Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167934.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_197, whole genome shotgun sequence
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: 52816
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
File 2 of 2
Found at i:36156 original size:15 final size:15
Alignment explanation
Indices: 36120--36163 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
36110 TATTTATTTA
36120 TATATAATATATA-AT
1 TATAT-ATATATAGAT
36135 TATATATATATAGAT
1 TATATATATATAGAT
36150 TATATATATTATAG
1 TATATATA-TATAG
36164 TAAATAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.26
15 15 0.56
16 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (15 bp):
TATATATATATAGAT
Found at i:36563 original size:13 final size:12
Alignment explanation
Indices: 36545--36618 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 12
36535 ATAATTATAG
*
36545 TTAATATATCAT
1 TTAATATATAAT
*
36557 TTGAATATTTAAT
1 TT-AATATATAAT
36570 TT-A-ATATAAT
1 TTAATATATAAT
36580 TT-ATA-ATAAT
1 TTAATATATAAT
36590 TATAATATAATAATT
1 T-TAATAT-ATAA-T
36605 ATTAATATATAAT
1 -TTAATATATAAT
36618 T
1 T
36619 ATATTTATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
10 15 0.29
11 3 0.06
12 6 0.12
13 11 0.22
14 8 0.16
15 7 0.14
16 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (12 bp):
TTAATATATAAT
Found at i:36600 original size:14 final size:14
Alignment explanation
Indices: 36581--36621 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
36571 TAATATAATT
36581 TATAATAATTATAA
1 TATAATAATTATAA
36595 TATAATAATTATTAA
1 TATAATAATTA-TAA
36610 TAT-ATAATTATA
1 TATAATAATTATA
36622 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.08
14 18 0.69
15 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATAATAATTATAA
Found at i:40664 original size:18 final size:18
Alignment explanation
Indices: 40630--40701 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 18
40620 AATATTATTT
*
40630 ATTATTATACTTTTTTA-A
1 ATTATTA-ACTTATTTATA
40648 ATTATTAACTATATTTATA
1 ATTATTAACT-TATTTATA
*
40667 AATATTAA---ATTTATA
1 ATTATTAACTTATTTATA
*
40682 ATTAATAA-TTA--TATA
1 ATTATTAACTTATTTATA
40697 ATTAT
1 ATTAT
40702 AAAAATATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
15 21 0.47
17 4 0.09
18 12 0.27
19 8 0.18
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTAACTTATTTATA
Found at i:40731 original size:29 final size:25
Alignment explanation
Indices: 40662--40756 Score: 72
Period size: 29 Copynumber: 3.8 Consensus size: 25
40652 TTAACTATAT
* *
40662 TTATAA-ATATTAAAT-TTATAAT-
1 TTATAATATATTAAATATAAAAATA
* *
40684 TAATAAT-TATATAATTATAAAAATA
1 TTATAATATAT-TAAATATAAAAATA
*
40709 TTATATTTATATATTTAAATATAAATATA
1 TTATA---ATATA-TTAAATATAAAAATA
40738 TTATAATATATTAAATATA
1 TTATAATATATTAAATATA
40757 GTAATAAGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
22 8 0.14
23 4 0.07
24 5 0.09
25 13 0.23
26 5 0.09
28 2 0.04
29 19 0.33
30 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTATAATATATTAAATATAAAAATA
Found at i:40754 original size:19 final size:18
Alignment explanation
Indices: 40645--40756 Score: 68
Period size: 19 Copynumber: 5.8 Consensus size: 18
40635 TATACTTTTT
*
40645 TAAATTATTAACTATATTTA
1 TAAA-TATTAAATATA-TTA
* *
40665 TAAATATTAAATTTATAA
1 TAAATATTAAATATATTA
* *
40683 TTAATAATTATATA-ATTA
1 TAAAT-ATTAAATATATTA
40701 TAAAAATATTATATTTATATATT-
1 T--AAATATTA-A---ATATATTA
40724 TAAATA-TAAATATATTA
1 TAAATATTAAATATATTA
40741 TAATATATTAAATATA
1 TAA-ATATTAAATATA
40757 GTAATAAGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
16 7 0.10
17 3 0.04
18 13 0.18
19 28 0.39
20 9 0.12
21 5 0.07
23 4 0.06
24 3 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATATTAAATATATTA
Found at i:41191 original size:29 final size:29
Alignment explanation
Indices: 41136--41191 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
41126 TAAAATATTT
* * *
41136 ATAATTATATTTAATATTTATATAAATTA
1 ATAATTATATATAATATATATACAAATTA
41165 ATAATTATATATAATATA-ATTACAAAT
1 ATAATTATATATAATATATA-TACAAAT
41192 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.04
29 22 0.96
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
ATAATTATATATAATATATATACAAATTA
Found at i:41372 original size:25 final size:26
Alignment explanation
Indices: 41341--41397 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 26
41331 ATGTATATTT
41341 ATAAAT-ATATAAATTAATTATTATTAATA
1 ATAAATAATAT-AA-TAATTATTA-T-ATA
41370 ATAAATAATATAATAATTATTATATA
1 ATAAATAATATAATAATTATTATATA
41396 AT
1 AT
41398 TATTATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 5 0.19
27 1 0.04
28 9 0.33
29 8 0.30
30 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAAATAATATAATAATTATTATATA
Found at i:41396 original size:14 final size:14
Alignment explanation
Indices: 41355--41404 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
41345 ATATATAAAT
41355 TAATTATTAT-TAA
1 TAATTATTATATAA
* *
41368 TAATAAATAATATAA
1 TAAT-TATTATATAA
41383 TAATTATTATATAA
1 TAATTATTATATAA
*
41397 TTATTATT
1 TAATTATT
41405 TCAATAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 4 0.13
14 19 0.63
15 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTATTATATAA
Found at i:42210 original size:22 final size:19
Alignment explanation
Indices: 42174--42220 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
42164 ATAACATATA
42174 ATTTTAATATAAATATTAT
1 ATTTTAATATAAATATTAT
42193 ATTTATAATAATAGAATATTAT
1 ATTT-TAAT-ATA-AATATTAT
42215 AATTTT
1 -ATTTT
42221 TAGTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 3 0.12
22 9 0.38
23 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTTAATATAAATATTAT
Found at i:42359 original size:19 final size:19
Alignment explanation
Indices: 42311--42356 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
42301 TATAGTTAAT
*
42311 AATTTTTAATTTTTAATTA
1 AATTATTAATTTTTAATTA
42330 AATTATTAATTTTT-A-TA
1 AATTATTAATTTTTAATTA
42347 ATATTATTAA
1 A-ATTATTAA
42357 ATTAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 9 0.36
19 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTATTAATTTTTAATTA
Found at i:42417 original size:14 final size:13
Alignment explanation
Indices: 42345--42416 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 13
42335 TTAATTTTTA
*
42345 TAATATTATTAAAT
1 TAATATTATT-ATT
42359 TAATATTA-TATT
1 TAATATTATTATT
*
42371 TACA-ATTATTAGT
1 TA-ATATTATTATT
* *
42384 TAAT-TAATTAATA
1 TAATATTATT-ATT
42397 TAATATATATTATT
1 TAATAT-TATTATT
42411 TAATAT
1 TAATAT
42417 AAGCATGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
12 13 0.29
13 12 0.27
14 17 0.38
15 3 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (13 bp):
TAATATTATTATT
Found at i:42489 original size:39 final size:37
Alignment explanation
Indices: 42436--42528 Score: 91
Period size: 39 Copynumber: 2.5 Consensus size: 37
42426 TAGTTTAATT
* * *
42436 ATAACTTATTATAATAATAATAATAGTTACAATTTGT-TA
1 ATAATTTATAATAATAATAATAATA-TT--AATTTATATA
* *
42475 ATAATTTATAATAATTATATTAATATTAATTTATATA
1 ATAATTTATAATAATAATAATAATATTAATTTATATA
*
42512 ATAATCT-TAATAATAAT
1 ATAATTTATAATAATAAT
42529 TACAATTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
36 15 0.33
37 8 0.17
38 2 0.04
39 21 0.46
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (37 bp):
ATAATTTATAATAATAATAATAATATTAATTTATATA
Found at i:42516 original size:12 final size:11
Alignment explanation
Indices: 42473--42529 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 11
42463 TACAATTTGT
42473 TAATAATTTATAA
1 TAATAA-TT-TAA
*
42486 TAATTATATTAA
1 TAATAAT-TTAA
*
42498 TATTAATTTATA
1 TAATAATTTA-A
42510 TAATAATCTTAA
1 TAATAAT-TTAA
42522 TAATAATT
1 TAATAATT
42530 ACAATTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 4 0.11
12 24 0.65
13 9 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
TAATAATTTAA
Found at i:42521 original size:24 final size:25
Alignment explanation
Indices: 42473--42529 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
42463 TACAATTTGT
*
42473 TAATAATTTATAATAATTATATTAA
1 TAATAATTTATAATAATAATATTAA
* *
42498 TATTAATTTAT-ATAATAATCTTAA
1 TAATAATTTATAATAATAATATTAA
42522 TAATAATT
1 TAATAATT
42530 ACAATTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATAATTTATAATAATAATATTAA
Found at i:42575 original size:14 final size:13
Alignment explanation
Indices: 42473--42578 Score: 51
Period size: 14 Copynumber: 7.9 Consensus size: 13
42463 TACAATTTGT
*
42473 TAATAATTTATAA
1 TAATAATTAATAA
*
42486 TAATTATATTAATAT
1 TAA-TA-ATTAATAA
42501 TAAT--TTATATAA
1 TAATAATTA-ATAA
*
42513 TAAT-CTTAATAA
1 TAATAATTAATAA
42525 TAATTACAATT-A-AA
1 TAA-T--AATTAATAA
* *
42539 TATTCATTACATAA
1 TAATAATTA-ATAA
42553 TAATAATTAATAA
1 TAATAATTAATAA
*
42566 TATTATATTAATA
1 TAATA-ATTAATA
42579 CGTTATACAT
Statistics
Matches: 72, Mismatches: 9, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
11 6 0.08
12 14 0.19
13 17 0.24
14 23 0.32
15 10 0.14
16 2 0.03
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATAATTAATAA
Found at i:43995 original size:17 final size:17
Alignment explanation
Indices: 43975--44050 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 17
43965 TATATATAGT
*
43975 TTTATATATTTTAATTA
1 TTTATATATATTAATTA
43992 TTTA-ATATCATTAATTA
1 TTTATATAT-ATTAATTA
* *
44009 TTAAT-TA-ATGAA-TA
1 TTTATATATATTAATTA
* *
44023 TTGATATATTTTAATTTAA
1 TTTATATATATTAA-TT-A
44042 TTTATATAT
1 TTTATATAT
44051 CATTGATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
14 6 0.13
15 6 0.13
16 7 0.16
17 16 0.36
18 1 0.02
19 9 0.20
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATATATTAATTA
Found at i:44036 original size:24 final size:23
Alignment explanation
Indices: 43978--44038 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
43968 ATATAGTTTT
* *
43978 ATATATTTTAATTATTTAATATC
1 ATATATTTTAATTAATGAATATC
*
44001 AT-TAATTATTAATTAATGAATATTG
1 ATAT-ATT-TTAATTAATGAATA-TC
44026 ATATATTTTAATT
1 ATATATTTTAATT
44039 TAATTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.03
23 5 0.16
24 18 0.58
25 6 0.19
26 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (23 bp):
ATATATTTTAATTAATGAATATC
Found at i:44973 original size:359 final size:362
Alignment explanation
Indices: 44556--45231 Score: 880
Period size: 359 Copynumber: 1.9 Consensus size: 362
44546 AAACATATTT
*
44556 ATTTTTTAAATCTATTACTTATAAATTATCAAAATATTAATAAATTAATATTATTTTATTTCGAA
1 ATTTTTTAAATCTATTAATTATAAATTATCAAAATATTAATAAATTAATATTATTTTATTTCGAA
44621 TAAGC-TAGTATGAACAAAAATAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATA
66 TAAGCTTA-TATGAACAAAAATAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATA
* * *
44685 AATAATTGTTCAAATAGTCATAAC-GATTTGAACTT-GTTCAATAAA-AGATTT-A-TTTTTAAA
130 AATAACTATTCAAATAGCCATAACTG-TTTG-ACTTAGTTCAATAAACAGATTTAATTTTTTAAA
* ** * *
44745 TCTTTTACTTATTAATTGTCTTAATTTAATAAATTTGTATTATTTT-ATTCAAAATAAGCTTGTA
193 TATTTTACTTATTAATTGTCAAAAATTAATAAATTTGTATTATTTTAATTC-AAATAAGCTTGAA
* * * * * * *
44809 TGAACAGAAAAAATCATTTTATGACAAAGCAAAATGTTATAGCGATTTCCAATAAATAATTATTC
257 TAAACAGAAAAAATCATCTTATAACAAAACAAAAAGTTATAACGATTTCAAATAAATAATTATTC
44874 AAATAATTATAATTTTTTAAACTTGTTCAGTAAATAGATTC
322 AAATAATTATAATTTTTTAAACTTGTTCAGTAAATAGATTC
* * * * * *
44915 ATTTTTTAAATCTCTTAATTATTAATTTTTAAAATATTAATAACTTAATATTATTTTATTTTGAA
1 ATTTTTTAAATCTATTAATTATAAATTATCAAAATATTAATAAATTAATATTATTTTATTTCGAA
** * * * * * *
44980 TAAGCTTATATGAATTAAAATAATTTTTTTATGACAGAAGAAAAGGTCATAACGATTTGAAATAG
66 TAAGCTTATATGAACAAAAATAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAA
* * * * * *
45045 ATAACTATTCAAATAGCCATGACTGTTTGATTTAGTTTAGTAAACATATTTAATTTTTTACATAT
131 ATAACTATTCAAATAGCCATAACTGTTTGACTTAGTTCAATAAACAGATTTAATTTTTTAAATAT
*
45110 TTTACTTATTAATTGTCAAAAATTAATAAATTTGTATTATTTTAATTCGAATAAGCTTGAATAAA
196 TTTACTTATTAATTGTCAAAAATTAATAAATTTGTATTATTTTAATTCAAATAAGCTTGAATAAA
* ** * * *
45175 TAGAAACTATTATCTTATAACAAAACAAAAAGTTATAATGATTTGAAATAAATAATT
261 CAGAAAAAATCATCTTATAACAAAACAAAAAGTTATAACGATTTCAAATAAATAATT
45232 GCTTAAATAA
Statistics
Matches: 267, Mismatches: 43, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
358 3 0.01
359 143 0.54
360 8 0.03
361 1 0.00
362 108 0.40
363 4 0.01
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (362 bp):
ATTTTTTAAATCTATTAATTATAAATTATCAAAATATTAATAAATTAATATTATTTTATTTCGAA
TAAGCTTATATGAACAAAAATAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAA
ATAACTATTCAAATAGCCATAACTGTTTGACTTAGTTCAATAAACAGATTTAATTTTTTAAATAT
TTTACTTATTAATTGTCAAAAATTAATAAATTTGTATTATTTTAATTCAAATAAGCTTGAATAAA
CAGAAAAAATCATCTTATAACAAAACAAAAAGTTATAACGATTTCAAATAAATAATTATTCAAAT
AATTATAATTTTTTAAACTTGTTCAGTAAATAGATTC
Found at i:45014 original size:181 final size:179
Alignment explanation
Indices: 44421--45231 Score: 590
Period size: 181 Copynumber: 4.5 Consensus size: 179
44411 TTAATTTTTG
* ** * * *
44421 AATATTATTTTATCTTAG-ATAGGCTTATATGAACTGAAGTAATTATTTTATTACAAAAC-AAAA
1 AATATTATTTTAT-TTAGAATAAGCTTATATGAA-AAAAATAATTATTTTATGACAAAGCAAAAA
** * * * * * * * * ****
44484 GCTCGCAATGATTTGAAATATATTATTATTTAAATAGTCATGACTATTTGAACTTGTTTGGCAAA
64 G-TCATAACGATTTGAAATAAATAATTATTCAAATAATCATAACGATTTAAACTTGTTCAATAAA
* * * * *
44549 CATATTTATTTTTTAAATCTATTACTTATAAATTATCAAAATATTAATAAATT
128 -AGATTCATTTTTTAAATCTATTACTTATTAATTTTTAAAATATTAATAAATT
* * *
44602 AATATTATTTTATTTCGAATAAGC-TAGTATGAACAAAAATAATTGTTTTATGACAAAACAAAAA
1 AATATTATTTTATTTAGAATAAGCTTA-TATGAA-AAAAATAATTATTTTATGACAAAGCAAAAA
* * * *
44666 GTCATAACAATTTGAAATAAATAATTGTTCAAATAGTCATAACGATTTGAACTTGTTCAATAAAA
64 GTCATAACGATTTGAAATAAATAATTATTCAAATAATCATAACGATTTAAACTTGTTCAATAAAA
* *
44731 GATTTA-TTTTTAAATCTTTTACTTATTAATTGTCTT--AAT-TTAATAAATT
129 GATTCATTTTTTAAATCTATTACTTATTAATT-T-TTAAAATATTAATAAATT
** * * * * *
44780 TGTATTATTTTATTCAAAATAAGCTTGTATGAACAGAAAA-AATCATTTTATGACAAAGCAAAAT
1 AATATTATTTTATTTAGAATAAGCTTATATGAA-A-AAAATAATTATTTTATGACAAAGCAAAAA
* * ** * *** *
44844 GTTATAGCGATTTCCAATAAATAATTATTCAAATAATTATAATTTTTTAAACTTGTTCAGTAAAT
64 GTCATAACGATTTGAAATAAATAATTATTCAAATAATCATAACGATTTAAACTTGTTCAATAAA-
* * *
44909 AGATTCATTTTTTAAATCTCTTAATTATTAATTTTTAAAATATTAATAACTT
128 AGATTCATTTTTTAAATCTATTACTTATTAATTTTTAAAATATTAATAAATT
* * * *
44961 AATATTATTTTATTTTGAATAAGCTTATATGAATTAAAATAATTTTTTTATGACAGAAG-AAAAG
1 AATATTATTTTATTTAGAATAAGCTTATATGAA-AAAAATAATTATTTTATGACA-AAGCAAAAA
* * ** * * * * *
45025 GTCATAACGATTTGAAATAGATAACTATTCAAATAGCCATGACTG-TTT-GATTTAGTTTAGTAA
64 GTCATAACGATTTGAAATAAATAATTATTCAAATAATCATAAC-GATTTAAACTT-GTTCAATAA
* * * * * * *
45088 ACATATTTAATTTTTTACATATTTTACTTATTAATTGTCAAAA-ATTAATAAATT
127 A-AGA-TTCATTTTTTAAATCTATTACTTATTAATTTTTAAAATATTAATAAATT
** * * * * *
45142 TGTATTATTTTAATTCGAATAAGCTTGA-AT-AAATAGAAACT-ATTATCTTATAACAAAACAAA
1 AATATTATTTTATTTAGAATAAGCTT-ATATGAAA-A-AAA-TAATTATTTTATGACAAAGCAAA
* *
45204 AAGTTATAATGATTTGAAATAAATAATT
62 AAGTCATAACGATTTGAAATAAATAATT
45232 GCTTAAATAA
Statistics
Matches: 505, Mismatches: 103, Indels: 44
0.77 0.16 0.07
Matches are distributed among these distances:
178 110 0.22
179 38 0.08
180 49 0.10
181 268 0.53
182 40 0.08
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (179 bp):
AATATTATTTTATTTAGAATAAGCTTATATGAAAAAAATAATTATTTTATGACAAAGCAAAAAGT
CATAACGATTTGAAATAAATAATTATTCAAATAATCATAACGATTTAAACTTGTTCAATAAAAGA
TTCATTTTTTAAATCTATTACTTATTAATTTTTAAAATATTAATAAATT
Found at i:45712 original size:16 final size:17
Alignment explanation
Indices: 45691--45723 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45681 TAACAATTTG
45691 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
45707 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
45724 TGAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:46496 original size:180 final size:180
Alignment explanation
Indices: 45310--46530 Score: 853
Period size: 180 Copynumber: 6.9 Consensus size: 180
45300 TTAATTATTT
* * * * * * * *
45310 AAACAAAAGGTAATAACA-ATTTGAAATAAAAAATTGTTCATATAGCCTTAAATATTTGAACTAG
1 AAACAAAAGGTCATAA-AGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * *
45374 TTC-AGTAAATAAATTTATTTTTT-AAATCTCGTAGTTATTAATTTTTA-AAATATTATTATATT
65 TTCGA-TAAACAAATTTATTTTTTAAAATCT--TACTTATTAA-TTTTAGAAATATTAATAAATT
* * * * * *
45436 AGTATTATTTTATTTTGAATAAACTTGTGTGAATAGAAATAATTGTTTTATGAGA
126 AGTATTATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTATTTTATGATA
* * * * * *
45491 TAACAAAAGGTTATAACA-ATTTGAAATATATAATTGTTCAAACAATCATAACTATTTGAACTGG
1 AAACAAAAGGTCATAA-AGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * * * *
45555 TTC-AGTAAATAGATTAACTTTTT-AAATCTT--TTATTAATTTTTGAAATATTAGTAAATTAGT
65 TTCGA-TAAACAAATTTATTTTTTAAAATCTTACTTATTAATTTTAGAAATATTAATAAATTAGT
* * * * * * *
45616 ATTATTTTATTCCAAATAGGCTTTTATG-ATGAAAAACAATTGTTTTATGACA
129 ATTATTTTATTTCGAATAAGCTTGTATGAAT-AGAAACAATTATTTTATGATA
* * * * **
45668 AAACAAAAGTTCATAACA-ATTTGAAATAGATAATTATTCAAATAGCCATAATTATTTGAA-TAA
1 AAACAAAAGGTCATAA-AGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * ** * * ** *
45731 TTTGATAAACTAATTTATTTTTTAAAACTCCAACTTCTTAATTTTGGAAATATTAATAAAGCAAT
65 TTCGATAAACAAATTTATTTTTTAAAA-TCTTACTTATTAATTTTAGAAATATTAATAAATTAGT
* * * * * * * * *
45796 ATTATTTTTTTTTGGAA-AAACTTTTATGTACT-GAAATAGTTGTTTTATGGTA
129 ATTA-TTTTATTTCGAATAAGCTTGTATG-AATAGAAACAATTATTTTATGATA
* * * * * *
45848 AAATAAAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATAGTCATAACAATTTAAACTTAT
1 AAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGT
* * * * * * ** *
45913 TTGGTAAATAGA--T-TTTTTGAAAAT-TT-CTCATTAATTTTCTAAATTTTAATAAATTAGTAT
66 TCGATAAACAAATTTATTTTTTAAAATCTTACTTATTAATTTTAGAAATATTAATAAATTAGTAT
* * * *
45973 TACTATATTTCGAATAAGCATGTATGAACTA-AAACAATTATTTTTTGACT-
131 TATTTTATTTCGAATAAGCTTGTATGAA-TAGAAACAATTATTTTATGA-TA
* * * * * *
46023 AAACAAAAGATCA-AAATAATTTGGAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGT
1 AAACAAAAGGTCATAAA-GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT-T
* * * * * *
46087 TTTGGA-AAACACATTTA-TTTTT-AAATC---CTTATTAATTTTTGAAATAGTAATAAATTGGT
64 GTTCGATAAACAAATTTATTTTTTAAAATCTTACTTATTAATTTTAGAAATATTAATAAATTAGT
* * * ** *
46146 ATTATTTAATTTTGTATAATTTTGTATGAATAGAAACATTTATTTTAT-A-A
129 ATTATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTATTTTATGATA
* * * * * ** * * * *
46196 TAA-AATA--TCATAACGATTTAAAATAAATAACAGTTCAAATGGAT-ATGACTATTTAAACTTA
1 AAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAG-TCATAACTATTTGAACTTG
* * *
46257 TTC-AGTAAACAGATTTATTTTTT-AAATCTCTAACTTATTAATTTTTAG-AATAATAATAAACT
65 TTCGA-TAAACAAATTTATTTTTTAAAATCT-T-ACTTATTAA-TTTTAGAAATATTAATAAATT
* * * * *
46319 AGTATTATTTTATTCCAAATAAACTTGTGTGAATAGAAACAATTATTTTATAATA
126 AGTATTATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTATTTTATGATA
* * * *
46374 AAACAAAAGATCATAAAGATTTGAAATATATAATTGTTCAAATAGTAAT-ACTATTTGAACTTGC
1 AAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGT
* * *
46438 TCGATAAACAAATTTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATA
66 TCGATAAACAAATTTATTTTTTAAA-ATCTTACTTATTAATTTTAGAAATATTAATAAATTAGTA
*
46503 TTATTTTATTTCGAATAAGCTTATATGA
130 TTATTTTATTTCGAATAAGCTTGTATGA
46531 CAAAACAAAT
Statistics
Matches: 807, Mismatches: 188, Indels: 91
0.74 0.17 0.08
Matches are distributed among these distances:
168 1 0.00
169 3 0.00
170 44 0.05
171 13 0.02
172 3 0.00
173 2 0.00
174 14 0.02
175 163 0.20
176 92 0.11
177 129 0.16
178 14 0.02
179 11 0.01
180 181 0.22
181 133 0.16
182 4 0.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
AAACAAAAGGTCATAAAGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGT
TCGATAAACAAATTTATTTTTTAAAATCTTACTTATTAATTTTAGAAATATTAATAAATTAGTAT
TATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTATTTTATGATA
Found at i:46566 original size:159 final size:159
Alignment explanation
Indices: 46384--46683 Score: 394
Period size: 159 Copynumber: 1.9 Consensus size: 159
46374 AAACAAAAGA
* * * *
46384 TCATAAAGATTTGAAATATATAATTGTTCAAATAGTAAT-ACTATTTGAACT-TGCTC-GATAAA
1 TCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTA-TTGAA-TGTGCTCAAAAAAA
46446 CAAATTTATTATTT-AAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTT
64 CAAATTTATT-TTTAAAAT-TTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTT
46510 ATTTCG-AATAAGCTTATATGACAAAACAAATTG
127 A-TTCGAAATAAGCTTATATGACAAAACAAATTG
* * *
46543 TCATAACGATTTGAAATAGATAATTGTTCAAACAGTCATAACTATTGAATGTGTTCAAAAAAACA
1 TCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTATTGAATGTGCTCAAAAAAACA
* * * * * * *
46608 TATTTATTTTTAAAATTTTTATTTATTAATTTTTGGAGTTTTAATAAATTTATATTATTTTATTC
66 AATTTATTTTTAAAATTTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTC
46673 GAAATAAGCTT
131 GAAATAAGCTT
46684 GCATGAACAT
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
158 5 0.04
159 96 0.79
160 21 0.17
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (159 bp):
TCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTATTGAATGTGCTCAAAAAAACA
AATTTATTTTTAAAATTTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTC
GAAATAAGCTTATATGACAAAACAAATTG
Found at i:47031 original size:181 final size:180
Alignment explanation
Indices: 46526--47031 Score: 487
Period size: 181 Copynumber: 2.8 Consensus size: 180
46516 AATAAGCTTA
* * * * * * *
46526 TATGACAAAACAAATTGTCATAACGATTTGAAATAGATAATTGTTCAAACAG-TCATAACTA-TT
1 TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCT-ATAACTATTT
*** * * * *
46589 GAA-TGTGTTCAAAAAAACATATTTATTTTTAAAAT-TTTTATTTATTAATTTTTGGAGTTTTAA
65 GAACT-TGTTC-GGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTAA
*
46652 TAAATTTATATTATTTTATTCGAAATAAGCTTGCATGAACATAACTAATTATTT
128 TAAATTAATATTATTTTATTCGAAATAAGCTT-CATGAACATAACTAATTATTT
* * *
46706 TATGACAAAACAAATGGTCATAATGTTTTGAAATAGATAAATATTTAGATAGCTATAACTATTTG
1 TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCTATAACTATTTG
* * * * *
46771 AACTTGTTCGGTAAACATATTCATTTTTTAATTCTCTTACTCATTAATTTTTGGTATATTAATAA
66 AACTTGTTCGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTAATAA
**
46836 ATTAGA-GCTATTTTATTTC-AAATAAGCTT-ATGTTAAC-TGAAAC-AATTATTT
131 ATTA-ATATTATTTTA-TTCGAAATAAGCTTCATG--AACAT--AACTAATTATTT
* * * **
46887 TATTACAAAATAGAA-GGTCACAAT-TATTTGAAATAGATAATTATTCAAATAGTCT-TGGCTAT
1 TATGACAAAACA-AATGGTCACAATGT-TTTGAAATAGATAAATATTCAAATAG-CTATAACTAT
* * * ***
46949 TTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTGCTTATTAATTGTCAAAATATTAA
63 TTGAACTTGTTCGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTAA
47014 TAAATTAATATTATTTTA
128 TAAATTAATATTATTTTA
47032 ATCCGAATAA
Statistics
Matches: 268, Mismatches: 44, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
179 3 0.01
180 72 0.27
181 181 0.68
182 12 0.04
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (180 bp):
TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCTATAACTATTTG
AACTTGTTCGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTAATAA
ATTAATATTATTTTATTCGAAATAAGCTTCATGAACATAACTAATTATTT
Found at i:47696 original size:181 final size:182
Alignment explanation
Indices: 47066--47705 Score: 645
Period size: 181 Copynumber: 3.5 Consensus size: 182
47056 ACAAAACTAT
* * * * *
47066 TTCAAATCATTATGACTATTTGAATAATTATCTATTTGAAATTGTTATTA-CTTTTGTTTTGTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * * * * *
47130 TAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGGAATAAAATAATATTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAAT-AAATAATATTAATTTATTAATATTT
* * * * *
47195 CAAAAATTAATACA-TAAGAGATTTTAAAAATAAATATGTTTGCCAT-ACCAA-
130 CAAAAATTAATA-AGTAAGAGATTTAAAAAATGAATCTGTTTGACATGAACAAG
* * * * * * *
47246 TTCAATTAGTTATAACTATTTGACCAAATATTTATTTCAAATTGTTATGACCATTTGTTTTATCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * * * *
47311 TAAAACAATTGTTTCTGTTCATATAATCTTATTGGGAAGAAAGTAATGTTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAAA-TAATATTAATTTATTAATATTT
** * * * * *
47376 TGAAAATTAATAAGTAATG-GATTTAGAAAATGTATCT-TTTGGCTTG-ACCAG
130 CAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTGTTTGACATGAACAAG
* * * * * ** * *
47427 TGCAAACAATTATGACTATTTGAATAATTATCTACTTCAAATCATTATGACTTTTTGTTTTCTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * *
47492 CAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATAAT-TCTAATTTATTAATATT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAA-ATAATAT-TAATTTATTAATATT
* *
47556 CCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCTGTTT-AC-TGAACAAG
129 TCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGACATGAACAAG
* * * *
47608 TTCAAATAATTATAACTATTTGAACAATTATCTAGTTCAAATTGCTATAACCTTTTGTATTGTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* *
47673 TAAAATAATT-TTTGCTATTCATACAAGCTTATT
66 TAAAACAATTGTTT-CTGTTCATACAAGCTTATT
47706 TCAAATTTGT
Statistics
Matches: 371, Mismatches: 77, Indels: 23
0.79 0.16 0.05
Matches are distributed among these distances:
180 59 0.16
181 307 0.83
182 5 0.01
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (182 bp):
TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAAATAATATTAATTTATTAATATTTC
AAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGACATGAACAAG
Found at i:49961 original size:22 final size:23
Alignment explanation
Indices: 49894--49975 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 23
49884 TAATTTATTA
*
49894 ATATATTAATA-GTTTA-TTTA-
1 ATATATTAATATATTTACTTTAT
49914 ATTATAATTAAGTATA-TTA--TTAT
1 A-TAT-ATTAA-TATATTTACTTTAT
49937 ATACTA-TAAT-TATTTACTTTAT
1 ATA-TATTAATATATTTACTTTAT
49959 ATATATTAATATATTTA
1 ATATATTAATATATTTA
49976 AATATTATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 19
0.71 0.01 0.27
Matches are distributed among these distances:
19 2 0.04
20 5 0.10
21 8 0.16
22 22 0.44
23 13 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATATTAATATATTTACTTTAT
Found at i:50095 original size:21 final size:21
Alignment explanation
Indices: 50071--50120 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
50061 AGATAATAAT
50071 TTATTATTAATAATTATTATA
1 TTATTATTAATAATTATTATA
* *
50092 TTATATACT-ATAATTGTTATA
1 TTAT-TATTAATAATTATTATA
50113 TT-TTATTA
1 TTATTATTA
50121 GCAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 3 0.12
20 1 0.04
21 17 0.71
22 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTATTAATAATTATTATA
Found at i:50186 original size:15 final size:17
Alignment explanation
Indices: 50162--50198 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
50152 ATATTTGATA
50162 ATAATAATTA-TAAATT
1 ATAATAATTATTAAATT
*
50178 -TAATTATTATTAAATT
1 ATAATAATTATTAAATT
50194 ATAAT
1 ATAAT
50199 CTTAACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATAATTATTAAATT
Found at i:50595 original size:28 final size:26
Alignment explanation
Indices: 50530--50598 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 26
50520 TATTATTATC
*
50530 CAAA-AATTAAATTTATTAATTTAAT
1 CAAATAATTATATTTATTAATTTAAT
*
50555 CAAATAA-TATTATGTA-T-ATTTAAT
1 CAAATAATTA-TATTTATTAATTTAAT
*
50579 TAAATAATTATATTTATTAA
1 CAAATAATTATATTTATTAA
50599 ATCCAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
24 18 0.51
25 10 0.29
26 7 0.20
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
CAAATAATTATATTTATTAATTTAAT
Found at i:51060 original size:27 final size:26
Alignment explanation
Indices: 51030--51098 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 26
51020 GAATATATTG
51030 AATATATTAAAATTTATATATTATAAT
1 AATATATTAAAATTTATATATT-TAAT
51057 AATATA-T--AATTCTATATATTTAAT
1 AATATATTAAAATT-TATATATTTAAT
* *
51081 TATAAATTAAATATTTAT
1 AATATATTAAA-ATTTAT
51099 TTAATCTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
24 12 0.34
25 9 0.26
26 1 0.03
27 10 0.29
28 3 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
AATATATTAAAATTTATATATTTAAT
Found at i:51061 original size:25 final size:26
Alignment explanation
Indices: 51031--51098 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 26
51021 AATATATTGA
51031 ATATATTAAAATTTATATATTATAA-T
1 ATATATTAAAATTTATATATT-TAATT
*
51057 A-ATA-TATAATTCTATATATTTAATT
1 ATATATTAAAATT-TATATATTTAATT
*
51082 ATAAATTAAATATTTAT
1 ATATATTAAA-ATTTAT
51099 TTAATCTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
24 9 0.26
25 13 0.38
26 3 0.09
27 6 0.18
28 3 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATATTAAAATTTATATATTTAATT
Found at i:51213 original size:25 final size:24
Alignment explanation
Indices: 51160--51229 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
51150 TAACAATTAA
* **
51160 TATAATATAATTATTAATATAATTGT
1 TATAAT-TAATT-TAAATATAATAAT
51186 TATAAGTTAATTTAAATATAATAAT
1 TATAA-TTAATTTAAATATAATAAT
* *
51211 TATTATTATTTTAAATATA
1 TATAATTAATTTAAATATA
51230 GTTTAATCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 13 0.34
25 14 0.37
26 10 0.26
27 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
TATAATTAATTTAAATATAATAAT
Found at i:51481 original size:24 final size:22
Alignment explanation
Indices: 51442--51485 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
51432 AATATGTTTA
51442 TTAGTTTAAAACTAATTATATAG
1 TTAGTTTAAAACTAA-TATATAG
51465 TTAGTTTTAAATA-TAATATAT
1 TTAG-TTTAAA-ACTAATATAT
51486 TTTAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.47
24 9 0.47
25 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAGTTTAAAACTAATATATAG
Found at i:51504 original size:27 final size:27
Alignment explanation
Indices: 51471--51526 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
51461 ATAGTTAGTT
* *
51471 TTAAATATAATATAT-TT-TAATTATAA
1 TTAAA-ATAATATATATTATTACTATAA
51497 TTAAAATAATATATATTATTACTATAA
1 TTAAAATAATATATATTATTACTATAA
51524 TTA
1 TTA
51527 TTTTAATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.35
26 7 0.27
27 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAAAATAATATATATTATTACTATAA
Found at i:51829 original size:3 final size:3
Alignment explanation
Indices: 51815--51851 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
51805 TAGCATTAGA
*
51815 TAT TAT TGT TAT TAT TAT TAT TAT TAT T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51852 ACTTGATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:52382 original size:24 final size:24
Alignment explanation
Indices: 52312--52391 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 24
52302 TAATGGTTAA
52312 TATTGTTAT-AATTATAAATTAAATT
1 TATTGTTATCAATTATAAA-T-AATT
* *
52337 TAATTATTATTCAATTATTAAATAGTT
1 T-ATTGTTA-TCAATTA-TAAATAATT
52364 TATTGTTATCAATTATAAATAATT
1 TATTGTTATCAATTATAAATAATT
52388 TATT
1 TATT
52392 AATGTTTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
24 12 0.26
25 8 0.17
26 12 0.26
27 5 0.11
28 6 0.13
29 4 0.09
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (24 bp):
TATTGTTATCAATTATAAATAATT
Done.