Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold507
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: 914714
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
File 7 of 8
Found at i:746464 original size:68 final size:67
Alignment explanation
Indices: 746348--746567 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
746338 TGGTAAAAAC
* * *
746348 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
746413 AT
66 AT
* * *
746415 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
746480 AAT
65 AAT
* * * * * *
746483 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
746548 AT
66 AT
746550 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
746568 TCTCCCACTT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:750661 original size:19 final size:19
Alignment explanation
Indices: 750639--750695 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
750629 GTACAGTAAT
*
750639 CGTATACTTGAATAGTACC
1 CGTATACGTGAATAGTACC
750658 CGTATACGTGAATAGTACC
1 CGTATACGTGAATAGTACC
**
750677 TATATACGTGAATAGTACC
1 CGTATACGTGAATAGTACC
750696 TCGACAACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (19 bp):
CGTATACGTGAATAGTACC
Found at i:751046 original size:34 final size:34
Alignment explanation
Indices: 751000--751215 Score: 278
Period size: 34 Copynumber: 6.4 Consensus size: 34
750990 GTAAAAACCA
*
751000 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
751034 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
751068 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
751102 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
751135 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
751169 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
751202 CCATTTAATCAACA
1 CCATTTAATCAACA
751216 GCGCCCAGTT
Statistics
Matches: 160, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 43 0.27
34 115 0.72
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:751114 original size:68 final size:67
Alignment explanation
Indices: 750998--751215 Score: 319
Period size: 67 Copynumber: 3.2 Consensus size: 67
750988 TGGTAAAAAC
* * *
750998 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
751063 AT
66 AT
* * *
751065 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
751130 AAT
65 AAT
* * * * * *
751133 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
751198 AT
66 AT
751200 CACCATTTAATCAACA
1 CACCATTTAATCAACA
751216 GCGCCCAGTT
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:752303 original size:20 final size:20
Alignment explanation
Indices: 752266--752310 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
752256 TAAAAGAAAT
* * * *
752266 AAAATAATAGATTCAATAGG
1 AAAATAATAAAATAAATAAG
752286 AAAATAATAAAATAAATAAG
1 AAAATAATAAAATAAATAAG
752306 AAAAT
1 AAAAT
752311 TATATTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (20 bp):
AAAATAATAAAATAAATAAG
Found at i:752896 original size:2 final size:2
Alignment explanation
Indices: 752891--752917 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
752881 TACTAATAAT
752891 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
752918 GGAAAGAGAG
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:753185 original size:50 final size:50
Alignment explanation
Indices: 753126--753288 Score: 199
Period size: 50 Copynumber: 3.3 Consensus size: 50
753116 AGTTGTTTAG
753126 AGTCAACAATTACGATCACCTTTTTCTATTGTCAAAAGTTAGTAAAGAAT
1 AGTCAACAATTACGATCACCTTTTTCTATTGTCAAAAGTTAGTAAAGAAT
*
753176 AGTCAACAATTACGATCA-CTTCTTTCTATTGTCAAAAG-TCGATGAAA-AAT
1 AGTCAACAATTACGATCACCTT-TTTCTATTGTCAAAAGTTAG-T-AAAGAAT
* * * * * *
753226 AGCCAACAATTACGA-CTACCTCTCTCTATTGTCAAATGTTGGTGAAGAAT
1 AGTCAACAATTACGATC-ACCTTTTTCTATTGTCAAAAGTTAGTAAAGAAT
753276 AGTCAACAATTAC
1 AGTCAACAATTAC
753289 TAACAATTAC
Statistics
Matches: 98, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
49 8 0.08
50 83 0.85
51 7 0.07
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (50 bp):
AGTCAACAATTACGATCACCTTTTTCTATTGTCAAAAGTTAGTAAAGAAT
Found at i:753332 original size:60 final size:60
Alignment explanation
Indices: 753230--753347 Score: 173
Period size: 60 Copynumber: 2.0 Consensus size: 60
753220 AAAAATAGCC
* * * * *
753230 AACAATTACGACTACCTCTCTCTATTGTCAAATGTTGGTGAAGAATAGTCAACAATTACT
1 AACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGATGAAGAATAATCAACAATTACT
* *
753290 AACAATTACGACCACTTCTCTCGATTGTCAAAAGTTGATGAAGAATAATTAACAATTA
1 AACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGATGAAGAATAATCAACAATTA
753348 GACCACTTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (60 bp):
AACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGATGAAGAATAATCAACAATTACT
Found at i:753380 original size:49 final size:50
Alignment explanation
Indices: 753289--753385 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 50
753279 CAACAATTAC
* *
753289 TAACAATTACGACCACTTCTCTCGATTGTCAAAAGTTGATGAAGAATAAT
1 TAACAATTACGACCACTTCTCTCGATTGTCAAAAGTTAATGAAAAATAAT
*
753339 TAACAATTA-GACCACTTCTTTCGATTGTC-AAAGATTAATGAAAAATA
1 TAACAATTACGACCACTTCTCTCGATTGTCAAAAG-TTAATGAAAAATA
753386 GTCAATAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 4 0.09
49 30 0.70
50 9 0.21
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (50 bp):
TAACAATTACGACCACTTCTCTCGATTGTCAAAAGTTAATGAAAAATAAT
Found at i:754569 original size:29 final size:29
Alignment explanation
Indices: 754527--754594 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
754517 AAATATAAAG
754527 TTTAAATATATAATTATTTAATAA-AATTTAA
1 TTTAAA-AT-TAATTATTTAATAATAA-TTAA
* *
754558 TTTAAAATTAATTTTTTATTAATAATTAA
1 TTTAAAATTAATTATTTAATAATAATTAA
754587 -TTAAAATT
1 TTTAAAATT
754595 TATTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 8 0.24
29 16 0.47
30 4 0.12
31 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTAAAATTAATTATTTAATAATAATTAA
Found at i:754964 original size:19 final size:19
Alignment explanation
Indices: 754932--754973 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
754922 GTTAAATTAT
*
754932 TATT-TATAATTTTTAATA
1 TATTATATAAATTTTAATA
*
754950 TATTATATAAATTTTAATG
1 TATTATATAAATTTTAATA
754969 TATTA
1 TATTA
754974 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTATATAAATTTTAATA
Found at i:755010 original size:19 final size:19
Alignment explanation
Indices: 754961--755017 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
754951 ATTATATAAA
754961 TTTTAATGTATTAAT-TTATT
1 TTTTAATG--TTAATATTATT
*
754981 TTTATAGTGTTAATATTATT
1 TTT-TAATGTTAATATTATT
755001 TTTTAATGTT-ATATTAT
1 TTTTAATGTTAATATTAT
755018 AATTTAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 7 0.21
19 11 0.33
20 11 0.33
21 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTTAATGTTAATATTATT
Found at i:755023 original size:18 final size:19
Alignment explanation
Indices: 754988--755025 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
754978 ATTTTTATAG
**
754988 TGTTAATATTATTTTTTAA
1 TGTTAATATTATAATTTAA
755007 TGTT-ATATTATAATTTAA
1 TGTTAATATTATAATTTAA
755025 T
1 T
755026 TATTTTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TGTTAATATTATAATTTAA
Found at i:756863 original size:2 final size:2
Alignment explanation
Indices: 756856--756886 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
756846 TAAAACATTT
756856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
756887 TTTAAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:758312 original size:18 final size:18
Alignment explanation
Indices: 758264--758314 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
758254 TTCATAAGCT
*
758264 TATTTTATTATTTAAAATA
1 TATTTTATTA-TTAAAAAA
** *
758283 TATTAAAATATTAAAAAA
1 TATTTTATTATTAAAAAA
758301 TATTTTATTATTAA
1 TATTTTATTATTAA
758315 TAATTATATA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTATTATTAAAAAA
Found at i:758516 original size:18 final size:19
Alignment explanation
Indices: 758494--758540 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
758484 TTAAAATCAA
758494 AAATTTTAATTATCATTT-T
1 AAATTTTAATTAT-ATTTCT
*
758513 -AATTTTTA-TATATTTCT
1 AAATTTTAATTATATTTCT
758530 AAATTTTAATT
1 AAATTTTAATT
758541 CTTTCAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
16 4 0.17
17 4 0.17
18 14 0.61
19 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
AAATTTTAATTATATTTCT
Found at i:770423 original size:25 final size:24
Alignment explanation
Indices: 770394--770446 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 24
770384 ATTTTCATCT
770394 TATATTATTTGAATATAAATATAAAAA
1 TATA-TATTTGAA-ATAAATA-AAAAA
*
770421 TATGATATTTTAAATAAATAAAAAA
1 TAT-ATATTTGAAATAAATAAAAAA
770446 T
1 T
770447 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
26 7 0.29
27 10 0.42
28 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
TATATATTTGAAATAAATAAAAAA
Found at i:772897 original size:1 final size:1
Alignment explanation
Indices: 772891--772916 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
772881 TACATATGGG
772891 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
772917 GCTTTTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:776509 original size:16 final size:16
Alignment explanation
Indices: 776490--776604 Score: 62
Period size: 16 Copynumber: 7.3 Consensus size: 16
776480 AATATTTAAT
776490 ATATAATATAATATAA
1 ATATAATATAATATAA
**
776506 ATAT-ATATTTTA-AA
1 ATATAATATAATATAA
* *
776520 AT-TTATATGATATAA
1 ATATAATATAATATAA
*
776535 ATTATTAATATATTA-AA
1 A-TA-TAATATAATATAA
*
776552 ATTTAA-ATAAATATAA
1 ATATAATAT-AATATAA
* *
776568 A-ATATTTTAAATATAA
1 ATATAATAT-AATATAA
* *
776584 TTATAATATAATAAAA
1 ATATAATATAATATAA
776600 ATATA
1 ATATA
776605 TTAAGATAAT
Statistics
Matches: 73, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
13 1 0.01
14 12 0.16
15 17 0.23
16 28 0.38
17 8 0.11
18 7 0.10
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.43
Consensus pattern (16 bp):
ATATAATATAATATAA
Found at i:776513 original size:20 final size:20
Alignment explanation
Indices: 776488--776621 Score: 61
Period size: 20 Copynumber: 7.0 Consensus size: 20
776478 AAAATATTTA
776488 ATATATAATATAATATAAAT
1 ATATATAATATAATATAAAT
776508 ATATAT--T-T--TA-AAAT
1 ATATATAATATAATATAAAT
* * * *
776522 TTATATGATATAA-ATTATT
1 ATATATAATATAATATAAAT
* * *
776541 A-ATATATTAAAATTTAAAT
1 ATATATAATATAATATAAAT
* * * *
776560 AAATATAAAATATTTTAAAT
1 ATATATAATATAATATAAAT
*
776580 ATAATTATAATATAATAAAAAT
1 AT-A-TATAATATAATATAAAT
* *
776602 ATAT-TAAGATAATAAAAAT
1 ATATATAATATAATATAAAT
776621 A
1 A
776622 CATAAATTGT
Statistics
Matches: 84, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
14 9 0.11
15 2 0.02
16 1 0.01
17 2 0.02
18 10 0.12
19 21 0.25
20 22 0.26
21 2 0.02
22 15 0.18
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (20 bp):
ATATATAATATAATATAAAT
Found at i:776526 original size:27 final size:27
Alignment explanation
Indices: 776496--776594 Score: 76
Period size: 32 Copynumber: 3.4 Consensus size: 27
776486 TAATATATAA
776496 TATAATATAAATATATATTTTAAAATT
1 TATAATATAAATATATATTTTAAAATT
*
776523 TATATGATATAAATTATTAATATATTAAAATT
1 TATA--ATATAAA-TA-T-ATATTTTAAAATT
*
776555 TA-AATA-AATATAAAATATTTTAAATATAAT
1 TATAATATAA-AT-ATATATTTTAAA-AT--T
776585 TATAATATAA
1 TATAATATAA
776595 TAAAAATATA
Statistics
Matches: 57, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
27 13 0.23
28 5 0.09
29 12 0.21
30 5 0.09
31 6 0.11
32 16 0.28
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
TATAATATAAATATATATTTTAAAATT
Found at i:776533 original size:39 final size:38
Alignment explanation
Indices: 776452--776547 Score: 94
Period size: 39 Copynumber: 2.5 Consensus size: 38
776442 TAATAATTTA
776452 GATATAATTATATAAATATGATTTATAAAATATTTAAT
1 GATATAATTATATAAATATGATTTATAAAATATTTAAT
*
776490 -ATATAATATAATATAAATAT-ATATT-TTAAA-ATTTATAT
1 GATATAAT-T-ATATAAATATGAT-TTATAAAATATTTA-AT
776528 GATATAAATTAT-TAATATAT
1 GATAT-AATTATATAA-ATAT
776548 TAAAATTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
37 15 0.30
38 15 0.30
39 17 0.34
40 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (38 bp):
GATATAATTATATAAATATGATTTATAAAATATTTAAT
Found at i:776556 original size:32 final size:29
Alignment explanation
Indices: 776495--776572 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 29
776485 TTAATATATA
*
776495 ATATAATATAAATATATATTTTAAAATTT
1 ATATAATATAAATATATATATTAAAATTT
*
776524 ATATGATATAAATTATTAATATATTAAAATTT
1 ATATAATATAAA-TA-T-ATATATTAAAATTT
*
776556 AAATAAATATAAA-ATAT
1 ATAT-AATATAAATATAT
776573 TTTAAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 13 0.32
30 3 0.07
31 2 0.05
32 16 0.39
33 7 0.17
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATAATATAAATATATATATTAAAATTT
Found at i:777135 original size:21 final size:20
Alignment explanation
Indices: 777111--777149 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
777101 ATAATATGAA
777111 AATTAAAAAGAATATAAATAT
1 AATTAAAAAGAAT-TAAATAT
* *
777132 AATTTAAATGAATTAAAT
1 AATTAAAAAGAATTAAAT
777150 TTTATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAAAAAGAATTAAATAT
Found at i:779737 original size:13 final size:15
Alignment explanation
Indices: 779719--779756 Score: 53
Period size: 13 Copynumber: 2.6 Consensus size: 15
779709 GATTTAATAA
779719 TTTATATAT-T-TAT
1 TTTATATATGTATAT
779732 TTTATATATGTATAT
1 TTTATATATGTATAT
779747 TTTATTATAT
1 TTTA-TATAT
779757 AATAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 1 0.05
15 7 0.32
16 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTATATATGTATAT
Found at i:781638 original size:13 final size:13
Alignment explanation
Indices: 781569--781640 Score: 58
Period size: 13 Copynumber: 5.3 Consensus size: 13
781559 TAAATACTAA
781569 TTATAATGTAATA-
1 TTATAAT-TAATAT
781582 TTATAATT-ATATT
1 TTATAATTAATA-T
*
781595 TTATAATTATATTTTT
1 TTATAATTA-A--TAT
* *
781611 TTATTATCAATAT
1 TTATAATTAATAT
781624 TTATAATTAATAT
1 TTATAATTAATAT
781637 TTAT
1 TTAT
781641 TTTAATTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
11 3 0.06
12 1 0.02
13 32 0.68
15 2 0.04
16 8 0.17
17 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (13 bp):
TTATAATTAATAT
Found at i:782280 original size:24 final size:25
Alignment explanation
Indices: 782241--782288 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
782231 AAATATGGAG
782241 GCTTGTTTATTTGTCAAAATTGGTA
1 GCTTGTTTATTTGTCAAAATTGGTA
*
782266 GCTTG-TTGTTTGTCAAAATTGGT
1 GCTTGTTTATTTGTCAAAATTGGT
782289 GGCTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.21, C:0.08, G:0.23, T:0.48
Consensus pattern (25 bp):
GCTTGTTTATTTGTCAAAATTGGTA
Found at i:786822 original size:28 final size:27
Alignment explanation
Indices: 786764--786832 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
786754 CACCCATTTG
*
786764 TTTGTCAAAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGGTGGTTATTTTGTA
786791 TTTGTCAAAAATGGTGGTT-TCCTTTGTA
1 TTTGTCAAAAATGGTGGTTAT--TTTGTA
* *
786819 TTTGTTAAATATGG
1 TTTGTCAAAAATGG
786833 AAGCTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.51
28 17 0.46
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTGTA
Found at i:786874 original size:24 final size:25
Alignment explanation
Indices: 786835--786886 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
786825 AAATATGGAA
786835 GCTTGTTTATTTGTCAAAATTAGTG
1 GCTTGTTTATTTGTCAAAATTAGTG
* *
786860 GCTTG-TTGTTTGTCAAAATTGGTG
1 GCTTGTTTATTTGTCAAAATTAGTG
786884 GCT
1 GCT
786887 AATTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.46
Consensus pattern (25 bp):
GCTTGTTTATTTGTCAAAATTAGTG
Found at i:789379 original size:30 final size:31
Alignment explanation
Indices: 789319--789379 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
789309 TTTTGTCGGT
* * *
789319 ATATGACAAAAAATAGCGAGGAGAGTACTAA
1 ATATGACAAAAAATAGCGACGACAGCACTAA
*
789350 ATATGAC-AAAAATAGTGACGACAGCACTAA
1 ATATGACAAAAAATAGCGACGACAGCACTAA
789380 CGAAATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.51, C:0.13, G:0.20, T:0.16
Consensus pattern (31 bp):
ATATGACAAAAAATAGCGACGACAGCACTAA
Found at i:789758 original size:17 final size:18
Alignment explanation
Indices: 789719--789758 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
789709 GACGAGTTTT
789719 TATTTTTAATAAAATTAA
1 TATTTTTAATAAAATTAA
789737 T-TTTTT-A-AAAATATAA
1 TATTTTTAATAAAAT-TAA
789753 TATTTT
1 TATTTT
789759 ATAGTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.25
16 5 0.25
17 9 0.45
18 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTTTAATAAAATTAA
Found at i:801310 original size:16 final size:16
Alignment explanation
Indices: 801291--801405 Score: 62
Period size: 16 Copynumber: 7.3 Consensus size: 16
801281 AATATTTAAT
801291 ATATAATATAATATAA
1 ATATAATATAATATAA
*
801307 ATAT-ATAT--TTTAA
1 ATATAATATAATATAA
* * *
801320 ATTTTATATGATATAA
1 ATATAATATAATATAA
*
801336 ATTATTAATATATTA-AA
1 A-TA-TAATATAATATAA
*
801353 ATTTAA-ATAAATATAA
1 ATATAATAT-AATATAA
* *
801369 A-ATATTTTAAATATAA
1 ATATAATAT-AATATAA
* *
801385 TTATAATATAATAAAA
1 ATATAATATAATATAA
801401 ATATA
1 ATATA
801406 TTAAGATAAT
Statistics
Matches: 73, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
13 7 0.10
14 6 0.08
15 12 0.16
16 32 0.44
17 9 0.12
18 7 0.10
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (16 bp):
ATATAATATAATATAA
Found at i:801334 original size:39 final size:38
Alignment explanation
Indices: 801253--801348 Score: 94
Period size: 39 Copynumber: 2.5 Consensus size: 38
801243 TAATAATTTA
801253 GATATAATTATATAAATATGATTTATAAAATATTTAAT
1 GATATAATTATATAAATATGATTTATAAAATATTTAAT
*
801291 -ATATAATATAATATAAATAT-ATATT-TTAAAT-TTTATAT
1 GATATAAT-T-ATATAAATATGAT-TTATAAAATATTTA-AT
801329 GATATAAATTAT-TAATATAT
1 GATAT-AATTATATAA-ATAT
801349 TAAAATTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
37 14 0.28
38 16 0.32
39 17 0.34
40 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (38 bp):
GATATAATTATATAAATATGATTTATAAAATATTTAAT
Found at i:801939 original size:21 final size:20
Alignment explanation
Indices: 801915--801953 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
801905 ATAATATGAA
801915 AATTAAAAAGAATATAAATAT
1 AATTAAAAAGAAT-TAAATAT
* *
801936 AATTTAAATGAATTAAAT
1 AATTAAAAAGAATTAAAT
801954 TTTATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAAAAAGAATTAAATAT
Found at i:804538 original size:13 final size:15
Alignment explanation
Indices: 804520--804557 Score: 53
Period size: 13 Copynumber: 2.6 Consensus size: 15
804510 AATTTAATAA
804520 TTTATATAT-T-TAT
1 TTTATATATGTATAT
804533 TTTATATATGTATAT
1 TTTATATATGTATAT
804548 TTTATTATAT
1 TTTA-TATAT
804558 AATAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 1 0.05
15 7 0.32
16 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTATATATGTATAT
Found at i:806438 original size:13 final size:13
Alignment explanation
Indices: 806369--806440 Score: 58
Period size: 13 Copynumber: 5.3 Consensus size: 13
806359 TAAATACTAA
806369 TTATAATGTAATA-
1 TTATAAT-TAATAT
806382 TTATAATT-ATATT
1 TTATAATTAATA-T
*
806395 TTATAATTATATTTTT
1 TTATAATTA-A--TAT
* *
806411 TTATTATCAATAT
1 TTATAATTAATAT
806424 TTATAATTAATAT
1 TTATAATTAATAT
806437 TTAT
1 TTAT
806441 TTTAATTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
11 3 0.06
12 1 0.02
13 32 0.68
15 2 0.04
16 8 0.17
17 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (13 bp):
TTATAATTAATAT
Found at i:816189 original size:21 final size:20
Alignment explanation
Indices: 816157--816199 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
816147 TTTAATATAT
*
816157 TTATATATTAAAATATAATTA
1 TTATATATTAAAA-ATAAATA
816178 TTATAGTA-TAAAAATAAATA
1 TTATA-TATTAAAAATAAATA
816198 TT
1 TT
816200 TCAAGTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 10 0.50
22 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTATATATTAAAAATAAATA
Found at i:816469 original size:18 final size:15
Alignment explanation
Indices: 816422--816480 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
816412 AAATTTTATA
*
816422 TAAA-ATAAAT-TAT
1 TAAATATAAATATTT
816435 TAATATATCAAA-ATTT
1 TAA-ATAT-AAATATTT
816451 ATAAATATATAATATTT
1 -TAAATATA-AATATTT
816468 TAAATATAAATAT
1 TAAATATAAATAT
816481 AAAAAAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 3 0.08
14 1 0.03
15 8 0.21
16 19 0.50
17 7 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATATAAATATTT
Found at i:816471 original size:16 final size:17
Alignment explanation
Indices: 816431--816480 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
816421 ATAAAATAAA
* *
816431 TTATTAATATATCAAAAT
1 TTATAAATATAT-AATAT
816449 TTATAAATATATAATAT
1 TTATAAATATATAATAT
816466 TT-TAAATATA-AATAT
1 TTATAAATATATAATAT
816481 AAAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 5 0.17
16 8 0.27
17 6 0.20
18 11 0.37
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATAAATATATAATAT
Found at i:816938 original size:30 final size:31
Alignment explanation
Indices: 816904--816961 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
816894 TTTTATTATT
*
816904 TATATTTT-TTTATAATTA-AATTTAAATAAA
1 TATATTTTATTTA-AATAATAATTTAAATAAA
816934 TATATTTTATTTAAATAATAATTTAAAT
1 TATATTTTATTTAAATAATAATTTAAAT
816962 TGAACTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TATATTTTATTTAAATAATAATTTAAATAAA
Found at i:819860 original size:17 final size:17
Alignment explanation
Indices: 819840--819885 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
819830 ATTTATAATT
819840 TTTATTAAA-AATATTTA
1 TTTATTAAATAA-ATTTA
819857 TTTATTAAATAAATTTA
1 TTTATTAAATAAATTTA
*
819874 ATTATTAAATAA
1 TTTATTAAATAA
819886 TTTTTAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATTAAATAAATTTA
Found at i:820027 original size:14 final size:14
Alignment explanation
Indices: 819994--820020 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
819984 AATCAAAGGT
819994 TTTTTATTTTATAA
1 TTTTTATTTTATAA
820008 TTTTTATTTTATA
1 TTTTTATTTTATA
820021 TTATTTAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATTTTATAA
Found at i:820102 original size:26 final size:26
Alignment explanation
Indices: 820073--820126 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
820063 ATTTATACTT
*
820073 AATAT-ATATTTGAATTTAAATATAAA
1 AATATAATATTTGAA-ATAAATATAAA
* *
820099 AATATAATTTTTTAAATAAATATAAA
1 AATATAATATTTGAAATAAATATAAA
820125 AA
1 AA
820127 CTTAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
AATATAATATTTGAAATAAATATAAA
Found at i:825161 original size:78 final size:78
Alignment explanation
Indices: 825079--825249 Score: 288
Period size: 78 Copynumber: 2.2 Consensus size: 78
825069 AAATTTACTA
* *
825079 AATATCATTAGATATATATATATATAAACTGGATTAAATTTTGTATTCAAAAAAAACATATTCAT
1 AATATCATTACACATATATATATATAAACTGGATTAAATTTTGTATTCAAAAAAAACATATTCAT
825144 ATTAATATTAAAT
66 ATTAATATTAAAT
* *
825157 AATATTATTTCACATATATATATATAAACTGGATTAAATTTTGTATTCAAAAAAAACATATTCAT
1 AATATCATTACACATATATATATATAAACTGGATTAAATTTTGTATTCAAAAAAAACATATTCAT
825222 ATTAATATTAAAT
66 ATTAATATTAAAT
* *
825235 AATATTATTTCACAT
1 AATATCATTACACAT
825250 CAATTTAATT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 89 1.00
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (78 bp):
AATATCATTACACATATATATATATAAACTGGATTAAATTTTGTATTCAAAAAAAACATATTCAT
ATTAATATTAAAT
Found at i:825776 original size:29 final size:27
Alignment explanation
Indices: 825711--825785 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
825701 AATTATTGTT
* * *
825711 ATTAAATTTAATAATTTATGTATTCGA
1 ATTATATTTAATATTTTATGTATTAGA
* *
825738 ATTGTATTTATATATTTTATCGTATTATA
1 ATTATATTTA-ATATTTTAT-GTATTAGA
825767 ATTATATTTAATATTTTAT
1 ATTATATTTAATATTTTAT
825786 ATTTATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.20
28 17 0.43
29 15 0.38
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (27 bp):
ATTATATTTAATATTTTATGTATTAGA
Found at i:826278 original size:13 final size:14
Alignment explanation
Indices: 826260--826293 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
826250 ATTTTAAATT
826260 TTATTAAA-TTATA
1 TTATTAAATTTATA
*
826273 TTATTAAATTTTTA
1 TTATTAAATTTATA
826287 TTATTAA
1 TTATTAA
826294 TAAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTAAATTTATA
Found at i:826925 original size:28 final size:27
Alignment explanation
Indices: 826859--826925 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 27
826849 TAATTTATAT
*
826859 TAAT-ATTTATATATTTTATTATTAAA
1 TAATAATTTAAATATTTTATTATTAAA
* **
826885 T-TTAAATAAAAATAATTTTATTATTAAA
1 TAAT-AATTTAAAT-ATTTTATTATTAAA
826913 TAATAATTTAAAT
1 TAATAATTTAAAT
826926 TAAATTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 5 0.17
28 22 0.73
29 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATAATTTAAATATTTTATTATTAAA
Found at i:826932 original size:22 final size:22
Alignment explanation
Indices: 826880--826935 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 22
826870 TATTTTATTA
826880 TTAAATTTAAA-TAAA-AATAAT
1 TTAAA-TTAAATTAAATAATAAT
*
826901 TT-TATT--ATTAAATAATAAT
1 TTAAATTAAATTAAATAATAAT
826920 TTAAATTAAATTAAAT
1 TTAAATTAAATTAAAT
826936 TATTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
17 1 0.04
18 4 0.14
19 10 0.36
20 4 0.14
21 2 0.07
22 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAATTAAATTAAATAATAAT
Found at i:828569 original size:17 final size:18
Alignment explanation
Indices: 828537--828575 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
828527 ATATATAATG
828537 ATAAATTAATTCATTTGA
1 ATAAATTAATTCATTTGA
* *
828555 ATAAA-TAATTTATTTGG
1 ATAAATTAATTCATTTGA
828572 ATAA
1 ATAA
828576 TAAATGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (18 bp):
ATAAATTAATTCATTTGA
Found at i:830279 original size:28 final size:33
Alignment explanation
Indices: 830248--830339 Score: 88
Period size: 33 Copynumber: 2.9 Consensus size: 33
830238 TTTTATAATT
830248 ATTTTTAAAATA-TAAT-A-T-AT-TTATATAA
1 ATTTTTAAAATATTAATAATTAATATTATATAA
*
830276 ATTTTTAATATATTAATAATTAATATTATATAA
1 ATTTTTAAAATATTAATAATTAATATTATATAA
** * *
830309 A-TTTTAATTTATTTATATATTTATATTATAT
1 ATTTTTAAAATATTAATA-ATTAATATTATAT
830340 TTAAGTTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.20
29 4 0.07
30 1 0.02
31 1 0.02
32 16 0.30
33 21 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
ATTTTTAAAATATTAATAATTAATATTATATAA
Found at i:830305 original size:18 final size:18
Alignment explanation
Indices: 830284--830340 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
830274 AAATTTTTAA
830284 TATATTAATAATTAATAT
1 TATATTAATAATTAATAT
* *
830302 TATATAAAT-TTTAAT-T
1 TATATTAATAATTAATAT
*
830318 TAT-TT-ATATATTTATAT
1 TATATTAATA-ATTAATAT
830335 TATATT
1 TATATT
830341 TAAGTTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 2 0.07
15 1 0.03
16 8 0.27
17 9 0.30
18 10 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTAATAATTAATAT
Found at i:830309 original size:33 final size:33
Alignment explanation
Indices: 830268--830339 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
830258 TATAATATAT
830268 TTATATAAATTTTTAATATATTAATA-ATTAATA
1 TTATATAAA-TTTTAATATATTAATATATTAATA
* * *
830301 TTATATAAATTTTAATTTATTTATATATTTATA
1 TTATATAAATTTTAATATATTAATATATTAATA
830334 TTATAT
1 TTATAT
830340 TTAAGTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 14 0.40
33 21 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TTATATAAATTTTAATATATTAATATATTAATA
Found at i:830479 original size:16 final size:16
Alignment explanation
Indices: 830458--830513 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
830448 AGATTAAAAA
830458 TTAAATTAAATTTTAT
1 TTAAATTAAATTTTAT
*
830474 TTAAATTATTATTTTAT
1 TTAAATTA-AATTTTAT
830491 TAATAAA-T-AATTTTAT
1 T--TAAATTAAATTTTAT
*
830507 TCAAATT
1 TTAAATT
830514 TATTAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 3 0.09
15 1 0.03
16 16 0.48
17 8 0.24
18 1 0.03
19 4 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATTAAATTTTAT
Found at i:832915 original size:22 final size:21
Alignment explanation
Indices: 832862--832915 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
832852 TTATTTAAAT
* *
832862 TAATTAATTTTTAATTTTTTA
1 TAATTAAATTTTAATTTTTCA
*
832883 CAATTTAAAATTTTAATTTTTCA
1 TAA-TT-AAATTTTAATTTTTCA
832906 TAATTCAAAT
1 TAATT-AAAT
832916 ACATATAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.08
22 8 0.31
23 16 0.62
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATTAAATTTTAATTTTTCA
Found at i:832962 original size:29 final size:28
Alignment explanation
Indices: 832908--832966 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
832898 ATTTTTCATA
**
832908 ATTCAAATACATATAATCATTTAAAAATT
1 ATTCAAATACATATAAT-AAGTAAAAATT
832937 ATTCAAATATCATAT-ATAAGTAAAAATT
1 ATTCAAATA-CATATAATAAGTAAAAATT
832965 AT
1 AT
832967 ATTTATAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 11 0.41
30 5 0.19
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (28 bp):
ATTCAAATACATATAATAAGTAAAAATT
Found at i:832968 original size:22 final size:22
Alignment explanation
Indices: 832943--832984 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
832933 AATTATTCAA
832943 ATATCATATA-TAAGTAAAAATT
1 ATAT-ATATAGTAAGTAAAAATT
*
832965 ATATTTATAGTAAGTAAAAA
1 ATATATATAGTAAGTAAAAA
832985 AAAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
ATATATATAGTAAGTAAAAATT
Found at i:834379 original size:14 final size:14
Alignment explanation
Indices: 834334--834381 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
834324 AACTTAAATT
*
834334 TTATATAAATTTGA
1 TTATATAAATTTTA
834348 TTA-AT-AATTTATA
1 TTATATAAATTT-TA
834361 TTATATAAATTTTA
1 TTATATAAATTTTA
*
834375 ATATATA
1 TTATATA
834382 TATATATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 5 0.17
13 6 0.21
14 13 0.45
15 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TTATATAAATTTTA
Found at i:834387 original size:27 final size:27
Alignment explanation
Indices: 834334--834390 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
834324 AACTTAAATT
* *
834334 TTATATAAATTTGATTAATAATTTATA
1 TTATATAAATTTGAATAATAATATATA
*
834361 TTATATAAATTTTAATATATATATATATA
1 TTATATAAATTTGAATA-ATA-ATATATA
834390 T
1 T
834391 GATCATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.60
28 3 0.12
29 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTATATAAATTTGAATAATAATATATA
Found at i:834416 original size:12 final size:12
Alignment explanation
Indices: 834395--834423 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
834385 ATATATGATC
834395 ATATTATATTTT
1 ATATTATATTTT
834407 ATATTATATTTT
1 ATATTATATTTT
834419 A-ATTA
1 ATATTA
834424 AAAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATATTATATTTT
Found at i:835095 original size:37 final size:37
Alignment explanation
Indices: 835040--835143 Score: 104
Period size: 37 Copynumber: 2.7 Consensus size: 37
835030 TGATTTAAAA
*
835040 AAAAATTATTTTTTCTT-AAAAAATATCAATCTTTTTT
1 AAAAATTATTTTTCCTTAAAAAAATATCAA-CTTTTTT
**
835077 AAAAATTGA-TTTTCCTTAAAAAAATATCAACTTTCATAA
1 AAAAATT-ATTTTTCCTTAAAAAAATATCAACTTT--TTT
835116 AAAAATTATTGATTTCTCTTAAAAAAAT
1 AAAAATTATT--TTTC-CTTAAAAAAAT
835144 TATTCTTCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
37 18 0.32
38 14 0.25
39 9 0.16
41 4 0.07
42 11 0.20
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (37 bp):
AAAAATTATTTTTCCTTAAAAAAATATCAACTTTTTT
Found at i:835152 original size:20 final size:20
Alignment explanation
Indices: 835038--835152 Score: 57
Period size: 20 Copynumber: 5.8 Consensus size: 20
835028 TCTGATTTAA
*
835038 AAAAAAATTATT-TTTTCTT
1 AAAAAAATTATTCTTCTCTT
* *
835057 AAAAAATATCAATCTT-T-TT
1 AAAAAA-ATTATTCTTCTCTT
*
835076 -TAAAAATTGATT-TTC-CTT
1 AAAAAAATT-ATTCTTCTCTT
* *
835094 AAAAAAA-TATCAACTT-TCAT
1 AAAAAAATTAT--TCTTCTCTT
*
835114 AAAAAAATTATTGATTTCTCTT
1 AAAAAAATTATT--CTTCTCTT
835136 AAAAAAATTATTCTTCT
1 AAAAAAATTATTCTTCT
835153 TAAAACTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 27
0.64 0.11 0.25
Matches are distributed among these distances:
17 6 0.09
18 9 0.13
19 13 0.19
20 20 0.29
21 7 0.10
22 15 0.21
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAAAAATTATTCTTCTCTT
Found at i:835765 original size:15 final size:16
Alignment explanation
Indices: 835745--835785 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
835735 GTATCACTTG
*
835745 TTAATTAAAT-TTTTT
1 TTAATTAAATAATTTT
835760 TTAATTAAATAATTTT
1 TTAATTAAATAATTTT
*
835776 TCAATTAAAT
1 TTAATTAAAT
835786 GCATAACCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTAAATAATTTT
Found at i:838361 original size:21 final size:21
Alignment explanation
Indices: 838325--838382 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
838315 AGTTGACTCA
*
838325 TTAAAATTATTAAAAATTTATTT
1 TTAAAA-TA-TAAAAATATATTT
*
838348 TTAAAATATAAAAAAATATTT
1 TTAAAATATAAAAATATATTT
*
838369 TTAAAA-ATACAAAT
1 TTAAAATATAAAAAT
838383 CTGATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 6 0.19
21 17 0.55
22 2 0.06
23 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAATATAAAAATATATTT
Found at i:841512 original size:21 final size:21
Alignment explanation
Indices: 841488--841534 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
841478 ATCAAAATTT
*
841488 ATATAAATATAAAATAATTAA
1 ATATAAATATAAAATAATAAA
* *
841509 ATATAATTATAATATAATAAA
1 ATATAAATATAAAATAATAAA
841530 ATATA
1 ATATA
841535 TAAATATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATATAAATATAAAATAATAAA
Found at i:841514 original size:10 final size:10
Alignment explanation
Indices: 841497--841534 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
841487 TATATAAATA
841497 TAAA-ATAAT
1 TAAATATAAT
841506 TAAATATAAT
1 TAAATATAAT
841516 TATAATATAAT
1 TA-AATATAAT
*
841527 AAAATATA
1 TAAATATA
841535 TAAATATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 4 0.15
10 13 0.50
11 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAATATAAT
Found at i:841540 original size:44 final size:45
Alignment explanation
Indices: 841461--841546 Score: 115
Period size: 44 Copynumber: 1.9 Consensus size: 45
841451 AATATATATA
841461 AAATAAATTATTAATTAATCAAAATTTATATAAATATAAAATAATT
1 AAATAAATTATTAATTAATCAAAA-TTATATAAATATAAAATAATT
*
841507 AAATATAATTA-TAATATAAT-AAAA-TATATAAATATGAAAT
1 AAATA-AATTATTAAT-TAATCAAAATTATATAAATATAAAAT
841547 GAATGTACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
44 15 0.41
46 13 0.35
47 9 0.24
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (45 bp):
AAATAAATTATTAATTAATCAAAATTATATAAATATAAAATAATT
Found at i:841598 original size:18 final size:18
Alignment explanation
Indices: 841575--841609 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
841565 ATCGAATAAT
*
841575 AATAATCGGCTATCAATC
1 AATAATCGGCGATCAATC
*
841593 AATAATTGGCGATCAAT
1 AATAATCGGCGATCAAT
841610 GACAATTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (18 bp):
AATAATCGGCGATCAATC
Found at i:843358 original size:13 final size:13
Alignment explanation
Indices: 843337--843371 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
843327 CTGACAAAAC
843337 AATAATATTTTAA
1 AATAATATTTTAA
843350 TAA-AATATTTTAA
1 -AATAATATTTTAA
843363 AATAATATT
1 AATAATATT
843372 ATTTTGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 16 0.80
14 2 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATAATATTTTAA
Found at i:844420 original size:16 final size:16
Alignment explanation
Indices: 844374--844425 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
844364 CAGGTTAATC
844374 AAATTTTAATTGTTT-
1 AAATTTTAATTGTTTA
* *
844389 ATATTTTAAAAT-TTTA
1 AAATTTT-AATTGTTTA
844405 AAATTTTAATTGTTTA
1 AAATTTTAATTGTTTA
*
844421 TAATT
1 AAATT
844426 CAAATACATA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
AAATTTTAATTGTTTA
Found at i:846558 original size:18 final size:20
Alignment explanation
Indices: 846522--846558 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
846512 TCATTTTTTT
846522 AAATATTAATTTTTCTAAAA
1 AAATATTAATTTTTCTAAAA
846542 AAATATT-ATTTTT-TAAA
1 AAATATTAATTTTTCTAAA
846559 TTAATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATTAATTTTTCTAAAA
Found at i:849872 original size:13 final size:13
Alignment explanation
Indices: 849856--849921 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
849846 TAAATAATTT
849856 TTTTAAAATTTAA
1 TTTTAAAATTTAA
*
849869 TTTT-AAATAT-A
1 TTTTAAAATTTAA
849880 TTTTAAAATATTAA
1 TTTTAAAAT-TTAA
* * * *
849894 TATAAAAATCTAT
1 TTTTAAAATTTAA
849907 TTTTAAAATCTTAA
1 TTTTAAAAT-TTAA
849921 T
1 T
849922 ATAATTTTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
11 5 0.13
12 9 0.23
13 14 0.36
14 11 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAAATTTAA
Found at i:849875 original size:26 final size:27
Alignment explanation
Indices: 849841--849925 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
849831 TTATTATTTT
849841 ATTAGTAAATAATTTTTTTAAAAT-TTA
1 ATTA-TAAATAATTTTTTTAAAATATTA
* *
849868 ATTTTAAAT-A-TATTTTAAAATATTA
1 ATTATAAATAATTTTTTTAAAATATTA
*
849893 A-TATAAA-AATCTATTTTTAAAATCTTA
1 ATTATAAATAAT-T-TTTTTAAAATATTA
849920 A-TATAA
1 ATTATAA
849926 TTTTGTAGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
24 16 0.33
25 5 0.10
26 6 0.12
27 21 0.44
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (27 bp):
ATTATAAATAATTTTTTTAAAATATTA
Found at i:849920 original size:27 final size:26
Alignment explanation
Indices: 849855--849925 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
849845 GTAAATAATT
**
849855 TTTTTAAAATTTAAT-TTTAAATATA
1 TTTTTAAAATTTAATATAAAAATATA
*
849880 -TTTTAAAATATTAATATAAAAATCTA
1 TTTTTAAAAT-TTAATATAAAAATATA
849906 TTTTTAAAATCTTAATATAA
1 TTTTTAAAAT-TTAATATAA
849926 TTTTGTAGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.23
25 5 0.13
26 7 0.18
27 18 0.46
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTTTAAAATTTAATATAAAAATATA
Found at i:851351 original size:2 final size:2
Alignment explanation
Indices: 851344--851387 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
851334 TGGGTCGAGT
* *
851344 TA TA TA TA TA TA TA TA TA T- TG TG 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
851385 TA T
1 TA T
851388 TGTTGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (2 bp):
TA
Found at i:851620 original size:3 final size:3
Alignment explanation
Indices: 851612--851654 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
851602 TTCTCACATG
*
851612 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
851655 TGGACTCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:853204 original size:27 final size:27
Alignment explanation
Indices: 853174--853227 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
853164 GATTTAGCTT
853174 TATTTAAATT-ATTATTAATAATAAAAA
1 TATTTAAATTAATT-TTAATAATAAAAA
* *
853201 TATTTAATTTAATTTTAATTATAAAAA
1 TATTTAAATTAATTTTAATAATAAAAA
853228 ATATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTAAATTAATTTTAATAATAAAAA
Found at i:854248 original size:12 final size:11
Alignment explanation
Indices: 854206--854248 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
854196 CTCGAGTCTC
854206 CTTTTTT-TTT
1 CTTTTTTCTTT
854216 -TTTTTTCTTT
1 CTTTTTTCTTT
854226 CTTTCTTTCTTT
1 CTTT-TTTCTTT
854238 CTTTTTCTCTT
1 CTTTTT-TCTT
854249 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.21
10 3 0.10
11 5 0.17
12 15 0.52
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:857632 original size:64 final size:64
Alignment explanation
Indices: 857557--857694 Score: 240
Period size: 64 Copynumber: 2.2 Consensus size: 64
857547 TTCTCCTCCA
*
857557 AAACAATCATAACCTTATTCCATCAAGCTGCCATTGGCTTCAGCCTAGAAATCAGTTTCTCAGC
1 AAACAATCATAACCTTATTCCATCAAGCAGCCATTGGCTTCAGCCTAGAAATCAGTTTCTCAGC
* * *
857621 AGACAATCATAACTTTATTCCATCCAGCAGCCATTGGCTTCAGCCTAGAAATCAGTTTCTCAGC
1 AAACAATCATAACCTTATTCCATCAAGCAGCCATTGGCTTCAGCCTAGAAATCAGTTTCTCAGC
857685 AAACAATCAT
1 AAACAATCAT
857695 GCCCTGTAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (64 bp):
AAACAATCATAACCTTATTCCATCAAGCAGCCATTGGCTTCAGCCTAGAAATCAGTTTCTCAGC
Found at i:858320 original size:18 final size:19
Alignment explanation
Indices: 858288--858323 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
858278 ATTTATCTCG
*
858288 TAATCATATTTATAATTTT
1 TAATCATATTAATAATTTT
858307 TAAT-ATATTAATAATTT
1 TAATCATATTAATAATTT
858324 ATATTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATCATATTAATAATTTT
Found at i:861020 original size:2 final size:2
Alignment explanation
Indices: 861013--861040 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
861003 ATTGCAAGAA
861013 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
861041 GTTATTAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:861434 original size:27 final size:27
Alignment explanation
Indices: 861404--861499 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
861394 TCAATATATA
861404 ATATAATATAAATATATTTTTAAAATT
1 ATATAATATAAATATATTTTTAAAATT
* *
861431 ATATAAAATAAATTATTAATATATTAAAATTT
1 ATATAATATAAA-TA-T-AT-TTTTAAAA-TT
*
861463 ATATAAATATAAA-ATA-TTTTAAATATA
1 ATAT-AATATAAATATATTTTTAAA-ATT
861490 ATTATAATAT
1 A-TATAATAT
861500 GATAAAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
27 24 0.43
28 6 0.11
29 2 0.04
30 3 0.05
31 8 0.14
32 6 0.11
33 7 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
ATATAATATAAATATATTTTTAAAATT
Found at i:861434 original size:32 final size:31
Alignment explanation
Indices: 861398--861512 Score: 98
Period size: 32 Copynumber: 3.7 Consensus size: 31
861388 AAATATTCAA
861398 TATATAATATAATATAAATATATTTTTAAAAT
1 TATATAATATAATATAAATATA-TTTTAAAAT
* *
861430 TATATAAAATAAATTATTAATATA--TTAAAAT
1 TATATAATAT-AA-TATAAATATATTTTAAAAT
861461 T-TAT-ATA-AATATAAA-ATATTTTAAATAT
1 TATATAATATAATATAAATATATTTTAAA-AT
* * *
861489 AATTATAATATGATAAAAATATAT
1 TA-TATAATATAATATAAATATAT
861513 CAACATATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
25 3 0.05
26 5 0.08
27 7 0.11
28 2 0.03
29 2 0.03
30 6 0.09
31 11 0.17
32 15 0.23
33 6 0.09
34 9 0.14
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (31 bp):
TATATAATATAATATAAATATATTTTAAAAT
Found at i:861464 original size:18 final size:17
Alignment explanation
Indices: 861424--861490 Score: 58
Period size: 16 Copynumber: 4.2 Consensus size: 17
861414 AATATATTTT
861424 TAAAA-TTATATAAA-A
1 TAAAATTTATATAAATA
861439 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
861454 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
861472 TAAAATATT-T-TAAATA
1 TAAAAT-TTATATAAATA
861488 TAA
1 TAA
861491 TTATAATATG
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.07
14 8 0.18
15 2 0.04
16 10 0.22
17 10 0.22
18 9 0.20
19 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:862137 original size:25 final size:25
Alignment explanation
Indices: 862096--862153 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
862086 TTTATATCAT
*
862096 ATCATATTTTAAATACCCTACCCAA
1 ATCATATTCTAAATACCCTACCCAA
* * *
862121 ATCATATTCTAATTACCTTATCCAA
1 ATCATATTCTAAATACCCTACCCAA
862146 ATCATATT
1 ATCATATT
862154 ACTTGTGACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (25 bp):
ATCATATTCTAAATACCCTACCCAA
Found at i:863280 original size:19 final size:18
Alignment explanation
Indices: 863258--863294 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
863248 CAAACCCAAG
863258 TGCTTAAAAAAAACATAAA
1 TGCTTAAAAAAAA-ATAAA
863277 TGCTTAAAAAAAAATAAA
1 TGCTTAAAAAAAAATAAA
863295 AAAACATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (18 bp):
TGCTTAAAAAAAAATAAA
Found at i:863303 original size:28 final size:28
Alignment explanation
Indices: 863264--863322 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
863254 CAAGTGCTTA
863264 AAAAAAACATAAATGCTTAAAAAAAAAT
1 AAAAAAACATAAATGCTTAAAAAAAAAT
863292 AAAAAAACATAAATGCTTAAAAAAAAAT
1 AAAAAAACATAAATGCTTAAAAAAAAAT
863320 AAA
1 AAA
863323 GAGTCAAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (28 bp):
AAAAAAACATAAATGCTTAAAAAAAAAT
Found at i:863314 original size:18 final size:19
Alignment explanation
Indices: 863258--863294 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
863248 CAAACCCAAG
*
863258 TGCTTAAAAAAAACATAAA
1 TGCTTAAAAAAAAAATAAA
863277 TGCTT-AAAAAAAAATAAA
1 TGCTTAAAAAAAAAATAAA
863295 AAAACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (19 bp):
TGCTTAAAAAAAAAATAAA
Found at i:874194 original size:22 final size:22
Alignment explanation
Indices: 874169--874254 Score: 61
Period size: 22 Copynumber: 3.8 Consensus size: 22
874159 ATAAATATTT
874169 AATATA-ATTTATAATTAATAAA
1 AATATATATTTA-AATTAATAAA
*
874191 AATATATATTTAATTTAATAATA
1 AATATATATTTAAATTAATAA-A
* * *
874214 TAATTTTTAATATAAAATTAAT-AA
1 -AATATAT-AT-TTAAATTAATAAA
874238 AATCA-ATATTTAAATTA
1 AAT-ATATATTTAAATTA
874255 TATTAATTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
21 7 0.14
22 16 0.32
23 10 0.20
24 6 0.12
25 3 0.06
26 8 0.16
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATATATTTAAATTAATAAA
Found at i:874203 original size:17 final size:16
Alignment explanation
Indices: 874157--874204 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
874147 TTAATAAATT
*
874157 AAATAAATATTTAATA
1 AAATATATATTTAATA
* * *
874173 TAATTTATAATTAATAA
1 AAATATATATTTAAT-A
874190 AAATATATATTTAAT
1 AAATATATATTTAAT
874205 TTAATAATAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATATATTTAATA
Found at i:874471 original size:14 final size:14
Alignment explanation
Indices: 874452--874489 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 14
874442 AAATATAATT
874452 ATATAATATTAAAA
1 ATATAATATTAAAA
874466 ATAT-A-ATT-AAA
1 ATATAATATTAAAA
874477 ATATAATATTAAA
1 ATATAATATTAAA
874490 TATTAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
11 7 0.33
12 4 0.19
13 4 0.19
14 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATAATATTAAAA
Found at i:874480 original size:25 final size:22
Alignment explanation
Indices: 874441--874503 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 22
874431 AATTTTAAAT
874441 AAAATATAATTATATAATATTA
1 AAAATATAATTATATAATATTA
874463 AAAATATAATTAAAATATAATATTA
1 AAAATATAATT---ATATAATATTA
* *
874488 AATAT-TAAATATATAA
1 AAAATATAATTATATAA
874504 ATTTATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 6 0.17
22 11 0.31
24 4 0.11
25 15 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATATAATTATATAATATTA
Found at i:874502 original size:32 final size:33
Alignment explanation
Indices: 874440--874503 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
874430 TAATTTTAAA
874440 TAAAATATAATTATATAATATTAAAAATATAAT
1 TAAAATATAATTATATAATATTAAAAATATAAT
*
874473 TAAAATATAA-TAT-TAAATATTAAATATATAA
1 TAAAATATAATTATAT-AATATTAAAAATATAA
874504 ATTTATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 18 0.62
33 10 0.34
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAATATAATTATATAATATTAAAAATATAAT
Found at i:874512 original size:17 final size:18
Alignment explanation
Indices: 874490--874573 Score: 66
Period size: 17 Copynumber: 4.6 Consensus size: 18
874480 TAATATTAAA
874490 TATTAAATATAT-AAATT
1 TATTAAATATATAAAATT
*
874507 TATTAAAATTTATATAAAATA
1 TATT-AAA--TATATAAAATT
* *
874528 AATTATATAT-TAAAATT
1 TATTAAATATATAAAATT
*
874545 TATATAAATATAT-AATTT
1 TAT-TAAATATATAAAATT
*
874563 TTTTAAATATA
1 TATTAAATATA
874574 AATATAGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
17 20 0.38
18 18 0.34
19 1 0.02
20 7 0.13
21 7 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTAAATATATAAAATT
Found at i:874524 original size:28 final size:28
Alignment explanation
Indices: 874493--874569 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
874483 TATTAAATAT
874493 TAAATATATAAATTTATTAAAATTTATA
1 TAAATATATAAATTTATTAAAATTTATA
*
874521 TAAA-ATA-AATTATATATTAAAATTTATA
1 TAAATATATAA--ATTTATTAAAATTTATA
* *
874549 TAAATATATAATTTTTTTAAA
1 TAAATATATAAATTTATTAAA
874570 TATAAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 31 0.76
29 3 0.07
30 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAATATATAAATTTATTAAAATTTATA
Found at i:874547 original size:14 final size:14
Alignment explanation
Indices: 874507--874550 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
874497 TATATAAATT
874507 TATTAAAATTTATA
1 TATTAAAATTTATA
* *
874521 TA-AAATAAATTATA
1 TATTAA-AATTTATA
874535 TATTAAAATTTATA
1 TATTAAAATTTATA
874549 TA
1 TA
874551 AATATATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 2 0.08
14 20 0.83
15 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATTAAAATTTATA
Found at i:875145 original size:2 final size:2
Alignment explanation
Indices: 875138--875183 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
875128 GATTGTACTC
* *
875138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
875180 AT AT
1 AT AT
875184 GTTAGTGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:877246 original size:20 final size:19
Alignment explanation
Indices: 877213--877261 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
877203 ATTTAATAAT
*
877213 AAAATATTAATATTAATATA
1 AAAATATTTATATT-ATATA
* * *
877233 AAAATATTTTTATTTTTTA
1 AAAATATTTATATTATATA
877252 AAAATATTTA
1 AAAATATTTA
877262 AATAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATATTTATATTATATA
Found at i:877265 original size:47 final size:46
Alignment explanation
Indices: 877174--877274 Score: 109
Period size: 47 Copynumber: 2.1 Consensus size: 46
877164 TTGAATTATT
* *
877174 ATTTAATAATAAAAATTATTTTTATTTAAATTTAATAATAAAATATTA
1 ATTTAATAATAAAAATTATTTTTATTT--ATTTAAAAATAAAATAATA
877222 ATATTAAT-ATAAAAA-TATTTTTATTT-TTTAAAAATATTTAAATAATA
1 AT-TTAATAATAAAAATTATTTTTATTTATTTAAAAATA---AAATAATA
877269 ATTTAA
1 ATTTAA
877275 ACTTTTAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
44 9 0.19
46 4 0.09
47 20 0.43
48 9 0.19
49 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (46 bp):
ATTTAATAATAAAAATTATTTTTATTTATTTAAAAATAAAATAATA
Found at i:877542 original size:22 final size:22
Alignment explanation
Indices: 877515--877559 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
877505 ATACAAGTAT
877515 TTACCTTACATGAGTATATTTA
1 TTACCTTACATGAGTATATTTA
877537 TTACCTTACATGAGTATATTTA
1 TTACCTTACATGAGTATATTTA
877559 T
1 T
877560 GTTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (22 bp):
TTACCTTACATGAGTATATTTA
Found at i:879752 original size:25 final size:25
Alignment explanation
Indices: 879718--879767 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
879708 AGTATGAGTA
879718 TCGGATATAGGTATATGTCCAATAT
1 TCGGATATAGGTATATGTCCAATAT
879743 TCGGATATAGGTATATGTCCAATAT
1 TCGGATATAGGTATATGTCCAATAT
879768 GATGTGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (25 bp):
TCGGATATAGGTATATGTCCAATAT
Found at i:886077 original size:21 final size:21
Alignment explanation
Indices: 886053--886096 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
886043 CTTAATTAAG
886053 AACAATTTTCATTCATTCCTT
1 AACAATTTTCATTCATTCCTT
886074 AACAATTTTCATTCATTCCTT
1 AACAATTTTCATTCATTCCTT
886095 AA
1 AA
886097 GTGCATAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (21 bp):
AACAATTTTCATTCATTCCTT
Found at i:887424 original size:2 final size:2
Alignment explanation
Indices: 887419--887449 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
887409 AAAAAGGAGA
887419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
887450 AACTTATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:894566 original size:8 final size:7
Alignment explanation
Indices: 894553--894598 Score: 60
Period size: 8 Copynumber: 6.6 Consensus size: 7
894543 AATATTTTAA
894553 ATATAATT
1 ATATAA-T
894561 ATATAAT
1 ATATAAT
894568 AATATAAT
1 -ATATAAT
894576 ATATAA-
1 ATATAAT
894582 ATATAAT
1 ATATAAT
894589 ATA-AAT
1 ATATAAT
894595 ATAT
1 ATAT
894599 CAATTATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 12 0.34
7 10 0.29
8 13 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:894598 original size:13 final size:14
Alignment explanation
Indices: 894553--894598 Score: 60
Period size: 13 Copynumber: 3.3 Consensus size: 14
894543 AATATTTTAA
894553 ATATAATTATATAAT
1 ATATAA-TATATAAT
894568 AATATAATATATAA-
1 -ATATAATATATAAT
894582 ATATAATATA-AAT
1 ATATAATATATAAT
894595 ATAT
1 ATAT
894599 CAATTATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.07
13 14 0.48
15 7 0.24
16 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATAATATATAAT
Found at i:894610 original size:23 final size:21
Alignment explanation
Indices: 894553--894616 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
894543 AATATTTTAA
894553 ATATAATTATATAATAATATAAT
1 ATATAATTATATAAT-ATA-AAT
894576 ATATAA--ATATAATATAAAT
1 ATATAATTATATAATATAAAT
*
894595 ATATCAATTATCATAATTTAAA
1 ATAT-AATTAT-ATAATATAAA
894617 ATTTTTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 7 0.19
20 5 0.14
21 7 0.19
22 2 0.06
23 15 0.42
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAATTATATAATATAAAT
Found at i:895012 original size:16 final size:17
Alignment explanation
Indices: 894973--895018 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
894963 TTCGTTTAAT
894973 ATAATATTATTAATATAA
1 ATAATATT-TTAATATAA
894991 ATAATATATTTAATA-AA
1 ATAATAT-TTTAATATAA
895008 A-AATATTTTAA
1 ATAATATTTTAA
895019 CAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 5 0.19
17 3 0.11
18 13 0.48
19 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATATTTTAATATAA
Found at i:895058 original size:10 final size:10
Alignment explanation
Indices: 895043--895089 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
895033 AAAACTTTAA
*
895043 ATATTTAATT
1 ATATTTAATC
895053 ATATTT-AT-
1 ATATTTAATC
*
895061 ATATTTTATC
1 ATATTTAATC
895071 ATATTATAATC
1 ATATT-TAATC
895082 ATATTTAA
1 ATATTTAA
895090 AATATTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.18
9 4 0.12
10 14 0.42
11 9 0.27
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (10 bp):
ATATTTAATC
Found at i:895064 original size:18 final size:18
Alignment explanation
Indices: 895038--895171 Score: 71
Period size: 17 Copynumber: 7.2 Consensus size: 18
895028 TTAACAAAAC
* *
895038 TTTAAATATTTAATTATA
1 TTTATATATTTAATAATA
* *
895056 TTTATATATTTTATCATA
1 TTTATATATTTAATAATA
895074 TTATAATCATATTTAA-AATA
1 TT-T-AT-ATATTTAATAATA
*
895094 TTT-TATATTT-ATAAAAA
1 TTTATATATTTAAT-AATA
*
895111 TTT-TATTATATTAATAAATTTT
1 TTTATA-TAT-TTAAT-AA--TA
*
895133 TTTATAAATTTAA-AATA
1 TTTATATATTTAATAATA
*
895150 TTTATATATTTATATTATA
1 TTTATATATTTA-ATAATA
895169 TTT
1 TTT
895172 TTATTTTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
15 1 0.01
16 6 0.07
17 21 0.23
18 21 0.23
19 12 0.13
20 12 0.13
21 11 0.12
22 5 0.05
23 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATATATTTAATAATA
Found at i:895115 original size:17 final size:16
Alignment explanation
Indices: 895082--895132 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
895072 TATTATAATC
*
895082 ATATTTAAAATATTTT
1 ATATTTAAAAAATTTT
895098 ATATTTATAAAAATTTT
1 ATATTTA-AAAAATTTT
*
895115 ATTATATTAATAAATTTT
1 A-TAT-TTAAAAAATTTT
895133 TTTATAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 7 0.23
17 9 0.30
18 11 0.37
19 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTTAAAAAATTTT
Found at i:895173 original size:38 final size:38
Alignment explanation
Indices: 895131--895214 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 38
895121 TTAATAAATT
895131 TTTTTATAAATTTA-A-AATATTTATATATTTATATTATA
1 TTTTTATAAATTTATATAATA-TTATAT-TTTATATTATA
***
895169 TTTTTATTTTTTTATATAATATTATATTTTATATTATA
1 TTTTTATAAATTTATATAATATTATATTTTATATTATA
895207 TATTTTAT
1 T-TTTTAT
895215 TTTTTTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
38 23 0.57
39 13 0.32
40 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTTTATAAATTTATATAATATTATATTTTATATTATA
Found at i:895209 original size:19 final size:18
Alignment explanation
Indices: 895147--895217 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 18
895137 TAAATTTAAA
895147 ATATTTATATATTTATATT
1 ATATTTATAT-TTTATATT
* *
895166 ATATTTTTATTTT-TTTAT
1 ATATTTATATTTTATAT-T
895184 ATAATATTATATTTTATATT
1 AT-AT-TTATATTTTATATT
*
895204 ATATATTTTATTTT
1 ATAT-TTATATTTT
895218 TTTTTGTCGT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.05
18 6 0.14
19 22 0.51
20 11 0.26
21 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATATTTATATTTTATATT
Found at i:895219 original size:7 final size:7
Alignment explanation
Indices: 895150--895218 Score: 52
Period size: 7 Copynumber: 9.4 Consensus size: 7
895140 ATTTAAAATA
895150 TTTATAT
1 TTTATAT
895157 ATTTATAT
1 -TTTATAT
*
895165 TATAT-T
1 TTTATAT
*
895171 TTTATTTT
1 TTTA-TAT
895179 TTTATAT
1 TTTATAT
895186 AATATTATAT
1 --T-TTATAT
895196 TTTATAT
1 TTTATAT
*
895203 TATATAT
1 TTTATAT
895210 TTTAT-T
1 TTTATAT
895216 TTT
1 TTT
895219 TTTTGTCGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
6 8 0.16
7 23 0.45
8 13 0.25
9 1 0.02
10 6 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATAT
Found at i:895221 original size:40 final size:40
Alignment explanation
Indices: 895146--895220 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 40
895136 ATAAATTTAA
895146 AATATTTATATATTTATATTATATTTTTATTTTTTTATAT
1 AATATTTATATATTTATATTATATTTTTATTTTTTTATAT
895186 AATA-TTATAT-TTTATATTATATATTTTATTTTTTT
1 AATATTTATATATTTATATTATAT-TTTTATTTTTTT
895221 TTGTCGTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
38 12 0.35
39 18 0.53
40 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (40 bp):
AATATTTATATATTTATATTATATTTTTATTTTTTTATAT
Found at i:897249 original size:18 final size:18
Alignment explanation
Indices: 897226--897262 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
897216 AAATCATATC
897226 AAATTTAATAAAAAATTA
1 AAATTTAATAAAAAATTA
* *
897244 AAATTTAATCAAACATTA
1 AAATTTAATAAAAAATTA
897262 A
1 A
897263 GATTAGAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATTTAATAAAAAATTA
Found at i:898078 original size:11 final size:11
Alignment explanation
Indices: 898062--898094 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
898052 AGATTCTTAA
898062 ATAAATATAAT
1 ATAAATATAAT
*
898073 ATAAATATACT
1 ATAAATATAAT
898084 ATAAATA-AAT
1 ATAAATATAAT
898094 A
1 A
898095 ATTATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 3 0.15
11 17 0.85
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:898101 original size:27 final size:27
Alignment explanation
Indices: 898040--898101 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
898030 TAATAGATCA
*
898040 AATTATATAAATAGATTCTTAAATAAAT
1 AATTATATAAATA-ATACTTAAATAAAT
*
898068 -ATAATATAAAT-ATACTATAAATAAAT
1 AATTATATAAATAATACT-TAAATAAAT
898094 AATTATAT
1 AATTATAT
898102 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 4 0.14
26 9 0.31
27 16 0.55
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (27 bp):
AATTATATAAATAATACTTAAATAAAT
Found at i:898436 original size:20 final size:18
Alignment explanation
Indices: 898384--898442 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 18
898374 ATTAAATATA
898384 AAATAAAAATATTATTTAAAT
1 AAATAAAAATA--A-TTAAAT
*
898405 TAATAAATAATAAGTTAAACT
1 AAATAAA-AATAA-TTAAA-T
898426 AAATAAAAATAATTAAA
1 AAATAAAAATAATTAAA
898443 ATTAAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.15
20 11 0.33
21 13 0.39
22 4 0.12
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AAATAAAAATAATTAAAT
Found at i:898448 original size:20 final size:20
Alignment explanation
Indices: 898371--898448 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
898361 TATATATATT
*
898371 ATAATTAAATATAAAATAAAA
1 ATAATTAAA-ATTAAATAAAA
*
898392 ATATTATTTAAATT-AATAAATA
1 ATA--ATTAAAATTAAATAAA-A
*
898414 ATAAGTT-AAACTAAATAAAA
1 ATAA-TTAAAATTAAATAAAA
898434 ATAATTAAAATTAAA
1 ATAATTAAAATTAAA
898449 ATTAAATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
19 2 0.04
20 17 0.36
21 17 0.36
22 6 0.13
23 5 0.11
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
ATAATTAAAATTAAATAAAA
Found at i:898457 original size:5 final size:5
Alignment explanation
Indices: 898436--898492 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
898426 AAATAAAAAT
* * *
898436 AATTAA AATTAA AATTA AATTA AATTA AACTTA CACTA AATTA AATCA
1 AATT-A AATT-A AATTA AATTA AATTA AA-TTA AATTA AATTA AATTA
898484 AA-TA AATTA
1 AATTA AATTA
898493 TCAATCGTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
4 3 0.07
5 26 0.60
6 14 0.33
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (5 bp):
AATTA
Found at i:898460 original size:16 final size:16
Alignment explanation
Indices: 898419--898492 Score: 57
Period size: 16 Copynumber: 4.8 Consensus size: 16
898409 AAATAATAAG
898419 TTAAACTAAA-TAAAA
1 TTAAACTAAATTAAAA
* *
898434 AT-AATTAAAATTAAAA
1 TTAAACT-AAATTAAAA
* *
898450 TTAAATTAAATTAAAC
1 TTAAACTAAATTAAAA
*
898466 TTACACTAAATT-AAA
1 TTAAACTAAATTAAAA
*
898481 TCAAA-TAAATTA
1 TTAAACTAAATTA
898493 TCAATCGTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
14 9 0.20
15 9 0.20
16 24 0.52
17 4 0.09
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAACTAAATTAAAA
Done.