Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold680
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: 1139231
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.15
Warning! 618122 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:1109 original size:29 final size:29
Alignment explanation
Indices: 1051--1107 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
1041 GCCACATGTA
**
1051 ATTTTTAGTAAAATTAAAAAGGTAATTTT
1 ATTTTTAGTAAAATTAAAAAAATAATTTT
1080 ATTTTT-GTAAAA-TAAATAAAATAATTTT
1 ATTTTTAGTAAAATTAAA-AAAATAATTTT
1108 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 15 0.60
29 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (29 bp):
ATTTTTAGTAAAATTAAAAAAATAATTTT
Found at i:1417 original size:3 final size:3
Alignment explanation
Indices: 1404--1437 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
1394 AGTTGAATTT
1404 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1438 AAAGATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1758 original size:23 final size:25
Alignment explanation
Indices: 1712--1763 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
1702 TTAAAGTACG
*
1712 ATATATATACATAGATATTATTAAA
1 ATATATATACATAGAAATTATTAAA
* *
1737 ATATATATA-ATATAAATT-TTAAC
1 ATATATATACATAGAAATTATTAAA
1760 ATAT
1 ATAT
1764 TAAAATTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.33
24 7 0.29
25 9 0.38
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATATATACATAGAAATTATTAAA
Found at i:1836 original size:18 final size:18
Alignment explanation
Indices: 1813--1848 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1803 TGAAACTATA
1813 AATATAAAAATATAATAT
1 AATATAAAAATATAATAT
* *
1831 AATATACAAATATTATAT
1 AATATAAAAATATAATAT
1849 TAAATTTTAA
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:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATAAAAATATAATAT
Found at i:2901 original size:130 final size:133
Alignment explanation
Indices: 2650--2915 Score: 357
Period size: 132 Copynumber: 2.0 Consensus size: 133
2640 GTGAAAATAT
*
2650 TAATGATAATTTCTATTAATATTTATAATACAAAATCATAAATAAAATAAATAATAAATCTATAC
1 TAATGATAATTTCTATTAATATTTATAACACAAAATCATAAATAAAATAAATAATAAATCTATAC
* * * *
2715 TGTTTATGATATAATATAAAATATTATATTATAAAACTTATATGTTTATAAAATTTTTATATTAA
66 TGATTATGATACAATATAAAATATTATATTATAAAACTTATATATTTATAAAATTTTAATATTAA
2780 ACA
131 ACA
* * * *
2783 TAATGATAA-TTCTATTAATATTTATAACACTAAATCATACATAAAATGAAAT-A-AATTTTATT
1 TAATGATAATTTCTATTAATATTTATAACACAAAATCATAAATAAAAT-AAATAATAAATCTA-T
*
2845 AC-GATTAT-A-ACAATATAAAATGTTTATATTATAAAAACTTAT-TATTTATAAAATTTTAATA
64 ACTGATTATGATACAATATAAAAT-ATTATATTAT-AAAACTTATATATTTATAAAATTTTAATA
2906 TTAAACA
127 TTAAACA
2913 TAA
1 TAA
2916 AGTACATATT
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
129 11 0.09
130 37 0.31
131 19 0.16
132 39 0.33
133 13 0.11
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (133 bp):
TAATGATAATTTCTATTAATATTTATAACACAAAATCATAAATAAAATAAATAATAAATCTATAC
TGATTATGATACAATATAAAATATTATATTATAAAACTTATATATTTATAAAATTTTAATATTAA
ACA
Found at i:2907 original size:17 final size:17
Alignment explanation
Indices: 2858--2907 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
2848 ATTATAACAA
2858 TATAAAATGTTT-ATA-T
1 TATAAAAT-TTTAATATT
** *
2874 TATAAAAACTTATTATT
1 TATAAAATTTTAATATT
2891 TATAAAATTTTAATATT
1 TATAAAATTTTAATATT
2908 AAACATAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
15 2 0.08
16 9 0.35
17 15 0.58
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TATAAAATTTTAATATT
Found at i:2954 original size:14 final size:14
Alignment explanation
Indices: 2929--2963 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2919 ACATATTATA
*
2929 TAAATAATTAAAAT
1 TAAATTATTAAAAT
*
2943 TTAATTATTAAAAT
1 TAAATTATTAAAAT
2957 TAAATTA
1 TAAATTA
2964 ACGTAACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATTATTAAAAT
Found at i:3399 original size:29 final size:26
Alignment explanation
Indices: 3365--3419 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
3355 ATAAATTGTG
3365 ATAATTTTTTATACTATATATTATTTTTA
1 ATAA-TTTTTATA-T-TATATTATTTTTA
*
3394 ATAATTTTTATATTTTATTATTTTTA
1 ATAATTTTTATATTATATTATTTTTA
3420 TCCTATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 12 0.48
27 1 0.04
28 8 0.32
29 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
ATAATTTTTATATTATATTATTTTTA
Found at i:3484 original size:42 final size:39
Alignment explanation
Indices: 3371--3484 Score: 105
Period size: 42 Copynumber: 3.0 Consensus size: 39
3361 TGTGATAATT
* * *
3371 TTTTA-TACTATATATTATTTTTAA-TA-ATTT-TTATA
1 TTTTATTATTATATATCATATTTAATTATATTTATTATA
* *
3406 TTTTATTATT-TTTATCCTATTTAATTAT-TTTAATTATA
1 TTTTATTATTATATATCATATTTAATTATATTT-ATTATA
3444 TTTATATTATATAATATATCATATTTAATTATATTTATTAT
1 TTT-TATTAT-T-ATATATCATATTTAATTATATTTATTAT
3485 TTGTAAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
35 15 0.24
36 8 0.13
38 8 0.13
39 6 0.10
40 1 0.02
42 21 0.34
43 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTATTATTATATATCATATTTAATTATATTTATTATA
Found at i:13615 original size:21 final size:21
Alignment explanation
Indices: 13580--13631 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
13570 AATGCTATAT
*
13580 TAATATTAAATTATTAAAATAG
1 TAATATT-TATTATTAAAATAG
* * *
13602 TATTATTTATTATTCAAATAT
1 TAATATTTATTATTAAAATAG
13623 TAATATTTA
1 TAATATTTA
13632 AAATATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATATTTATTATTAAAATAG
Found at i:14872 original size:18 final size:19
Alignment explanation
Indices: 14841--14880 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
14831 CTAATGGATT
*
14841 TTTCTGTCAAAAATAAGTA
1 TTTCTGTCAAAAATAACTA
*
14860 TTTC-GTCAGAAATAACTA
1 TTTCTGTCAAAAATAACTA
14878 TTT
1 TTT
14881 TCGACTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (19 bp):
TTTCTGTCAAAAATAACTA
Found at i:15147 original size:2 final size:2
Alignment explanation
Indices: 15140--15179 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15130 ATGGAAATGC
15140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15180 TTACCTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16495 original size:21 final size:21
Alignment explanation
Indices: 16444--16550 Score: 65
Period size: 21 Copynumber: 5.1 Consensus size: 21
16434 TACATTTATT
* * *
16444 AGTAAATTGTCTTTTAGCCTA
1 AGTAACTTGTCTTTTGGCATA
**
16465 AGTTGCTTGTCTTTTGGCATA
1 AGTAACTTGTCTTTTGGCATA
* * *
16486 AGTAATTTGTCTATT-GAATA
1 AGTAACTTGTCTTTTGGCATA
* * *
16506 AATGACTTATCTTTTGGCATA
1 AGTAACTTGTCTTTTGGCATA
* * *
16527 AGCAAATT-TTTTATTGGCATA
1 AGTAACTTGTCTT-TTGGCATA
16548 AGT
1 AGT
16551 TATATTTTTA
Statistics
Matches: 62, Mismatches: 22, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
20 17 0.27
21 45 0.73
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (21 bp):
AGTAACTTGTCTTTTGGCATA
Found at i:21596 original size:51 final size:51
Alignment explanation
Indices: 21539--21702 Score: 265
Period size: 51 Copynumber: 3.2 Consensus size: 51
21529 TTACCTGTAA
* * * **
21539 GTATCGATACATTGAAAAATGTATCGATACATTTGGGTCAAAACCCAGAAT
1 GTATCGATACAATGAATAATGTATCGATATATTTGGGTTGAAACCCAGAAT
*
21590 GTATCGATACAATGAATAATGTATCAATATATTTGGGTTGAAACCCAGAAT
1 GTATCGATACAATGAATAATGTATCGATATATTTGGGTTGAAACCCAGAAT
*
21641 GTATCGATACAATGAATAATGTATCGATATATTTGGGTTGAAACCTAGAAT
1 GTATCGATACAATGAATAATGTATCGATATATTTGGGTTGAAACCCAGAAT
21692 GTATCGATACA
1 GTATCGATACA
21703 TTTTCTTTCC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (51 bp):
GTATCGATACAATGAATAATGTATCGATATATTTGGGTTGAAACCCAGAAT
Found at i:21789 original size:20 final size:20
Alignment explanation
Indices: 21766--21803 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21756 TCATACATGG
21766 ATCGATATATTCACTTATGT
1 ATCGATATATTCACTTATGT
*
21786 ATCGATATATTCATTTAT
1 ATCGATATATTCACTTAT
21804 TGTACCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
ATCGATATATTCACTTATGT
Found at i:23753 original size:31 final size:31
Alignment explanation
Indices: 23713--23784 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
23703 GCTAAGTGAC
*
23713 AAAATTTAATTAAAAATCAAATTTTAGTAAT
1 AAAATTTAATTAAAAATCAAAATTTAGTAAT
* * *
23744 AAATTTTAATTAAAAATTAAAATTTAGTTAT
1 AAAATTTAATTAAAAATCAAAATTTAGTAAT
23775 AAAATTTAAT
1 AAAATTTAAT
23785 CAAATAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (31 bp):
AAAATTTAATTAAAAATCAAAATTTAGTAAT
Found at i:24213 original size:28 final size:27
Alignment explanation
Indices: 24138--24213 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 27
24128 TAACAATTTA
24138 TTTAAAA-TATAATAAAAATATTTTAATT
1 TTTAAAATTATAAT--AAATATTTTAATT
** *
24166 TTATATTATTA-AATTTAATATTTATAATT
1 TT-TAAAATTATAA-TAAATATTT-TAATT
24195 TTTAAAATTATAATAAATA
1 TTTAAAATTATAATAAATA
24214 AAAAATAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
28 20 0.54
29 14 0.38
30 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTAAAATTATAATAAATATTTTAATT
Found at i:24248 original size:21 final size:21
Alignment explanation
Indices: 24212--24258 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
24202 TTATAATAAA
24212 TAAAAAATAATTAATAGTG-T
1 TAAAAAATAATTAATAGTGAT
* *
24232 TAAAAAATATTTAAATATTGAT
1 TAAAAAATAATT-AATAGTGAT
24254 TAAAA
1 TAAAA
24259 TTGACGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 6 0.26
22 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (21 bp):
TAAAAAATAATTAATAGTGAT
Found at i:24404 original size:18 final size:21
Alignment explanation
Indices: 24358--24420 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 21
24348 AAAATTTCAC
24358 TTTACATATATATTAAT-ATTTT
1 TTTA-ATAT-TATTAATAATTTT
* *
24380 ATAAATA-T-TTAA-AATTTT
1 TTTAATATTATTAATAATTTT
24398 TTTAATATTATTAATAATTTT
1 TTTAATATTATTAATAATTTT
24419 TT
1 TT
24421 ATTTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
18 14 0.42
19 2 0.06
20 4 0.12
21 11 0.33
22 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAATATTATTAATAATTTT
Found at i:24422 original size:41 final size:43
Alignment explanation
Indices: 24329--24419 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
24319 AAATCTAAAT
24329 ATATTTTTATATAAGATTTAAAATTTCACTTTACATATATATTA
1 ATATTTTTATATAAGATTTAAAATTT-ACTTTACATATATATTA
* *
24373 ATA-TTTTATA-AATATTTAAAATTT-TTTTA-ATAT-TATTA
1 ATATTTTTATATAAGATTTAAAATTTACTTTACATATATATTA
24411 ATAATTTTT
1 AT-ATTTTT
24420 TATTTTTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
38 7 0.16
39 5 0.12
40 8 0.19
42 13 0.30
43 7 0.16
44 3 0.07
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (43 bp):
ATATTTTTATATAAGATTTAAAATTTACTTTACATATATATTA
Found at i:24450 original size:15 final size:15
Alignment explanation
Indices: 24432--24468 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
24422 TTTTTATAAT
24432 TTTAAAAATATAAAA
1 TTTAAAAATATAAAA
*
24447 TTTAATAATATAAAA
1 TTTAAAAATATAAAA
*
24462 ATTAAAA
1 TTTAAAA
24469 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TTTAAAAATATAAAA
Found at i:30975 original size:29 final size:29
Alignment explanation
Indices: 30933--31020 Score: 140
Period size: 29 Copynumber: 3.0 Consensus size: 29
30923 ACTAATCCGT
*
30933 TAACATGGATGGTCCATATACCAGCATCG
1 TAACATGGATGGTCCATATACTAGCATCG
30962 TAACATGGATGGTCCATATACTAGCATCG
1 TAACATGGATGGTCCATATACTAGCATCG
** *
30991 TAACATAAATGGTCCAAATACTAGCATCG
1 TAACATGGATGGTCCATATACTAGCATCG
31020 T
1 T
31021 TTTCAATAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (29 bp):
TAACATGGATGGTCCATATACTAGCATCG
Found at i:34235 original size:20 final size:20
Alignment explanation
Indices: 34210--34275 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
34200 TTTCAACGAT
34210 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
34230 TTGTATCGATAC---AA---
1 TTGTATCGATACATAAAGTG
34244 -TGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
34263 TTGTATCGATACA
1 TTGTATCGATACA
34276 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:34249 original size:13 final size:13
Alignment explanation
Indices: 34231--34288 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
34221 CATAAAGTGT
34231 TGTATCGATACAA
1 TGTATCGATACAA
34244 TGTATCGATACATAAA
1 TGTATCGATAC---AA
34260 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
34277 TGTATCGATACA
1 TGTATCGATACA
34289 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:34253 original size:33 final size:33
Alignment explanation
Indices: 34211--34312 Score: 188
Period size: 33 Copynumber: 3.1 Consensus size: 33
34201 TTCAACGATT
34211 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
34244 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
34277 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
34309 TGTA
1 TGTA
34313 AGCTACTACC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 22 0.32
33 46 0.68
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:34333 original size:65 final size:65
Alignment explanation
Indices: 34211--34340 Score: 158
Period size: 65 Copynumber: 2.0 Consensus size: 65
34201 TTCAACGATT
* **
34211 TGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTGTATCGATACAATGTAGCGATACATAAAG-AATGTATCGATACA
34276 A
65 A
* *
34277 TGTATCGATACAT-AAGTTTTGTATCGATACAATGTAAGCTACTACCA-AAA-AATGTATCGATA
1 TGTATCGATACATAAAGTGTTGTATCGATACAATGT-AGCGA-TA-CATAAAGAATGTATCGATA
34339 CA
63 CA
34341 TTACTCAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
65 33 0.59
66 16 0.29
67 5 0.09
68 2 0.04
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (65 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAATGTAGCGATACATAAAGAATGTATCGATACAA
Found at i:34368 original size:13 final size:13
Alignment explanation
Indices: 34350--34374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34340 ATTACTCAAA
34350 TGTATCGATACAT
1 TGTATCGATACAT
34363 TGTATCGATACA
1 TGTATCGATACA
34375 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34427 original size:52 final size:52
Alignment explanation
Indices: 34383--34511 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
34373 CACTGATCTT
34383 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
34435 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
34487 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
34512 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:48366 original size:19 final size:18
Alignment explanation
Indices: 48344--48442 Score: 108
Period size: 20 Copynumber: 5.1 Consensus size: 18
48334 GGCGTCCTCC
48344 ACAAAAAAAATAAAAAAAA
1 ACAAAAAAAA-AAAAAAAA
*
48363 ACAAATAAAAGAAAAAAAGA
1 ACAAA-AAAA-AAAAAAAAA
*
48383 AGAAAAAAACAAAAAAAAA
1 ACAAAAAAA-AAAAAAAAA
48402 ACAAAAAACAAAAAACAAAA
1 ACAAAAAA-AAAAAA-AAAA
48422 ACAAAAAAAACAAAGAAAAA
1 ACAAAAAAAA-AAA-AAAAA
48442 A
1 A
48443 AAACAACAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
19 31 0.45
20 36 0.52
21 2 0.03
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (18 bp):
ACAAAAAAAAAAAAAAAA
Found at i:48368 original size:14 final size:13
Alignment explanation
Indices: 48346--48448 Score: 97
Period size: 14 Copynumber: 7.7 Consensus size: 13
48336 CGTCCTCCAC
*
48346 AAAAAA-AATAAA
1 AAAAAACAAAAAA
48358 AAAAAACAAATAAA
1 AAAAAACAAA-AAA
*
48372 AGAAAAA-AAGAAGA
1 A-AAAAACAA-AAAA
48386 AAAAAAC--AAAA
1 AAAAAACAAAAAA
48397 AAAAAACAAAAAA
1 AAAAAACAAAAAA
48410 CAAAAAACAAAAACAA
1 -AAAAAAC-AAAA-AA
48426 AAAAAACAAAGAAA
1 AAAAAACAAA-AAA
48440 AAAAAACAA
1 AAAAAACAA
48449 CAACAACAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.13
12 6 0.08
13 11 0.14
14 30 0.39
15 18 0.23
16 2 0.03
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:48379 original size:29 final size:26
Alignment explanation
Indices: 48346--48448 Score: 109
Period size: 28 Copynumber: 3.8 Consensus size: 26
48336 CGTCCTCCAC
*
48346 AAAAAAAATAAAAAAAAACAAATAAAA
1 AAAAAAAAAAAAAAAAAACAAA-AAAA
* *
48373 GAAAAAAAGAAGAAAAAAAC-AAAAAA
1 -AAAAAAAAAAAAAAAAAACAAAAAAA
* *
48399 AAAACAAAAAACAAAAAACAAAAACAA
1 AAAAAAAAAAAAAAAAAACAAAAA-AA
48426 AAAAAACAAAGAAAAAAAAACAA
1 AAAAAA-AAA-AAAAAAAAACAA
48449 CAACAACAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
25 15 0.24
26 8 0.13
27 9 0.15
28 19 0.31
29 11 0.18
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (26 bp):
AAAAAAAAAAAAAAAAAACAAAAAAA
Found at i:48389 original size:39 final size:38
Alignment explanation
Indices: 48344--48460 Score: 116
Period size: 39 Copynumber: 3.0 Consensus size: 38
48334 GGCGTCCTCC
*
48344 ACAAAAAAAATAAAAAAAAACAAATAAA-AGAAAAA-AAGA
1 ACAAAAAAAA-AAAAAAAAACAAA-AAACA-AAAAACAAAA
*
48383 AGAAAAAAACAAAAAAAAAACAAAAAACAAAAAACAAAA
1 ACAAAAAAA-AAAAAAAAAACAAAAAACAAAAAACAAAA
* *
48422 ACAAAAAAAACAAAGAAAAAA-AAACAAC-AACAACAAAA
1 ACAAAAAAAA-AAA-AAAAAACAAAAAACAAAAAACAAAA
48460 A
1 A
48461 GGGTCCAGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
38 19 0.28
39 42 0.62
40 7 0.10
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (38 bp):
ACAAAAAAAAAAAAAAAAACAAAAAACAAAAAACAAAA
Found at i:48453 original size:20 final size:19
Alignment explanation
Indices: 48346--48460 Score: 87
Period size: 18 Copynumber: 6.1 Consensus size: 19
48336 CGTCCTCCAC
*
48346 AAAAAAAATAAAA-AAAAA
1 AAAAAAAACAAAACAAAAA
* *
48364 CAAATAAAAGAAAA-AAAGAA
1 -AAAAAAAACAAAACAAA-AA
*
48384 GAAAAAAACAAAA-AAAAA
1 AAAAAAAACAAAACAAAAA
* *
48402 ACAAAAAACAAAA-AACAA
1 AAAAAAAACAAAACAAAAA
* *
48420 AAACAAAA-AAAACAAAGA
1 AAAAAAAACAAAACAAAAA
48438 AAAAAAAACAACAACAACAAA
1 AAAAAAAACAA-AACAA-AAA
48459 AA
1 AA
48461 GGGTCCAGAT
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
17 4 0.05
18 33 0.43
19 29 0.38
20 7 0.09
21 4 0.05
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (19 bp):
AAAAAAAACAAAACAAAAA
Found at i:48453 original size:29 final size:27
Alignment explanation
Indices: 48346--48460 Score: 110
Period size: 27 Copynumber: 4.2 Consensus size: 27
48336 CGTCCTCCAC
*
48346 AAAAAAAATAAAAAAAAACAA-ATAAAA
1 AAAAAAAAGAAAAAAAAACAACA-AAAA
* *
48373 GAAAAAAAGAAGAAAAAAACAAAAAAAA
1 AAAAAAAAGAA-AAAAAAACAACAAAAA
*
48401 AACAAAAAACAAAAAACAAA-AAC-AAAA
1 AA-AAAAAAGAAAAAA-AAACAACAAAAA
* *
48428 AAAACAAAGAAAAAAAAACAACAACAA
1 AAAAAAAAGAAAAAAAAACAACAAAAA
*
48455 CAAAAA
1 AAAAAA
48461 GGGTCCAGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
25 3 0.04
26 14 0.19
27 22 0.31
28 21 0.29
29 12 0.17
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (27 bp):
AAAAAAAAGAAAAAAAAACAACAAAAA
Found at i:48459 original size:14 final size:12
Alignment explanation
Indices: 48344--48460 Score: 73
Period size: 13 Copynumber: 9.6 Consensus size: 12
48334 GGCGTCCTCC
48344 ACAAAAAA-AATA
1 ACAAAAAACAA-A
*
48356 AAAAAAAACAAA
1 ACAAAAAACAAA
48368 TA-AAAGAAA-AAA
1 -ACAAA-AAACAAA
* *
48380 AGAAGAAA-AAA
1 ACAAAAAACAAA
48391 ACAAAAAA-AAA
1 ACAAAAAACAAA
48402 ACAAAAAACAAA
1 ACAAAAAACAAA
*
48414 AAACAAAAACAAA
1 ACA-AAAAACAAA
* *
48427 AAAAACAAAGAAA
1 ACAAA-AAACAAA
*
48440 AAAAAACAACAACA
1 ACAAAA-AACAA-A
48454 ACAAAAA
1 ACAAAAA
48461 GGGTCCAGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
11 24 0.27
12 24 0.27
13 34 0.39
14 6 0.07
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (12 bp):
ACAAAAAACAAA
Found at i:48460 original size:1 final size:1
Alignment explanation
Indices: 48346--48445 Score: 83
Period size: 1 Copynumber: 100.0 Consensus size: 1
48336 CGTCCTCCAC
* * * * * * * * *
48346 AAAAAAAATAAAAAAAAACAAATAAAAGAAAAAAAGAAGAAAAAAACAAAAAAAAAACAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
48411 AAAAAACAAAAACAAAAAAAACAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
48446 CAACAACAAC
Statistics
Matches: 73, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.87, C:0.07, G:0.04, T:0.02
Consensus pattern (1 bp):
A
Found at i:50003 original size:58 final size:56
Alignment explanation
Indices: 49892--50313 Score: 402
Period size: 58 Copynumber: 7.3 Consensus size: 56
49882 TATTCCTCAC
* * *
49892 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCCAAAGCCCACAAGTCAGTGGCAA
*
49949 CCTTCAAAGCCCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAGCCCACAAGTCAGTGGCACCCTT-T-CCAAAGCCCACAAGTCAGTGGCAA
*
50007 CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAGCCCACAAGTCAGTGGCACCC-TTTC-CAAAGCCCACAAGTCAGTGGCAA
* * * *
50065 CCTTCGAAAGCCCACAAGTCAGTGGCACTCTTTTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTC-AAAGCCCACAAGTCAGTGGCAC-CCTTTCCAAAGCCCACAAGTCAGTGGCAA
* * * *
50123 CCTTCTCCCAAAGCCCACAAGTTAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCAC
1 CC-T-T--CAAAGCCCACAAGTCAGTGGCACCCTTTCCAAAGCCCACAAGTCAGTGGCAA
* * * * * * *
50182 CCTTTTCCAAAACCCATAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTTAGTGGTAT
1 CC--TT-CAAAGCCCACAAGTCAGTGGCACCCTTTCCAAAGCCCACAAGTCAGTGGCAA
* * * * * **
50240 CTTTTCAAAAGCCCACAAGTCAGTGGTAACC-TTCAAAAGCACACAAGTTGGT-GCAA
1 C-CTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCCAAAGCCCACAAGTCAGTGGCAA
50296 CCCTATCAAAAGCCCACA
1 -CCT-TC-AAAGCCCACA
50314 CAAGTTGGTG
Statistics
Matches: 320, Mismatches: 30, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
56 27 0.08
57 63 0.20
58 151 0.47
59 53 0.17
60 5 0.02
61 20 0.06
62 1 0.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (56 bp):
CCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCCAAAGCCCACAAGTCAGTGGCAA
Found at i:50069 original size:89 final size:84
Alignment explanation
Indices: 49892--50285 Score: 409
Period size: 89 Copynumber: 4.5 Consensus size: 84
49882 TATTCCTCAC
* * *
49892 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACC-T-TCA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAGCCCACAAATCAGTGGCAACCTTCTCA
* *
49955 AAGCCCACAAATCAGTGGCAC
64 AAGCCCACAAGTCAGTGGCAA
* *
49976 CCTTCTCCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTC
1 CC-T-T-CAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCAACC--TTC
50041 TCAAAGCCCACAAGTCAGTGGCAA
61 TCAAAGCCCACAAGTCAGTGGCAA
* *
50065 CCTTCGAAAGCCCACAAGTCAGTGGC-ACTCTTTTTCAAAGCCCACAAATCAGTGGCACCCTTCT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAAC-C---TTCAAAGCCCACAAATCAGTGGCAACCTTCT
*
50129 CCCAAAGCCCACAAGTTAGTGGCAA
62 --CAAAGCCCACAAGTCAGTGGCAA
* * * * *
50154 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAACCCATAAGTCAGTGGCAACCTTC-A
1 CCTTCAAAAGCCCACAAGTCAGTGGCAACC--TT-CAAAGCCCACAAATCAGTGGCAACCTTCTC
* * *
50218 AAAGCCCACAAGTTAGTGGTAT
63 AAAGCCCACAAGTCAGTGGCAA
* * *
50240 CTTTTCAAAAGCCCACAAGTCAGTGGTAACCTTCAAAAGCACACAA
1 C-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAA
50286 GTTGGTGCAA
Statistics
Matches: 269, Mismatches: 24, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
84 3 0.01
85 38 0.14
86 44 0.16
87 54 0.20
88 6 0.02
89 123 0.46
90 1 0.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (84 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCAACCTTCTCAAA
GCCCACAAGTCAGTGGCAA
Found at i:50222 original size:147 final size:146
Alignment explanation
Indices: 49895--50313 Score: 552
Period size: 147 Copynumber: 2.9 Consensus size: 146
49885 TCCTCACCCT
* *
49895 TCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAAC-C--TTCAAA
1 TCAAAA-CCCACAAGTCAGTGGCAAC--CTTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAA
*
49957 GCCCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCAC
62 GCCCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCAC
50021 AAATCAGTGGCACCCTTTTC
127 AAATCAGTGGCACCCTTTTC
*
50041 TCAAAGCCCACAAGTCAGTGGCAACCTTCGAAAGCCCACAAGTCAGTGGCACTCTTTTTCAAAGC
1 TCAAAACCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTCAGTGGCACTC-TTTTCAAAGC
50106 CCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAA
64 CCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAA
*
50171 GTCAGTGGCACCCTTTTC
129 ATCAGTGGCACCCTTTTC
* * *
50189 -CAAAACCCATAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTTAGTGGTA-TCTTTTCAAAAGC
1 TCAAAACCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTCAGTGGCACTCTTTTC-AAAGC
* * * * * *
50252 CCACAAGTCAGTGGTAACC-T-T-CAAAAGCACACAAGTTGGT-GCAACCCTATCAAAAGCCCAC
64 CCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTTAGTGGCAA-CCT-TCAAAAGCCCAC
50313 A
127 A
50314 CAAGTTGGTG
Statistics
Matches: 248, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
142 4 0.02
143 24 0.10
144 35 0.14
145 24 0.10
146 28 0.11
147 105 0.42
148 28 0.11
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (146 bp):
TCAAAACCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCC
ACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAAT
CAGTGGCACCCTTTTC
Found at i:50399 original size:49 final size:49
Alignment explanation
Indices: 50330--50609 Score: 279
Period size: 49 Copynumber: 5.8 Consensus size: 49
50320 GGTGGCATCT
* *
50330 TCTTCTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
* * *
50380 TCTTTAAGTCCAATGTCGCTGGCCTTGAACCAACACATTGGCA----C-
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
* * *
50424 -CTTTAAGTCCAATATTGCTGGCCTTGAATCAACATATTGGCACCGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
* * * * *
50472 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
** * * * *
50521 TCTTTAAGTCCGGTATCGCTGGCTTTAAATCAGCATATTGGCACCGTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
* * *
50570 TCTTTAAGAT-CAATGTCG-TCGGCCATGAAGCAGCACATTG
1 TCTTTAAG-TCCAATATCGCT-GGCCTTGAATCAGCACATTG
50610 TCATTCTTCG
Statistics
Matches: 186, Mismatches: 36, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
43 38 0.20
45 1 0.01
47 1 0.01
48 1 0.01
49 140 0.75
50 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
Found at i:50444 original size:43 final size:43
Alignment explanation
Indices: 50339--50467 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 43
50329 TTCTTCTAAA
* * *
50339 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAG
1 TCCAATATCGCTGGCCTTGAACCAACACATTGGCA----C--CTTTAAG
*
50388 TCCAATGTCGCTGGCCTTGAACCAACACATTGGCACCTTTAAG
1 TCCAATATCGCTGGCCTTGAACCAACACATTGGCACCTTTAAG
* * *
50431 TCCAATATTGCTGGCCTTGAATCAACATATTGGCACC
1 TCCAATATCGCTGGCCTTGAACCAACACATTGGCACC
50468 GTCATCTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
43 40 0.56
45 1 0.01
49 31 0.43
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (43 bp):
TCCAATATCGCTGGCCTTGAACCAACACATTGGCACCTTTAAG
Found at i:50573 original size:98 final size:96
Alignment explanation
Indices: 50322--50618 Score: 370
Period size: 92 Copynumber: 3.1 Consensus size: 96
50312 CACAAGTTGG
*
50322 TGGCATCTT-CTTCTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTA
1 TGGCATCTTCCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTA
* * *
50386 AGTCCAATGTCGCTGGCCTTGAACCAACACAT
65 AGACCAATGTCGTTGGCCTTGAACCAGCACAT
* *
50418 TGGCA----CCTTTAAGTCCAATATTGCTGGCCTTGAATCAACATATTGGCACCGTCATCTTTAA
1 TGGCATCTTCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAA
*
50479 GACCAATGTCGTTGGCCTTGAATCAGCACAT
66 GACCAATGTCGTTGGCCTTGAACCAGCACAT
** * * *
50510 TGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCTTTAAATCAGCATATTGGCACCGTTATCTTT
1 TGGCATCTTC--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTT
* * * *
50575 AAGATCAATGTCGTCGGCCATGAAGCAGCACAT
64 AAGACCAATGTCGTTGGCCTTGAACCAGCACAT
*
50608 TGTCATTCTTC
1 TGGCA-TCTTC
50619 GCATCTTCGA
Statistics
Matches: 174, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
92 81 0.47
93 3 0.02
96 6 0.03
98 79 0.45
99 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (96 bp):
TGGCATCTTCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAA
GACCAATGTCGTTGGCCTTGAACCAGCACAT
Found at i:51368 original size:13 final size:13
Alignment explanation
Indices: 51350--51374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51340 TTCAACGATT
51350 TGTATCGATACAA
1 TGTATCGATACAA
51363 TGTATCGATACA
1 TGTATCGATACA
51375 TAAGTGTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:51454 original size:13 final size:13
Alignment explanation
Indices: 51436--51460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51426 ATTACTCAAA
51436 TGTATCGATACAT
1 TGTATCGATACAT
51449 TGTATCGATACA
1 TGTATCGATACA
51461 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:51513 original size:52 final size:52
Alignment explanation
Indices: 51469--51597 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
51459 CACTAATCTT
51469 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
51521 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
51573 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
51598 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:53741 original size:24 final size:26
Alignment explanation
Indices: 53714--53763 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53704 TCAAAATTTT
53714 ATTCAT-CG-GGGACACTCCAACCCC
1 ATTCATCCGAGGGACACTCCAACCCC
*
53738 ATTCTTCCGATGGGACACTCCAACCC
1 ATTCATCCGA-GGGACACTCCAACCC
53764 TATTTTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
27 15 0.68
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (26 bp):
ATTCATCCGAGGGACACTCCAACCCC
Found at i:57231 original size:18 final size:17
Alignment explanation
Indices: 57202--57291 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 17
57192 TAATTTTGTG
57202 AAATTAAAATTAGTTTATA
1 AAATT-AAATTA-TTTATA
57221 AAATTAAATTATATTAT-
1 AAATTAAATTAT-TTATA
* *
57238 AATTTAAATTATTTTTA
1 AAATTAAATTATTTATA
* *
57255 TAATTATGAAATATTTTATA
1 AAATTA--AATTA-TTTATA
57275 AAATATAAATTATTTAT
1 AAAT-TAAATTATTTAT
57292 TTACATTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.05
17 16 0.28
18 15 0.26
19 13 0.23
20 8 0.14
21 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
AAATTAAATTATTTATA
Found at i:57248 original size:55 final size:52
Alignment explanation
Indices: 57165--57291 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 52
57155 ACAAAAAATA
* *
57165 AAAAATAAATTATTTTATAATTTGAATTAATTTTGTGA-AATTA-AAATTAGTTTAT
1 AAAATTAAATTA-TTTATAATTTAAATT-ATTTT-T-ATAATTAGAAA-TAGTTTAT
*
57220 AAAATTAAATTATATTATAATTTAAATTATTTTTATAATTATGAAATATTTTAT
1 AAAATTAAATTAT-TTATAATTTAAATTATTTTTATAATTA-GAAATAGTTTAT
57274 AAAATATAAATTATTTAT
1 AAAAT-TAAATTATTTAT
57292 TTACATTAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
52 1 0.02
53 6 0.09
54 22 0.34
55 35 0.55
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (52 bp):
AAAATTAAATTATTTATAATTTAAATTATTTTTATAATTAGAAATAGTTTAT
Found at i:58327 original size:15 final size:16
Alignment explanation
Indices: 58302--58347 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
58292 AATTTTAATA
*
58302 TATTAATAATTTATAT
1 TATTTATAATTTATAT
*
58318 TATTTA-AATTGATA-
1 TATTTATAATTTATAT
*
58332 TATTTATAAATTATAT
1 TATTTATAATTTATAT
58348 CAAGTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 6 0.25
15 13 0.54
16 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATTTATAATTTATAT
Found at i:58368 original size:22 final size:22
Alignment explanation
Indices: 58332--58387 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
58322 TAAATTGATA
*
58332 TATTTATAAATTATATCA-AGTTAT
1 TATTT-TATATTATATCATA-TT-T
58356 T-TTTTATATTATATCATATTT
1 TATTTTATATTATATCATATTT
58377 TATTTTATATT
1 TATTTTATATT
58388 TTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 2 0.07
22 22 0.76
23 4 0.14
24 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTTATATTATATCATATTT
Found at i:58584 original size:14 final size:14
Alignment explanation
Indices: 58565--58608 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
58555 AGAAATTAAA
58565 ATTTAAAAAATAAT
1 ATTTAAAAAATAAT
*
58579 ATTTAAAATAATAAAA
1 ATTTAAAA-AAT-AAT
58595 ATTT-AAAAATAAT
1 ATTTAAAAAATAAT
58608 A
1 A
58609 AAATTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.12
14 11 0.42
15 6 0.23
16 6 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTTAAAAAATAAT
Found at i:58612 original size:16 final size:15
Alignment explanation
Indices: 58561--58614 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
58551 TGTAAGAAAT
58561 TAAAATTTAAAA-AA
1 TAAAATTTAAAATAA
*
58575 TAATATTTAAAATAA
1 TAAAATTTAAAATAA
58590 TAAAAATTTAAAAATAA
1 T-AAAATTT-AAAATAA
58607 TAAAATTT
1 TAAAATTT
58615 TTTATTCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 11 0.31
15 3 0.09
16 13 0.37
17 8 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATTTAAAATAA
Found at i:59727 original size:31 final size:31
Alignment explanation
Indices: 59692--59755 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
59682 AAGTTTAATA
*
59692 AAAAATTAAAATTT-ATTA-TCAAATTACAATT
1 AAAAATCAAAATTTAATTACT-AAATT-CAATT
*
59723 AAAAATCAAAGTTTAATTACTAAATTCAATT
1 AAAAATCAAAATTTAATTACTAAATTCAATT
59754 AA
1 AA
59756 TAAAACTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 19 0.66
32 9 0.31
33 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (31 bp):
AAAAATCAAAATTTAATTACTAAATTCAATT
Found at i:62302 original size:3 final size:3
Alignment explanation
Indices: 62296--62322 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
62286 TAATAATGAA
62296 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
62323 TATGCTCTGC
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:63089 original size:2 final size:2
Alignment explanation
Indices: 63076--63117 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
63066 GGGCAAACCG
*
63076 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63118 CGATGCCCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67385 original size:11 final size:11
Alignment explanation
Indices: 67371--67409 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
67361 TTCTTAATTT
67371 TATAAATTATA
1 TATAAATTATA
*
67382 TATAAATAATA
1 TATAAATTATA
*
67393 TTTAAATTATA
1 TATAAATTATA
67404 TATAAA
1 TATAAA
67410 AAAGTGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATAAATTATA
Found at i:67623 original size:28 final size:26
Alignment explanation
Indices: 67592--67648 Score: 60
Period size: 28 Copynumber: 2.1 Consensus size: 26
67582 TTATGATTCG
67592 ATTTAAATTAATATTTAATAATTAAAAT
1 ATTTAAATTAA-ATTTAATAA-TAAAAT
* * *
67620 ATTTTTATTTAAATTTAATTATAAAAT
1 A-TTTAAATTAAATTTAATAATAAAAT
67647 AT
1 AT
67649 AATATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
26 1 0.04
27 7 0.28
28 9 0.36
29 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTAAATTAAATTTAATAATAAAAT
Found at i:67677 original size:19 final size:19
Alignment explanation
Indices: 67633--67678 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
67623 TTTATTTAAA
*
67633 TTTAATTATAAAATATAAT
1 TTTAAATATAAAATATAAT
*
67652 ATT-AATATAAAA-ATAATT
1 TTTAAATATAAAATATAA-T
67670 TTTAAATAT
1 TTTAAATAT
67679 TTTATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAATATAAAATATAAT
Found at i:67704 original size:12 final size:13
Alignment explanation
Indices: 67689--67719 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
67679 TTTATTAATT
67689 ATAAATAATA-AA
1 ATAAATAATATAA
67701 ATAAATAATATAA
1 ATAAATAATATAA
67714 ATAAAT
1 ATAAAT
67720 CAAGCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAAATAATATAA
Found at i:69226 original size:4 final size:4
Alignment explanation
Indices: 69217--69249 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
69207 ATTTTTTCTA
69217 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
69250 AATAGATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:69395 original size:17 final size:17
Alignment explanation
Indices: 69357--69402 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
69347 ATTTTCCTTA
69357 TTTTTAATT-TTTCAAT
1 TTTTTAATTATTTCAAT
**
69373 TCTTTTAATTATTTTTAT
1 T-TTTTAATTATTTCAAT
69391 TTTTT-ATTATTT
1 TTTTTAATTATTT
69403 AATAGCTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 8 0.31
17 12 0.46
18 6 0.23
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAATTATTTCAAT
Found at i:74726 original size:30 final size:31
Alignment explanation
Indices: 74673--74739 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 31
74663 ACATTGAATA
*
74673 ATGTATCGATACATTTGGGTAAAATACCTAG
1 ATGTATCGATACATTTGGGTAAAAAACCTAG
*
74704 ATGTATCGATACATTT-GGTAAAAAATCTAG
1 ATGTATCGATACATTTGGGTAAAAAACCTAG
74734 ATGTAT
1 ATGTAT
74740 TAATACAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGTATCGATACATTTGGGTAAAAAACCTAG
Found at i:74822 original size:13 final size:13
Alignment explanation
Indices: 74806--74831 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
74796 TAGGGTAGCT
74806 TTGTATCGATACA
1 TTGTATCGATACA
74819 TTGTATCGATACA
1 TTGTATCGATACA
74832 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:83298 original size:19 final size:20
Alignment explanation
Indices: 83274--83321 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
83264 TATTTTAGTG
83274 TGTATCGATACAATG-AACA
1 TGTATCGATACAATGCAACA
*
83293 TGTATCGATACAATGCAATA
1 TGTATCGATACAATGCAACA
*
83313 TGCATCGAT
1 TGTATCGAT
83322 GCATCTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAATGCAACA
Found at i:84415 original size:16 final size:16
Alignment explanation
Indices: 84390--84421 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84380 TTCAACAACG
84390 AAAAACAAAAAAAAAA
1 AAAAACAAAAAAAAAA
*
84406 AAAAAGAAAAAAAAAA
1 AAAAACAAAAAAAAAA
84422 GAAATCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAAAAAA
Found at i:84422 original size:11 final size:11
Alignment explanation
Indices: 84389--84425 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
84379 ATTCAACAAC
84389 GAAAAACAAAAA
1 GAAAAA-AAAAA
84401 -AAAAAAAAAA
1 GAAAAAAAAAA
84411 GAAAAAAAAAA
1 GAAAAAAAAAA
84422 GAAA
1 GAAA
84426 TCTAATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:84527 original size:20 final size:20
Alignment explanation
Indices: 84497--84586 Score: 62
Period size: 19 Copynumber: 4.5 Consensus size: 20
84487 AATATGATAA
84497 AAAAATA-ATATAAAAATAT
1 AAAAATATATATAAAAATAT
* *
84516 AAAAATATATAT-TATATAT
1 AAAAATATATATAAAAATAT
* * *
84535 TAAAATAT-TATTATAATATT
1 AAAAATATATATAAAAATA-T
* *
84555 TAAAATAT-TATTATAATATAT
1 AAAAATATATA-TA-AAAATAT
84576 AAAAATATATA
1 AAAAATATATA
84587 AATACGATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
18 3 0.05
19 22 0.40
20 15 0.27
21 9 0.16
22 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATATATATAAAAATAT
Found at i:84546 original size:11 final size:11
Alignment explanation
Indices: 84532--84583 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
84522 ATATATTATA
84532 TATTAAAATAT
1 TATTAAAATAT
*
84543 TATTATAATA-
1 TATTAAAATAT
84553 T-TTAAAATAT
1 TATTAAAATAT
*
84563 TATTATAATA-
1 TATTAAAATAT
*
84573 TATAAAAATAT
1 TATTAAAATAT
84584 ATAAATACGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
9 7 0.21
10 10 0.30
11 16 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:85171 original size:17 final size:18
Alignment explanation
Indices: 85149--85194 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
85139 AGTTAAATTT
*
85149 TATAATTTTA-AATATGA
1 TATAATTATATAATATGA
85166 TATAATTATATAATATGA
1 TATAATTATATAATATGA
85184 -AT-ATTATATAA
1 TATAATTATATAA
85195 AAATAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.33
17 11 0.41
18 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
TATAATTATATAATATGA
Found at i:85218 original size:26 final size:26
Alignment explanation
Indices: 85189--85267 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
85179 TATGAATATT
85189 ATATAAAAATAATTAAAATTAAAATA
1 ATATAAAAATAATTAAAATTAAAATA
* *
85215 ATATAAAAAATAAATAAAA-TATGAAT-
1 ATAT-AAAAATAATTAAAATTA-AAATA
* *
85241 ATAT-AAAAT-TTTAAAATTTAAATA
1 ATATAAAAATAATTAAAATTAAAATA
85265 ATA
1 ATA
85268 AGAATTAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 8 0.19
24 9 0.21
26 10 0.23
27 16 0.37
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (26 bp):
ATATAAAAATAATTAAAATTAAAATA
Found at i:85264 original size:23 final size:23
Alignment explanation
Indices: 85229--85273 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
85219 AAAAAATAAA
*
85229 TAAAATATGAATATATAA-AATTT
1 TAAAATATAAATA-ATAAGAATTT
*
85252 TAAAATTTAAATAATAAGAATT
1 TAAAATATAAATAATAAGAATT
85274 AATTATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
TAAAATATAAATAATAAGAATTT
Found at i:86220 original size:20 final size:21
Alignment explanation
Indices: 86195--86251 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
86185 TCGAATAAAA
86195 TTATTTTTTAATATTTTT-AT
1 TTATTTTTTAATATTTTTAAT
*
86215 TTATTTTTT-ATTTTTTTAAT
1 TTATTTTTTAATATTTTTAAT
* *
86235 TTACTATTTAA-ATTTTT
1 TTATTTTTTAATATTTTT
86252 TAAATTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.23
20 23 0.74
21 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATTTTTTAATATTTTTAAT
Found at i:86293 original size:24 final size:23
Alignment explanation
Indices: 86224--86293 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
86214 TTTATTTTTT
* *
86224 ATTTTTTTAAT-TTACTATTTAA
1 ATTTTTTTAATAATATTATTTAA
* *
86246 ATTTTTTAAATTCAAAATT-TTTAA
1 ATTTTTTTAA-T-AATATTATTTAA
86270 ATTTTTTTAATAATATTATATTAA
1 ATTTTTTTAATAATATTAT-TTAA
86294 TTAAATTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
22 14 0.38
23 3 0.08
24 18 0.49
25 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTTTTAATAATATTATTTAA
Found at i:87022 original size:20 final size:20
Alignment explanation
Indices: 86999--87051 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
86989 TGATATTTTT
86999 TAATATTAATTAAAAATAAA
1 TAATATTAATTAAAAATAAA
87019 TAATA-TATATTAAAAATAAA
1 TAATATTA-ATTAAAAATAAA
*
87039 -AAAATTAATTAAA
1 TAATATTAATTAAA
87052 TTTATAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATATTAATTAAAAATAAA
Found at i:87401 original size:29 final size:27
Alignment explanation
Indices: 87352--87436 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
87342 ATGATATTGT
*
87352 TATATTTTTAAGTATCTTTTTTAATTTA
1 TATATTTTTAA-TATATTTTTTAATTTA
* *
87380 TTGATATTTTTAAAATATTTTTTTTAATATA
1 -T-ATATTTTT--AATATATTTTTTAATTTA
* *
87411 TATATTTATAATATATTTTTAAATTT
1 TATATTTTTAATATATTTTTTAATTT
87437 TTTAATAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
27 14 0.30
29 8 0.17
30 9 0.19
31 14 0.30
32 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (27 bp):
TATATTTTTAATATATTTTTTAATTTA
Found at i:87406 original size:31 final size:29
Alignment explanation
Indices: 87352--87430 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
87342 ATGATATTGT
* * *
87352 TATATTTTT-AAGTATCTTTTTTAATTTA
1 TATATTTTTAAAATATTTTTTTTAATATA
87380 TTGATATTTTTAAAATATTTTTTTTAATATA
1 -T-ATATTTTTAAAATATTTTTTTTAATATA
* *
87411 TATATTTATAATATATTTTT
1 TATATTTTTAAAATATTTTT
87431 AAATTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 18 0.42
30 9 0.21
31 16 0.37
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (29 bp):
TATATTTTTAAAATATTTTTTTTAATATA
Found at i:87504 original size:16 final size:17
Alignment explanation
Indices: 87478--87512 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
87468 AATATATTTC
*
87478 TATTATATATGTATATA
1 TATTATATATGTAAATA
87495 TATT-TATATGTAAATA
1 TATTATATATGTAAATA
87511 TA
1 TA
87513 AATATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
TATTATATATGTAAATA
Found at i:88350 original size:14 final size:13
Alignment explanation
Indices: 88312--88366 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
88302 AAAGGCAGAA
*
88312 AAAATAAAAAAAT
1 AAAATAAAATAAT
*
88325 -AAAT-GAATAAT
1 AAAATAAAATAAT
*
88336 AAATTAAAGATAAT
1 AAAATAAA-ATAAT
88350 AGAAATAAAATAAT
1 A-AAATAAAATAAT
88364 AAA
1 AAA
88367 GAAAAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
11 5 0.15
12 7 0.21
13 3 0.09
14 12 0.36
15 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:88687 original size:17 final size:17
Alignment explanation
Indices: 88650--88684 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
88640 TAAATGAAAG
88650 ATAATAGAAATAAAATA
1 ATAATAGAAATAAAATA
88667 ATAAT-GAAA-AAAATA
1 ATAATAGAAATAAAATA
88682 ATA
1 ATA
88685 TAAAAGTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 4 0.22
17 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (17 bp):
ATAATAGAAATAAAATA
Found at i:89415 original size:14 final size:14
Alignment explanation
Indices: 89398--89428 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89388 TAAATTTTAA
*
89398 ATTTATTAAATATT
1 ATTTATTAAAAATT
89412 ATTTATTAAAAATT
1 ATTTATTAAAAATT
89426 ATT
1 ATT
89429 ACATAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTATTAAAAATT
Found at i:89820 original size:2 final size:2
Alignment explanation
Indices: 89813--89856 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
89803 AGCAGCTTCA
89813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89855 AT
1 AT
89857 TTATTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90272 original size:14 final size:14
Alignment explanation
Indices: 90253--90284 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
90243 TAAATTTTAT
*
90253 TTAAATTGATTAAA
1 TTAAATTGAATAAA
90267 TTAAATTGAATAAA
1 TTAAATTGAATAAA
90281 TTAA
1 TTAA
90285 TTAAAATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (14 bp):
TTAAATTGAATAAA
Found at i:91995 original size:20 final size:21
Alignment explanation
Indices: 91958--91996 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
91948 AATAAAGTAT
*
91958 TTTAGTTATTATATTCTTAAA
1 TTTAGTTATTATAGTCTTAAA
*
91979 TTTA-TTATTTTAGTCTTA
1 TTTAGTTATTATAGTCTTA
91997 CACTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTAGTTATTATAGTCTTAAA
Found at i:92166 original size:21 final size:20
Alignment explanation
Indices: 92127--92174 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
92117 CCTAAACTTA
*
92127 TTTTTA-TATAAAATTTTAG
1 TTTTTATTATAAAATGTTAG
*
92146 CTTTTTATTATAATATGTTAG
1 -TTTTTATTATAAAATGTTAG
92167 TATTTTAT
1 T-TTTTAT
92175 CAATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTTTATTATAAAATGTTAG
Found at i:92307 original size:29 final size:29
Alignment explanation
Indices: 92245--92340 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
92235 AAGTATAGAT
* * * *
92245 ATTAAAATATTGAATTAAATAGTGCACAA
1 ATTAAAATATTAAATTAAATAATACAAAA
* * *
92274 ATTAAAATATTAAATTAAATACTA-TATA
1 ATTAAAATATTAAATTAAATAATACAAAA
* *
92302 ATTTAAATATTAAATTTAATAATACAAAA
1 ATTAAAATATTAAATTAAATAATACAAAA
92331 ATTAAAATAT
1 ATTAAAATAT
92341 ATTTTTTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 22 0.41
29 32 0.59
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.36
Consensus pattern (29 bp):
ATTAAAATATTAAATTAAATAATACAAAA
Found at i:92335 original size:28 final size:28
Alignment explanation
Indices: 92249--92336 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
92239 ATAGATATTA
* * * *
92249 AAATATTGAATTAAATAGTGCACAAATT
1 AAATATTAAATTAAATAATACAAAAATT
* * * *
92277 AAAATATTAAATTAAATACTATATAATTT
1 -AAATATTAAATTAAATAATACAAAAATT
*
92306 AAATATTAAATTTAATAATACAAAAATT
1 AAATATTAAATTAAATAATACAAAAATT
92334 AAA
1 AAA
92337 ATATATTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 26 0.54
29 22 0.46
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (28 bp):
AAATATTAAATTAAATAATACAAAAATT
Found at i:92791 original size:23 final size:23
Alignment explanation
Indices: 92748--92792 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
92738 GTTGTGTCGG
* *
92748 ATGTTTATTTATTGGTAAATTTA
1 ATGTTTATTTAATGATAAATTTA
*
92771 ATGTTTATTTAATGATGAATTT
1 ATGTTTATTTAATGATAAATTT
92793 GATGCTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (23 bp):
ATGTTTATTTAATGATAAATTTA
Found at i:93344 original size:23 final size:25
Alignment explanation
Indices: 93316--93364 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
93306 TCATATTATA
*
93316 TTTTTAA-TTTAA-TTTTCATAATT
1 TTTTTAATTTTAATTTTTAATAATT
93339 TTTTTAATTTTAATTTTTAATAATT
1 TTTTTAATTTTAATTTTTAATAATT
93364 T
1 T
93365 AATAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.30
24 5 0.22
25 11 0.48
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTAATTTTAATTTTTAATAATT
Found at i:93502 original size:13 final size:13
Alignment explanation
Indices: 93469--93507 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
93459 ATTACATAAA
93469 ATATATAA-ATAT
1 ATATATAATATAT
* *
93481 AAATTTAATATAT
1 ATATATAATATAT
93494 ATATATAATATAT
1 ATATATAATATAT
93507 A
1 A
93508 ATTAAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATAATATAT
Found at i:93510 original size:25 final size:25
Alignment explanation
Indices: 93411--93510 Score: 70
Period size: 25 Copynumber: 4.1 Consensus size: 25
93401 TAATATAGTT
*
93411 TTTAATATTTATATTATAATATTATATA
1 TTTAATATATATA-TATAATA-TATA-A
*
93439 TTT-AT-T-T-T-TATAATATAAAA
1 TTTAATATATATATATAATATATAA
* *
93459 ATTACATA-AAATATATAA-ATATAAA
1 TTTA-ATATATATATATAATATAT-AA
93484 TTTAATATATATATATAATATATAA
1 TTTAATATATATATATAATATATAA
93509 TT
1 TT
93511 AAAAACAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 21
0.68 0.07 0.25
Matches are distributed among these distances:
20 3 0.05
21 3 0.05
22 9 0.16
24 8 0.14
25 24 0.42
26 5 0.09
27 2 0.04
28 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTAATATATATATATAATATATAA
Found at i:93592 original size:19 final size:18
Alignment explanation
Indices: 93570--93659 Score: 68
Period size: 19 Copynumber: 5.3 Consensus size: 18
93560 ATTTTTAAAA
93570 TAAATTTATTTTTTATATT
1 TAAATTTATTTTTTA-ATT
93589 TAAATTTATTTTTTAATT
1 TAAATTTATTTTTTAATT
*
93607 T---TATA-TTTTTAA-T
1 TAAATTTATTTTTTAATT
* *
93620 TAAA-ATA-TTTTAAATAT
1 TAAATTTATTTTTTAAT-T
**
93637 TAAATAAATTTTTTAATT
1 TAAATTTATTTTTTAATT
93655 TAAAT
1 TAAAT
93660 AAATAATTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
13 2 0.03
14 7 0.12
15 12 0.20
17 5 0.08
18 12 0.20
19 22 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAAATTTATTTTTTAATT
Found at i:93644 original size:21 final size:19
Alignment explanation
Indices: 93622--93680 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
93612 TTTTTAATTA
93622 AAATATTTTAAATATTAAAT
1 AAATATTTTAAAT-TTAAAT
*
93642 AAAT-TTTTTAATTTAAAT
1 AAATATTTTAAATTTAAAT
* *
93660 AAATAATTTAATTTATAAAT
1 AAATATTTTAAATT-TAAAT
93680 A
1 A
93681 CCTGATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.30
19 13 0.39
20 10 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTTTAAATTTAAAT
Found at i:93660 original size:18 final size:18
Alignment explanation
Indices: 93570--93674 Score: 80
Period size: 18 Copynumber: 6.1 Consensus size: 18
93560 ATTTTTAAAA
*
93570 TAAATTTATTTTTTATATT
1 TAAATATATTTTTTA-ATT
*
93589 TAAATTTATTTTTTAATT
1 TAAATATATTTTTTAATT
93607 T---TATA-TTTTTAA-T
1 TAAATATATTTTTTAATT
*
93620 TAAA-ATA-TTTTAAATAT
1 TAAATATATTTTTTAAT-T
*
93637 TAAATAAATTTTTTAATT
1 TAAATATATTTTTTAATT
* **
93655 TAAATAAATAATTTAATT
1 TAAATATATTTTTTAATT
93673 TA
1 TA
93675 TAAATACCTG
Statistics
Matches: 73, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
13 2 0.03
14 7 0.10
15 12 0.16
17 5 0.07
18 25 0.34
19 22 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAAATATATTTTTTAATT
Found at i:94859 original size:22 final size:23
Alignment explanation
Indices: 94832--94882 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
94822 CTTTAAAAAT
94832 AAAATTATTT-TAATTT-TTTATA
1 AAAATTATTTGT-ATTTATTTATA
*
94854 AAAATTATTTGTATTTATTTTTA
1 AAAATTATTTGTATTTATTTATA
94877 AAAATT
1 AAAATT
94883 TTTAATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AAAATTATTTGTATTTATTTATA
Found at i:95273 original size:17 final size:17
Alignment explanation
Indices: 95228--95273 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
95218 ACAAAGAAAA
*
95228 ATATCTATTAAATATTC
1 ATATCTATTAAATATCC
* *
95245 AAATCTACTAAATATCC
1 ATATCTATTAAATATCC
*
95262 ATATTTATTAAA
1 ATATCTATTAAA
95274 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATCTATTAAATATCC
Found at i:95298 original size:16 final size:17
Alignment explanation
Indices: 95267--95307 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
95257 TATCCATATT
95267 TATTAAAAAATTTAAAAA
1 TATTAAAAAA-TTAAAAA
*
95285 TGTTAAAAAA-TAAAAA
1 TATTAAAAAATTAAAAA
95301 TATTAAA
1 TATTAAA
95308 TTAAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TATTAAAAAATTAAAAA
Found at i:96542 original size:20 final size:20
Alignment explanation
Indices: 96504--96544 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
96494 TTCAATATAG
*
96504 AATTTTATTATTATGTTTTT
1 AATTTTATTATTATATTTTT
96524 AATTTTATTAATTA-ATTTTT
1 AATTTTATT-ATTATATTTTT
96544 A
1 A
96545 GGTAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
AATTTTATTATTATATTTTT
Found at i:96831 original size:16 final size:16
Alignment explanation
Indices: 96804--96845 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
96794 AGTATTATTA
96804 TTAAAAAA-ATTTAAG
1 TTAAAAAATATTTAAG
*
96819 TTAAAAAATATTTGAG
1 TTAAAAAATATTTAAG
*
96835 CTAAAAAATAT
1 TTAAAAAATAT
96846 GTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (16 bp):
TTAAAAAATATTTAAG
Found at i:97514 original size:18 final size:20
Alignment explanation
Indices: 97457--97518 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 20
97447 TATGCATATA
97457 ATAT-AAATA-TATTAAATTT
1 ATATAAAATATTA-TAAATTT
*
97476 ATATAAAATAAATTATTAATTT
1 ATATAAAAT--ATTATAAATTT
97498 AT-TAAAAT-TTATAAATTT
1 ATATAAAATATTATAAATTT
97516 ATA
1 ATA
97519 AATTATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 11 0.31
19 4 0.11
20 4 0.11
21 6 0.17
22 9 0.25
23 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATAAAATATTATAAATTT
Found at i:97514 original size:25 final size:27
Alignment explanation
Indices: 97483--97532 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
97473 TTTATATAAA
*
97483 ATAAA-TTATTAATT-TATTAAAATTT
1 ATAAATTTATAAATTATATTAAAATTT
*
97508 ATAAATTTATAAATTATTTTAAAAT
1 ATAAATTTATAAATTATATTAAAAT
97533 GTAAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 8 0.38
27 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATAAATTTATAAATTATATTAAAATTT
Found at i:98768 original size:19 final size:19
Alignment explanation
Indices: 98741--98777 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
98731 AATAAAAAAT
98741 TTTAAAAAATATTATAATA
1 TTTAAAAAATATTATAATA
* *
98760 TTTATAAAATTTTATAAT
1 TTTAAAAAATATTATAAT
98778 TAAATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAAAAATATTATAATA
Found at i:99521 original size:30 final size:30
Alignment explanation
Indices: 99486--99552 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
99476 GTTAAAAAAA
* *
99486 TTATTTTTTGATATGTACTTAAATAGATCT
1 TTATTTTTTGATATATACTTAAATAAATCT
* **
99516 TTATTTTTTGATTTATTTTTAAATAAATCT
1 TTATTTTTTGATATATACTTAAATAAATCT
99546 TTATTTT
1 TTATTTT
99553 AAATAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.61
Consensus pattern (30 bp):
TTATTTTTTGATATATACTTAAATAAATCT
Found at i:100533 original size:15 final size:15
Alignment explanation
Indices: 100513--100542 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100503 TTTATTTAAT
100513 TATAAATATAAATTA
1 TATAAATATAAATTA
*
100528 TATAAATATTAATTA
1 TATAAATATAAATTA
100543 AAATAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAATATAAATTA
Found at i:100790 original size:12 final size:12
Alignment explanation
Indices: 100773--100797 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100763 TTTCATATAT
100773 TATATAAATAGA
1 TATATAAATAGA
100785 TATATAAATAGA
1 TATATAAATAGA
100797 T
1 T
100798 TCATTAAATT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TATATAAATAGA
Found at i:101299 original size:54 final size:56
Alignment explanation
Indices: 101225--101373 Score: 203
Period size: 59 Copynumber: 2.6 Consensus size: 56
101215 TCAATTAATA
* * *
101225 TTATTTCATTCATTAAATTTAAT-ATATTATTAATTTTT-TCTTATTCACAATTTT
1 TTATCTCATTCATTGAATTTAATAATATTATTAATTTTTATCTCATTCACAATTTT
*
101279 TTATCTCATTCATTGAATTTAATAATATCAATATTATTTTTTATCTCATTCACAATTTT
1 TTATCTCATTCATTGAATTTAATAATAT---TATTAATTTTTATCTCATTCACAATTTT
*
101338 TTATCTCATTCATTGAATTTTATCAATATTATTAAT
1 TTATCTCATTCATTGAATTTAAT-AATATTATTAAT
101374 CTTACTAATT
Statistics
Matches: 83, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
54 21 0.25
55 4 0.05
57 6 0.07
58 10 0.12
59 37 0.45
60 5 0.06
ACGTcount: A:0.32, C:0.11, G:0.01, T:0.55
Consensus pattern (56 bp):
TTATCTCATTCATTGAATTTAATAATATTATTAATTTTTATCTCATTCACAATTTT
Found at i:101451 original size:22 final size:24
Alignment explanation
Indices: 101405--101451 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
101395 ACTCATTGTG
*
101405 TTTAATATTTTTTTAAATAATATT
1 TTTAATATTTTTATAAATAATATT
*
101429 TTTAA-ATTTTTATAATTAA-ATT
1 TTTAATATTTTTATAAATAATATT
101451 T
1 T
101452 AAATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTAATATTTTTATAAATAATATT
Found at i:102598 original size:29 final size:30
Alignment explanation
Indices: 102557--102620 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
102547 AATAAAAAAT
* *
102557 AAATTATTGTTTAAGCTAAAAAGAAAATTA
1 AAATTAATGTTTAAACTAAAAAGAAAATTA
*
102587 AAATTAAT-TTTAAATTAAAAAGAAAATTA
1 AAATTAATGTTTAAACTAAAAAGAAAATTA
102616 AAATT
1 AAATT
102621 TTCTTTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (30 bp):
AAATTAATGTTTAAACTAAAAAGAAAATTA
Found at i:103676 original size:20 final size:20
Alignment explanation
Indices: 103629--103676 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
103619 ATTAAGTTTG
103629 AAATAATTTAAAAAATTATTT
1 AAAT-ATTTAAAAAATTATTT
* *
103650 TATTATTTAAAATAA-TATTT
1 AAATATTTAAAA-AATTATTT
103670 AAATATT
1 AAATATT
103677 ATTTTTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATATTTAAAAAATTATTT
Found at i:103699 original size:14 final size:14
Alignment explanation
Indices: 103662--103701 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
103652 TTATTTAAAA
*
103662 TAATATTTAAATAT
1 TAATATTTATATAT
103676 T-AT-TTT-TATAT
1 TAATATTTATATAT
103687 TAATATTTATATAT
1 TAATATTTATATAT
103701 T
1 T
103702 TTATAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
11 5 0.23
12 5 0.23
13 5 0.23
14 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATATTTATATAT
Found at i:103922 original size:18 final size:16
Alignment explanation
Indices: 103901--103942 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
103891 AAATCAGTTT
103901 AATAATAAAAAATATTAA
1 AATAATAAAAAA-A-TAA
103919 AATAATAAAAAAATAA
1 AATAATAAAAAAATAA
*
103935 AAGAATAA
1 AATAATAA
103943 TTTTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 1 0.04
18 12 0.52
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (16 bp):
AATAATAAAAAAATAA
Found at i:103977 original size:14 final size:12
Alignment explanation
Indices: 103948--103972 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103938 AATAATTTTT
103948 ATATTTTTTTAA
1 ATATTTTTTTAA
103960 ATATTTTTTTAA
1 ATATTTTTTTAA
103972 A
1 A
103973 AATATGTTTT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTTTTTTAA
Found at i:104094 original size:26 final size:26
Alignment explanation
Indices: 104049--104109 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
104039 AGCTAAATGT
*
104049 ATATT-TTTATTAATAAATATATT-TA
1 ATATTATTTATTAATAAATAT-TTAAA
*
104074 ATATTATTTTTTAA-AATATATTTAAA
1 ATATTATTTATTAATAA-ATATTTAAA
104100 ATATTATTTA
1 ATATTATTTA
104110 AATGAATTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATTATTTATTAATAAATATTTAAA
Found at i:104109 original size:12 final size:11
Alignment explanation
Indices: 104063--104111 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
104053 TTTTATTAAT
104063 AAATATATTTA
1 AAATATATTTA
* *
104074 ATATTATTTTTTA
1 A-AATA-TATTTA
104087 AAATATATTTA
1 AAATATATTTA
104098 AAATATTATTTA
1 AAATA-TATTTA
104110 AA
1 AA
104112 TGAATTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 11 0.35
12 14 0.45
13 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AAATATATTTA
Found at i:105380 original size:30 final size:31
Alignment explanation
Indices: 105333--105390 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
105323 TTTACGTGAA
*
105333 AATTTTAATAAAGTGTAATTTTTAAAAATAT
1 AATTTTAATAAAGTGTAATTTTAAAAAATAT
105364 AATTATTAA-AAA-TGTAATTTTAAAAAA
1 AATT-TTAATAAAGTGTAATTTTAAAAAA
105391 AGTAACATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 14 0.56
31 7 0.28
32 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (31 bp):
AATTTTAATAAAGTGTAATTTTAAAAAATAT
Found at i:105390 original size:16 final size:15
Alignment explanation
Indices: 105333--105395 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
105323 TTTACGTGAA
*
105333 AATTTTAATAAAGTGT
1 AATTTTAA-AAAATGT
* *
105349 AATTTTTAAAAATAT
1 AATTTTAAAAAATGT
105364 AATTATT-AAAAATGT
1 AATT-TTAAAAAATGT
*
105379 AATTTTAAAAAAAGT
1 AATTTTAAAAAATGT
105394 AA
1 AA
105396 CATTACATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.05
15 29 0.73
16 9 0.22
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (15 bp):
AATTTTAAAAAATGT
Found at i:105400 original size:29 final size:32
Alignment explanation
Indices: 105337--105400 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 32
105327 CGTGAAAATT
* *
105337 TTAATAAAGTGTAATTTTTAAAAATATAATTA
1 TTAATAAAGTGTAATTTTTAAAAAAATAATCA
105369 TTAA-AAA-TGTAA-TTTTAAAAAAAGTAA-CA
1 TTAATAAAGTGTAATTTTTAAAAAAA-TAATCA
105398 TTA
1 TTA
105401 CATTGGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
29 14 0.48
30 8 0.28
31 3 0.10
32 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (32 bp):
TTAATAAAGTGTAATTTTTAAAAAAATAATCA
Found at i:107272 original size:16 final size:15
Alignment explanation
Indices: 107246--107275 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
107236 CATTTCTTTC
107246 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
107261 TTTTTTAGTTTTTTA
1 TTTTTTA-TTTTTTA
107276 AAAGGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:117296 original size:12 final size:12
Alignment explanation
Indices: 117279--117303 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
117269 GCCAACATCT
117279 TTCTTCTTTTTC
1 TTCTTCTTTTTC
117291 TTCTTCTTTTTC
1 TTCTTCTTTTTC
117303 T
1 T
117304 CCACCAAAGC
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:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTTTTC
Found at i:120616 original size:9 final size:9
Alignment explanation
Indices: 120597--120638 Score: 54
Period size: 8 Copynumber: 5.0 Consensus size: 9
120587 AAATTAGTTT
120597 AATAT-TTA
1 AATATATTA
120605 AATATATTA
1 AATATATTA
120614 AATAT-TTA
1 AATATATTA
*
120622 AATTTATTA
1 AATATATTA
120631 AAT-TATTA
1 AATATATTA
120639 TTTTAAGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 17 0.55
9 14 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATATATTA
Found at i:120617 original size:17 final size:17
Alignment explanation
Indices: 120597--120633 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
120587 AAATTAGTTT
120597 AATATTTAAATATATTA
1 AATATTTAAATATATTA
*
120614 AATATTTAAATTTATTA
1 AATATTTAAATATATTA
120631 AAT
1 AAT
120634 TATTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATATTTAAATATATTA
Done.