Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 64
Found at i:282950 original size:14 final size:12
Alignment explanation
Indices: 282905--282940 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
282895 ACAATTATCA
282905 AGAATC-AAGAG
1 AGAATCAAAGAG
282916 AGAATCAAAGAG
1 AGAATCAAAGAG
282928 AGAATCAAAGAG
1 AGAATCAAAGAG
282940 A
1 A
282941 AAGCATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.58, C:0.08, G:0.25, T:0.08
Consensus pattern (12 bp):
AGAATCAAAGAG
Found at i:288154 original size:24 final size:21
Alignment explanation
Indices: 288119--288161 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
288109 GGCACATTCT
*
288119 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
288142 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
288162 GTCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:292972 original size:2 final size:2
Alignment explanation
Indices: 292965--292991 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
292955 TATCTTATAA
292965 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
292992 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:294376 original size:2 final size:2
Alignment explanation
Indices: 294371--294417 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
294361 TGTGTGTGTG
294371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
294413 TA TA T
1 TA TA T
294418 GAACCTGTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:305796 original size:37 final size:39
Alignment explanation
Indices: 305707--305800 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 39
305697 TAGTATTTAC
305707 TAAAACAAAT--AAAAATAATA-A-ATATATAATACTAAG
1 TAAAACAAATAAAAAAATAA-AGATATATATAATACTAAG
* * *
305743 TAAAACAATTAAAAAAATAAAGATATATATGATATTAAG
1 TAAAACAAATAAAAAAATAAAGATATATATAATACTAAG
*
305782 -AAAA-AAATAGAAAAATAAA
1 TAAAACAAATAAAAAAATAAA
305801 ATAAAGTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
36 9 0.18
37 14 0.29
38 13 0.27
39 13 0.27
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (39 bp):
TAAAACAAATAAAAAAATAAAGATATATATAATACTAAG
Found at i:305967 original size:21 final size:21
Alignment explanation
Indices: 305921--305960 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
305911 AAATTAATAC
*
305921 ATATATATATAATGATATAAG
1 ATATATATATAATAATATAAG
305942 ATATATATAATAA-AATATA
1 ATATATAT-ATAATAATATA
305961 TAATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATATATATAATAATATAAG
Found at i:305968 original size:14 final size:15
Alignment explanation
Indices: 305925--305970 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
305915 TAATACATAT
*
305925 ATATATAATGATATAAG
1 ATATATAAT-A-ATAAA
305942 ATATAT-ATAATAAA
1 ATATATAATAATAAA
305956 ATATATAAT-ATAAA
1 ATATATAATAATAAA
305970 A
1 A
305971 AAGAGGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 16 0.59
15 3 0.11
16 2 0.07
17 6 0.22
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
ATATATAATAATAAA
Found at i:307666 original size:106 final size:105
Alignment explanation
Indices: 307342--307713 Score: 498
Period size: 106 Copynumber: 3.5 Consensus size: 105
307332 GTATTGTTCC
* * *
307342 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCT-CGTTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACAG
* * *
307407 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTC
65 CTAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
* * * *
307448 GAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACT--AAAAAGTTGTTTTT
1 GAGTCCAATATCC-TCGTTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAAA--TGTTTGT
* * *
307511 TGATA-ATCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
59 TGACAGCT-AGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
307558 GAGTCCAATATCACTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACAG
1 GAGTCCAATATC-CTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACAG
307623 CTAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
65 CTAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
*
307664 GAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAA
1 GAGTCCAATAT-CCTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGGGAA
307714 GCCCCTTCGT
Statistics
Matches: 232, Mismatches: 21, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
106 135 0.58
107 3 0.01
108 7 0.03
110 86 0.37
111 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACAGC
TAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
Found at i:308499 original size:66 final size:65
Alignment explanation
Indices: 308380--308551 Score: 195
Period size: 64 Copynumber: 2.6 Consensus size: 65
308370 AGATATATGG
* * * * **
308380 TGTTTCATGA-AAACGGACTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT-TTTTAAGGGAAATAAATTCAAAGA-T
308444 TT
64 TT
* *
308446 GTGTTTCAAGAGAAATTGTCTCAAGGGAGAC-AAATTTTTTTTAGGGGAAATAAATTCAAAGATT
1 -TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTTTAAGGGAAATAAATTCAAAGATT
308510 T
65 T
* * * *
308511 TGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAATTGTTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTT
308552 CAAGAGAACC
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 27 0.30
65 12 0.13
66 21 0.23
67 16 0.18
68 15 0.16
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTTTAAGGGAAATAAATTCAAAGATTT
Found at i:308565 original size:36 final size:37
Alignment explanation
Indices: 308512--308612 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 37
308502 CAAAGATTTT
* *
308512 GTTTCAAGGGAAACTGTCTCAAGAGAGACTAAA-TT-
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
* *
308547 GTTTTCAAGAGAACCTGTCTCAGGAGAGACAAAACTTA
1 G-TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
* * *
308585 GTTCCAAAAGAAACTGTCTCAAGGGAGA
1 GTTTCAAGAGAAACTGTCTCAAGAGAGA
308613 TGAAATTTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
35 1 0.02
36 28 0.52
37 24 0.44
38 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (37 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
Found at i:308604 original size:37 final size:36
Alignment explanation
Indices: 308521--308612 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 36
308511 TGTTTCAAGG
* * *
308521 GAAACTGTCTCAAGAGAGACTAAATTGTTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTGTTTCCAAAA
* *
308557 GAACCTGTCTCAGGAGAGACAAAACTTAG-TTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TT-GTTTCCAAAA
*
308594 GAAACTGTCTCAAGGGAGA
1 GAAACTGTCTCAAGAGAGA
308613 TGAAATTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 21 0.46
37 24 0.52
38 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTGTTTCCAAAA
Found at i:314185 original size:39 final size:36
Alignment explanation
Indices: 314106--314203 Score: 110
Period size: 39 Copynumber: 2.6 Consensus size: 36
314096 AGTATTTACT
*
314106 AAAACAAATAAAAATAAT-AAATATATAATACTAAGT
1 AAAACAAATAAAAA-AATAAAATATATAATACTAAGA
*
314142 AAAACAAATAAAAAAATAAAGATATATATGATATTAAGA
1 AAAACAAATAAAAAAATAAA-ATATATA--ATACTAAGA
*
314181 AAAACATAA-AAAAAAGTAAAATA
1 AAAACA-AATAAAAAAATAAAATA
314204 AAGTAAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
35 3 0.06
36 16 0.30
37 7 0.13
38 3 0.06
39 23 0.43
40 2 0.04
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.21
Consensus pattern (36 bp):
AAAACAAATAAAAAAATAAAATATATAATACTAAGA
Found at i:314269 original size:40 final size:39
Alignment explanation
Indices: 314225--314308 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 39
314215 TAATATATAT
314225 ATATAAATAAATAAAA-ATAAAAATAGAATATTAAGAAAAA
1 ATATAAATAAA-AAAATAT-AAAATAGAATATTAAGAAAAA
* ** *
314265 ATATATATAAAAACGTATAAAATATAATATTAAGAAAAA
1 ATATAAATAAAAAAATATAAAATAGAATATTAAGAAAAA
314304 ATATA
1 ATATA
314309 TATACATAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
39 27 0.69
40 12 0.31
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (39 bp):
ATATAAATAAAAAAATATAAAATAGAATATTAAGAAAAA
Found at i:314272 original size:17 final size:17
Alignment explanation
Indices: 314252--314311 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
314242 TAAAAATAGA
314252 ATATTAAGAAAAAATAT
1 ATATTAAGAAAAAATAT
* *
314269 ATATAAAAACGTATAAAATAT
1 ATAT--TAA-G-AAAAAATAT
314290 AATATTAAGAAAAAATAT
1 -ATATTAAGAAAAAATAT
314308 ATAT
1 ATAT
314312 ACATAGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 8 0.24
18 8 0.24
19 3 0.09
20 3 0.09
21 8 0.24
22 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
ATATTAAGAAAAAATAT
Found at i:314358 original size:2 final size:2
Alignment explanation
Indices: 314353--314398 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
314343 ATACACACAC
*
314353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
314394 AT AT A
1 AT AT A
314399 ATAAAAATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:314422 original size:14 final size:15
Alignment explanation
Indices: 314353--314421 Score: 79
Period size: 14 Copynumber: 4.6 Consensus size: 15
314343 ATACACACAC
*
314353 ATATATATATATAT-
1 ATATAAATATATATA
*
314367 ATATATATATATATA
1 ATATAAATATATATA
314382 TATATAAGATATATATA
1 -ATATAA-ATATATATA
*
314399 ATAAAAATA-ATATA
1 ATATAAATATATATA
314413 ATATAAATA
1 ATATAAATA
314422 AATAAAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
14 27 0.55
15 3 0.06
16 10 0.20
17 9 0.18
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (15 bp):
ATATAAATATATATA
Found at i:314430 original size:25 final size:25
Alignment explanation
Indices: 314383--314429 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
314373 ATATATATAT
*
314383 ATATAAGATATATATAATAAAAATA
1 ATATAAGATAAATATAATAAAAATA
*
314408 ATATAATATAAATA-AATAAAAA
1 ATATAAGATAAATATAATAAAAA
314430 AAGAGGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (25 bp):
ATATAAGATAAATATAATAAAAATA
Found at i:314475 original size:16 final size:17
Alignment explanation
Indices: 314436--314476 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
314426 AAAAAAGAGG
314436 AATATAGTAAATAAATAA
1 AATATA-TAAATAAATAA
*
314454 AA-ATATAATTAAA-AA
1 AATATATAAATAAATAA
314469 AATATATA
1 AATATATA
314477 TAGGAGACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 12 0.57
17 3 0.14
18 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AATATATAAATAAATAA
Found at i:323626 original size:18 final size:19
Alignment explanation
Indices: 323603--323638 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
323593 ATATTAAAAG
323603 TTATAAAATATT-TTTTAA
1 TTATAAAATATTATTTTAA
*
323621 TTATAAGATATTATTTTA
1 TTATAAAATATTATTTTA
323639 TTGAGTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATAAAATATTATTTTAA
Found at i:325278 original size:19 final size:19
Alignment explanation
Indices: 325237--325324 Score: 131
Period size: 19 Copynumber: 4.6 Consensus size: 19
325227 AGGAGCCGTT
* * * *
325237 TGAGCCAAGCCGCTTAAGT
1 TGAGCCGAGCCGTTTGAGC
325256 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
325275 TGAGCTGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
325294 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
325313 TGAGCCGAGCCG
1 TGAGCCGAGCCG
325325 AGCCGCCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.18, C:0.26, G:0.35, T:0.20
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:327917 original size:24 final size:24
Alignment explanation
Indices: 327823--327917 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
327813 TTATCTTATT
* *
327823 TCTGATTTGAATTCTGTTTTGACA
1 TCTGATCTGAATTCTGTTTTGATA
* *
327847 TCTGATCTGAAATCTGTTCTGAT-
1 TCTGATCTGAATTCTGTTTTGATA
* * *
327870 TCCT-AACTTGGATTCTGTTATGATA
1 T-CTGATC-TGAATTCTGTTTTGATA
*
327895 TCTGATCTGAATTATGTTTTGAT
1 TCTGATCTGAATTCTGTTTTGAT
327918 TTTTGATATC
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
23 3 0.05
24 49 0.89
25 3 0.05
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (24 bp):
TCTGATCTGAATTCTGTTTTGATA
Found at i:329955 original size:14 final size:14
Alignment explanation
Indices: 329936--330000 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 14
329926 GAAGCCTGAG
329936 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
329950 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
*
329964 AAGCCGCTTAAGCTGAGCC
1 GAGCCG-TT----TGAGCC
*
329983 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
329997 GAGC
1 GAGC
330001 TGAGCCGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 28 0.65
15 2 0.05
18 2 0.05
19 11 0.26
ACGTcount: A:0.18, C:0.28, G:0.34, T:0.20
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:329980 original size:19 final size:19
Alignment explanation
Indices: 329958--330045 Score: 140
Period size: 19 Copynumber: 4.6 Consensus size: 19
329948 CCGAGCCGTT
* * *
329958 TGAGCCAAGCCGCTTAAGC
1 TGAGCCGAGCCGTTTGAGC
329977 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
329996 TGAGCTGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
330015 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
330034 TGAGCCGAGCCG
1 TGAGCCGAGCCG
330046 AGCCGCCTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.19
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:330063 original size:38 final size:37
Alignment explanation
Indices: 329944--330045 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 37
329934 AGGAGCCGTT
** *
329944 TGAGCCGAGCCGTTTGAGCCAAGCC--G-CTTA-AGC
1 TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCGTAGAGC
* *
329977 TGAGCCGAGCCGTTTGAGCTGAGCTGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCG-TAGAGC
330015 TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCG
1 TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCG
330046 AGCCGCCTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.38
35 1 0.02
36 1 0.02
37 1 0.02
38 33 0.57
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (37 bp):
TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCGTAGAGC
Found at i:332560 original size:24 final size:23
Alignment explanation
Indices: 332532--332625 Score: 66
Period size: 24 Copynumber: 4.0 Consensus size: 23
332522 TTATCTGATT
*
332532 TCTGATTTGAATTCTGTTTTGACA
1 TCTGATCTGAATTCTGTTTTGA-A
* * *
332556 TCTGATCTGAAATCTGTTCTGAT
1 TCTGATCTGAATTCTGTTTTGAA
* *
332579 TCCT-AACTTGGATTCTGTTATT-ATA
1 T-CTGATC-TGAATTCTGTT-TTGA-A
*
332604 TCTGATCTGAATTATGTTTTGA
1 TCTGATCTGAATTCTGTTTTGA
332626 TTTTTGATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
23 5 0.10
24 43 0.83
25 4 0.08
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (23 bp):
TCTGATCTGAATTCTGTTTTGAA
Found at i:334735 original size:14 final size:14
Alignment explanation
Indices: 334716--334780 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 14
334706 GAAGCCTGAG
334716 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
334730 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
*
334744 AAGCCGCTTAAGCTGAGCC
1 GAGCCG-TT----TGAGCC
*
334763 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
334777 GAGC
1 GAGC
334781 TGAGCCGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 28 0.65
15 2 0.05
18 2 0.05
19 11 0.26
ACGTcount: A:0.18, C:0.28, G:0.34, T:0.20
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:334760 original size:19 final size:19
Alignment explanation
Indices: 334738--334825 Score: 140
Period size: 19 Copynumber: 4.6 Consensus size: 19
334728 CCGAGCCGTT
* * *
334738 TGAGCCAAGCCGCTTAAGC
1 TGAGCCGAGCCGTTTGAGC
334757 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
334776 TGAGCTGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
334795 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
334814 TGAGCCGAGCCG
1 TGAGCCGAGCCG
334826 AGCCGCCTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.19
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:334843 original size:38 final size:37
Alignment explanation
Indices: 334724--334825 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 37
334714 AGGAGCCGTT
** *
334724 TGAGCCGAGCCGTTTGAGCCAAGCC--G-CTTA-AGC
1 TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCGTAGAGC
* *
334757 TGAGCCGAGCCGTTTGAGCTGAGCTGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCG-TAGAGC
334795 TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCG
1 TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCG
334826 AGCCGCCTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.38
35 1 0.02
36 1 0.02
37 1 0.02
38 33 0.57
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (37 bp):
TGAGCCGAGCCGTTTGAGCTGAGCCGAGCCGTAGAGC
Found at i:342764 original size:101 final size:101
Alignment explanation
Indices: 342589--342779 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 101
342579 GCACACACAA
* * * **
342589 TGCTATCATATCAGAATCATAATATGGACACAAAGTGCAATCACATATGAAATATACTAGTGTGC
1 TGCTATCACATCAGAATCATAATATGCACACAAAGTGCAATCACATAGGAAATATACTAGTGCAC
* *
342654 CTACCGGTAACACCATAGTATATCATAAGCACATAG
66 CCACCGGTAACACCACAGTATATCATAAGCACATAG
* * * *
342690 TGCTATCACATCGGAATCATAATATGCACACAAAGTGCAATCATATCGGAAATATACTATTGCAC
1 TGCTATCACATCAGAATCATAATATGCACACAAAGTGCAATCACATAGGAAATATACTAGTGCAC
* *
342755 CCATCGGTAACACCACCGTATATCA
66 CCACCGGTAACACCACAGTATATCA
342780 ATCACTCCAC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (101 bp):
TGCTATCACATCAGAATCATAATATGCACACAAAGTGCAATCACATAGGAAATATACTAGTGCAC
CCACCGGTAACACCACAGTATATCATAAGCACATAG
Found at i:345131 original size:46 final size:46
Alignment explanation
Indices: 345078--345396 Score: 449
Period size: 46 Copynumber: 6.9 Consensus size: 46
345068 GAATGAATAG
* * *
345078 ATGAAAATGCATAATGGTGTATTATCGGCATGAAATGATGCCATAA
1 ATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAA
*
345124 ATGAAAATGCATAACAGTGCATTATCGGCATGAAAGGATGCCATAA
1 ATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAA
** * *
345170 ATGAAAATGCATAAAAGTGCATTATTGGCATGAAAGAATGCCATAA
1 ATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAA
* * *
345216 ATGAAAATGCATAACGGTGTATTATTGGCATAAAAGGATGCCATAA
1 ATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAA
*
345262 ATGAAAATGCATAACGGTGCATTATCGGTATGAAAGGATGCCATAA
1 ATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAA
** * * *
345308 ATGAAAATGCATAACGGTAAATTATCGACATAAAACGATGCCATAA
1 ATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAA
* * * *
345354 ATGAAAATGTATAACGGTGCATAATCGGTATGAAAAGATGCCA
1 ATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCA
345397 CAATATATTA
Statistics
Matches: 243, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 243 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (46 bp):
ATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAA
Found at i:345655 original size:32 final size:32
Alignment explanation
Indices: 345619--345683 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
345609 TATTTGATCC
345619 TTATGGAGTATGCAATGTAATTCGTCATTAAA
1 TTATGGAGTATGCAATGTAATTCGTCATTAAA
345651 TTATGGAGTATGCAATGTAATTCGTCATTAAA
1 TTATGGAGTATGCAATGTAATTCGTCATTAAA
345683 T
1 T
345684 AGCCCTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (32 bp):
TTATGGAGTATGCAATGTAATTCGTCATTAAA
Found at i:351318 original size:46 final size:46
Alignment explanation
Indices: 351246--351493 Score: 374
Period size: 46 Copynumber: 5.4 Consensus size: 46
351236 AAATGAATGA
* * *
351246 ATAAATGAAAATTCATAATGGTGCATTATCGGTATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
351292 ATAATTGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
351338 ACAAATGAAAATGCATAATGGTGCATTAT-GGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
351383 ATAAATGAAGAATGCATAACGGTGCATGATCGGCATGAAAGGATGCC
1 ATAAATGAA-AATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * *
351430 ATAAATGAAAATGCATAATGATGCATAATCGACATGAAA-GATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
351475 ATAAATGAAAATGCATAAC
1 ATAAATGAAAATGCATAAC
351494 AGTATATTAA
Statistics
Matches: 185, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
45 48 0.26
46 112 0.61
47 25 0.14
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:353159 original size:70 final size:70
Alignment explanation
Indices: 353067--353204 Score: 231
Period size: 70 Copynumber: 2.0 Consensus size: 70
353057 ATTATTTTAA
* * *
353067 ATATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAACAGTTTTAAGTGTTTTAATTAGGAT
1 ATATTATATCTTATCTTTGTTTTAGGTATTTTAGTTTAAACAGTTTTAAATATTTTAATTAGGAT
353132 TTAGG
66 TTAGG
* *
353137 ATATTTTATCTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAATATTTTAATTAGGAT
1 ATATTATATCTTATCTTTGTTTTAGGTATTTTAGTTTAAACAGTTTTAAATATTTTAATTAGGAT
353202 TTA
66 TTA
353205 TTTCTTTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (70 bp):
ATATTATATCTTATCTTTGTTTTAGGTATTTTAGTTTAAACAGTTTTAAATATTTTAATTAGGAT
TTAGG
Found at i:353231 original size:70 final size:68
Alignment explanation
Indices: 353086--353231 Score: 159
Period size: 70 Copynumber: 2.1 Consensus size: 68
353076 TTTATCTTTG
* * *
353086 TTTTAGGTATTTTAGTTTAAACAGTTTTAAGTGTTTTAATTAGGATTTAGGATATTTTATCTTAT
1 TTTTAGGTATTTTAGTTTAAACAGTTTTAAATATTTTAATTAGGATTT--GATATTTTATCTTAG
** *
353151 CTTTG
64 AATTA
* * *
353156 TTTTAGGTATTTTAGTTTAAATAGTTTTAAATATTTTAATTAGGATTT-ATTTCTTTATTTTAGG
1 TTTTAGGTATTTTAGTTTAAACAGTTTTAAATATTTTAATTAGGATTTGATAT-TTTATCTTA-G
353220 AATTA
64 AATTA
353225 TCTTTAG
1 T-TTTAG
353232 CTTGTTTTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
67 3 0.05
68 8 0.12
69 3 0.05
70 50 0.78
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.55
Consensus pattern (68 bp):
TTTTAGGTATTTTAGTTTAAACAGTTTTAAATATTTTAATTAGGATTTGATATTTTATCTTAGAA
TTA
Found at i:353997 original size:17 final size:17
Alignment explanation
Indices: 353972--354005 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
353962 TTTTATCTCA
*
353972 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
353989 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
354006 TTATCTCATT
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:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:360176 original size:21 final size:21
Alignment explanation
Indices: 360084--360183 Score: 96
Period size: 21 Copynumber: 4.7 Consensus size: 21
360074 TCGAAATGGA
* *
360084 GTGCATGGATGCACTACA-TG
1 GTGCATGGATGCACTGCAGGG
* *
360104 GTGCATCGATGCACTAG-TGGCAG
1 GTGCATGGATGCACT-GCAGG--G
* *
360127 GTGCATGAATGCGCTGCAGGG
1 GTGCATGGATGCACTGCAGGG
360148 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
*
360169 GTGCATGGATTCACT
1 GTGCATGGATGCACT
360184 TTGACACCCT
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.22
21 34 0.53
22 1 0.02
23 15 0.23
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.23
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:360848 original size:46 final size:46
Alignment explanation
Indices: 360765--360863 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 46
360755 CTTGTTCCAC
360765 AAAAAATGTTCACTGTTTCGAACAACAACAACAAAAAAGAAAAAGA
1 AAAAAATGTTCACTGTTTCGAACAACAACAACAAAAAAGAAAAAGA
* * * *
360811 AAAAAATTGTTCACTGTTTCGAACAGC-AGAAGAAAAAAGAAGAAGA
1 AAAAAA-TGTTCACTGTTTCGAACAACAACAACAAAAAAGAAAAAGA
360857 AGAAAAA
1 A-AAAAA
360864 GACACTTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
46 23 0.49
47 24 0.51
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (46 bp):
AAAAAATGTTCACTGTTTCGAACAACAACAACAAAAAAGAAAAAGA
Found at i:361822 original size:70 final size:69
Alignment explanation
Indices: 361731--361867 Score: 202
Period size: 70 Copynumber: 2.0 Consensus size: 69
361721 ATTATTTTAA
* * * * *
361731 ATATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAATTTTAAGTGTTTTAATTAGGAT
1 ATATTATATCTTATCTTTGTTTAAGATATTTTAGTTTAAAT-ACTTTAAGTATTTTAATTAGGAT
361796 TTAGG
65 TTAGG
* *
361801 ATATTTTATCTTATCTTTGTTTAAGATATTTTAGTTTAAATACTTTAAGTATTTTAATTATGATT
1 ATATTATATCTTATCTTTGTTTAAGATATTTTAGTTTAAATACTTTAAGTATTTTAATTAGGATT
361866 TA
66 TA
361868 TTTCTTTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
69 23 0.38
70 37 0.62
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (69 bp):
ATATTATATCTTATCTTTGTTTAAGATATTTTAGTTTAAATACTTTAAGTATTTTAATTAGGATT
TAGG
Found at i:362649 original size:7 final size:8
Alignment explanation
Indices: 362636--362678 Score: 52
Period size: 9 Copynumber: 5.1 Consensus size: 8
362626 TTTTATCTCA
362636 ATTTATTT
1 ATTTATTT
362644 -TTTATTT
1 ATTTATTT
362651 ATTTAATTT
1 ATTT-ATTT
362660 ATTTCATTAT
1 ATTT-ATT-T
362670 ATTTATTT
1 ATTTATTT
362678 A
1 A
362679 AACAATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
7 7 0.23
8 5 0.16
9 14 0.45
10 5 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTATTT
Found at i:362651 original size:4 final size:4
Alignment explanation
Indices: 362636--362678 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
362626 TTTTATCTCA
362636 ATTT ATTT -TTT ATTT ATTT AATTT ATTT CATTAT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT -ATTT ATTT -ATT-T ATTT ATTT A
362679 AACAATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.09
4 21 0.60
5 10 0.29
6 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:362676 original size:23 final size:20
Alignment explanation
Indices: 362635--362679 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 20
362625 TTTTTATCTC
362635 AATTTATTTTTTATTTATTT
1 AATTTATTTTTTATTTATTT
362655 AATTTATTTCATTATATTTATTT
1 AATTTATTT--TT-TATTTATTT
362678 AA
1 AA
362680 ACAATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
AATTTATTTTTTATTTATTT
Found at i:366425 original size:15 final size:15
Alignment explanation
Indices: 366405--366434 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
366395 TAAGTGCAAG
366405 GCAATATCTATTCAT
1 GCAATATCTATTCAT
366420 GCAATATCTATTCAT
1 GCAATATCTATTCAT
366435 AGATTACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (15 bp):
GCAATATCTATTCAT
Found at i:369011 original size:85 final size:85
Alignment explanation
Indices: 368850--369013 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
368840 ATATTTTAAA
368850 TATTATATTTTATCTTTGTTATAGATATTTTAGTTTAAATAGATGTTAGTATATCAATTAGGATT
1 TATTATATTTTATCTTTGTTATAGATATTTTAGTTTAAATAGATGTTAGTATATCAATTAGGATT
*
368915 TAGGATATTATTTTAAATAG
66 TAAGATATTATTTTAAATAG
* * * * * *
368935 TATTTTATTTTATCTTTGTTTTA-AGTATTTTAGTTTAAATAG-TTTTAAGTATTTTAGTTAGGA
1 TATTATATTTTATCTTTGTTATAGA-TATTTTAGTTTAAATAGATGTT-AGTATATCAATTAGGA
* *
368998 TTTAATATGTTATTTT
64 TTTAAGATATTATTTT
369014 GGAATAATCT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 4 0.06
85 64 0.94
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.55
Consensus pattern (85 bp):
TATTATATTTTATCTTTGTTATAGATATTTTAGTTTAAATAGATGTTAGTATATCAATTAGGATT
TAAGATATTATTTTAAATAG
Found at i:375299 original size:5 final size:5
Alignment explanation
Indices: 375285--375392 Score: 74
Period size: 5 Copynumber: 20.8 Consensus size: 5
375275 ACCCATTTCG
* *
375285 TTTTA TTTTTA TTTTA TTTCA TTTTTT TTTTCA TTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA -TTTTA TTTT-A TTTTA TTTTA TTTTA
**** * * * *
375333 TTTTTA GAAAA CTTTA TTTTCA TTCTA -TTTA TTTTA TTTTA ATTAA TTTTA
1 -TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
375384 TTTTA TTTT
1 TTTTA TTTT
375393 CTCTGAACAT
Statistics
Matches: 78, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
4 3 0.04
5 54 0.69
6 21 0.27
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:375308 original size:10 final size:10
Alignment explanation
Indices: 375279--375335 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
375269 GAGGCAACCC
*
375279 ATTTCGTTTT
1 ATTTCATTTT
*
375289 ATTTTTATTTT
1 A-TTTCATTTT
375300 ATTTCATTTTTT
1 ATTTCA--TTTT
*
375312 TTTTCATTTT
1 ATTTCATTTT
*
375322 ATTTTATTTT
1 ATTTCATTTT
375332 ATTT
1 ATTT
375336 TTAGAAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 21 0.55
11 8 0.21
12 9 0.24
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (10 bp):
ATTTCATTTT
Found at i:375315 original size:22 final size:22
Alignment explanation
Indices: 375279--375337 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
375269 GAGGCAACCC
* *
375279 ATTTCGTTTTATTTTT-ATTTT
1 ATTTCATTTTTTTTTTCATTTT
375300 ATTTCATTTTTTTTTTCATTTT
1 ATTTCATTTTTTTTTTCATTTT
* *
375322 ATTTTATTTTATTTTT
1 ATTTCATTTTTTTTTT
375338 AGAAAACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
21 14 0.42
22 19 0.58
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (22 bp):
ATTTCATTTTTTTTTTCATTTT
Found at i:379341 original size:84 final size:81
Alignment explanation
Indices: 379202--379383 Score: 231
Period size: 84 Copynumber: 2.2 Consensus size: 81
379192 AAACTCAAGT
* *
379202 TTTAGGATAATATTTTAAACATTATATTTTATCTTTGTTTTAGATATTTTAGTTTAAATAGATGT
1 TTTAGGATATTATTTTAAACAGTATATTTTATCTTTGTTTTAGATATTTTAGTTTAAATAG-T-T
*
379267 TA-GTGTTTCAATTAGGA
64 TAGGTATTTCAATTAGGA
* * *
379284 TTTAGGATATTATTTTAAATAGTATTTTATTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTT
1 TTTAGGATATTATTTTAAACAGTA-TAT-TTTATCTTTGTTTTAGATATTTTAGTTTAAATAGTT
*
379349 TAGGTATTTTAATTAGGA
64 TAGGTATTTCAATTAGGA
* * *
379367 ATTAAGATGTTATTTTA
1 TTTAGGATATTATTTTA
379384 GGAATTATCT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
82 24 0.28
83 30 0.34
84 33 0.38
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (81 bp):
TTTAGGATATTATTTTAAACAGTATATTTTATCTTTGTTTTAGATATTTTAGTTTAAATAGTTTA
GGTATTTCAATTAGGA
Found at i:380829 original size:29 final size:30
Alignment explanation
Indices: 380781--380851 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
380771 AAAATTTGTA
* *
380781 TAGTGACCAAAATGTTAAATTT-GAAAGTT
1 TAGTGACCAAAATATAAAATTTGGAAAGTT
*
380810 TAGTGACTAAAATATAAAATTTGGAAAGTT
1 TAGTGACCAAAATATAAAATTTGGAAAGTT
*
380840 TAGGGACCAAAA
1 TAGTGACCAAAA
380852 ATATTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 19 0.53
30 17 0.47
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (30 bp):
TAGTGACCAAAATATAAAATTTGGAAAGTT
Found at i:387510 original size:22 final size:24
Alignment explanation
Indices: 387424--387524 Score: 120
Period size: 22 Copynumber: 4.4 Consensus size: 24
387414 ACAATTATGA
387424 GAATTATCTTTTGCAATTTATTAG
1 GAATTATCTTTTGCAATTTATTAG
**
387448 GAATTATCTTTTGTGA-TT-TTAG
1 GAATTATCTTTTGCAATTTATTAG
* **
387470 GAATAATCTTTTGTGA-TT-TTAG
1 GAATTATCTTTTGCAATTTATTAG
*
387492 GAATTATCTTTTACAATTTATTAG
1 GAATTATCTTTTGCAATTTATTAG
387516 GAATTATCT
1 GAATTATCT
387525 CTTAGTATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
22 37 0.54
23 4 0.06
24 27 0.40
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (24 bp):
GAATTATCTTTTGCAATTTATTAG
Found at i:387534 original size:24 final size:23
Alignment explanation
Indices: 387424--387539 Score: 96
Period size: 22 Copynumber: 5.0 Consensus size: 23
387414 ACAATTATGA
* **
387424 GAATTATCTTTTGCAATTTATTAG
1 GAATTATCTTTAGTGATTT-TTAG
*
387448 GAATTATCTTTTGTGA-TTTTAG
1 GAATTATCTTTAGTGATTTTTAG
* *
387470 GAATAATCTTTTGTGA-TTTTAG
1 GAATTATCTTTAGTGATTTTTAG
**
387492 GAATTATCTTTTA-CAATTTATTAG
1 GAATTATC-TTTAGTGATTT-TTAG
387516 GAATTATCTCTTAGT-ATTTTTAG
1 GAATTATCT-TTAGTGATTTTTAG
387539 G
1 G
387540 GTTTTCTAGG
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
22 33 0.42
23 13 0.16
24 33 0.42
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.51
Consensus pattern (23 bp):
GAATTATCTTTAGTGATTTTTAG
Found at i:406561 original size:46 final size:47
Alignment explanation
Indices: 406505--406628 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 47
406495 AATACACCCG
* * * * *
406505 TTCATACATTTTAATCATGGCATCCTTACATGGCC-TAATGTATCCT
1 TTCATGCATTTTAATTATGGCATCCTTTCATGGCCTTAATGCATCAT
* *
406551 TTCATGCATTTTAGTTATGGCATCCTTTCAT-GCCTTAATGCATTAT
1 TTCATGCATTTTAATTATGGCATCCTTTCATGGCCTTAATGCATCAT
* *
406597 TTCGTGCATTTTAATTTTGGCATCCTTTCATG
1 TTCATGCATTTTAATTATGGCATCCTTTCATG
406629 AATTATGGCA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
45 3 0.05
46 63 0.95
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (47 bp):
TTCATGCATTTTAATTATGGCATCCTTTCATGGCCTTAATGCATCAT
Found at i:406637 original size:20 final size:20
Alignment explanation
Indices: 406609--406714 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
406599 CGTGCATTTT
*
406609 AATTTTGGCATCCTTTCATG
1 AATTATGGCATCCTTTCATG
406629 AATTATGGCATCCTTTCATG
1 AATTATGGCATCCTTTCATG
** *
406649 GCTTAAT-GCATCCGTTCATG
1 AATT-ATGGCATCCTTTCATG
406669 CATTTTAGTTATGGCATCCTTTCATG
1 -A----A-TTATGGCATCCTTTCATG
**
406695 CCTTAAT-GCATCCTTTCATG
1 AATT-ATGGCATCCTTTCATG
406715 CATTTTAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
20 48 0.71
21 4 0.06
25 2 0.03
26 14 0.21
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (20 bp):
AATTATGGCATCCTTTCATG
Found at i:406640 original size:112 final size:112
Alignment explanation
Indices: 406521--406740 Score: 368
Period size: 112 Copynumber: 2.0 Consensus size: 112
406511 CATTTTAATC
* *
406521 ATGGCATCCTTACATGGCCTAATGTATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCT
1 ATGGCATCCTTACATGGCCTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCT
* * *
406586 TAATGCATTATTTCGTGCATTTTAATTTTGGCATCCTTTCATGAATT
66 TAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGAATT
* *
406633 ATGGCATCCTTTCATGGCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCT
1 ATGGCATCCTTACATGGCCTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCT
*
406698 TAATGCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATG
66 TAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTCATG
406741 CCTTAATGTA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 100 1.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.43
Consensus pattern (112 bp):
ATGGCATCCTTACATGGCCTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCT
TAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGAATT
Found at i:406647 original size:66 final size:66
Alignment explanation
Indices: 406565--406832 Score: 215
Period size: 66 Copynumber: 4.0 Consensus size: 66
406555 TGCATTTTAG
* * * *
406565 TTATGGCATCCTTTCATGCCTTAATGCATTATTTCGTGCATTTTAATTTTGGCATCCTTTCATGA
1 TTATGGCATCCTTTCATGCCTTAATGCATCAGTTCATGCATTTTAATTATGGCATCCTTTCATGA
406630 A
66 A
* * * *
406631 TTATGGCATCCTTTCATGGCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGC
1 TTATGGCATCCTTTCATGCCTTAATGCATCAGTTCATGCATTTTAATTATGGCATCCTTTCATGA
*
406696 C
66 A
* ** * *
406697 TTAAT-GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGC--CTTAATGTATTCGTTCA
1 TT-ATGGCATCCTTTCATGC--CTT-A--AT-GCATCAGTTCATGCATTTTAAT-TA-T-G-GCA
* *
406759 TGCATTT--T-AG
55 T-CCTTTCATGAA
* * *
406769 TTATGGCATCCTTTCAAGCCTTAATGCATCATTTTATGCATTTTAATTATGGCATCCTTTCATG
1 TTATGGCATCCTTTCATGCCTTAATGCATCAGTTCATGCATTTTAATTATGGCATCCTTTCATG
406833 CATTTTAATT
Statistics
Matches: 159, Mismatches: 25, Indels: 36
0.72 0.11 0.16
Matches are distributed among these distances:
63 4 0.03
64 3 0.02
65 2 0.01
66 85 0.53
67 6 0.04
68 7 0.04
69 2 0.01
70 6 0.04
71 6 0.04
72 29 0.18
73 2 0.01
74 3 0.02
75 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (66 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCAGTTCATGCATTTTAATTATGGCATCCTTTCATGA
A
Found at i:406684 original size:46 final size:46
Alignment explanation
Indices: 406629--406833 Score: 320
Period size: 46 Copynumber: 4.5 Consensus size: 46
406619 TCCTTTCATG
*
406629 AATTATGGCATCCTTTCATGGCTTAATGCATCCGTTCATGCATTTT
1 AATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
* *
406675 AGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 AATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
* *
406721 AATTATGGCATCCTTTCATGCCTTAATGTATTCGTTCATGCATTTT
1 AATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
* * ** *
406767 AGTTATGGCATCCTTTCAAGCCTTAATGCATCATTTTATGCATTTT
1 AATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
406813 AATTATGGCATCCTTTCATGC
1 AATTATGGCATCCTTTCATGC
406834 ATTTTAATTA
Statistics
Matches: 143, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 143 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (46 bp):
AATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
Found at i:406735 original size:92 final size:92
Alignment explanation
Indices: 406629--406833 Score: 356
Period size: 92 Copynumber: 2.2 Consensus size: 92
406619 TCCTTTCATG
* *
406629 AATTATGGCATCCTTTCATGGCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCAT
1 AATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCAA
*
406694 GCCTTAATGCATCCTTTCATGCATTTT
66 GCCTTAATGCATCATTTCATGCATTTT
* *
406721 AATTATGGCATCCTTTCATGCCTTAATGTATTCGTTCATGCATTTTAGTTATGGCATCCTTTCAA
1 AATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCAA
*
406786 GCCTTAATGCATCATTTTATGCATTTT
66 GCCTTAATGCATCATTTCATGCATTTT
406813 AATTATGGCATCCTTTCATGC
1 AATTATGGCATCCTTTCATGC
406834 ATTTTAATTA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 107 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (92 bp):
AATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCAA
GCCTTAATGCATCATTTCATGCATTTT
Found at i:406776 original size:158 final size:158
Alignment explanation
Indices: 406484--406784 Score: 442
Period size: 158 Copynumber: 1.9 Consensus size: 158
406474 TAGGTTCTCT
* *
406484 TTTCATGTATTAATACACCCGTTCATACATTTTAATCATGGCATCCTTACATGGCCTAATGTATC
1 TTTCATGGATTAATACACCCGTTCATACATTTTAATCATGGCATCCTTACATGGCCTAATGCATC
* * * *
406549 CTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTATTTCGTGCATTTTAATTT
66 CTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATTAGTTCATGCATTTTAATTA
406614 TGGCATCCTTTCATGAATTATGGCATCC
131 TGGCATCCTTTCATGAATTATGGCATCC
* * * * * * *
406642 TTTCATGGCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCAT-GCCTTAATGCAT
1 TTTCATGGATTAATACACCCGTTCATACATTTTAATCATGGCATCCTTACATGGCC-TAATGCAT
* * *
406706 CCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGTATTCGTTCATGCATTTTAGTT
65 CCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATTAGTTCATGCATTTTAATT
406771 ATGGCATCCTTTCA
130 ATGGCATCCTTTCA
406785 AGCCTTAATG
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
157 3 0.02
158 123 0.98
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (158 bp):
TTTCATGGATTAATACACCCGTTCATACATTTTAATCATGGCATCCTTACATGGCCTAATGCATC
CTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATTAGTTCATGCATTTTAATTA
TGGCATCCTTTCATGAATTATGGCATCC
Found at i:409853 original size:16 final size:16
Alignment explanation
Indices: 409832--409867 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
409822 AAGATTTACT
409832 GACATTTCTCCATCCA
1 GACATTTCTCCATCCA
409848 GACATTTCTCCATCCA
1 GACATTTCTCCATCCA
409864 GACA
1 GACA
409868 AATGGCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (16 bp):
GACATTTCTCCATCCA
Found at i:413132 original size:46 final size:47
Alignment explanation
Indices: 413081--413454 Score: 386
Period size: 46 Copynumber: 8.1 Consensus size: 47
413071 TTATTTATTA
* * ** * *
413081 ATTTTAGTTAGGGTC-TCTTTTCATGTATTAATACATCCGTTCATAC
1 ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * * **
413127 ATTTTAATCAT-GACATCCTTTCATGCCCTAATGCATCATTTCATGC
1 ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* ** **
413173 ATTTTAGTTATGGT-ATCATTTCATGTGTTAATGCATCTTTTCATGC
1 ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * * * *
413219 ATTTCAATTATTG-CATCCTTTCATGCCTTAATACATTCGTTCATGT
1 ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
*
413265 ATTTTAGTTAT-GTCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
413311 ATTTTAATTATGG-AATCTTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* **
413357 ATTTTAGTTAT-GACATCCTTTCATGCCTTAATGCATCATTTCATGC
1 ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * **
413403 ATTTTAATTATGGT-ATCCTTTCATACCTTAATGCATCATTTCATGC
1 ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
413449 ATTTTA
1 ATTTTA
413455 ATTACGAATT
Statistics
Matches: 272, Mismatches: 49, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
45 4 0.01
46 265 0.97
47 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (47 bp):
ATTTTAGTTATGGTCATCCTTTCATGCCTTAATGCATCCGTTCATGC
Found at i:413238 original size:92 final size:92
Alignment explanation
Indices: 413081--413454 Score: 455
Period size: 92 Copynumber: 4.1 Consensus size: 92
413071 TTATTTATTA
* * * ** * * * * *
413081 ATTTTAGTTAGGGTCTCTTTTCATGTATTAATACATCCGTTCATACATTTTAATCATGACATCCT
1 ATTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCCT
* *
413146 TTCATGCCCTAATGCATCATTTCATGC
66 TTCATGCCTTAATGCATCAGTTCATGC
* ** * * *
413173 ATTTTAGTTATGGTATCATTTCATGTGTTAATGCATCTTTTCATGCATTTCAATTATTGCATCCT
1 ATTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCCT
* *
413238 TTCATGCCTTAATACATTC-GTTCATGT
66 TTCATGCCTTAATGCA-TCAGTTCATGC
* *
413265 ATTTTAGTTAT-GTCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGAATCT
1 ATTTTAGTTATGGT-ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCC
*
413329 TTTCATGCCTTAATGCATCCGTTCATGC
65 TTTCATGCCTTAATGCATCAGTTCATGC
** * *
413357 ATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGTATCCT
1 ATTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCCT
* *
413422 TTCATACCTTAATGCATCATTTCATGC
66 TTCATGCCTTAATGCATCAGTTCATGC
413449 ATTTTA
1 ATTTTA
413455 ATTACGAATT
Statistics
Matches: 244, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
91 4 0.02
92 238 0.98
93 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (92 bp):
ATTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCCT
TTCATGCCTTAATGCATCAGTTCATGC
Found at i:413303 original size:20 final size:20
Alignment explanation
Indices: 413278--413448 Score: 90
Period size: 20 Copynumber: 7.7 Consensus size: 20
413268 TTAGTTATGT
413278 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
413298 CATCCTTTCATGCATTTTAATTATGG
1 CATCCTTTCATGC--CTT-A--AT-G
* *
413324 AATCTTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
* *
413344 CATCCGTTCATGCATTTTAGTTATG
1 CATCCTTTCATGC--CTTA---ATG
413369 ACATCCTTTCATGCCTTAATG
1 -CATCCTTTCATGCCTTAATG
* *
413390 CATCATTTCATGCATTTTAATTATGG
1 CATCCTTTCATGC--CTT-A--AT-G
* *
413416 TATCCTTTCATACCTTAATG
1 CATCCTTTCATGCCTTAATG
*
413436 CATCATTTCATGC
1 CATCCTTTCATGC
413449 ATTTTAATTA
Statistics
Matches: 114, Mismatches: 19, Indels: 36
0.67 0.11 0.21
Matches are distributed among these distances:
20 47 0.41
21 7 0.06
22 7 0.06
23 4 0.04
24 7 0.06
25 7 0.06
26 35 0.31
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:413347 original size:138 final size:138
Alignment explanation
Indices: 413099--413458 Score: 474
Period size: 138 Copynumber: 2.6 Consensus size: 138
413089 TAGGGTCTCT
** * * * * *
413099 TTTCATGTATTAATACATCCGTTCATACATTTTAATCATGACATCCTTTCATGCCCTAATGCATC
1 TTTCATGCCTTAATACATTCGTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAATGCATC
* * ** **
413164 ATTTCATGCATTTTAGTTATGGTATCATTTCATGTGTTAATGCATCTTTTCATGCATTTCAATTA
66 ATTTCATGCATTTTAATTATGGAATCATTTCATGCCTTAATGCATCCGTTCATGCATTTCAATTA
413229 TTG-CATCC
131 -TGACATCC
* *
413237 TTTCATGCCTTAATACATTCGTTCATGTATTTTAGTTATGTCATCCTTTCATGCCTTAATGCATC
1 TTTCATGCCTTAATACATTCGTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAATGCATC
* * * *
413302 CTTTCATGCATTTTAATTATGGAATCTTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
66 ATTTCATGCATTTTAATTATGGAATCATTTCATGCCTTAATGCATCCGTTCATGCATTTCAATTA
413367 TGACATCC
131 TGACATCC
* * *
413375 TTTCATGCCTTAATGCA-TCATTTCATGCATTTTAATTATGGT-ATCCTTTCATACCTTAATGCA
1 TTTCATGCCTTAATACATTC-GTTCATGCATTTTAATTAT-GTCATCCTTTCATGCCTTAATGCA
413438 TCATTTCATGCATTTTAATTA
64 TCATTTCATGCATTTTAATTA
413459 CGAATTCGGT
Statistics
Matches: 194, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
137 4 0.02
138 188 0.97
139 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.45
Consensus pattern (138 bp):
TTTCATGCCTTAATACATTCGTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAATGCATC
ATTTCATGCATTTTAATTATGGAATCATTTCATGCCTTAATGCATCCGTTCATGCATTTCAATTA
TGACATCC
Found at i:413380 original size:26 final size:24
Alignment explanation
Indices: 413157--413454 Score: 122
Period size: 26 Copynumber: 12.9 Consensus size: 24
413147 TCATGCCCTA
*
413157 ATGCATCATTTCATGCATTTTAGTT
1 ATGCATCCTTTCATGCATTTTA-TT
* * *
413182 ATGGTATCATTTCATG--TGTTA--
1 AT-GCATCCTTTCATGCATTTTATT
* *
413203 ATGCATCTTTTCATGCATTTCAATT
1 ATGCATCCTTTCATGCATTT-TATT
*
413228 ATTGCATCCTTTCATGC--CTTA--
1 A-TGCATCCTTTCATGCATTTTATT
* * * *
413249 ATACATTCGTTCATGTATTTTAGTT
1 ATGCATCCTTTCATGCATTTTA-TT
*
413274 ATGTCATCCTTTCATGC--CTTA--
1 ATG-CATCCTTTCATGCATTTTATT
413295 ATGCATCCTTTCATGCATTTTAATT
1 ATGCATCCTTTCATGCATTTT-ATT
* * *
413320 ATGGAATCTTTTCATGC--CTTA--
1 AT-GCATCCTTTCATGCATTTTATT
*
413341 ATGCATCCGTTCATGCATTTTAGTT
1 ATGCATCCTTTCATGCATTTTA-TT
*
413366 ATGACATCCTTTCATGC--CTTA--
1 ATG-CATCCTTTCATGCATTTTATT
*
413387 ATGCATCATTTCATGCATTTTAATT
1 ATGCATCCTTTCATGCATTTT-ATT
* **
413412 ATGGTATCCTTTCAT--ACCTTA--
1 AT-GCATCCTTTCATGCATTTTATT
*
413433 ATGCATCATTTCATGCATTTTA
1 ATGCATCCTTTCATGCATTTTA
413455 ATTACGAATT
Statistics
Matches: 201, Mismatches: 39, Indels: 69
0.65 0.13 0.22
Matches are distributed among these distances:
20 68 0.34
21 13 0.06
22 16 0.08
23 6 0.03
24 16 0.08
25 12 0.06
26 70 0.35
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (24 bp):
ATGCATCCTTTCATGCATTTTATT
Found at i:413455 original size:46 final size:46
Alignment explanation
Indices: 413120--413458 Score: 428
Period size: 46 Copynumber: 7.4 Consensus size: 46
413110 AATACATCCG
* * * *
413120 TTCATACATTTTAATCATGACATCCTTTCATGCCCTAATGCATCAT
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCAT
* * * ** *
413166 TTCATGCATTTTAGTTATGGTATCATTTCATGTGTTAATGCATCTT
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCAT
* * * *
413212 TTCATGCATTTCAATTATTGCATCCTTTCATGCCTTAATACATTC-G
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCA-TCAT
* * * *
413258 TTCATGTATTTTAGTTATGTCATCCTTTCATGCCTTAATGCATCCT
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCAT
* * **
413304 TTCATGCATTTTAATTATGGAATCTTTTCATGCCTTAATGCATCCG
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCAT
* *
413350 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCAT
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCAT
* *
413396 TTCATGCATTTTAATTATGGTATCCTTTCATACCTTAATGCATCAT
1 TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCAT
413442 TTCATGCATTTTAATTA
1 TTCATGCATTTTAATTA
413459 CGAATTCGGT
Statistics
Matches: 249, Mismatches: 42, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
45 2 0.01
46 245 0.98
47 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.45
Consensus pattern (46 bp):
TTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCAT
Found at i:414054 original size:95 final size:95
Alignment explanation
Indices: 413876--414062 Score: 229
Period size: 95 Copynumber: 2.0 Consensus size: 95
413866 CCAATACTTC
* * * *
413876 TATACTATGGTACCGATACCCCCTTTCAGTATCGATACCATTTATATATTTTGTGTTGCCTGGTA
1 TATACTATGGTACCGATACCCCCTTTCAGTAACGATACCATTTATACATTTTGTGATGCCTAGTA
* *
413941 TCGATACCCTTTTCTTAGTATTGATACTAT
66 TCGATACCCCTTTCTTAGTATCGATACTAT
**
413971 TATACTATGGTACCGATACTGCCTTTCAGTAAC-ATACCATTT-TGACATTTTG-GAT-CCATAG
1 TATACTATGGTACCGATACCCCCTTTCAGTAACGATACCATTTAT-ACATTTTGTGATGCC-TAG
*
414032 TATCGATACTTCCCTTTGTTAGTATCGATAC
64 TATCGATAC--CCCTTTCTTAGTATCGATAC
414063 CTTATCAGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
92 2 0.03
93 14 0.18
94 16 0.20
95 47 0.59
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (95 bp):
TATACTATGGTACCGATACCCCCTTTCAGTAACGATACCATTTATACATTTTGTGATGCCTAGTA
TCGATACCCCTTTCTTAGTATCGATACTAT
Found at i:417132 original size:12 final size:12
Alignment explanation
Indices: 417117--417197 Score: 51
Period size: 12 Copynumber: 6.8 Consensus size: 12
417107 GAAATCAAAA
417117 CAGAATTCAGAT
1 CAGAATTCAGAT
417129 CAG-ATATCAGAAT
1 CAGAAT-TCAG-AT
417142 -AGAA-TCTAGAT
1 CAGAATTC-AGAT
* *
417153 CAGAAATCAGAA
1 CAGAATTCAGAT
* *
417165 CAAAATTCATAT
1 CAGAATTCAGAT
* *
417177 CAGAAATCAGAA
1 CAGAATTCAGAT
*
417189 CATAATTCA
1 CAGAATTCA
417198 AATTGGAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
11 6 0.12
12 41 0.79
13 5 0.10
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.22
Consensus pattern (12 bp):
CAGAATTCAGAT
Found at i:417145 original size:24 final size:24
Alignment explanation
Indices: 417106--417235 Score: 127
Period size: 24 Copynumber: 5.4 Consensus size: 24
417096 CAGAGATATT
*
417106 AGAAATCAAAACAGAATTCAGATC
1 AGAAATCAGAACAGAATTCAGATC
* *
417130 AGATATCAGAATAGAA-TCTAGATC
1 AGAAATCAGAACAGAATTC-AGATC
* *
417154 AGAAATCAGAACAAAATTCATATC
1 AGAAATCAGAACAGAATTCAGATC
* * *
417178 AGAAATCAGAACATAATTCAAATT
1 AGAAATCAGAACAGAATTCAGATC
* * * *
417202 GGAAATCAGAACATAATTCAAATA
1 AGAAATCAGAACAGAATTCAGATC
*
417226 AAAAATCAGA
1 AGAAATCAGA
417236 TAAAATATTC
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 2 0.02
24 86 0.96
25 2 0.02
ACGTcount: A:0.54, C:0.14, G:0.12, T:0.21
Consensus pattern (24 bp):
AGAAATCAGAACAGAATTCAGATC
Found at i:421790 original size:153 final size:155
Alignment explanation
Indices: 421506--421819 Score: 388
Period size: 153 Copynumber: 2.0 Consensus size: 155
421496 AACATATTTT
* *
421506 CATTTATAAAAAATCATAGTAATCCCTTCAACCGAACACAACATAATATATAGGTTCCCCAGAAC
1 CATTTATAAAAAACCATAGTAATCCCTCCAACCGAACACAACATAATATATAGGTTCCCCAGAAC
* * * *
421571 CATACAACCCCTGCACAACAGTAAGGCCCTGAGCACAAACTCGATGAGCCTGCATATATAGTTCC
66 CATACAACCCCTGCACAACAGCAAGACCCTGAGCACAAACTCGAGGAACCTGCATATATAGTTCC
*
421636 TCCAATAAT-A-CCCCCAAATAAAA
131 TCCAACAATAACCCCCCAAATAAAA
* * * *
421659 CATTTATCAAAAACCATAGTAAATTCCC-CCAACCGAACACATCATAATGTGTAGGTTCCCCAGA
1 CATTTATAAAAAACCATAGT-AA-TCCCTCCAACCGAACACAACATAATATATAGGTTCCCCAGA
* * * **
421723 ACCATACACCCCCT-CACAATAGCAAGACCCTGAGCACAAAGC-CGAGGAACCTGTA-AGTATTT
64 ACCATACAACCCCTGCACAACAGCAAGACCCTGAGCACAAA-CTCGAGGAACCTGCATA-TATAG
*
421785 TTCCTCCAACAATAAACCCCCCAATTAAAA
127 TTCCTCCAACAAT-AACCCCCCAAATAAAA
421815 CATTT
1 CATTT
421820 TTCCTTCAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
152 1 0.01
153 66 0.48
154 48 0.35
155 5 0.04
156 17 0.12
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.21
Consensus pattern (155 bp):
CATTTATAAAAAACCATAGTAATCCCTCCAACCGAACACAACATAATATATAGGTTCCCCAGAAC
CATACAACCCCTGCACAACAGCAAGACCCTGAGCACAAACTCGAGGAACCTGCATATATAGTTCC
TCCAACAATAACCCCCCAAATAAAA
Found at i:421869 original size:12 final size:12
Alignment explanation
Indices: 421840--421918 Score: 61
Period size: 12 Copynumber: 6.6 Consensus size: 12
421830 AAACGGAGAT
* *
421840 ATCAGAAATCAA
1 ATCAGAATTCAG
*
421852 AACAGAATTCAG
1 ATCAGAATTCAG
*
421864 ATCAG-ATATAAG
1 ATCAGAAT-TCAG
* * *
421876 AACAAAATCCAG
1 ATCAGAATTCAG
*
421888 ATCAGAAATCAG
1 ATCAGAATTCAG
*
421900 AACAGAATTCAG
1 ATCAGAATTCAG
421912 ATCAGAA
1 ATCAGAA
421919 ATAAGAACAT
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
11 2 0.04
12 45 0.92
13 2 0.04
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.16
Consensus pattern (12 bp):
ATCAGAATTCAG
Found at i:421911 original size:48 final size:48
Alignment explanation
Indices: 421840--421968 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
421830 AAACGGAGAT
* * *
421840 ATCAGAAATCAAAACAGAATTCAGATCAGATATAAGAACAAAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGAAATAAGAACAAAATCCAA
* *
421888 ATCAGAAATCAGAACAGAATTCAGATCAGAAATAAGAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGAAATAAGAACAAAATCCAA
* * *
421936 ATC-GAAAATCAGAACAAAATTCAAATAAGAAAT
1 ATCAG-AAATCAGAACAGAATTCAGATCAGAAAT
421969 CAGATAAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 71 0.99
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGAAATAAGAACAAAATCCAA
Found at i:421971 original size:24 final size:24
Alignment explanation
Indices: 421840--421972 Score: 151
Period size: 24 Copynumber: 5.5 Consensus size: 24
421830 AAACGGAGAT
* *
421840 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAAAATTCAG
* * *
421864 ATCAGATATAAGAACAAAATCCAG
1 ATCAGAAATCAGAACAAAATTCAG
*
421888 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAAAATTCAG
* * *
421912 ATCAGAAATAAGAACATAATTCAA
1 ATCAGAAATCAGAACAAAATTCAG
*
421936 ATC-GAAAATCAGAACAAAATTCAA
1 ATCAG-AAATCAGAACAAAATTCAG
*
421960 ATAAGAAATCAGA
1 ATCAGAAATCAGA
421973 TAAAACATTC
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
23 1 0.01
24 90 0.98
25 1 0.01
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.17
Consensus pattern (24 bp):
ATCAGAAATCAGAACAAAATTCAG
Found at i:424325 original size:10 final size:10
Alignment explanation
Indices: 424309--424348 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
424299 GGTCAAAGTT
424309 CTGGTCAACG
1 CTGGTCAACG
*
424319 GTGGTCAACG
1 CTGGTCAACG
*
424329 CTAGTCAACG
1 CTGGTCAACG
*
424339 CCGGTCAACG
1 CTGGTCAACG
424349 GGTCAACCGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (10 bp):
CTGGTCAACG
Found at i:426643 original size:24 final size:24
Alignment explanation
Indices: 426612--426737 Score: 99
Period size: 24 Copynumber: 5.2 Consensus size: 24
426602 CGGAGATATC
426612 AGAAATCAAAACAGAATTCAGATT
1 AGAAATCAAAACAGAATTCAGATT
* * *
426636 AGATATCATAACAGAATCCAGATT
1 AGAAATCAAAACAGAATTCAGATT
* * * *
426660 AGAAATCAGAACAAAATTTAGATA
1 AGAAATCAAAACAGAATTCAGATT
* * * * *
426684 AAAAATCATAACATAATTCAAATC
1 AGAAATCAAAACAGAATTCAGATT
* * * * *
426708 AGAAATTAGAACATAATTCAAATC
1 AGAAATCAAAACAGAATTCAGATT
426732 AGAAAT
1 AGAAAT
426738 TAGATAAAAC
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 84 1.00
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.23
Consensus pattern (24 bp):
AGAAATCAAAACAGAATTCAGATT
Found at i:426692 original size:48 final size:48
Alignment explanation
Indices: 426609--426727 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
426599 AAACGGAGAT
* * * * * *
426609 ATCAGAAATCAAAACAGAATTCAGATTAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAAAATTCAGATAAAAAATCATAACAGAATCCAA
* * * *
426657 ATTAGAAATCAGAACAAAATTTAGATAAAAAATCATAACATAATTCAA
1 ATCAGAAATCAGAACAAAATTCAGATAAAAAATCATAACAGAATCCAA
* *
426705 ATCAGAAATTAGAACATAATTCA
1 ATCAGAAATCAGAACAAAATTCA
426728 AATCAGAAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (48 bp):
ATCAGAAATCAGAACAAAATTCAGATAAAAAATCATAACAGAATCCAA
Found at i:454814 original size:95 final size:95
Alignment explanation
Indices: 454693--454880 Score: 234
Period size: 95 Copynumber: 2.0 Consensus size: 95
454683 TACTGATGGG
* * ** *
454693 GTATCGATACTAAAAGTAAAGTATCGATACCATGGATTCCAGAATGCCAAAATGGTAGCGATAAT
1 GTATCGATACTAAAAGTAAAGTATCGATACCACGAATTAAAGAATGCCAAAATGGTAGCAATAAT
*
454758 GAAAATGAGTATCGGTACCATAGTATAGTA
66 GAAAAGGAGTATCGGTACCATAGTATAGTA
* * ** * *
454788 GTATCGATACTAAGAG-AAAGGTATCGATACCACGAATTAAAGACTGTTAAAATGGTATCAATAC
1 GTATCGATACTAAAAGTAAA-GTATCGATACCACGAATTAAAGAATGCCAAAATGGTAGCAATAA
* *
454852 TGAAAGGGAGTATCGGTACCGTAGTATAG
65 TGAAAAGGAGTATCGGTACCATAGTATAG
454881 AAATATTGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 3 0.04
95 75 0.96
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (95 bp):
GTATCGATACTAAAAGTAAAGTATCGATACCACGAATTAAAGAATGCCAAAATGGTAGCAATAAT
GAAAAGGAGTATCGGTACCATAGTATAGTA
Found at i:455322 original size:45 final size:45
Alignment explanation
Indices: 455255--455625 Score: 546
Period size: 45 Copynumber: 8.2 Consensus size: 45
455245 CTTTCATTAT
455255 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* *
455300 ATAAATGAAATGCATAATGGTGCATTAAAGGCATGAAAGGATGAC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * *
455345 ATAAATGAAATGCATAATGGTTCATTAAAGGCATTAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * *
455390 ATAAATGAAATCCATTACGGTGCATTAAAGGCATGAAAGGATGCT
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * *
455435 ATGAA-GAAATGCATAACGGTGCATTAAAAGCATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * * * *
455479 ATAAATAAAATGCATAACGGTGCATTAAAGGCTTGATATGATGTC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* * *
455524 ATAAATGAAATGAATAACGTTGCATTAAAGGCATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
*
455569 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGTC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
455614 ATAAATGGAAAT
1 ATAAAT-GAAAT
455626 AATGAATAAT
Statistics
Matches: 291, Mismatches: 33, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
44 38 0.13
45 248 0.85
46 5 0.02
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (45 bp):
ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
Found at i:455569 original size:179 final size:179
Alignment explanation
Indices: 455261--455611 Score: 560
Period size: 179 Copynumber: 2.0 Consensus size: 179
455251 TTATATAAAT
* * *
455261 GAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAATGGTGCATT
1 GAAATGCATAACGGTGCATTAAAAGCATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATT
* * *
455326 AAAGGCATGAAAGGATGACATAAATGAAATGCATAATGGTTCATTAAAGGCATTAAAGGATGCCA
66 AAAGGCATGAAAGGATGACATAAATGAAATGAATAATCGTTCATTAAAGGCATGAAAGGATGCCA
*
455391 TAAATGAAATCCATTACGGTGCATTAAAGGCATGAAAGGATGCTATGAA
131 TAAATGAAATCCATAACGGTGCATTAAAGGCATGAAAGGATGCTATGAA
*
455440 GAAATGCATAACGGTGCATTAAAAGCATGAAATGATGCCATAAATAAAATGCATAACGGTGCATT
1 GAAATGCATAACGGTGCATTAAAAGCATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATT
* * * * *
455505 AAAGGCTTGATATGATGTCATAAATGAAATGAATAA-CGTTGCATTAAAGGCATGAAATGATGCC
66 AAAGGCATGAAAGGATGACATAAATGAAATGAATAATCGTT-CATTAAAGGCATGAAAGGATGCC
*
455569 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
130 ATAAATGAAATCCATAACGGTGCATTAAAGGCATGAAAGGATG
455612 TCATAAATGG
Statistics
Matches: 157, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
178 3 0.02
179 154 0.98
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (179 bp):
GAAATGCATAACGGTGCATTAAAAGCATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATT
AAAGGCATGAAAGGATGACATAAATGAAATGAATAATCGTTCATTAAAGGCATGAAAGGATGCCA
TAAATGAAATCCATAACGGTGCATTAAAGGCATGAAAGGATGCTATGAA
Found at i:462362 original size:45 final size:45
Alignment explanation
Indices: 462298--462579 Score: 510
Period size: 45 Copynumber: 6.2 Consensus size: 45
462288 CTTTCATTAT
*
462298 ATAAATGAAATGCATAACGGTGCATTAAAGGCATAAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
462343 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
462388 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
462433 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* *
462478 ATGAATGAAATGCATAACGGTACATTAAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
* *
462523 ATAAATGAAATGCATAACTGTGAATTAAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
462568 ATAAATGGAAAT
1 ATAAAT-GAAAT
462580 AATGAATAAT
Statistics
Matches: 229, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
45 224 0.98
46 5 0.02
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (45 bp):
ATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCC
Found at i:463801 original size:31 final size:30
Alignment explanation
Indices: 463765--463825 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
463755 TTTAAAATAA
*
463765 AAATTAGTTTATAATTTTATATTTTTA-AATT
1 AAATTAATTTAT-ATTTT-TATTTTTATAATT
*
463796 AAATTAATTTCTATTTTTATTTTTATAATT
1 AAATTAATTTATATTTTTATTTTTATAATT
463826 TGATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
30 9 0.33
31 10 0.37
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
AAATTAATTTATATTTTTATTTTTATAATT
Found at i:470103 original size:35 final size:35
Alignment explanation
Indices: 469992--470191 Score: 226
Period size: 35 Copynumber: 5.6 Consensus size: 35
469982 AGTGTATATA
* *
469992 TATAATATGTAGTTTTTGAAAATATTTTTTGAAAAC-
1 TATAATATATAG-TTTTGAAAACA-TTTTTGAAAACG
*
470028 -AT-ATATATAGTTTTGAAAACATTTTTTAAAACG
1 TATAATATATAGTTTTGAAAACATTTTTGAAAACG
*
470061 TAAATAATATATAGTTTTGAAAACATTTTTCAAAACG
1 T--ATAATATATAGTTTTGAAAACATTTTTGAAAACG
* * **
470098 TATAATATATGGTTTTGAAAACGCTTTTAAAAAACG
1 TATAATATATAGTTTTGAAAAC-ATTTTTGAAAACG
*
470134 TATATAATATATAGTTTTGAAAATATTTTTGAAAACG
1 --TATAATATATAGTTTTGAAAACATTTTTGAAAACG
*
470171 TATAATATATGGTTTTGAAAA
1 TATAATATATAGTTTTGAAAA
470192 TGTATATAAT
Statistics
Matches: 142, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
32 10 0.07
33 10 0.07
34 7 0.05
35 42 0.30
36 12 0.08
37 41 0.29
38 20 0.14
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.41
Consensus pattern (35 bp):
TATAATATATAGTTTTGAAAACATTTTTGAAAACG
Found at i:470148 original size:73 final size:72
Alignment explanation
Indices: 469990--470191 Score: 284
Period size: 73 Copynumber: 2.8 Consensus size: 72
469980 TTAGTGTATA
* *
469990 TATATAATATGTAGTTTTTGAAAATATTTTTTGAAAAC--AT-ATATATAGTTTTGAAAACATTT
1 TATATAATATATAG-TTTTGAAAATA-TTTTTGAAAACGTATAATATATGGTTTTGAAAACATTT
**
470052 TTTAAAACG
64 TAAAAAACG
* * * *
470061 TAAATAATATATAGTTTTGAAAACATTTTTCAAAACGTATAATATATGGTTTTGAAAACGCTTTT
1 TATATAATATATAGTTTTGAAAATATTTTTGAAAACGTATAATATATGGTTTTGAAAAC-ATTTT
470126 AAAAAACG
65 AAAAAACG
470134 TATATAATATATAGTTTTGAAAATATTTTTGAAAACGTATAATATATGGTTTTGAAAA
1 TATATAATATATAGTTTTGAAAATATTTTTGAAAACGTATAATATATGGTTTTGAAAA
470192 TGTATATAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
69 10 0.09
70 10 0.09
71 14 0.12
72 17 0.15
73 65 0.56
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.42
Consensus pattern (72 bp):
TATATAATATATAGTTTTGAAAATATTTTTGAAAACGTATAATATATGGTTTTGAAAACATTTTA
AAAAACG
Found at i:470186 original size:23 final size:23
Alignment explanation
Indices: 470160--470215 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
470150 TTGAAAATAT
*
470160 TTTTGAAAACGTATA-ATATATGG
1 TTTTGAAAACGTATATA-ATATAG
*
470183 TTTTGAAAATGTATATAATATAG
1 TTTTGAAAACGTATATAATATAG
*
470206 CTTTGAAAAC
1 TTTTGAAAAC
470216 ATATTTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (23 bp):
TTTTGAAAACGTATATAATATAG
Found at i:470212 original size:58 final size:60
Alignment explanation
Indices: 470128--470251 Score: 155
Period size: 58 Copynumber: 2.1 Consensus size: 60
470118 ACGCTTTTAA
* * * **
470128 AAAACGTATATAATATATAGTTTTGAAAATAT-TTTTGAAAACGTATAATATATGGTTTTG
1 AAAATGTATATAATATATAGCTTTGAAAACATATTTTGAAAAAATAT-ATATATGGTTTTG
* *
470188 AAAATGTATAT-A-ATATAGCTTTGAAAACATATTTTGAAAAAATATATATATGTTTTTT
1 AAAATGTATATAATATATAGCTTTGAAAACATATTTTGAAAAAATATATATATGGTTTTG
470246 AAAATG
1 AAAATG
470252 ATTTTTGAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 33 0.59
59 13 0.23
60 10 0.18
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.41
Consensus pattern (60 bp):
AAAATGTATATAATATATAGCTTTGAAAACATATTTTGAAAAAATATATATATGGTTTTG
Found at i:470345 original size:19 final size:19
Alignment explanation
Indices: 470285--470360 Score: 56
Period size: 18 Copynumber: 4.2 Consensus size: 19
470275 CATATAGTTA
470285 TATACTTACA-TAT-TATAT
1 TATA-TTACATTATATATAT
*
470303 TTTATATAC-TTATATAT-T
1 TATAT-TACATTATATATAT
*
470321 T-CATTACATTATATATAT
1 TATATTACATTATATATAT
*
470339 TATATTA-ATTTTATTATAT
1 TATATTACATTATA-TATAT
470358 TAT
1 TAT
470361 TATATTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
16 3 0.06
17 11 0.23
18 18 0.38
19 15 0.32
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTACATTATATATAT
Found at i:470375 original size:17 final size:17
Alignment explanation
Indices: 470295--470390 Score: 71
Period size: 17 Copynumber: 5.9 Consensus size: 17
470285 TATACTTACA
*
470295 TATTATATTTTATATACT
1 TATTATATTTTATTTA-T
*
470313 TA-TATATTTCA-TTA-
1 TATTATATTTTATTTAT
* *
470327 CATTATA-TATA-TTA-
1 TATTATATTTTATTTAT
470341 TATTA-ATTTTATTATAT
1 TATTATATTTTATT-TAT
470358 TATTATATTTTATTTAT
1 TATTATATTTTATTTAT
*
470375 TATTATTTATTTATTT
1 TATTATAT-TTTATTT
470391 TTTCAGGTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
13 1 0.02
14 13 0.21
15 5 0.08
16 4 0.06
17 23 0.37
18 17 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATATTTTATTTAT
Found at i:470385 original size:14 final size:14
Alignment explanation
Indices: 470295--470389 Score: 59
Period size: 14 Copynumber: 6.3 Consensus size: 14
470285 TATACTTACA
*
470295 TATTATATTTTATA
1 TATTATATTTTATT
470309 TACTTATATATTTCATT
1 TA-TTATAT-TTT-ATT
* *
470326 ACATTATA-TATATT
1 -TATTATATTTTATT
*
470340 ATATTAATTTTATTATAT
1 -TATT-ATATT-TTAT-T
470358 TATTATATTTTATT
1 TATTATATTTTATT
470372 TATTAT-TATTTATT
1 TATTATAT-TTTATT
470386 TATT
1 TATT
470390 TTTTCAGGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
13 1 0.02
14 26 0.40
15 14 0.22
16 8 0.12
17 14 0.22
18 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTATATTTTATT
Found at i:482032 original size:49 final size:49
Alignment explanation
Indices: 481939--482033 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 49
481929 AATATTTCGC
* * *
481939 TTAGGGTGAAAACCTGAAAGGGCACCCTAAGTTGAAGTAAAAAAAATGT
1 TTAGAGTGAAAACCTGAAAGGGCACCCTAAATTGAAGAAAAAAAAATGT
* *
481988 TTAGAGTGAAAACAC-GAAGGGGCGCCCTAAATTGAA-AAATAAAAAA
1 TTAGAGTGAAAAC-CTGAAAGGGCACCCTAAATTGAAGAAA-AAAAAA
482034 GGAGAAAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
48 2 0.05
49 36 0.92
50 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.18
Consensus pattern (49 bp):
TTAGAGTGAAAACCTGAAAGGGCACCCTAAATTGAAGAAAAAAAAATGT
Found at i:483757 original size:23 final size:23
Alignment explanation
Indices: 483720--483784 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
483710 GTTTTTGAAA
*
483720 ATAGTTTTTGGAAACATATA-ATAT
1 ATAG-TTTTGAAAACATATATA-AT
*
483744 ATAGTTTTGAAAACGTATATAAT
1 ATAGTTTTGAAAACATATATAAT
*
483767 ATAGTTTTAAAAACATAT
1 ATAGTTTTGAAAACATAT
483785 TTTGAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 31 0.86
24 5 0.14
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.40
Consensus pattern (23 bp):
ATAGTTTTGAAAACATATATAAT
Found at i:483801 original size:2 final size:2
Alignment explanation
Indices: 483794--483832 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
483784 TTTTGAAAAC
483794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
483833 AAAAAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:483887 original size:9 final size:9
Alignment explanation
Indices: 483873--483939 Score: 52
Period size: 9 Copynumber: 7.9 Consensus size: 9
483863 ATATACTTAC
483873 ATATTATAT
1 ATATTATAT
483882 ATA-T-TAT
1 ATATTATAT
*
483889 ACATTAT-T
1 ATATTATAT
483897 ATATTATAT
1 ATATTATAT
*
483906 TTATTATAT
1 ATATTATAT
* *
483915 TTTTTAT-T
1 ATATTATAT
* *
483923 ATATTTTTT
1 ATATTATAT
483932 ATATTATA
1 ATATTATA
483940 GTTATTATTA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
7 5 0.11
8 14 0.31
9 26 0.58
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
ATATTATAT
Found at i:483911 original size:14 final size:13
Alignment explanation
Indices: 483892--483959 Score: 72
Period size: 12 Copynumber: 5.4 Consensus size: 13
483882 ATATTATACA
483892 TTATTATATTATAT
1 TTATTATATT-TAT
483906 TTATTATATTT-T
1 TTATTATATTTAT
483918 TTATTATATTT-T
1 TTATTATATTTAT
* *
483930 TTA-TAT-TATAG
1 TTATTATATTTAT
483941 TTATTATTATTTAT
1 TTATTA-TATTTAT
483955 TTATT
1 TTATT
483960 TTTTCAGGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.04
11 6 0.13
12 18 0.39
13 2 0.04
14 18 0.39
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (13 bp):
TTATTATATTTAT
Found at i:483936 original size:26 final size:26
Alignment explanation
Indices: 483891--483958 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
483881 TATATTATAC
* *
483891 ATTATTATATTATATT-TATTATATTT
1 ATTATTATATT-TTTTATATTATAGTT
*
483917 TTTATTATATTTTTTATATTATAGTT
1 ATTATTATATTTTTTATATTATAGTT
*
483943 ATTATTAT-TTATTTAT
1 ATTATTATATTTTTTAT
483959 TTTTTCAGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 10 0.28
26 26 0.72
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (26 bp):
ATTATTATATTTTTTATATTATAGTT
Found at i:483948 original size:12 final size:12
Alignment explanation
Indices: 483891--483950 Score: 57
Period size: 14 Copynumber: 4.7 Consensus size: 12
483881 TATATTATAC
483891 ATTATTATATTAT
1 ATTATTATATT-T
483904 ATTTATTATATTT
1 A-TTATTATATTT
*
483917 TTTATTATATTTT
1 ATTATTATA-TTT
* *
483930 TTATATTATAGTT
1 AT-TATTATATTT
483943 ATTATTAT
1 ATTATTAT
483951 TTATTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 14 0.34
13 10 0.24
14 17 0.41
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
ATTATTATATTT
Found at i:486728 original size:27 final size:25
Alignment explanation
Indices: 486691--486745 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
486681 CAATCAAAGG
*
486691 TACTTGGATGGCAAAATTATGAGAA
1 TACTTGGATGGCAAAATTATGAAAA
*
486716 TACTCTGGTATGGTAAAATTATGAAAA
1 TACT-TGG-ATGGCAAAATTATGAAAA
486743 TAC
1 TAC
486746 CCTTATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 3 0.12
27 19 0.73
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (25 bp):
TACTTGGATGGCAAAATTATGAAAA
Found at i:486758 original size:27 final size:26
Alignment explanation
Indices: 486698--486752 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
486688 AGGTACTTGG
* * *
486698 ATGGCAAAATTATGAGAATACTCTGGT
1 ATGGTAAAATTATGAAAATACCCT-GT
486725 ATGGTAAAATTATGAAAATACCCT-T
1 ATGGTAAAATTATGAAAATACCCTGT
486750 ATG
1 ATG
486753 TTGTAAGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
27 21 0.84
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (26 bp):
ATGGTAAAATTATGAAAATACCCTGT
Found at i:488406 original size:24 final size:24
Alignment explanation
Indices: 488379--488468 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
488369 TCTTATTTGA
*
488379 ATTCTGTTATGATACCTGACTTGG
1 ATTCTGATATGATACCTGACTTGG
*
488403 ATTCTGATATGAT-GCTGA-TATGG
1 ATTCTGATATGATACCTGACT-TGG
* * * *
488426 ATTTTGATCTGATACATGACCTGG
1 ATTCTGATATGATACCTGACTTGG
*
488450 ATTCTGATCTGATA-CTGAC
1 ATTCTGATATGATACCTGAC
488469 CTGAATTATA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.02
23 22 0.41
24 31 0.57
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACCTGACTTGG
Found at i:489616 original size:23 final size:23
Alignment explanation
Indices: 489598--489691 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
489588 TGCCACATAA
*
489598 AAATGTCCCGAATGACCACGTAG
1 AAATGTCCCGAAGGACCACGTAG
*
489621 AAATGTCCCGAAGGACCGCGTAG
1 AAATGTCCCGAAGGACCACGTAG
*
489644 AAATGTCCCAAAGGACCACGTAG
1 AAATGTCCCGAAGGACCACGTAG
* * *
489667 AATTGTCCTGAAGGACCGCGTAG
1 AAATGTCCCGAAGGACCACGTAG
489690 AA
1 AA
489692 CCCTCGACTC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (23 bp):
AAATGTCCCGAAGGACCACGTAG
Found at i:489648 original size:46 final size:46
Alignment explanation
Indices: 489598--489691 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
489588 TGCCACATAA
* *
489598 AAATGTCCCGAATGACCACGTAGAAATGTCCCGAAGGACCGCGTAG
1 AAATGTCCCAAAGGACCACGTAGAAATGTCCCGAAGGACCGCGTAG
* *
489644 AAATGTCCCAAAGGACCACGTAGAATTGTCCTGAAGGACCGCGTAG
1 AAATGTCCCAAAGGACCACGTAGAAATGTCCCGAAGGACCGCGTAG
489690 AA
1 AA
489692 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (46 bp):
AAATGTCCCAAAGGACCACGTAGAAATGTCCCGAAGGACCGCGTAG
Found at i:491779 original size:135 final size:135
Alignment explanation
Indices: 491529--491779 Score: 351
Period size: 135 Copynumber: 1.9 Consensus size: 135
491519 GTCAAATATA
* * * * *
491529 ATTTTCCCTCAACAAGCAGCGAAACAAATCCCTCTTTTTTCTAGATTTGATCTTCCCTGAAGAAC
1 ATTTTACCTCAAAAAGCAGCGAAACAAACCCCTCTTTTTTCCAAATTTGATCTTCCCTGAAGAAC
* * * *
491594 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATGAACATTTCCAG
66 AGTGAAACAAATCTACCTCGATTCAATCTTCCCTGAAGAACAATGAAATGAATGAACATTTCCAG
491659 ACTTG
131 ACTTG
* * *
491664 ATTTTACCTCAAAAAGCAGCGGAACATACCCCTCTTTTTTCCAAATTTGATCTTTCCTG-AGTAA
1 ATTTTACCTCAAAAAGCAGCGAAACAAACCCCTCTTTTTTCCAAATTTGATCTTCCCTGAAG-AA
* * *
491728 CAGTGAAATAAATCTACCTCGATTCAATCTTCCCTGAAGAATAGTGAAATGA
65 CAGTGAAACAAATCTACCTCGATTCAATCTTCCCTGAAGAACAATGAAATGA
491780 GTCAATGTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
134 2 0.02
135 98 0.98
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (135 bp):
ATTTTACCTCAAAAAGCAGCGAAACAAACCCCTCTTTTTTCCAAATTTGATCTTCCCTGAAGAAC
AGTGAAACAAATCTACCTCGATTCAATCTTCCCTGAAGAACAATGAAATGAATGAACATTTCCAG
ACTTG
Found at i:492615 original size:5 final size:5
Alignment explanation
Indices: 492547--492601 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
492537 TTCATGTTTC
**
492547 GAAAA GAAAA GAAAA GAAAA -ATAAA GAAAA -AAATA GAATC GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GA-AAA GAAAA GAAA-A GAAAA GAAAA GAAAA
492597 GAAAA
1 GAAAA
492602 AGGGAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.10
5 35 0.83
6 3 0.07
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.05
Consensus pattern (5 bp):
GAAAA
Found at i:492623 original size:13 final size:14
Alignment explanation
Indices: 492593--492623 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
492583 AATCGAAAAG
492593 AAAAGAAAAAGGGA
1 AAAAGAAAAAGGGA
492607 AAAAGAAAAA-GGA
1 AAAAGAAAAAGGGA
492620 AAAA
1 AAAA
492624 TAGTGGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGGGA
Found at i:493636 original size:2 final size:2
Alignment explanation
Indices: 493629--493702 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
493619 CTATTAAGAC
493629 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
493671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
493703 GTTTTTGTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:494447 original size:131 final size:130
Alignment explanation
Indices: 494208--494563 Score: 487
Period size: 131 Copynumber: 2.7 Consensus size: 130
494198 TTAATATTGA
* * * * *
494208 GAATAGTAATATCTTTTTATTTCGTTTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
1 GAATAGTGATATCTCTTAATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGA-GTCAT
* * * * * * * *
494273 TTATTCTCGATTGAAAATAATTTGATATTGTTGTTTTCTCTCGAATTAATATCAATTTTTAAGAT
65 TTATTCTCGATTGGAAATAATTAGATATTCTCGATTTCACTCGAATTAATATCAAATTTTAAGAC
494338 G
130 G
* *
494339 GAATAGTGATATCTCTTAATTTCGATTGGAGTAATAAATGACTGGTTTAAGGTATGAGATGTCAT
1 GAATAGTGATATCTCTTAATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGA-GTCAT
* * *
494404 TTATTCTCGATTGGAAATCATTAGATATTCTCGATTTCACTCGAATTGATATTAAATTTTAAGAC
65 TTATTCTCGATTGGAAATAATTAGATATTCTCGATTTCACTCGAATTAATATCAAATTTTAAGAC
494469 G
130 G
* * *
494470 GAATAATGATATATCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGATCAT
1 GAATAGTGATATCTCTTAATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAG-TCAT
*
494535 TTATTCTCGATTAGAAATAATTAGATATT
65 TTATTCTCGATTGGAAATAATTAGATATT
494564 ATCGTTCTCT
Statistics
Matches: 198, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
130 1 0.01
131 197 0.99
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (130 bp):
GAATAGTGATATCTCTTAATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGTCATT
TATTCTCGATTGGAAATAATTAGATATTCTCGATTTCACTCGAATTAATATCAAATTTTAAGACG
Found at i:497112 original size:17 final size:19
Alignment explanation
Indices: 497069--497114 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
497059 GATTATGTCT
497069 TATTAAATTATAATATTGA
1 TATTAAATTATAATATTGA
* * *
497088 AATAAAATT-T-ATATTTA
1 TATTAAATTATAATATTGA
497105 TATTAAATTA
1 TATTAAATTA
497115 AGTCTAATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
17 13 0.62
18 1 0.05
19 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTAAATTATAATATTGA
Found at i:502528 original size:2 final size:2
Alignment explanation
Indices: 502521--502551 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
502511 AATTATTAAA
*
502521 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
502552 AATGAGTAAA
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:502670 original size:29 final size:30
Alignment explanation
Indices: 502603--502670 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
502593 AGTAATATGA
*
502603 AAATAT-AATATAATATAAATAAAAAAACC
1 AAATATAAAAATAATATAAATAAAAAAACC
* * * *
502632 AAAAACAAAAATAA-ATAAATATATAAACC
1 AAATATAAAAATAATATAAATAAAAAAACC
502661 AAATATAAAA
1 AAATATAAAA
502671 GTATACATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (30 bp):
AAATATAAAAATAATATAAATAAAAAAACC
Found at i:503471 original size:37 final size:37
Alignment explanation
Indices: 503386--503479 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
503376 AGATCTTATC
* * * *
503386 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGCAAAACTCTATCCTATT
*
503423 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGCAAAACTCTATCCTATT
*
503460 TTTAGGAGTTTGAATTCTAG
1 TTTAGGAGTTTGAATCCTAG
503480 TAGGACGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGCAAAACTCTATCCTATT
Found at i:504496 original size:106 final size:106
Alignment explanation
Indices: 504178--505234 Score: 1581
Period size: 106 Copynumber: 10.0 Consensus size: 106
504168 GCATTGTTCC
* * * * *
504178 GAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * *
504243 CCAGCCGTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
504284 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * ** *
504343 TCAGCCGCCCCTTCGTCGTGAAGTTGGGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * **
504385 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGCTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
504449 CCAGCGGTCCCTTCGTCGTCAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
504490 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
504555 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
504596 GAGTCCAATATCCTTCGCTGCGAAGTTGATACTGGCTCTGAAATTGGGAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * *
504660 CCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
504701 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
504766 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
504807 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
504872 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
504913 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
504978 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
505019 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
505084 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
505125 GAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGGGATGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
505190 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
505231 GAGT
1 GAGT
505235 GGCACGATAT
Statistics
Matches: 871, Mismatches: 71, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
100 78 0.09
101 5 0.01
102 5 0.01
104 4 0.00
105 99 0.11
106 680 0.78
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:505170 original size:529 final size:524
Alignment explanation
Indices: 504177--505234 Score: 1668
Period size: 529 Copynumber: 2.0 Consensus size: 524
504167 AGCATTGTTC
* * * *
504177 CGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTAAAATTGGCTCTGAAACTGAGAAATTGTTTGTTGACA
* * *
504242 ACCAGCCGTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGA
66 ACCAGCCGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTCGAGTCCAATATCATTCGATGTGA
* * * **
504307 AGTTGAAATTGACTCTGAATGAAATTTTGTTGACAATCAGCCGCCCCTTCGTCGTGAAGTTGGGC
131 AGTTGAAATTGACTCTAAATGAAATTTTATTGACAACCAGCCGCCCCTTCGTCGTGAAGTTGAAC
* * * *
504372 TTGTGTTGTCTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGCT
196 TTGCGTTGTCTAGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAACT
504437 GTTTATTGACAACCAGCGGTCCCTTCGTCGTCAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
261 GTTTATTGACAACCAGCGGTCCCTTCGTCGTCAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
504502 CTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCT
326 CTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCT
* *
504567 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGCGAAGTTGATACTGGC
391 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGCGAAATTGAAACTGGC
*
504632 TCTGAAATTGGGAAATTG-TTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTT
456 TCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCATCGTGAAGTTGAACTTGTGTT
504696 GTCT
521 GTCT
* * * *
504700 TGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTAAAATTGGCTCTGAAACTGAGAAATTGTTTGTTGACA
* * * *
504765 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGA
66 ACCAGCCGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTCGAGTCCAATATCATTCGATGTGA
* * * *
504830 AGTTGAAATTGGCTCTAAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
131 AGTTGAAATTGACTCT-AAA-T--GAA-AT-TTTATTGACAACCAGCCGCCCCTTCGTCGTGAAG
* * *
504895 TTGAACTTGCGTTGTCTAGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
190 TTGAACTTGCGTTGTCTAGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGG
* *
504960 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
255 GAAACTGTTTATTGACAACCAGCGGTCCCTTCGTCGTCAAGTTGAACTTGCGTTGTCTGGAGTCC
*
505025 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCG
320 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCG
* *
505090 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAATTGAA
385 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGCGAAATTGAA
* ** *
505155 ATTGGCTCTGAAATTGGGATGTTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACT
450 ACTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCATCGTGAAGTTGAACT
505220 TGTGTTGTCT
515 TGTGTTGTCT
505230 CGAGT
1 CGAGT
505235 GGCACGATAT
Statistics
Matches: 484, Mismatches: 44, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
523 130 0.27
524 2 0.00
525 1 0.00
527 3 0.01
528 1 0.00
529 295 0.61
530 52 0.11
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (524 bp):
CGAGTCCAATATCCTCCGCTGTGAAGTTAAAATTGGCTCTGAAACTGAGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTCGAGTCCAATATCATTCGATGTGA
AGTTGAAATTGACTCTAAATGAAATTTTATTGACAACCAGCCGCCCCTTCGTCGTGAAGTTGAAC
TTGCGTTGTCTAGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAACT
GTTTATTGACAACCAGCGGTCCCTTCGTCGTCAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
CTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCT
TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGCGAAATTGAAACTGGC
TCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCATCGTGAAGTTGAACTTGTGTT
GTCT
Found at i:506846 original size:9 final size:8
Alignment explanation
Indices: 506826--506892 Score: 75
Period size: 8 Copynumber: 8.2 Consensus size: 8
506816 ATTTTTGTTA
506826 TTTCTTTT
1 TTTCTTTT
506834 TTTCTTTT
1 TTTCTTTT
506842 GTTTCTCTTT
1 -TTTCT-TTT
506852 TTTC-TTT
1 TTTCTTTT
*
506859 GTT-TTTT
1 TTTCTTTT
506866 TTTCTTCTT
1 TTTCTT-TT
*
506875 TTTCTTCT
1 TTTCTTTT
506883 TTTCTTTT
1 TTTCTTTT
506891 TT
1 TT
506893 GTTCTTGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
7 10 0.20
8 20 0.40
9 17 0.34
10 3 0.06
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTCTTTT
Found at i:506852 original size:17 final size:16
Alignment explanation
Indices: 506826--506890 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 16
506816 ATTTTTGTTA
506826 TTTCTTTTTTTCTTTTG
1 TTTC-TTTTTTCTTTTG
506843 TTTCTCTTTTT-TCTTTG
1 TTTCT-TTTTTCT-TTTG
506860 TTT-TTTTTTCTTCTT-
1 TTTCTTTTTTCTT-TTG
506875 TTTCTTCTTTTCTTTT
1 TTTCTT-TTTTCTTTT
506891 TTGTTCTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
15 9 0.21
16 10 0.24
17 23 0.55
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTCTTTTTTCTTTTG
Found at i:506855 original size:26 final size:24
Alignment explanation
Indices: 506826--506895 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 24
506816 ATTTTTGTTA
506826 TTTCTTTTTTTCTTTTGTTTCTCTTT
1 TTTCTTTTTTT-TTTTGTTTCT-TTT
506852 TTTCTTTGTTTTTTTT-TCTTCTTTT
1 TTTCTTT-TTTTTTTTGT-TTCTTTT
*
506877 TCTTCTTTTCTTTTTTGTT
1 T-TTCTTTTTTTTTTTGTT
506896 CTTGATTGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
25 13 0.33
26 22 0.56
27 4 0.10
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.81
Consensus pattern (24 bp):
TTTCTTTTTTTTTTTGTTTCTTTT
Found at i:506874 original size:24 final size:24
Alignment explanation
Indices: 506838--506898 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
506828 TCTTTTTTTC
*
506838 TTTTGTTTC-TCTTTTTTCTT-TGT
1 TTTTTTTTCTTCTTTTTTCTTCT-T
506861 TTTTTTTTCTTC-TTTTTCTTCTT
1 TTTTTTTTCTTCTTTTTTCTTCTT
*
506884 TTCTTTTTTGTTCTT
1 TT-TTTTTTCTTCTT
506899 GATTGGATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 19 0.59
24 12 0.38
25 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (24 bp):
TTTTTTTTCTTCTTTTTTCTTCTT
Found at i:511329 original size:16 final size:16
Alignment explanation
Indices: 511308--511338 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
511298 GTGTTAGAGG
*
511308 GAAAAAATGAATAAAT
1 GAAAAAAAGAATAAAT
511324 GAAAAAAAGAATAAA
1 GAAAAAAAGAATAAA
511339 ATAAGTAAAA
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:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (16 bp):
GAAAAAAAGAATAAAT
Found at i:511357 original size:27 final size:26
Alignment explanation
Indices: 511327--511382 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
511317 AATAAATGAA
*
511327 AAAAAG-AATAAAATAAGTAAAAAAAAT
1 AAAAAGAAAT-AAATAAAT-AAAAAAAT
* *
511354 AAAAGGAAATAAATAAATAAATAAAT
1 AAAAAGAAATAAATAAATAAAAAAAT
511380 AAA
1 AAA
511383 TGAAATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 10 0.40
27 12 0.48
28 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (26 bp):
AAAAAGAAATAAATAAATAAAAAAAT
Found at i:511367 original size:4 final size:4
Alignment explanation
Indices: 511360--511389 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
511350 AAATAAAAGG
511360 AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
511390 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:511394 original size:2 final size:2
Alignment explanation
Indices: 511387--511426 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
511377 AATAAATGAA
511387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
511427 GAGTAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:511753 original size:18 final size:19
Alignment explanation
Indices: 511693--511773 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 19
511683 ATATATATAT
*
511693 ATATAAAT-AATAAATATA
1 ATATAAATAAATAAAAATA
*
511711 ATATTAA-AAATAACCAAATGA
1 ATATAAATAAATAA--AAAT-A
511732 ATATAAATAAATAAAAAT-
1 ATATAAATAAATAAAAATA
** * *
511750 ATATGTATATATAATAATA
1 ATATAAATAAATAAAAATA
511769 ATATA
1 ATATA
511774 TAGTGTAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
18 25 0.51
19 4 0.08
20 7 0.14
21 7 0.14
22 6 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATAAATAAATAAAAATA
Found at i:512341 original size:37 final size:37
Alignment explanation
Indices: 512257--512344 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
512247 GATCATATCC
* * *
512257 TTAGGAGTTTAAATCATAGTAGAACTCTATCCTATTT
1 TTAGGAGTTTGAATCATAGAAAAACTCTATCCTATTT
* *
512294 TTAGGAGTTTGAATCCTAGAAAAATTCTATCCTATTT
1 TTAGGAGTTTGAATCATAGAAAAACTCTATCCTATTT
512331 TTAGGAGTTTGAAT
1 TTAGGAGTTTGAAT
512345 TCTAATAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (37 bp):
TTAGGAGTTTGAATCATAGAAAAACTCTATCCTATTT
Found at i:513919 original size:63 final size:61
Alignment explanation
Indices: 513844--513962 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 61
513834 ATAAAAACCG
* *
513844 ACCCGACTCGACCCGAATATCAT-ACTTAAAAAATCCGACCCGACCCGAACAAAATAAAGTTTC
1 ACCCGACCCGACCCGAATAT-ATGAATT-AAAAATCCGACCCGACCCGAA-AAAATAAAGTTTC
* * *
513907 ACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACTCGAAATAATAAA
1 ACCCGACCCGACCCGAATATATGAATTAAAAATCCGACCCGACCCGAAAAAATAAA
513963 AAAATTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 7 0.14
62 21 0.42
63 22 0.44
ACGTcount: A:0.40, C:0.30, G:0.13, T:0.17
Consensus pattern (61 bp):
ACCCGACCCGACCCGAATATATGAATTAAAAATCCGACCCGACCCGAAAAAATAAAGTTTC
Done.