Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007790.1 Hibiscus syriacus cultivar Beakdansim tig00110076_pilon, 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: 2956777
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:2292144 original size:20 final size:19
Alignment explanation
Indices: 2292018--2292684 Score: 217
Period size: 18 Copynumber: 36.3 Consensus size: 19
2292008 GGGCGTAACA
2292018 ATATAAAG--TATATATAT
1 ATATAAAGTATATATATAT
2292035 ATAT-AAGTATATA-A-ACT
1 ATATAAAGTATATATATA-T
2292052 A-A-AAAGTGTATATATATAT
1 ATATAAA--GTATATATATAT
* *
2292071 ATATAAAGTTTTAGTATAAAAT
1 ATATAAAG-TATA-TAT-ATAT
* *
2292093 GTATATAGGTATATA-ATA-
1 ATATA-AAGTATATATATAT
*
2292111 ATATAAAG--TATATATGT
1 ATATAAAGTATATATATAT
*
2292128 ATAT-AAGTATATATATAA
1 ATATAAAGTATATATATAT
2292146 ACTATAAAGTATATATATAT
1 A-TATAAAGTATATATATAT
*
2292166 ATATAAAGT-T-T-TA-GT
1 ATATAAAGTATATATATAT
*
2292181 A-A-AAAGTATATATACAT
1 ATATAAAGTATATATATAT
* *
2292198 ATATAATAATATAAAGTATA-
1 ATATAA-AGTATATA-TATAT
*
2292218 AGTAT-AGGTATAT-TATAT
1 A-TATAAAGTATATATATAT
*
2292236 ATAT-AA-TATATAATTATAA
1 ATATAAAGTATAT-A-TATAT
* *
2292255 AGACTAAAGTATATAAGCATATT
1 ATA-TAAAGTATAT-A-TATA-T
* *
2292278 GTATATA-TATATATATTAT
1 ATATAAAGTATATATA-TAT
* * * *
2292297 AAATAAAATAAAGTGTATAT
1 ATATAAAGTATA-TATATAT
* * *
2292317 ATTTAAAGTTTTAGTATAAAGT
1 ATATAAAG-TATA-TATATA-T
* * * * * *
2292339 ACATATA-CAAATATACAA
1 ATATAAAGTATATATATAT
2292357 ATATAAAGTATATATATAT
1 ATATAAAGTATATATATAT
* * *
2292376 ATA-CACGTATATA-A-AA
1 ATATAAAGTATATATATAT
2292392 ATATAAAGTATATAAGTATAT
1 ATATAAAGTATAT-A-TATAT
*
2292413 AATATAAAATATATA-AGTAT
1 -ATATAAAGTATATATA-TAT
*
2292433 ATATACA-TATATA-ATA-
1 ATATAAAGTATATATATAT
2292449 ATATAAAG--TATATA-A-
1 ATATAAAGTATATATATAT
*
2292464 ATATAAAG-ATATATACAT
1 ATATAAAGTATATATATAT
*
2292482 ATAT-AA-TA-ATATAAAGT
1 ATATAAAGTATATATATA-T
2292499 ATAT-AAGTATATATATA-
1 ATATAAAGTATATATATAT
2292516 ACTATAAAGTA-ATATA-A-
1 A-TATAAAGTATATATATAT
*
2292533 ATAT--A-TATA-ATATAA
1 ATATAAAGTATATATATAT
2292548 AGTAT-AAGTATAT-TATAT
1 A-TATAAAGTATATATATAT
* *
2292566 ATAGAGAGAGTATA-ATTATAA
1 ATATA-A-AGTATATA-TATAT
*
2292587 AGACTAAAGTATATAGTATAT
1 ATA-TAAAGTATATA-TATAT
2292608 ATATAAAGTATATATATAT
1 ATATAAAGTATATATATAT
* *
2292627 ATATACACT-T-TATAGT-T
1 ATATAAAGTATATATA-TAT
*
2292644 ATATATA-TATATATATAT
1 ATATAAAGTATATATATAT
2292662 AT-TAATA-TATATATATAT
1 ATATAA-AGTATATATATAT
2292680 ATATA
1 ATATA
2292685 CACTTTTACT
Statistics
Matches: 490, Mismatches: 79, Indels: 160
0.67 0.11 0.22
Matches are distributed among these distances:
13 10 0.02
14 5 0.01
15 21 0.04
16 51 0.10
17 66 0.13
18 93 0.19
19 83 0.17
20 70 0.14
21 47 0.10
22 41 0.08
23 3 0.01
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (19 bp):
ATATAAAGTATATATATAT
Found at i:2292180 original size:95 final size:92
Alignment explanation
Indices: 2292017--2292217 Score: 289
Period size: 95 Copynumber: 2.1 Consensus size: 92
2292007 GGGGCGTAAC
2292017 AATATAAAGTATATATATATATAAGTATATAAACTAAAAAGTGTATATATATATATATAAAGTTT
1 AATATAAAGTATATATATATATAAGTATATAAACTAAAAAG-GTATATATATATATATAAAGTTT
* **
2292082 TAGTATAAAA-TGTATATAGGTATATAAT
65 TAGTA-AAAAGTATATATACATATATAAT
* *
2292110 AATATAAAGTATATATGTATATAAGTATATATATAAACTATAAA-GTATATATATATATATAAAG
1 AATATAAAGTATATATATATATAAG----TATATAAACTAAAAAGGTATATATATATATATAAAG
2292174 TTTTAGTAAAAAGTATATATACATATATAAT
62 TTTTAGTAAAAAGTATATATACATATATAAT
2292205 AATATAAAGTATA
1 AATATAAAGTATA
2292218 AGTATAGGTA
Statistics
Matches: 98, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
93 24 0.24
94 4 0.04
95 56 0.57
97 14 0.14
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.38
Consensus pattern (92 bp):
AATATAAAGTATATATATATATAAGTATATAAACTAAAAAGGTATATATATATATATAAAGTTTT
AGTAAAAAGTATATATACATATATAAT
Found at i:2292200 original size:40 final size:37
Alignment explanation
Indices: 2292156--2292248 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 37
2292146 ACTATAAAGT
* *
2292156 ATATATATATATATAAAGTTTTAGTAAAAAGTATATATAC
1 ATATATA-ATATATAAAGTATAAGT-AAAAGTATAT-TAC
* * *
2292196 ATATATAATAATATAAAGTATAAGTATAGGTATATTAT
1 ATATATAAT-ATATAAAGTATAAGTAAAAGTATATTAC
2292234 ATATATAATATATAA
1 ATATATAATATATAA
2292249 TTATAAAGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 6 0.13
38 11 0.23
39 10 0.21
40 20 0.43
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.40
Consensus pattern (37 bp):
ATATATAATATATAAAGTATAAGTAAAAGTATATTAC
Found at i:2292223 original size:93 final size:93
Alignment explanation
Indices: 2292017--2292241 Score: 280
Period size: 95 Copynumber: 2.4 Consensus size: 93
2292007 GGGGCGTAAC
2292017 AATATAAAGTAT-A-TATAT-ATATAAGTATATAAACTAAAAAGTGTATATATATATATATAAAG
1 AATATAAAGTATAAGTATATAATAT-A-TATATAAACTAAAAAG-GTATATATATATATATAAAG
* **
2292079 TTTTAGTATAAAATGTATATAGGTATATAAT
63 TTTTAGTATAAAATATATATACATATATAAT
*
2292110 AATATAAAGTATATATGTATATAAGTATATATATAAACTATAAA-GTATATATATATATATAAAG
1 AATATAAAGTATA-A-GTATATAA-TATATATATAAACTAAAAAGGTATATATATATATATAAAG
2292174 TTTTAGTA-AAAAGTATATATACATATATAAT
63 TTTTAGTATAAAA-TATATATACATATATAAT
2292205 AATATAAAGTATAAGTATAGGTATATTATATATATAA
1 AATATAAAGTATAAGTATA--TA-A-TATATATATAA
2292242 TATATAATTA
Statistics
Matches: 117, Mismatches: 5, Indels: 17
0.84 0.04 0.12
Matches are distributed among these distances:
93 17 0.15
94 5 0.04
95 59 0.50
96 12 0.10
97 19 0.16
98 2 0.02
99 3 0.03
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (93 bp):
AATATAAAGTATAAGTATATAATATATATATAAACTAAAAAGGTATATATATATATATAAAGTTT
TAGTATAAAATATATATACATATATAAT
Found at i:2292265 original size:44 final size:44
Alignment explanation
Indices: 2292187--2292299 Score: 117
Period size: 46 Copynumber: 2.5 Consensus size: 44
2292177 TAGTAAAAAG
* *
2292187 TATATATACATATATAATAATATAAAGTATAAG-TATAGGTATATTA
1 TATATATA-ATATATAAT--TATAAAGTATAAGATATAAGCATATTA
*
2292233 TATATATAATATATAATTATAAAG-ACTAAAGTATATAAGCATATTG
1 TATATATAATATATAATTATAAAGTA-T-AAG-ATATAAGCATATTA
2292279 TATATAT-ATATAT-ATTATAAA
1 TATATATAATATATAATTATAAA
2292300 TAAAATAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
42 1 0.02
43 8 0.13
44 11 0.18
45 15 0.25
46 25 0.42
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (44 bp):
TATATATAATATATAATTATAAAGTATAAGATATAAGCATATTA
Found at i:2292394 original size:35 final size:33
Alignment explanation
Indices: 2292341--2292546 Score: 169
Period size: 35 Copynumber: 6.2 Consensus size: 33
2292331 TATAAAGTAC
* *
2292341 ATATACAAATATACAAATATAAAGTATATATAT
1 ATATACATATATAAAAATATAAAGTATATATAT
2292374 ATATACACGTATATAAAAATATAAAGTATATA-AGT
1 ATATACA--TATATAAAAATATAAAGTATATATA-T
*
2292409 ATATA-ATATA-AAATATAT-AAGTATATATACAT
1 ATATACATATATAAAAATATAAAGTATATAT--AT
* * *
2292441 ATATA-ATAATATAAAGTATATAAA-TATAAAGAT
1 ATATACAT-ATATAAA-AATATAAAGTATATATAT
*
2292474 ATATACATATATAATAATATAAAGTATATA-AGT
1 ATATACATATATAAAAATATAAAGTATATATA-T
*
2292507 ATATATATAACTATAAAGTAATATAAA-TATATATA-
1 ATATACAT-A-TATAAA--AATATAAAGTATATATAT
2292542 ATATA
1 ATATA
2292547 AAGTATAAGT
Statistics
Matches: 145, Mismatches: 10, Indels: 34
0.77 0.05 0.18
Matches are distributed among these distances:
30 9 0.06
31 7 0.05
32 20 0.14
33 37 0.26
34 8 0.06
35 47 0.32
36 8 0.06
37 9 0.06
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (33 bp):
ATATACATATATAAAAATATAAAGTATATATAT
Found at i:2292426 original size:57 final size:56
Alignment explanation
Indices: 2292342--2292553 Score: 188
Period size: 57 Copynumber: 3.8 Consensus size: 56
2292332 ATAAAGTACA
* *
2292342 TATACAAATATACAAATATAAAGTATATATATATATACACGTATATAAAAATATAAAG
1 TATATAAATATA-AAATATAAAATATATATATATATACA-GTATATAAAAATATAAAG
* * *
2292400 TATATAAGTATATAATATAAAATATATAAGTATATATACA-TATATAATAATATAAAG
1 TATATAAATATAAAATATAAAATATAT-A-TATATATACAGTATATAAAAATATAAAG
* * *
2292457 TATATAAATATAAAGATATATACATATATA-ATAATATAAAGTATAT--AAGTAT--A-
1 TATATAAATATAAA-ATATA-AAATATATATAT-ATATACAGTATATAAAAATATAAAG
* * *
2292510 TATATAACTATAAAGTAATATAAATATATATA-ATATAAAGTATA
1 TATATAAATATAAAAT-ATA-AAATATATATATATATACAGTATA
2292554 AGTATATTAT
Statistics
Matches: 132, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
52 13 0.10
53 25 0.19
54 2 0.02
56 6 0.05
57 47 0.36
58 22 0.17
59 17 0.13
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (56 bp):
TATATAAATATAAAATATAAAATATATATATATATACAGTATATAAAAATATAAAG
Found at i:2292433 original size:151 final size:153
Alignment explanation
Indices: 2292093--2292468 Score: 373
Period size: 151 Copynumber: 2.5 Consensus size: 153
2292083 AGTATAAAAT
*
2292093 GTATATAGGTATATAATAATATAAAGTATATATGTATATA-AGTATATA-TATAAACTATAAAGT
1 GTATATAAGTATATAAT-ATATAAA-TATATATGTATATATA-TATATATTATAAA-TA-AAAGT
* * *
2292156 ATATATATATATATAAAGTTTTAGTAAAAAGTATATATACATATATAATAATATAAAGTATAAGT
61 AAATATATATATATAAAGTTTTAGTAAAAAGTACATATACAAATATAATAATATAAAGTATAAGT
* * * *
2292221 ATAGGTATATTATATATATAATATATAA
126 ATAGATACAGTATATATAAAATATATAA
* **
2292249 TTATA-AAG-ACTA-AAGTATATAAGCATAT-TGTATATATATATATATTATAAATAAAA-TAAA
1 GTATATAAGTA-TATAA-TATATAAATATATATGTATATATATATATATTATAAATAAAAGTAAA
* * *
2292309 GTGTATATATTTAAAGTTTTAGTATAAAGTACATATACAAATATACA-AATATAAAGTATATA-T
64 -TATATATATATAAAGTTTTAGTAAAAAGTACATATACAAATATA-ATAATATAAAGTATA-AGT
*
2292372 ATATATACACGTATATA-AAAATATA-AA
126 ATAGATACA-GTATATATAAAATATATAA
* * * *
2292399 GTATATAAGTATATAATATA-AAATATATAAGTATATATACATATATAAT-AATATAAAGTATAT
1 GTATATAAGTATATAATATATAAATATATATGTATATATATATATATTATAAATA-AAAGTAAAT
*
2292462 AAATATA
65 ATATATA
2292469 AAGATATATA
Statistics
Matches: 182, Mismatches: 24, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
150 19 0.10
151 104 0.57
152 30 0.16
153 11 0.06
154 9 0.05
155 5 0.03
156 4 0.02
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (153 bp):
GTATATAAGTATATAATATATAAATATATATGTATATATATATATATTATAAATAAAAGTAAATA
TATATATATAAAGTTTTAGTAAAAAGTACATATACAAATATAATAATATAAAGTATAAGTATAGA
TACAGTATATATAAAATATATAA
Found at i:2292437 original size:41 final size:41
Alignment explanation
Indices: 2292392--2292678 Score: 161
Period size: 41 Copynumber: 6.9 Consensus size: 41
2292382 GTATATAAAA
2292392 ATATAAAGTATATAAGT-ATAT-AATATA-AAATATATAAGTAT
1 ATATAAA-TATATAA-TAATATAAATATATAAATATA-AAGTAT
*
2292433 ATATACATATATAATAATATAAAGTATATAAATATAAAG-AT
1 ATATAAATATATAATAATATAAA-TATATAAATATAAAGTAT
* *
2292474 ATATACATATATAATAATATAAAGTATAT-AA-GT--A-TAT
1 ATATAAATATATAATAATATAAA-TATATAAATATAAAGTAT
*
2292511 ATATAACTATA-AAGTAATATAAATATATATAATATAAAGTAT
1 ATATAAATATATAA-TAATATAAATATATA-AATATAAAGTAT
* * *
2292553 AAGTATATTATATATAGAGAGAGTAT-AAT-TATAAAGACTAAAGTAT
1 -A-TATA-AATATATA-ATA-A-TATAAATATATAAATA-TAAAGTAT
* * * * *
2292599 ATAGTATATATATAAAGTATATATATATATATACACTTTATAGT-T
1 ATA-TAAATATAT-AA-TA-ATATAAATATATA-AATATAAAGTAT
* * *
2292644 ATATATATATAT-ATATATATTAATATATATATATA
1 ATATAAATATATAATA-ATATAAATATATAAATATA
2292679 TATATACACT
Statistics
Matches: 199, Mismatches: 21, Indels: 53
0.73 0.08 0.19
Matches are distributed among these distances:
36 7 0.04
37 21 0.11
38 2 0.01
39 3 0.02
40 16 0.08
41 54 0.27
42 11 0.06
43 8 0.04
44 26 0.13
45 19 0.10
46 23 0.12
47 6 0.03
48 3 0.02
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (41 bp):
ATATAAATATATAATAATATAAATATATAAATATAAAGTAT
Found at i:2292516 original size:246 final size:243
Alignment explanation
Indices: 2292066--2292568 Score: 555
Period size: 246 Copynumber: 2.0 Consensus size: 243
2292056 AGTGTATATA
** *** *
2292066 TATATATATAAAGTTTTAGTATAAAATGTATATAGGTATATAATAATATAAAGTATATATGTATA
1 TATATATATAAAGTTTTAGTATAAAATACATATACAAATATAATAATATAAAGTATATATATATA
*
2292131 TAAGTATATATATAAACTATAAAGTATATATATATATATAAAGTTTTAGTAAAAAGTATATATAC
66 TAAGTATATATATAAACTATAAAGTATATATATATATATAAA--TATAGTAAAAAGTATATATAC
* * * *
2292196 ATATATAATAATATAAAGTATAAGTATAGGTATATTATATATATAATATATAATTATAAAGACTA
129 ATATATAATAATATAAAGTATAAATATAGATATATCATATATATAATATATAAGTATAAAGA-TA
2292261 AAGTATATAAGCATATTGTATATATATATATATTATAAATAAAATAAAGTG
193 AAGTATATAAGCATATTGTATATATATATATATTATAAATAAAATAAAGTG
* *
2292312 TATATATTTAAAGTTTTAGTATAAAGTACATATACAAATATACA-AATATAAAGTATATATATAT
1 TATATATATAAAGTTTTAGTATAAAATACATATACAAATATA-ATAATATAAAGTATATATATAT
*
2292376 ATACACGTATATA-A-AAA-TATAAAGTATATAAGTATATAATATAAA-ATA-T-ATAAGTATAT
65 ATA-A-GTATATATATAAACTATAAAGTATAT-A-TATAT-ATATAAATATAGTAAAAAGTATAT
2292435 ATACATATATAATAATATAAAGTATATAAATATAAAGATATATACATATATAATAATATA-AAGT
125 ATACATATATAATAATATAAAG--TATAAATAT--AGATATAT-CATATAT-ATAATATATAAGT
* ** * * *
2292499 ATATAAG-TATA-TATATAA-CTATAAAGTA-ATATAAATATA-TATAATATAAAGTATAAGTA
184 ATA-AAGATAAAGTATATAAGC-ATATTGTATATATATATATATTATAA-ATAAAATA-AAGTG
2292558 TATTATATATA
1 TA-TATATATA
2292569 GAGAGAGTAT
Statistics
Matches: 219, Mismatches: 21, Indels: 33
0.80 0.08 0.12
Matches are distributed among these distances:
243 31 0.14
244 6 0.03
245 40 0.18
246 80 0.37
247 25 0.11
248 26 0.12
249 11 0.05
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (243 bp):
TATATATATAAAGTTTTAGTATAAAATACATATACAAATATAATAATATAAAGTATATATATATA
TAAGTATATATATAAACTATAAAGTATATATATATATATAAATATAGTAAAAAGTATATATACAT
ATATAATAATATAAAGTATAAATATAGATATATCATATATATAATATATAAGTATAAAGATAAAG
TATATAAGCATATTGTATATATATATATATTATAAATAAAATAAAGTG
Found at i:2292566 original size:98 final size:97
Alignment explanation
Indices: 2292102--2292613 Score: 295
Period size: 98 Copynumber: 5.4 Consensus size: 97
2292092 TGTATATAGG
* * *
2292102 TATATAATAATATAAAGTATATATGTATATAAGTATATATATAAACT-ATA-AAGTATATAT-AT
1 TATATAATAATATAAAGTATATAAGTATAT-A-TATA-ATATAAAGTAATATAAATATATATAAT
* *
2292164 ATATA-TA-AAGT-T-TTAGTAAAAAGTATATATACA
63 ATAAAGTATAAGTATATTA-TATAAAG-ATATATACA
* * *
2292197 TATATAATAATATAAAG--TATAAGTATAGGTATATTATATATA-TAATATATAAT-TATA-AAG
1 TATATAATAATATAAAGTATATAAGTATA--TATATAATATAAAGTAATATA-AATATATATAAT
* * * * *
2292257 ACTAAAGTATATAAGCATATTGTATATATATATATA-T
63 A-TAAAG--TATAAGTATATTATATAAAGATATATACA
* * * * * * *
2292294 TATA-AATAAAATAAAGTGTATATA-TTTAAAGTTTTAGTATAAAGTACATATACAA-ATATACA
1 TATATAATAATATAAAGTATATA-AGTATATA--TATAATATAAAGTA-ATATA-AATATATATA
* *
2292356 A-AT--A-TA-AAGTATA-TATAT----ATATACACG
61 ATATAAAGTATAAGTATATTATATAAAGATATATACA
* *
2292383 TATATAAAAATATAAAGTATATAAGTATATAATATAAAATATATAAGTATATATACATATATAAT
1 TATATAATAATATAAAGTATATAAGTATAT-ATAT--AATATA-AAGTA-ATATAAATATAT-AT
2292448 AATATAAAGTAT-A-TA-A--ATATAAAGATATATACA
60 AATATAAAGTATAAGTATATTATATAAAGATATATACA
2292481 TATATAATAATATAAAGTATATAAGTATATATATAACTATAAAGTAATATAAATATATATAATAT
1 TATATAATAATATAAAGTATATAAGTATATATATAA-TATAAAGTAATATAAATATATATAATAT
*
2292546 AAAGTATAAGTATATTATATATAGAGAGAGTATA-A
65 AAAGTATAAGTATATTATATA-A-AGATA-TATACA
*
2292581 T-TATAA-AGA-CTAAAGTATAT-AGTATATATATAA
1 TATATAATA-ATATAAAGTATATAAGTATATATATAA
2292614 AGTATATATA
Statistics
Matches: 327, Mismatches: 40, Indels: 98
0.70 0.09 0.21
Matches are distributed among these distances:
88 6 0.02
89 7 0.02
90 18 0.06
91 8 0.02
92 27 0.08
93 42 0.13
94 26 0.08
95 28 0.09
96 20 0.06
97 27 0.08
98 76 0.23
99 16 0.05
100 20 0.06
101 6 0.02
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (97 bp):
TATATAATAATATAAAGTATATAAGTATATATATAATATAAAGTAATATAAATATATATAATATA
AAGTATAAGTATATTATATAAAGATATATACA
Found at i:2292743 original size:20 final size:20
Alignment explanation
Indices: 2292618--2292817 Score: 102
Period size: 20 Copynumber: 10.2 Consensus size: 20
2292608 ATATAAAGTA
*
2292618 TATATATATA-TATACACTT
1 TATATATATACTATATACTT
*
2292637 TATAGT-TATA-TATATA-TA
1 TATA-TATATACTATATACTT
* *
2292655 TATATATATTAATATATA-TA
1 TATATATA-TACTATATACTT
*
2292675 TATATATATAC-ACTTTTAC-T
1 TATATATATACTA--TATACTT
* *
2292695 TATAGTTTAATA-TATATA-TA
1 TATA-TAT-ATACTATATACTT
2292715 TATAATATATACT-TATACTT
1 TAT-ATATATACTATATACTT
*
2292735 TATAT-TATATGTATATACTT
1 TATATATATA-CTATATACTT
* * *
2292755 TATATATATAATTTATA-GT
1 TATATATATACTATATACTT
2292774 T-TATATATACTTATATACTT
1 TATATATATAC-TATATACTT
* * *
2292794 TATATTTAAACTATATAATT
1 TATATATATACTATATACTT
2292814 TATA
1 TATA
2292818 CATAGTGTAT
Statistics
Matches: 141, Mismatches: 20, Indels: 39
0.70 0.10 0.19
Matches are distributed among these distances:
17 1 0.01
18 20 0.14
19 34 0.24
20 68 0.48
21 14 0.10
22 4 0.03
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATATATACTATATACTT
Found at i:2292789 original size:39 final size:37
Alignment explanation
Indices: 2292691--2292817 Score: 127
Period size: 39 Copynumber: 3.4 Consensus size: 37
2292681 TATACACTTT
*
2292691 TACTTATAGTTTA-ATATA-TATATA-TATA-ATATA
1 TACTTATAGTTTATATATATTATATACTTTATATATA
*
2292724 TACTTATACTTTATATTATATGTATATACTTTATATATA
1 TACTTATAGTTTATA-TATAT-TATATACTTTATATATA
* *
2292763 TAATTTATAGTTTATATATACTTATATACTTTATATTTA
1 T-ACTTATAGTTTATATATA-TTATATACTTTATATATA
* *
2292802 AACTATATAATTTATA
1 TACT-TATAGTTTATA
2292818 CATAGTGTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
33 12 0.16
34 1 0.01
35 4 0.05
37 6 0.08
38 5 0.06
39 36 0.47
40 13 0.17
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (37 bp):
TACTTATAGTTTATATATATTATATACTTTATATATA
Found at i:2292790 original size:2 final size:2
Alignment explanation
Indices: 2292365--2292782 Score: 132
Period size: 2 Copynumber: 210.0 Consensus size: 2
2292355 AAATATAAAG
* ** * * *
2292365 TA TA TA TA TA TA TA CA CG TA TA TA AA AA TA TA AA GTA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
2292407 GTA TA TA -A TA TA -A AA TA TA TA -A GTA TA TA TA CA TA TA TA -A
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
2292447 TA -A TA TA AA GTA TA TA AA TA TA AA GA TA TA TA CA TA TA TA -A
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2292488 TA -A TA TA AA GTA TA TA -A GTA TA TA TA TA -A CTA TA AA GTA -A
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA
* *
2292528 TA TA AA TA TA TA TA -A TA TA AA GTA TA -A GTA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * * * *
2292569 GA GA GA GTA TA -A T- TA TA AA GA CTA AA GTA TA TA GTA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA -TA TA TA -TA TA TA TA
* * *
2292611 TA AA GTA TA TA TA TA TA TA TA CA CTT TA TA GT- TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* *
2292653 TA TA TA TA TA T- TA -A TA TA TA TA TA TA TA TA TA CA CT- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
2292693 CT- TA TA GTT TA -A TA TA TA TA TA TA TA -A TA TA TA CT- TA TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
2292732 CTT TA TA T- TA TA TG TA TA TA CTT TA TA TA TA TA -A TT TA TA GTT
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
2292775 TA TA TA TA
1 TA TA TA TA
2292783 CTTATATACT
Statistics
Matches: 310, Mismatches: 56, Indels: 100
0.67 0.12 0.21
Matches are distributed among these distances:
1 26 0.08
2 261 0.84
3 23 0.07
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (2 bp):
TA
Found at i:2292808 original size:26 final size:26
Alignment explanation
Indices: 2292759--2292808 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2292749 ATACTTTATA
*
2292759 TATATAATTTATAGTTTATATATACT
1 TATATAATTTATAGTTTAAATATACT
*
2292785 TATATACTTTATA-TTTAAACTATA
1 TATATAATTTATAGTTTAAA-TATA
2292809 TAATTTATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (26 bp):
TATATAATTTATAGTTTAAATATACT
Found at i:2292864 original size:21 final size:21
Alignment explanation
Indices: 2292827--2292866 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2292817 ACATAGTGTA
*
2292827 TAAATATAAGTTGTATATATT
1 TAAATATAAGTTATATATATT
2292848 TAAATATAA-TTCATATATA
1 TAAATATAAGTT-ATATATA
2292867 AACTATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TAAATATAAGTTATATATATT
Found at i:2292895 original size:22 final size:22
Alignment explanation
Indices: 2292866--2292926 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
2292856 ATTCATATAT
2292866 AAACTATAT-GATTTATATTAAA
1 AAACTATATAG-TTTATATTAAA
* *
2292888 AAAGTATATAGTTTATATTAAT
1 AAACTATATAGTTTATATTAAA
2292910 AAACTATATAGTTTATA
1 AAACTATATAGTTTATA
2292927 CATAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (22 bp):
AAACTATATAGTTTATATTAAA
Found at i:2292931 original size:20 final size:21
Alignment explanation
Indices: 2292892--2292942 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
2292882 ATTAAAAAAG
2292892 TATATAGTTTATATTAATAA-A
1 TATATAGTTTATA-TAATAATA
*
2292913 CTATATAGTTTATA-CATAATA
1 -TATATAGTTTATATAATAATA
2292934 TATATAGTT
1 TATATAGTT
2292943 CTTATGTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 13 0.48
21 1 0.04
22 13 0.48
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (21 bp):
TATATAGTTTATATAATAATA
Found at i:2292939 original size:22 final size:22
Alignment explanation
Indices: 2292864--2292933 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
2292854 TAATTCATAT
*
2292864 ATAAACTATAT-GATTTATATTA
1 ATAAACTATATAG-TTTATAATA
* * *
2292886 AAAAAGTATATAGTTTATATTA
1 ATAAACTATATAGTTTATAATA
2292908 ATAAACTATATAGTTTATACATA
1 ATAAACTATATAGTTTATA-ATA
2292931 ATA
1 ATA
2292934 TATATAGTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 35 0.85
23 6 0.15
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (22 bp):
ATAAACTATATAGTTTATAATA
Found at i:2293642 original size:20 final size:20
Alignment explanation
Indices: 2293619--2293688 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
2293609 TTGTACAAGT
*
2293619 AGTATCGATATTGTTCTTAC
1 AGTATCGATACTGTTCTTAC
* * **
2293639 AGTATCGATACCGTACGAAC
1 AGTATCGATACTGTTCTTAC
* *
2293659 AGTACCGATACTATTCTTAC
1 AGTATCGATACTGTTCTTAC
2293679 AGTATCGATA
1 AGTATCGATA
2293689 TCACACGAAC
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTGTTCTTAC
Found at i:2293679 original size:40 final size:40
Alignment explanation
Indices: 2293632--2293710 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
2293622 ATCGATATTG
**
2293632 TTCTTACAGTATCGATACCGTACGAACAGTACCGATACTA
1 TTCTTACAGTATCGATACCACACGAACAGTACCGATACTA
*
2293672 TTCTTACAGTATCGATATCACACGAACAGTACCGATACT
1 TTCTTACAGTATCGATACCACACGAACAGTACCGATACT
2293711 GTTCATATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (40 bp):
TTCTTACAGTATCGATACCACACGAACAGTACCGATACTA
Found at i:2295559 original size:187 final size:184
Alignment explanation
Indices: 2295220--2295586 Score: 707
Period size: 184 Copynumber: 2.0 Consensus size: 184
2295210 ATAACTTTTA
2295220 AGAAAGTAAAGTATGAATCGAGCAAGAAGAAGAGTCTCCCGGTGTGCTTTATTTGTCAAAGAACG
1 AGAAAGTAAAGTATGAATCGAGCAAGAAGAAGAGTCTCCCGGTGTGCTTTATTTGTCAAAGAACG
2295285 GGGCATGTCAGTATGAATGTCCTCTCCTAAAGAATAGGGATCAGAAAGGAAAAGGCATTTGTGTC
66 GGGCATGTCAGTATGAATGTCCTCTCCTAAAGAATAGGGATCAGAAAGGAAAAGGCATTTGTGTC
2295350 AGCTTGGAGTGGTGAAGATAACTCCAATGATGAAGATGAAGTAGTTAACCCTTT
131 AGCTTGGAGTGGTGAAGATAACTCCAATGATGAAGATGAAGTAGTTAACCCTTT
2295404 AGAAAGTAAAGTATGAATCGAGCAAGAAGAAGAGTCTCCCGGTGTGCTTTATTTGTCAAAGAACG
1 AGAAAGTAAAGTATGAATCGAGCAAGAAGAAGAGTCTCCCGGTGTGCTTTATTTGTCAAAGAACG
2295469 GGGCATGTCAAGTATGAATGTCCTCTCCTAAAGAATAAGGGATCAAGAAAGGAAAAGGCATTTGT
66 GGGCATGTC-AGTATGAATGTCCTCTCCTAAAGAAT-AGGGATC-AGAAAGGAAAAGGCATTTGT
2295534 GTCAGCTTGGAGTGGTGAAGATAACTCCAATGATGAAGATGAAGTAGTTAACC
128 GTCAGCTTGGAGTGGTGAAGATAACTCCAATGATGAAGATGAAGTAGTTAACC
2295587 TATGCTTCAC
Statistics
Matches: 180, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
184 74 0.41
185 26 0.14
186 7 0.04
187 73 0.41
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (184 bp):
AGAAAGTAAAGTATGAATCGAGCAAGAAGAAGAGTCTCCCGGTGTGCTTTATTTGTCAAAGAACG
GGGCATGTCAGTATGAATGTCCTCTCCTAAAGAATAGGGATCAGAAAGGAAAAGGCATTTGTGTC
AGCTTGGAGTGGTGAAGATAACTCCAATGATGAAGATGAAGTAGTTAACCCTTT
Found at i:2296140 original size:75 final size:75
Alignment explanation
Indices: 2296017--2296167 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
2296007 TTTTAAAATT
2296017 AGACAAGTATGGGTTCCTAAGGGAACAAGGGGTATTGAAACTAATGTTTAAGGATCCAAAGCAAT
1 AGACAAGTATGGGTTCCTAAGGGAACAAGGGGTATTGAAACTAATGTTTAAGGATCCAAAGCAAT
2296082 TTGGATACCA
66 TTGGATACCA
2296092 AGACAAGTATGGGTTCCTAAGGGAACAAGGGGTATTGAAACTAATGTTTAAGGATCCAAAGCAAT
1 AGACAAGTATGGGTTCCTAAGGGAACAAGGGGTATTGAAACTAATGTTTAAGGATCCAAAGCAAT
2296157 TTGGATACCA
66 TTGGATACCA
2296167 A
1 A
2296168 AATCTACTTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (75 bp):
AGACAAGTATGGGTTCCTAAGGGAACAAGGGGTATTGAAACTAATGTTTAAGGATCCAAAGCAAT
TTGGATACCA
Found at i:2298540 original size:28 final size:28
Alignment explanation
Indices: 2298508--2298563 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2298498 ACACTTTTAA
2298508 GAGGATTAGAGCCAAGTTTGGAGGAAAG
1 GAGGATTAGAGCCAAGTTTGGAGGAAAG
2298536 GAGGATTAGAGCCAAGTTTGGAGGAAAG
1 GAGGATTAGAGCCAAGTTTGGAGGAAAG
2298564 CTTGGCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.39, T:0.18
Consensus pattern (28 bp):
GAGGATTAGAGCCAAGTTTGGAGGAAAG
Found at i:2302618 original size:5 final size:5
Alignment explanation
Indices: 2302605--2302690 Score: 66
Period size: 5 Copynumber: 16.8 Consensus size: 5
2302595 TGTTTAGAGA
* **
2302605 AAAAG AAAAT AAAATT AAGAAT CTAAT AAAAT AAAAT AAAAT AAAAT -AAAT
1 AAAAT AAAAT AAAA-T AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
** * * *
2302656 GGAAT GAAAT GAAAT GAAAT AAAAT GAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
2302691 CGAAATGGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
4 4 0.06
5 54 0.78
6 9 0.13
7 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:2308235 original size:18 final size:19
Alignment explanation
Indices: 2308212--2308255 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2308202 TTTTTAAAAA
2308212 AAATAAAAG-AAAAGAATT
1 AAATAAAAGAAAAAGAATT
*
2308230 AAATAAAAGAAAAATAATT
1 AAATAAAAGAAAAAGAATT
2308249 AAATAAA
1 AAATAAA
2308256 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (19 bp):
AAATAAAAGAAAAAGAATT
Found at i:2308908 original size:19 final size:19
Alignment explanation
Indices: 2308852--2308914 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
2308842 CTATTTAAAC
**
2308852 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
2308872 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
2308892 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
2308911 TAAA
1 TAAA
2308915 CTAAAATACC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:2309023 original size:76 final size:75
Alignment explanation
Indices: 2308861--2309043 Score: 190
Period size: 76 Copynumber: 2.4 Consensus size: 75
2308851 CTAAAATACC
* * * * * * * *
2308861 TAAAAAATAATATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT
1 TAAAATATAAAATAATATCCTAAAACTTAGTTAAAATACTAAAACATATTTAAACTAAAATACCA
*
2308926 AAACCAAAGA
66 AAACAAAAGA
2308936 TAAAATATAAAAATAATATCCTAAAACTTAGTTAAAATACTAAAACATATTTAAACTAAAATA-C
1 TAAAATAT-AAAATAATATCCTAAAACTTAGTTAAAATACTAAAACATATTTAAACTAAAATACC
* *
2309000 AAAGATAAAATA
65 AAA-ACAAAAGA
** * *
2309012 TAATGTTTAAAATATTATCCT-AAACTTGAGTT
1 TAAAATATAAAATAATATCCTAAAACTT-AGTT
2309044 TAATTCAAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
74 6 0.07
75 26 0.29
76 58 0.64
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (75 bp):
TAAAATATAAAATAATATCCTAAAACTTAGTTAAAATACTAAAACATATTTAAACTAAAATACCA
AAACAAAAGA
Found at i:2312279 original size:37 final size:37
Alignment explanation
Indices: 2312229--2312311 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
2312219 TTCGAAGCAT
*
2312229 AGTTTGAGTACAACTTATCTTTCGCAAATAGATGGGC
1 AGTTTGAGTACAACTTATCTTCCGCAAATAGATGGGC
*
2312266 AGTTTGAGTACAACTTATCTTCCGCAGATAGATGGGC
1 AGTTTGAGTACAACTTATCTTCCGCAAATAGATGGGC
*
2312303 AGTCTGAGT
1 AGTTTGAGT
2312312 GTGTGATACA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (37 bp):
AGTTTGAGTACAACTTATCTTCCGCAAATAGATGGGC
Found at i:2316913 original size:19 final size:19
Alignment explanation
Indices: 2316889--2316933 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
2316879 CATTCCAATT
2316889 GGTTCAGATTGAATCAACC
1 GGTTCAGATTGAATCAACC
*
2316908 GGTTCAGTTTGAATCAACC
1 GGTTCAGATTGAATCAACC
2316927 GGTTCAG
1 GGTTCAG
2316934 CAATCCTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (19 bp):
GGTTCAGATTGAATCAACC
Found at i:2317523 original size:31 final size:31
Alignment explanation
Indices: 2317482--2317554 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
2317472 GTGTGATATT
* *
2317482 ATATCTATCAAACCACTTAATTATGTAAATG
1 ATATCAATCAAACCACTTAACTATGTAAATG
* *
2317513 ATATCAATCAAACCATTTAACTATTTAAATG
1 ATATCAATCAAACCACTTAACTATGTAAATG
2317544 AT-TACAATCAA
1 ATAT-CAATCAA
2317555 GTAACTTCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.34
Consensus pattern (31 bp):
ATATCAATCAAACCACTTAACTATGTAAATG
Found at i:2319601 original size:11 final size:11
Alignment explanation
Indices: 2319585--2319625 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
2319575 CTTCATTTAC
2319585 AAAAAAAAACT
1 AAAAAAAAACT
2319596 AAAAAAAAACT
1 AAAAAAAAACT
2319607 AAAAAAAAAACT
1 -AAAAAAAAACT
2319619 AAAAAAA
1 AAAAAAA
2319626 GATTAGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAAAACT
Found at i:2319602 original size:12 final size:12
Alignment explanation
Indices: 2319585--2319625 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
2319575 CTTCATTTAC
2319585 AAAAAAAAACT-
1 AAAAAAAAACTA
2319596 AAAAAAAAACTA
1 AAAAAAAAACTA
2319608 AAAAAAAAACTA
1 AAAAAAAAACTA
2319620 AAAAAA
1 AAAAAA
2319626 GATTAGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAAAACTA
Found at i:2327353 original size:91 final size:91
Alignment explanation
Indices: 2327250--2327416 Score: 271
Period size: 91 Copynumber: 1.8 Consensus size: 91
2327240 CCTCATAAGC
*
2327250 TAAGCATGTATCGACTTCCTTATAATTTCTTTCCAGCACTAAGTGAGCATTCGAGTTATTTTTCT
1 TAAGCATGTATCGACTTCCTTATAATTTCTTTCCAGCACTAAGGGAGCATTCGAGTTATTTTTCT
2327315 TTGAGAAAGAACTAAAGCAGACCTCA
66 TTGAGAAAGAACTAAAGCAGACCTCA
* * ** *
2327341 TAAGCATGTATCGACTTCTTTATAATTTCTTTCCAGCACTATGGGAGTGTTCGAGTTGTTTTTCT
1 TAAGCATGTATCGACTTCCTTATAATTTCTTTCCAGCACTAAGGGAGCATTCGAGTTATTTTTCT
*
2327406 TTGAGTAAGAA
66 TTGAGAAAGAA
2327417 TTAAGACCGA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (91 bp):
TAAGCATGTATCGACTTCCTTATAATTTCTTTCCAGCACTAAGGGAGCATTCGAGTTATTTTTCT
TTGAGAAAGAACTAAAGCAGACCTCA
Found at i:2329967 original size:21 final size:21
Alignment explanation
Indices: 2329941--2330042 Score: 86
Period size: 21 Copynumber: 4.8 Consensus size: 21
2329931 GTCGAGGGTT
2329941 TTATGTGGTCATTCGGGATAA
1 TTATGTGGTCATTCGGGATAA
*
2329962 TTATGTGGTCCATT-GGGACAA
1 TTATGTGGT-CATTCGGGATAA
* *
2329983 ATATGT-GACACTTCGGCG-TAAA
1 TTATGTGGTCA-TTCGG-GAT-AA
*
2330005 CCTATGTGGTCATTCGGGATAA
1 -TTATGTGGTCATTCGGGATAA
2330027 TTATGTGG-CACTTCGG
1 TTATGTGGTCA-TTCGG
2330043 TGCATATTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
19 2 0.03
20 5 0.08
21 34 0.52
22 10 0.15
23 11 0.17
24 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGATAA
Found at i:2336865 original size:21 final size:21
Alignment explanation
Indices: 2336839--2336887 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2336829 ATTGAGGGAT
*
2336839 TTATGTGGTCATCCGGTACAA
1 TTATGTGGTCATCCGGGACAA
* *
2336860 TTATGTGGTCCTCTGGGACAA
1 TTATGTGGTCATCCGGGACAA
*
2336881 ATATGTG
1 TTATGTG
2336888 ACACTTCGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (21 bp):
TTATGTGGTCATCCGGGACAA
Found at i:2350964 original size:42 final size:42
Alignment explanation
Indices: 2350900--2350991 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
2350890 CAAGGCTCCC
*
2350900 AGAAGTACCTCAGTTAACACATCCACAGAAGGGTTCACTTGT
1 AGAACTACCTCAGTTAACACATCCACAGAAGGGTTCACTTGT
*
2350942 AGAACTACCTCAGTTAACACATCCACAGAAGGGTTCAGTTGT
1 AGAACTACCTCAGTTAACACATCCACAGAAGGGTTCACTTGT
*
2350984 TGAACTAC
1 AGAACTAC
2350992 TAGGAGGTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
AGAACTACCTCAGTTAACACATCCACAGAAGGGTTCACTTGT
Found at i:2369951 original size:30 final size:30
Alignment explanation
Indices: 2369902--2369960 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
2369892 TAAATTTTGG
* *
2369902 AAAAGTTTAGTAACCAAAAGGGTATTTTTT
1 AAAAGTTTAGGAACCAAAAGGGTAATTTTT
* * *
2369932 AAAAGTTTAGGGACTAAAAGTGTAATTTT
1 AAAAGTTTAGGAACCAAAAGGGTAATTTT
2369961 CAAACATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.36
Consensus pattern (30 bp):
AAAAGTTTAGGAACCAAAAGGGTAATTTTT
Found at i:2374569 original size:3 final size:3
Alignment explanation
Indices: 2374561--2374586 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2374551 CCAAGGTTTC
2374561 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
2374587 AATTTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:2387587 original size:16 final size:18
Alignment explanation
Indices: 2387548--2387591 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
2387538 TGGACTTAAT
2387548 AAATGAATAATAATGAAAG
1 AAATGAA-AATAATGAAAG
*
2387567 TAATGAAAAT-A-GAAAG
1 AAATGAAAATAATGAAAG
2387583 AAATGAAAA
1 AAATGAAAA
2387592 AGGTGGCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 13 0.57
17 1 0.04
18 3 0.13
19 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (18 bp):
AAATGAAAATAATGAAAG
Found at i:2387643 original size:22 final size:22
Alignment explanation
Indices: 2387611--2387653 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2387601 TAGAATTAAA
2387611 AGGATGATGATGGTCTTGATGG
1 AGGATGATGATGGTCTTGATGG
* *
2387633 AGGATGTTGATGGTGTTGATG
1 AGGATGATGATGGTCTTGATG
2387654 TTGAAATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.42, T:0.35
Consensus pattern (22 bp):
AGGATGATGATGGTCTTGATGG
Found at i:2392093 original size:23 final size:23
Alignment explanation
Indices: 2392041--2392104 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 23
2392031 TGTAAAATTG
2392041 TAATAAT-TA-ATTATAATAATA
1 TAATAATATATATTATAATAATA
*
2392062 TAATAATATTTATTATAAT-AT-
1 TAATAATATATATTATAATAATA
* *
2392083 TTATAACATATATATATAATAA
1 TAATAATATATAT-TATAATAA
2392105 ACATCACTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 17 0.49
22 9 0.26
23 9 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATATATATTATAATAATA
Found at i:2425648 original size:20 final size:18
Alignment explanation
Indices: 2425623--2425669 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
2425613 TGGAACAAAT
2425623 ATAAAAAAAAATGAAATTGA
1 ATAAAAAAAAAT-AAA-TGA
*
2425643 ATAAAATAAAATAAATGA
1 ATAAAAAAAAATAAATGA
*
2425661 AGAAAAAAA
1 ATAAAAAAA
2425670 TATATATACG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.42
19 3 0.12
20 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (18 bp):
ATAAAAAAAAATAAATGA
Found at i:2426011 original size:2 final size:2
Alignment explanation
Indices: 2426006--2426069 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
2425996 ATAAAAAATA
2426006 AT AT AT A- 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
2426047 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
2426070 ACAATAGGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2432104 original size:30 final size:30
Alignment explanation
Indices: 2432056--2432142 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
2432046 TATGTAATTT
*
2432056 TTTA-AAAATT-ATATTTTGGTCCCTAAAC
1 TTTACAAAATTAATAATTTGGTCCCTAAAC
*
2432084 TTT-CAAAAGTTAATACTTTGGTCACC-AAAC
1 TTTACAAAA-TTAATAATTTGGTC-CCTAAAC
* * *
2432114 TTTACCAAATTTATAATTTGGTCACTAAA
1 TTTACAAAATTAATAATTTGGTCCCTAAA
2432143 TAAATCCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
28 7 0.15
29 3 0.06
30 32 0.67
31 6 0.12
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (30 bp):
TTTACAAAATTAATAATTTGGTCCCTAAAC
Found at i:2432719 original size:40 final size:40
Alignment explanation
Indices: 2432662--2432770 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
2432652 CAAAGACTTT
* *
2432662 TAAGTCCTTACCACAGGCTCCTTTGCTTTTGTGCACAGGG
1 TAAGTCCATACCGCAGGCTCCTTTGCTTTTGTGCACAGGG
** * **
2432702 TAAGTCCATATTGCAGGCTCTTTTGCTAGTGTGCACAGGG
1 TAAGTCCATACCGCAGGCTCCTTTGCTTTTGTGCACAGGG
* *
2432742 TAAGTCCTTACCGCAGGCTCCTTTACTTT
1 TAAGTCCATACCGCAGGCTCCTTTGCTTT
2432771 GCGCATAGTG
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (40 bp):
TAAGTCCATACCGCAGGCTCCTTTGCTTTTGTGCACAGGG
Found at i:2435680 original size:21 final size:17
Alignment explanation
Indices: 2435637--2435672 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2435627 ATTCTCTAAG
2435637 TATTAAGAACATGCACC
1 TATTAAGAACATGCACC
2435654 TATTAAGAACATGCACC
1 TATTAAGAACATGCACC
2435671 TA
1 TA
2435673 ATTGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (17 bp):
TATTAAGAACATGCACC
Found at i:2447734 original size:39 final size:39
Alignment explanation
Indices: 2447691--2447800 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
2447681 TTGCAGGCTT
*
2447691 CTTTGCTTTGTTCACAGGGTAAGACCTTACCGCAAGATC
1 CTTTGCTTTGTGCACAGGGTAAGACCTTACCGCAAGATC
* *
2447730 CTTTGCTTTGTGCACAGGGTAA-ACCCTTACCGCATGCTC
1 CTTTGCTTTGTGCACAGGGTAAGA-CCTTACCGCAAGATC
* *
2447769 CTTTGCTTTGTGCATAGGGTAAGTCCTTACCG
1 CTTTGCTTTGTGCACAGGGTAAGACCTTACCG
2447801 TAGGCCCTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.02
39 63 0.98
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (39 bp):
CTTTGCTTTGTGCACAGGGTAAGACCTTACCGCAAGATC
Found at i:2449315 original size:32 final size:30
Alignment explanation
Indices: 2449245--2449308 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
2449235 ATTTGTATTT
*
2449245 TATTTATTGTTAATTTTTTTATCTACTTGCTA
1 TATTTA-T-TTAATGTTTTTATCTACTTGCTA
*
2449277 TTTTTATTTAATGTTTTTAGTCTA-TTGCTA
1 TATTTATTTAATGTTTTTA-TCTACTTGCTA
2449307 TA
1 TA
2449309 AATTTATGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
30 18 0.64
31 5 0.18
32 5 0.18
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (30 bp):
TATTTATTTAATGTTTTTATCTACTTGCTA
Found at i:2449490 original size:14 final size:14
Alignment explanation
Indices: 2449454--2449498 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
2449444 AATGAACATC
* *
2449454 TTAATCTTAAATCT
1 TTAATCCTAAAACT
* *
2449468 TAAAACCTAAAACT
1 TTAATCCTAAAACT
2449482 TTAATCCTAAAACT
1 TTAATCCTAAAACT
2449496 TTA
1 TTA
2449499 GCATCCATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAATCCTAAAACT
Found at i:2450006 original size:30 final size:30
Alignment explanation
Indices: 2449954--2450033 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
2449944 ATAATTTATT
* * *
2449954 TTTTC-TAAAAATATTAAATATGTCTTCAAA
1 TTTTCTTAAAAA-ATCAATTATGTCCTCAAA
2449984 TTTTCTTAAAAAATCAATTATGTCCTCAAA
1 TTTTCTTAAAAAATCAATTATGTCCTCAAA
* **
2450014 CTTAGTTAAAAAATCAATTA
1 TTTTCTTAAAAAATCAATTA
2450034 AGCACATCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 37 0.86
31 6 0.14
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (30 bp):
TTTTCTTAAAAAATCAATTATGTCCTCAAA
Found at i:2452706 original size:59 final size:59
Alignment explanation
Indices: 2452605--2452733 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
2452595 CGTATTGTTA
* * * * **
2452605 TCCCGAGTATGACACATAAGGTCGTGTCCACCGTCTGTACTAGGTATCCTTAAGTATAG
1 TCCCGAATATGACACATAAGGTCATGTCCACCATATACACTAGGTATCCTTAAGTATAG
* * *
2452664 TCCCGAATATGACACATAAGGTCATGTCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCATGTCCACCATATACACTAGGTATCCTTAAGTATAG
2452723 TCCCGAATATG
1 TCCCGAATATG
2452734 CAGCCTACTG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCATGTCCACCATATACACTAGGTATCCTTAAGTATAG
Found at i:2459027 original size:30 final size:30
Alignment explanation
Indices: 2458988--2459054 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
2458978 TAAAGTTTGG
* * *
2458988 AAAACTTTAGGGACCAAAAGTGTAATTTTT
1 AAAAGTTTAGAGACCAAAAGTGTAATTTTC
2459018 AAAAGTTTAGAGACCAAAAGTGTAATTTTC
1 AAAAGTTTAGAGACCAAAAGTGTAATTTTC
2459048 AAAAGTT
1 AAAAGTT
2459055 AGGTGTCTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (30 bp):
AAAAGTTTAGAGACCAAAAGTGTAATTTTC
Found at i:2462134 original size:18 final size:18
Alignment explanation
Indices: 2462089--2462146 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
2462079 TTGAACTTGA
*
2462089 AAATAAGCTT-TGAATCTA
1 AAATAAG-TTATGAATCTG
2462107 AAATTAAGTTATGAATCTG
1 AAA-TAAGTTATGAATCTG
*
2462126 AAATAAGTTATGAGTCTG
1 AAATAAGTTATGAATCTG
2462144 AAA
1 AAA
2462147 ACAAGTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 22 0.61
19 14 0.39
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (18 bp):
AAATAAGTTATGAATCTG
Found at i:2462374 original size:39 final size:39
Alignment explanation
Indices: 2462293--2462375 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 39
2462283 GAAAAGAATA
** *
2462293 TGATATGACTATTATGTATGATATTGTTTATCATGTCTT
1 TGATATGACTATTATGTACAATATTGTTTATCATGACTT
2462332 TGATATGACTATTATGTACAATATTGTTTATCATGGAC-T
1 TGATATGACTATTATGTACAATATTGTTTATCAT-GACTT
2462371 TGATA
1 TGATA
2462376 AAATCATGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 38 0.95
40 2 0.05
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (39 bp):
TGATATGACTATTATGTACAATATTGTTTATCATGACTT
Found at i:2465934 original size:31 final size:32
Alignment explanation
Indices: 2465867--2465936 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
2465857 TAAAATTTAG
*
2465867 AAAAA-TTCAAGGGCCAAAAGGTTAATTTTTC
1 AAAAAGTTCAAGGACCAAAAGGTTAATTTTTC
* *
2465898 CAAAAGTTTAAGGACCAAAA-GTATAA-TTTTC
1 AAAAAGTTCAAGGACCAAAAGGT-TAATTTTTC
2465929 AAAAAGTT
1 AAAAAGTT
2465937 AGTTGTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 18 0.55
32 15 0.45
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (32 bp):
AAAAAGTTCAAGGACCAAAAGGTTAATTTTTC
Found at i:2468946 original size:19 final size:19
Alignment explanation
Indices: 2468924--2468970 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
2468914 GATATGAACT
2468924 TGAAAATAAACTATGAATA
1 TGAAAATAAACTATGAATA
* ** *
2468943 TGAAATTAAGTTATGAATC
1 TGAAAATAAACTATGAATA
2468962 T-AAAATAAA
1 TGAAAATAAA
2468971 TTTTGAGTCC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.30
Consensus pattern (19 bp):
TGAAAATAAACTATGAATA
Found at i:2469056 original size:13 final size:13
Alignment explanation
Indices: 2469032--2469078 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
2469022 TAGTACATAT
*
2469032 TATGAAATTGAAA
1 TATGAAAGTGAAA
*
2469045 TGTGAAAGTG-AA
1 TATGAAAGTGAAA
* *
2469057 TATGAAAATGAGA
1 TATGAAAGTGAAA
2469070 TATGAAAGT
1 TATGAAAGT
2469079 TTATTAATTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (13 bp):
TATGAAAGTGAAA
Found at i:2469148 original size:21 final size:19
Alignment explanation
Indices: 2469124--2469188 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
2469114 CAATTATGTA
2469124 TGATATTGTTTATCATGGCTT
1 TGATA-TGTTTATCATGG-TT
* * *
2469145 TGATATGATTATTAT-GTA
1 TGATATGTTTATCATGGTT
2469163 TGATAATGTTTATCATGGTTT
1 TGAT-ATGTTTATCATGG-TT
2469184 TGATA
1 TGATA
2469189 AAATCATGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
18 5 0.14
19 10 0.29
20 10 0.29
21 10 0.29
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (19 bp):
TGATATGTTTATCATGGTT
Found at i:2469151 original size:39 final size:39
Alignment explanation
Indices: 2469108--2469188 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
2469098 GAAAAATAAT
*
2469108 ATATGACAATTATGTATGATATTGTTTATCATGGCTTTG
1 ATATGACAATTATGTATGATAATGTTTATCATGGCTTTG
** *
2469147 ATATGATTATTATGTATGATAATGTTTATCATGGTTTTG
1 ATATGACAATTATGTATGATAATGTTTATCATGGCTTTG
2469186 ATA
1 ATA
2469189 AAATCATGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (39 bp):
ATATGACAATTATGTATGATAATGTTTATCATGGCTTTG
Found at i:2469189 original size:21 final size:20
Alignment explanation
Indices: 2469124--2469189 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
2469114 CAATTATGTA
*
2469124 TGATATTGTTTATCATGGCTT
1 TGATAATGTTTATCATGG-TT
* * *
2469145 TGAT-ATGATTATTAT-GTA
1 TGATAATGTTTATCATGGTT
2469163 TGATAATGTTTATCATGGTTT
1 TGATAATGTTTATCATGG-TT
2469184 TGATAA
1 TGATAA
2469190 AATCATGAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.14
19 10 0.29
20 9 0.26
21 11 0.31
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (20 bp):
TGATAATGTTTATCATGGTT
Found at i:2476556 original size:47 final size:46
Alignment explanation
Indices: 2476494--2476603 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 46
2476484 CATTTATTTT
* *
2476494 ATAATATATTATATATAAATA-TTTTCAAAACTCTATTTATTTTCAAAAA
1 ATAATATA--ATATATAAATAGTTTTCAAAA--CAATATATTTTCAAAAA
*
2476543 ATAATATAATATAT-TATAGTTTTCAAAACAATATATTTTCAAAAA
1 ATAATATAATATATAAATAGTTTTCAAAACAATATATTTTCAAAAA
* *
2476588 TTATATATATTATATA
1 ATA-ATATAATATATA
2476604 CTATAAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
45 17 0.32
46 13 0.25
47 15 0.28
49 8 0.15
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (46 bp):
ATAATATAATATATAAATAGTTTTCAAAACAATATATTTTCAAAAA
Found at i:2479112 original size:54 final size:54
Alignment explanation
Indices: 2479054--2479404 Score: 431
Period size: 54 Copynumber: 6.5 Consensus size: 54
2479044 ATCAACTCAT
* ** * * * * *
2479054 GATGAATTCTGTGAGTTGAACACATAGTGCCTATACGATTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * * **
2479108 GATGAATTCCGTAAAATACAC-CTTTAGTGTCGAAACAATTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACAC-TTAGTGCCGAAACGGTTATTCATCCACATAG
* *
2479162 GATGAATTCTGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCAC--AG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * *
2479214 AATAAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
** *
2479268 GATGAATTTTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
** *
2479322 GATGAATTCCGTGAAATGCAC-CTTTAGTGTTGGAACGGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACAC-TTAGTGCCGAAACGGTTATTCATCCACATAG
*
2479376 GATTAATTCCGTGAAATGCACACTTAGTG
1 GATGAATTCCGTGAAATGCACACTTAGTG
2479405 TCGATTTGGT
Statistics
Matches: 257, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
52 47 0.18
53 2 0.01
54 206 0.80
55 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (54 bp):
GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
Found at i:2479342 original size:160 final size:161
Alignment explanation
Indices: 2479073--2479404 Score: 454
Period size: 160 Copynumber: 2.1 Consensus size: 161
2479063 TGTGAGTTGA
* * * *
2479073 ACACATAGTGCCTATACGATTATTCATCCACATAGGATGAATTCCGTAAAATACACCTTTAGTGT
1 ACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTAAAATACACCTTTAGTGC
*
2479138 CGAAACAATTATTCATCCACATAGGATGAATTCTGTGAAATGCACAC-TTAGTGTCGAAACGGTT
66 CGAAACAATTATTCATCCACATAGGATGAATTCCGTGAAATGCAC-CTTTAGTGTCGAAACGGTT
2479202 ATTCATCCAC-AGAATAAATTCCGTGAAATGC
130 ATTCATCCACAAGAATAAATTCCGTGAAATGC
* * ** * *
2479233 ACACTTAGTGCCGAAACGGTTATTCATCCATATAGGATGAATTTTGTGAAATGCACAC-TTAGTG
1 ACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTAAAATACAC-CTTTAGTG
** * * *
2479297 CCGAAACGGTTATTCATCCACGTAGGATGAATTCCGTGAAATGCACCTTTAGTGTTGGAACGGTT
65 CCGAAACAATTATTCATCCACATAGGATGAATTCCGTGAAATGCACCTTTAGTGTCGAAACGGTT
* *
2479362 ATTCATCCACATAGGATTAATTCCGTGAAATGC
130 ATTCATCCACA-AGAATAAATTCCGTGAAATGC
2479395 ACACTTAGTG
1 ACACTTAGTG
2479405 TCGATTTGGT
Statistics
Matches: 150, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
159 1 0.01
160 119 0.79
161 1 0.01
162 29 0.19
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (161 bp):
ACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTAAAATACACCTTTAGTGC
CGAAACAATTATTCATCCACATAGGATGAATTCCGTGAAATGCACCTTTAGTGTCGAAACGGTTA
TTCATCCACAAGAATAAATTCCGTGAAATGC
Found at i:2479405 original size:54 final size:54
Alignment explanation
Indices: 2479092--2479408 Score: 444
Period size: 54 Copynumber: 5.9 Consensus size: 54
2479082 GCCTATACGA
* * **
2479092 TTATTCATCCACATAGGATGAATTCCGTAAAATACAC-CTTTAGTGTCGAAACAA
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACAC-TTAGTGTCGAAACGG
*
2479146 TTATTCATCCACATAGGATGAATTCTGTGAAATGCACACTTAGTGTCGAAACGG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGTCGAAACGG
* * *
2479200 TTATTCATCCAC--AGAATAAATTCCGTGAAATGCACACTTAGTGCCGAAACGG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGTCGAAACGG
* ** *
2479252 TTATTCATCCATATAGGATGAATTTTGTGAAATGCACACTTAGTGCCGAAACGG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGTCGAAACGG
* * *
2479306 TTATTCATCCACGTAGGATGAATTCCGTGAAATGCAC-CTTTAGTGTTGGAACGG
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACAC-TTAGTGTCGAAACGG
*
2479360 TTATTCATCCACATAGGATTAATTCCGTGAAATGCACACTTAGTGTCGA
1 TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGTCGA
2479409 TTTGGTAATC
Statistics
Matches: 233, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
52 47 0.20
53 1 0.00
54 183 0.79
55 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (54 bp):
TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGTCGAAACGG
Found at i:2479873 original size:94 final size:95
Alignment explanation
Indices: 2479763--2479947 Score: 273
Period size: 94 Copynumber: 2.0 Consensus size: 95
2479753 CGATCCTTCT
* * * * *
2479763 ATACTATGGTATCGATACCCCCTTTCGGTATCGACACCAATTTTAGGTT-GATGTTTCCTAGTAT
1 ATACTATGGTACCGATACCCCCTTCCAGTATCGACACCAATTTTAGATTCGATGTTGCCTAGTAT
2479827 TGATACCCTTACCATGGTATCGATACTACC
66 TGATACCCTTACCATGGTATCGATACTACC
* * * *
2479857 ATACTATGGTACCGATACCCCCTTCCAGTATCGATACCCATTTTAGATTCGATGTTGCTTGGTAT
1 ATACTATGGTACCGATACCCCCTTCCAGTATCGACACCAATTTTAGATTCGATGTTGCCTAGTAT
*
2479922 TGATACCCTTATCATGGTATCGATAC
66 TGATACCCTTACCATGGTATCGATAC
2479948 AACATCTTTG
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 43 0.54
95 37 0.46
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (95 bp):
ATACTATGGTACCGATACCCCCTTCCAGTATCGACACCAATTTTAGATTCGATGTTGCCTAGTAT
TGATACCCTTACCATGGTATCGATACTACC
Found at i:2481342 original size:73 final size:71
Alignment explanation
Indices: 2481253--2481538 Score: 277
Period size: 73 Copynumber: 3.9 Consensus size: 71
2481243 AGGACAAAAA
* * **
2481253 TTTTCAAGAGAAAATATCTCAAGTGAGATCAAATTTTTGTTTCGAGGGAAACTGTCTCGAGCAAG
1 TTTTCAAGA-AAAATATCTCAAGTGAGATCAAATTTTTGTTTCAAGAGAAACTGTCTCGAGTGAG
2481318 ATGAGAAC
65 ATG-GAAC
* * * *
2481326 TTTTCAATGAAAAATATCTTAAGGGAGATGAAATTTTTGTTTCAAGAGAAACTGTCACGAGTGAG
1 TTTTCAA-GAAAAATATCTCAAGTGAGATCAAATTTTTGTTTCAAGAGAAACTGTCTCGAGTGAG
* *
2481391 ACGGAAAG
65 ATGG-AAC
* * ** * *
2481399 TTTTCAAGTAAAATATCTCAAGAGAGA-CGATTTTTTTTGTTTCAAGAGAAACTATCTCGAATGA
1 TTTTCAAGAAAAATATCTCAAGTGAGATC-A-AATTTTTGTTTCAAGAGAAACTGTCTCGAGTGA
2481463 GATGGAAC
64 GATGGAAC
* * * * * * *
2481471 TTGTTTTAAAGAAAATTATCTCAAGTGAGATGAATTTTTTGTTTAAAGATAAACTATCTCGAGTG
1 ---TTTTCAAGAAAAATATCTCAAGTGAGATCAAATTTTTGTTTCAAGAGAAACTGTCTCGAGTG
2481536 AGA
63 AGA
2481539 CAAAAATTTT
Statistics
Matches: 175, Mismatches: 30, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
72 21 0.12
73 97 0.55
74 33 0.19
75 24 0.14
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (71 bp):
TTTTCAAGAAAAATATCTCAAGTGAGATCAAATTTTTGTTTCAAGAGAAACTGTCTCGAGTGAGA
TGGAAC
Found at i:2481491 original size:36 final size:38
Alignment explanation
Indices: 2481436--2481538 Score: 106
Period size: 36 Copynumber: 2.8 Consensus size: 38
2481426 CGATTTTTTT
*
2481436 TGTTTCAAGAGAAACTATCTCGAATGAGATGGAA-CTTG
1 TGTTTAAAGAGAAACTATCTCGAATGAGAT-GAATCTTG
* * *
2481474 T-TTTAAAGA-AAATTATCTC-AAGTGAGATGAATTTTT
1 TGTTTAAAGAGAAACTATCTCGAA-TGAGATGAATCTTG
* *
2481510 TGTTTAAAGATAAACTATCTCGAGTGAGA
1 TGTTTAAAGAGAAACTATCTCGAATGAGA
2481539 CAAAAATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
35 5 0.09
36 18 0.33
37 15 0.28
38 15 0.28
39 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (38 bp):
TGTTTAAAGAGAAACTATCTCGAATGAGATGAATCTTG
Found at i:2481529 original size:38 final size:38
Alignment explanation
Indices: 2481407--2481538 Score: 119
Period size: 38 Copynumber: 3.5 Consensus size: 38
2481397 AGTTTTCAAG
* * * * *
2481407 TAAAATATCTCAAGAGAGACGATTTTTTTTGTTTCAAGA
1 TAAACTATCTCAAGTGAGATGA-ATTTTTTGTTTAAAGA
* * *
2481446 GAAACTATCTCGAA-TGAGATGGAA-CTTGT-TTTAAAGA
1 TAAACTATCTC-AAGTGAGAT-GAATTTTTTGTTTAAAGA
*
2481483 -AAATTATCTCAAGTGAGATGAATTTTTTGTTTAAAGA
1 TAAACTATCTCAAGTGAGATGAATTTTTTGTTTAAAGA
*
2481520 TAAACTATCTCGAGTGAGA
1 TAAACTATCTCAAGTGAGA
2481539 CAAAAATTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
35 5 0.07
36 18 0.24
37 15 0.20
38 19 0.26
39 13 0.18
40 4 0.05
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (38 bp):
TAAACTATCTCAAGTGAGATGAATTTTTTGTTTAAAGA
Found at i:2481556 original size:19 final size:19
Alignment explanation
Indices: 2481532--2481587 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
2481522 AACTATCTCG
2481532 AGTGAGACAAAAATTTTCA
1 AGTGAGACAAAAATTTTCA
*
2481551 AGTGAG-GAAAAATTGTCTCA
1 AGTGAGACAAAAATT-T-TCA
* *
2481571 AGTGAGATAAAACTTTT
1 AGTGAGACAAAAATTTT
2481588 TCTCAAGGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 7 0.23
19 8 0.26
20 10 0.32
21 6 0.19
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.29
Consensus pattern (19 bp):
AGTGAGACAAAAATTTTCA
Found at i:2489185 original size:20 final size:20
Alignment explanation
Indices: 2489148--2489190 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2489138 TATATTGGGC
* *
2489148 TATTGTCTATTATTTATGGT
1 TATTGTCTATGATATATGGT
*
2489168 TATTGTCTATGGTATATGGT
1 TATTGTCTATGATATATGGT
2489188 TAT
1 TAT
2489191 GGAATAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.56
Consensus pattern (20 bp):
TATTGTCTATGATATATGGT
Found at i:2489255 original size:44 final size:44
Alignment explanation
Indices: 2489187--2489292 Score: 169
Period size: 44 Copynumber: 2.4 Consensus size: 44
2489177 TGGTATATGG
* *
2489187 TTATGGA-ATAATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
2489231 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
2489275 TTATGGGATAAATGGTAA
1 TTAT-GGATAAATGGTAA
2489293 AAGTTTTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
44 44 0.76
45 14 0.24
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:2498357 original size:17 final size:17
Alignment explanation
Indices: 2498324--2498357 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2498314 TTGAATATTT
* *
2498324 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
2498341 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
2498358 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:2505794 original size:9 final size:9
Alignment explanation
Indices: 2505776--2505805 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2505766 TTAGAAAGAG
2505776 GATG-GAAA
1 GATGAGAAA
2505784 GATGAGAAA
1 GATGAGAAA
2505793 GATGAGAAA
1 GATGAGAAA
2505802 GATG
1 GATG
2505806 GTGAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.37, T:0.13
Consensus pattern (9 bp):
GATGAGAAA
Found at i:2507746 original size:117 final size:117
Alignment explanation
Indices: 2507576--2507867 Score: 476
Period size: 117 Copynumber: 2.5 Consensus size: 117
2507566 TTTCCCGAAA
* * * * **
2507576 CATACACCCACCTGCACACCAGTAAGAACTTACCCTAAGAACAAAGCCGAGGAGCCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTGCAGTAAT
*
2507641 AACTTCCCCATCCAATCACTCCAATCACTACAATGTGTATGTTCCCCAGAAC
66 AACTTCCCCATCCAATCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
* *
2507693 CATACACCCACTTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTGCGGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTGCAGTAAT
* * *
2507758 AACTTCCCCATCTAGTCACTCCAATCACTACAATGTGTAGGTTCCCTAGAAC
66 AACTTCCCCATCCAATCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
2507810 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
2507868 AAATACTTCC
Statistics
Matches: 162, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 162 1.00
ACGTcount: A:0.33, C:0.34, G:0.15, T:0.18
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTGCAGTAAT
AACTTCCCCATCCAATCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:2508832 original size:29 final size:29
Alignment explanation
Indices: 2508799--2508982 Score: 144
Period size: 29 Copynumber: 6.4 Consensus size: 29
2508789 AACATTTTTT
* *
2508799 TAATTACGAAAATAGCACCATTTTGAAAT
1 TAATTACCAAAATAGCACCATTTTGAAAA
* *
2508828 TAATTACCAAAATAGCATCATTTTCAAAA
1 TAATTACCAAAATAGCACCATTTTGAAAA
* * *
2508857 TAATTACTAAAACATCACTC-TTTT-AAAA
1 TAATTACCAAAATAGCAC-CATTTTGAAAA
* * ***
2508885 AAATTA-CAAAATTATCA-CATTTTTTTAA
1 TAATTACCAAAA-TAGCACCATTTTGAAAA
* * *
2508913 -AATTACAAAAATAGTACCCTTTTGAAAA
1 TAATTACCAAAATAGCACCATTTTGAAAA
* ***
2508941 TAATTACCAGAATAGCACCATTTCCCAAA
1 TAATTACCAAAATAGCACCATTTTGAAAA
2508970 TAATTACCAAAAT
1 TAATTACCAAAAT
2508983 GTCACCCGGT
Statistics
Matches: 120, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
26 1 0.01
27 16 0.13
28 26 0.22
29 76 0.63
30 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (29 bp):
TAATTACCAAAATAGCACCATTTTGAAAA
Found at i:2515141 original size:117 final size:117
Alignment explanation
Indices: 2514974--2515260 Score: 475
Period size: 117 Copynumber: 2.5 Consensus size: 117
2514964 CTGAAACATT
* * * ***
2514974 CACCCACCTGCACACCAGTAAGGACTTACGCTAAGCACAAAGCCGTGGAGCCTACAGTAATAACT
1 CACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTACAGTAATAACT
2515039 TCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAACCATA
66 TCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAACCATA
* * ***
2515091 CACCAACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCATGTGGTAATAACT
1 CACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTACAGTAATAACT
2515156 TCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAACCATA
66 TCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAACCATA
2515208 CACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCT
1 CACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCT
2515261 GAAATACTTC
Statistics
Matches: 157, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 157 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.17
Consensus pattern (117 bp):
CACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTACAGTAATAACT
TCCCCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAACCATA
Found at i:2516228 original size:29 final size:29
Alignment explanation
Indices: 2516194--2516357 Score: 149
Period size: 29 Copynumber: 5.8 Consensus size: 29
2516184 CATTTTTTTA
* * *
2516194 AATTACGAAAATAGCACCATTTTGAAATT
1 AATTACCAAAATAGCACCATTTTCAAAAT
*
2516223 AATTACCAAAATAGCATCATTTTCAAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * *
2516252 AATTACTAAAATATCACTC-TTTTAAAAAT
1 AATTACCAAAATAGCAC-CATTTTCAAAAT
* * * *
2516281 -TTTA-CGAAATTGTCACC-TTTTTAAAA-
1 AATTACCAAAATAG-CACCATTTTCAAAAT
* *
2516307 AATTACAAAAATAGCACCCTTTTCAAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
*
2516336 AATTACCAGAATAGCACCATTT
1 AATTACCAAAATAGCACCATTT
2516358 CCCAAAATGT
Statistics
Matches: 107, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
27 20 0.19
28 19 0.18
29 67 0.63
30 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTACCAAAATAGCACCATTTTCAAAAT
Found at i:2516396 original size:5 final size:5
Alignment explanation
Indices: 2516386--2516429 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
2516376 CAACGGTCAA
*
2516386 CGGGT CGGGT CAGGT CAACGGGT CGGGT CGGGT CGGGT CGGGT C
1 CGGGT CGGGT CGGGT C---GGGT CGGGT CGGGT CGGGT CGGGT C
2516430 AGAAACAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 30 0.88
8 4 0.12
ACGTcount: A:0.07, C:0.23, G:0.52, T:0.18
Consensus pattern (5 bp):
CGGGT
Found at i:2516403 original size:18 final size:18
Alignment explanation
Indices: 2516380--2516431 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
2516370 CCCGATCAAC
2516380 GGTCAACGGGTCGGGTCA
1 GGTCAACGGGTCGGGTCA
*
2516398 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCA
2516416 GGT---CGGGTCGGGTCA
1 GGTCAACGGGTCGGGTCA
2516431 G
1 G
2516432 AAACAAGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 12 0.38
18 20 0.62
ACGTcount: A:0.12, C:0.21, G:0.50, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCA
Found at i:2518798 original size:20 final size:21
Alignment explanation
Indices: 2518759--2518802 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2518749 ATGAAGTGGG
2518759 AGTAGATGAAATACCTTGGTA
1 AGTAGATGAAATACCTTGGTA
*
2518780 AGTAGATGAACTA-CTTGGTA
1 AGTAGATGAAATACCTTGGTA
2518800 AGT
1 AGT
2518803 GTCTCTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (21 bp):
AGTAGATGAAATACCTTGGTA
Found at i:2521989 original size:24 final size:24
Alignment explanation
Indices: 2521957--2522002 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
2521947 AATAACTATT
2521957 CTTTCATAGCA-TGCTTTTTCTCTA
1 CTTTCATAGCATTG-TTTTTCTCTA
2521981 CTTTCATAGCATTGTTTTTCTC
1 CTTTCATAGCATTGTTTTTCTC
2522003 AACCTTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.15, C:0.24, G:0.09, T:0.52
Consensus pattern (24 bp):
CTTTCATAGCATTGTTTTTCTCTA
Found at i:2526713 original size:34 final size:33
Alignment explanation
Indices: 2526675--2526773 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 33
2526665 AGGTGAATTC
* *
2526675 TCTCAAGGAGATAAGATTATTTCAA-AGGAAACGG
1 TCTCAAGGAGACAAGATT-TTTCAAGA-GAAACGA
* *
2526709 TCTCAAGGGAGACATGCTTTTTCAAGAGAAACGA
1 TCTCAA-GGAGACAAGATTTTTCAAGAGAAACGA
* * *
2526743 TCTCAAGGGAGACATGCTTTTTCAAGGGAAA
1 TCTCAA-GGAGACAAGATTTTTCAAGAGAAA
2526774 TAGTCTCAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
34 48 0.83
35 10 0.17
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (33 bp):
TCTCAAGGAGACAAGATTTTTCAAGAGAAACGA
Found at i:2526769 original size:19 final size:19
Alignment explanation
Indices: 2526711--2526771 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
2526701 GGAAACGGTC
2526711 TCAAGGGAGACATGCTTTT
1 TCAAGGGAGACATGCTTTT
* *
2526730 TCAAGAGAAACGAT-C----
1 TCAAGGGAGAC-ATGCTTTT
2526745 TCAAGGGAGACATGCTTTT
1 TCAAGGGAGACATGCTTTT
2526764 TCAAGGGA
1 TCAAGGGA
2526772 AATAGTCTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
14 2 0.06
15 10 0.31
19 18 0.56
20 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (19 bp):
TCAAGGGAGACATGCTTTT
Found at i:2526781 original size:34 final size:33
Alignment explanation
Indices: 2526694--2526785 Score: 121
Period size: 34 Copynumber: 2.7 Consensus size: 33
2526684 GATAAGATTA
* *
2526694 TTTCAAAGGAAACGGTCTCAAGGGAGACATGCTT
1 TTTCAAGGGAAA-AGTCTCAAGGGAGACATGCTT
* *
2526728 TTTCAAGAGAAACGATCTCAAGGGAGACATGCTT
1 TTTCAAGGGAAAAG-TCTCAAGGGAGACATGCTT
2526762 TTTCAAGGGAAATAGTCTCAAGGG
1 TTTCAAGGGAAA-AGTCTCAAGGG
2526786 CTACAAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
33 1 0.02
34 49 0.96
35 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (33 bp):
TTTCAAGGGAAAAGTCTCAAGGGAGACATGCTT
Found at i:2531486 original size:13 final size:13
Alignment explanation
Indices: 2531457--2531512 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
2531447 ACGGCAGTTG
*
2531457 GAAAGGAGAAGAG-
1 GAAAGTAGAA-AGT
*
2531470 GAAACTAGAAAGT
1 GAAAGTAGAAAGT
*
2531483 GAAAGTAAAAAGT
1 GAAAGTAGAAAGT
2531496 GAAAGT-GAAAAGT
1 GAAAGTAG-AAAGT
2531509 GAAA
1 GAAA
2531513 AGTAAGTGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 2 0.06
13 34 0.94
ACGTcount: A:0.57, C:0.02, G:0.30, T:0.11
Consensus pattern (13 bp):
GAAAGTAGAAAGT
Found at i:2539233 original size:20 final size:20
Alignment explanation
Indices: 2539196--2539238 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2539186 AATCCACCAC
*
2539196 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
2539216 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
2539236 ATG
1 ATG
2539239 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:2541286 original size:47 final size:49
Alignment explanation
Indices: 2541197--2541295 Score: 139
Period size: 47 Copynumber: 2.1 Consensus size: 49
2541187 CATATTACTG
* *
2541197 ATACGAAAAATGCAACATAGGTATAAAACAAAATCGATCGATAACTATC
1 ATACGAAAAATGCAACATAGGCATAAAACAAAATCGATCGATAACGATC
* * *
2541246 ATACG-AAAATGCAACTTATGCATTAAA-AAAATCGATCGATAACGATC
1 ATACGAAAAATGCAACATAGGCATAAAACAAAATCGATCGATAACGATC
2541293 ATA
1 ATA
2541296 GACAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
47 22 0.49
48 18 0.40
49 5 0.11
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.22
Consensus pattern (49 bp):
ATACGAAAAATGCAACATAGGCATAAAACAAAATCGATCGATAACGATC
Found at i:2544034 original size:53 final size:54
Alignment explanation
Indices: 2543954--2544081 Score: 161
Period size: 53 Copynumber: 2.4 Consensus size: 54
2543944 ATACATGGTA
* * * *
2543954 CATGAGTTGCACCTA-AGTGCCAAAATGGTAATCCATAAACTCATTATGAATTC
1 CATGAGATGCACATATAGTGTCAAAATGGTAATCCATAAACTCATTATGAATAC
* **
2544007 CATGA-ATGCACATATAGTGTCAAAATGGTCATTTATAAACTCATTATGAATAC
1 CATGAGATGCACATATAGTGTCAAAATGGTAATCCATAAACTCATTATGAATAC
* *
2544060 CATGAGTTGCACACATAGTGTC
1 CATGAGATGCACATATAGTGTC
2544082 GATACGATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 7 0.11
53 43 0.67
54 14 0.22
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (54 bp):
CATGAGATGCACATATAGTGTCAAAATGGTAATCCATAAACTCATTATGAATAC
Found at i:2544101 original size:54 final size:54
Alignment explanation
Indices: 2543990--2544140 Score: 178
Period size: 54 Copynumber: 2.8 Consensus size: 54
2543980 GGTAATCCAT
* * * * * * * *
2543990 AAACTCATTATGAATTCCATGA-ATGCACATATAGTGTCAAAATGGTCATTTAT
1 AAACTCATTATGAATTCCATGAGTTGCACACATAGTGTCGAAACGATAATTAAC
* *
2544043 AAACTCATTATGAATACCATGAGTTGCACACATAGTGTCGATACGATAATTAAC
1 AAACTCATTATGAATTCCATGAGTTGCACACATAGTGTCGAAACGATAATTAAC
* * *
2544097 AAACTCATTATGAATTTCGTGGGTTGCACACATAGTGTCGAAAC
1 AAACTCATTATGAATTCCATGAGTTGCACACATAGTGTCGAAAC
2544141 TACACATAGT
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 21 0.26
54 61 0.74
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (54 bp):
AAACTCATTATGAATTCCATGAGTTGCACACATAGTGTCGAAACGATAATTAAC
Found at i:2544868 original size:20 final size:20
Alignment explanation
Indices: 2544843--2544892 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2544833 TTTCAATTAC
*
2544843 GGTATCGATACCATCCTC-TT
1 GGTATCGATACC-TCCACATT
2544863 GGTATCGATACCTCCACATT
1 GGTATCGATACCTCCACATT
*
2544883 AGTATCGATA
1 GGTATCGATA
2544893 TTGCTTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (20 bp):
GGTATCGATACCTCCACATT
Found at i:2549968 original size:14 final size:15
Alignment explanation
Indices: 2549946--2549984 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
2549936 GTAATTCTAT
2549946 TATAATTATACTAA-
1 TATAATTATACTAAC
* *
2549960 TATATTTATATTAAC
1 TATAATTATACTAAC
2549975 TATAATTATA
1 TATAATTATA
2549985 ATTATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
TATAATTATACTAAC
Found at i:2550019 original size:16 final size:16
Alignment explanation
Indices: 2550000--2550030 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2549990 AATAAACTAT
*
2550000 ATATTTATTTTATATC
1 ATATTTACTTTATATC
2550016 ATATTTACTTTATAT
1 ATATTTACTTTATAT
2550031 TTTACTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTTACTTTATATC
Found at i:2550574 original size:29 final size:29
Alignment explanation
Indices: 2550518--2550575 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
2550508 CCCCAAATCA
*
2550518 TTCAAAAGTTTGGGAATGAAATTTGAATG
1 TTCAAAAGTTTGAGAATGAAATTTGAATG
2550547 TTCAAAAGTTT-AGAGA-GAAATTTAGAATG
1 TTCAAAAGTTTGAGA-ATGAAATTT-GAATG
2550576 ATGATCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.33
Consensus pattern (29 bp):
TTCAAAAGTTTGAGAATGAAATTTGAATG
Found at i:2558642 original size:22 final size:23
Alignment explanation
Indices: 2558601--2558647 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
2558591 ACAAATAAAT
2558601 ATAATGATAATGATTTTTTTATA
1 ATAATGATAATGATTTTTTTATA
*
2558624 ATAATGATAGTG-TTTTTTTATA
1 ATAATGATAATGATTTTTTTATA
2558646 AT
1 AT
2558648 TTTTTTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (23 bp):
ATAATGATAATGATTTTTTTATA
Found at i:2559081 original size:15 final size:15
Alignment explanation
Indices: 2559036--2559106 Score: 53
Period size: 16 Copynumber: 4.7 Consensus size: 15
2559026 TTTTTAGAAA
2559036 AAATA-AAAATCACTTT
1 AAATATAAAAT-A-TTT
2559052 AAAT-TAAAAGT-TTT
1 AAATATAAAA-TATTT
2559066 AAATATAAAATATTT
1 AAATATAAAATATTT
2559081 AAATAGTCAATAA-A-TT
1 AAATA-T-AA-AATATTT
2559097 AAATATAAAA
1 AAATATAAAA
2559107 ATATAAAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 17
0.74 0.00 0.26
Matches are distributed among these distances:
13 2 0.04
14 10 0.21
15 14 0.29
16 16 0.33
17 4 0.08
18 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (15 bp):
AAATATAAAATATTT
Found at i:2560440 original size:26 final size:26
Alignment explanation
Indices: 2560411--2560514 Score: 69
Period size: 24 Copynumber: 4.1 Consensus size: 26
2560401 AAACATAATG
2560411 AAAATAATAAATAGTATAAATAAAAT
1 AAAATAATAAATAGTATAAATAAAAT
* *
2560437 AAAA-AATAAA-AATATATAT-AAA-
1 AAAATAATAAATAGTATAAATAAAAT
* * *
2560459 AATATAA-AAAT-GTATGTATATATAAT
1 AAAATAATAAATAGTA--TAAATAAAAT
*
2560485 AAAATACTAAATAGTA-ACAATAATAAT
1 AAAATAATAAATAGTATA-AATAA-AAT
2560512 AAA
1 AAA
2560515 TAAATGAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
22 8 0.14
23 5 0.08
24 12 0.20
25 9 0.15
26 12 0.20
27 10 0.17
28 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (26 bp):
AAAATAATAAATAGTATAAATAAAAT
Found at i:2560442 original size:28 final size:26
Alignment explanation
Indices: 2560411--2560469 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
2560401 AAACATAATG
2560411 AAAATAATAAATAGTATAAATAAAATA-A
1 AAAATAA-AAATA-TATAAA-AAAATATA
*
2560439 AAAATAAAAATATATATAAAAATATA
1 AAAATAAAAATATATAAAAAAATATA
2560465 AAAAT
1 AAAAT
2560470 GTATGTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.21
26 11 0.38
27 5 0.17
28 7 0.24
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (26 bp):
AAAATAAAAATATATAAAAAAATATA
Found at i:2560449 original size:18 final size:20
Alignment explanation
Indices: 2560412--2560469 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
2560402 AACATAATGA
*
2560412 AAATAATAAATAGTATAAATA-
1 AAATAA-AAATA-TAAAAATAT
2560433 AAATAAAAA-ATAAAAATAT
1 AAATAAAAATATAAAAATAT
*
2560452 ATATAAAAATATAAAAAT
1 AAATAAAAATATAAAAAT
2560470 GTATGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 7 0.21
19 9 0.27
20 11 0.33
21 6 0.18
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATAAAAATATAAAAATAT
Found at i:2560631 original size:12 final size:12
Alignment explanation
Indices: 2560614--2560638 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2560604 ATACGCTAGG
2560614 AAAATATAGTAA
1 AAAATATAGTAA
2560626 AAAATATAGTAA
1 AAAATATAGTAA
2560638 A
1 A
2560639 TAAGTAAACA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATATAGTAA
Found at i:2560697 original size:12 final size:12
Alignment explanation
Indices: 2560659--2560699 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
2560649 TAGATAAAAA
2560659 ATAATAT-ATAT
1 ATAATATAATAT
2560670 AT-ATATATATAT
1 ATAATATA-ATAT
2560682 ATAATATAATAT
1 ATAATATAATAT
2560694 ATAATA
1 ATAATA
2560700 GGAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.15
11 2 0.07
12 16 0.59
13 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:2560714 original size:2 final size:2
Alignment explanation
Indices: 2560662--2560696 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2560652 ATAAAAAATA
2560662 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2560697 ATAGGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2561235 original size:37 final size:37
Alignment explanation
Indices: 2561194--2561298 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
2561184 GTGCTTGTGG
* * *
2561194 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
2561231 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
2561268 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
2561299 GACGAAAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:2562240 original size:106 final size:106
Alignment explanation
Indices: 2562048--2563319 Score: 1978
Period size: 106 Copynumber: 12.0 Consensus size: 106
2562038 CATTGTTCCT
* * * * * * *
2562048 AGTCTAATATCCTCCGTCGTGAAGTTAAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* * ** * *
2562113 CAGCCGTCCATTCGTTATGAAGTTGAACTTGTGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** *
2562154 AGTCCAATATCCTTTTTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* *
2562219 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2562260 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
2562325 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2562366 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
2562431 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
2562472 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
2562537 CAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** * *
2562578 AGTCCAATATCTTTCACTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
2562643 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2562684 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTGTTGACAA
2562748 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2562790 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
2562855 CAGCTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2562896 AGTCCAATATCCTTCGTTCTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* * * *
2562961 CAGCGGTCCCTTCGTCATGAAGTTGAGCTTACGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2563002 AGT-CAATATCCTTCATTGTGAAGTTGAAATTGGCT-TGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
2563065 CAGCGGCCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** *
2563105 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
2563170 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2563211 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* * *
2563276 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
2563317 AGT
1 AGT
2563320 GGCACGATAT
Statistics
Matches: 1076, Mismatches: 84, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
103 18 0.02
104 77 0.07
105 80 0.07
106 897 0.83
107 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:2564298 original size:19 final size:19
Alignment explanation
Indices: 2564274--2564320 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 19
2564264 GGCTATTGTG
2564274 TTTGATCAAAGGTTTGGCA
1 TTTGATCAAAGGTTTGGCA
2564293 TTTGATGCTCAAAGGTTTGGCA
1 TTTGA---TCAAAGGTTTGGCA
2564315 TTTGAT
1 TTTGAT
2564321 GCTCAAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.24
22 19 0.76
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (19 bp):
TTTGATCAAAGGTTTGGCA
Found at i:2564306 original size:22 final size:22
Alignment explanation
Indices: 2564279--2564333 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
2564269 TTGTGTTTGA
2564279 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
2564301 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
2564323 TCAAAGGTTTG
1 TCAAAGGTTTG
2564334 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:2564961 original size:16 final size:16
Alignment explanation
Indices: 2564942--2565002 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
2564932 TCCCTTTTTC
2564942 TTTTTGATTTTTGTT-T
1 TTTTTG-TTTTTGTTCT
* *
2564958 TTTTTTTGTTTTCTTCT
1 TTTTTGT-TTTTGTTCT
2564975 TTTTTGCTTTTT-TTCT
1 TTTTTG-TTTTTGTTCT
2564991 TTTTTGTTTTTG
1 TTTTTGTTTTTG
2565003 CCCTTTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 6 0.16
16 21 0.55
17 10 0.26
18 1 0.03
ACGTcount: A:0.02, C:0.07, G:0.10, T:0.82
Consensus pattern (16 bp):
TTTTTGTTTTTGTTCT
Found at i:2565592 original size:16 final size:16
Alignment explanation
Indices: 2565571--2565612 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
2565561 AATGTTCAAG
2565571 AATTTCAAAAGGAGGT
1 AATTTCAAAAGGAGGT
2565587 AATTTCAAAAGGAGGT
1 AATTTCAAAAGGAGGT
*
2565603 AATGTCAAAA
1 AATTTCAAAA
2565613 TTTCATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (16 bp):
AATTTCAAAAGGAGGT
Found at i:2568432 original size:19 final size:19
Alignment explanation
Indices: 2568399--2568435 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2568389 TGCAGATGAT
2568399 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
2568418 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
2568436 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:2569760 original size:23 final size:22
Alignment explanation
Indices: 2569727--2569794 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
2569717 AACTAAAAAC
*
2569727 ATAATGAAAATAAATAAATAGTAT
1 ATAAT-AAAATAAATAAATA-TAA
*
2569751 ATAATAAAAT-AA-AATTATAA
1 ATAATAAAATAAATAAATATAA
*
2569771 ATAAT-AAATAAATAAAAATAA
1 ATAATAAAATAAATAAATATAA
2569792 ATA
1 ATA
2569795 TACATAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.11
20 9 0.24
21 13 0.34
22 2 0.05
23 5 0.13
24 5 0.13
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (22 bp):
ATAATAAAATAAATAAATATAA
Found at i:2569765 original size:24 final size:23
Alignment explanation
Indices: 2569733--2569842 Score: 71
Period size: 24 Copynumber: 4.4 Consensus size: 23
2569723 AAACATAATG
*
2569733 AAAATAAATA-AATAGTATATAAT
1 AAAATAAATATAATAATATA-AAT
2569756 AAAATAAAATTATAAATAATAAATAAAT
1 AAAAT-AAA-TAT-AATAAT--ATAAAT
*
2569784 AAAAATAAATATACATAATATTAATT
1 -AAAATAAATATA-ATAATA-TAAAT
* *
2569810 AAAA-AAATAGTAATCATAGAATAT
1 AAAATAAATA-TAATAATATAA-AT
2569834 AAAATAAAT
1 AAAATAAAT
2569843 GAAGTAAGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
23 7 0.10
24 18 0.26
25 13 0.19
26 5 0.07
27 13 0.19
28 6 0.09
29 8 0.11
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (23 bp):
AAAATAAATATAATAATATAAAT
Found at i:2569770 original size:27 final size:24
Alignment explanation
Indices: 2569738--2569842 Score: 76
Period size: 25 Copynumber: 4.3 Consensus size: 24
2569728 TAATGAAAAT
2569738 AAATAAATAGTATATAATAAAATAA
1 AAATAAATA-TATATAATAAAATAA
2569763 AATTATAAATA-ATA-AAT-AAATAA
1 AA--ATAAATATATATAATAAAATAA
* * *
2569786 AAATAAATATACATAATATTAATTA
1 AAATAAATATATATAATA-AAATAA
* *
2569811 AAA-AAATAGTA-ATCATAGAATATA
1 AAATAAATA-TATATAATAAAATA-A
2569835 AAATAAAT
1 AAATAAAT
2569843 GAAGTAAGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
21 7 0.11
22 2 0.03
23 14 0.22
24 17 0.26
25 18 0.28
27 7 0.11
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (24 bp):
AAATAAATATATATAATAAAATAA
Found at i:2569801 original size:10 final size:10
Alignment explanation
Indices: 2569736--2569801 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
2569726 CATAATGAAA
2569736 ATAAATAAAT
1 ATAAATAAAT
*
2569746 AGTATAT-AAT
1 A-TAAATAAAT
2569756 A-AAATAAA-
1 ATAAATAAAT
*
2569764 AT-TATAAAT
1 ATAAATAAAT
2569773 AATAAATAAAT
1 -ATAAATAAAT
*
2569784 AAAAATAAAT
1 ATAAATAAAT
*
2569794 ATACATAA
1 ATAAATAA
2569802 TATTAATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
8 9 0.21
9 2 0.05
10 22 0.51
11 10 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:2569919 original size:22 final size:21
Alignment explanation
Indices: 2569874--2569922 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
2569864 ACGTTAGGAA
*
2569874 AATATAGTAAAAAAATAAAGT
1 AATATAGTAAAAAAATAAAAT
2569895 AATA-AGTAAACAAAGATAAAAT
1 AATATAGTAAA-AAA-ATAAAAT
2569917 AATATA
1 AATATA
2569923 TATATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 10 0.42
23 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
AATATAGTAAAAAAATAAAAT
Found at i:2569938 original size:15 final size:14
Alignment explanation
Indices: 2569918--2569972 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
2569908 AGATAAAATA
2569918 ATATAT-ATATAAT
1 ATATATAATATAAT
2569931 ATATAT-ATATAGAT
1 ATATATAATATA-AT
* *
2569945 ATATATAATAGGAAA
1 ATATATAATA-TAAT
2569960 ATATATAATATAA
1 ATATATAATATAA
2569973 CGCAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 11 0.31
14 10 0.28
15 14 0.39
16 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (14 bp):
ATATATAATATAAT
Found at i:2569963 original size:23 final size:22
Alignment explanation
Indices: 2569912--2569964 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
2569902 AAACAAAGAT
* *
2569912 AAAATA-ATATATATATAATAT
1 AAAATATAGATATATATAATAG
*
2569933 ATATATATAGATATATATAATAGG
1 A-AAATATAGATATATATAATA-G
2569957 AAAATATA
1 AAAATATA
2569965 TAATATAACG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 4 0.16
23 19 0.76
24 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (22 bp):
AAAATATAGATATATATAATAG
Found at i:2569966 original size:2 final size:2
Alignment explanation
Indices: 2569918--2569951 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2569908 AGATAAAATA
*
2569918 AT AT AT AT AT A- AT AT AT AT AT AT AG AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2569952 ATAGGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:2570014 original size:22 final size:20
Alignment explanation
Indices: 2569981--2570028 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
2569971 AACGCAAAGA
2569981 AAATGAAAAAAAAAATTATAAT
1 AAAT-AAAAAAAAAA-TATAAT
2570003 AAATAAATAAAAAAATATAAT
1 AAATAAA-AAAAAAATATAAT
*
2570024 TAATA
1 AAATA
2570029 TATATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATAAAAAAAAAATATAAT
Found at i:2570031 original size:2 final size:2
Alignment explanation
Indices: 2570026--2570056 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2570016 AATATAATTA
*
2570026 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2570057 AATAATAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2570497 original size:37 final size:37
Alignment explanation
Indices: 2570456--2570560 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
2570446 GTGCTTGTGG
* * *
2570456 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
2570493 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
2570530 ATCTTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
2570561 GACGAAAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Done.