Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 46 of 163
Found at i:14830451 original size:4 final size:4
Alignment explanation
Indices: 14830438--14830511 Score: 55
Period size: 4 Copynumber: 17.5 Consensus size: 4
14830428 TAACCCAATT
*
14830438 TTTA -TTA TTTA TTTA TTTA TTTTA TTTTA TTTTA TTTTC TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA -TTTA -TTTA TTTA TTTA
14830485 -TTA CTTTA CTTTA TTT- TATTA TTTA TT
1 TTTA -TTTA -TTTA TTTA T-TTA TTTA TT
14830512 ACTTATTTGG
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
3 7 0.11
4 28 0.45
5 27 0.44
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:14830463 original size:5 final size:5
Alignment explanation
Indices: 14830445--14830504 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
14830435 ATTTTTATTA
* * *
14830445 TTTA- TTTA- TTTAT TTTAT TTTAT TTTAT TTT-C TTTATT TATTAC TTTAC
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T T-TTAT TTTAT
14830494 TTTAT TTTAT T
1 TTTAT TTTAT T
14830505 ATTTATTACT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
4 11 0.23
5 32 0.67
6 2 0.04
7 3 0.06
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:14830518 original size:36 final size:36
Alignment explanation
Indices: 14830435--14830519 Score: 90
Period size: 36 Copynumber: 2.4 Consensus size: 36
14830425 AGGTAACCCA
*
14830435 ATTT-TTA-TTATTTATTTATTTATTTTATTTTA-T
1 ATTTATTACTTATTTATTTATTTACTTTATTTTATT
*
14830468 -TTTATTTTCTTTATTTA-TTACTTTACTTTATTTTATT
1 ATTTA-TTAC-TTATTTATTTA-TTTACTTTATTTTATT
14830505 ATTTATTACTTATTT
1 ATTTATTACTTATTT
14830520 GGATATTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
32 3 0.07
34 2 0.05
35 3 0.07
36 26 0.62
37 4 0.10
38 4 0.10
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (36 bp):
ATTTATTACTTATTTATTTATTTACTTTATTTTATT
Found at i:14831547 original size:24 final size:24
Alignment explanation
Indices: 14831520--14831584 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
14831510 GTCTTAAAGT
*
14831520 ATAAAAAATATAAATAATAAATAA
1 ATAAAAAATATAAATAATAAAAAA
14831544 AT-AAAAATCA-AAATAAATAAAAAA
1 ATAAAAAAT-ATAAAT-AATAAAAAA
* *
14831568 AGAAAAAA-ATATATAAT
1 ATAAAAAATATAAATAAT
14831585 TTGGGGACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 14 0.41
24 15 0.44
25 5 0.15
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (24 bp):
ATAAAAAATATAAATAATAAAAAA
Found at i:14831576 original size:20 final size:20
Alignment explanation
Indices: 14831535--14831583 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14831525 AAATATAAAT
**
14831535 AATAAATAAATAAAAATCAA
1 AATAAATAAATAAAAAAAAA
14831555 AATAAATAAA-AAAAGAAAAA
1 AATAAATAAATAAAA-AAAAA
*
14831575 AATATATAA
1 AATAAATAA
14831584 TTTGGGGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (20 bp):
AATAAATAAATAAAAAAAAA
Found at i:14832604 original size:9 final size:9
Alignment explanation
Indices: 14832587--14832623 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14832577 TGAGTTTTCG
14832587 AATTCGAAT
1 AATTCGAAT
*
14832596 AACTCGAAT
1 AATTCGAAT
*
14832605 AATTCGAAA
1 AATTCGAAT
14832614 AATTCGAAT
1 AATTCGAAT
14832623 A
1 A
14832624 TCANNNNNNN
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14836338 original size:22 final size:22
Alignment explanation
Indices: 14836301--14836351 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
14836291 GTAGGGGTTT
* * *
14836301 AGCACTTCTGTGCTCTCTATTC
1 AGCACTTCGGTACTCTCTAATC
*
14836323 AGTACTTCGGTACTCTCTAATC
1 AGCACTTCGGTACTCTCTAATC
14836345 AGCACTT
1 AGCACTT
14836352 TTGTGCTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (22 bp):
AGCACTTCGGTACTCTCTAATC
Found at i:14843223 original size:39 final size:40
Alignment explanation
Indices: 14843157--14843233 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
14843147 AATTGAATCG
*
14843157 AAGTGAAATTATCTGAACTGTGTATTG-ATTAAAAGTGGA
1 AAGTGAAATTATCTGAACTGTGTATTGAATCAAAAGTGGA
*
14843196 AAGTGAAATTGAAT-TGAATTGTG-ATTGAATCAAAAGTG
1 AAGTGAAATT--ATCTGAACTGTGTATTGAATCAAAAGTG
14843234 AATTTGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 14 0.42
40 17 0.52
41 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (40 bp):
AAGTGAAATTATCTGAACTGTGTATTGAATCAAAAGTGGA
Found at i:14845821 original size:39 final size:40
Alignment explanation
Indices: 14845735--14845836 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 40
14845725 CGGTCCTTGA
* *
14845735 GCCTAGCAGGCTTCGTGCCTGTGTATCTATCGAGCTAAAT
1 GCCTAGCAGGCTTCATGCCGGTGTATCTATCGAGCTAAAT
* * *
14845775 GCCTAGCAGGCTTCATG-CGGTGTA-CTTATCGGGCTTAGT
1 GCCTAGCAGGCTTCATGCCGGTGTATC-TATCGAGCTAAAT
* **
14845814 GCTTAGCAGGCTTCGGGCCGGTG
1 GCCTAGCAGGCTTCATGCCGGTG
14845837 GAGAACTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
38 1 0.02
39 30 0.58
40 21 0.40
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (40 bp):
GCCTAGCAGGCTTCATGCCGGTGTATCTATCGAGCTAAAT
Found at i:14852228 original size:16 final size:17
Alignment explanation
Indices: 14852203--14852235 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14852193 TATTTAGGTT
*
14852203 TTTTATAATTTATAATA
1 TTTTATAATTAATAATA
14852220 TTTTA-AATTAATAATA
1 TTTTATAATTAATAATA
14852236 GTAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATAATTAATAATA
Found at i:14863232 original size:17 final size:16
Alignment explanation
Indices: 14863212--14863244 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
14863202 GTCAAATTTT
14863212 AACTAAATAAAAATAAA
1 AACTAAAT-AAAATAAA
14863229 AACTAAATAAAATAAA
1 AACTAAATAAAATAAA
14863245 TAAATAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AACTAAATAAAATAAA
Found at i:14868244 original size:22 final size:22
Alignment explanation
Indices: 14868219--14868267 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
14868209 CTACCTTCGA
14868219 TGTCGCGACAAAGGACCT-AGTG
1 TGTCGCGACAAAGGACCTGA-TG
**
14868241 TGTCGCGACACGGGACCTGATG
1 TGTCGCGACAAAGGACCTGATG
14868263 TGTCG
1 TGTCG
14868268 TGATATCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.20
Consensus pattern (22 bp):
TGTCGCGACAAAGGACCTGATG
Found at i:14871982 original size:18 final size:18
Alignment explanation
Indices: 14871959--14871997 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14871949 TTACTTTTTG
* *
14871959 ATTTCTTGTGTTTTATTT
1 ATTTCTTGTCTTTCATTT
*
14871977 ATTTCTTTTCTTTCATTT
1 ATTTCTTGTCTTTCATTT
14871995 ATT
1 ATT
14871998 ATTGTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (18 bp):
ATTTCTTGTCTTTCATTT
Found at i:14888617 original size:17 final size:18
Alignment explanation
Indices: 14888595--14888630 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14888585 AGGTCATACA
14888595 ACACCT-AAAATGATGGC
1 ACACCTCAAAATGATGGC
*
14888612 ACACCTCCAAATGATGGC
1 ACACCTCAAAATGATGGC
14888630 A
1 A
14888631 ATAGAACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (18 bp):
ACACCTCAAAATGATGGC
Found at i:14896162 original size:19 final size:19
Alignment explanation
Indices: 14896138--14896192 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
14896128 ATTCCAAAAA
14896138 TAATATTATTTTAATAGTT
1 TAATATTATTTTAATAGTT
*
14896157 TAATATTACTTTAA-A-TT
1 TAATATTATTTTAATAGTT
* *
14896174 TATTACTTATCTTAATAGT
1 TAATA-TTATTTTAATAGT
14896193 ATTTTTCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
19 14 0.48
20 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (19 bp):
TAATATTATTTTAATAGTT
Found at i:14906581 original size:6 final size:6
Alignment explanation
Indices: 14906564--14906601 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
14906554 TACCTTCTTC
*
14906564 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
14906602 GGGTTGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:14906587 original size:18 final size:18
Alignment explanation
Indices: 14906566--14906601 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14906556 CCTTCTTCTC
14906566 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
14906584 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
14906602 GGGTTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCCTT
Found at i:14906689 original size:25 final size:25
Alignment explanation
Indices: 14906661--14906710 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
14906651 CAGGTAGGGC
14906661 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
* *
14906686 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
14906711 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.36, G:0.04, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:14909460 original size:21 final size:20
Alignment explanation
Indices: 14909413--14909467 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
14909403 ACCGCTGTTT
*
14909413 CTAATCTCACTGCTACAGTA
1 CTAATCTCACCGCTACAGTA
*
14909433 TTCAATCTCACCGCTACAGTAA
1 CT-AATCTCACCGCTACAGT-A
14909455 CTAATCTCACCGC
1 CTAATCTCACCGC
14909468 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.29, C:0.35, G:0.09, T:0.27
Consensus pattern (20 bp):
CTAATCTCACCGCTACAGTA
Found at i:14911891 original size:9 final size:9
Alignment explanation
Indices: 14911877--14911905 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
14911867 TTTTATTCAT
14911877 AAAAAGAAG
1 AAAAAGAAG
14911886 AAAAAGAAG
1 AAAAAGAAG
14911895 AAAAAGAAG
1 AAAAAGAAG
14911904 AA
1 AA
14911906 GGAAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:14918993 original size:44 final size:43
Alignment explanation
Indices: 14918944--14919032 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
14918934 CAATTGTAAC
* * *
14918944 TTAAATTTTAATTATTTTTAAATGTGTAATTATCACAACTTCTA
1 TTAAATTATAATTATTTCTAAATGTATAATTATCA-AACTTCTA
*
14918988 TTAAATTATAATTATTTCTAAATGTATAATTATCAATCTTCTA
1 TTAAATTATAATTATTTCTAAATGTATAATTATCAAACTTCTA
14919031 TT
1 TT
14919033 TTATTTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.22
44 32 0.78
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (43 bp):
TTAAATTATAATTATTTCTAAATGTATAATTATCAAACTTCTA
Found at i:14920883 original size:17 final size:16
Alignment explanation
Indices: 14920853--14920902 Score: 82
Period size: 17 Copynumber: 3.0 Consensus size: 16
14920843 CGAATGCAAT
14920853 CAAAAAGAAAAAGAAA
1 CAAAAAGAAAAAGAAA
14920869 CAAAAAGAAAGAAGAAA
1 CAAAAAGAAA-AAGAAA
14920886 CAAAAAGAAAAAAGAAA
1 CAAAAAG-AAAAAGAAA
14920903 TGAAGAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.31
17 19 0.59
18 3 0.09
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (16 bp):
CAAAAAGAAAAAGAAA
Found at i:14921723 original size:28 final size:28
Alignment explanation
Indices: 14921683--14921739 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
14921673 TTTTCCACGG
14921683 AGACACCTTCAGAAACACCTGATCACTT
1 AGACACCTTCAGAAACACCTGATCACTT
*
14921711 AGACACCTTCAGAAACATCTGATCACTT
1 AGACACCTTCAGAAACACCTGATCACTT
14921739 A
1 A
14921740 CAGAAAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.23
Consensus pattern (28 bp):
AGACACCTTCAGAAACACCTGATCACTT
Found at i:14927361 original size:15 final size:15
Alignment explanation
Indices: 14927313--14927373 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
14927303 TGAAGAACTA
**
14927313 AAAAATTAAGTGCTG
1 AAAAATTAAGTATTG
* * *
14927328 AAAAAATAAGCATTA
1 AAAAATTAAGTATTG
14927343 AAAAATTAAGTATTG
1 AAAAATTAAGTATTG
* *
14927358 AAAATTTAAATATTG
1 AAAAATTAAGTATTG
14927373 A
1 A
14927374 GTTTAAGTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.30
Consensus pattern (15 bp):
AAAAATTAAGTATTG
Found at i:14927881 original size:40 final size:40
Alignment explanation
Indices: 14927826--14927906 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
14927816 ACCAAAACTA
14927826 ACAATTAAAATCGTACAGTCCTGAGAGACTAAAAAATTAC
1 ACAATTAAAATCGTACAGTCCTGAGAGACTAAAAAATTAC
*
14927866 ACAATTAAAATCGTACAGTCCTGAGAGACTCAAAAATTAC
1 ACAATTAAAATCGTACAGTCCTGAGAGACTAAAAAATTAC
14927906 A
1 A
14927907 AACTCTCAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (40 bp):
ACAATTAAAATCGTACAGTCCTGAGAGACTAAAAAATTAC
Found at i:14931103 original size:3 final size:3
Alignment explanation
Indices: 14931090--14931143 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
14931080 CAACTTATCT
*
14931090 ATA ACA ATA ATA 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 ATA ATA ATA ATA
14931138 ATA ATA
1 ATA ATA
14931144 GCAAAAATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14935716 original size:17 final size:17
Alignment explanation
Indices: 14935678--14935717 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
14935668 CTCACCTATT
14935678 ATCCT-TCACTTTTTTC
1 ATCCTATCACTTTTTTC
14935694 -TCCTATCA-TTTTCTTC
1 ATCCTATCACTTTT-TTC
14935710 ATCCTATC
1 ATCCTATC
14935718 TTTCCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.38
16 6 0.29
17 7 0.33
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.53
Consensus pattern (17 bp):
ATCCTATCACTTTTTTC
Found at i:14938901 original size:27 final size:27
Alignment explanation
Indices: 14938856--14938908 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
14938846 TATCTCGGTG
*
14938856 GGCTACCCCGCATTTAATGTCTCAACA
1 GGCTACCCCGCATTTAATGTCCCAACA
14938883 GGCTACCCCGCATTTAATGTCCCAAC
1 GGCTACCCCGCATTTAATGTCCCAAC
14938909 GAAATACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.36, G:0.15, T:0.25
Consensus pattern (27 bp):
GGCTACCCCGCATTTAATGTCCCAACA
Found at i:14938916 original size:27 final size:27
Alignment explanation
Indices: 14938858--14938958 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
14938848 TCTCGGTGGG
* * *
14938858 CTACCCCGCATTTAATGTCTCAAC-AGG
1 CTACCCAGCATTTAATGTCCCAACGA-A
*
14938885 CTACCCCGCATTTAATGTCCCAACGAA
1 CTACCCAGCATTTAATGTCCCAACGAA
* * ***
14938912 ATACCTAGCATTTAATGTCTTGACGAA
1 CTACCCAGCATTTAATGTCCCAACGAA
*
14938939 CTACCCAGCGTTTAATGTCC
1 CTACCCAGCATTTAATGTCC
14938959 TGAAAAACTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 60 0.98
28 1 0.02
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28
Consensus pattern (27 bp):
CTACCCAGCATTTAATGTCCCAACGAA
Found at i:14939101 original size:67 final size:66
Alignment explanation
Indices: 14938948--14939347 Score: 403
Period size: 67 Copynumber: 6.0 Consensus size: 66
14938938 ACTACCCAGC
*** ** * * *
14938948 GTTTAATGTCCTGAAAAACTCTCTATGTTTTCATAGTCGAGCCAAGGTCTTACACA-CATACCCC
1 GTTTAATGTCCTGACGGACTCTCTATGTTGCCATAGT-GAGCTATGGTCTTACACATTATACCCC
14939012 AT
65 AT
* * * * *
14939014 GTTTAATTTCCT-AGCAGACTCT-TCAGGTTGCCATAGCTGAGCTATAGTCTTACACGTTATACC
1 GTTTAATGTCCTGA-CGGACTCTCT-ATGTTGCCATAG-TGAGCTATGGTCTTACACATTATACC
*
14939077 CCAG
63 CCAT
*
14939081 GTTTAATGTCCTGACGGACTCTCTATGTTGCCATAGTTGCGCTATGGTCTTACACATTATACCCC
1 GTTTAATGTCCTGACGGACTCTCTATGTTGCCATAG-TGAGCTATGGTCTTACACATTATACCCC
14939146 AT
65 AT
** * ** *
14939148 GTTTAATGTCCTGGTGTACTCTCTATGTTTTCATAGTCGAGCTATGGTCTTACACATTATACCAC
1 GTTTAATGTCCTGACGGACTCTCTATGTTGCCATAGT-GAGCTATGGTCTTACACATTATACCCC
14939213 AT
65 AT
* * * * *
14939215 GCTTAATGTCCTGACGAACTCTCTATGTTGCCATAGTCAAGTTATGGTCTTATACATTATA-CCC
1 GTTTAATGTCCTGACGGACTCTCTATGTTGCCATAGT-GAGCTATGGTCTTACACATTATACCCC
14939279 AT
65 AT
* * * * * * *
14939281 GCTTAATGTCTTGGCGGACTCTCTATGTTTCCATAGCCGAGCTATGGTTTTACAAATTATACCCC
1 GTTTAATGTCCTGACGGACTCTCTATGTTGCCATAG-TGAGCTATGGTCTTACACATTATACCCC
14939346 AT
65 AT
14939348 TATAGTCCAT
Statistics
Matches: 278, Mismatches: 47, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
65 2 0.01
66 95 0.34
67 179 0.64
68 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (66 bp):
GTTTAATGTCCTGACGGACTCTCTATGTTGCCATAGTGAGCTATGGTCTTACACATTATACCCCA
T
Found at i:14939208 original size:134 final size:132
Alignment explanation
Indices: 14938942--14939346 Score: 456
Period size: 134 Copynumber: 3.0 Consensus size: 132
14938932 TGACGAACTA
** ** * * *
14938942 CCCAGCGTTTAATGTCCTGAAAAACTCTCTATGTTTTCATAGTCGAGCCAAGGTCTTACACA-CA
1 CCCAG-GTTTAATGTCCTGACGAACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTA
* * * * * *
14939006 TACCCCATGTTTAATTTCCTAGCAGACTCT-TCAGGTTGCCATAGCTGAGCTATAGTCTTACACG
65 TACCCCATGTTTAATGTCCT-GGAGACTCTCT-ATGTTTCCATAGC-GAGCTATGGTCTTACACA
14939070 TTATAC
127 TTATAC
* * *
14939076 CCCAGGTTTAATGTCCTGACGGACTCTCTATGTTGCCATAGTTGCGCTATGGTCTTACACATTAT
1 CCCAGGTTTAATGTCCTGACGAACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTAT
* *
14939141 ACCCCATGTTTAATGTCCTGGTGTACTCTCTATGTTTTCATAGTCGAGCTATGGTCTTACACATT
66 ACCCCATGTTTAATGTCCTGGAG-ACTCTCTATGTTTCCATAG-CGAGCTATGGTCTTACACATT
14939206 ATAC
129 ATAC
* * * * * *
14939210 CACATGCTTAATGTCCTGACGAACTCTCTATGTTGCCATAGTCAAGTTATGGTCTTATACATTAT
1 CCCAGGTTTAATGTCCTGACGAACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTAT
* * * * *
14939275 A-CCCATGCTTAATGTCTTGGCGGACTCTCTATGTTTCCATAGCCGAGCTATGGTTTTACAAATT
66 ACCCCATGTTTAATGTCCTGG-AGACTCTCTATGTTTCCATAG-CGAGCTATGGTCTTACACATT
14939339 ATAC
129 ATAC
14939343 CCCA
1 CCCA
14939347 TTATAGTCCA
Statistics
Matches: 231, Mismatches: 35, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
133 110 0.48
134 119 0.52
135 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (132 bp):
CCCAGGTTTAATGTCCTGACGAACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTAT
ACCCCATGTTTAATGTCCTGGAGACTCTCTATGTTTCCATAGCGAGCTATGGTCTTACACATTAT
AC
Found at i:14939301 original size:200 final size:200
Alignment explanation
Indices: 14938965--14939347 Score: 488
Period size: 200 Copynumber: 1.9 Consensus size: 200
14938955 GTCCTGAAAA
* * *
14938965 ACTCTCTATGTTTTCATAGTCGAGCCAAGGTCTTACACACATACCCCATGTTTAATTTCCTAGCA
1 ACTCTCTATGTTTTCATAGTCGAGCCAAGGTCTTACACACATACCACATGCTTAATGTCCTAGCA
* * *
14939030 GACTCTTCAGGTTGCCATAGCTGAGCTATAGTCTTACACGTTATACCCCAGGTTTAATGTCCTGA
66 GACTCTTCAGGTTGCCATAGCTAAGCTATAGTCTTACACATTATACCCCAGGCTTAATGTCCTGA
** * *
14939095 CGGACTCTCTATGTTGCCATAGTTGCGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCT
131 CGGACTCTCTATGTTGCCATAGCCGAGCTATGGTCTTACAAATTATACCCCATGTTTAATGTCCT
14939160 GGTGT
196 GGTGT
* * *
14939165 ACTCTCTATGTTTTCATAGTCGAGCTATGGTCTTACACATTATACCACATGCTTAATGTCCT-G-
1 ACTCTCTATGTTTTCATAGTCGAGCCAAGGTCTTACACA-CATACCACATGCTTAATGTCCTAGC
* * * * *
14939228 ACGAACTC-TCTATGTTGCCATAG-TCAAGTTATGGTCTTATACATTATA-CCCATGCTTAATGT
65 A-G-ACTCTTC-AGGTTGCCATAGCT-AAGCTATAGTCTTACACATTATACCCCAGGCTTAATGT
* * * *
14939290 CTTGGCGGACTCTCTATGTTTCCATAGCCGAGCTATGGTTTTACAAATTATACCCCAT
126 CCTGACGGACTCTCTATGTTGCCATAGCCGAGCTATGGTCTTACAAATTATACCCCAT
14939348 TATAGTCCAT
Statistics
Matches: 156, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
199 1 0.01
200 104 0.67
201 51 0.33
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (200 bp):
ACTCTCTATGTTTTCATAGTCGAGCCAAGGTCTTACACACATACCACATGCTTAATGTCCTAGCA
GACTCTTCAGGTTGCCATAGCTAAGCTATAGTCTTACACATTATACCCCAGGCTTAATGTCCTGA
CGGACTCTCTATGTTGCCATAGCCGAGCTATGGTCTTACAAATTATACCCCATGTTTAATGTCCT
GGTGT
Found at i:14944412 original size:12 final size:13
Alignment explanation
Indices: 14944389--14944417 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14944379 AGTCTTCAAA
14944389 AAGAACAATAAAG
1 AAGAACAATAAAG
14944402 AAGAA-AATAAAG
1 AAGAACAATAAAG
14944414 AAGA
1 AAGA
14944418 TAGATGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (13 bp):
AAGAACAATAAAG
Found at i:14950525 original size:85 final size:85
Alignment explanation
Indices: 14950382--14950551 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
14950372 CAGTGGTTTC
14950382 GAGGCCACCAAATCTGACAAGTAAGTTTGTAAATATTATATTTAATATTTACAAATTAATTGTGA
1 GAGGCCACCAAATCTGACAAGTAAGTTTGTAAATATTATATTTAATATTTACAAATTAATTGTGA
*
14950447 TTTTAAAAAGTTTTTTGATA
66 TTTTAAAAAGGTTTTTGATA
14950467 GAGGCCACCAAATCTGACAAGTAAGTTTGTAAATATTATATTTAATATTTACAAATTAATTGTGA
1 GAGGCCACCAAATCTGACAAGTAAGTTTGTAAATATTATATTTAATATTTACAAATTAATTGTGA
14950532 TTTTAAAAAGGTTTTTGATA
66 TTTTAAAAAGGTTTTTGATA
14950552 TTGTGATTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (85 bp):
GAGGCCACCAAATCTGACAAGTAAGTTTGTAAATATTATATTTAATATTTACAAATTAATTGTGA
TTTTAAAAAGGTTTTTGATA
Found at i:14951899 original size:25 final size:25
Alignment explanation
Indices: 14951852--14951933 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
14951842 CCACATCTCT
14951852 TATGAGCTTACCGATTC-TCAGCTCG
1 TATGAGCTTACCGATTCAT-AGCTCG
*
14951877 TATGAGCTTACCAATTCATAGCTCACG
1 TATGAGCTTACCGATTCATAGCT--CG
* *
14951904 -A-GAGCATACTGATTCATAGCTCG
1 TATGAGCTTACCGATTCATAGCTCG
14951927 TATGAGC
1 TATGAGC
14951934 ATACATGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 41 0.85
26 2 0.04
27 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (25 bp):
TATGAGCTTACCGATTCATAGCTCG
Found at i:14956725 original size:14 final size:15
Alignment explanation
Indices: 14956694--14956726 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14956684 TCACCTAAAA
14956694 ACATTTCAAACTCAT
1 ACATTTCAAACTCAT
*
14956709 ACATTTCATAC-CAT
1 ACATTTCAAACTCAT
14956723 ACAT
1 ACAT
14956727 AACAAGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
ACATTTCAAACTCAT
Found at i:14961182 original size:5 final size:5
Alignment explanation
Indices: 14961172--14961197 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14961162 TTTGTCTTGC
14961172 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
14961198 TACATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:14964663 original size:15 final size:15
Alignment explanation
Indices: 14964645--14964674 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14964635 AAACCACACA
14964645 AATTAAAGTCCCTTT
1 AATTAAAGTCCCTTT
*
14964660 AATTAAATTCCCTTT
1 AATTAAAGTCCCTTT
14964675 CCATGGAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.43
Consensus pattern (15 bp):
AATTAAAGTCCCTTT
Found at i:14967533 original size:41 final size:41
Alignment explanation
Indices: 14967483--14967564 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
14967473 TTGTTTCTAA
14967483 AAACGCTTTTGCCAAAAGCAGAAGCTAAAAAAAATTGTTTT
1 AAACGCTTTTGCCAAAAGCAGAAGCTAAAAAAAATTGTTTT
*
14967524 AAACGCTTTTGCCAAAAGCAGAAGCTAGAAAAAATTGTTTT
1 AAACGCTTTTGCCAAAAGCAGAAGCTAAAAAAAATTGTTTT
14967565 TACTTTTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (41 bp):
AAACGCTTTTGCCAAAAGCAGAAGCTAAAAAAAATTGTTTT
Found at i:14973236 original size:28 final size:29
Alignment explanation
Indices: 14973176--14973238 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
14973166 CCGGCCTAAA
14973176 TATATTATGTCTAAAAAATATTATATTAAT
1 TATA-TATGTCTAAAAAATATTATATTAAT
* *
14973206 TATATATGT-TAAATAATAATTATA-TATT
1 TATATATGTCTAAAAAAT-ATTATATTAAT
14973234 TATAT
1 TATAT
14973239 TAAATCACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 15 0.50
29 11 0.37
30 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (29 bp):
TATATATGTCTAAAAAATATTATATTAAT
Found at i:14976859 original size:2 final size:2
Alignment explanation
Indices: 14976852--14976895 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
14976842 TGAGTAATCC
*
14976852 AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14976894 AT
1 AT
14976896 TTGCAAATGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14979465 original size:18 final size:17
Alignment explanation
Indices: 14979444--14979477 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14979434 AAATACATAC
*
14979444 ATATATATAAATTATAAA
1 ATATATA-AAAATATAAA
14979462 ATATATAAAAATATAA
1 ATATATAAAAATATAA
14979478 GCGTATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATATAAAAATATAAA
Found at i:14979682 original size:3 final size:3
Alignment explanation
Indices: 14979599--14979662 Score: 65
Period size: 3 Copynumber: 21.3 Consensus size: 3
14979589 AGTTATGATG
* * * * *
14979599 ATA ATA ACA ATA ATA TTA ATA ATA ATA TTA ATA CTA ATA ATA ATA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
14979647 TTA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
14979663 CCTAATTAGT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:14980352 original size:3 final size:3
Alignment explanation
Indices: 14980290--14980336 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
14980280 AGTTATGATG
* * * *
14980290 ATA ATA ACA ATA ATA TTA ATA ATA ATA TTA ATA CTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14980337 TTTAGTAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:14987363 original size:17 final size:16
Alignment explanation
Indices: 14987335--14987377 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
14987325 TTAAATTTAA
*
14987335 AAAATTTATAATTTTT
1 AAAATTTTTAATTTTT
14987351 AAATATTTTTAATGATTTT
1 AAA-ATTTTTAAT--TTTT
14987370 AAAATTTT
1 AAAATTTT
14987378 AAAAATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 5 0.22
19 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
AAAATTTTTAATTTTT
Found at i:14992846 original size:41 final size:39
Alignment explanation
Indices: 14992765--14992854 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
14992755 AAAAATTATA
* * * **
14992765 TTTAATACAATAAAATATTTATTATTTTTATTTTTATTT
1 TTTAATATAATAAAATATGTATTATATTTATTAGTATTT
*
14992804 TTTAATATAATAAAATATGTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAATATGTATTATATTTAT--TAGTATTT
14992845 TTTAATATAA
1 TTTAATATAA
14992855 ATACTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 28 0.65
41 15 0.35
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.56
Consensus pattern (39 bp):
TTTAATATAATAAAATATGTATTATATTTATTAGTATTT
Found at i:14995398 original size:20 final size:20
Alignment explanation
Indices: 14995373--14995412 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14995363 CGTAAAATAA
*
14995373 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
14995393 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
14995413 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:14997850 original size:8 final size:8
Alignment explanation
Indices: 14997837--14997867 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
14997827 GAAATGGACC
14997837 AATTATTT
1 AATTATTT
14997845 AATTATTT
1 AATTATTT
14997853 AATTATTT
1 AATTATTT
14997861 AATTATT
1 AATTATT
14997868 GAAATCGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AATTATTT
Found at i:14998320 original size:126 final size:126
Alignment explanation
Indices: 14998095--14998465 Score: 549
Period size: 123 Copynumber: 3.0 Consensus size: 126
14998085 GGTCCTGGAT
* *
14998095 GTTTCTGATA-AAATAGTATAAAATCGCTTCTAACAGGATGGTATTTGAGAAGAATTTGTGAAAT
1 GTTTCTGA-ACAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAAT
* *
14998159 CCCGCCCTCGTAGACGTGCATTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGAC
65 CGCGCCCTCGTAGACGCGCATTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGAC
* *
14998221 GTTTCTGAGCAAATAGCATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
1 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
* * *
14998286 GCAG-CCTCGTTAG-CGCGC-TTTGCTATAGTAAGGTCATGTAAGAAAT-A--ATTTTTTTGAC
66 GC-GCCCTCG-TAGACGCGCATTTGCTACAGT-AGGTCACGGAAGAAATAATTATTTTTTTGAC
*
14998344 GTTTCTGAACAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
1 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
* *
14998409 GCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTT
66 GCGCCCTCGTAGACGCGCATTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTT
14998466 NNNNNNNNNN
Statistics
Matches: 219, Mismatches: 16, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
122 3 0.01
123 99 0.45
124 11 0.05
125 11 0.05
126 91 0.42
127 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (126 bp):
GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
GCGCCCTCGTAGACGCGCATTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGAC
Found at i:15000444 original size:116 final size:115
Alignment explanation
Indices: 15000309--15000525 Score: 371
Period size: 116 Copynumber: 1.9 Consensus size: 115
15000299 TGATAAATTG
* *
15000309 TATTACGTCAAAAAATGTATTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGTT
1 TATTAAGTCAAAAAATGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTT
*
15000374 AGTACCAGTCAAAACATTTTTCCAAATTTAACATTATGTGAATGTAAAAT
66 AGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
15000424 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAA-TGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
15000489 TAGTACCAGTCAAAACATTTTTCCAAATCTAATATTA
65 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
15000526 CGTTAAGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 14 0.15
116 81 0.85
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (115 bp):
TATTAAGTCAAAAAATGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTT
AGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:15000567 original size:23 final size:24
Alignment explanation
Indices: 15000538--15001019 Score: 116
Period size: 29 Copynumber: 19.2 Consensus size: 24
15000528 TTAAGGTTAG
15000538 GGTTTTAATTAAATTAGGTTTTAA
1 GGTTTTAATTAAATTAGGTTTTAA
* *
15000562 GG-TTTAGGGTTTAAATTAGG--TTAG
1 GGTTTTA---ATTAAATTAGGTTTTAA
*
15000586 GGTTTTTAATTAAATTAGGTTAAGGTTAG
1 GG-TTTTAATTAAATTAGGTT----TTAA
*
15000615 GGTTTTTAATTAAATTAGGGTTT-A
1 GG-TTTTAATTAAATTAGGTTTTAA
* * *
15000639 CG----ATTTAAATTAGG--TTAG
1 GGTTTTAATTAAATTAGGTTTTAA
* *
15000657 GGTTTTTAATTAAATTAGG--CTAG
1 GG-TTTTAATTAAATTAGGTTTTAA
*
15000680 GGTTTTTAATTAAATTAGGTTAAGGTTAG
1 GG-TTTTAATTAAATTAGGTT----TTAA
*
15000709 GGTTTTTAATTAAATTAGGTTAATGTTAG
1 GG-TTTTAATTAAATTAGG-T--T-TTAA
*
15000738 GGTCTTTAATTAAATTAGGGTTT-A
1 GGT-TTTAATTAAATTAGGTTTTAA
* *
15000762 GGTTTTAGGGTTTAAATTAGG--TTAG
1 GGTTTTA---ATTAAATTAGGTTTTAA
* *
15000787 GGTTTTTAATTAAATTAGG--CTAG
1 GG-TTTTAATTAAATTAGGTTTTAA
*
15000810 GGTTTTTAATTAAATTAGG--TTAT
1 GG-TTTTAATTAAATTAGGTTTTAA
*
15000833 GGTTTTTAATTAAATTAGGTTAAGGTTAG
1 GG-TTTTAATTAAATTAGGTT----TTAA
*
15000862 GGTTTTTAATTAAATTAGGGTTTAA
1 GG-TTTTAATTAAATTAGGTTTTAA
* * *
15000887 GG-TTTAGGGTTTAAATTA-G-ATTAG
1 GGTTTTA---ATTAAATTAGGTTTTAA
*
15000911 GGTTTTTAATTAAATTAGGTTAAGTTTAG
1 GG-TTTTAATTAAATTAGG-T---TTTAA
*
15000940 GGTTTTTAATT-AA-T-GG-TTTAG
1 GG-TTTTAATTAAATTAGGTTTTAA
*
15000961 GGTTTTTAATTAAATTAGGTTAATGTTAG
1 GG-TTTTAATTAAATTAGG-T--T-TTAA
* *
15000990 GGTTTTTAATTAAATTAGGGTTTAG
1 GG-TTTTAATTAAATTAGGTTTTAA
15001015 GGTTT
1 GGTTT
15001020 GTTAGGGTTT
Statistics
Matches: 372, Mismatches: 29, Indels: 114
0.72 0.06 0.22
Matches are distributed among these distances:
17 2 0.01
18 1 0.00
19 11 0.03
21 16 0.04
22 2 0.01
23 117 0.31
24 24 0.06
25 18 0.05
26 45 0.12
27 1 0.00
28 4 0.01
29 129 0.35
30 1 0.00
32 1 0.00
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.46
Consensus pattern (24 bp):
GGTTTTAATTAAATTAGGTTTTAA
Found at i:15000586 original size:31 final size:31
Alignment explanation
Indices: 15000528--15000591 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
15000518 TAATATTACG
*
15000528 TTAAGGTTAGGGTTTTAATTAAATTA-GGTT
1 TTAAGGTTAGGGTTTAAATTAAATTAGGGTT
**
15000558 TTAAGGTTTAGGGTTTAAATTAGGTTAGGGTT
1 TTAAGG-TTAGGGTTTAAATTAAATTAGGGTT
15000590 TT
1 TT
15000592 TAATTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.21
31 17 0.59
32 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (31 bp):
TTAAGGTTAGGGTTTAAATTAAATTAGGGTT
Found at i:15000596 original size:18 final size:18
Alignment explanation
Indices: 15000565--15000668 Score: 53
Period size: 18 Copynumber: 5.9 Consensus size: 18
15000555 GTTTTAAGGT
*
15000565 TTAGGG-TTTAAATTAGG
1 TTAGGGTTTTTAATTAGG
**
15000582 TTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTAATTAGG
15000600 TTA-GG---TT-A--AGG
1 TTAGGGTTTTTAATTAGG
**
15000611 TTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTAATTAGG
15000629 TTAGGGTTTACGATTTAAATTAGG
1 TTAGGG-TT----TTT-AATTAGG
15000653 TTAGGGTTTTTAATTA
1 TTAGGGTTTTTAATTA
15000669 AATTAGGCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 27
0.64 0.09 0.27
Matches are distributed among these distances:
11 4 0.06
12 2 0.03
13 1 0.02
14 2 0.03
15 2 0.03
16 1 0.02
17 8 0.12
18 23 0.36
19 5 0.08
23 5 0.08
24 11 0.17
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (18 bp):
TTAGGGTTTTTAATTAGG
Found at i:15000674 original size:18 final size:18
Alignment explanation
Indices: 15000611--15000698 Score: 59
Period size: 23 Copynumber: 4.3 Consensus size: 18
15000601 TAGGTTAAGG
15000611 TTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTAATTAAA
**
15000629 TTAGGGTTTACGATTTAAATTAGG
1 TTAGGG-TT----TTT-AATTAAA
15000653 TTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTAATTAAA
15000671 TTAGGCTAGGGTTTTTAATTAAA
1 -T----TAGGGTTTTTAATTAAA
15000694 TTAGG
1 TTAGG
15000699 TTAAGGTTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
18 15 0.27
19 6 0.11
22 1 0.02
23 22 0.40
24 11 0.20
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (18 bp):
TTAGGGTTTTTAATTAAA
Found at i:15000725 original size:34 final size:29
Alignment explanation
Indices: 15000650--15000911 Score: 150
Period size: 29 Copynumber: 8.9 Consensus size: 29
15000640 GATTTAAATT
15000650 AGGTTAGGGTTTTTAATT-AA--A--TT-
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
15000673 AGGCTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
15000702 AGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* * *
15000731 ATGTTAGGGTCTTTAATTAAATTAGGGTTT
1 AGGTTAGGGTTTTTAATTAAATTA-GGTTA
* **
15000761 AGGTTTTAGGG-TTTAAATTAGGTTAGGGTTTTTAA
1 AGG--TTAGGGTTTTTAATTAAATTA-GG---TT-A
** * ** * **
15000796 TTAAATTAGGCTAGGGTT--TTTAATTAAATT-
1 --AGGTTAGGGT--TTTTAATTAAATTAGGTTA
*
15000826 AGGTTATGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
15000855 AGGTTAGGGTTTTTAATTAAATTAGGGTTTA
1 AGGTTAGGGTTTTTAATTAAATTA-GG-TTA
* *
15000886 AGGTTTAGGG-TTTAAATTAGATTAGG
1 AGG-TTAGGGTTTTTAATTAAATTAGG
15000912 GTTTTTAATT
Statistics
Matches: 181, Mismatches: 34, Indels: 41
0.71 0.13 0.16
Matches are distributed among these distances:
23 17 0.09
24 2 0.01
26 3 0.02
28 17 0.09
29 73 0.40
30 10 0.06
31 31 0.17
32 14 0.08
34 2 0.01
35 5 0.03
36 5 0.03
37 1 0.01
38 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (29 bp):
AGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:15000803 original size:153 final size:153
Alignment explanation
Indices: 15000579--15001138 Score: 560
Period size: 153 Copynumber: 3.6 Consensus size: 153
15000569 GGTTTAAATT
* ** * ** **
15000579 AGGTTAGGGTTTTTAATTAAATTA-GGTTAAGG--TTAGGGTTTTTAATTAAATTAGGGTTTACG
1 AGGTTAGGGTTTTTAATTAAATTAGGGTTTAGGTTTTA-GGAATTAAATTAGGTTAGGGTTT-TT
* * *
15000641 ATTTAAATTAGGTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAAGGT
64 AATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
15000706 TAGGGTTTTTAATTAAATTAGGTTA
129 TAGGGTTTTTAATTAAATTAGGTTA
* * **
15000731 ATGTTAGGGTCTTTAATTAAATTAGGGTTTAGGTTTTAGGGTTTAAATTAGGTTAGGGTTTTTAA
1 AGGTTAGGGTTTTTAATTAAATTAGGGTTTAGGTTTTAGGAATTAAATTAGGTTAGGGTTTTTAA
*
15000796 TTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTATGGTTTTTAATTAAATTAGGTTAAGGTTA
66 TTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTA
15000861 GGGTTTTTAATTAAATTAGGGTTTA
131 GGGTTTTTAATTAAATTA-GG-TTA
* * ** *
15000886 AGGTTTAGGG-TTTAAATTAGATTAGGGTTT---TTAATTA--AATTAGGTTAAGTTTAGGGTTT
1 AGG-TTAGGGTTTTTAATTAAATTAGGGTTTAGGTT--TTAGGAATTAAATT-AGGTTAGGGTTT
*
15000945 TTAATT-AA-T-GGTTTAGGGTTTTTAATTAAATTAGGTTAATGTTAGGGTTTTTAATTAAATTA
62 TTAATTAAATTAGG-CTAGGGTTTTTAATTAAATTA-G-----GTTAGGGTTTTTAATTAAATTA
* *
15001007 GGGTTTAGGGTTTGTTAGGGTTTTTAATTGAATTAGGTTA
120 -GG-TTA-AG---GTTAGGGTTTTTAATTAAATTAGGTTA
* ** *
15001047 GGGTTAGGGTTTTTAATT--A--AGGGTTTAGGTTTT-TTAATTAAATTAGGTTAGGATTTTTAA
1 AGGTTAGGGTTTTTAATTAAATTAGGGTTTAGGTTTTAGGAATTAAATTAGGTTAGGGTTTTTAA
15001107 TTAAATTAGGCTAGGGTTTTTAATTAAATTAG
66 TTAAATTAGGCTAGGGTTTTTAATTAAATTAG
15001139 CTCATGGTTT
Statistics
Matches: 344, Mismatches: 33, Indels: 55
0.80 0.08 0.13
Matches are distributed among these distances:
150 2 0.01
151 21 0.06
152 32 0.09
153 105 0.31
154 24 0.07
155 25 0.07
156 6 0.02
157 28 0.08
158 20 0.06
159 14 0.04
160 30 0.09
161 14 0.04
162 2 0.01
163 21 0.06
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.46
Consensus pattern (153 bp):
AGGTTAGGGTTTTTAATTAAATTAGGGTTTAGGTTTTAGGAATTAAATTAGGTTAGGGTTTTTAA
TTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTA
GGGTTTTTAATTAAATTAGGTTA
Found at i:15000804 original size:18 final size:18
Alignment explanation
Indices: 15000734--15000851 Score: 50
Period size: 23 Copynumber: 6.3 Consensus size: 18
15000724 TAGGTTAATG
*
15000734 TTAGGGTCTTTAATTAAA
1 TTAGGGTTTTTAATTAAA
*
15000752 TTAGGG--TTTAGGTT---
1 TTAGGGTTTTTA-ATTAAA
* **
15000766 TTAGGG-TTTAAATTAGG
1 TTAGGGTTTTTAATTAAA
15000783 TTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTAATTAAA
15000801 TTAGGCTAGGGTTTTTAATTAAA
1 -T----TAGGGTTTTTAATTAAA
15000824 TTAGGTTATGGTTTTTAATTAAA
1 TTA-G----GGTTTTTAATTAAA
15000847 TTAGG
1 TTAGG
15000852 TTAAGGTTAG
Statistics
Matches: 78, Mismatches: 6, Indels: 32
0.67 0.05 0.28
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 4 0.05
17 8 0.10
18 17 0.22
19 2 0.03
22 2 0.03
23 34 0.44
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.47
Consensus pattern (18 bp):
TTAGGGTTTTTAATTAAA
Found at i:15000945 original size:29 final size:29
Alignment explanation
Indices: 15000907--15001066 Score: 142
Period size: 29 Copynumber: 5.6 Consensus size: 29
15000897 TTAAATTAGA
15000907 TTAGGGTTTTTAATTAAATTAGGTTAAGT
1 TTAGGGTTTTTAATTAAATTAGGTTAAGT
15000936 TTAGGGTTTTTAATT-AA-T--G----GT
1 TTAGGGTTTTTAATTAAATTAGGTTAAGT
15000957 TTAGGGTTTTTAATTAAATTAGGTTAA-T
1 TTAGGGTTTTTAATTAAATTAGGTTAAGT
*
15000985 GTTAGGGTTTTTAATTAAATTAGGGTTTAGGGT
1 -TTAGGGTTTTTAATTAAATTA-GG-TTA-AGT
* * *
15001018 TT-GTTAGGGTTTTTAATTGAATTAGGTTAGGG
1 TTAG----GGTTTTTAATTAAATTAGGTTAAGT
15001050 TTAGGGTTTTTAATTAA
1 TTAGGGTTTTTAATTAA
15001067 GGGTTTAGGT
Statistics
Matches: 109, Mismatches: 4, Indels: 36
0.73 0.03 0.24
Matches are distributed among these distances:
21 17 0.16
22 2 0.02
23 1 0.01
25 2 0.02
27 1 0.01
28 3 0.03
29 48 0.44
30 2 0.02
31 4 0.04
32 6 0.06
33 5 0.05
34 2 0.02
35 16 0.15
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAAGT
Found at i:15000958 original size:21 final size:21
Alignment explanation
Indices: 15000934--15000973 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15000924 ATTAGGTTAA
15000934 GTTTAGGGTTTTTAATTAATG
1 GTTTAGGGTTTTTAATTAATG
15000955 GTTTAGGGTTTTTAATTAA
1 GTTTAGGGTTTTTAATTAA
15000974 ATTAGGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (21 bp):
GTTTAGGGTTTTTAATTAATG
Found at i:15000966 original size:50 final size:50
Alignment explanation
Indices: 15000858--15001096 Score: 218
Period size: 50 Copynumber: 4.5 Consensus size: 50
15000848 TAGGTTAAGG
* *
15000858 TTAGGGTTTTTAATTAAATTAGGGTTTAAGGTTTAGGG-TTTAAATT-A--GA
1 TTAGGGTTTTTAATTAAATTA-GG-TTAA-GTTTAGGGTTTTTAATTAATGGT
15000907 TTAGGGTTTTTAATTAAATTAGGTTAAGTTTAGGGTTTTTAATTAATGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAAGTTTAGGGTTTTTAATTAATGGT
15000957 TTAGGGTTTTTAATTAAATTAGGTTAA-TGTTAGGGTTTTTAATTAAATTAGGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAAGT-TTAGGGTTTTTAATT-AA-T--GG-T
* * * *
15001012 TAGGGTTTGTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGT
1 T---------TAGGGTTTTTAATTAAATTAGGTTAAGTTTAGGGTTTTTAATTAATGGT
*
15001071 TTAGGTTTTTTAATTAAATTAGGTTA
1 TTAGGGTTTTTAATTAAATTAGGTTA
15001097 GGATTTTTAA
Statistics
Matches: 162, Mismatches: 8, Indels: 39
0.78 0.04 0.19
Matches are distributed among these distances:
46 8 0.05
47 11 0.07
48 3 0.02
49 22 0.14
50 66 0.41
51 2 0.01
52 1 0.01
54 2 0.01
55 2 0.01
59 2 0.01
60 2 0.01
63 2 0.01
64 39 0.24
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (50 bp):
TTAGGGTTTTTAATTAAATTAGGTTAAGTTTAGGGTTTTTAATTAATGGT
Found at i:15001050 original size:23 final size:23
Alignment explanation
Indices: 15001020--15001204 Score: 124
Period size: 23 Copynumber: 7.6 Consensus size: 23
15001010 TTTAGGGTTT
15001020 GTTAGGGTTTTTAATTGAATTAGGTTAGG
1 GTTAGGGTTTTTAATT-AA--A--TTA-G
*
15001049 GTTAGGGTTTTTAATT-AA--GG
1 GTTAGGGTTTTTAATTAAATTAG
*
15001069 GTTTAGGTTTTTTAATTAAATTAG
1 G-TTAGGGTTTTTAATTAAATTAG
*
15001093 GTTAGGATTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
*
15001116 GCTAGGGTTTTTAATTAAATTAGCTCATG
1 GTTAGGGTTTTTAATTAAA-T---T-A-G
* **
15001145 GTTTTGGGTTTTTAATTATTTTAG
1 G-TTAGGGTTTTTAATTAAATTAG
****
15001169 GTTAGGGTTTAGGGTTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAG
15001192 GTTAGGGTTTTTA
1 GTTAGGGTTTTTA
15001205 TTACATCAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.02
21 14 0.11
22 2 0.02
23 63 0.50
24 5 0.04
25 2 0.02
26 1 0.01
27 2 0.02
28 1 0.01
29 19 0.15
30 14 0.11
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (23 bp):
GTTAGGGTTTTTAATTAAATTAG
Found at i:15001178 original size:30 final size:30
Alignment explanation
Indices: 15001118--15001184 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
15001108 TAAATTAGGC
*
15001118 TAGGGTTTTTAATTAAATTAGCTCATGGTT
1 TAGGGTTTTTAATTAAATTAGCTCAGGGTT
* ** * *
15001148 TTGGGTTTTTAATTATTTTAGGTTAGGGTT
1 TAGGGTTTTTAATTAAATTAGCTCAGGGTT
15001178 TAGGGTT
1 TAGGGTT
15001185 AAATTAGGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.51
Consensus pattern (30 bp):
TAGGGTTTTTAATTAAATTAGCTCAGGGTT
Found at i:15001278 original size:44 final size:45
Alignment explanation
Indices: 15001210--15001295 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
15001200 TTTTATTACA
*
15001210 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
15001255 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAAT
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAAT
15001296 GGAGCTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 33 0.87
45 5 0.13
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:15001743 original size:18 final size:18
Alignment explanation
Indices: 15001720--15001754 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15001710 CGGAAAAGGA
*
15001720 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
15001738 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
15001755 AAACACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:15003502 original size:22 final size:22
Alignment explanation
Indices: 15003477--15003532 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
15003467 AAATATGGAT
*
15003477 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
15003499 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
15003521 TTGAGAGGAATT
1 TTGAGA-GAATT
15003533 GAGAGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:15003549 original size:12 final size:11
Alignment explanation
Indices: 15003489--15003549 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 11
15003479 GAGAGAATTT
15003489 TTGA-AGGAAA
1 TTGAGAGGAAA
*
15003499 TTGAGA-GAATT
1 TTGAGAGGAA-A
15003510 TTG-GAAGGAAA
1 TTGAG-AGGAAA
15003521 TTGAGAGG-AA
1 TTGAGAGGAAA
15003531 TTGAGAGGAAA
1 TTGAGAGGAAA
15003542 TATGAGAG
1 T-TGAGAG
15003550 AGGATTTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
10 18 0.43
11 14 0.33
12 10 0.24
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:15009248 original size:14 final size:15
Alignment explanation
Indices: 15009229--15009257 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15009219 TTTCAAGAAT
15009229 ATTTAATAA-CAAAA
1 ATTTAATAATCAAAA
15009243 ATTTAATAATCAAAA
1 ATTTAATAATCAAAA
15009258 CATCTAAATA
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:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTTAATAATCAAAA
Found at i:15018664 original size:18 final size:18
Alignment explanation
Indices: 15018624--15018666 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
15018614 AGCCTCCTTT
15018624 TCATCATCCGAAAACTCA
1 TCATCATCCGAAAACTCA
* * * *
15018642 GCATCATCTGATAACTCC
1 TCATCATCCGAAAACTCA
15018660 TCATCAT
1 TCATCAT
15018667 TCTCACCGGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.28
Consensus pattern (18 bp):
TCATCATCCGAAAACTCA
Found at i:15020569 original size:138 final size:135
Alignment explanation
Indices: 15020319--15020572 Score: 312
Period size: 138 Copynumber: 1.9 Consensus size: 135
15020309 AATCACTTCT
* *
15020319 TCAATAGGTAAACTCAGATTCCCTTCTGGTTTTGACTCTTCTTCCACCTTCAGCGTGCAGCCTGA
1 TCAATAGATAAACTCAGATTCCCTTCTGGTTTTGACTCTTCTTCCACCTTCAGCGTACAGCCTGA
* ** * *
15020384 CTCCCCTCCAACTGGCTCAGACCCACAAACAATTGGCTTGAACCCATCAAATCCTTCTGCTTTTG
66 CTCACCTCCAACCAGCGCAGACCCACAAACAATTGGCTTGAAACCATCAAATCCTTCTGCTTTTG
15020449 ATTCC
131 ATTCC
* * * * *
15020454 TCAATAGATAAATTCAGATTGCTTTCTGGTTTTGACTTATCTTCTTCTACCTTCA-CTGTACGGC
1 TCAATAGATAAACTCAGATTCCCTTCTGGTTTTGAC---TCTTCTTCCACCTTCAGC-GTACAGC
* * ** *
15020518 CTGGCTCACCTTCAACCAGCGCAGACCCATGAACAATTGGTTTGAAACCATCAAA
62 CTGACTCACCTCCAACCAGCGCAGACCCACAAACAATTGGCTTGAAACCATCAAA
15020573 ATCTGACTCA
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
135 32 0.33
137 1 0.01
138 65 0.66
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (135 bp):
TCAATAGATAAACTCAGATTCCCTTCTGGTTTTGACTCTTCTTCCACCTTCAGCGTACAGCCTGA
CTCACCTCCAACCAGCGCAGACCCACAAACAATTGGCTTGAAACCATCAAATCCTTCTGCTTTTG
ATTCC
Found at i:15021486 original size:16 final size:17
Alignment explanation
Indices: 15021458--15021490 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15021448 TTTTATAAAA
15021458 TTTTAATATATTTATTT
1 TTTTAATATATTTATTT
15021475 TTTTAATA-ATTTATTT
1 TTTTAATATATTTATTT
15021491 GCTTTGAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTAATATATTTATTT
Found at i:15021745 original size:22 final size:23
Alignment explanation
Indices: 15021720--15021772 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
15021710 GGTTCAAAGT
15021720 AAATAAATTATTAAAAA-ATTAA
1 AAATAAATTATTAAAAATATTAA
* *
15021742 AAATAAAATATTAAAAATTTTAA
1 AAATAAATTATTAAAAATATTAA
15021765 AAA-AAATT
1 AAATAAATT
15021773 GGTTCAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATAAATTATTAAAAATATTAA
Found at i:15021965 original size:19 final size:18
Alignment explanation
Indices: 15021919--15021965 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
15021909 TTACACAACA
*
15021919 TTGAATTTT-GATTTTTT
1 TTGAATTTTAAATTTTTT
*
15021936 TTAAATATTTAAATTTATTT
1 TTGAAT-TTTAAATTT-TTT
15021956 TTGAATTTTA
1 TTGAATTTTA
15021966 GATAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.21
18 3 0.12
19 8 0.33
20 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TTGAATTTTAAATTTTTT
Found at i:15022995 original size:7 final size:7
Alignment explanation
Indices: 15022983--15023024 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
15022973 TTCTTTTCAA
15022983 CTCAATT
1 CTCAATT
15022990 CTCAATT
1 CTCAATT
15022997 CTCAATT
1 CTCAATT
*
15023004 CTCAATC
1 CTCAATT
15023011 CTCAATT
1 CTCAATT
15023018 CTCAATT
1 CTCAATT
15023025 ATTTTTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (7 bp):
CTCAATT
Found at i:15033712 original size:11 final size:11
Alignment explanation
Indices: 15033653--15033731 Score: 72
Period size: 11 Copynumber: 7.0 Consensus size: 11
15033643 AAAAACACAC
*
15033653 ATTTTAATTTTA
1 ATTTT-ATTTTT
*
15033665 ATTTTATTATT
1 ATTTTATTTTT
*
15033676 ATTATTATTTAT
1 ATT-TTATTTTT
15033688 -TTTTACTATTTT
1 ATTTTA-T-TTTT
*
15033700 ATTTCATTTTT
1 ATTTTATTTTT
15033711 ATTTTA-TTTT
1 ATTTTATTTTT
15033721 ATTTTATTTTT
1 ATTTTATTTTT
15033732 GCAGGGAGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
10 13 0.24
11 23 0.42
12 15 0.27
13 4 0.07
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:15033715 original size:5 final size:5
Alignment explanation
Indices: 15033653--15033730 Score: 70
Period size: 5 Copynumber: 15.0 Consensus size: 5
15033643 AAAAACACAC
**
15033653 ATTTT AATTTT AATTTT ATTATT ATTATT A-TTT ATTTT -TACT ATTTT
1 ATTTT -ATTTT -ATTTT ATT-TT ATT-TT ATTTT ATTTT ATTTT ATTTT
*
15033700 ATTTC ATTTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT
15033731 TGCAGGGAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
4 5 0.08
5 33 0.53
6 24 0.39
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:15033731 original size:6 final size:6
Alignment explanation
Indices: 15033654--15033731 Score: 51
Period size: 6 Copynumber: 13.7 Consensus size: 6
15033644 AAAACACACA
* * * *
15033654 TTTTAA TTTTAA TTTTAT TATTAT TATTA- -TTTAT TTTTACT ATTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T -TTTTAT
*
15033701 TTTCAT TTTTA- TTTTA- TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
15033732 GCAGGGAGAC
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
4 3 0.05
5 19 0.31
6 33 0.54
7 1 0.02
8 5 0.08
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:15033731 original size:16 final size:16
Alignment explanation
Indices: 15033653--15033730 Score: 70
Period size: 16 Copynumber: 4.7 Consensus size: 16
15033643 AAAAACACAC
*
15033653 ATTTTAATTTTAATTTT
1 ATTTTTATTTT-ATTTT
*
15033670 ATTATTATTATTA-TTT
1 ATTTTTATT-TTATTTT
*
15033686 ATTTTTACTATTTTATTTC
1 A-TTTT--TATTTTATTTT
15033705 ATTTTTATTTTATTTT
1 ATTTTTATTTTATTTT
15033721 A-TTTTATTTT
1 ATTTTTATTTT
15033731 TGCAGGGAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
15 9 0.18
16 15 0.29
17 11 0.22
18 9 0.18
19 7 0.14
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTTATTTTATTTT
Found at i:15037454 original size:625 final size:625
Alignment explanation
Indices: 15036265--15037514 Score: 2482
Period size: 625 Copynumber: 2.0 Consensus size: 625
15036255 AAATTCGAAA
15036265 GTGTCCCAAGTACAAAAATAATAAAATGAGTGGTAGGTCATTCTTATTTCTTAGGCTAGCTAAAT
1 GTGTCCCAAGTACAAAAATAATAAAATGAGTGGTAGGTCATTCTTATTTCTTAGGCTAGCTAAAT
15036330 ATGTAAGGACTAAATTGTTGAATTGTGCAAACCATGGGGGTCAAATCCTATTATGGAGGAAATTT
66 ATGTAAGGACTAAATTGTTGAATTGTGCAAACCATGGGGGTCAAATCCTATTATGGAGGAAATTT
15036395 TCCCTTTTGTAGATACATACAAAATGCTCGAAGACTAGCATGAACTAAGTAGGGGGATTTGATTA
131 TCCCTTTTGTAGATACATACAAAATGCTCGAAGACTAGCATGAACTAAGTAGGGGGATTTGATTA
15036460 AATGCTAAAATTACATATTTTATGTAATTGAATTGGTTAATTTATGAGAGTGCACAACTAATTTT
196 AATGCTAAAATTACATATTTTATGTAATTGAATTGGTTAATTTATGAGAGTGCACAACTAATTTT
15036525 TCCATGTTTATATTGAATTTTGTGCAGGGATGCAATTTGGGGCTAAATAGAAGAAAAAAGAAACA
261 TCCATGTTTATATTGAATTTTGTGCAGGGATGCAATTTGGGGCTAAATAGAAGAAAAAAGAAACA
15036590 ATTGGGCTAGATTGAAGAAAGGAGCAAAGAAGACGGGCCAAAGCAGAATATTTACAAGATGTAAT
326 ATTGGGCTAGATTGAAGAAAGGAGCAAAGAAGACGGGCCAAAGCAGAATATTTACAAGATGTAAT
15036655 TTAGTGGGAGATCATGTAGGGATTTTTATATCATGGAATATTTTATTTCCTTGATTTTCTATAGC
391 TTAGTGGGAGATCATGTAGGGATTTTTATATCATGGAATATTTTATTTCCTTGATTTTCTATAGC
15036720 TAGTGGCTCTTAATTTGGCAAAGCCACTAGTATAAATAGGGGGCTACTTTGTTCATTTAATCATC
456 TAGTGGCTCTTAATTTGGCAAAGCCACTAGTATAAATAGGGGGCTACTTTGTTCATTTAATCATC
15036785 AAGTTTTTAATCAAACTTATATCTCTTGAATTCAATCTTTTTCTTTCCTTTTTGCAAATTTAGTT
521 AAGTTTTTAATCAAACTTATATCTCTTGAATTCAATCTTTTTCTTTCCTTTTTGCAAATTTAGTT
15036850 GCTGACATTAATACCTTATATTTTTTCTATCTATTATTTT
586 GCTGACATTAATACCTTATATTTTTTCTATCTATTATTTT
15036890 GTGTCCCAAGTACAAAAATAATAAAATGAGTGGTAGGTCATTCTTATTTCTTAGGCTAGCTAAAT
1 GTGTCCCAAGTACAAAAATAATAAAATGAGTGGTAGGTCATTCTTATTTCTTAGGCTAGCTAAAT
15036955 ATGTAAGGACTAAATTGTTGAATTGTGCAAACCATGGGGGTCAAATCCTATTATGGAGGAAATTT
66 ATGTAAGGACTAAATTGTTGAATTGTGCAAACCATGGGGGTCAAATCCTATTATGGAGGAAATTT
15037020 TCCCTTTTGTAGATACATACAAAATGCTCGAAGACTAGCATGAACTAAGTAGGGGGATTTGATTA
131 TCCCTTTTGTAGATACATACAAAATGCTCGAAGACTAGCATGAACTAAGTAGGGGGATTTGATTA
15037085 AATGCTAAAATTACATATTTTATGTAATTGAATTGGTTAATTTATGAGAGTGCACAACTAATTTT
196 AATGCTAAAATTACATATTTTATGTAATTGAATTGGTTAATTTATGAGAGTGCACAACTAATTTT
15037150 TCCATGTTTATATTGAATTTTGTGCAGGGATGCAATTTGGGGCTAAATAGAAGAAAAAAGAAACA
261 TCCATGTTTATATTGAATTTTGTGCAGGGATGCAATTTGGGGCTAAATAGAAGAAAAAAGAAACA
15037215 ATTGGGCTAGATTGAAGAAAGGAGCAAAGAAGACGGGCCAAAGCAGAATATTTACAAGATGTAAT
326 ATTGGGCTAGATTGAAGAAAGGAGCAAAGAAGACGGGCCAAAGCAGAATATTTACAAGATGTAAT
*
15037280 TTAGTGGGAGATCATGTAGGGATTTTTATATCATGGAATATTTTATTTCCTTGATTTTCTATGGC
391 TTAGTGGGAGATCATGTAGGGATTTTTATATCATGGAATATTTTATTTCCTTGATTTTCTATAGC
*
15037345 TAGTGGCTCTTAATTTGGCAAAGCCACTAGTATAAATAGGGGGCTACTTTGTTTATTTAATCATC
456 TAGTGGCTCTTAATTTGGCAAAGCCACTAGTATAAATAGGGGGCTACTTTGTTCATTTAATCATC
15037410 AAGTTTTTAATCAAACTTATATCTCTTGAATTCAATCTTTTTCTTTCCTTTTTGCAAATTTAGTT
521 AAGTTTTTAATCAAACTTATATCTCTTGAATTCAATCTTTTTCTTTCCTTTTTGCAAATTTAGTT
15037475 GCTGACATTAATACCTTATATTTTTTCTATCTATTATTTT
586 GCTGACATTAATACCTTATATTTTTTCTATCTATTATTTT
15037515 CCAACTTTGG
Statistics
Matches: 623, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
625 623 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (625 bp):
GTGTCCCAAGTACAAAAATAATAAAATGAGTGGTAGGTCATTCTTATTTCTTAGGCTAGCTAAAT
ATGTAAGGACTAAATTGTTGAATTGTGCAAACCATGGGGGTCAAATCCTATTATGGAGGAAATTT
TCCCTTTTGTAGATACATACAAAATGCTCGAAGACTAGCATGAACTAAGTAGGGGGATTTGATTA
AATGCTAAAATTACATATTTTATGTAATTGAATTGGTTAATTTATGAGAGTGCACAACTAATTTT
TCCATGTTTATATTGAATTTTGTGCAGGGATGCAATTTGGGGCTAAATAGAAGAAAAAAGAAACA
ATTGGGCTAGATTGAAGAAAGGAGCAAAGAAGACGGGCCAAAGCAGAATATTTACAAGATGTAAT
TTAGTGGGAGATCATGTAGGGATTTTTATATCATGGAATATTTTATTTCCTTGATTTTCTATAGC
TAGTGGCTCTTAATTTGGCAAAGCCACTAGTATAAATAGGGGGCTACTTTGTTCATTTAATCATC
AAGTTTTTAATCAAACTTATATCTCTTGAATTCAATCTTTTTCTTTCCTTTTTGCAAATTTAGTT
GCTGACATTAATACCTTATATTTTTTCTATCTATTATTTT
Found at i:15039324 original size:23 final size:23
Alignment explanation
Indices: 15039294--15039378 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 23
15039284 GTATTCCAAA
15039294 GATG-AAAACTTGATTAATGACTT
1 GATGAAAAACTTGATTAA-GACTT
*
15039317 GATGAAAAACACTTGATGAAAAGACTT
1 GATG-AAAA-ACTTGAT--TAAGACTT
*
15039344 GATGAAAAGCTTGA-TAAGAACTT
1 GATGAAAAACTTGATTAAG-ACTT
*
15039367 GATGCAAAACTT
1 GATGAAAAACTT
15039379 TTAAAAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
22 3 0.06
23 18 0.35
25 8 0.16
26 11 0.22
27 9 0.18
28 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.27
Consensus pattern (23 bp):
GATGAAAAACTTGATTAAGACTT
Found at i:15039343 original size:13 final size:13
Alignment explanation
Indices: 15039312--15039375 Score: 71
Period size: 13 Copynumber: 5.0 Consensus size: 13
15039302 CTTGATTAAT
15039312 GACTTGATGAAAAA
1 GACTTGATG-AAAA
*
15039326 CACTTGATGAAAA
1 GACTTGATGAAAA
15039339 GACTTGATGAAAA
1 GACTTGATGAAAA
*
15039352 G-CTTGAT-AAGA
1 GACTTGATGAAAA
15039363 -ACTTGATGCAAAA
1 GACTTGATG-AAAA
15039376 CTTTTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.21
12 6 0.14
13 20 0.47
14 8 0.19
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (13 bp):
GACTTGATGAAAA
Found at i:15039377 original size:12 final size:11
Alignment explanation
Indices: 15039294--15039378 Score: 64
Period size: 12 Copynumber: 7.0 Consensus size: 11
15039284 GTATTCCAAA
15039294 GATGAAAACTT
1 GATGAAAACTT
* *
15039305 GATTAATGACTT
1 GATGAA-AACTT
15039317 GATGAAAAACACTT
1 GATG--AAA-ACTT
15039331 GATGAAAAGACTT
1 GATG-AAA-ACTT
15039344 GATGAAAAGCTT
1 GATGAAAA-CTT
15039356 GAT-AAGAACTT
1 GATGAA-AACTT
15039367 GATGCAAAACTT
1 GATG-AAAACTT
15039379 TTAAAAAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
11 14 0.23
12 23 0.38
13 14 0.23
14 10 0.16
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.27
Consensus pattern (11 bp):
GATGAAAACTT
Found at i:15051256 original size:5 final size:5
Alignment explanation
Indices: 15051246--15051273 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15051236 CTTCCTCTTC
15051246 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
15051274 TTTCTTTTCT
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:15059751 original size:13 final size:13
Alignment explanation
Indices: 15059733--15059760 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15059723 AATATGCGAA
15059733 TATATATATATGG
1 TATATATATATGG
15059746 TATATATATATGG
1 TATATATATATGG
15059759 TA
1 TA
15059761 GCCGAATGTG
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:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (13 bp):
TATATATATATGG
Found at i:15061048 original size:19 final size:19
Alignment explanation
Indices: 15061024--15061123 Score: 141
Period size: 19 Copynumber: 5.4 Consensus size: 19
15061014 AATCTTCAAG
15061024 GATATGAAATCTTAGATAT
1 GATATGAAATCTTAGATAT
* *
15061043 GATATGTAATCTTGGATAT
1 GATATGAAATCTTAGATAT
*
15061062 GATATGCAATCTTAGATAT
1 GATATGAAATCTTAGATAT
*
15061081 GATATGTAATCTTAGATAT
1 GATATGAAATCTTAGATAT
*
15061100 GATATGCAATCTTAGA-A-
1 GATATGAAATCTTAGATAT
15061117 GATATGA
1 GATATGA
15061124 TTTTGTAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
17 6 0.08
18 1 0.01
19 67 0.91
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (19 bp):
GATATGAAATCTTAGATAT
Found at i:15061073 original size:38 final size:38
Alignment explanation
Indices: 15061024--15061122 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
15061014 AATCTTCAAG
* *
15061024 GATATGAAATCTTAGATATGATATGTAATCTTGGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
15061062 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
15061100 GATATGCAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
15061123 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 52 0.88
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:15061319 original size:59 final size:60
Alignment explanation
Indices: 15061245--15061366 Score: 219
Period size: 59 Copynumber: 2.0 Consensus size: 60
15061235 CTTCATTGTA
15061245 AAAAAAAAAAGAGGAAGAGGAGAAAAATAAATAAAAAGGGAGAACGATTGGCAGTTTTTT
1 AAAAAAAAAAGAGGAAGAGGAGAAAAATAAATAAAAAGGGAGAACGATTGGCAGTTTTTT
* *
15061305 AAAAAAAAAA-AGGAAGAGGAGAAAATTCAATAAAAAGGGAGAACGATTGGCAGTTTTTT
1 AAAAAAAAAAGAGGAAGAGGAGAAAAATAAATAAAAAGGGAGAACGATTGGCAGTTTTTT
15061364 AAA
1 AAA
15061367 GGTGGCTTAC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 50 0.83
60 10 0.17
ACGTcount: A:0.55, C:0.04, G:0.24, T:0.17
Consensus pattern (60 bp):
AAAAAAAAAAGAGGAAGAGGAGAAAAATAAATAAAAAGGGAGAACGATTGGCAGTTTTTT
Found at i:15066557 original size:58 final size:58
Alignment explanation
Indices: 15066487--15066602 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
15066477 CTTCATTGTA
15066487 AAAAAAAAAGAGGAAGAGGAGAAAAATCAATAAAAAGGGAGAACGATTGGCAGTTTTT
1 AAAAAAAAAGAGGAAGAGGAGAAAAATCAATAAAAAGGGAGAACGATTGGCAGTTTTT
*
15066545 AAAAAAAAAGAGGAAGAGGAGAAAAATCAATAAAAATGGAGAACGATTGGCAGTTTTT
1 AAAAAAAAAGAGGAAGAGGAGAAAAATCAATAAAAAGGGAGAACGATTGGCAGTTTTT
15066603 TTAAAGGTGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.53, C:0.05, G:0.25, T:0.16
Consensus pattern (58 bp):
AAAAAAAAAGAGGAAGAGGAGAAAAATCAATAAAAAGGGAGAACGATTGGCAGTTTTT
Found at i:15082953 original size:66 final size:66
Alignment explanation
Indices: 15082847--15082981 Score: 150
Period size: 66 Copynumber: 2.0 Consensus size: 66
15082837 GTCAGACAGG
* * **
15082847 TGATGGTTCATCTTTTCCAGTGCAGTACACGACATCTCCTTGCCC-TTGCTGATGGCTGCGGAAC
1 TGATGGTTCACCTTTTCCAGTGCAGTACACGACACCTCCTTGCCCTTTG-TGATCACTGCGGAAC
15082911 CA
65 CA
* * * *
15082913 TGATGGTTCACCTTTTGCAGTGCA-T-CAACTGATACCTCCTTTCCCTTTGTGATCACTGTGGAA
1 TGATGGTTCACCTTTTCCAGTGCAGTAC-AC-GACACCTCCTTGCCCTTTGTGATCACTGCGGAA
15082976 CCA
64 CCA
15082979 TGA
1 TGA
15082982 CCGCAAGAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
64 1 0.02
65 3 0.05
66 51 0.88
67 3 0.05
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (66 bp):
TGATGGTTCACCTTTTCCAGTGCAGTACACGACACCTCCTTGCCCTTTGTGATCACTGCGGAACC
A
Found at i:15093936 original size:111 final size:111
Alignment explanation
Indices: 15093775--15094049 Score: 306
Period size: 111 Copynumber: 2.5 Consensus size: 111
15093765 AATGCATCAA
* * * *
15093775 CAACAACTAGCTGCGCTAGCTCAGCAACAGTCCTTTCTCATGGCTGCTGCAGCTAAATCTGCTCC
1 CAACAACTAGCTACGCTAGCACAGCAACAGTCCCTTCTCATGGCTGCTGCAGCTAAAGCTGCTCC
* *
15093840 TGGAAA-TGCTCAACAGTCTCCATCCAATGGCACCATGATACCCACT
66 TGGAAACAG-TCAACAGCCTCCATCCAATGGCACCATGATACCCACT
* * *
15093886 CAACAACTAGCTATGTTAGCACAGCAACAGTCCCTTCTTATGGCTGCTGCAGCTAAAGCTGCTCC
1 CAACAACTAGCTACGCTAGCACAGCAACAGTCCCTTCTCATGGCTGCTGCAGCTAAAGCTGCTCC
* * *
15093951 TGGAAACAGTCAACAGCCTCCAT-CAA--CCACCACAAGCTTACCCACT
66 TGGAAACAGTCAACAGCCTCCATCCAATGGCA-C-CATG-ATACCCACT
** * * *
15093997 CAACAACAACTAGCTTTGCTAGCGCATCAACAGTCCCTCCTCATGGCTGCTGC
1 ---CAACAACTAGCTACGCTAGCACAGCAACAGTCCCTTCTCATGGCTGCTGC
15094050 TGGAAATATG
Statistics
Matches: 139, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
108 2 0.01
109 1 0.01
110 6 0.04
111 85 0.61
112 1 0.01
114 44 0.32
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.22
Consensus pattern (111 bp):
CAACAACTAGCTACGCTAGCACAGCAACAGTCCCTTCTCATGGCTGCTGCAGCTAAAGCTGCTCC
TGGAAACAGTCAACAGCCTCCATCCAATGGCACCATGATACCCACT
Found at i:15099667 original size:226 final size:227
Alignment explanation
Indices: 15099273--15099726 Score: 901
Period size: 226 Copynumber: 2.0 Consensus size: 227
15099263 CTCGTGCAAG
15099273 TCACTCAACTATGCTTAAATTTTTTTTTAGTCAACCAAATTTTAAAACTTTCAATGTGGTCACCA
1 TCACTCAACTATGCTTAAATTTTTTTTTAGTCAACCAAATTTTAAAACTTTCAATGTGGTCACCA
15099338 ACCAAACGAGACAAATTTGTCAATTCCATATGCCATAGGGATGTTTAATTTCCTCTCTCTCTAAT
66 ACCAAACGAGACAAATTTGTCAATTCCATATGCCATAGGGATGTTTAATTTCCTCTCTCTCTAAT
15099403 ACTCATCAATCTATTTCGTACTCTTTTTTTTTGAATCACTTGATACATTTTTAAAAAAAATCAAT
131 ACTCATCAATCTATTTCGTACTCTTTTTTTTTGAATCACTTGATACATTTTTAAAAAAAATCAAT
15099468 ACATATGTTTTTTATTTTTTAT-TTTTATATT
196 ACATATGTTTTTTATTTTTTATATTTTATATT
15099499 TCACTCAACTATGCTTAAATTTTTTTTTAGTCAACCAAATTTTAAAACTTTCAATGTGGTCACCA
1 TCACTCAACTATGCTTAAATTTTTTTTTAGTCAACCAAATTTTAAAACTTTCAATGTGGTCACCA
15099564 ACCAAACGAGACAAATTTGTCAATTCCATATGCCATAGGGATGTTTAATTTCCTCTCTCTCTAAT
66 ACCAAACGAGACAAATTTGTCAATTCCATATGCCATAGGGATGTTTAATTTCCTCTCTCTCTAAT
15099629 ACTCATCAATCTATTTCGTACTCTTTTTTTTTGAATCACTTGATACATTTTTAAAAAAAATCAAT
131 ACTCATCAATCTATTTCGTACTCTTTTTTTTTGAATCACTTGATACATTTTTAAAAAAAATCAAT
15099694 ACATATGTTTTTTATTTTTTATATTTTATATT
196 ACATATGTTTTTTATTTTTTATATTTTATATT
15099726 T
1 T
15099727 TATTTATAAT
Statistics
Matches: 227, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
226 217 0.96
227 10 0.04
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (227 bp):
TCACTCAACTATGCTTAAATTTTTTTTTAGTCAACCAAATTTTAAAACTTTCAATGTGGTCACCA
ACCAAACGAGACAAATTTGTCAATTCCATATGCCATAGGGATGTTTAATTTCCTCTCTCTCTAAT
ACTCATCAATCTATTTCGTACTCTTTTTTTTTGAATCACTTGATACATTTTTAAAAAAAATCAAT
ACATATGTTTTTTATTTTTTATATTTTATATT
Found at i:15099746 original size:20 final size:21
Alignment explanation
Indices: 15099703--15099748 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15099693 TACATATGTT
* * *
15099703 TTTTATTTTTTATATTTTATA
1 TTTTATTTATAATATTTTAGA
15099724 TTTTATTTATAAT-TTTTAGA
1 TTTTATTTATAATATTTTAGA
15099744 TTTTA
1 TTTTA
15099749 AACCATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATTTATAATATTTTAGA
Found at i:15101946 original size:16 final size:16
Alignment explanation
Indices: 15101925--15101955 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15101915 ATTGAGTTGA
*
15101925 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
15101941 GAAAATTAATTAATT
1 GAAAATTAATTAATT
15101956 TAAATTAATT
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:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:15105887 original size:41 final size:41
Alignment explanation
Indices: 15105842--15105927 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
15105832 AATTCATCTA
* *
15105842 CTAGGTTTAAAGTCTAATTCAGTTCACCGGCACTTAGCCTG
1 CTAGGCTTAAAGCCTAATTCAGTTCACCGGCACTTAGCCTG
* *
15105883 CTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTG
1 CTAGGCTTAAAGCCTAATTCAGTTCACCGGCACTTAGCCTG
15105924 CTAG
1 CTAG
15105928 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (41 bp):
CTAGGCTTAAAGCCTAATTCAGTTCACCGGCACTTAGCCTG
Found at i:15107649 original size:13 final size:13
Alignment explanation
Indices: 15107631--15107655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15107621 ACCAACGATA
15107631 AAATTTTCACACG
1 AAATTTTCACACG
15107644 AAATTTTCACAC
1 AAATTTTCACAC
15107656 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:15109429 original size:25 final size:24
Alignment explanation
Indices: 15109363--15109446 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 24
15109353 TTCAAATTCT
* *
15109363 GGAATGCTCATATTAGCACATAAACG
1 GGAA-GCTTATATGAGCACAT-AACG
15109389 GGAAGCTCT-T-TCGAGCTACATAACG
1 GGAAGCT-TATAT-GAGC-ACATAACG
15109414 GGAAGCTTATATGAGC-CATGTAACG
1 GGAAGCTTATATGAGCACA--TAACG
15109439 GGAAGCTT
1 GGAAGCTT
15109447 CGGAGACCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 36 0.73
26 9 0.18
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (24 bp):
GGAAGCTTATATGAGCACATAACG
Found at i:15109569 original size:26 final size:26
Alignment explanation
Indices: 15109536--15109595 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
15109526 TCATTAACGA
*
15109536 GAAGCTCACAAAGAGCC-TTTAATCGG
1 GAAGCTCACAAAGAGCCATAT-ATCGG
*
15109562 GAAGCTCACGAAGAGCCATATATCGG
1 GAAGCTCACAAAGAGCCATATATCGG
*
15109588 GACGCTCA
1 GAAGCTCA
15109596 TAAGAGCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCATATATCGG
Found at i:15112897 original size:15 final size:16
Alignment explanation
Indices: 15112868--15112897 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15112858 CAAACATGTT
15112868 TTAACACATTATCAAA
1 TTAACACATTATCAAA
15112884 TTAACACA-TATCAA
1 TTAACACATTATCAA
15112898 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:15114059 original size:33 final size:33
Alignment explanation
Indices: 15114003--15114153 Score: 203
Period size: 33 Copynumber: 4.5 Consensus size: 33
15113993 ACATTGCCAG
* * * *
15114003 TCCAACCAAAAACACCAAATGCTCAGACGAGCCAA
1 TCCAACC-AACACACC-AATGCTCATATGAGCTAA
**
15114038 TCCCTCCAACACACCAATGCTCATATGAGCTAA
1 TCCAACCAACACACCAATGCTCATATGAGCTAA
**
15114071 TCCCTCCAACACACCAATGCTCATATGAGCTAA
1 TCCAACCAACACACCAATGCTCATATGAGCTAA
*
15114104 TCCAACCAACACTCCAATGCTCATATGAGCTAA
1 TCCAACCAACACACCAATGCTCATATGAGCTAA
15114137 TCCAACCAACACACCAA
1 TCCAACCAACACACCAA
15114154 ACAGAGTGTA
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
33 94 0.89
34 7 0.07
35 5 0.05
ACGTcount: A:0.38, C:0.36, G:0.09, T:0.17
Consensus pattern (33 bp):
TCCAACCAACACACCAATGCTCATATGAGCTAA
Found at i:15115946 original size:28 final size:28
Alignment explanation
Indices: 15115914--15116011 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
15115904 TAATGAGATT
*
15115914 AGCACTAAGTGTGTGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
* *
15115942 AGCACTAAGTGTGCGGGTTTAATGGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
* * *
15115970 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
*
15115998 AGCACTAAATGTGC
1 AGCACTAAGTGTGC
15116012 AAACTTATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATTGTAA
Found at i:15122354 original size:40 final size:40
Alignment explanation
Indices: 15122287--15122384 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 40
15122277 GCGTTTGGAT
* **
15122287 AAAAATGCCGCTAAAAATCGAGCATTAGCAAAGCTTTTTG
1 AAAAACGCCGCTAAAAATCGAAAATTAGCAAAGCTTTTTG
* ***
15122327 AAAAACGCCGCTAAAGATCGAAAATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAAAATCGAAAATTAGCAAAGCTTTTTG
** *
15122367 GTAAACGCCGCTAGAAAT
1 AAAAACGCCGCTAAAAAT
15122385 GAGCACTAGC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAAAATTAGCAAAGCTTTTTG
Found at i:15122530 original size:41 final size:40
Alignment explanation
Indices: 15122459--15122741 Score: 268
Period size: 40 Copynumber: 7.0 Consensus size: 40
15122449 AACCTTTCGG
* *
15122459 GGATTTAGCGACGTTTTTTGAAAAAGCGCCGCTAATGATCAA
1 GGATTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTC-A
*
15122501 GGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGTTCA
1 GGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * * * *
15122541 GGGCTTTGGCGGCGTATTTAAAAAAGCGCCGCTAATGCTCC
1 -GGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * * *
15122582 GTGATTTAGCGGCATTTTT-AAAAAACACTGCTAATGCTTC-
1 G-GATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC-TCA
* * * * *
15122622 GTGCTTTAGCGTCGTTTTTAAAAAAGTGCCGCTAATGCTCG
1 G-GATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
15122663 GGAATTAGCGGCGTTTTTGAAAAAGCGTCG-TGAATGCTCTA
1 GGATTTAGCGGCGTTTTTGAAAAAGCGCCGCT-AATGCTC-A
** *
15122704 -TTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
15122742 GATCTTTAGT
Statistics
Matches: 199, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 96 0.48
41 90 0.45
42 12 0.06
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (40 bp):
GGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:15122616 original size:40 final size:41
Alignment explanation
Indices: 15122458--15122773 Score: 264
Period size: 40 Copynumber: 7.8 Consensus size: 41
15122448 TAACCTTTCG
* * * *
15122458 GGGATTTAGCGACGTTTTTTGAAAAAGCGCCGCTAATGATCA
1 GGGATTTAGCGGCG-TTTTTAAAAAAGCGCCGCTAATGCTCC
* * * *
15122500 AGGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGTTCA
1 GGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCC
* * *
15122541 GGGCTTTGGCGGCGTATTTAAAAAAGCGCCGCTAATGCTCC
1 GGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCC
* * * * *
15122582 GTGATTTAGCGGCATTTTTAAAAAA-CACTGCTAATGCTTC
1 GGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCC
* * * *
15122622 GTGCTTTAGCGTCGTTTTTAAAAAAGTGCCGCTAATGCT-C
1 GGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCC
* * *
15122662 GGGAATTAGCGGCGTTTTTGAAAAAGCGTCG-TGAATGCT-C
1 GGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCT-AATGCTCC
**** * *
15122702 TATTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT-C
1 GGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCC
*** * * *
15122742 GATCTTTAGTGACATTTTTAAAAAAGCGCCGC
1 GGGATTTAGCGGCGTTTTTAAAAAAGCGCCGC
15122774 AAAAATAATT
Statistics
Matches: 226, Mismatches: 45, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.00
40 122 0.54
41 91 0.40
42 12 0.05
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
GGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCC
Found at i:15122699 original size:81 final size:81
Alignment explanation
Indices: 15122462--15122742 Score: 270
Period size: 81 Copynumber: 3.5 Consensus size: 81
15122452 CTTTCGGGGA
* * * *
15122462 TTTAGCGACGTTTTTTGAAAAAGCGCCGCTAATGATCAAGGATTTAGCGGCGTTTTTGAAAAAGC
1 TTTAGCGGCG-TTTTTAAAAAAGCGCCGCTAATGCTC-GGGATTTAGCGGCGTTTTTGAAAAAGC
* *
15122527 GCCGCT-AATG-TTCAGGGC
64 GACG-TGAATGCTTC-GTGC
* * * * *
15122545 TTTGGCGGCGTATTTAAAAAAGCGCCGCTAATGCTCCGTGATTTAGCGGCATTTTT-AAAAAAC-
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCT-CGGGATTTAGCGGCGTTTTTGAAAAAGCG
15122608 AC-TGCTAATGCTTCGTGC
65 ACGTG--AATGCTTCGTGC
* * * *
15122626 TTTAGCGTCGTTTTTAAAAAAGTGCCGCTAATGCTCGGGAATTAGCGGCGTTTTTGAAAAAGCGT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGATTTAGCGGCGTTTTTGAAAAAGCGA
**
15122691 CGTGAATGC-TC-TATT
66 CGTGAATGCTTCGT-GC
* *
15122706 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCG
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCG
15122743 ATCTTTAGTG
Statistics
Matches: 163, Mismatches: 26, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
78 1 0.01
79 1 0.01
80 53 0.33
81 55 0.34
82 42 0.26
83 11 0.07
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (81 bp):
TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGATTTAGCGGCGTTTTTGAAAAAGCGA
CGTGAATGCTTCGTGC
Found at i:15123259 original size:14 final size:15
Alignment explanation
Indices: 15123225--15123253 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15123215 TTATGGTATA
15123225 AAGGG-TTGGGATTT
1 AAGGGTTTGGGATTT
15123239 AAGGGTTTGGGATTT
1 AAGGGTTTGGGATTT
15123254 GGGGTTAGAC
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:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
AAGGGTTTGGGATTT
Found at i:15123343 original size:281 final size:290
Alignment explanation
Indices: 15123002--15123700 Score: 911
Period size: 281 Copynumber: 2.4 Consensus size: 290
15122992 AGACGTTAGG
* * *
15123002 TTTAAGAG-TTAGGAATTCAGGGGTC-GAGTTAGGGTTTTGGGTTTAAATTAATTAGTTTTTTTA
1 TTTAAG-GTTTAGGGATTCAGGGGTCAG-GTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTTA
*
15123065 ATTTCTATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTT
64 ATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTT
15123130 TTGGTTTAGGATATATGATTAATTTAAGATTTAAAGCCAGTATAGGAGTTACTATTTTAAGGTTT
129 TTGGTTTAGGATATATGATTAATTTAAGATTTAAAGCCAGTATAGGAGTTACTATTTTAAGGTTT
*
15123195 AGGTGA-TATGGATTTAGGGATTATGG-TAT-A-AAGG-GT-TGG-GATTTAAGGGTTTGGG-A-
194 AGG-GAGTATGGATTTAGGGATTATGGATATGATAAGGAGTATGGTGATTTAAAGG-TTGGGTAG
* *
15123251 TTT-GGGGTTAGACATTAGGGGTTAAGAATATGA
257 TTTAGGGGTTAGAAATTAAGGGTTAAGAATATGA
*
15123284 TTT-AGGTTTAGGGATTCAGGGGTCAGGTTAGGGTTTTAGGTTTAGATTAATTTGTTTTTTTAAT
1 TTTAAGGTTTAGGGATTCAGGGGTCAGGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTTAAT
* * * *
15123348 TTATACTTTAAATATTTTATTATATAATTATAAAAGAGATAATAATAAATTTGTTTAGGGTTTTT
66 TTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTT
* * * * * * *
15123413 GGTTTAGGGTATTTGATTAATTTAATATTTAAGGCCGGTTTAGGAGTTACTATTTTAAGGTTTAT
131 GGTTTAGGATATATGATTAATTTAAGATTTAAAGCCAGTATAGGAGTTACTATTTTAAGGTTTAG
* * *
15123478 GGAGTATGGATTTAGGGATTATGGATTATGGATTATGGATTATGGTTTACGGTTTAAAGGTTGGG
196 GGAGTATGGATTTAGGGATTATGGA-TAT-GA-TAAGGAGTATGG--T--GATTTAAAGGTTGGG
15123543 ATTTAAGGTTTAGGGGTTAGAAATTAAGGGTTAAGAATATGA
254 ---T-A-GTTTAGGGGTTAGAAATTAAGGGTTAAGAATATGA
* * * *
15123585 TTTAAGGTTTAAGGATTGACGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTTAAT
1 TTTAAGGTTTAGGGATTCAGGGGTCAGGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTTAAT
* *
15123650 TTATATTTTAAATCTGTTCTTATATAATTGTAAAAGGGATAATAATAAATT
66 TTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATT
15123701 GAATATATTG
Statistics
Matches: 359, Mismatches: 33, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
280 3 0.01
281 192 0.53
282 4 0.01
283 3 0.01
285 1 0.00
287 3 0.01
288 1 0.00
289 3 0.01
293 5 0.01
294 8 0.02
298 1 0.00
300 3 0.01
301 31 0.09
302 101 0.28
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (290 bp):
TTTAAGGTTTAGGGATTCAGGGGTCAGGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTTAAT
TTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTT
GGTTTAGGATATATGATTAATTTAAGATTTAAAGCCAGTATAGGAGTTACTATTTTAAGGTTTAG
GGAGTATGGATTTAGGGATTATGGATATGATAAGGAGTATGGTGATTTAAAGGTTGGGTAGTTTA
GGGGTTAGAAATTAAGGGTTAAGAATATGA
Found at i:15123485 original size:7 final size:7
Alignment explanation
Indices: 15123474--15123522 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
15123464 ATTTTAAGGT
15123474 TTATGGA
1 TTATGGA
*
15123481 GTATGGA
1 TTATGGA
*
15123488 TTTAGGGA
1 -TTATGGA
15123496 TTATGGA
1 TTATGGA
15123503 TTATGGA
1 TTATGGA
15123510 TTATGGA
1 TTATGGA
15123517 TTATGG
1 TTATGG
15123523 TTTACGGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.41
Consensus pattern (7 bp):
TTATGGA
Found at i:15123491 original size:22 final size:22
Alignment explanation
Indices: 15123466--15123522 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
15123456 GAGTTACTAT
*
15123466 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGATTATGGAGTATGGA
* *
15123488 TTTAGGGATTATGGATTATGGA
1 TTTAAGGATTATGGAGTATGGA
*
15123510 -TTATGGATTATGG
1 TTTAAGGATTATGG
15123523 TTTACGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (22 bp):
TTTAAGGATTATGGAGTATGGA
Found at i:15123973 original size:112 final size:113
Alignment explanation
Indices: 15123776--15124000 Score: 443
Period size: 112 Copynumber: 2.0 Consensus size: 113
15123766 TATATTGAAT
15123776 GGTTAATTTAGGATTTAAGGTTAATTAAGTGTTTAGTACTTGAGATTTGTTAAATGATAAAATTT
1 GGTTAATTTAGGATTTAAGGTTAATTAAGTGTTTAGTACTTGAGATTTGTTAAATGATAAAATTT
15123841 TATACTATTAATTAATGCTTTTATATTTAAAAAAA-TTAATCTAAACC
66 TATACTATTAATTAATGCTTTTATATTTAAAAAAATTTAATCTAAACC
15123888 GGTTAATTTAGGATTTAAGGTTAATTAAGTGTTTAGTACTTGAGATTTGTTAAATGATAAAATTT
1 GGTTAATTTAGGATTTAAGGTTAATTAAGTGTTTAGTACTTGAGATTTGTTAAATGATAAAATTT
15123953 TATACTATTAATTAATGCTTTTATATTTAAAAAAATTTAATCTAAACC
66 TATACTATTAATTAATGCTTTTATATTTAAAAAAATTTAATCTAAACC
15124001 ATTTGATATA
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
112 100 0.89
113 12 0.11
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.44
Consensus pattern (113 bp):
GGTTAATTTAGGATTTAAGGTTAATTAAGTGTTTAGTACTTGAGATTTGTTAAATGATAAAATTT
TATACTATTAATTAATGCTTTTATATTTAAAAAAATTTAATCTAAACC
Found at i:15124482 original size:83 final size:83
Alignment explanation
Indices: 15124379--15124533 Score: 181
Period size: 83 Copynumber: 1.9 Consensus size: 83
15124369 CTTCAGGACT
* * * *
15124379 TTAAATTTTAGTGGCGTTTTTGC-GAAAAACGCCG-AAAC-TATGGATTAAAATTTCTTAAAATG
1 TTAAATTTTAGTGACATTTTTACTG-AAAACGCCGCAAACATAT--ATTAAAAGTTCTTAAAATG
15124441 GCGCCGTTTCTATTCAGTAAG
63 GCGCCGTTTCTATTCAGTAAG
* * * *
15124462 TTAATTTTTAGTGACATTTTTACTGAAAACGCTGCAAACATATATTGAAGGTTCTTAAAATGGCG
1 TTAAATTTTAGTGACATTTTTACTGAAAACGCCGCAAACATATATTAAAAGTTCTTAAAATGGCG
*
15124527 CTGTTTC
66 CCGTTTC
15124534 AGAATTTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
83 52 0.87
84 5 0.08
85 3 0.05
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (83 bp):
TTAAATTTTAGTGACATTTTTACTGAAAACGCCGCAAACATATATTAAAAGTTCTTAAAATGGCG
CCGTTTCTATTCAGTAAG
Found at i:15128531 original size:43 final size:43
Alignment explanation
Indices: 15128299--15128523 Score: 240
Period size: 43 Copynumber: 5.3 Consensus size: 43
15128289 ATATATTTTT
* * * *
15128299 TAAAAGTCATG-TTTTTAGCGGCGTTTGT-GAAAAAGCGCCGG
1 TAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* ** * *
15128340 TAAAAGTCGTTCTTTATAGCGGCGTTTGT-GAAAGAAGCGCCGC
1 TAAAAGTCATGATCTATAGCGGCGTTTGTGGGAA-AAGCGCCGC
* *
15128383 TAAAACTCATGATCTATAGCGGCGTTTGTGGCAAAAGCGCCGC
1 TAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* ** *
15128426 TAAAAGTCGTGATCTATAGCAACGTTTGTGGGAAAAGCGTCGC
1 TAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * *
15128469 TAAAGGTCATGATCTTTAGCGGTGTTTATGGGAAAAGCGCCGC
1 TAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
*
15128512 TAAAGGTCATGA
1 TAAAAGTCATGA
15128524 CTTTTAGCAG
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
41 9 0.06
42 20 0.13
43 125 0.80
44 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (43 bp):
TAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:15132109 original size:30 final size:30
Alignment explanation
Indices: 15132075--15132137 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
15132065 TTTCTTAGGG
15132075 TTTTAGATTTATTTCAATTGTTCTTGTTGA
1 TTTTAGATTTATTTCAATTGTTCTTGTTGA
15132105 TTTTAGATTTATTTCAATTGTTCTTGTTGA
1 TTTTAGATTTATTTCAATTGTTCTTGTTGA
15132135 TTT
1 TTT
15132138 CAAGAGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.62
Consensus pattern (30 bp):
TTTTAGATTTATTTCAATTGTTCTTGTTGA
Found at i:15132380 original size:19 final size:19
Alignment explanation
Indices: 15132356--15132394 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15132346 CTGTTTGGGG
15132356 AAGGAAGAACGTGAAACAA
1 AAGGAAGAACGTGAAACAA
15132375 AAGGAAGAACGTGAAACAA
1 AAGGAAGAACGTGAAACAA
15132394 A
1 A
15132395 CCCTAGGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.26, T:0.05
Consensus pattern (19 bp):
AAGGAAGAACGTGAAACAA
Found at i:15138413 original size:31 final size:31
Alignment explanation
Indices: 15138375--15138438 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
15138365 CCAGTCTTAG
*
15138375 TAGGAAGACCCTTTTTGGCTACTTCTAGGTC
1 TAGGAAGACCCTTTTCGGCTACTTCTAGGTC
15138406 TAGGAAGACCCTTTTCGGCTACTTCTAGGTC
1 TAGGAAGACCCTTTTCGGCTACTTCTAGGTC
15138437 TA
1 TA
15138439 CCATTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (31 bp):
TAGGAAGACCCTTTTCGGCTACTTCTAGGTC
Found at i:15138586 original size:32 final size:32
Alignment explanation
Indices: 15138550--15138613 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15138540 TTAAGAGAAT
15138550 AGTGTAAAAAAGTATTTATTTCTAACATTCCC
1 AGTGTAAAAAAGTATTTATTTCTAACATTCCC
*
15138582 AGTGTAAAAAAGTATTTATTTTTAACATTCCC
1 AGTGTAAAAAAGTATTTATTTCTAACATTCCC
15138614 GAATCAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (32 bp):
AGTGTAAAAAAGTATTTATTTCTAACATTCCC
Found at i:15143889 original size:42 final size:42
Alignment explanation
Indices: 15143843--15144047 Score: 214
Period size: 42 Copynumber: 4.9 Consensus size: 42
15143833 AGTACACAAT
*
15143843 TGCATCATCGGATGAACCAAAGCAAATATACTGGCATGTAAG
1 TGCATCATCGGATGAACCAAAGCAAATATACTGGCACGTAAG
* * *** * *
15143885 TGCATAATTGGATGAATTGAAGCAAATATATTGGCATGTAAG
1 TGCATCATCGGATGAACCAAAGCAAATATACTGGCACGTAAG
* ** * *
15143927 TTCATCATTAGATGAACCAGAGCAAATATACTGGCACGTAAA
1 TGCATCATCGGATGAACCAAAGCAAATATACTGGCACGTAAG
* * * *
15143969 TGCATCATCGGATAAACCAAATCAAACATACTGGCACATAAG
1 TGCATCATCGGATGAACCAAAGCAAATATACTGGCACGTAAG
* * *
15144011 TGCATCATCGAAT-AAGCCAAAGTAAATATACTAGCAC
1 TGCATCATCGGATGAA-CCAAAGCAAATATACTGGCAC
15144048 AAGTAGTGAA
Statistics
Matches: 132, Mismatches: 30, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
41 2 0.02
42 130 0.98
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (42 bp):
TGCATCATCGGATGAACCAAAGCAAATATACTGGCACGTAAG
Found at i:15146278 original size:41 final size:41
Alignment explanation
Indices: 15146214--15146341 Score: 141
Period size: 41 Copynumber: 3.0 Consensus size: 41
15146204 TCTTACATGT
* *
15146214 AATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACACA
1 AATCAAATA-CGATGCCAATGTCCCAGACAGGGTCTTACACA
* *
15146256 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACG
1 AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACA
* * * *
15146297 TATACACAATTCGATGCCAACGTCCCAGGC-GTGGTCTTACACA
1 AAT-CA-AATACGATGCCAATGTCCCAGACAG-GGTCTTACACA
15146340 AA
1 AA
15146342 AATACATATC
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 31 0.43
42 10 0.14
43 31 0.43
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (41 bp):
AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACA
Found at i:15146324 original size:84 final size:84
Alignment explanation
Indices: 15146183--15146341 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
15146173 GGCTCGTACA
** *
15146183 ATGCCAACGTCCAAGATGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGAC-GTGG
15146247 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
* * *
15146267 ATGCCAATGTCCCAGACATGGTCTTACACGT-ATACACA-ATTCGATGCCAAC-GTCCCAGGCGT
1 ATGCCAACGTCCAAGACATGGTCTTACACGTAAT-CACATA-TCGATGCC-ACTGTCCCAGACGT
15146329 GGTCTTACACAAA
63 GGTCTTACACAAA
15146342 AATACATATC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
83 4 0.06
84 59 0.91
85 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (84 bp):
ATGCCAACGTCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACAAATCAAATACG
Found at i:15146338 original size:43 final size:43
Alignment explanation
Indices: 15146183--15146338 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
15146173 GGCTCGTACA
* * *
15146183 ATGCCAACGTCCAAGATGTGGTCTTACATGTA-ATCAC-ATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACAAT-TCG
** *
15146226 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAATTCG
* *
15146267 ATGCCAATGTCCCAGACATGGTCTTACACGTATACACAATTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATTCG
*
15146310 ATGCCAACGTCCCAGGCGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
15146339 AAAAATACAT
Statistics
Matches: 91, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
41 28 0.31
42 9 0.10
43 53 0.58
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATTCG
Found at i:15149378 original size:55 final size:55
Alignment explanation
Indices: 15149294--15149403 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
15149284 TCTACAATGG
15149294 TTTAAATAGGAGTGAGTAAGCTTAACAAGTTCAGTGAATGTTCAGAAAAACTATC
1 TTTAAATAGGAGTGAGTAAGCTTAACAAGTTCAGTGAATGTTCAGAAAAACTATC
* *
15149349 TTTAAATAGGAGTGGGTAAGCTTAACAAGTTCAGTGAATGTTTAGAAAAACTATC
1 TTTAAATAGGAGTGAGTAAGCTTAACAAGTTCAGTGAATGTTCAGAAAAACTATC
15149404 ATGCAAACGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (55 bp):
TTTAAATAGGAGTGAGTAAGCTTAACAAGTTCAGTGAATGTTCAGAAAAACTATC
Found at i:15156902 original size:56 final size:56
Alignment explanation
Indices: 15156820--15156932 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
15156810 TAAGCCTACC
*
15156820 TGTCCAAAAAGACATCTAATTCTTTAAACTAAATAATAAACTGAAACAATAAAATA
1 TGTCCAAAAAGACATCTAATTCTTTAAACTAAATAACAAACTGAAACAATAAAATA
* **
15156876 TGTCCAAAAAGATATCTAATAT-TTTAAACTAAATAACAAACTGAAATGATAAAATA
1 TGTCCAAAAAGACATCTAAT-TCTTTAAACTAAATAACAAACTGAAACAATAAAATA
15156932 T
1 T
15156933 TATAATAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 51 0.98
57 1 0.02
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (56 bp):
TGTCCAAAAAGACATCTAATTCTTTAAACTAAATAACAAACTGAAACAATAAAATA
Done.