:2433169 original size:27 final size:27
Alignment explanation
Indices: 2433139--2433225 Score: 68
Period size: 32 Copynumber: 2.9 Consensus size: 27
2433129 GTATAATTAT
2433139 ATTTAAATTATTTTATTTTTATATAAA
1 ATTTAAATTATTTTATTTTTATATAAA
*
2433166 ATTTAATATATTAATAATTTA-TATTATATAAA
1 ATTT-A-A-ATT-AT--TTTATTTTTATATAAA
*
2433198 ATTTAAAATATTTATATATTATTATATA
1 ATTTAAATTATTT-TAT-TT-TTATATA
2433226 TTATAATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
26 2 0.04
27 6 0.13
28 3 0.06
29 4 0.09
30 11 0.23
31 3 0.06
32 14 0.30
33 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTTAAATTATTTTATTTTTATATAAA
Found at i:2433186 original size:16 final size:16
Alignment explanation
Indices: 2433165--2433234 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
2433155 TTTTATATAA
2433165 AATTTAATATATTAAT
1 AATTTAATATATTAAT
2433181 AATTT-ATATTATATAA-
1 AATTTAATA-TAT-TAAT
* *
2433197 AATTTAAAATATTTAT
1 AATTTAATATATTAAT
*
2433213 ATATTATTATATATT-AT
1 A-ATT-TAATATATTAAT
2433230 AATTT
1 AATTT
2433235 TATCATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
15 6 0.14
16 20 0.45
17 11 0.25
18 7 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTAATATATTAAT
Found at i:2433226 original size:32 final size:32
Alignment explanation
Indices: 2433157--2433225 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
2433147 TATTTTATTT
*
2433157 TTATATAAAATTTAATATATTAATAATTTATA
1 TTATATAAAATTTAAAATATTAATAATTTATA
* *
2433189 TTATATAAAATTTAAAATATTTAT-ATAT-TA
1 TTATATAAAATTTAAAATATTAATAATTTATA
2433219 TTATATA
1 TTATATA
2433226 TTATAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 9 0.26
31 3 0.09
32 22 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TTATATAAAATTTAAAATATTAATAATTTATA
Found at i:2434587 original size:10 final size:10
Alignment explanation
Indices: 2434574--2434603 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2434564 TTTAGTTACA
2434574 TTAAAAAATT
1 TTAAAAAATT
2434584 TTAAAAAATT
1 TTAAAAAATT
*
2434594 TTAAATAATT
1 TTAAAAAATT
2434604 AATAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:2435286 original size:27 final size:26
Alignment explanation
Indices: 2435243--2435316 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 26
2435233 TATTTAACTA
* *
2435243 TTTAAATAATAATTATAATATAATAT
1 TTTAATTATTAATTATAATATAATAT
* * *
2435269 TTTAATTATTATTTTATAATTTTAATTT
1 TTTAATTATTA-ATTATAA-TATAATAT
*
2435297 TTTTATTATTAATTATAATA
1 TTTAATTATTAATTATAATA
2435317 ATATTTATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 10 0.26
27 12 0.32
28 16 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTAATTATTAATTATAATATAATAT
Found at i:2435305 original size:20 final size:21
Alignment explanation
Indices: 2435267--2435315 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2435257 ATAATATAAT
2435267 ATTTTAATTATTATTTTA-TA
1 ATTTTAATTATTATTTTATTA
*
2435287 ATTTTAATT-TTTTTATTATTA
1 ATTTTAATTATTATT-TTATTA
*
2435308 ATTATAAT
1 ATTTTAAT
2435316 AATATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTAATTATTATTTTATTA
Found at i:2435362 original size:27 final size:26
Alignment explanation
Indices: 2435307--2435363 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
2435297 TTTTATTATT
* *
2435307 AATTATAATAATATTTATTACATTCAA
1 AATTATAATAATATATATTA-ATTAAA
2435334 AATTATAATAAATATAATATT-ATTAAA
1 AATTATAAT-AATAT-ATATTAATTAAA
2435361 AAT
1 AAT
2435364 GTACCTACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 17 0.65
28 5 0.19
29 4 0.15
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTATAATAATATATATTAATTAAA
Found at i:2441882 original size:33 final size:35
Alignment explanation
Indices: 2441840--2441904 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
2441830 AGTTATTTTT
2441840 ATAAAAATATAATT-AATAT-ATTT-TTTGAATTTA
1 ATAAAAATAT-ATTAAATATAATTTATTTGAATTTA
2441873 ATAAAAATATATTAAATATAATTTATTTGAAT
1 ATAAAAATATATTAAATATAATTTATTTGAAT
2441905 AATAATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 3 0.10
33 15 0.52
34 4 0.14
35 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (35 bp):
ATAAAAATATATTAAATATAATTTATTTGAATTTA
Found at i:2444173 original size:3 final size:3
Alignment explanation
Indices: 2444165--2444206 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
2444155 TTTTAAACCC
2444165 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AA
2444207 ATTTTAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 4 0.11
5 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2444830 original size:14 final size:15
Alignment explanation
Indices: 2444813--2444841 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2444803 AATAATTTTT
2444813 ATTTA-ATTTTTAAA
1 ATTTACATTTTTAAA
2444827 ATTTACATTTTTAAA
1 ATTTACATTTTTAAA
2444842 TATACGTACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTACATTTTTAAA
Found at i:2447227 original size:24 final size:24
Alignment explanation
Indices: 2447199--2447246 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2447189 CTTAACCTAT
* *
2447199 AAGTTTACCTTCTTTTCTTAAGAC
1 AAGTTTACCTTCTGTTATTAAGAC
2447223 AAGTTTACCTTCTGTTATTAAGAC
1 AAGTTTACCTTCTGTTATTAAGAC
2447247 CTACTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (24 bp):
AAGTTTACCTTCTGTTATTAAGAC
Found at i:2447527 original size:35 final size:35
Alignment explanation
Indices: 2447488--2447603 Score: 178
Period size: 35 Copynumber: 3.3 Consensus size: 35
2447478 TACTAGTAGG
2447488 ATTTTACATCCCAGGAGGATACAAGCACTAATACT
1 ATTTTACATCCCAGGAGGATACAAGCACTAATACT
2447523 ATTTTACATCCCAGGAGGATACAAGCACTAATACT
1 ATTTTACATCCCAGGAGGATACAAGCACTAATACT
* * * * * *
2447558 ATTTTACATCCCAGGTGAATATAGGCACTACTAAT
1 ATTTTACATCCCAGGAGGATACAAGCACTAATACT
2447593 ATTTTACATCC
1 ATTTTACATCC
2447604 TAGTAGAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (35 bp):
ATTTTACATCCCAGGAGGATACAAGCACTAATACT
Found at i:2447613 original size:35 final size:35
Alignment explanation
Indices: 2447488--2447616 Score: 177
Period size: 35 Copynumber: 3.7 Consensus size: 35
2447478 TACTAGTAGG
*
2447488 ATTTTACATCCCAGGAGGATACAAGCACTAATACT
1 ATTTTACATCCCAGGAGAATACAAGCACTAATACT
*
2447523 ATTTTACATCCCAGGAGGATACAAGCACTAATACT
1 ATTTTACATCCCAGGAGAATACAAGCACTAATACT
* * * * *
2447558 ATTTTACATCCCAGGTGAATATAGGCACTACTAAT
1 ATTTTACATCCCAGGAGAATACAAGCACTAATACT
* *
2447593 ATTTTACATCCTAGTAGAATACAA
1 ATTTTACATCCCAGGAGAATACAA
2447617 CATCATTTGC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (35 bp):
ATTTTACATCCCAGGAGAATACAAGCACTAATACT
Found at i:2447777 original size:35 final size:35
Alignment explanation
Indices: 2447731--2447806 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
2447721 CAGTGCTATT
* *
2447731 TTACATTCTAGGAGAATACAAGTACAAGTAGTATC
1 TTACATTCTAGGACAATACAAGAACAAGTAGTATC
* *
2447766 TTACATTCTAGGACAATACAAGAACTAGTAGTATT
1 TTACATTCTAGGACAATACAAGAACAAGTAGTATC
2447801 TTACAT
1 TTACAT
2447807 CCCGTGGGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (35 bp):
TTACATTCTAGGACAATACAAGAACAAGTAGTATC
Found at i:2450675 original size:2 final size:2
Alignment explanation
Indices: 2450668--2450693 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2450658 TCAAACTCTA
2450668 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
2450694 TCTAAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2451029 original size:3 final size:3
Alignment explanation
Indices: 2451021--2451056 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2451011 GTTAACATTT
2451021 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2451057 TACATGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2458168 original size:2 final size:2
Alignment explanation
Indices: 2458161--2458194 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2458151 ACTCATAATA
2458161 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2458195 TAATCGATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2458274 original size:2 final size:2
Alignment explanation
Indices: 2458267--2458298 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2458257 CAATATCTTT
2458267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2458299 GATTAAACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2458436 original size:3 final size:3
Alignment explanation
Indices: 2458428--2458456 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2458418 TTTTAAACAA
2458428 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2458457 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2458471 original size:9 final size:10
Alignment explanation
Indices: 2458427--2458468 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
2458417 CTTTTAAACA
2458427 AAATAATAAT
1 AAATAATAAT
2458437 -AATAATAAT
1 AAATAATAAT
2458446 -AATAATAAT
1 AAATAATAAT
2458455 AAAT-A-AAT
1 AAATAATAAT
2458463 AAATAA
1 AAATAA
2458469 AATTTTAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.23
9 20 0.67
10 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATAATAAT
Done.