Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold121
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: 1076282
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 28062 characters in sequence are not A, C, G, or T
File 7 of 8
Found at i:865137 original size:14 final size:15
Alignment explanation
Indices: 865110--865139 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
865100 ATTCATATTT
865110 TTTATTTAATTAATA
1 TTTATTTAATTAATA
865125 TTTATTT-ATTAATA
1 TTTATTTAATTAATA
865139 T
1 T
865140 AATTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTATTTAATTAATA
Found at i:865329 original size:13 final size:14
Alignment explanation
Indices: 865306--865342 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
865296 ACGTGATAAA
865306 ATAATAATATTTTG
1 ATAATAATATTTTG
865320 ATAA-AATATTTT-
1 ATAATAATATTTTG
*
865332 AAAATAATATT
1 ATAATAATATT
865343 ATTTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 14 0.67
14 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
ATAATAATATTTTG
Found at i:865356 original size:26 final size:29
Alignment explanation
Indices: 865302--865368 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
865292 TTTTACGTGA
865302 TAAAATAATAATATTTTGATAAAATATTT
1 TAAAATAATAATATTTTGATAAAATATTT
* * *
865331 TAAAATAATATTATTTTAAT-AAATTTTT
1 TAAAATAATAATATTTTGATAAAATATTT
865359 TAAAA-AATAA
1 TAAAATAATAA
865369 GGTACTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 4 0.12
28 12 0.35
29 18 0.53
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
TAAAATAATAATATTTTGATAAAATATTT
Found at i:866273 original size:18 final size:19
Alignment explanation
Indices: 866233--866276 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
866223 ATATTATTTT
*
866233 TAAATATTAAATAAAAATT
1 TAAATATTAAATAAAAATA
*
866252 TAAAT-TTAAATAAATATA
1 TAAATATTAAATAAAAATA
866270 TAAATAT
1 TAAATAT
866277 CCAAATCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATATTAAATAAAAATA
Found at i:868289 original size:3 final size:3
Alignment explanation
Indices: 868281--868312 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
868271 TTAAACAAAG
868281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
868313 AGCCTTGTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:868604 original size:2 final size:2
Alignment explanation
Indices: 868597--868647 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
868587 ACAATGAAGA
868597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
868639 AT AT AT AT A
1 AT AT AT AT A
868648 AAGCAAGTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:869362 original size:29 final size:29
Alignment explanation
Indices: 869325--869422 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 29
869315 CTTAGATATG
*
869325 TTTAAATTTTAATTTATAATTAAATAAATT
1 TTTAACTTTTAATTTAT-ATTAAATAAATT
* * * **
869355 TTTAATTTTTAATTTATATAAAACAAACG
1 TTTAACTTTTAATTTATATTAAATAAATT
*
869384 TTTAACTTATAATTTTATTATTAAAT-AATT
1 TTTAACTTTTAA-TTTA-TATTAAATAAATT
869414 TTT-ACTTTT
1 TTTAACTTTT
869423 TTATATCTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
29 23 0.43
30 25 0.46
31 6 0.11
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (29 bp):
TTTAACTTTTAATTTATATTAAATAAATT
Found at i:872120 original size:36 final size:43
Alignment explanation
Indices: 872037--872128 Score: 110
Period size: 41 Copynumber: 2.3 Consensus size: 43
872027 GCAGTTCTTT
872037 TATTTAGATATTTAAATTGATATTTAATACATGTATCATATTCA
1 TATTTA-ATATTTAAATTGATATTTAATACATGTATCATATTCA
*
872081 TATTTAATATTTTAA-T-ATATTTAATA-AT-T-T-ATATT-A
1 TATTTAATATTTAAATTGATATTTAATACATGTATCATATTCA
872117 TATTT-ATATTTA
1 TATTTAATATTTA
872129 TATGATTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
35 6 0.13
36 6 0.13
37 5 0.11
38 1 0.02
39 1 0.02
40 2 0.04
41 10 0.22
42 1 0.02
43 8 0.17
44 6 0.13
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (43 bp):
TATTTAATATTTAAATTGATATTTAATACATGTATCATATTCA
Found at i:872125 original size:6 final size:6
Alignment explanation
Indices: 872074--872131 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
872064 TACATGTATC
* *
872074 ATATTC ATATTT AATATTT -TA-AT ATATTT AATAATTT ATA-TT ATATTT
1 ATATTT ATATTT -ATATTT ATATTT ATATTT -AT-ATTT ATATTT ATATTT
872122 ATATTT ATAT
1 ATATTT ATAT
872132 GATTAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
4 1 0.02
5 9 0.21
6 19 0.44
7 10 0.23
8 4 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (6 bp):
ATATTT
Found at i:872131 original size:17 final size:18
Alignment explanation
Indices: 872037--872131 Score: 77
Period size: 17 Copynumber: 4.9 Consensus size: 18
872027 GCAGTTCTTT
*
872037 TATTTAGATATTTAAATTGA
1 TATTTA-ATATTTATATT-A
872057 TATTTAATACATGTATCATATTCA
1 TATTTAAT--AT-T-T-ATATT-A
*
872081 TATTTAATATTT-TAATA
1 TATTTAATATTTATATTA
872098 TATTTAATAATTTATATTA
1 TATTTAAT-ATTTATATTA
872117 TATTT-ATATTTATAT
1 TATTTAATATTTATAT
872132 GATTAATAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
17 17 0.27
18 9 0.14
19 11 0.17
20 7 0.11
21 3 0.05
22 3 0.05
23 1 0.02
24 13 0.20
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
TATTTAATATTTATATTA
Found at i:872801 original size:2 final size:2
Alignment explanation
Indices: 872794--872829 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
872784 ATTTAGCAAA
872794 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
872830 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:872834 original size:2 final size:2
Alignment explanation
Indices: 872829--872855 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
872819 TCTCTCTCTC
872829 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
872856 CCTCAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:875542 original size:2 final size:2
Alignment explanation
Indices: 875537--875561 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
875527 AAAAAAACCT
875537 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
875562 TTGAGTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:876733 original size:16 final size:16
Alignment explanation
Indices: 876712--876750 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
876702 AAAAAATTAT
876712 TATCAGAGTACATGTA
1 TATCAGAGTACATGTA
876728 TATCAGAGTACATGTA
1 TATCAGAGTACATGTA
876744 TATCAGA
1 TATCAGA
876751 TTTGAGCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (16 bp):
TATCAGAGTACATGTA
Found at i:877611 original size:34 final size:34
Alignment explanation
Indices: 877566--877749 Score: 255
Period size: 34 Copynumber: 5.4 Consensus size: 34
877556 TAAAAACCAA
*
877566 CATTTAATCAACAATGGCAACCTACCAAATCTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* *
877600 CATTTAGTCAACAATGGTAAACC-ACCAAATCACC
1 CATTTAATCAACAATGGT-AACCTACCAAATCTCC
* *
877634 CATTTAATCAATAATGGTAAGCTACCAAATCTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* *
877668 CATTTAATCAACAATGGTAAGCTACCAAATTTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* * *
877702 CATTTAGTCAACAATGGTAAACTACCAAATC-AC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
877735 CATTTAATCAACAAT
1 CATTTAATCAACAAT
877750 TCTCCCACTT
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.13
34 112 0.84
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CATTTAATCAACAATGGTAACCTACCAAATCTCC
Found at i:881842 original size:19 final size:19
Alignment explanation
Indices: 881815--881877 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
881805 TCACGTGTAC
* *
881815 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
881834 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
**
881853 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
881872 AGTACC
1 AGTACC
881878 TCGACAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:882229 original size:34 final size:34
Alignment explanation
Indices: 882184--882365 Score: 251
Period size: 34 Copynumber: 5.4 Consensus size: 34
882174 TAAAAACCAA
*
882184 CATTTAATCAACAATGGCAACCTACCAAATCTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* *
882218 CATTTAGTCAACAATGGTAAACC-ACCAAATCACC
1 CATTTAATCAACAATGGT-AACCTACCAAATCTCC
* *
882252 CATTTAATCAATAATGGTAAGCTACCAAATCTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* *
882286 CATTTAATCAACAATGGTAAGCTACCAAATTTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* * *
882320 CATTTAGTCAACAATGGTAAACTACCAAATC-AC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
882353 CATTTAATCAACA
1 CATTTAATCAACA
882366 TGACTCACAG
Statistics
Matches: 132, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
33 16 0.12
34 112 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CATTTAATCAACAATGGTAACCTACCAAATCTCC
Found at i:883523 original size:2 final size:2
Alignment explanation
Indices: 883516--883558 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
883506 AGGAAAAATG
*
883516 TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
883558 T
1 T
883559 TCAAACATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:883855 original size:2 final size:2
Alignment explanation
Indices: 883848--883876 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
883838 ATGAGATCAG
883848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
883877 ATCACTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:886271 original size:22 final size:22
Alignment explanation
Indices: 886246--886290 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
886236 AATATTATTT
886246 TAAAAAATTAAAAAAATAAAAA
1 TAAAAAATTAAAAAAATAAAAA
* * * *
886268 TAAATATTTAAAATAGTAAAAA
1 TAAAAAATTAAAAAAATAAAAA
886290 T
1 T
886291 TTAAAAATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAAAAATTAAAAAAATAAAAA
Found at i:887400 original size:21 final size:22
Alignment explanation
Indices: 887374--887432 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
887364 TTAATAATTT
*
887374 TAAAAATAATATAAATATGATA
1 TAAAAATAATATAAATATGACA
*
887396 TAAAAA-ATTA-ATAATATGACA
1 TAAAAATAATATA-AATATGACA
887417 TAAAATATAATATAAA
1 TAAAA-ATAATATAAA
887433 AAATAATTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.03
21 16 0.53
22 7 0.23
23 5 0.17
24 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (22 bp):
TAAAAATAATATAAATATGACA
Found at i:887437 original size:14 final size:14
Alignment explanation
Indices: 887386--887437 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
887376 AAAATAATAT
*
887386 AAATATGATATAAA
1 AAATATAATATAAA
887400 AAATTAATAATATGACATA
1 AAA-T-ATAATAT-A-A-A
887419 AAATATAATATAAA
1 AAATATAATATAAA
887433 AAATA
1 AAATA
887438 ATTCGAATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
16 7 0.22
17 8 0.25
18 2 0.06
19 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (14 bp):
AAATATAATATAAA
Found at i:887514 original size:37 final size:38
Alignment explanation
Indices: 887455--887546 Score: 91
Period size: 37 Copynumber: 2.4 Consensus size: 38
887445 TACAATGTAA
*
887455 ATATATAAATATATTAAAATTATATTATTAACAT-ATTA-AAT
1 ATATATAAATATA-T--AATTAT-TT-TAAACATAATTATAAT
*
887496 ATATATAAATATAT-ATTATTTTAAATATAATTATAAT
1 ATATATAAATATATAATTATTTTAAACATAATTATAAT
*
887533 ATATAAAAATATAT
1 ATATATAAATATAT
887547 GAATATAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
35 5 0.11
36 6 0.13
37 21 0.46
40 1 0.02
41 13 0.28
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (38 bp):
ATATATAAATATATAATTATTTTAAACATAATTATAAT
Found at i:887570 original size:35 final size:34
Alignment explanation
Indices: 887494--887571 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
887484 AACATATTAA
* * * *
887494 ATATATATAAATATATATTATTTTAAATATAATT
1 ATATATATAAAAATATATGAATATAAATATAATT
887528 ATAATATATAAAAATATATGAATAT-AATATAAATTT
1 AT-ATATATAAAAATATATGAATATAAATAT-AA-TT
887564 ATATATAT
1 ATATATAT
887572 TATTAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 7 0.19
35 26 0.70
36 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (34 bp):
ATATATATAAAAATATATGAATATAAATATAATT
Found at i:888119 original size:18 final size:16
Alignment explanation
Indices: 888087--888118 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
888077 AATAAAAAAT
888087 AAAATTTTTATTTTTA
1 AAAATTTTTATTTTTA
888103 AAAATATTTTATTTTT
1 AAAAT-TTTTATTTTT
888119 TTAAGCTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AAAATTTTTATTTTTA
Found at i:889132 original size:28 final size:28
Alignment explanation
Indices: 889069--889132 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
889059 TAAATCATTA
*
889069 TAATAAATTATATAAAAATAAAATAAAT
1 TAATAAATAATATAAAAATAAAATAAAT
* * *
889097 TAAAAAATAATATAAATATAATATAAA-
1 TAATAAATAATATAAAAATAAAATAAAT
889124 TACATAAAT
1 TA-ATAAAT
889133 TTTTTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
TAATAAATAATATAAAAATAAAATAAAT
Found at i:889143 original size:83 final size:84
Alignment explanation
Indices: 889010--889167 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 84
889000 TAAGAAGTAT
* * * *
889010 AATTAAAATATAATATAAAAAATAACATAAATATATAAATTTTTTTAATTAAATCATTATAATAA
1 AATTAAAAAATAATATAAAAAATAACATAAATACATAAATTTTTTAAATTAAATCATTATAACAA
889075 ATTATATAAAAATAAAATA
66 ATTATATAAAAATAAAATA
* * * *
889094 AATTAAAAAATAATAT-AAATATAATATAAATACATAAATTTTTTAAATTATATTATTATAACAA
1 AATTAAAAAATAATATAAAAAATAACATAAATACATAAATTTTTTAAATTAAATCATTATAACAA
*
889158 ATTATTTAAA
66 ATTATATAAA
889168 CGTTGAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
83 50 0.77
84 15 0.23
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (84 bp):
AATTAAAAAATAATATAAAAAATAACATAAATACATAAATTTTTTAAATTAAATCATTATAACAA
ATTATATAAAAATAAAATA
Found at i:892497 original size:14 final size:14
Alignment explanation
Indices: 892478--892510 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
892468 TTAACAGTAA
892478 AAAATT-ATATAAAT
1 AAAATTAATA-AAAT
892492 AAAATTAATAAAAT
1 AAAATTAATAAAAT
892506 AAAAT
1 AAAAT
892511 ATCTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATTAATAAAAT
Found at i:892957 original size:15 final size:14
Alignment explanation
Indices: 892925--892966 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
892915 TTAAAAAATT
*
892925 TAAATTTA-AAAAA
1 TAAATTTATATAAA
892938 TAAATTTATATAAA
1 TAAATTTATATAAA
*
892952 TAAAATTTATTTAAA
1 T-AAATTTATATAAA
892967 AATAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATTTATATAAA
Found at i:893092 original size:13 final size:15
Alignment explanation
Indices: 893069--893109 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
893059 TATGTAAATT
*
893069 TATATTATATAA-AA
1 TATAATATATAATAA
893083 TA-AATATATAATAA
1 TATAATATATAATAA
893097 TATAATATA-AATA
1 TATAATATATAATA
893110 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 8 0.33
14 10 0.42
15 6 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAATATATAATAA
Found at i:893120 original size:21 final size:21
Alignment explanation
Indices: 893075--893116 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
893065 AATTTATATT
*
893075 ATATAAAATAAATATATAATA
1 ATATAAAATAAATATATAAAA
*
893096 ATATAATATAAATAT-TAAAA
1 ATATAAAATAAATATATAAAA
893116 A
1 A
893117 ATATGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAAATAAATATATAAAA
Found at i:893212 original size:20 final size:19
Alignment explanation
Indices: 893159--893213 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
893149 AATTTTAAAA
893159 ATATATAATATAAATTAAT
1 ATATATAATATAAATTAAT
* * *
893178 ATAAATAAATTTAAATTATTT
1 ATATAT-AATATAAATTA-AT
*
893199 ATTTATAATATAAAT
1 ATATATAATATAAAT
893214 AAACTTAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 5 0.18
20 18 0.64
21 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATAATATAAATTAAT
Found at i:893222 original size:65 final size:70
Alignment explanation
Indices: 893083--893222 Score: 152
Period size: 66 Copynumber: 2.1 Consensus size: 70
893073 TTATATAAAA
* *
893083 TAAATATATAATAATATAATATAAATATTAAAAAATATGATAAATTATTTATATTATCAAAAATT
1 TAAAAATATAATAATATAATATAAATATTAAAAAATAT-ATAAATTATTTATATTATCAAAAAAT
*
893148 AAATTT
65 AAATCT
*
893154 TAAAAATAT-ATAATATAA-ATTAATA-TAAATAAAT-T-TAAATTATTTAT-TTAT-AATATAA
1 TAAAAATATAATAATATAATATAAATATTAAA-AAATATATAAATTATTTATATTATCAA-A-AA
893212 ATAAA-CT
63 ATAAATCT
893219 TAAA
1 TAAA
893223 TATTATTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
64 2 0.03
65 10 0.16
66 18 0.29
68 5 0.08
69 10 0.16
70 9 0.15
71 8 0.13
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (70 bp):
TAAAAATATAATAATATAATATAAATATTAAAAAATATATAAATTATTTATATTATCAAAAAATA
AATCT
Found at i:899753 original size:21 final size:21
Alignment explanation
Indices: 899695--899782 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 21
899685 CCGACCGTGA
899695 TATATATAAATTTT-TTATATAT
1 TATAT-TAAATTTTATTATAT-T
* *
899717 TAATAATT-TATGTTATTATATT
1 T-AT-ATTAAATTTTATTATATT
899739 TATATTAAATTTTATTATATATT
1 TATATTAAATTTTA-T-TATATT
* *
899762 TATATAAAATTTTAATATATT
1 TATATTAAATTTTATTATATT
899783 AATGATTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
20 3 0.06
21 13 0.24
22 8 0.15
23 28 0.52
24 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TATATTAAATTTTATTATATT
Found at i:899762 original size:12 final size:12
Alignment explanation
Indices: 899699--899886 Score: 70
Period size: 12 Copynumber: 16.8 Consensus size: 12
899689 CCGTGATATA
*
899699 TATAAATTTT-T
1 TATATATTTTAT
*
899710 TATATA-TTAAT
1 TATATATTTTAT
* * *
899721 AATTTATGTTAT
1 TATATATTTTAT
*
899733 TATAT-TTATAT
1 TATATATTTTAT
899744 TA-A-ATTTTAT
1 TATATATTTTAT
899754 TATATA-TTTA-
1 TATATATTTTAT
*
899764 TATAAAATTTTA-
1 TAT-ATATTTTAT
*
899776 -ATATA-TTAAT
1 TATATATTTTAT
* * *
899786 GATTTATATTA-
1 TATATATTTTAT
*
899797 TATATATTTTAA
1 TATATATTTTAT
*
899809 TATATTTTTTAT
1 TATATATTTTAT
*
899821 T-TA-AATTTA-
1 TATATATTTTAT
*
899830 TATATTATATTAT
1 TATA-TATTTTAT
899843 TA-ATATTATTAT
1 TATATATT-TTAT
899855 TAT-TATTATTAT
1 TATATATT-TTAT
899867 TAT-TATTATTAT
1 TATATATT-TTAT
899879 TAT-TATTT
1 TATATATTT
899887 GTGTTATGTG
Statistics
Matches: 133, Mismatches: 27, Indels: 34
0.69 0.14 0.18
Matches are distributed among these distances:
9 4 0.03
10 21 0.16
11 43 0.32
12 63 0.47
13 2 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATATTTTAT
Found at i:899763 original size:23 final size:23
Alignment explanation
Indices: 899733--899781 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
899723 TTTATGTTAT
* *
899733 TATATTTATATTAAATTTTATTA
1 TATATTTATATAAAATTTTAATA
899756 TATATTTATATAAAATTTTAATA
1 TATATTTATATAAAATTTTAATA
899779 TAT
1 TAT
899782 TAATGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATATTTATATAAAATTTTAATA
Found at i:899781 original size:44 final size:43
Alignment explanation
Indices: 899695--899782 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 43
899685 CCGACCGTGA
* *
899695 TATATATAAATTTTTTATATATTAATAATTTATGTTATTATATT
1 TATATATAAATTTTTTATATATTAATAA-TAATGTTAATATATT
*
899739 TATAT-TAAATTTTATTATATATTTATATAA-AATTTTAATATATT
1 TATATATAAATTTT-TTATATA-TTA-ATAATAATGTTAATATATT
899783 AATGATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
43 8 0.21
44 23 0.61
45 3 0.08
46 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (43 bp):
TATATATAAATTTTTTATATATTAATAATAATGTTAATATATT
Found at i:899816 original size:65 final size:64
Alignment explanation
Indices: 899697--899820 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 64
899687 GACCGTGATA
* * * *
899697 TATATAAATTTTTTATATATTAATAATTTATGTTATTATATTTATATTAAATTTTATTATATATT
1 TATATAAAATTTTAATATATTAATAATTTATATTATTATATTTATAATAAATTTT-TTATATATT
* *
899762 TATATAAAATTTTAATATATTAATGATTTATATTATATATATTT-TAATATATTTTTTAT
1 TATATAAAATTTTAATATATTAATAATTTATATTAT-TATATTTATAATAAATTTTTTAT
899821 TTAAATTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 4 0.08
65 41 0.79
66 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (64 bp):
TATATAAAATTTTAATATATTAATAATTTATATTATTATATTTATAATAAATTTTTTATATATT
Found at i:899845 original size:21 final size:21
Alignment explanation
Indices: 899789--899865 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 21
899779 TATTAATGAT
*
899789 TTATATTATATATATTTTAATATA
1 TTATATTAT-TA-AATTT-ATATA
*
899813 TT-TTTTATTTAAATTTATATA
1 TTATATTA-TTAAATTTATATA
899834 TTATATTATT-AATATTAT-TA
1 TTATATTATTAAAT-TTATATA
899854 TTATTATTATTA
1 TTA-TATTATTA
899866 TTATTATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
20 8 0.18
21 20 0.44
22 8 0.18
23 6 0.13
24 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATATTATTAAATTTATATA
Found at i:899852 original size:3 final size:3
Alignment explanation
Indices: 899827--899885 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
899817 TTATTTAAAT
*
899827 TTA TATA TTA -TA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
899872 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
899886 TGTGTTATGT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:900906 original size:13 final size:13
Alignment explanation
Indices: 900890--900914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
900880 ATAAGTAATA
900890 AATATAAATACTG
1 AATATAAATACTG
900903 AATATAAATACT
1 AATATAAATACT
900915 TTATAAAAAA
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AATATAAATACTG
Found at i:903428 original size:3 final size:3
Alignment explanation
Indices: 903420--903453 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
903410 ATTGACCAAG
903420 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
903454 CTGATTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:903840 original size:10 final size:10
Alignment explanation
Indices: 903821--903854 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
903811 GGTGCTGTTC
903821 TTTTTT-TTT
1 TTTTTTCTTT
903830 TTTTTTCTTT
1 TTTTTTCTTT
*
903840 TTTCTTCTTT
1 TTTTTTCTTT
903850 TTTTT
1 TTTTT
903855 CATTTGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:904083 original size:28 final size:28
Alignment explanation
Indices: 904064--904133 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 28
904054 TTATTTGTTA
904064 TTATATTTATATTATTTTTTATATTATAT
1 TTAT-TTTATATTATTTTTTATATTATAT
* *
904093 TTATTTTATATTATATTTTA-ATTATTT
1 TTATTTTATATTATTTTTTATATTATAT
904120 TGTAATTTTATATT
1 T-T-ATTTTATATT
904134 TGTATGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 7 0.19
28 16 0.43
29 14 0.38
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (28 bp):
TTATTTTATATTATTTTTTATATTATAT
Found at i:904101 original size:16 final size:16
Alignment explanation
Indices: 904064--904110 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
904054 TTATTTGTTA
*
904064 TTATATTTATATTATTTT
1 TTATA-TTATATT-TATT
904082 TTATATTATATTTATT
1 TTATATTATATTTATT
904098 TTATATTATATTT
1 TTATATTATATTT
904111 TAATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 16 0.57
17 7 0.25
18 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATATTATATTTATT
Found at i:904120 original size:21 final size:19
Alignment explanation
Indices: 904005--904120 Score: 71
Period size: 21 Copynumber: 5.8 Consensus size: 19
903995 TTAAATGTTA
* *
904005 TATATTTATATAAATTTTAT
1 TATATTTA-ATTATTTTTAT
904025 TATATTAATAATTTATGTTTTA-
1 TATATT--TAA-TTAT-TTTTAT
*
904047 TAAATTT--TTATTTGTTAT
1 TATATTTAATTATTT-TTAT
904065 TATATTTATATTA-TTTT-T
1 TATATTTA-ATTATTTTTAT
*
904083 TATATTATATTTATTTTATAT
1 TATATT-TAATTATTTT-TAT
904104 TATATTTTAATTATTTT
1 TATA-TTTAATTATTTT
904121 GTAATTTTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 27
0.70 0.06 0.25
Matches are distributed among these distances:
16 2 0.03
17 7 0.09
18 16 0.21
19 7 0.09
20 10 0.13
21 18 0.24
22 11 0.14
23 5 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATATTTAATTATTTTTAT
Found at i:907063 original size:21 final size:20
Alignment explanation
Indices: 907038--907094 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
907028 ATTCTTAATT
907038 TTAAATATTTAATATAATATA
1 TTAAA-ATTTAATATAATATA
* *
907059 TTAAAATTTATTTAAAATATA
1 TTAAAATTTA-ATATAATATA
* *
907080 TCAAAATATAATATA
1 TTAAAATTTAATATA
907095 TTAAATAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAATTTAATATAATATA
Found at i:907701 original size:23 final size:19
Alignment explanation
Indices: 907656--907707 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
907646 AAAATTTTAA
*
907656 AAATAAATATATTTATATT
1 AAATAAATATATTTAAATT
907675 AAATAAATATTAATATTAAATT
1 AAATAAATA-T-AT-TTAAATT
907697 CAAAT-AATATA
1 -AAATAAATATA
907708 ACAGTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 3 0.11
22 10 0.36
23 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATAAATATATTTAAATT
Found at i:908784 original size:21 final size:18
Alignment explanation
Indices: 908760--908802 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
908750 ATTTTTTATT
908760 TTTTAATTTTAAAATATGATA
1 TTTT-ATTTTAAAA-AT-ATA
*
908781 TTTTTTTTTAAAAATATA
1 TTTTATTTTAAAAATATA
908799 TTTT
1 TTTT
908803 TTATCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 2 0.10
20 8 0.38
21 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTATTTTAAAAATATA
Found at i:908799 original size:18 final size:20
Alignment explanation
Indices: 908766--908804 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
908756 TATTTTTTAA
908766 TTTTAAAATATGATATTTTT
1 TTTTAAAATATGATATTTTT
908786 TTTTAAAA-AT-ATATTTTT
1 TTTTAAAATATGATATTTTT
908804 T
1 T
908805 ATCTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTAAAATATGATATTTTT
Found at i:908812 original size:18 final size:18
Alignment explanation
Indices: 908778--908813 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
908768 TTAAAATATG
*
908778 ATATTTTTTTTTAAAAAT
1 ATATTTTTTTCTAAAAAT
908796 ATATTTTTTATCTAAAAA
1 ATATTTTTT-TCTAAAAA
908814 ATAAGTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTTTTTTCTAAAAAT
Found at i:917373 original size:17 final size:17
Alignment explanation
Indices: 917338--917373 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
917328 CAAATATTTG
* *
917338 AATTCATAAATTTATAT
1 AATTCATAAATATACAT
917355 AATTCATAAATATACAT
1 AATTCATAAATATACAT
917372 AA
1 AA
917374 CAACATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTCATAAATATACAT
Found at i:918885 original size:13 final size:13
Alignment explanation
Indices: 918867--918891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
918857 CATAAAGTAT
918867 TGTATCGATACAA
1 TGTATCGATACAA
918880 TGTATCGATACA
1 TGTATCGATACA
918892 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:918907 original size:32 final size:33
Alignment explanation
Indices: 918847--918912 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
918837 TTCAACGATT
*
918847 TGTATCGATGCATAAAGTATTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
*
918880 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
918912 T
1 T
918913 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTATTGTATCGATACAA
Found at i:918971 original size:13 final size:13
Alignment explanation
Indices: 918953--918977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
918943 ATTACTCAAA
918953 TGTATCGATACAT
1 TGTATCGATACAT
918966 TGTATCGATACA
1 TGTATCGATACA
918978 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:918995 original size:33 final size:33
Alignment explanation
Indices: 918953--919063 Score: 111
Period size: 33 Copynumber: 3.4 Consensus size: 33
918943 ATTACTCAAA
918953 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
* * * * ** **
918986 TGTATCGATACA-TGCA-GGA-AAATTTGCCCAGA
1 TGTATCGATACATTGTATCGATACA-CTGATC-TT
919018 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
919051 TGTATCGATACAT
1 TGTATCGATACAT
919064 GCAGGCAAAT
Statistics
Matches: 57, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
30 2 0.04
31 5 0.09
32 15 0.26
33 28 0.49
34 5 0.09
35 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACTGATCTT
Found at i:919027 original size:32 final size:32
Alignment explanation
Indices: 918986--919095 Score: 98
Period size: 32 Copynumber: 3.4 Consensus size: 32
918976 CACTGATCTT
918986 TGTATCGATACATGCAGGAAAATTTGCCCAGA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGA
* * * * ** **
919018 TGTATCGATACATTGTATCGATACA-CTGATC-TT
1 TGTATCGATACA-TGCA-GGA-AAATTTGCCCAGA
*
919051 TGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGA
919083 TGTATCGATACAT
1 TGTATCGATACAT
919096 TATTAAATGT
Statistics
Matches: 56, Mismatches: 17, Indels: 10
0.67 0.20 0.12
Matches are distributed among these distances:
30 2 0.04
31 4 0.07
32 28 0.50
33 15 0.27
34 5 0.09
35 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (32 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGA
Found at i:919029 original size:65 final size:65
Alignment explanation
Indices: 918952--919096 Score: 281
Period size: 65 Copynumber: 2.2 Consensus size: 65
918942 CATTACTCAA
918952 ATGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAGGAAAATTTGCCCAG
1 ATGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAGGAAAATTTGCCCAG
*
919017 ATGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAGGAAAATTTGCCCAG
919082 ATGTATCGATACATT
1 ATGTATCGATACATT
919097 ATTAAATGTA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 79 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (65 bp):
ATGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAGGAAAATTTGCCCAG
Found at i:919036 original size:13 final size:13
Alignment explanation
Indices: 919018--919042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
919008 TTTGCCCAGA
919018 TGTATCGATACAT
1 TGTATCGATACAT
919031 TGTATCGATACA
1 TGTATCGATACA
919043 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:919511 original size:13 final size:13
Alignment explanation
Indices: 919493--919517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
919483 CATAAAGTGT
919493 TGTATCGATACAA
1 TGTATCGATACAA
919506 TGTATCGATACA
1 TGTATCGATACA
919518 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:919533 original size:32 final size:33
Alignment explanation
Indices: 919473--919538 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
919463 TTCAACGATT
919473 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
919506 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
919538 T
1 T
919539 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:919598 original size:13 final size:13
Alignment explanation
Indices: 919580--919604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
919570 ATTACTCAAA
919580 TGTATCGATACAT
1 TGTATCGATACAT
919593 TGTATCGATACA
1 TGTATCGATACA
919605 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:922977 original size:13 final size:13
Alignment explanation
Indices: 922959--922984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
922949 CATGATATAA
922959 TGTATCAATACAT
1 TGTATCAATACAT
922972 TGTATCAATACAT
1 TGTATCAATACAT
922985 GATGAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:923003 original size:33 final size:33
Alignment explanation
Indices: 922938--923005 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
922928 CTACCACTAT
* *
922938 TTGTATCGATACATGATATAATGTATCAATACA
1 TTGTATCAATACATGATATAATATATCAATACA
* *
922971 TTGTATCAATACATGATGA-ATTATATCGATACA
1 TTGTATCAATACATGAT-ATAATATATCAATACA
923004 TT
1 TT
923006 ACTTGTAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (33 bp):
TTGTATCAATACATGATATAATATATCAATACA
Found at i:931672 original size:19 final size:21
Alignment explanation
Indices: 931629--931681 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
931619 CTCACCCAGA
*
931629 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGTATGCAT
931649 TGTATCGATACATGT-T-CAT
1 TGTATCGATACATGTATGCAT
931668 TGTATCGATACATG
1 TGTATCGATACATG
931682 AAATTGGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATGTATGCAT
Found at i:933314 original size:17 final size:19
Alignment explanation
Indices: 933278--933319 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
933268 ATTATACTAA
933278 TAAATAAATATTAATTAAT
1 TAAATAAATATTAATTAAT
*
933297 TAAA-AAATATT-TTTAAT
1 TAAATAAATATTAATTAAT
933314 TAAATA
1 TAAATA
933320 TTAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 8 0.38
19 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATAAATATTAATTAAT
Found at i:936146 original size:126 final size:112
Alignment explanation
Indices: 936076--936297 Score: 355
Period size: 112 Copynumber: 2.0 Consensus size: 112
936066 TTATTATTTG
*
936076 AAAAATATGAATTTGTTTTAAAATTCATATTATT-AAT-ATTTAATGAATTCATATTAAAAAATT
1 AAAAATATAAATTTGTTTTAAAATTCATATT-TTCAATAATTTAATGAATTCATATT-AAAAATT
936139 TAATAAACATGATTTTAACATGTAAAATTATACAAATACAAAACAAATT
64 TAATAAACATGATTTTAACATGTAAAATTATACAAATACAAAACAAATT
**
936188 AAAAATATAAATTTGTTTTAAAATTTGTATTTTCAATAATTTAATGAATTCATATTAAAAATTTA
1 AAAAATATAAATTTGTTTTAAAATTCATATTTTCAATAATTTAATGAATTCATATTAAAAATTTA
936253 ATAAA-ATGA-TTTAACATGTAAAATTATTACAAATACAAAA-AAATT
66 ATAAACATGATTTTAACATGTAAAATTA-TACAAATACAAAACAAATT
936298 TATGCTCGTG
Statistics
Matches: 104, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
110 22 0.21
111 19 0.18
112 45 0.43
113 18 0.17
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (112 bp):
AAAAATATAAATTTGTTTTAAAATTCATATTTTCAATAATTTAATGAATTCATATTAAAAATTTA
ATAAACATGATTTTAACATGTAAAATTATACAAATACAAAACAAATT
Found at i:936385 original size:22 final size:21
Alignment explanation
Indices: 936360--936416 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
936350 TGTATTCATA
936360 TTATTTTTTTGTATAGGTAGTG
1 TTATTTTTTTGTATA-GTAGTG
* * *
936382 TTA-TTTTTCGTATATTTGTG
1 TTATTTTTTTGTATAGTAGTG
936402 TTATTTTATTTGTAT
1 TTATTTT-TTTGTAT
936417 TATATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.24
21 13 0.45
22 9 0.31
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.65
Consensus pattern (21 bp):
TTATTTTTTTGTATAGTAGTG
Found at i:936394 original size:21 final size:20
Alignment explanation
Indices: 936364--936408 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
936354 TTCATATTAT
*
936364 TTTTTTGTATAGGTAGTGTTA
1 TTTTTCGTATA-GTAGTGTTA
* *
936385 TTTTTCGTATATTTGTGTTA
1 TTTTTCGTATAGTAGTGTTA
936405 TTTT
1 TTTT
936409 ATTTGTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (20 bp):
TTTTTCGTATAGTAGTGTTA
Found at i:936410 original size:25 final size:23
Alignment explanation
Indices: 936382--936441 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
936372 ATAGGTAGTG
936382 TTATTTTTCGTATATTTGTGTTATT
1 TTATTTTTCGTATATTT-T-TTATT
* **
936407 TTATTTGTATTATATTTTTTATT
1 TTATTTTTCGTATATTTTTTATT
*
936430 AT-TTTTTCGTAT
1 TTATTTTTCGTAT
936442 CATGTCGTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 7 0.25
23 6 0.21
24 1 0.04
25 14 0.50
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.70
Consensus pattern (23 bp):
TTATTTTTCGTATATTTTTTATT
Found at i:936631 original size:55 final size:55
Alignment explanation
Indices: 936504--936679 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 55
936494 TGTCATATAG
* ** * * * * *
936504 TATTTTAAGTTATATT-TTTCGTATAT-TTATTTTTAT-TTTTGA-ATCATATTA
1 TATTTTAAATTATATTATTTTTTATATATTAATATTATATTTTCATATCACATAA
*
936555 TATTTTAAATTATATTATTTTTTCATATATTAATA-T-TATTTTCATGTCACATAA
1 TATTTTAAATTATATTATTTTTT-ATATATTAATATTATATTTTCATATCACATAA
* * * * *
936609 TATTTTAAATCATATTATTTTTTATATATTTATATTATATTTTTATATCATATTA
1 TATTTTAAATTATATTATTTTTTATATATTAATATTATATTTTCATATCACATAA
936664 TATTTTAAATTATATT
1 TATTTTAAATTATATT
936680 TTAATTATTT
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
51 15 0.15
52 5 0.05
53 20 0.20
54 33 0.32
55 29 0.28
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (55 bp):
TATTTTAAATTATATTATTTTTTATATATTAATATTATATTTTCATATCACATAA
Found at i:936659 original size:38 final size:41
Alignment explanation
Indices: 936611--936697 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
936601 TCACATAATA
* *
936611 TTTTAAATCATATTAT-TTTT-TA-TATA-TTTATATTATAT
1 TTTTATATCATATTATATTTTAAATTATATTTTA-ATTATAT
*
936649 TTTTATATCATATTATATTTTAAATTATATTTTAATTATTT
1 TTTTATATCATATTATATTTTAAATTATATTTTAATTATAT
936690 TTTTATAT
1 TTTTATAT
936698 TTATAATTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 15 0.36
39 4 0.10
40 1 0.02
41 18 0.43
42 4 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (41 bp):
TTTTATATCATATTATATTTTAAATTATATTTTAATTATAT
Found at i:936664 original size:23 final size:20
Alignment explanation
Indices: 936620--936702 Score: 84
Period size: 21 Copynumber: 4.2 Consensus size: 20
936610 ATTTTAAATC
936620 ATATTATTTTTTATATATTT
1 ATATTATTTTTTATATATTT
936640 ATATTATATTTTTATATCATATT
1 ATATTAT-TTTTTATAT-AT-TT
**
936663 ATATT-TTAAATTATAT-TTT
1 ATATTATT-TTTTATATATTT
936682 A-ATTATTTTTT-TATATTT
1 ATATTATTTTTTATATATTT
936700 ATA
1 ATA
936703 ATTAGTGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
17 3 0.06
18 9 0.17
19 6 0.12
20 8 0.15
21 10 0.19
22 9 0.17
23 7 0.13
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (20 bp):
ATATTATTTTTTATATATTT
Found at i:936706 original size:31 final size:31
Alignment explanation
Indices: 936622--936706 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
936612 TTTAAATCAT
*
936622 ATTATTTTTTATATATTTAT-ATTATATTTTT
1 ATTATTTTTT-TATATTTATAATTATATTTTA
** *
936653 A-TATCATATTATATTT-TAAATTATATTTTA
1 ATTATTTTTTTATATTTAT-AATTATATTTTA
936683 ATTATTTTTTTATATTTATAATTA
1 ATTATTTTTTTATATTTATAATTA
936707 GTGTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
28 1 0.02
29 7 0.16
30 16 0.37
31 18 0.42
32 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (31 bp):
ATTATTTTTTTATATTTATAATTATATTTTA
Found at i:937497 original size:22 final size:23
Alignment explanation
Indices: 937452--937498 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
937442 TAAATTTTGT
* * *
937452 ATTATTTTTATTTTTCTCTTTTA
1 ATTATTTTTATTTTTATATCTTA
937475 ATTA-TTTTATTTTTATATCTTA
1 ATTATTTTTATTTTTATATCTTA
937497 AT
1 AT
937499 AAATTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTATTTTTATTTTTATATCTTA
Found at i:937580 original size:26 final size:27
Alignment explanation
Indices: 937551--937612 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
937541 TATAACTAGT
* *
937551 AAATATAAATAATTTTATT-TTTAATA
1 AAATATAAATAATTTAATTCATTAATA
* *
937577 AAATA-ATATTATTTAATTCATTAATA
1 AAATATAAATAATTTAATTCATTAATA
*
937603 ATATATAAAT
1 AAATATAAAT
937613 TTATAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 10 0.36
26 15 0.54
27 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATATAAATAATTTAATTCATTAATA
Found at i:937582 original size:20 final size:21
Alignment explanation
Indices: 937552--937590 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
937542 ATAACTAGTA
*
937552 AATATAAATAATTTTATTTTT
1 AATATAAATAATATTATTTTT
937573 AATA-AAATAATATTATTT
1 AATATAAATAATATTATTT
937591 AATTCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATAAATAATATTATTTTT
Found at i:937841 original size:2 final size:2
Alignment explanation
Indices: 937834--937858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
937824 TAGGTTTATA
937834 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
937859 TAACTTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:938943 original size:11 final size:11
Alignment explanation
Indices: 938931--939082 Score: 91
Period size: 11 Copynumber: 13.5 Consensus size: 11
938921 GAAAGGATTT
*
938931 AATATAAATTTA
1 AATAT-AATATA
938943 AATATAATATA
1 AATATAATATA
938954 ATTATATAATATA
1 A--ATATAATATA
*
938967 AATTTAATATA
1 AATATAATATA
*
938978 AAAATAAT-TAA
1 AATATAATAT-A
938989 AATATAATATA
1 AATATAATATA
939000 AA-A-AATATA
1 AATATAATATA
939009 TAATATAATTATA
1 -AATATAA-TATA
* * *
939022 TAAAATATTTTA
1 -AATATAATATA
*
939034 AATTTAATATA
1 AATATAATATA
*
939045 AA-ATAAATTATT
1 AATAT-AA-TATA
*
939057 AATATATTA-A
1 AATATAATATA
*
939067 AAT-TTATATA
1 AATATAATATA
939077 AATATA
1 AATATA
939083 TAATATTTTA
Statistics
Matches: 108, Mismatches: 19, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
9 9 0.08
10 12 0.11
11 47 0.44
12 17 0.16
13 23 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATATAATATA
Found at i:938991 original size:22 final size:22
Alignment explanation
Indices: 938937--939047 Score: 84
Period size: 24 Copynumber: 4.9 Consensus size: 22
938927 ATTTAATATA
* *
938937 AATTTAAATATAATATAATTATAT
1 AATTAAAATATAATATAA--AAAT
*
938961 AA-TATAAATTTAATATAAAAAT
1 AATTA-AAATATAATATAAAAAT
938983 AATTAAAATATAATAT-AAAA-
1 AATTAAAATATAATATAAAAAT
*
939003 AATATATAATATAATTATATAAAAT
1 AAT-TAAAATATAA-TATA-AAAAT
* * *
939028 ATTTTAAATTTAATATAAAA
1 AATTAAAATATAATATAAAA
939048 TAAATTATTA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.04
21 13 0.18
22 21 0.30
23 7 0.10
24 25 0.35
25 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTAAAATATAATATAAAAAT
Found at i:939081 original size:67 final size:63
Alignment explanation
Indices: 938930--939082 Score: 163
Period size: 67 Copynumber: 2.4 Consensus size: 63
938920 CGAAAGGATT
*
938930 TAATAT-AAATTTAAATATAATATAATTATATAATATAAATTTAATATAAAAATAATTAAAATA
1 TAATATAAAATTTATATA-AATATAATTATATAATATAAATTTAATATAAAAATAATTAAAATA
**
938993 TAATATAAAAAATATAT-AATATAATTATATAAAATATTTTAAATTTAATAT-AAAATAAATTAT
1 TAATATAAAATTTATATAAATATAATTATAT--AATA---TAAATTTAATATAAAAAT-AATTA-
*
939056 TAATA
59 AAATA
939061 T-AT-TAAAATTTATATAAATATA
1 TAATATAAAATTTATATAAATATA
939083 TAATATTTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
62 13 0.17
63 6 0.08
64 11 0.15
66 15 0.20
67 25 0.33
68 5 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (63 bp):
TAATATAAAATTTATATAAATATAATTATATAATATAAATTTAATATAAAAATAATTAAAATA
Found at i:939119 original size:59 final size:61
Alignment explanation
Indices: 938944--939119 Score: 161
Period size: 59 Copynumber: 2.9 Consensus size: 61
938934 ATAAATTTAA
* *
938944 ATATAATATAATTATATAATATAAATTT-AATATAAAAATAAT--TAAAATATAATATAAAAAAT
1 ATATAATATAAATATATAATAT---TTTAAATATAATAATAATAATAAAA-ATAATATAAAAAAT
* * * *
939006 ATATAATATAATTATATAAAATATTTTAAATTTAAT-ATAA-AATAAATTATTAATATATTAAAA
1 ATATAATATAA--ATATATAATATTTTAAATATAATAATAATAATAAA--AATAATATA-AAAAA
939069 T
61 T
939070 -T-T-ATATAAATATATAATATTTTAAATATAATAATAATAATAAAAATAATA
1 ATATAATATAAATATATAATATTTTAAATATAATAATAATAATAAAAATAATA
939120 CGATAAAAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
59 27 0.28
60 4 0.04
61 19 0.20
62 22 0.23
63 8 0.08
64 15 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (61 bp):
ATATAATATAAATATATAATATTTTAAATATAATAATAATAATAAAAATAATATAAAAAAT
Found at i:939604 original size:31 final size:32
Alignment explanation
Indices: 939544--939606 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
939534 TATAATTTAA
*
939544 ATTATATTTTAAAATATTTTTTTTATTATAAT
1 ATTATATTTTAAAATATTTATTTTATTATAAT
*
939576 ATTATATTTT-TAATA-TTATTTTACTTATAAT
1 ATTATATTTTAAAATATTTATTTTA-TTATAAT
939607 TAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 7 0.25
31 11 0.39
32 10 0.36
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (32 bp):
ATTATATTTTAAAATATTTATTTTATTATAAT
Found at i:939606 original size:17 final size:16
Alignment explanation
Indices: 939564--939606 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
939554 AAAATATTTT
939564 TTTTATTATAATATTA
1 TTTTATTATAATATTA
*
939580 TATT-TT-TAATATTA
1 TTTTATTATAATATTA
939594 TTTTACTTATAAT
1 TTTTA-TTATAAT
939607 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 5 0.23
17 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATTATAATATTA
Found at i:940249 original size:5 final size:5
Alignment explanation
Indices: 940239--940264 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
940229 ATAATATTTT
940239 TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA T
940265 ATTAAAATAA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TTAAA
Found at i:940339 original size:22 final size:22
Alignment explanation
Indices: 940313--940360 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
940303 AAATGGATTG
* * *
940313 AATTTGAATAATTTTAATATTA
1 AATTTAAATAATTTAAATATAA
*
940335 AATTTAAATTATTTAAATATAA
1 AATTTAAATAATTTAAATATAA
940357 AATT
1 AATT
940361 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTTAAATAATTTAAATATAA
Found at i:940361 original size:16 final size:16
Alignment explanation
Indices: 940340--940375 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
940330 TATTAAATTT
940340 AAATTATTTAAATATA
1 AAATTATTTAAATATA
*
940356 AAATTATTTAAATTTA
1 AAATTATTTAAATATA
940372 AAAT
1 AAAT
940376 AAATCAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTATTTAAATATA
Found at i:941002 original size:16 final size:17
Alignment explanation
Indices: 940973--941013 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
940963 AATAAAAAAT
940973 TAAT-TAAAATATAATA
1 TAATATAAAATATAATA
940989 TAATATAAAA-ATAATA
1 TAATATAAAATATAATA
941005 TGAATATAA
1 T-AATATAA
941014 TACAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
TAATATAAAATATAATA
Found at i:941062 original size:32 final size:33
Alignment explanation
Indices: 941008--941069 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
940998 AATAATATGA
*
941008 ATATAATACAAATATATTAATTTATAAAAAAAT
1 ATATAAAACAAATATATTAATTTATAAAAAAAT
* *
941041 ATATAAAATAAAT-TATTAATTTATTAAAA
1 ATATAAAACAAATATATTAATTTATAAAAA
941070 TTATTGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (33 bp):
ATATAAAACAAATATATTAATTTATAAAAAAAT
Found at i:942818 original size:20 final size:21
Alignment explanation
Indices: 942772--942819 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
942762 TGCAAATGAA
*
942772 ATGTATCGATACTTTTACATG
1 ATGTATCGATACTATTACATG
942793 ATGTATCGATA-TATTATCAT-
1 ATGTATCGATACTATTA-CATG
942813 ATGTATC
1 ATGTATC
942820 AATAGAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACTATTACATG
Found at i:943763 original size:21 final size:21
Alignment explanation
Indices: 943734--943774 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
943724 ATCGGAGATG
*
943734 GATGCAAACATCCCCTGAATT
1 GATGCAAACATCCCATGAATT
*
943755 GATGTAAACATCCCATGAAT
1 GATGCAAACATCCCATGAAT
943775 GTTGGTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
GATGCAAACATCCCATGAATT
Found at i:945171 original size:19 final size:18
Alignment explanation
Indices: 945147--945209 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
945137 ATACGGAGAA
945147 TGTATCGATACTTTAAAAT
1 TGTATCGATAC-TTAAAAT
*
945166 TGTATCGATAC--AATA-
1 TGTATCGATACTTAAAAT
* *
945181 TATATTGATACATTAAAAT
1 TGTATCGATAC-TTAAAAT
945200 TGTATCGATA
1 TGTATCGATA
945210 TAATATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
18 3 0.09
19 19 0.56
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (18 bp):
TGTATCGATACTTAAAAT
Found at i:945191 original size:34 final size:34
Alignment explanation
Indices: 945153--945227 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
945143 AGAATGTATC
*
945153 GATACTTTAAAATTGTATCGATACAATATATATT
1 GATACATTAAAATTGTATCGATACAATATATATT
* *
945187 GATACATTAAAATTGTATCGATATAATATATTTT
1 GATACATTAAAATTGTATCGATACAATATATATT
945221 GATACAT
1 GATACAT
945228 CATGCATTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (34 bp):
GATACATTAAAATTGTATCGATACAATATATATT
Found at i:951947 original size:13 final size:13
Alignment explanation
Indices: 951929--951955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
951919 ACAAAGATCA
951929 AATGTATCGATAC
1 AATGTATCGATAC
951942 AATGTATCGATAC
1 AATGTATCGATAC
951955 A
1 A
951956 TTGAGTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:952835 original size:49 final size:49
Alignment explanation
Indices: 952660--953722 Score: 947
Period size: 49 Copynumber: 21.9 Consensus size: 49
952650 AGATGAGAAA
* * * * *
952660 AAGGATGCCAATGTGCTGATTCACGGTCAGCGACATTTAGACTTGAAGATGAG
1 AAGG-TGCCAATATGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--G
* * ** **
952713 AAGAATGCCAATGTGCTGATTCAAGGCCAATGACATTGGGTTTTAAAGATGACG
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---G
* * *
952767 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATACTGGTCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * *
952816 AAGGTGCGAATGTGCTGATTTAAAGCTAGCGACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
952865 ACAAAGGCGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
952917 AAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
952966 ACAAAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
953018 AAGGTGCCAATGTGCTAATTCAAGGCAAGCGACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* *
953067 ATAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
953119 AAGGTGCCAATGTGCTAATTCAAGGCCAGCGGCATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* ** * * * *
953168 ACAAAGGCGCCAATATGCTGATTCAAGGAAAACGATATTGAACTTAAATATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
953220 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGAACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * **
953263 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
953312 AAGGTGCCAAAATGCTGATTCAAGGCCAGCGATATTGGGCTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * **
953355 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
*
953404 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
953447 AAGGTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
953495 AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGC-T-----T-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * ** *
953537 AA---GCCAATGTGCTAATTCAAGGCTAGCGACATTGGGTTTTAAAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATG
*
953583 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
953626 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * *
953675 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTAAA
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
953723 AGAAGACGCC
Statistics
Matches: 838, Mismatches: 119, Indels: 107
0.79 0.11 0.10
Matches are distributed among these distances:
39 26 0.03
40 2 0.00
41 1 0.00
42 2 0.00
43 154 0.18
44 1 0.00
45 3 0.00
46 2 0.00
47 5 0.01
48 40 0.05
49 313 0.37
52 221 0.26
53 64 0.08
54 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
Found at i:952883 original size:101 final size:101
Alignment explanation
Indices: 952621--953722 Score: 947
Period size: 101 Copynumber: 11.3 Consensus size: 101
952611 ACCAATACAT
* * * ** * * * *
952621 TGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGCCAATGTGCTGATTCACGG
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GACAAAGG-CGCCAATATGCTGATTCAAGG
* * * * *
952686 TCAGCGACATTTAGACTTGAAGATGAGAAGAATGCCAATGTGC
63 CCAGCGATA-TTGGACTTAAAGAT--GAAG-GTGCCAATGTGC
** ** * *
952729 TGATTCAAGGCCAATGACATTGGGTTTTAAAGATGACGAAGGTGCCAATATGCTGATTCAAGGCC
1 TGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCC
* * *
952794 AGCGATACTGGTCTTAAAGATGAAGGTGCGAATGTGC
65 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * * *
952831 TGATTTAAAGCTAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTTAAGGCCA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
952896 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
66 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * *
952932 TGATTCAAGGCTAGTGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTAATTCAAGGCCA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
952997 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
66 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * *
953033 TAATTCAAGGCAAGCGACATTGGACTTAAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCCA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
953098 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
66 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * **
953134 TAATTCAAGGCCAGCGGCATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGAAA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
* * * *
953199 ACGATATTGAACTTAAATATGAAGATGCCAATGTGC
66 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * *
953235 TGATTCAAGGCCAGCGACATTGAAC-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
* * ** **
953291 GCGACATTGGTCTTAAAGACAAAGGTGCCAAAATGC
66 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * * *
953327 TGATTCAAGGCCAGCGATATTGGGC-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
* * ** *
953383 GCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
66 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * *
953419 TGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCCAATATGCTGATTCAAGGCTA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
* * * *
953475 GCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGC
66 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * * * * *
953510 TGATTCAAGGCCAGCAATATTGGGC-T-----T----AA---GCCAATGTGCTAATTCAAGGCTA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
* ** * *
953562 GCGACATTGGGTTTTAAAGA-CAAGGTGCCAATATGC
66 GCGATATT-GGACTTAAAGATGAAGGTGCCAATGTGC
* * * *
953598 TGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCTA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
* * * *
953654 GCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGC
66 GCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGC
* * *
953693 TGATTCAAGGCCAGTGATATTGGGCTTAAA
1 TGATTCAAGGCCAGCGACATTGGACTTAAA
953723 AGAAGACGCC
Statistics
Matches: 894, Mismatches: 86, Indels: 37
0.88 0.08 0.04
Matches are distributed among these distances:
87 29 0.03
88 51 0.06
89 2 0.00
90 2 0.00
91 50 0.06
92 241 0.27
95 38 0.04
96 1 0.00
100 1 0.00
101 378 0.42
102 26 0.03
103 4 0.00
105 10 0.01
106 26 0.03
107 6 0.01
108 18 0.02
109 11 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (101 bp):
TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
Found at i:953285 original size:43 final size:43
Alignment explanation
Indices: 953224--953671 Score: 463
Period size: 43 Copynumber: 10.0 Consensus size: 43
953214 AATATGAAGA
* **
953224 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGAACTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGG
*
953267 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT------AAAGG
* * *
953316 TGCCAAAATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGG
*
953359 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT------AAAGG
* *
953408 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGG
*
953451 TGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT----A-AAGG
* * *
953499 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT-AA--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGG
* * * *
953539 -GCCAATGTGCTAATTCAAGGCTAGCGACATTGGGTTTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATT-GGTCTT----A-AAGG
* *
953587 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGG
* *
953630 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
953672 ATGACAAAGG
Statistics
Matches: 341, Mismatches: 37, Indels: 54
0.79 0.09 0.12
Matches are distributed among these distances:
39 26 0.08
40 4 0.01
42 2 0.01
43 157 0.46
44 1 0.00
46 2 0.01
47 1 0.00
48 42 0.12
49 106 0.31
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGG
Found at i:953328 original size:92 final size:92
Alignment explanation
Indices: 953170--953722 Score: 785
Period size: 92 Copynumber: 6.0 Consensus size: 92
953160 TAAAGATGAC
* * ** * * ** * ** * *
953170 AAAGGCGCCAATATGCTGATTCAAGGAAAACGATATTGAACTTAAATATGAAGATGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
* *
953235 TGATTCAAGGCCAGCGACATTGAACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
953262 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAAAATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
*
953327 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
953354 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
953419 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
953446 AAAGGTGCCAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
* *
953510 TGATTCAAGGCCAGCAATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
953537 -AA---GCCAATGTGCTAATTCAAGGCTAGCGACATTGGGTTTTAAAGAC-AAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATT-GGTCTTAAAGACAAAGGTGCCAATATG
953597 CTGATTCAAGGCCAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
*
953625 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTT-AA-A-GACAAAGGTGCCAATA
* *
953690 TGCTGATTCAAGGCCAGTGATATTGGGCTT
63 TGCTGATTCAAGGCCAGCGATATTGGACTT
953720 AAA
1 AAA
953723 AGAAGACGCC
Statistics
Matches: 419, Mismatches: 33, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
87 29 0.07
88 51 0.12
89 2 0.00
90 2 0.00
91 45 0.11
92 244 0.58
93 1 0.00
94 3 0.01
95 42 0.10
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:953471 original size:21 final size:21
Alignment explanation
Indices: 953404--953471 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
953394 CTTAAAGACA
953404 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
*
953425 AA-G-GCCAGCGATAT--TGGACTTA
1 AAGGTGCCA---ATATGCT-GA-TTC
953447 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
953468 AAGG
1 AAGG
953472 CTAGCGACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
19 4 0.11
20 2 0.06
21 14 0.39
22 10 0.28
23 2 0.06
24 4 0.11
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:953619 original size:179 final size:181
Alignment explanation
Indices: 953224--953721 Score: 804
Period size: 179 Copynumber: 2.7 Consensus size: 181
953214 AATATGAAGA
* * *
953224 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGAACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
* *
953289 CAGCGACATTGGTCTTAAAGACAAAGGTGCCAAAATGCTGATTCAAGGCCAGCGATATTGGGCTT
66 TAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
953354 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
131 -AA-G-GCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
*
953408 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
*
953473 TAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
66 TAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* *
953537 AA-GCCAATGTGCTAATTCAAGGCTAGCGACATTGGGTTTTAAAGAC-AAGG
131 AAGGCCAATGTGCTAATTCAAGGCCAGCGACATT-GGTCTTAAAGACAAAGG
953587 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
* *
953652 TAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGTGATATTGGG
66 TAGCGACATTGGTCTT-AA-A-GACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
953717 CTTAA
128 CTTAA
953722 AAGAAGACGC
Statistics
Matches: 295, Mismatches: 14, Indels: 11
0.92 0.04 0.03
Matches are distributed among these distances:
179 113 0.38
180 13 0.04
181 1 0.00
182 5 0.02
183 81 0.27
184 82 0.28
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (181 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
TAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
AAGGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
Found at i:954001 original size:69 final size:68
Alignment explanation
Indices: 953849--954388 Score: 669
Period size: 69 Copynumber: 7.9 Consensus size: 68
953839 ACAAGAGAAA
* * *
953849 GATGCCACGGAGTTGTGGACTTAAAAAGAACAAAGG-TGCTACGGAGTTGTGGACTTAAAAGGAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAC-AAGGATGCCACAGAGTTGTGGACTTAAAAGGAA
953913 CAAG
65 CAAG
** * *
953917 GATGCCATAGAGTTGTGAACTTAAAAGGATCAAGGATGCCACAGAGTTGTGGACTTAAAAAGGAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGACTT-AAAAGGAA
953982 CAAG
65 CAAG
* * *
953986 GATGCCACAGAGTTGTGGACTTAAAAGGAATAAGGATGCCACAGAGTTGTAGACTTAAAAAGGAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGACTT-AAAAGGAA
954051 CAAG
65 CAAG
954055 GATGCCACGGAGTTGTGGACTTAAAAAGGAACAAGGATGCCACAGAGTTGTGGACTTAAAAAGGA
1 GATGCCACGGAGTTGTGGACTT-AAAAGGAACAAGGATGCCACAGAGTTGTGGACTT-AAAAGGA
954120 ACAAG
64 ACAAG
* * * *
954125 GATGCCATGGAGTTGTGGACTTAAAAGGAACAAGGATGCCACGGAGGTGTGGGCTTAAAAGGAAC
1 GATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGACTTAAAAGGAAC
954190 AAG
66 AAG
** * * * * *
954193 G-TGCCACAAAGGTGTGGGCTTAAAAGGGAAAAAGGGTGCCACAGAGTCGTGGACTTAAAAGGAA
1 GATGCCACGGAGTTGTGGACTTAAAA-GGAACAAGGATGCCACAGAGTTGTGGACTTAAAAGGAA
954257 -AAG
65 CAAG
* * * *
954260 G-TGCCACGGAGTTGTGGACTTTAAAA-GAAAAAAGATGCAACAGAGTTGTGGGCTTAAAAGGAA
1 GATGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGATGCCACAGAGTTGTGGACTTAAAAGGAA
954323 CAAG
65 CAAG
* * * * * * * *
954327 G-TGCCATGGAGGTGTGGGCTTAAAAGGGAAAAAGGGTGCTACGGAGTCGTGGACTTAAAAGG
1 GATGCCACGGAGTTGTGGACTTAAAA-GGAACAAGGATGCCACAGAGTTGTGGACTTAAAAGG
954389 GTGCCACGGA
Statistics
Matches: 416, Mismatches: 48, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
66 38 0.09
67 60 0.14
68 124 0.30
69 128 0.31
70 66 0.16
ACGTcount: A:0.37, C:0.13, G:0.32, T:0.18
Consensus pattern (68 bp):
GATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGACTTAAAAGGAAC
AAG
Found at i:954386 original size:27 final size:28
Alignment explanation
Indices: 954355--954438 Score: 116
Period size: 29 Copynumber: 3.0 Consensus size: 28
954345 CTTAAAAGGG
* *
954355 AAAAAGGGTGCTACGGAGTCGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
*
954383 -AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGAC-TT
*
954411 AAAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
954439 TGAAAAGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.45
28 4 0.08
29 23 0.47
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (28 bp):
AAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:954389 original size:35 final size:34
Alignment explanation
Indices: 953849--954388 Score: 651
Period size: 34 Copynumber: 15.8 Consensus size: 34
953839 ACAAGAGAAA
* *
953849 GATGCCACGGAGTTGTGGACTTAAAAAGAACAAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGAAC-AAG
* *
953884 G-TGCTACGGAGTTGTGGACTTAAAAGGAACAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
* * *
953917 GATGCCATAGAGTTGTGAACTTAAAAGGATCAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
953951 GATGCCACAGAGTTGTGGACTTAAAAAGGAACAAG
1 GATGCCACAGAGTTGTGGACTT-AAAAGGAACAAG
*
953986 GATGCCACAGAGTTGTGGACTTAAAAGGAATAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
*
954020 GATGCCACAGAGTTGTAGACTTAAAAAGGAACAAG
1 GATGCCACAGAGTTGTGGACTT-AAAAGGAACAAG
*
954055 GATGCCACGGAGTTGTGGACTTAAAAAGGAACAAG
1 GATGCCACAGAGTTGTGGACTT-AAAAGGAACAAG
954090 GATGCCACAGAGTTGTGGACTTAAAAAGGAACAAG
1 GATGCCACAGAGTTGTGGACTT-AAAAGGAACAAG
**
954125 GATGCCATGGAGTTGTGGACTTAAAAGGAACAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
* * *
954159 GATGCCACGGAGGTGTGGGCTTAAAAGGAACAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
* * * *
954193 G-TGCCACAAAGGTGTGGGCTTAAAAGGGAAAAAG
1 GATGCCACAGAGTTGTGGACTTAAAA-GGAACAAG
* *
954227 GGTGCCACAGAGTCGTGGACTTAAAAGGAA-AAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
* * *
954260 G-TGCCACGGAGTTGTGGACTTTAAAA-GAAAAAA
1 GATGCCACAGAGTTGTGGAC-TTAAAAGGAACAAG
* *
954293 GATGCAACAGAGTTGTGGGCTTAAAAGGAACAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
** * * *
954327 G-TGCCATGGAGGTGTGGGCTTAAAAGGGAAAAAG
1 GATGCCACAGAGTTGTGGACTTAAAA-GGAACAAG
* * * *
954361 GGTGCTACGGAGTCGTGGACTTAAAAGG
1 GATGCCACAGAGTTGTGGACTTAAAAGG
954389 GTGCCACGGA
Statistics
Matches: 448, Mismatches: 46, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
32 19 0.04
33 65 0.15
34 193 0.43
35 171 0.38
ACGTcount: A:0.37, C:0.13, G:0.32, T:0.18
Consensus pattern (34 bp):
GATGCCACAGAGTTGTGGACTTAAAAGGAACAAG
Found at i:954456 original size:34 final size:31
Alignment explanation
Indices: 954228--954563 Score: 147
Period size: 34 Copynumber: 10.7 Consensus size: 31
954218 GGGAAAAAGG
* ** *
954228 GTGCCACAGAGTCGTGGACTTAAAAGGAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAA-GAAAAA
* *
954260 GTGCCACGGAGTTGTGGACTTTAAAAGAAAAAA
1 GTGCCACGGAGTCGTGGACTTT-GAAG-AAAAA
* * * * ** *
954293 GATGCAACAGAGTTGTGGGCTTAAAAGGAACAAG
1 G-TGCCACGGAGTCGTGGACTTTGAA-GAA-AAA
* * **
954327 GTGCCATGGAGGT-GTGGGCTTAAAAGGGAAAAA
1 GTGCCACGGA-GTCGTGGACTTTGAA--GAAAAA
* **
954360 GGGTGCTACGGAGTCGTGGAC-TT--A-AAAGG
1 --GTGCCACGGAGTCGTGGACTTTGAAGAAAAA
* * *
954389 GTGCCACGGAGTTGTGGGCTTT-AA-AAAGA
1 GTGCCACGGAGTCGTGGACTTTGAAGAAAAA
*
954418 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
1 GTGCCACGGAGTCGTGGACTTTG--AAGAAAAA
954451 TGTGCCACGGAGTCGTGGACTTTGAAG-AAAA
1 -GTGCCACGGAGTCGTGGACTTTGAAGAAAAA
* *
954482 GATGCCACTGAGTCGTGGACTTTG--GAAAGA
1 G-TGCCACGGAGTCGTGGACTTTGAAGAAAAA
* * * *
954512 GATGCCACTGAATTGTGGACTTTG-AG-ACAA
1 G-TGCCACGGAGTCGTGGACTTTGAAGAAAAA
**
954542 GATGCCACTAAGTCGTGGACTT
1 G-TGCCACGGAGTCGTGGACTT
954564 AAAAAAGAGA
Statistics
Matches: 249, Mismatches: 35, Indels: 42
0.76 0.11 0.13
Matches are distributed among these distances:
27 16 0.06
28 2 0.01
29 30 0.12
30 47 0.19
31 26 0.10
32 26 0.10
33 37 0.15
34 52 0.21
35 13 0.05
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.21
Consensus pattern (31 bp):
GTGCCACGGAGTCGTGGACTTTGAAGAAAAA
Found at i:954517 original size:30 final size:30
Alignment explanation
Indices: 954367--954573 Score: 172
Period size: 30 Copynumber: 6.9 Consensus size: 30
954357 AAAGGGTGCT
*
954367 ACGGAGTCGTGGAC-TT-AAAAG-GGTGCC
1 ACGGAGTCGTGGACTTTGAAAAGAGATGCC
* * *
954394 ACGGAGTTGTGGGCTTTAAAAAGAG-TGCC
1 ACGGAGTCGTGGACTTTGAAAAGAGATGCC
* *
954423 ACGGAGTTGTGGACTTTGAAAAGAAAAATGTGCC
1 ACGGAGTCGTGGACTTTGAAAAG--AGA--TGCC
*
954457 ACGGAGTCGTGGACTTTGAAGAAAAGATGCC
1 ACGGAGTCGTGGACTTTGAA-AAGAGATGCC
* *
954488 ACTGAGTCGTGGACTTTGGAAAGAGATGCC
1 ACGGAGTCGTGGACTTTGAAAAGAGATGCC
* * * *
954518 ACTGAATTGTGGACTTTGAGACA-AGATGCC
1 ACGGAGTCGTGGACTTTGA-AAAGAGATGCC
** **
954548 ACTAAGTCGTGGACTTAAAAAAGAGA
1 ACGGAGTCGTGGACTTTGAAAAGAGA
954574 GATTTGAAGA
Statistics
Matches: 148, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
27 12 0.08
28 2 0.01
29 32 0.22
30 50 0.34
31 25 0.17
33 2 0.01
34 23 0.16
35 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (30 bp):
ACGGAGTCGTGGACTTTGAAAAGAGATGCC
Found at i:958018 original size:20 final size:20
Alignment explanation
Indices: 957987--958063 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
957977 TTTTGCCTGC
* *
957987 ATGTATCAATACATTTCATA
1 ATGTATCGATACATTTCGTA
*
958007 ATATATCGATACATTTCGTA
1 ATGTATCGATACATTTCGTA
958027 ATGTATCGATACATTTCGTA
1 ATGTATCGATACATTTCGTA
958047 ATGTATCGATACATTTC
1 ATGTATCGATACATTTC
958064 CTTGGCAGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTCGTA
Found at i:958125 original size:32 final size:32
Alignment explanation
Indices: 958083--958168 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
958073 AGCTTCGTAG
*
958083 CGATACATTGTATCAATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
958115 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
958147 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
958169 TTGTTGAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:958132 original size:13 final size:13
Alignment explanation
Indices: 958110--958166 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
958100 ACAAAACTTA
*
958110 TGTATTGATACAT
1 TGTATCGATACAT
958123 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
958141 ATGTATCGATACAT
1 -TGTATCGATACAT
958155 TGTATCGATACA
1 TGTATCGATACA
958167 AATTGTTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:959010 original size:43 final size:44
Alignment explanation
Indices: 958896--959880 Score: 696
Period size: 43 Copynumber: 21.1 Consensus size: 44
958886 AAAGATGACG
* * * *
958896 AAGGCGCCAATATGCTGATTCAATGCCAGCGACATTGGTCTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A
* *
958943 TAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-A
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * *
958987 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-A-A
*
959039 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA
* * * *
959084 GGTGAAGGTGCCAATGTGCTGGTTCAAGGCCAGCGACAATGGACTTAA
1 ----AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* *
959132 AGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACAT-A
1 A-A-G-----G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * * * * *
959183 AAGGTGCCGATGTGTTGTTTCAAGGCCAGCAACATTGGTCTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A
*
959230 TAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGA
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A
*
959278 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
1 --AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* *
959324 AGATGACAAAG-GCACCAATATGCTGATTCAAGGCCAGCGATATTAGACAT-A
1 A-A-G-----GTG--CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * *
959375 AAGGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A
959422 TAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * *
959466 AAGGTGCCAATGTGCTAATTCAAGGCCAACGACATT-GATCTTAAAGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA-C-T-----T-A-A
* * * *
959518 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATGTTGGACCT-A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * * *
959561 ATGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A
*
959608 TAAGGTGCCAATATGCTGATTAAAGGCCAGCGATATTGGACTT-A
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * *
959652 AATGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * * *
959695 AAGGTGCCGATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A
* * *
959742 TAAAGTGCCAATAAGCTGATTCAAGGCCAGCGATATTGAACTT-A
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * *
959786 AAGGTGCCAATGTGTTGATTTAAGGCCAGCGACATT-GATCTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA-CTT-AA
* * *
959831 GATGAGGTGCTAATATGCTGATTCAAGGCTAGCGATATTGAACTTAA
1 -A--AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
959878 AAG
1 AAG
959881 AAGATGCCAC
Statistics
Matches: 758, Mismatches: 109, Indels: 144
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.00
43 273 0.36
44 12 0.02
45 5 0.01
46 8 0.01
47 7 0.01
48 221 0.29
49 82 0.11
50 3 0.00
51 7 0.01
52 135 0.18
53 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (44 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
Found at i:959272 original size:192 final size:191
Alignment explanation
Indices: 958847--959878 Score: 1208
Period size: 192 Copynumber: 5.5 Consensus size: 191
958837 ATGAGAAGAA
* * ** * *
958847 TGCCAATATGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAG-T---GAAGGTGCCAATGTGCT
* *
958912 GATTCAATGCCAGCGACATTGGTCTTAAAGAT----AAGGCGCCAATATGCTGATTCAAGGCCAG
61 GATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAG
* *
958973 CGATATTGGTCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAC
126 CGATATTGGACATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT---
959038 AAAGG
188 -AAGG
* *
959043 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGGTT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-GTGAAGGTGCCAATGTGCTGATT
* *
959108 CAAGGCCAGCGACAATGGACTTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGAT
65 CAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGAT
* * * *
959173 ATTGGACATAAAGGTGCCGATGTGTTGTTTCAAGGCCAGCAACATTGGTCTTAAAGATAAGG
130 ATTGGACATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
*
959235 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-TGAAGGTGCCAATGTGCTGATT
* *
959300 CAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGAT
65 CAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGAT
* *
959365 ATTAGACATAAAGGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
130 ATTGGACATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
*
959427 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A---AAGGTGCCAATGTGCTAATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGTGAAGGTGCCAATGTGCTGATTC
* *
959487 AAGGCCAACGACATT-GATCTTAAAGATGACAAAGGCGCCAATATGCTAATTCAAGGCCAGCGAT
66 AAGGCCAGCGACATTGGA-CTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGAT
* * * *
959551 GTTGGACCTAATGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAGG
130 ATTGGACATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
*
959613 TGCCAATATGCTGATTAAAGGCCAGCGATATTGGACTTAAA-T----GTGCCAATGTGCTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGTGAAGGTGCCAATGTGCTGATTC
* * * * *
959673 AAGGCCAGCGACATTGGTCTTAAAGGTG-C-----CG---ATGTGCTGATTCAAGGCCAGTGACA
66 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATA
* * ** * **
959729 TTGGTCTTAAAGATAAAGTGCCAATAAGCTGATTCAAGGCCAGCGATATTGAACTT----A-AAG
131 TTGGACATAAAG-----GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAG
959789 G
191 G
* * * * * *
959790 TGCCAATGTGTTGATTTAAGGCCAGCGACATT-GATCTTAAAGATG-AGGTGCTAATATGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGA-CTTAAAG-TGAAGGTGCCAATGTGCTGAT
* * *
959853 TCAAGGCTAGCGATATTGAACTTAAA
64 TCAAGGCCAGCGACATTGGACTTAAA
959879 AGAAGATGCC
Statistics
Matches: 744, Mismatches: 70, Indels: 58
0.85 0.08 0.07
Matches are distributed among these distances:
176 2 0.00
177 67 0.09
178 1 0.00
179 1 0.00
180 2 0.00
182 69 0.09
185 3 0.00
186 210 0.28
187 1 0.00
188 1 0.00
190 1 0.00
191 1 0.00
192 263 0.35
195 8 0.01
196 114 0.15
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (191 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGTGAAGGTGCCAATGTGCTGATTC
AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATA
TTGGACATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
Found at i:959274 original size:143 final size:141
Alignment explanation
Indices: 958896--959870 Score: 700
Period size: 143 Copynumber: 7.0 Consensus size: 141
958886 AAAGATGACG
* * * *
958896 AAGGCGCCAATATGCTGATTCAATGCCAGCGACATTGGTCTTAAAGAT-AAGGCGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCT
* * *
958960 GATTCAAGGCCAGCGATATTGGTCTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* *
959019 CATTGGTCTTAAAGATGACA
131 TATTGG------ACAT---A
* * * * * * *
959039 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCT
* * **
959104 GGTTCAAGGCCAGCGACAATGGACTTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAG
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAG
959169 CGATATTGGACATA
128 CGATATTGGACATA
* * * *
959183 AAGGTGCCGATGTGTTGTTTCAAGGCCAGCAACATTGGTCTTAAAGAT-AAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCT
* * *
959247 GATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
959312 TATTGGACTTAAAGATGACA
131 TATTGGAC------AT---A
** * * * * * *
959332 AAGGCACCAATATGCTGATTCAAGGCCAGCG--A----TATTAGACATAAAGGTGCCGATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCT
*
959391 GATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
*
959455 TATTGGACTTA
131 TATTGGACATA
* * * *
959466 AAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTGATCTTAAAGATGACAAAGGCGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT---AAAGGTGCCAATAT
* ** * * *
959531 GCTAATTCAAGGCCAGCGATGTTGGACCT--A-AT---GGTGCCAATGTGCTGATTCAAGGCCAA
63 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAG
* * *
959590 CGACATTGGTCTTAAAGA
128 CGATATTGG----ACATA
* * * * *
959608 TAAGGTGCCAATATGCTGATTAAAGGCCAGCGATATTGGACTT-AA-AT----GTGCCAATGTGC
1 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGC
* * * *
959667 TGATTCAAGGCCAGCGACATTGGTCTT----A--AAGGTGCCGATGTGCTGATTCAAGGCCAGTG
65 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * *
959726 ACATTGGTCTTA
130 ATATTGGACATA
** * **
959738 AAGATAAAGTGCCAATAAGCTGATTCAAGGCCAGCGATATT-G-----AACTTAAAGGTGCCAAT
1 AAG-----GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAAT
* * * *
959797 GTGTTGATTTAAGGCCAGCGACATT-GATCTTAAAGATG-AGGTGCTAATATGCTGATTCAAGGC
61 ATGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
*
959860 TAGCGATATTG
125 CAGCGATATTG
959871 AACTTAAAAG
Statistics
Matches: 675, Mismatches: 104, Indels: 110
0.76 0.12 0.12
Matches are distributed among these distances:
129 5 0.01
130 2 0.00
133 3 0.00
134 157 0.23
136 1 0.00
137 1 0.00
138 34 0.05
139 30 0.04
140 46 0.07
141 3 0.00
142 4 0.01
143 204 0.30
144 119 0.18
146 2 0.00
147 4 0.01
148 1 0.00
149 25 0.04
153 34 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (141 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
TATTGGACATA
Found at i:959750 original size:91 final size:89
Alignment explanation
Indices: 959564--959870 Score: 341
Period size: 91 Copynumber: 3.4 Consensus size: 89
959554 GGACCTAATG
* * *
959564 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT----A-AAGGTGCCAATGTGCTGATT
* *
959629 AAAGGCCAGCGATATTGGACTT-AA-AT-
61 AAAGGCCAGCGACATTGGTCTTAAAGATA
* * *
959655 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTGCCGATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTGCCAATGTGCTGATTAAAGG
*
959720 CCAGTGACATTGGTCTTAAAGATAAA
66 CCAGCGACATTGGTCTTAAAGAT--A
* * ** * *
959746 GTGCCAATAAGCTGATTCAAGGCCAGCGATATTGAACTTAAAGGTGCCAATGTGTTGATTTAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTGCCAATGTGCTGATTAAAGG
*
959811 CCAGCGACATTGATCTTAAAGATGA
66 CCAGCGACATTGGTCTTAAAGAT-A
* * *
959836 GGTGCTAATATGCTGATTCAAGGCTAGCGATATTG
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTG
959871 AACTTAAAAG
Statistics
Matches: 189, Mismatches: 21, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
86 36 0.19
87 3 0.02
88 2 0.01
90 1 0.01
91 147 0.78
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (89 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTGCCAATGTGCTGATTAAAGG
CCAGCGACATTGGTCTTAAAGATA
Found at i:959976 original size:33 final size:33
Alignment explanation
Indices: 959938--960238 Score: 255
Period size: 34 Copynumber: 9.2 Consensus size: 33
959928 TGGGCTTTTG
* *
959938 AAAAGGAGAAAGATGCCACGGAGTTATGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
*
959971 AAAAGG-----G-TGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* *
959998 AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGCCTTT
1 AAAA-GGAAAAAGA-TGCCACGGAGTTGTGGAC-TT
* * *
960034 AAAAAGAAAAAGGTGCCACGGAGTCGTGGA-TT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* * *
960066 --TA-GAAAAGAGATGCCACTGAGTTGTAGACTT
1 AAAAGGAAAA-AGATGCCACGGAGTTGTGGACTT
* * *
960097 ACAA-GAAAAAGGGATACCACTGAGTTGTGGACTT
1 AAAAGGAAAAA--GATGCCACGGAGTTGTGGACTT
** * *
960131 TGAAGGAAAGAGATGCCACAGAGTTGTGGACTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
*
960165 AAAAAGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* * *
960198 AAAAGGAATAAGGTGCCACGGAGTTGTAGACTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
960232 AAAAGGA
1 AAAAGGA
960239 TGCCACGGAG
Statistics
Matches: 220, Mismatches: 30, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
27 22 0.10
28 3 0.01
29 5 0.02
30 17 0.08
31 2 0.01
32 3 0.01
33 60 0.27
34 73 0.33
35 29 0.13
36 6 0.03
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.20
Consensus pattern (33 bp):
AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
Found at i:959983 original size:27 final size:27
Alignment explanation
Indices: 959951--960004 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
959941 AGGAGAAAGA
*
959951 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACAGAGTTATGGACTTAAAAGGG
*
959978 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTATGGACTTAAAAGGG
960005 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
TGCCACAGAGTTATGGACTTAAAAGGG
Found at i:960073 original size:34 final size:33
Alignment explanation
Indices: 959971--960288 Score: 201
Period size: 34 Copynumber: 9.7 Consensus size: 33
959961 TTATGGACTT
* * *
959971 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
1 AAAAAGGTGCCACAGAGTTGTGGATTTAAAA-AG
*
960005 AAAAAGAGTGCCACAGAGTTGTGGCCTTTAAAAAG
1 AAAAAG-GTGCCACAGAGTTGTGG-ATTTAAAAAG
* *
960040 AAAAAGGTGCCACGGAGTCGTGGATTT----AG
1 AAAAAGGTGCCACAGAGTTGTGGATTTAAAAAG
* * * * *
960069 AAAAGAGATGCCACTGAGTTGTAGACTT-ACAAG
1 AAAA-AGGTGCCACAGAGTTGTGGATTTAAAAAG
* * * *
960102 AAAAAGGGATACCACTGAGTTGTGGACTTT-GAAGG
1 AAAAA-GG-TGCCACAGAGTTGTGGA-TTTAAAAAG
* *
960137 AAAGAGATGCCACAGAGTTGTGGACTTTAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGA-TTTAAAAAG
* * * *
960171 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGATTTAAAAAG
* * *
960204 AATAAGGTGCCACGGAGTTGTAGACTTT-AAAAG
1 AAAAAGGTGCCACAGAGTTGTGGA-TTTAAAAAG
* * * *
960237 -----GATGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGT-GGATTTAAAAAG
*
960266 AAAAAGGTGCCACAGAGTAGTGG
1 AAAAAGGTGCCACAGAGTTGTGG
960289 GCTTTGGGAC
Statistics
Matches: 226, Mismatches: 40, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
28 18 0.08
29 12 0.05
30 18 0.08
32 1 0.00
33 63 0.28
34 76 0.34
35 32 0.14
36 6 0.03
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (33 bp):
AAAAAGGTGCCACAGAGTTGTGGATTTAAAAAG
Found at i:960148 original size:67 final size:67
Alignment explanation
Indices: 959971--960235 Score: 281
Period size: 67 Copynumber: 4.0 Consensus size: 67
959961 TTATGGACTT
* * * * *
959971 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGCCTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAAAGAGA-TGCCACAGAGTTGTAGACTTTAA
960036 AAAG
64 AAAG
* * * * *
960040 AAAAAGGTGCCACGGAGTCGTGGA-TT--TAGAAAAGAGATGCCACTGAGTTGTAGAC-TT-ACA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAGAGATGCCACAGAGTTGTAGACTTTAAAA
960100 AG
66 AG
* * ** *
960102 AAAAAGGGATACCACTGAGTTGTGGACTTTGAAGGAAAGAGATGCCACAGAGTTGTGGACTTTAA
1 AAAAA-GG-TGCCACGGAGTTGTGGACTTAAAAGGAAAGAGATGCCACAGAGTTGTAGACTTTAA
960167 AAAG
64 AAAG
* * *
960171 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAATA-AGGTGCCACGGAGTTGTAGACTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA-AGAGATGCCACAGAGTTGTAGACTTTAAA
960235 A
65 A
960236 GGATGCCACG
Statistics
Matches: 162, Mismatches: 26, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
62 9 0.06
63 4 0.02
64 29 0.18
65 9 0.06
66 1 0.01
67 74 0.46
68 6 0.04
69 30 0.19
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (67 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAGAGATGCCACAGAGTTGTAGACTTTAAAA
AG
Found at i:960259 original size:28 final size:28
Alignment explanation
Indices: 960207--960265 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
960197 TAAAAGGAAT
960207 AAGGTGCCACGGAGTTGTAGACTTT-AA
1 AAGGTGCCACGGAGTTGTAGACTTTGAA
* *
960234 AAGGATGCCACGGAGTTGTGGGCTTTGAA
1 AAGG-TGCCACGGAGTTGTAGACTTTGAA
960263 AAG
1 AAG
960266 AAAAAGGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
28 19 0.68
29 5 0.18
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.24
Consensus pattern (28 bp):
AAGGTGCCACGGAGTTGTAGACTTTGAA
Found at i:968756 original size:13 final size:13
Alignment explanation
Indices: 968738--968763 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
968728 TACAAAGATC
968738 AAATGTATCGATA
1 AAATGTATCGATA
968751 AAATGTATCGATA
1 AAATGTATCGATA
968764 CATTGAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
AAATGTATCGATA
Found at i:969734 original size:3 final size:3
Alignment explanation
Indices: 969726--969750 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
969716 CATCCTCTTG
969726 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
969751 CTTTGAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:971291 original size:18 final size:19
Alignment explanation
Indices: 971268--971308 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
971258 CATTCATTTC
*
971268 CATTAC-ATTGTATCGATA
1 CATTACTATTATATCGATA
971286 CATTACTTATTATATCGATA
1 CATTAC-TATTATATCGATA
971306 CAT
1 CAT
971309 AACTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (19 bp):
CATTACTATTATATCGATA
Done.