Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold433
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: 558157
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Warning! 7244 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:357221 original size:22 final size:23
Alignment explanation
Indices: 357131--357228 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 23
357121 TTTGATAATT
357131 TATTTATTATTTAAATTATTAAAATA
1 TATTTATTA-TT-AATTATT-AAATA
*
357157 TTATTT-TTATTTTAA-TATT-TATA
1 -TATTTATTA--TTAATTATTAAATA
*
357180 TATTTATTATTAATTTTTAAATA
1 TATTTATTATTAATTATTAAATA
357203 T-TTTATTATT-ATTAATT-AATA
1 TATTTATTATTAATT-ATTAAATA
357224 -ATTTA
1 TATTTA
357229 AGTTTATCTA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
21 15 0.25
22 19 0.31
23 10 0.16
25 4 0.07
26 5 0.08
27 8 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTATTATTAATTATTAAATA
Found at i:357554 original size:17 final size:16
Alignment explanation
Indices: 357514--357556 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
357504 AATAATTATT
*
357514 ATTATT-AATATTTGA
1 ATTATTAAATATTTAA
357529 ATTATTTAAATATTTAA
1 ATTA-TTAAATATTTAA
357546 ATTTATTAAAT
1 A-TTATTAAAT
357557 TAAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 2 0.08
17 15 0.62
18 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTATTAAATATTTAA
Found at i:357573 original size:27 final size:27
Alignment explanation
Indices: 357543--357613 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
357533 TTTAAATATT
* *
357543 TAAATTTATTAAATTAAAATTTTTACA
1 TAAATTTATTAAATTAAAAATATTACA
** * *
357570 TAAAAATATAAAATTAAAAATATTATA
1 TAAATTTATTAAATTAAAAATATTACA
357597 TAAATTAATATTAAATT
1 TAAATT--TATTAAATT
357614 TACCATCCGA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 25 0.76
29 8 0.24
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATTTATTAAATTAAAAATATTACA
Found at i:358782 original size:5 final size:6
Alignment explanation
Indices: 358760--358791 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
358750 TTGATAATTT
*
358760 TAAATA TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
358792 TTTTAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:358853 original size:19 final size:19
Alignment explanation
Indices: 358829--358866 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
358819 TTATGTTAAA
358829 TTATTTATAAATA-TATTAT
1 TTATTT-TAAATACTATTAT
*
358848 TTATTTTAATTACTATTAT
1 TTATTTTAAATACTATTAT
358867 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTTAAATACTATTAT
Found at i:359163 original size:27 final size:27
Alignment explanation
Indices: 359128--359196 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
359118 TAAATTATTT
*
359128 TTATATTAATATTTATAT-ATTTTATAA
1 TTAT-TTAATATTAATATAATTTTATAA
* *
359155 TTAATTTAA-ATAAATATAATTTTTTAA
1 TT-ATTTAATATTAATATAATTTTATAA
*
359182 TTATTAAATATTAAT
1 TTATTTAATATTAAT
359197 TTAAATCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 11 0.32
27 21 0.62
28 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATTTAATATTAATATAATTTTATAA
Found at i:359451 original size:8 final size:8
Alignment explanation
Indices: 359438--359463 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
359428 TTTAAATTAT
359438 ATTTAAAG
1 ATTTAAAG
359446 ATTTAAAG
1 ATTTAAAG
359454 ATTTAAAG
1 ATTTAAAG
359462 AT
1 AT
359464 GTCAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
ATTTAAAG
Found at i:359637 original size:7 final size:7
Alignment explanation
Indices: 359625--359651 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
359615 TTCATTAAAA
359625 TTAAATT
1 TTAAATT
359632 TTAAATT
1 TTAAATT
359639 TTAAATT
1 TTAAATT
359646 TTAAAT
1 TTAAAT
359652 GAAATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:364352 original size:15 final size:13
Alignment explanation
Indices: 364316--364344 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
364306 ATTTTAAATT
364316 AAAA-ATTGATAA
1 AAAATATTGATAA
364328 AAAATATTGATAA
1 AAAATATTGATAA
364341 AAAA
1 AAAA
364345 AGTTTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAATATTGATAA
Found at i:364656 original size:17 final size:17
Alignment explanation
Indices: 364621--364663 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
364611 AAATTAAAAT
364621 ATAAAATTTTATTATTAA
1 ATAAAATTTTA-TATTAA
364639 ATAATAATTTTA-ATTAA
1 ATAA-AATTTTATATTAA
*
364656 ATTAAATT
1 ATAAAATT
364664 AATTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 4 0.17
19 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAAAATTTTATATTAA
Found at i:372116 original size:36 final size:37
Alignment explanation
Indices: 372049--372128 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 37
372039 TTGTTTATAT
*
372049 AATAAAAAATAATTTTAAATTTAATAATAAATATTAA
1 AATAAAAAATAATTTTAAATTTAATAATAAATAATAA
* * **
372086 TATAAAAAAT-ATTTTTAATATT-ATTTTAAATAATAA
1 AATAAAAAATAATTTTAAAT-TTAATAATAAATAATAA
372122 AATAAAA
1 AATAAAA
372129 TTTTGAGCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 25 0.69
37 11 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (37 bp):
AATAAAAAATAATTTTAAATTTAATAATAAATAATAA
Found at i:372265 original size:3 final size:3
Alignment explanation
Indices: 372257--372283 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
372247 TTACCATCAC
372257 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
372284 TACAAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:372632 original size:7 final size:8
Alignment explanation
Indices: 372618--372644 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
372608 CTATTTAAAA
372618 ATATTTTT
1 ATATTTTT
372626 ATATTTTT
1 ATATTTTT
372634 ATATTTTT
1 ATATTTTT
372642 ATA
1 ATA
372645 ATTAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATATTTTT
Found at i:375179 original size:21 final size:20
Alignment explanation
Indices: 375155--375205 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
375145 CATGGAGGAA
*
375155 GAGGTGGAGTATGAAGAAGTG
1 GAGGTGGAG-AAGAAGAAGTG
*
375176 GAGGTAGAAGAAGAAGAAGTG
1 GAGGT-GGAGAAGAAGAAGTG
*
375197 GAGGAGGAG
1 GAGGTGGAG
375206 GAGGAGGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 19 0.76
22 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.49, T:0.12
Consensus pattern (20 bp):
GAGGTGGAGAAGAAGAAGTG
Found at i:381820 original size:2 final size:2
Alignment explanation
Indices: 381815--381861 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
381805 TTTTTAATAG
381815 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
381857 TA TA T
1 TA TA T
381862 GACAAAGACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:382241 original size:34 final size:33
Alignment explanation
Indices: 382173--382246 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
382163 TACTTTAATG
*
382173 ATTAAATTATATATTTATAAATATTAAAAAATAA
1 ATTAAATTAAATATTTATAAATA-TAAAAAATAA
*
382207 ATTAAATTTAAATATTATATAAATA-AAAATATAA
1 ATTAAA-TTAAATATT-TATAAATATAAAAAATAA
*
382241 AATAAA
1 ATTAAA
382247 AATAAATTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 19 0.54
35 8 0.23
36 8 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (33 bp):
ATTAAATTAAATATTTATAAATATAAAAAATAA
Found at i:382245 original size:13 final size:14
Alignment explanation
Indices: 382222--382250 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
382212 ATTTAAATAT
382222 TATATAAATAAAAA
1 TATATAAATAAAAA
382236 TATA-AAATAAAAA
1 TATATAAATAAAAA
382249 TA
1 TA
382251 AATTACTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TATATAAATAAAAA
Found at i:388219 original size:12 final size:12
Alignment explanation
Indices: 388202--388226 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
388192 ACTGGGTCTT
388202 TTTTTGTGTGTG
1 TTTTTGTGTGTG
388214 TTTTTGTGTGTG
1 TTTTTGTGTGTG
388226 T
1 T
388227 GTGTGTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (12 bp):
TTTTTGTGTGTG
Found at i:393645 original size:21 final size:21
Alignment explanation
Indices: 393619--393658 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
393609 ATTTTAATTT
* *
393619 TTTAAAATATTTTTTCATATA
1 TTTAAAAAATCTTTTCATATA
393640 TTTAAAAAATCTTTTCATA
1 TTTAAAAAATCTTTTCATA
393659 ATGATTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAAAAATCTTTTCATATA
Found at i:393992 original size:27 final size:29
Alignment explanation
Indices: 393962--394015 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
393952 TTAATATTGA
*
393962 GATTA-AAATTT-TAAATTTATTAAATAT
1 GATTATAAATTTATAAATTAATTAAATAT
*
393989 GATTATAATTTTATAAATTAATTAAAT
1 GATTATAAATTTATAAATTAATTAAAT
394016 TAAATTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 5 0.22
29 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (29 bp):
GATTATAAATTTATAAATTAATTAAATAT
Found at i:396700 original size:2 final size:2
Alignment explanation
Indices: 396693--396725 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
396683 TATAAATTAA
396693 AT 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 AT A
396726 GTACTCAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:397327 original size:2 final size:2
Alignment explanation
Indices: 397320--397351 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
397310 TGATTACACA
397320 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
397352 AAAATAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:397363 original size:10 final size:11
Alignment explanation
Indices: 397344--397407 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
397334 ATATATATAT
397344 ATAATATAAAA
1 ATAATATAAAA
397355 ATAAT-T-AAA
1 ATAATATAAAA
*
397364 AT-ATAT---T
1 ATAATATAAAA
397371 ATAATATAAAA
1 ATAATATAAAA
*
397382 ATAATATAAAT
1 ATAATATAAAA
* *
397393 GTGATATAAAA
1 ATAATATAAAA
397404 ATAA
1 ATAA
397408 AATATATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
7 2 0.05
8 6 0.15
9 6 0.15
10 1 0.03
11 25 0.62
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:397373 original size:27 final size:29
Alignment explanation
Indices: 397336--397391 Score: 98
Period size: 27 Copynumber: 2.0 Consensus size: 29
397326 ATATATATAT
397336 ATATATATATAATATAAAAATAAT-TAAA
1 ATATATATATAATATAAAAATAATATAAA
397364 ATATAT-TATAATATAAAAATAATATAAA
1 ATATATATATAATATAAAAATAATATAAA
397392 TGTGATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
ATATATATATAATATAAAAATAATATAAA
Found at i:397392 original size:27 final size:28
Alignment explanation
Indices: 397330--397409 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 28
397320 ATATATATAT
*
397330 ATATATATATATATATAATATAAAAATA
1 ATATAAATATATATATAATATAAAAATA
397358 AT-TAAA-ATATATTATAATATAAAAATA
1 ATATAAATATATA-TATAATATAAAAATA
* *
397385 ATATAAATGTGATATA-AAAATAAAA
1 ATATAAATAT-ATATATAATATAAAA
397410 TATATTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
26 5 0.11
27 20 0.44
28 14 0.31
29 3 0.07
30 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (28 bp):
ATATAAATATATATATAATATAAAAATA
Found at i:397577 original size:6 final size:7
Alignment explanation
Indices: 397555--397662 Score: 55
Period size: 7 Copynumber: 15.1 Consensus size: 7
397545 ATCATAATAT
*
397555 AATAAAA
1 AATATAA
397562 AATTATAA
1 AA-TATAA
397570 AA-ATAA
1 AATATAA
397576 AATATAA
1 AATATAA
397583 ATATATTAA
1 A-ATA-TAA
397592 AATAATATA
1 AAT-ATA-A
397601 AA-ATAA
1 AATATAA
*
397607 ATTATAA
1 AATATAA
397614 ATATATAA
1 A-ATATAA
* * *
397622 TATTTTA
1 AATATAA
397629 AATAT--
1 AATATAA
*
397634 AAT-TAT
1 AATATAA
397640 AATATAA
1 AATATAA
*
397647 AAAATAA
1 AATATAA
397654 TAATATAA
1 -AATATAA
397662 A
1 A
397663 TAAATAAAGT
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
4 1 0.01
5 3 0.04
6 11 0.14
7 31 0.40
8 24 0.31
9 8 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
AATATAA
Found at i:397607 original size:31 final size:32
Alignment explanation
Indices: 397550--397619 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 32
397540 TTCATATCAT
*
397550 AATATAATAAAAAATTATAAAAATAAAATATA
1 AATATATTAAAAAATTATAAAAATAAAATATA
*
397582 AATATATTAAAATAA-TAT-AAAATAAATTATA
1 AATATATTAAAA-AATTATAAAAATAAAATATA
397613 AATATAT
1 AATATAT
397620 AATATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 19 0.54
32 14 0.40
33 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (32 bp):
AATATATTAAAAAATTATAAAAATAAAATATA
Found at i:397610 original size:20 final size:20
Alignment explanation
Indices: 397569--397667 Score: 64
Period size: 21 Copynumber: 5.0 Consensus size: 20
397559 AAAAATTATA
* *
397569 AAAATAAAATATAAATATATT
1 AAAATAATATA-AAATAAATT
397590 AAAATAATATAAAATAAATT
1 AAAATAATATAAAATAAATT
**
397610 ATAAAT-ATAT--AATATTTT
1 A-AAATAATATAAAATAAATT
* *
397628 AAATATAATTATAATATAAA-A
1 AAA-ATAA-TATAAAATAAATT
397649 AATAATAATAT-AAATAAAT
1 AA-AATAATATAAAATAAAT
397668 AAAGTATTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
17 2 0.03
18 9 0.15
19 7 0.11
20 19 0.31
21 20 0.33
22 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATAATATAAAATAAATT
Found at i:397634 original size:22 final size:21
Alignment explanation
Indices: 397604--397644 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
397594 TAATATAAAA
397604 TAAATTATAAATATATAATATTT
1 TAAATTAT-AAT-TATAATATTT
397627 TAAA-TATAATTATAATAT
1 TAAATTATAATTATAATAT
397645 AAAAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 3 0.17
23 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATTATAATTATAATATTT
Found at i:403828 original size:34 final size:34
Alignment explanation
Indices: 403776--403848 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
403766 AGACATGGAT
* *
403776 CAAGGTTCAACAAATAGCCATTGGATTATATATC
1 CAAGTTTCAACAAATAGCCATCGGATTATATATC
* *
403810 CAAGTTTCGACAAATAGCCATCGGATTATTTATC
1 CAAGTTTCAACAAATAGCCATCGGATTATATATC
*
403844 TAAGT
1 CAAGT
403849 CTGAACGTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (34 bp):
CAAGTTTCAACAAATAGCCATCGGATTATATATC
Found at i:408880 original size:13 final size:14
Alignment explanation
Indices: 408856--408894 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
408846 AATAAAATTT
408856 TATGATTATATAAA
1 TATGATTATATAAA
*
408870 TATGATATATATATA
1 TATGAT-TATATAAA
*
408885 TATAATTATA
1 TATGATTATA
408895 ATTACTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (14 bp):
TATGATTATATAAA
Found at i:419394 original size:13 final size:13
Alignment explanation
Indices: 419363--419396 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
419353 TAAATAACTC
419363 TATTTTATATTAAA
1 TATTTTA-ATTAAA
419377 T-TTTTAATTAAA
1 TATTTTAATTAAA
419389 TATTTTAA
1 TATTTTAA
419397 AAATTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.37
13 11 0.58
14 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTTTAATTAAA
Found at i:419843 original size:20 final size:21
Alignment explanation
Indices: 419818--419863 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
419808 AATTAATTTT
*
419818 TTAAAAAATAAT-ATTTAAAA
1 TTAAAAAATAATAATATAAAA
* *
419838 TTAAAATATATTAATATAAAA
1 TTAAAAAATAATAATATAAAA
419859 TTAAA
1 TTAAA
419864 CTTCTAAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAAAATAATAATATAAAA
Found at i:420859 original size:11 final size:10
Alignment explanation
Indices: 420842--420876 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
420832 AAATTCTATT
420842 AAAAATTAAA
1 AAAAATTAAA
420852 ATAAAATTAAA
1 A-AAAATTAAA
420863 AAATAATTAAA
1 AAA-AATTAAA
420874 AAA
1 AAA
420877 TTAATATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 20 0.87
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:421548 original size:45 final size:45
Alignment explanation
Indices: 421492--421583 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
421482 ATCAGTATTA
* *
421492 AAGTTTGGACTCAAAGAATTTATATATCTATAAATTAATATTATG
1 AAGTTTAGACTCAAAGAATCTATATATCTATAAATTAATATTATG
* *
421537 AAGTTTAGACTCAATGAATCTATATATCTATTAATTAATATTATG
1 AAGTTTAGACTCAAAGAATCTATATATCTATAAATTAATATTATG
421582 AA
1 AA
421584 AAATTCTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (45 bp):
AAGTTTAGACTCAAAGAATCTATATATCTATAAATTAATATTATG
Found at i:422190 original size:110 final size:109
Alignment explanation
Indices: 421992--422191 Score: 285
Period size: 110 Copynumber: 1.8 Consensus size: 109
421982 CATATGCAAA
* * * *
421992 TGTTATTTAATTTAAATTACACTTTAACCTTTATAATTTTCTAAGTTTTTTAATTGACACCTTAT
1 TGTTACTTAATGTAAATTACACTTTAACCTTCATAATTTTCTAAGTTTTTCAATTGACACCTTAT
* ** *
422057 TATTTTTCTTATCTTTTCTTTTTAATAAACAAACAAAAAATGAT
66 TATTTTTCCTATCTTAACATTTTAATAAACAAACAAAAAATGAT
*
422101 TGTTACTTAATGTAAATTACACTTTAATCTTCATAATTTTTCTAAGTTTTTCAATTGACACCTTA
1 TGTTACTTAATGTAAATTACACTTTAACCTTCATAA-TTTTCTAAGTTTTTCAATTGACACCTTA
*
422166 TTATTTGTTCCT-TGTTAACATTTTAA
65 TTATTT-TTCCTATCTTAACATTTTAA
422192 CCCTGTATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
109 32 0.41
110 43 0.54
111 4 0.05
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.51
Consensus pattern (109 bp):
TGTTACTTAATGTAAATTACACTTTAACCTTCATAATTTTCTAAGTTTTTCAATTGACACCTTAT
TATTTTTCCTATCTTAACATTTTAATAAACAAACAAAAAATGAT
Found at i:425730 original size:50 final size:50
Alignment explanation
Indices: 425655--425818 Score: 292
Period size: 50 Copynumber: 3.3 Consensus size: 50
425645 AATAGAAAAT
*
425655 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCTGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * *
425705 GCATGCATGGGAAAACACAAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
425755 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
425805 GCATGCATGGGAAA
1 GCATGCATGGGAAA
425819 TGAAAAAAGC
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 108 1.00
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.16
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:426435 original size:37 final size:39
Alignment explanation
Indices: 426357--426456 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 39
426347 CTCCAGTAGC
426357 CAACGACTGCAACTCCAGCACGCAACAACAGCAGCAACTCCAG
1 CAACGACTGCAACTCCAGCACG--ACAACAGCAG--ACTCCAG
426400 CAACGACTGCAACTCCAGCACG-CAACAGCAG-CTCCAG
1 CAACGACTGCAACTCCAGCACGACAACAGCAGACTCCAG
* *
426437 CGA-GAGCAGCAACTCCAGCA
1 CAACGA-CTGCAACTCCAGCA
426457 GGTAGCAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
36 2 0.04
37 21 0.39
40 9 0.17
43 22 0.41
ACGTcount: A:0.35, C:0.39, G:0.19, T:0.07
Consensus pattern (39 bp):
CAACGACTGCAACTCCAGCACGACAACAGCAGACTCCAG
Found at i:426452 original size:18 final size:18
Alignment explanation
Indices: 426386--426456 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
426376 ACGCAACAAC
426386 AGCAGCAACTCCAGCAACG
1 AGCAGCAACTCCAGC-ACG
*
426405 A-CTGCAACTCCAGCACG
1 AGCAGCAACTCCAGCACG
* *
426422 CAACAGCAGCTCCAGCGA-G
1 -AGCAGCAACTCCAGC-ACG
426441 AGCAGCAACTCCAGCA
1 AGCAGCAACTCCAGCA
426457 GGTAGCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 26 0.59
19 13 0.30
20 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.21, T:0.07
Consensus pattern (18 bp):
AGCAGCAACTCCAGCACG
Found at i:427491 original size:53 final size:50
Alignment explanation
Indices: 427383--427509 Score: 132
Period size: 53 Copynumber: 2.5 Consensus size: 50
427373 CAATTGCTCG
*
427383 TAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTT-CTT
* * **
427434 TAATCGAGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TT
1 TAATC--GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCTT
*
427485 CATAATCGGGGATACTCCAATCCCG
1 --TAATCGGGGATACTCCAACCCCG
427510 TTATTTTCAA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
51 24 0.37
52 4 0.06
53 37 0.57
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (50 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTT
Found at i:427571 original size:79 final size:79
Alignment explanation
Indices: 427440--427665 Score: 380
Period size: 79 Copynumber: 2.9 Consensus size: 79
427430 CCTTTAATCG
427440 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
* *
427505 TCCCGTTATTTTCA
66 CCCCGTTATTTCCA
* *
427519 AGGGGATACTCCAACCCCGGTTTTATTTCTAAATTATTAATTTTTCACAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
*
427584 CCCCGTTATTTCCG
66 CCCCGTTATTTCCA
* * *
427598 AGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
427663 CCC
66 CCC
427666 AGGTTTTATT
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 137 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
CCCCGTTATTTCCA
Found at i:427680 original size:51 final size:51
Alignment explanation
Indices: 427599--427797 Score: 231
Period size: 51 Copynumber: 3.9 Consensus size: 51
427589 TTATTTCCGA
*
427599 GGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
*
427650 GGGGATACTCCAACCCAGGTTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
* * * * **
427701 GGGGATACTCTAACCCCGATTTTATTTTTTTAGAACA-CCGTTTTTCCATAATC
1 GGGGATACTCCAACCCCGGTTTTA--TTTCTAAAACATCAATTTTT-CATAATC
* * * * *
427754 GGGGATACTCTAGCCCC-GTTGTTATCTCTAAAATACCAATTTTT
1 GGGGATACTCCAACCCCGGTT-TTATTTCTAAAACATCAATTTTT
427798 TCCTCGTCAG
Statistics
Matches: 126, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
51 77 0.61
52 14 0.11
53 35 0.28
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
Found at i:429164 original size:118 final size:114
Alignment explanation
Indices: 428903--429199 Score: 398
Period size: 118 Copynumber: 2.6 Consensus size: 114
428893 TGATTGTACA
* *
428903 GGCCGCAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCGAAAAAGATTGAATAATTTG
1 GGCCGCAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCAAAAAAGGTTGAATAATTTG
* * *
428968 TTCATTTAAGGTTGAGATAATTTTCCTAATGAAGTGGATAGTTCTCTTT
66 TTCATTTAAGATTGAGATAATCTTCCTAACGAAGTGGATAGTTCTCTTT
* * * * *
429017 AGCCACAACTATGATCGCTCATATATTGGCCTAAGCCATTTATTCAAAGAAAGGTTGAATAATTT
1 GGCCGCAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCAAA-AAAGGTTGAATAATTT
429082 GCTTCATTTAAGATTGAGATACAATCTTCCTAACGAAGTGGATAGTTC-CATTT
65 G-TTCATTTAAGATTGAGAT--AATCTTCCTAACGAAGTGGATAGTTCTC-TTT
* ** * *
429135 GGCCGCAGCTATAATCACTCATACGTTGGCCTAAGTCACTTATTTAAAAAAGGGTTGAATAATTT
1 GGCCGCAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCAAAAAA-GGTTGAATAATTT
429200 ACTTTGTTTT
Statistics
Matches: 157, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
114 42 0.27
115 16 0.10
116 17 0.11
117 4 0.03
118 78 0.50
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (114 bp):
GGCCGCAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCAAAAAAGGTTGAATAATTTG
TTCATTTAAGATTGAGATAATCTTCCTAACGAAGTGGATAGTTCTCTTT
Found at i:430151 original size:24 final size:24
Alignment explanation
Indices: 430113--430205 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 24
430103 ATCTAAACTG
* *
430113 TGTTCCAGGAGTCATGCCAAAAGA
1 TGTTCCAAGAATCATGCCAAAAGA
* *
430137 TGTTCCAAGAATCATGCCAAAGGT
1 TGTTCCAAGAATCATGCCAAAAGA
* *
430161 TGTTCCAGGAGTTC-TGCCAAAAGA
1 TGTTCCAAGA-ATCATGCCAAAAGA
* *
430185 TATTCCAA-AAGTCATGTCAAA
1 TGTTCCAAGAA-TCATGCCAAA
430206 TGTTGTGCTA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
23 3 0.06
24 49 0.91
25 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (24 bp):
TGTTCCAAGAATCATGCCAAAAGA
Found at i:430169 original size:48 final size:48
Alignment explanation
Indices: 430113--430211 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
430103 ATCTAAACTG
*
430113 TGTTCCAGGAG-TCATGCCAAAAGATGTTCCAAGAA-TCATGCCAAAGGT
1 TGTTCCAGGAGTTC-TGCCAAAAGATATTCCAA-AAGTCATGCCAAAGGT
* *
430161 TGTTCCAGGAGTTCTGCCAAAAGATATTCCAAAAGTCATGTCAAATGT
1 TGTTCCAGGAGTTCTGCCAAAAGATATTCCAAAAGTCATGCCAAAGGT
430209 TGT
1 TGT
430212 GCTAGGAGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
47 2 0.04
48 42 0.91
49 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (48 bp):
TGTTCCAGGAGTTCTGCCAAAAGATATTCCAAAAGTCATGCCAAAGGT
Found at i:430676 original size:2 final size:2
Alignment explanation
Indices: 430669--430695 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
430659 TGAGTACAAG
430669 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
430696 TAATAAAAAA
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:432803 original size:18 final size:18
Alignment explanation
Indices: 432762--432817 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
432752 TCAAAATATC
*
432762 AAAAAATATATTATTATT
1 AAAAAATATATTATTATA
* * *
432780 ATAAAATATATTCTTGTA
1 AAAAAATATATTATTATA
* *
432798 AAAAAATTTA-CATTATA
1 AAAAAATATATTATTATA
432815 AAA
1 AAA
432818 TATATTCATG
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAAAATATATTATTATA
Found at i:432816 original size:17 final size:18
Alignment explanation
Indices: 432796--432843 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
432786 TATATTCTTG
432796 TAAAAAAATTTACAT-TA
1 TAAAAAAATTTACATGTA
*
432813 T-AAAATATATT-CATGTA
1 TAAAAAAAT-TTACATGTA
432830 -AAAAAAATTTACAT
1 TAAAAAAATTTACAT
432844 ATCTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAAAATTTACATGTA
Found at i:432818 original size:32 final size:33
Alignment explanation
Indices: 432777--432843 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
432767 ATATATTATT
*
432777 ATTATAAAATATATTCTTGT-AAAAAAATTTAC
1 ATTATAAAATATATTCATGTAAAAAAAATTTAC
432809 ATTATAAAATATATTCATGTAAAAAAAATTTAC
1 ATTATAAAATATATTCATGTAAAAAAAATTTAC
432842 AT
1 AT
432844 ATCTTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (33 bp):
ATTATAAAATATATTCATGTAAAAAAAATTTAC
Found at i:433027 original size:2 final size:2
Alignment explanation
Indices: 433020--433061 Score: 59
Period size: 2 Copynumber: 20.5 Consensus size: 2
433010 CACATAAAAG
433020 TA TA TA TA TA CTA -A TCA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
433062 TAAATTGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 1 0.03
2 32 0.86
3 4 0.11
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:435623 original size:20 final size:20
Alignment explanation
Indices: 435571--435632 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
435561 AATTTGATAC
*
435571 ATTTATATATATTTGTATTAT
1 ATTTATA-ATATTTTTATTAT
435592 ATTTATAATATTTTTATTAT
1 ATTTATAATATTTTTATTAT
*
435612 ATTTGA-ATTATTTTT-TTAT
1 ATTT-ATAATATTTTTATTAT
435631 AT
1 AT
435633 CTTGCATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.16
20 24 0.63
21 8 0.21
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTATAATATTTTTATTAT
Found at i:436610 original size:16 final size:14
Alignment explanation
Indices: 436581--436620 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
436571 GAATCGGTCG
436581 AAATGATTAATCTA
1 AAATGATTAATCTA
436595 AAATGATGTAAATCTA
1 AAATGAT-T-AATCTA
*
436611 AAATAATTAA
1 AAATGATTAA
436621 ACTCGTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 12 0.52
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (14 bp):
AAATGATTAATCTA
Found at i:437931 original size:211 final size:211
Alignment explanation
Indices: 437567--437978 Score: 779
Period size: 211 Copynumber: 2.0 Consensus size: 211
437557 ACGGCTCTTC
* *
437567 AGCTGGATTTTAATAATTGCTTGTGGATAATTAAATAGGTTTAATTTTTTATTGTTAAATTATCG
1 AGCTGGATTTTAATAATTGCTTGTGGATAATTAAATAGGTTTAATTTTTGATTGTTAAATTACCG
437632 AGGAATATTATGGTTTTCTAAGGGTTTTTCTTAGACCTGGTAATTCTTGTATCTTTATCATGTTC
66 AGGAATATTATGGTTTTCTAAGGGTTTTTCTTAGACCTGGTAATTCTTGTATCTTTATCATGTTC
437697 ATATATTTTGATGTGTTATAATCATGTTTAATGTATTTTTATTTATATAAATTTTAATGCGTTAA
131 ATATATTTTGATGTGTTATAATCATGTTTAATGTATTTTTATTTATATAAATTTTAATGCGTTAA
437762 TAATTCATATGGCTTT
196 TAATTCATATGGCTTT
*
437778 AGCTGGATTTTAATAATTGTTTGTGGATAATTAAATAGGTTTAATTTTTGATTGTTAAATTACCG
1 AGCTGGATTTTAATAATTGCTTGTGGATAATTAAATAGGTTTAATTTTTGATTGTTAAATTACCG
*
437843 AGGAATATTATGGTTTTCTAAGGGTTTTTCTTAGACCTGGTAATTCTTGTATCTTTATCGTGTTC
66 AGGAATATTATGGTTTTCTAAGGGTTTTTCTTAGACCTGGTAATTCTTGTATCTTTATCATGTTC
*
437908 ATATATTTTGATGTGTTATAATCATGTTTAATGTATTTTTATTTATATAAATTTTAATGTGTTAA
131 ATATATTTTGATGTGTTATAATCATGTTTAATGTATTTTTATTTATATAAATTTTAATGCGTTAA
437973 TAATTC
196 TAATTC
437979 GTATTTTATA
Statistics
Matches: 196, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
211 196 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.50
Consensus pattern (211 bp):
AGCTGGATTTTAATAATTGCTTGTGGATAATTAAATAGGTTTAATTTTTGATTGTTAAATTACCG
AGGAATATTATGGTTTTCTAAGGGTTTTTCTTAGACCTGGTAATTCTTGTATCTTTATCATGTTC
ATATATTTTGATGTGTTATAATCATGTTTAATGTATTTTTATTTATATAAATTTTAATGCGTTAA
TAATTCATATGGCTTT
Found at i:439176 original size:2 final size:2
Alignment explanation
Indices: 439169--439194 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
439159 CAACCGGCCC
439169 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
439195 TCCCTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:441928 original size:15 final size:15
Alignment explanation
Indices: 441908--441938 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
441898 ATTTGTGTGC
441908 TTTTTTACTTGTTTA
1 TTTTTTACTTGTTTA
441923 TTTTTTACTTGTTTA
1 TTTTTTACTTGTTTA
441938 T
1 T
441939 GTCATGACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTTTACTTGTTTA
Found at i:443988 original size:14 final size:14
Alignment explanation
Indices: 443969--443997 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
443959 TCGTCCATTC
443969 ATGTAAATAAGATA
1 ATGTAAATAAGATA
443983 ATGTAAATAAGATA
1 ATGTAAATAAGATA
443997 A
1 A
443998 CTTCAATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (14 bp):
ATGTAAATAAGATA
Found at i:444369 original size:14 final size:13
Alignment explanation
Indices: 444342--444382 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
444332 TTAAACTGAT
444342 TTTTATTATTTTTA
1 TTTTATT-TTTTTA
*
444356 TTGTTTTTTTTTTA
1 TT-TTATTTTTTTA
444370 TTTTATTTTTTTA
1 TTTTATTTTTTTA
444383 AAATTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.42
14 10 0.42
15 4 0.17
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:444373 original size:19 final size:19
Alignment explanation
Indices: 444341--444381 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
444331 CTTAAACTGA
444341 TTTTTATTATTTTTATTGTT
1 TTTTTATTATTTTTATT-TT
*
444361 TTTTTTTTA-TTTTATTTT
1 TTTTTATTATTTTTATTTT
444379 TTT
1 TTT
444382 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.85
Consensus pattern (19 bp):
TTTTTATTATTTTTATTTT
Found at i:445652 original size:20 final size:20
Alignment explanation
Indices: 445610--445653 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
445600 TTTTTTATCT
* * *
445610 TGTTATAATAATGTTTAAGG
1 TGTTATAATAATGGTCAAAG
*
445630 TGTTATAATAGTGGTCAAAG
1 TGTTATAATAATGGTCAAAG
445650 TGTT
1 TGTT
445654 TTATATTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (20 bp):
TGTTATAATAATGGTCAAAG
Found at i:452566 original size:2 final size:2
Alignment explanation
Indices: 452559--452609 Score: 77
Period size: 2 Copynumber: 25.5 Consensus size: 2
452549 TTGTTTTGTC
*
452559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
452600 AT AT GAT AT A
1 AT AT -AT AT A
452610 AGTCATATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.93
3 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:453026 original size:23 final size:21
Alignment explanation
Indices: 452988--453035 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
452978 CATATGAAAA
* *
452988 ATAATAAAAATATAACATGAG
1 ATAAAAAAAATATAACATGAC
453009 ATAAAAAATAATATTAACATGAC
1 ATAAAAAA-AATA-TAACATGAC
453032 ATAA
1 ATAA
453036 TACATAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 4 0.17
23 12 0.52
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (21 bp):
ATAAAAAAAATATAACATGAC
Found at i:453042 original size:23 final size:21
Alignment explanation
Indices: 452988--453043 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
452978 CATATGAAAA
* *
452988 ATAATAAAAATATAACATGAG
1 ATAATAATAATATAACATGAC
*
453009 ATAAAAAATAATATTAACATGAC
1 AT-AATAATAATA-TAACATGAC
453032 ATAATACATAAT
1 ATAATA-ATAAT
453044 TGTATCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 11 0.39
23 15 0.54
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (21 bp):
ATAATAATAATATAACATGAC
Found at i:454604 original size:129 final size:127
Alignment explanation
Indices: 454349--454602 Score: 411
Period size: 129 Copynumber: 2.0 Consensus size: 127
454339 AATAATTAAC
*
454349 ATTTTTACTCAAAGGATTTCCAACTCAATTACCATGTTGATTACGTCAATAGTTGTTTTCAAGTT
1 ATTTTTACTCAAAGGATTTCCAACACAATTACCATGTTGATTACGTCAATAGTTGTTTTCAAGTT
* *
454414 GTTGACAGCATTTTCTAGACTCTGATTTTGAACCCCAATTATTCTTATATGACATATATATAA
66 GTTGACAGCATTTTCTAGAC-CTGATGTTGAACCCCAATTATTCCTATATGACATATATATAA
* *
454477 ATTTTTACTTAAAGGATTTTCCAACACAATTACCATGTTGATTACGTCATTAGTTGTTTTCAAGT
1 ATTTTTACTCAAAGGA-TTTCCAACACAATTACCATGTTGATTACGTCAATAGTTGTTTTCAAGT
* **
454542 TGTTGACAGCATTTTCTAGA-CTGATGTTGAACCCCAGTTATTCCTATATGATGTATATATA
65 TGTTGACAGCATTTTCTAGACCTGATGTTGAACCCCAATTATTCCTATATGACATATATATA
454603 TATATATATA
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
127 36 0.31
128 15 0.13
129 66 0.56
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (127 bp):
ATTTTTACTCAAAGGATTTCCAACACAATTACCATGTTGATTACGTCAATAGTTGTTTTCAAGTT
GTTGACAGCATTTTCTAGACCTGATGTTGAACCCCAATTATTCCTATATGACATATATATAA
Found at i:454916 original size:24 final size:25
Alignment explanation
Indices: 454888--454934 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
454878 TCTTATATAT
454888 TTATTTAAATTT-AATTTGATTTGA
1 TTATTTAAATTTAAATTTGATTTGA
* *
454912 TTATTTAATTTTAAATTTTATTT
1 TTATTTAAATTTAAATTTGATTT
454935 AAATTTACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (25 bp):
TTATTTAAATTTAAATTTGATTTGA
Found at i:455762 original size:18 final size:18
Alignment explanation
Indices: 455736--455771 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
455726 AATTTTTTAA
* *
455736 AATTTTTTTTATCAAATT
1 AATTATTTTTATAAAATT
455754 AATTATTTTTATAAAATT
1 AATTATTTTTATAAAATT
455772 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTATTTTTATAAAATT
Found at i:457538 original size:22 final size:22
Alignment explanation
Indices: 457490--457532 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
457480 TAATAATTTT
*
457490 TATTTAAATTTAATTATAAAAA
1 TATTTAAAATTAATTATAAAAA
457512 TATTTAAAAATTAA-TATAAAA
1 TATTT-AAAATTAATTATAAAA
457533 TAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTTAAAATTAATTATAAAAA
Found at i:458242 original size:2 final size:2
Alignment explanation
Indices: 458229--458259 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
458219 TGCTAGCATG
*
458229 AT AT AT AC 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
458260 GGATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:458746 original size:11 final size:12
Alignment explanation
Indices: 458718--458756 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
458708 ATCTTACTTT
458718 TATTTTTGATTAA
1 TATTTTT-ATTAA
458731 TATTTTTATT-A
1 TATTTTTATTAA
*
458742 TATTTTTAATAA
1 TATTTTTATTAA
458754 TAT
1 TAT
458757 GTGTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 10 0.42
12 7 0.29
13 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (12 bp):
TATTTTTATTAA
Found at i:458763 original size:24 final size:24
Alignment explanation
Indices: 458718--458766 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
458708 ATCTTACTTT
* *
458718 TATTTTTGATTAATATTTTTATTA
1 TATTTTTGAATAATATTGTTATTA
458742 TATTTTT-AATAATATGTGTTATTA
1 TATTTTTGAATAATAT-TGTTATTA
458766 T
1 T
458767 CTTAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
TATTTTTGAATAATATTGTTATTA
Found at i:459539 original size:5 final size:6
Alignment explanation
Indices: 459531--459611 Score: 52
Period size: 5 Copynumber: 14.5 Consensus size: 6
459521 TATGATAATG
* * *
459531 ATTT-T ATTTAT ATTAAT TTTGATAT ATTTAT A-TCAT ATTTAT A-TTAT
1 ATTTAT ATTTAT ATTTAT ATT--TAT ATTTAT ATTTAT ATTTAT ATTTAT
*
459578 TTTTAT A-TTAT A-TTAT ATTT-T ATTT-T -TTTAT ATT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATT
459612 GTATCGTATT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
4 3 0.05
5 29 0.48
6 24 0.40
8 4 0.07
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (6 bp):
ATTTAT
Found at i:459570 original size:11 final size:11
Alignment explanation
Indices: 459535--459611 Score: 74
Period size: 10 Copynumber: 7.4 Consensus size: 11
459525 ATAATGATTT
459535 TATTTATATTA
1 TATTTATATTA
459546 -ATTT-TGA-TA
1 TATTTAT-ATTA
*
459555 TATTTATATCA
1 TATTTATATTA
459566 TATTTATATTA
1 TATTTATATTA
*
459577 TTTTTATATTA
1 TATTTATATTA
*
459588 TA-TTATATTT
1 TATTTATATTA
*
459598 TATTT-TTTTA
1 TATTTATATTA
459608 TATT
1 TATT
459612 GTATCGTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
9 3 0.06
10 26 0.48
11 25 0.46
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (11 bp):
TATTTATATTA
Found at i:459584 original size:22 final size:23
Alignment explanation
Indices: 459557--459604 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
459547 TTTTGATATA
459557 TTTATATCATATT-TATATTATT
1 TTTATATCATATTATATATTATT
* *
459579 TTTATATTATATTATATTTTATT
1 TTTATATCATATTATATATTATT
459602 TTT
1 TTT
459605 TTATATTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATATCATATTATATATTATT
Found at i:459621 original size:25 final size:27
Alignment explanation
Indices: 459535--459623 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 27
459525 ATAATGATTT
459535 TATTTATATTAATTTTGATATATTTATATCA
1 TATTTATATT-ATTTT--TATA-TTATATCA
*
459566 TATTTATATTATTTTTATATTATATTA
1 TATTTATATTATTTTTATATTATATCA
* *
459593 TATTT-TATT-TTTTTATATTGTATCG
1 TATTTATATTATTTTTATATTATATCA
459618 TATTTA
1 TATTTA
459624 CGTATGTAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
25 18 0.34
26 4 0.08
27 12 0.23
28 4 0.08
30 5 0.09
31 10 0.19
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
TATTTATATTATTTTTATATTATATCA
Found at i:460994 original size:3 final size:3
Alignment explanation
Indices: 460988--461025 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
460978 ACTGATAATA
460988 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
461026 AATTTATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:461899 original size:21 final size:21
Alignment explanation
Indices: 461875--461944 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
461865 CATATATTTG
461875 ATAAATATTAAATATAATTAA
1 ATAAATATTAAATATAATTAA
*
461896 ATAAATATAATATATATAATT-A
1 ATAAATAT--TAAATATAATTAA
*
461918 TTAAA-A-TATAATATAATATAA
1 ATAAATATTA-AATATAAT-TAA
461939 ATAAAT
1 ATAAAT
461945 TTTTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 1 0.03
21 14 0.36
22 5 0.13
23 10 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAATATTAAATATAATTAA
Found at i:461916 original size:23 final size:25
Alignment explanation
Indices: 461885--461944 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 25
461875 ATAAATATTA
461885 AATATAATTAAAT-AAATATAATAT
1 AATATAATTAAATAAAATATAATAT
*
461909 -ATATAATT-ATTAAAATATAATAT
1 AATATAATTAAATAAAATATAATAT
*
461932 AATATAAATAAAT
1 AATATAATTAAAT
461945 TTTTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 2 0.07
23 19 0.63
24 7 0.23
25 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATAATTAAATAAAATATAATAT
Found at i:461994 original size:27 final size:29
Alignment explanation
Indices: 461964--462041 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
461954 TTAAATTATT
461964 AATATATTAAAATTAATA-AAAAT-ATAA
1 AATATATTAAAATTAATATAAAATAATAA
* *
461991 AATAT-TTTAAATATAATTATAATATAATAA
1 AATATATTAAAAT-TAA-TATAAAATAATAA
*
462021 AATATATAAACAATTAATATA
1 AATATATTAA-AATTAATATA
462042 TATATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
26 6 0.15
27 8 0.20
28 2 0.05
29 4 0.10
30 13 0.32
31 5 0.12
32 3 0.07
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (29 bp):
AATATATTAAAATTAATATAAAATAATAA
Found at i:462001 original size:79 final size:78
Alignment explanation
Indices: 461876--462021 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 78
461866 ATATATTTGA
* *
461876 TAAATATTAAATATAATTAAATAAATATAATATATATAATTATTAAAATATAA-TATAATATAAA
1 TAAATATTAAATATAATTAAATAAATATAAAATATAAAATTATT-AAATATAATTATAATAT-AA
461940 TAAATTTTTAAAATT
64 TAAATTTTTAAAATT
* *
461955 TAAATTATT-AATAT-ATTAAAATTAATA-AAAATATAAAATATTTTAAATATAATTATAATATA
1 TAAA-TATTAAATATAATT-AAATAAATATAAAATATAAAAT-TATTAAATATAATTATAATATA
462017 ATAAA
63 ATAAA
462022 ATATATAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
78 27 0.46
79 28 0.47
80 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (78 bp):
TAAATATTAAATATAATTAAATAAATATAAAATATAAAATTATTAAATATAATTATAATATAATA
AATTTTTAAAATT
Found at i:462343 original size:12 final size:12
Alignment explanation
Indices: 462326--462411 Score: 65
Period size: 12 Copynumber: 7.4 Consensus size: 12
462316 TTTATTTTTA
*
462326 TTAAATTATAAT
1 TTAAATAATAAT
*
462338 TTAAATAAAAAT
1 TTAAATAATAAT
462350 TT---TAATAAT
1 TTAAATAATAAT
*
462359 TTAAAT-TTAAT
1 TTAAATAATAAT
* *
462370 TTAATTAAATAAA
1 TTAAAT-AATAAT
*
462383 TT-AATAAAAAAT
1 TTAAAT-AATAAT
462395 TTAAATAATAAT
1 TTAAATAATAAT
462407 TTAAA
1 TTAAA
462412 ATTTAAAATT
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
9 8 0.14
11 9 0.16
12 32 0.56
13 8 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAAATAATAAT
Found at i:462374 original size:19 final size:19
Alignment explanation
Indices: 462350--462428 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
462340 AAATAAAAAT
462350 TTTAATAATTTAAATTTAA
1 TTTAATAATTTAAATTTAA
*
462369 TTTAATTAA-ATAAA-TTAA
1 TTTAA-TAATTTAAATTTAA
* * *
462387 -TAAAAAATTTAAATAATAA
1 TTTAATAATTTAAAT-TTAA
*
462406 TTTAA-AATTTAAAATTAA
1 TTTAATAATTTAAATTTAA
462424 TTTAA
1 TTTAA
462429 ATTTAACTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
16 2 0.04
17 7 0.15
18 12 0.26
19 20 0.43
20 6 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTAATAATTTAAATTTAA
Found at i:462387 original size:32 final size:33
Alignment explanation
Indices: 462326--462389 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
462316 TTTATTTTTA
*
462326 TTAAATTATAATTTAAATAAAAATTTTAATAAT
1 TTAAATTATAATTTAAATAAAAATATTAATAAT
*
462359 TTAAATT-TAATTTAATTAAATAA-ATTAATAA
1 TTAAATTATAATTTAAATAAA-AATATTAATAA
462390 AAAATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
TTAAATTATAATTTAAATAAAAATATTAATAAT
Found at i:463097 original size:21 final size:21
Alignment explanation
Indices: 463073--463147 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 21
463063 ATTTAAAAAT
463073 TTATATGTATAATAAATATAA
1 TTATATGTATAATAAATATAA
*
463094 TTATAT-TAT--TAAAT-TTA
1 TTATATGTATAATAAATATAA
* *
463111 TTAATATGTTTATTAAAATATTAA
1 TT-ATATGTATAAT-AAATA-TAA
*
463135 TTATATATATAAT
1 TTATATGTATAAT
463148 TATAAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
17 4 0.10
18 9 0.22
19 2 0.05
20 3 0.07
21 7 0.17
22 4 0.10
23 8 0.20
24 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
TTATATGTATAATAAATATAA
Found at i:463158 original size:16 final size:16
Alignment explanation
Indices: 463139--463169 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
463129 TATTAATTAT
463139 ATATATAATTATAAAA
1 ATATATAATTATAAAA
*
463155 ATATATAATTTTAAA
1 ATATATAATTATAAA
463170 TTACAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATAATTATAAAA
Found at i:463984 original size:15 final size:15
Alignment explanation
Indices: 463964--464002 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
463954 GAATAAAAAT
*
463964 TTAAATATTATAATA
1 TTAAATATAATAATA
*
463979 TTAAATATAATTATA
1 TTAAATATAATAATA
463994 -TAAATATAA
1 TTAAATATAA
464003 AAAAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAAATATAATAATA
Found at i:464384 original size:5 final size:5
Alignment explanation
Indices: 464374--464409 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
464364 AAATAATTAA
464374 AATAT AATAT AATAT AA-AT AATAT AATAT AA-AT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
464410 GTATAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:464392 original size:25 final size:25
Alignment explanation
Indices: 464364--464437 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
464354 TGACATAAAA
464364 AAATAATTAAAATATAATATAATAT
1 AAATAATTAAAATATAATATAATAT
*
464389 AAATAA-TATAATATAA-ATAATGTAT
1 AAATAATTAAAATATAATATAA--TAT
* * * *
464414 AAATATTTTAAATTTTATATAATA
1 AAATAATTAAAATATAATATAATA
464438 CGAATTATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
23 4 0.10
24 9 0.23
25 16 0.41
26 6 0.15
27 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (25 bp):
AAATAATTAAAATATAATATAATAT
Found at i:464394 original size:14 final size:14
Alignment explanation
Indices: 464377--464409 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
464367 TAATTAAAAT
464377 ATAATATAATATAA
1 ATAATATAATATAA
464391 ATAATATAATATAA
1 ATAATATAATATAA
464405 ATAAT
1 ATAAT
464410 GTATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATATAATATAA
Found at i:465389 original size:37 final size:36
Alignment explanation
Indices: 465324--465401 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 36
465314 CTTTTACTAC
465324 AAAATATAAAAAATTTAATATAATTAATAATTATTTTT
1 AAAATATAAAAAATTTAATATAATTAATAA-T-TTTTT
* *
465362 AAAATATAAAAAA-TTATTTTTAA-TAATAATTTTTT
1 AAAATATAAAAAATTTA-ATATAATTAATAATTTTTT
465397 AAAAT
1 AAAAT
465402 TATATCTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
35 10 0.27
36 1 0.03
37 9 0.24
38 17 0.46
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
AAAATATAAAAAATTTAATATAATTAATAATTTTTT
Found at i:465418 original size:26 final size:26
Alignment explanation
Indices: 465371--465420 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
465361 TAAAATATAA
465371 AAAATTATTTTTAATAATAATTTTTT
1 AAAATTATTTTTAATAATAATTTTTT
465397 AAAATTATATCTTTAA-AA-AATTTT
1 AAAATTAT-T-TTTAATAATAATTTT
465421 AAAGATGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.64
27 3 0.14
28 5 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
AAAATTATTTTTAATAATAATTTTTT
Found at i:467005 original size:11 final size:10
Alignment explanation
Indices: 466973--467074 Score: 55
Period size: 8 Copynumber: 10.9 Consensus size: 10
466963 TGTATCCGAC
466973 TATTTAT-T-
1 TATTTATATA
466981 TATTTAT-T-
1 TATTTATATA
466989 TATTTATATCA
1 TATTTATAT-A
467000 TATTTATATA
1 TATTTATATA
467010 T-TTTATATTA
1 TATTTATA-TA
*
467020 TAATTT-TAAA
1 T-ATTTATATA
*
467030 TA-TTATATG
1 TATTTATATA
*
467039 T-TATATATA
1 TATTTATATA
*
467048 AATTT-TAATA
1 TATTTAT-ATA
467058 TATTTATA-A
1 TATTTATATA
467067 T-TTTATAT
1 TATTTATAT
467075 CATAATATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
8 23 0.31
9 19 0.26
10 17 0.23
11 12 0.16
12 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (10 bp):
TATTTATATA
Found at i:467016 original size:20 final size:20
Alignment explanation
Indices: 466991--467078 Score: 85
Period size: 20 Copynumber: 4.5 Consensus size: 20
466981 TATTTATTTA
*
466991 TTTATATCATATTTATATAT
1 TTTATATCATATTTATAAAT
*
467011 TTTATATTATAATTT-TAAAT
1 TTTATATCAT-ATTTATAAAT
* ** *
467031 ATTATATGTTATATATAAAT
1 TTTATATCATATTTATAAAT
467051 TTTA-AT-ATATTTAT-AAT
1 TTTATATCATATTTATAAAT
467068 TTTATATCATA
1 TTTATATCATA
467079 ATATTTTTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
17 7 0.13
18 8 0.15
19 8 0.15
20 28 0.51
21 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (20 bp):
TTTATATCATATTTATAAAT
Found at i:467032 original size:22 final size:22
Alignment explanation
Indices: 467002--467071 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
466992 TTATATCATA
* *
467002 TTTATATATTTTATATTATAAT
1 TTTAAATATTATATATTATAAT
*
467024 TTTAAATATTATATGTTAT-A-
1 TTTAAATATTATATATTATAAT
* *
467044 TATAAATTTTAATATATTTATAAT
1 TTTAAATATT-ATATA-TTATAAT
467068 TTTA
1 TTTA
467072 TATCATAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 8 0.22
21 5 0.14
22 20 0.54
23 1 0.03
24 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTAAATATTATATATTATAAT
Found at i:467036 original size:27 final size:29
Alignment explanation
Indices: 467006--467080 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 29
466996 ATCATATTTA
467006 TATATTTTATATTATAATTTTAA-ATA-T
1 TATATTTTATATTATAATTTTAATATATT
*
467033 TATATGTTATA-TATAAATTTTAATATATT
1 TATATTTTATATTAT-AATTTTAATATATT
*
467062 TATAATTTTATATCATAAT
1 TAT-ATTTTATATTATAAT
467081 ATTTTTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.08
27 18 0.45
28 3 0.08
29 4 0.10
30 10 0.25
31 2 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (29 bp):
TATATTTTATATTATAATTTTAATATATT
Found at i:467098 original size:7 final size:7
Alignment explanation
Indices: 466984--467098 Score: 60
Period size: 7 Copynumber: 16.6 Consensus size: 7
466974 ATTTATTTAT
*
466984 TTATTTA
1 TTATATA
466991 TT-TATA
1 TTATATA
*
466997 TCATAT-
1 TTATATA
467003 TTATATA
1 TTATATA
*
467010 TTTTATA
1 TTATATA
*
467017 TTATAATT
1 TTAT-ATA
*
467025 TTAAATA
1 TTATATA
*
467032 TTATATG
1 TTATATA
467039 TTATATA
1 TTATATA
* *
467046 -TAAATT
1 TTATATA
467052 TTAATATA
1 TT-ATATA
467060 TT-TATAA
1 TTATAT-A
*
467067 TTTTATA
1 TTATATA
*
467074 TCATAATA
1 TTAT-ATA
*
467082 TT-TTTA
1 TTATATA
467088 TTATATA
1 TTATATA
467095 TTAT
1 TTAT
467099 GTTTTAAATT
Statistics
Matches: 79, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
6 20 0.25
7 42 0.53
8 17 0.22
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (7 bp):
TTATATA
Found at i:467264 original size:2 final size:2
Alignment explanation
Indices: 467239--467277 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
467229 AACAATGTAC
* * *
467239 AT AT AC AT AT AA AT AT AC 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 AT AT AT AT A
467278 CACACACATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:467274 original size:12 final size:12
Alignment explanation
Indices: 467239--467277 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
467229 AACAATGTAC
*
467239 ATATACATATAA
1 ATATACATATAT
467251 ATATACATATAT
1 ATATACATATAT
*
467263 ATATATATATAT
1 ATATACATATAT
467275 ATA
1 ATA
467278 CACACACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:467515 original size:11 final size:11
Alignment explanation
Indices: 467495--467549 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
467485 ATAGGATAAG
467495 AAAAAAAAGTT
1 AAAAAAAAGTT
*
467506 AAAAAGAAGTT
1 AAAAAAAAGTT
* * * *
467517 CAATATAAGAT
1 AAAAAAAAGTT
467528 AAAAAAAAGTT
1 AAAAAAAAGTT
*
467539 AAAAAGAAGTT
1 AAAAAAAAGTT
467550 CAGAAAGGGG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (11 bp):
AAAAAAAAGTT
Found at i:467566 original size:33 final size:33
Alignment explanation
Indices: 467495--467566 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
467485 ATAGGATAAG
* *
467495 AAAAAAAAGTTAAAAAGAAGTTCAATATAAGAT
1 AAAAAAAAGTTAAAAAGAAGTTCAAAAGAAGAT
**
467528 AAAAAAAAGTTAAAAAGAAGTTCAGAAAGGGGAT
1 AAAAAAAAGTTAAAAAGAAGTTCA-AAAGAAGAT
467562 AAAAA
1 AAAAA
467567 CTGTAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.64, C:0.03, G:0.17, T:0.17
Consensus pattern (33 bp):
AAAAAAAAGTTAAAAAGAAGTTCAAAAGAAGAT
Found at i:467925 original size:21 final size:21
Alignment explanation
Indices: 467901--467944 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
467891 AATTATTTTT
467901 TATTTTTAAAATTTTTAAAAA
1 TATTTTTAAAATTTTTAAAAA
** *
467922 TATTTTTTTATTTTTTAAAAA
1 TATTTTTAAAATTTTTAAAAA
467943 TA
1 TA
467945 ATTATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTTAAAATTTTTAAAAA
Found at i:467928 original size:29 final size:31
Alignment explanation
Indices: 467881--467941 Score: 92
Period size: 29 Copynumber: 2.0 Consensus size: 31
467871 ATTGAGAATG
467881 ATTTGTTAAAAATTATTTTTTA-TTTTTAAA
1 ATTTGTTAAAAATTATTTTTTATTTTTTAAA
467911 ATTT-TTAAAAA-TATTTTTTTATTTTTTAAA
1 ATTTGTTAAAAATTA-TTTTTTATTTTTTAAA
467941 A
1 A
467942 ATAATTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 2 0.07
29 14 0.48
30 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (31 bp):
ATTTGTTAAAAATTATTTTTTATTTTTTAAA
Found at i:468509 original size:3 final size:3
Alignment explanation
Indices: 468501--468534 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
468491 AAGAGTAAAA
468501 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
468535 TTGCTGCTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:469259 original size:4 final size:4
Alignment explanation
Indices: 469250--469276 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
469240 TATCTGCTTT
469250 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
469277 TTTGTACAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:469628 original size:14 final size:12
Alignment explanation
Indices: 469586--469619 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
469576 TATAAAATAA
469586 AAAATTATTTTT
1 AAAATTATTTTT
469598 AATAATTATTTTTT
1 AA-AATTA-TTTTT
469612 AAAATTAT
1 AAAATTAT
469620 GTTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.15
13 10 0.50
14 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAAATTATTTTT
Found at i:470199 original size:21 final size:19
Alignment explanation
Indices: 470175--470227 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
470165 AGAAAATTAA
470175 AAAAATTAATTTAATATATTT
1 AAAAATTAATTT-ATA-ATTT
* *
470196 AAAATTTTATTTATAATTT
1 AAAAATTAATTTATAATTT
*
470215 ATAAGATTAATTT
1 A-AAAATTAATTT
470228 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.19
20 11 0.42
21 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AAAAATTAATTTATAATTT
Found at i:470982 original size:29 final size:28
Alignment explanation
Indices: 470921--470993 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 28
470911 GAGTTACAGT
* * *
470921 TTAAAAATTTTTTAAATTTAAATTGATA
1 TTAAAAATTTATTAAATTTAAAATAATA
*
470949 -TAAAAATTTATTATTATTTAAAATAATA
1 TTAAAAATTTATTA-AATTTAAAATAATA
470977 TTAAAAA-TT-TTAAATTT
1 TTAAAAATTTATTAAATTT
470994 TAATTTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 13 0.34
29 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TTAAAAATTTATTAAATTTAAAATAATA
Found at i:471000 original size:13 final size:15
Alignment explanation
Indices: 470972--471013 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
470962 TTATTTAAAA
* *
470972 TAATATTAAAAATTT
1 TAATATTTATAATTT
470987 TAA-ATTT-TAATTT
1 TAATATTTATAATTT
471000 TAATATTTATAATT
1 TAATATTTATAATT
471014 AAATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.35
14 7 0.30
15 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATATTTATAATTT
Found at i:471644 original size:21 final size:21
Alignment explanation
Indices: 471620--471666 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
471610 AAATTTTTTC
*
471620 TATATATAAAATATTAGTGTA
1 TATATATAAAATATTAATGTA
** *
471641 TATATATATGATTTTAATGTA
1 TATATATAAAATATTAATGTA
471662 TATAT
1 TATAT
471667 TTATATGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (21 bp):
TATATATAAAATATTAATGTA
Found at i:471665 original size:23 final size:22
Alignment explanation
Indices: 471639--471686 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
471629 AATATTAGTG
* *
471639 TATATATATATGATTTTAATGTA
1 TATATATATATG-GTTTAATATA
*
471662 TATATTTATATGGTTTAATATA
1 TATATATATATGGTTTAATATA
471684 TAT
1 TAT
471687 TTATGTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (22 bp):
TATATATATATGGTTTAATATA
Found at i:472474 original size:3 final size:3
Alignment explanation
Indices: 472466--472494 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
472456 TAACATGGTA
472466 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
472495 ATGCAATCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:473048 original size:21 final size:20
Alignment explanation
Indices: 472979--473049 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
472969 TTGTTGAGTC
*
472979 TTAAAATTTTATGTTATTAT
1 TTAAAATTTTATGTTAATAT
* *
472999 TTAAAA---TATATAAATAT
1 TTAAAATTTTATGTTAATAT
*
473016 TAAAAATTTTTATGTTAATAT
1 TTAAAA-TTTTATGTTAATAT
473037 TTATAAATTTTAT
1 TTA-AAATTTTAT
473050 AAGTAAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
17 13 0.33
20 6 0.15
21 17 0.44
22 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TTAAAATTTTATGTTAATAT
Found at i:473059 original size:21 final size:21
Alignment explanation
Indices: 473009--473062 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
472999 TTAAAATATA
*
473009 TAAATATTAAAAATTTTTATGT
1 TAAAT-TTAAAAATTTTTAAGT
*
473031 TAATATTTATAAATTTTATAAG-
1 TAA-ATTTAAAAATTTT-TAAGT
473053 TAAATTTAAA
1 TAAATTTAAA
473063 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.22
22 16 0.59
23 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TAAATTTAAAAATTTTTAAGT
Found at i:474481 original size:30 final size:30
Alignment explanation
Indices: 474445--474501 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
474435 GTGTAGATTC
*
474445 GTAGTTATAGAATATGATATTTTATGTTTT
1 GTAGTTATAGAATATGACATTTTATGTTTT
474475 GTAGTTATAGAATATGACATTTTATGT
1 GTAGTTATAGAATATGACATTTTATGT
474502 ATTCGTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (30 bp):
GTAGTTATAGAATATGACATTTTATGTTTT
Found at i:475095 original size:12 final size:12
Alignment explanation
Indices: 475078--475103 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
475068 AAATAATTTT
475078 TATTTTTAATAA
1 TATTTTTAATAA
475090 TATTTTTAATAA
1 TATTTTTAATAA
475102 TA
1 TA
475104 AAATGAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTTTAATAA
Found at i:475213 original size:6 final size:6
Alignment explanation
Indices: 475204--475250 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
475194 TCCACCTCAT
* * * *
475204 ATATGC ATATAC ATATGC ATATAC ATATAC ATATAT ATATAT ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
475251 TATTCAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (6 bp):
ATATAC
Found at i:478083 original size:53 final size:53
Alignment explanation
Indices: 478012--478113 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
478002 TATTAAATAT
* * * * *
478012 GAATATTTAAAAATAATAAGAGTCTAATAAAAATAGATATTAAATAATATAGA
1 GAATACTTAAAAAAAATAAAAATCCAATAAAAATAGATATTAAATAATATAGA
* * *
478065 GAATACTTAAAAAAAATAAAAATCCGATATAGATAGATATTAAATAATA
1 GAATACTTAAAAAAAATAAAAATCCAATAAAAATAGATATTAAATAATA
478114 CAGATACATA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (53 bp):
GAATACTTAAAAAAAATAAAAATCCAATAAAAATAGATATTAAATAATATAGA
Found at i:481710 original size:34 final size:33
Alignment explanation
Indices: 481667--481885 Score: 240
Period size: 34 Copynumber: 6.4 Consensus size: 33
481657 GGTTTGGTAA
481667 AAACTACCAAATCACCCATTTAATCAACAATGT
1 AAACTACCAAATCACCCATTTAATCAACAATGT
* *
481700 CAAACTACCAAATTACCCATTTAGTCAACAATGGT
1 -AAACTACCAAATCACCCATTTAATCAACAAT-GT
*
481735 AAACCACCAAATCACCCATTTAATCAACAATGT
1 AAACTACCAAATCACCCATTTAATCAACAATGT
* *
481768 CAAACTACCAAATCTCCCATTTAGTCAACAATGGT
1 -AAACTACCAAATCACCCATTTAATCAACAAT-GT
* * *
481803 AAACCACCAAATCGCCTCATTTAATCAATAATGAT
1 AAACTACCAAATCACC-CATTTAATCAACAATG-T
* * * * * *
481838 AAATTACCAAATCTCCTATTTAGTCAATAATGGC
1 AAACTACCAAATCACCCATTTAATCAACAAT-GT
*
481872 AAACCACCAAATCA
1 AAACTACCAAATCA
481886 ATGGCAAACT
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
33 2 0.01
34 124 0.78
35 32 0.20
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.25
Consensus pattern (33 bp):
AAACTACCAAATCACCCATTTAATCAACAATGT
Found at i:481862 original size:69 final size:68
Alignment explanation
Indices: 481667--481885 Score: 334
Period size: 68 Copynumber: 3.2 Consensus size: 68
481657 GGTTTGGTAA
*
481667 AAACTACCAAATCACCCATTTAATCAACAATGTCAAACTACCAAAT-TACCCATTTAGTCAACAA
1 AAACCACCAAATCACCCATTTAATCAACAATGTCAAACTACCAAATCT-CCCATTTAGTCAACAA
481731 TGGT
65 TGGT
481735 AAACCACCAAATCACCCATTTAATCAACAATGTCAAACTACCAAATCTCCCATTTAGTCAACAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGTCAAACTACCAAATCTCCCATTTAGTCAACAAT
481800 GGT
66 GGT
* * * * *
481803 AAACCACCAAATCGCCTCATTTAATCAATAATGAT-AAATTACCAAATCTCCTATTTAGTCAATA
1 AAACCACCAAATCACC-CATTTAATCAACAATG-TCAAACTACCAAATCTCCCATTTAGTCAACA
*
481867 ATGGC
64 ATGGT
481872 AAACCACCAAATCA
1 AAACCACCAAATCA
481886 ATGGCAAACT
Statistics
Matches: 140, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
68 80 0.57
69 59 0.42
70 1 0.01
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.25
Consensus pattern (68 bp):
AAACCACCAAATCACCCATTTAATCAACAATGTCAAACTACCAAATCTCCCATTTAGTCAACAAT
GGT
Found at i:486013 original size:19 final size:19
Alignment explanation
Indices: 485983--486034 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
485973 CACAGTACCG
485983 TATACGTAAATAGTACCTA
1 TATACGTAAATAGTACCTA
* * *
486002 TATATGTGAATAGTACCTG
1 TATACGTAAATAGTACCTA
486021 TATACGTAAATAGT
1 TATACGTAAATAGT
486035 GCCTCGACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
TATACGTAAATAGTACCTA
Found at i:486390 original size:34 final size:34
Alignment explanation
Indices: 486352--486483 Score: 138
Period size: 34 Copynumber: 3.9 Consensus size: 34
486342 CTAAATCACT
*
486352 CATTTAATCAACAATGACAAACTATCAAATCTCC
1 CATTTAATCAACAATGACAAACTACCAAATCTCC
* ** * *
486386 CATTTAGTCAACAATGGTAAACCACCAAATCACC
1 CATTTAATCAACAATGACAAACTACCAAATCTCC
* * * *
486420 CATTTAATCAATAATGATAAACTATCAAATCTCT
1 CATTTAATCAACAATGACAAACTACCAAATCTCC
* * * *
486454 CATTTAGTTAATAATAACAAACTACCAAAT
1 CATTTAATCAACAATGACAAACTACCAAAT
486484 TAATGATAAG
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (34 bp):
CATTTAATCAACAATGACAAACTACCAAATCTCC
Found at i:486481 original size:68 final size:68
Alignment explanation
Indices: 486336--486483 Score: 197
Period size: 68 Copynumber: 2.2 Consensus size: 68
486326 GGTTTGGGAA
* *
486336 AAACCACTAAATCACTCATTTAATCAACAATGACAAACTATCAAATCTCCCATTTAGTCAACAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGACAAACTATCAAATCTCCCATTTAGTCAACAAT
***
486401 GGT
66 AAC
* * * * *
486404 AAACCACCAAATCACCCATTTAATCAATAATGATAAACTATCAAATCTCTCATTTAGTTAATAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGACAAACTATCAAATCTCCCATTTAGTCAACAAT
486469 AAC
66 AAC
*
486472 AAACTACCAAAT
1 AAACCACCAAAT
486484 TAATGATAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (68 bp):
AAACCACCAAATCACCCATTTAATCAACAATGACAAACTATCAAATCTCCCATTTAGTCAACAAT
AAC
Done.