Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010021.1 Kokia drynarioides strain JFW-HI SEQ_124786, 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: 355209
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 84 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:4821 original size:16 final size:19
Alignment explanation
Indices: 4800--4842 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 19
4790 ATCATAATTT
4800 TTTTTCTT-CTTTTT-TC-
1 TTTTTCTTCCTTTTTCTCA
4816 TTTTTCTTCCTTTTTCTCA
1 TTTTTCTTCCTTTTTCTCA
4835 TTTTTCTT
1 TTTTTCTT
4843 TTTCAAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 2 0.08
19 8 0.33
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTCTTCCTTTTTCTCA
Found at i:15392 original size:19 final size:20
Alignment explanation
Indices: 15345--15392 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
15335 TTGATAACTC
15345 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
15363 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
15382 TTAATTATTAT
1 TTAATTATTAT
15393 CAAGTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 14 0.56
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:17016 original size:18 final size:17
Alignment explanation
Indices: 16991--17061 Score: 65
Period size: 18 Copynumber: 4.0 Consensus size: 17
16981 AGCAAGCTAA
16991 AGAAGAAGAAAATCTTG
1 AGAAGAAGAAAATCTTG
*
17008 AGAAAGAAGAAGATCTT-
1 AG-AAGAAGAAAATCTTG
17025 -GAAGAAGACAAGGATCTTG
1 AGAAGAAGA-AA--ATCTTG
*
17044 AGGAAGAAGAAGATCTTG
1 A-GAAGAAGAAAATCTTG
17062 TGGAGATTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
15 7 0.16
16 2 0.05
17 2 0.05
18 24 0.55
20 1 0.02
21 8 0.18
ACGTcount: A:0.48, C:0.07, G:0.28, T:0.17
Consensus pattern (17 bp):
AGAAGAAGAAAATCTTG
Found at i:20019 original size:28 final size:27
Alignment explanation
Indices: 19979--20062 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 27
19969 CTGGTAATAG
*
19979 GCATGACCTTTGGGTCAATAGGTTGTAA
1 GCATGACCTTTGGGTCAATAGG-AGTAA
*
20007 GCATGACCTTTGGGTCAACAAGGAGTAA
1 GCATGACCTTTGGGTCAA-TAGGAGTAA
*
20035 GCATGACCTTAGGGTCAATAAGGAGTAA
1 GCATGACCTTTGGGTCAAT-AGGAGTAA
20063 ATCGGATATC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 47 0.94
29 3 0.06
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (27 bp):
GCATGACCTTTGGGTCAATAGGAGTAA
Found at i:21688 original size:16 final size:18
Alignment explanation
Indices: 21653--21698 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
21643 AATGATGCTT
21653 AGAAAAACAGAAATGAAAA
1 AGAAAAA-AGAAATGAAAA
21672 AGAAAAAA-AAA-GAAAA
1 AGAAAAAAGAAATGAAAA
21688 AGGAAAAAAGA
1 A-GAAAAAAGA
21699 CCATATGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.24
17 10 0.40
18 2 0.08
19 7 0.28
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (18 bp):
AGAAAAAAGAAATGAAAA
Found at i:29505 original size:29 final size:29
Alignment explanation
Indices: 29444--29618 Score: 160
Period size: 29 Copynumber: 6.0 Consensus size: 29
29434 CATCCAAATT
*
29444 GAAGTTCG-GGGATAAAAATGTGATATTTT-
1 GAAGTTCGAGGGA-AAAAATGTAAT-TTTTA
*
29473 GAAGTTCGA-CGAAAAAATGTAATTTTTAA
1 GAAGTTCGAGGGAAAAAATGTAATTTTT-A
* * * * *
29502 GAAGTTTGAGGGTAAATATGTGATTTTTG
1 GAAGTTCGAGGGAAAAAATGTAATTTTTA
* * *
29531 GAAGTTCGAGGGCAAAAATATAAATTTTGA
1 GAAGTTCGAGGGAAAAAATGT-AATTTTTA
* *
29561 GAAGTTTG-GGGATAAAAATGTGATTTTTA
1 GAAGTTCGAGGGA-AAAAATGTAATTTTTA
*
29590 GAAGTTCGAGGGTAAAAATGTAATTTTTA
1 GAAGTTCGAGGGAAAAAATGTAATTTTTA
29619 ATAAATTTAG
Statistics
Matches: 116, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
27 4 0.03
28 10 0.09
29 66 0.57
30 36 0.31
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.34
Consensus pattern (29 bp):
GAAGTTCGAGGGAAAAAATGTAATTTTTA
Found at i:29582 original size:59 final size:58
Alignment explanation
Indices: 29444--29619 Score: 230
Period size: 59 Copynumber: 3.0 Consensus size: 58
29434 CATCCAAATT
* *
29444 GAAGTTCGGGGATAAAAATGTGATATTTTGAAGTTCGA-CGAAAAAATGTAATTTTTAA
1 GAAGTTTGGGGATAAAAATGTGAT-TTTTGAAGTTCGAGGGAAAAAATGTAATTTTTAA
* * * * *
29502 GAAGTTTGAGGG-TAAATATGTGATTTTTGGAAGTTCGAGGGCAAAAATATAAATTTTGA
1 GAAGTTTG-GGGATAAAAATGTGATTTTT-GAAGTTCGAGGGAAAAAATGTAATTTTTAA
*
29561 GAAGTTTGGGGATAAAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTTTAA
1 GAAGTTTGGGGATAAAAATGTGATTTTT-GAAGTTCGAGGGAAAAAATGTAATTTTTAA
29620 TAAATTTAGA
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 4 0.04
58 30 0.30
59 67 0.66
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (58 bp):
GAAGTTTGGGGATAAAAATGTGATTTTTGAAGTTCGAGGGAAAAAATGTAATTTTTAA
Found at i:29636 original size:59 final size:57
Alignment explanation
Indices: 29456--29645 Score: 213
Period size: 59 Copynumber: 3.3 Consensus size: 57
29446 AGTTCGGGGA
*
29456 TAAAAATGTGATATTTTGAAGTTCGA-CGAAAAAATGTAATTTTTAAGAAGTTTGAGGG
1 TAAAAATGTGAT-TTTTGAAGTTCGAGGGAAAAAATGTAATTTTTAAGAAGTTTGA-GG
* * * * * *
29514 TAAATATGTGATTTTTGGAAGTTCGAGGGCAAAAATATAAATTTTGAGAAGTTTGGGG
1 TAAAAATGTGATTTTT-GAAGTTCGAGGGAAAAAATGTAATTTTTAAGAAGTTTGAGG
* * *
29572 ATAAAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTTTAATAAATTTAGAGG
1 -TAAAAATGTGATTTTT-GAAGTTCGAGGGAAAAAATGTAATTTTTAAGAAGTTT-GAGG
*
29632 T-AAAATGTAATTTT
1 TAAAAATGTGATTTT
29646 GGAAAAGTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
57 4 0.04
58 34 0.31
59 70 0.63
60 3 0.03
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (57 bp):
TAAAAATGTGATTTTTGAAGTTCGAGGGAAAAAATGTAATTTTTAAGAAGTTTGAGG
Found at i:31356 original size:17 final size:17
Alignment explanation
Indices: 31318--31393 Score: 116
Period size: 17 Copynumber: 4.4 Consensus size: 17
31308 ACTTTGATAT
31318 TTTAAATTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
* *
31336 TTTAAATTTAAGATGAA
1 TTTAAATTTAAAATAAA
31353 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
31370 TTTAAACTTTAAAATAAA
1 TTTAAA-TTTAAAATAAA
31388 TTTAAA
1 TTTAAA
31394 AATGGGTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 27 0.51
18 26 0.49
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:31380 original size:7 final size:6
Alignment explanation
Indices: 31318--31393 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
31308 ACTTTGATAT
** *
31318 TTTAAA TTTAAA AATAAA TTTAAA TTTAAGA --TGAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA
* *
31365 -ATAAA TTTAAA CTTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
31394 AATGGGTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
4 1 0.02
5 10 0.19
6 36 0.67
7 7 0.13
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:32003 original size:117 final size:115
Alignment explanation
Indices: 31793--32588 Score: 599
Period size: 117 Copynumber: 6.9 Consensus size: 115
31783 AATGACTACC
* * *
31793 ATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATCTACCCCAGGCTCGGGATAAAAGA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
* * * *
31858 TCGAATGGCTGTAATCTACCCTAGGCTCGGGGTAAGAGATCGGATGGCTTCA
66 TCG-ATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGG-TTCA
* *
31910 ATTTGCCCTATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
* * * * *
31975 TCGAATGGCTGCAATCTACCCCAAGCTCGGGATAAGAGATTGGATGGTTGCA
66 TCG-ATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTT-CA
* ** * * ** * * * *
32027 ATCTGCCCCATGATCGGGGTAAGAGATCGAATGGTTGCAATCTTCCTCAAGCTCGGGGTAAGAGA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
* * *
32092 TTGGCTGATGG-TG--ATTTGCCCCAAGCAT-GGGGTAAAAGATCAAATGGTTGCA
66 -T--C-GATGGCTGTAATCTGCCCCAAGC-TCGGGGTAAGAGATCGAATGGTT-CA
* * * *
32144 ATCTGCCCCATGTTTGGGGTATGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGT--AAGA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
* *
32207 --GAT---TGCAATCTGCCCCAAGCTCAGGGTAAGAGATCGAATGGCTGT-A
66 TCGATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGG-T-TCA
* * * * *
32253 ATCTACCTCATTATCGAGGTAAGAGATTGGCTGATGGTGA---GCCCCAAGCTCGGGGTAAAAGA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
*
32315 TCGAATGGCTGTAATTTGCCCCAAGCTCGGGGTAAGAGATTGGCTG-ATGG-T-A
66 TCG-ATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGA-T--C-GAATGGTTCA
* * * * * ** * * ** * * *
32367 ATCTGCCCCAAGCTCGAGGTAATAGATCGAATGGTTGCAATCTGCCTCAGGCTTGGGGTAAGAGA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
* * * * *
32432 TTGGCTGATGG-TG--ATCTACCCCAAGCTTGGGGTAAGAGATTGAATGACTGCA
66 -T--C-GATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATCGAATG-GTTCA
* * * * * * * *
32484 ATCTGCCCCAGGCTAGGGGTAAGAGATTTGCTGATGATGATCTGCCCTAGGCTCGGGATAAGAGA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
* * * *
32549 TCGGATGGCTGTAATTTGCCCCATGATTGGGGTAAGAGAT
66 TC-GATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGAT
32589 TGGCTGATGG
Statistics
Matches: 540, Mismatches: 102, Indels: 74
0.75 0.14 0.10
Matches are distributed among these distances:
106 16 0.03
107 2 0.00
108 5 0.01
109 65 0.12
110 2 0.00
111 3 0.01
113 1 0.00
114 65 0.12
115 6 0.01
116 4 0.01
117 351 0.65
118 4 0.01
119 4 0.01
120 10 0.02
121 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (115 bp):
ATCTGCCCCATGATCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
TCGATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTCA
Found at i:32377 original size:184 final size:185
Alignment explanation
Indices: 32022--32393 Score: 514
Period size: 184 Copynumber: 2.0 Consensus size: 185
32012 GATTGGATGG
* * * * * *
32022 TTGCAATCTGCCCCATGATCGGGGTAAGAGATCGAATGGTTGCAATCTTCCTCAAGCTCGGGGTA
1 TTGCAATCTGCCCCAAGATCAGGGTAAGAGATCGAATGGCTGCAATCTACCTCAAGATCGAGGTA
*
32087 AGAGATTGGCTGATGGTGATTTGCCCCAAGCATGGGGTAAAAGATCAAATGGTTGCAATCTGCCC
66 AGAGATTGGCTGATGGTGA--TGCCCCAAGCATGGGGTAAAAGATCAAATGGCTGCAATCTGCCC
* * * * * *
32152 CATGTTTGGGGTATGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGA
129 CAAGCTCGGGGTAAGAGATTGGCTGATGGTAATCTGCCCCAAGCTCGAGGTAAGAGA
* * **
32209 TTGCAATCTGCCCCAAGCTCAGGGTAAGAGATCGAATGGCTGTAATCTACCTCATTATCGAGGTA
1 TTGCAATCTGCCCCAAGATCAGGGTAAGAGATCGAATGGCTGCAATCTACCTCAAGATCGAGGTA
* * *
32274 AGAGATTGGCTGATGGTGA-GCCCCAAGC-TCGGGGTAAAAGATCGAATGGCTGTAATTTGCCCC
66 AGAGATTGGCTGATGGTGATGCCCCAAGCAT-GGGGTAAAAGATCAAATGGCTGCAATCTGCCCC
*
32337 AAGCTCGGGGTAAGAGATTGGCTGATGGTAATCTGCCCCAAGCTCGAGGTAATAGA
130 AAGCTCGGGGTAAGAGATTGGCTGATGGTAATCTGCCCCAAGCTCGAGGTAAGAGA
32393 T
1 T
32394 CGAATGGTTG
Statistics
Matches: 163, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
183 1 0.01
184 88 0.54
187 74 0.45
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (185 bp):
TTGCAATCTGCCCCAAGATCAGGGTAAGAGATCGAATGGCTGCAATCTACCTCAAGATCGAGGTA
AGAGATTGGCTGATGGTGATGCCCCAAGCATGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCA
AGCTCGGGGTAAGAGATTGGCTGATGGTAATCTGCCCCAAGCTCGAGGTAAGAGA
Found at i:32425 original size:78 final size:78
Alignment explanation
Indices: 32214--32643 Score: 460
Period size: 78 Copynumber: 5.6 Consensus size: 78
32204 AGAGATTGCA
* * * * *** *
32214 ATCTGCCCCAAGCTCAGGGTAAGAGATCGAATGGCTGTAATCTACCTCATTATCGAGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
32279 TTGGCTGATGGTG
66 TTGGCTGATGGTG
* * * *
32292 A---GCCCCAAGCTCGGGGTAAAAGATCGAATGGCTGTAATTTGCCCCAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
*
32354 TTGGCTGATGGTA
66 TTGGCTGATGGTG
* * * * *
32367 ATCTGCCCCAAGCTCGAGGTAATAGATCGAATGGTTGCAATCTGCCTCAGGCTTGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
32432 TTGGCTGATGGTG
66 TTGGCTGATGGTG
* * * * *
32445 ATCTACCCCAAGCTTGGGGTAAGAGATTGAATGACTGCAATCTGCCCCAGGCTAGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
* *
32510 TTTGCTGATGATG
66 TTGGCTGATGGTG
* * * * * * * * *
32523 ATCTGCCCTAGGCTCGGGATAAGAGATCGGATGGCTGTAATTTGCCCCATGATTGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
32588 TTGGCTGAT-G-G
66 TTGGCTGATGGTG
* * * * *
32599 ATCTTCCCTAGGCTCGGGGTAAAAGATCGAAT--CTTCAATCTGCCC
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCC
32644 TTCTTGATTA
Statistics
Matches: 297, Mismatches: 52, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
74 10 0.03
75 65 0.22
76 29 0.10
78 193 0.65
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (78 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGA
TTGGCTGATGGTG
Found at i:32511 original size:39 final size:38
Alignment explanation
Indices: 31793--32630 Score: 365
Period size: 39 Copynumber: 21.8 Consensus size: 38
31783 AATGACTACC
* * * *
31793 ATCTGCCCCATGATCGGGGTAAGAGATT-AGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGA-ATGAT-GTA
* * * * * *
31832 ATCTACCCCAGGCTCGGGATAAAAGATCGAATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGTA
* * * * * *
31871 ATCTACCCTAGGCTCGGGGTAAGAGATCGGATGGCT-TCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGT-A
* * * * ** *
31910 ATTTGCCCTATGATCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGAT-GTA
* * * * *
31949 ATCTGCCCCAGGCTCGGGGTAAAAGATCGAATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGTA
* * * * *
31988 ATCTACCCCAAGCTCGGGATAAGAGATTGGATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGTA
* * * * *
32027 ATCTGCCCCATGATCGGGGTAAGAGATCGAATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGTA
* * ** *
32066 ATCTTCCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGAT-GTA
* * ** * *
32105 ATTTGCCCCAAGCAT-GGGGTAAAAGATCAAATGGTTGCA
1 ATCTGCCCCAAGC-TCGGGGTAAGAGATTGAAT-GATGTA
* * * * ** *
32144 ATCTGCCCCATGTTTGGGGTATGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGAT-GTA
*
32183 ATCTGCCCCAAGCTCGGGGT-A-AGA--G-AT--TGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGATGTA
* * *
32214 ATCTGCCCCAAGCTCAGGGTAAGAGATCGAATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGTA
* * *** * ** *
32253 ATCTACCTCATTATCGAGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGAT-GTA
* * *
32292 A---GCCCCAAGCTCGGGGTAAAAGATCGAATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGTA
* **
32328 ATTTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGAT-GTA
* * * * *
32367 ATCTGCCCCAAGCTCGAGGTAATAGATCGAATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGTA
* * * ** *
32406 ATCTGCCTCAGGCTTGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGAT-GTA
* * *
32445 ATCTACCCCAAGCTTGGGGTAAGAGATTGAATGACTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGA-TGTA
* * * *
32484 ATCTGCCCCAGGCTAGGGGTAAGAGATTTG-CTGATGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGA-TTGAATGATG-TA
* * * * * *
32523 ATCTGCCCTAGGCTCGGGATAAGAGATCGGATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GATGTA
* * * * ** *
32562 ATTTGCCCCATGATTGGGGTAAGAGATTGGCTGATG-G
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGATGTA
* * * * *
32599 ATCTTCCCTAGGCTCGGGGTAAAAGATCGAAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT
32631 CTTCAATCTG
Statistics
Matches: 592, Mismatches: 175, Indels: 66
0.71 0.21 0.08
Matches are distributed among these distances:
31 20 0.03
32 2 0.00
33 3 0.01
34 1 0.00
35 2 0.00
36 23 0.04
37 27 0.05
38 21 0.04
39 475 0.80
40 18 0.03
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (38 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGATGTA
Found at i:46395 original size:97 final size:96
Alignment explanation
Indices: 46207--46399 Score: 223
Period size: 97 Copynumber: 2.0 Consensus size: 96
46197 AAAAATCGTG
*
46207 CCTAGTAAGTTAAGGCACAAATTTTCAAAACTCAACATAAAGGAATATTGCCTCGATTTAAGGAT
1 CCTAGTAAGTTAAGGCACAAATTTTCAAAACCCAACATAAAGGAATATTGCCTCGATTTAA-GAT
**** *
46272 ATTCAAATATTTCAGTTTGAAGAAAAATGACA
65 ATTCAAATATTTCAGAAAAAAAAAAAATGACA
46304 CCTAGTAAGTTAAGGCA-AAATTTTTCAAAACCCGAA-ATAAAGGAATATTGCCTCGATTTTAA-
1 CCTAGTAAGTTAAGGCACAAA-TTTTCAAAACCC-AACATAAAGGAATATTGCCTCGA-TTTAAG
* * *
46366 ATATTTATAT-TTTGGAGAAAAATAAAAAAATGAC
63 ATATTCAAATATTT-CAGAAAAA-AAAAAAATGAC
46400 TTTAATTAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
95 3 0.04
96 14 0.17
97 58 0.71
98 7 0.09
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (96 bp):
CCTAGTAAGTTAAGGCACAAATTTTCAAAACCCAACATAAAGGAATATTGCCTCGATTTAAGATA
TTCAAATATTTCAGAAAAAAAAAAAATGACA
Found at i:46528 original size:16 final size:14
Alignment explanation
Indices: 46491--46520 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46481 AGCACGAATG
*
46491 AATAAATATACGAA
1 AATAAATATAAGAA
46505 AATAAATATAAGAA
1 AATAAATATAAGAA
46519 AA
1 AA
46521 ATTAAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AATAAATATAAGAA
Found at i:46723 original size:29 final size:28
Alignment explanation
Indices: 46663--46954 Score: 167
Period size: 30 Copynumber: 9.9 Consensus size: 28
46653 TTGGGATTTG
* *
46663 AAATGTAATTTGGGAAAGTTTTAGGGGTAA
1 AAATGTAATTTTGGAAAG--TTAAGGGTAA
*
46693 AAATGTCATTTTAGGAAAGTTAAGGGTAA
1 AAATGTAATTTT-GGAAAGTTAAGGGTAA
* * *
46722 AAATGTGATTTT-TAGAAGTTCGAGGGTAA
1 AAATGTAATTTTGGA-AAGTT-AAGGGTAA
* *
46751 AAATGTAATTTTTGAGAAGTTCGAGGGTAA
1 AAATGTAATTTTGGA-AAGTT-AAGGGTAA
* * *
46781 AAATGTGATTTTTGG-AAGTTTGAGGG-CA
1 AAATGT-AATTTTGGAAAG-TTAAGGGTAA
* * *
46809 AAATATAATTTTTGAGCAGTTCAAGGGTAA
1 AAATGTAATTTTGGA-AAGTT-AAGGGTAA
* ** * *
46839 AAATGTGATTTTTAAAAGTTCAGGGGAA
1 AAATGTAATTTTGGAAAGTTAAGGGTAA
** *
46867 AAATGTAATTTTTGAGAATCTTAAGGGTCA
1 AAATGTAA-TTTTG-GAAAGTTAAGGGTAA
*
46897 AAATGTAATTTTGGAAAAGTTTAAGAGTCAAA
1 AAATGTAATTTTGG-AAAG-TTAAGGGT--AA
* *
46929 AAATATGATTTATGGAAAGTTCAAGG
1 AAATGTAATTT-TGGAAAGTT-AAGG
46955 ACCTTCTAGG
Statistics
Matches: 206, Mismatches: 38, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
27 7 0.03
28 27 0.13
29 67 0.33
30 71 0.34
31 14 0.07
32 17 0.08
33 3 0.01
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (28 bp):
AAATGTAATTTTGGAAAGTTAAGGGTAA
Found at i:46756 original size:58 final size:59
Alignment explanation
Indices: 46687--46908 Score: 256
Period size: 58 Copynumber: 3.8 Consensus size: 59
46677 AAAGTTTTAG
*
46687 GGGTAAAAATGTCATTTTAGGA-AAGTT-AAGGGTAAAAATGTGATTTTTAGAAGTTCGA
1 GGGTAAAAATGTAATTTT-GGAGAAGTTCAAGGGTAAAAATGTGATTTTTAGAAGTTCGA
* * * *
46745 GGGTAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTTGA
1 GGGTAAAAATGTAATTTTGGAGAAGTTCAAGGGTAAAAATGTGATTTTTAGAAGTTCGA
* * * * *
46804 GGG-CAAAATATAATTTTTGAGCAGTTCAAGGGTAAAAATGTGATTTTTAAAAGTTC-A
1 GGGTAAAAATGTAATTTTGGAGAAGTTCAAGGGTAAAAATGTGATTTTTAGAAGTTCGA
* * * * *
46861 GGGGAAAAATGTAATTTTTGAGAA-TCTTAAGGGTCAAAATGTAATTTT
1 GGGTAAAAATGTAATTTTGGAGAAGT-TCAAGGGTAAAAATGTGATTTT
46909 GGAAAAGTTT
Statistics
Matches: 142, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
57 7 0.05
58 104 0.73
59 31 0.22
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (59 bp):
GGGTAAAAATGTAATTTTGGAGAAGTTCAAGGGTAAAAATGTGATTTTTAGAAGTTCGA
Found at i:48008 original size:18 final size:19
Alignment explanation
Indices: 47985--48034 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
47975 AGATTTCTTT
* *
47985 TTATTATTTTTTTAA-AAA
1 TTATTATATATTTAATAAA
48003 TTATTATATATTTAATAAA
1 TTATTATATATTTAATAAA
48022 -TATTATATATTTA
1 TTATTATATATTTA
48035 TTGATTATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 26 0.90
19 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATTATATATTTAATAAA
Found at i:48583 original size:6 final size:6
Alignment explanation
Indices: 48572--48652 Score: 55
Period size: 6 Copynumber: 14.0 Consensus size: 6
48562 ACTTTGATAT
* * * *
48572 TTTAAA TTTAAA -ATAAA TATAAA TTTAAA CTTAAGA --TGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
* *
48618 TTTAAA -CTAAA TTTAAA CTTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
48653 AATGGGTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
4 1 0.02
5 14 0.24
6 37 0.63
7 7 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:48598 original size:23 final size:23
Alignment explanation
Indices: 48572--48625 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
48562 ACTTTGATAT
*
48572 TTTAAATTTAAAATAAATATAAA
1 TTTAAACTTAAAATAAATATAAA
* * *
48595 TTTAAACTTAAGATGAATTTAAA
1 TTTAAACTTAAAATAAATATAAA
48618 TTTAAACT
1 TTTAAACT
48626 AAATTTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
TTTAAACTTAAAATAAATATAAA
Found at i:61457 original size:17 final size:18
Alignment explanation
Indices: 61425--61461 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
61415 GTTGATTGTG
*
61425 TTTAATTGCTTGTTTATA
1 TTTAATTGCATGTTTATA
61443 TTTAATT-CATGTTTATA
1 TTTAATTGCATGTTTATA
61460 TT
1 TT
61462 GTTATAGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTAATTGCATGTTTATA
Found at i:62759 original size:34 final size:31
Alignment explanation
Indices: 62718--62799 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 31
62708 AATTTTTTAT
* *
62718 AAATTAAAAATAATATGTATATTTATGTAATTAA
1 AAATTAAAAATAATA--TATATTT-TATAAATAA
* *
62752 TAATTAAAATTAATA-ATATTTTATAAATAA
1 AAATTAAAAATAATATATATTTTATAAATAA
62782 AAAGTTAAAAATAATATA
1 AAA-TTAAAAATAATATA
62800 AAAATTTAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
30 9 0.22
31 17 0.43
32 1 0.03
34 13 0.32
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (31 bp):
AAATTAAAAATAATATATATTTTATAAATAA
Found at i:63035 original size:3 final size:3
Alignment explanation
Indices: 63027--63052 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
63017 AACTTAATGT
63027 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
63053 GTAAAACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:72458 original size:5 final size:6
Alignment explanation
Indices: 72417--72484 Score: 57
Period size: 6 Copynumber: 10.7 Consensus size: 6
72407 AATAATATAT
* * *
72417 ATAAAA ATATAA ACAAAA ATAAAA ATAAATA A-GAAA ATAAAA ATGAAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA-A ATAAAA ATAAAA AT--AAAA
72467 ATAACAA ATAACAA ATAA
1 ATAA-AA ATAA-AA ATAA
72485 CAAAATGTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
5 2 0.04
6 28 0.55
7 15 0.29
8 6 0.12
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:72467 original size:14 final size:14
Alignment explanation
Indices: 72417--72488 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
72407 AATAATATAT
72417 ATAAAAATATAAACAA
1 ATAAAAA-AT-AACAA
* *
72433 A-AATAAA-AATAA
1 ATAAAAAATAACAA
72445 ATAAGAAAATAA-AA
1 ATAA-AAAATAACAA
72459 ATGAAAAAATAACAA
1 AT-AAAAAATAACAA
*
72474 ATAACAAATAACAA
1 ATAAAAAATAACAA
72488 A
1 A
72489 ATGTTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
12 5 0.11
13 2 0.04
14 27 0.57
15 12 0.26
16 1 0.02
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (14 bp):
ATAAAAAATAACAA
Found at i:72475 original size:7 final size:7
Alignment explanation
Indices: 72451--72488 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
72441 ATAAATAAGA
72451 AAATAA-
1 AAATAAC
*
72457 AAATGAAA
1 AAAT-AAC
72465 AAATAAC
1 AAATAAC
72472 AAATAAC
1 AAATAAC
72479 AAATAAC
1 AAATAAC
72486 AAA
1 AAA
72489 ATGTTAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 4 0.14
7 21 0.72
8 4 0.14
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.13
Consensus pattern (7 bp):
AAATAAC
Found at i:76261 original size:12 final size:12
Alignment explanation
Indices: 76240--76274 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
76230 ATTAGAATAG
*
76240 AAAAATTAAATT
1 AAAAATTAAAAT
*
76252 AAATATTAAAAT
1 AAAAATTAAAAT
76264 AAAAATTAAAA
1 AAAAATTAAAA
76275 ATGGCTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAATTAAAAT
Found at i:84149 original size:30 final size:29
Alignment explanation
Indices: 84064--84193 Score: 127
Period size: 29 Copynumber: 4.4 Consensus size: 29
84054 ATAATGGTTT
*
84064 AATTGCAATAACACCCTCAACTTTAGTAA
1 AATTACAATAACACCCTCAACTTTAGTAA
** * *
84093 AATTACAATAATGCTCTCAACATTAGTAA
1 AATTACAATAACACCCTCAACTTTAGTAA
* *
84122 AATTATAGTGAACACCCTCAACTTTAGTAA
1 AATTACAAT-AACACCCTCAACTTTAGTAA
* *
84152 AATTACAATAAAACCCACAAAACTTTAG-AA
1 AATTACAATAACACCCTC--AACTTTAGTAA
*
84182 ATACTACAATAA
1 A-ATTACAATAA
84194 TACTCCAAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
29 38 0.47
30 26 0.32
31 17 0.21
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (29 bp):
AATTACAATAACACCCTCAACTTTAGTAA
Found at i:85164 original size:45 final size:45
Alignment explanation
Indices: 85033--85165 Score: 212
Period size: 45 Copynumber: 3.0 Consensus size: 45
85023 TTCAAACCGG
* *
85033 TGATATTGTAAATATTATTTGATTGATTATGCTATACGATATGCA
1 TGATATGGTAAATATTATTTGATTGATTATGCTATACGGTATGCA
* *
85078 TGATAGGGTAAATATTATTGGATTGATTATGCTATACGGTATGCA
1 TGATATGGTAAATATTATTTGATTGATTATGCTATACGGTATGCA
* *
85123 TGATATGGTAAATATTATTTGATTGACTATGCTATATGGTATG
1 TGATATGGTAAATATTATTTGATTGATTATGCTATACGGTATG
85166 TAGGGGTGAG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (45 bp):
TGATATGGTAAATATTATTTGATTGATTATGCTATACGGTATGCA
Found at i:85408 original size:22 final size:23
Alignment explanation
Indices: 85360--85408 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
85350 TTGTTTAATT
* * **
85360 TTATTTAATTTTTTAAAATATTT
1 TTATTTAAATTTTTAAAACATGA
85383 TTATTTAAATTTTT-AAACATGA
1 TTATTTAAATTTTTAAAACATGA
85405 TTAT
1 TTAT
85409 ACAACGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTTAAATTTTTAAAACATGA
Found at i:85531 original size:19 final size:19
Alignment explanation
Indices: 85492--85527 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
85482 ACATAAGCAA
85492 AAGTTCAAGTAAACAACAT
1 AAGTTCAAGTAAACAACAT
85511 AAGTTCAAGT-AACAACA
1 AAGTTCAAGTAAACAACA
85528 ATAACACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.53, C:0.17, G:0.11, T:0.19
Consensus pattern (19 bp):
AAGTTCAAGTAAACAACAT
Found at i:91167 original size:45 final size:44
Alignment explanation
Indices: 91103--91499 Score: 225
Period size: 45 Copynumber: 9.4 Consensus size: 44
91093 ACCCTTAATT
*
91103 GTATGCATGATATGGTAAATATTATTGGATTGACTCTGCTATAC
1 GTATGCATGATATGGTAAATATTATTGGATTGACTATGCTATAC
* * *
91147 AGTATGCATGATATGGTAAATATCATTTGATTGATTATGCTATAC
1 -GTATGCATGATATGGTAAATATTATTGGATTGACTATGCTATAC
** * *
91192 GATATGCATGATATGGTAAATATTATTATATGGTA-TGAATGATATA-
1 G-TATGCATGATATGGTAAATATTATTGGATTG-ACT--ATGCTATAC
* * ** * * *
91238 GTAAGTAT--TAT--TTGAT-TGATT--A-TG-CTATAC--GA-
1 GTATGCATGATATGGTAAATATTATTGGATTGACTATGCTATAC
** *
91270 -TATGCATGATATGGTAAATATTATTTTATTGATTATGCTATAC
1 GTATGCATGATATGGTAAATATTATTGGATTGACTATGCTATAC
* * * * *
91313 GATATGCATGATATGATAAATATTATTTGACTGATTATGCTATAAG
1 G-TATGCATGATATGGTAAATATTATTGGATTGACTATGCTAT-AC
* * * * *
91359 GTGTGCATGATATGGTAAATATTATTTGATTAAGTATGTTATAC
1 GTATGCATGATATGGTAAATATTATTGGATTGACTATGCTATAC
** *
91403 GATATAAATGATATGGTAAATATTA----ATTGA-T-TGAT-TA-
1 G-TATGCATGATATGGTAAATATTATTGGATTGACTATGCTATAC
* * *
91440 -TAT--ATGATATGGTAAATATTATTTGATTGATTATGCAATAC
1 GTATGCATGATATGGTAAATATTATTGGATTGACTATGCTATAC
91481 GATATGCATGATATGGTAA
1 G-TATGCATGATATGGTAA
91500 GTACTATTTG
Statistics
Matches: 275, Mismatches: 44, Indels: 66
0.71 0.11 0.17
Matches are distributed among these distances:
31 5 0.02
32 1 0.00
33 21 0.08
34 2 0.01
35 6 0.02
36 5 0.02
37 6 0.02
38 5 0.02
39 7 0.03
40 11 0.04
41 7 0.03
42 1 0.00
43 6 0.02
44 3 0.01
45 178 0.65
46 4 0.01
47 7 0.03
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (44 bp):
GTATGCATGATATGGTAAATATTATTGGATTGACTATGCTATAC
Found at i:91251 original size:76 final size:76
Alignment explanation
Indices: 91148--91294 Score: 258
Period size: 76 Copynumber: 1.9 Consensus size: 76
91138 CTGCTATACA
* *
91148 GTATGCATGATATGGTAAATATCATTTGATTGATTATGCTATACGATATGCATGATATGGTAAAT
1 GTATGAATGATATAGTAAATATCATTTGATTGATTATGCTATACGATATGCATGATATGGTAAAT
91213 ATTATTATATG
66 ATTATTATATG
* *
91224 GTATGAATGATATAGTAAGTATTATTTGATTGATTATGCTATACGATATGCATGATATGGTAAAT
1 GTATGAATGATATAGTAAATATCATTTGATTGATTATGCTATACGATATGCATGATATGGTAAAT
91289 ATTATT
66 ATTATT
91295 TTATTGATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.41
Consensus pattern (76 bp):
GTATGAATGATATAGTAAATATCATTTGATTGATTATGCTATACGATATGCATGATATGGTAAAT
ATTATTATATG
Found at i:91317 original size:121 final size:121
Alignment explanation
Indices: 91103--91339 Score: 377
Period size: 121 Copynumber: 2.0 Consensus size: 121
91093 ACCCTTAATT
* * *
91103 GTATGCATGATATGGTAAATATTATTGGATTGACTCTGCTATACAGTATGCATGATATGGTAAAT
1 GTATGAATGATATAGTAAATATTATTGGATTGACTATGCTATACAGTATGCATGATATGGTAAAT
*
91168 ATCATTTGATTGATTATGCTATACGATATGCATGATATGGTAAATATTATTATATG
66 ATCATTTGATTGATTATGCTATACGATATGCATGATATGATAAATATTATTATATG
* * *
91224 GTATGAATGATATAGTAAGTATTATTTGATTGATTATGCTATAC-GATATGCATGATATGGTAAA
1 GTATGAATGATATAGTAAATATTATTGGATTGACTATGCTATACAG-TATGCATGATATGGTAAA
* *
91288 TATTATTTTATTGATTATGCTATACGATATGCATGATATGATAAATATTATT
65 TATCATTTGATTGATTATGCTATACGATATGCATGATATGATAAATATTATT
91340 TGACTGATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
120 1 0.01
121 105 0.99
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (121 bp):
GTATGAATGATATAGTAAATATTATTGGATTGACTATGCTATACAGTATGCATGATATGGTAAAT
ATCATTTGATTGATTATGCTATACGATATGCATGATATGATAAATATTATTATATG
Found at i:91338 original size:90 final size:89
Alignment explanation
Indices: 91225--91527 Score: 317
Period size: 90 Copynumber: 3.5 Consensus size: 89
91215 TATTATATGG
*
91225 TATGAATGATAT-AGTAAGTATTATTTGATTGATTATGCTATACGATATGCATGATATGGTAAAT
1 TATGAATGATATGA-TAAATATTATTTGATTGATTATGCTATA-GATATGCATGATATGGTAAAT
*
91289 ATTATTTTATTGATTATGCTATACGA
64 ATTATTTGATTGATTATGCTATACGA
* * * *
91315 TATGCATGATATGATAAATATTATTTGACTGATTATGCTATAAGGTGTGCATGATATGGTAAATA
1 TATGAATGATATGATAAATATTATTTGATTGATTATGCTAT-AGATATGCATGATATGGTAAATA
* * *
91380 TTATTTGATTAAGTATGTTATACGA
65 TTATTTGATTGATTATGCTATACGA
* * *
91405 TATAAATGATATGGTAAATATTA----ATTGA-T-TG--AT-TATAT--ATGATATGGTAAATAT
1 TATGAATGATATGATAAATATTATTTGATTGATTATGCTATAGATATGCATGATATGGTAAATAT
*
91459 TATTTGATTGATTATGCAATACGA
66 TATTTGATTGATTATGCTATACGA
* * * * * *
91483 TATGCATGATATGGTAAGTACTATTTGATTAATTATGATAT-GATA
1 TATGAATGATATGATAAATATTATTTGATTGATTATGCTATAGATA
91528 AATATTATTT
Statistics
Matches: 177, Mismatches: 26, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
78 55 0.31
80 2 0.01
82 6 0.03
83 1 0.01
84 4 0.02
85 1 0.01
86 9 0.05
90 97 0.55
91 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (89 bp):
TATGAATGATATGATAAATATTATTTGATTGATTATGCTATAGATATGCATGATATGGTAAATAT
TATTTGATTGATTATGCTATACGA
Found at i:91447 original size:33 final size:33
Alignment explanation
Indices: 91405--91473 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
91395 TGTTATACGA
91405 TATAAATGATATGGTAAATATTAATTGATTGAT
1 TATAAATGATATGGTAAATATTAATTGATTGAT
* *
91438 TATATATGATATGGTAAATATTATTTGATTGAT
1 TATAAATGATATGGTAAATATTAATTGATTGAT
91471 TAT
1 TAT
91474 GCAATACGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (33 bp):
TATAAATGATATGGTAAATATTAATTGATTGAT
Found at i:91536 original size:29 final size:29
Alignment explanation
Indices: 91488--91548 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
91478 TACGATATGC
* * *
91488 ATGATATGGTAAGTACTATTTGATTAATT
1 ATGATATGATAAATACTATTTGATTAAGT
*
91517 ATGATATGATAAATATTATTTGATTAAGT
1 ATGATATGATAAATACTATTTGATTAAGT
91546 ATG
1 ATG
91549 CTATACAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (29 bp):
ATGATATGATAAATACTATTTGATTAAGT
Found at i:91549 original size:74 final size:74
Alignment explanation
Indices: 91365--91603 Score: 307
Period size: 74 Copynumber: 3.1 Consensus size: 74
91355 TAAGGTGTGC
* * ** *
91365 ATGATATGGTAAATATTATTTGATTAAGTATGTTATACGATATAAATGATATGGTAAATATTAAT
1 ATGATATGATAAATATTATTTGATTAAGTATGCTATACGATATGCATGATATGGTAAATATTATT
91430 TGATTGATTATAT
66 TGATT-A--AT-T
* * * * * *
91443 ATGATATGGTAAATATTATTTGATTGATTATGCAATACGATATGCATGATATGGTAAGTACTATT
1 ATGATATGATAAATATTATTTGATTAAGTATGCTATACGATATGCATGATATGGTAAATATTATT
91508 TGATTAATT
66 TGATTAATT
*
91517 ATGATATGATAAATATTATTTGATTAAGTATGCTATACAATATGCATGATATGGTAAATATTATT
1 ATGATATGATAAATATTATTTGATTAAGTATGCTATACGATATGCATGATATGGTAAATATTATT
*
91582 TGATTGATT
66 TGATTAATT
91591 ATGTTATATGATA
1 ATG--ATATGATA
91604 TGTATGATAT
Statistics
Matches: 142, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
74 70 0.49
75 2 0.01
76 8 0.06
77 1 0.01
78 61 0.43
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (74 bp):
ATGATATGATAAATATTATTTGATTAAGTATGCTATACGATATGCATGATATGGTAAATATTATT
TGATTAATT
Found at i:91567 original size:45 final size:45
Alignment explanation
Indices: 91517--91658 Score: 194
Period size: 45 Copynumber: 3.2 Consensus size: 45
91507 TTGATTAATT
* * *
91517 ATGATATGATAAATATTATTTGATTAAGTATGCTATACAATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACAATATGC
* ** *
91562 ATGATATGGTAAATATTATTTGATTGATTATGTTATATGATATGT
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACAATATGC
* * *
91607 ATGATATGGTAAATGTTATTTGATTGATTATGCTATACAACATAC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACAATATGC
91652 ATGATAT
1 ATGATAT
91659 ACGTTTCACT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (45 bp):
ATGATATGGTAAATATTATTTGATTGATTATGCTATACAATATGC
Found at i:91589 original size:123 final size:119
Alignment explanation
Indices: 91275--91631 Score: 358
Period size: 123 Copynumber: 3.0 Consensus size: 119
91265 TACGATATGC
* * * * * *
91275 ATGATATGGTAAATATTATTTTATTGATTATGCTATACGATATGCATGATATGATAAATATTATT
1 ATGATATGATAAATATTATTTGATTAAATATGCTATACAATATGCATGATATGGTAAATATTATT
* * * * *
91340 TGACTGATTATGCTATAAGGTGTGCATGATATGGTAAATATTATTTGATTAAGT
66 TGATTGATTATGCAATAAGATATGCATGATATGGTAAATACTATTTGATTAAGT
* * * * ** ** * **
91394 ATGTTATACGATATAA-ATGATATG-GTAAATATTAATTGATTGATTATATATGATATGGTAAAT
1 ATG--ATATGATA-AATATTATTTGATTAAATA-T-GCT-ATACAATATGCATGATATGGTAAAT
* * *
91457 ATTATTTGATTGATTATGCAATACGATATGCATGATATGGTAAGTACTATTTGATTAATT
60 ATTATTTGATTGATTATGCAATAAGATATGCATGATATGGTAAATACTATTTGATTAAGT
*
91517 ATGATATGATAAATATTATTTGATTAAGTATGCTATACAATATGCATGATATGGTAAATATTATT
1 ATGATATGATAAATATTATTTGATTAAATATGCTATACAATATGCATGATATGGTAAATATTATT
** * * **
91582 TGATTGATTATGTTATATGATATGTATGATATGGTAAATGTTATTTGATT
66 TGATTGATTATGCAATAAGATATGCATGATATGGTAAATACTATTTGATT
91632 GATTATGCTA
Statistics
Matches: 186, Mismatches: 44, Indels: 16
0.76 0.18 0.07
Matches are distributed among these distances:
119 72 0.39
120 7 0.04
121 26 0.14
122 8 0.04
123 73 0.39
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (119 bp):
ATGATATGATAAATATTATTTGATTAAATATGCTATACAATATGCATGATATGGTAAATATTATT
TGATTGATTATGCAATAAGATATGCATGATATGGTAAATACTATTTGATTAAGT
Found at i:92550 original size:3 final size:3
Alignment explanation
Indices: 92542--92579 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
92532 CTCGTTAATG
92542 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
92580 CGTTTTGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:94619 original size:21 final size:21
Alignment explanation
Indices: 94590--94640 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
94580 AGTTACACGG
* *
94590 GTAGACACACGGGCCTGTGGA
1 GTAGCCACACGGACCTGTGGA
** *
94611 GTAGCCACATTGACGTGTGGA
1 GTAGCCACACGGACCTGTGGA
94632 GTAGCCACA
1 GTAGCCACA
94641 TGGTCTAGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.33, T:0.18
Consensus pattern (21 bp):
GTAGCCACACGGACCTGTGGA
Found at i:99329 original size:19 final size:17
Alignment explanation
Indices: 99290--99333 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
99280 AGTAAAAAAT
* *
99290 AAAAAAATTAAAATTTT
1 AAAAATATTAAAATTTG
99307 AAAAATATTATAAATTATG
1 AAAAATATTA-AAATT-TG
99326 AAAAATAT
1 AAAAATAT
99334 GGAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 5 0.22
19 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAAATATTAAAATTTG
Found at i:99626 original size:17 final size:19
Alignment explanation
Indices: 99606--99652 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
99596 TTTGATTGTC
99606 TATAATTTTTAT-AATT-T
1 TATAATTTTTATAAATTAT
*
99623 TATAATGTTTTTTAAATTAT
1 TATAAT-TTTTATAAATTAT
99643 TAATAATTTT
1 T-ATAATTTT
99653 GAATTATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 4 0.16
20 5 0.20
21 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATAATTTTTATAAATTAT
Found at i:99652 original size:18 final size:20
Alignment explanation
Indices: 99607--99652 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
99597 TTGATTGTCT
*
99607 ATAATTTTTATAATTTTATA
1 ATAATTTTTATAATTATATA
**
99627 ATGTTTTTTA-AATTAT-TA
1 ATAATTTTTATAATTATATA
99645 ATAATTTT
1 ATAATTTT
99653 GAATTATTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATAATTTTTATAATTATATA
Found at i:101721 original size:13 final size:13
Alignment explanation
Indices: 101680--101722 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
101670 AAAAACTAAA
101680 AAAATTAAATTCTT
1 AAAATTAAATT-TT
* **
101694 AAAATAAAAAATT
1 AAAATTAAATTTT
101707 AAAATTAAATTTT
1 AAAATTAAATTTT
101720 AAA
1 AAA
101723 TGTACGAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAATTAAATTTT
Found at i:103191 original size:18 final size:18
Alignment explanation
Indices: 103168--103202 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
103158 AAATTTAAAA
*
103168 ATATTTTTTATAATTTTC
1 ATATTTTTAATAATTTTC
103186 ATATTTTTAATAATTTT
1 ATATTTTTAATAATTTT
103203 TAATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
ATATTTTTAATAATTTTC
Found at i:103252 original size:39 final size:37
Alignment explanation
Indices: 103177--103258 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 37
103167 AATATTTTTT
*
103177 ATAATTTTCATATTTTTAATAATTTTTAATTTTAAAA
1 ATAATTTTCATATTTTTAATAATTTTAAATTTTAAAA
103214 ATAATTTT-ATAGCTTTTTAA-AATTATTAAAGTTTTAAAA
1 ATAATTTTCATA--TTTTTAATAATT-TTAAA-TTTTAAAA
103253 ATAATT
1 ATAATT
103259 AAATGCTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
36 3 0.08
37 12 0.30
38 11 0.28
39 14 0.35
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (37 bp):
ATAATTTTCATATTTTTAATAATTTTAAATTTTAAAA
Found at i:103259 original size:18 final size:19
Alignment explanation
Indices: 103206--103261 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
103196 TAATTTTTAA
*
103206 TTTTAAAAATAATTTTATAGC
1 TTTTAAAAATAA--TTAAAGC
* *
103227 TTTTTAAAATTATTAAAG-
1 TTTTAAAAATAATTAAAGC
103245 TTTTAAAAATAATTAAA
1 TTTTAAAAATAATTAAA
103262 TGCTAAAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 15 0.50
19 5 0.17
21 10 0.33
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTTAAAAATAATTAAAGC
Found at i:103795 original size:16 final size:16
Alignment explanation
Indices: 103763--103797 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
103753 GGTTCCATTT
*
103763 TTTAAAATTATACTAA
1 TTTAAAATTAAACTAA
*
103779 TTTAAAATTAAAGTAA
1 TTTAAAATTAAACTAA
103795 TTT
1 TTT
103798 GAGTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (16 bp):
TTTAAAATTAAACTAA
Found at i:104021 original size:9 final size:11
Alignment explanation
Indices: 103972--104014 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
103962 TATGCATGAA
*
103972 TAAAATATGAT
1 TAAAATATTAT
*
103983 ATAAAATAATTGT
1 -TAAAAT-ATTAT
103996 TAAAATATTAT
1 TAAAATATTAT
104007 TAAAATAT
1 TAAAATAT
104015 ATAAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 12 0.44
12 12 0.44
13 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:104462 original size:31 final size:31
Alignment explanation
Indices: 104391--104468 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
104381 CAGTTATGAA
* *
104391 ATTTTTAATTTAGTCACTAATGTTTTAGATC
1 ATTTTTATTTTAGTCACTAACGTTTTAGATC
* * *
104422 ATTTCTATTTTAGTTACTTACGTTTTAGAGT-
1 ATTTTTATTTTAGTCACTAACGTTTTAGA-TC
* *
104453 GTTTTTATTTTGGTCA
1 ATTTTTATTTTAGTCA
104469 AAGGGTTAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.23, C:0.09, G:0.13, T:0.55
Consensus pattern (31 bp):
ATTTTTATTTTAGTCACTAACGTTTTAGATC
Found at i:109796 original size:45 final size:45
Alignment explanation
Indices: 109739--109837 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
109729 TCGACCTAAC
* * *
109739 CCATTGACCAACCCAAACTGGATCGTTGACTTTGACCT-AATCGAA
1 CCATTGACCAACCCAAACCGGACCGTTAACTTTG-CCTGAATCGAA
* * *
109784 CCATTGATCAACCCAAACCGGACCGTTAACTTTGTCTGAGTCGAA
1 CCATTGACCAACCCAAACCGGACCGTTAACTTTGCCTGAATCGAA
109829 CCATTGACC
1 CCATTGACC
109838 GTTGATAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
44 2 0.04
45 44 0.96
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (45 bp):
CCATTGACCAACCCAAACCGGACCGTTAACTTTGCCTGAATCGAA
Found at i:117053 original size:23 final size:23
Alignment explanation
Indices: 117027--117071 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
117017 CGAACCGGAT
117027 CGTTGACTTTGACCGAATCGAAC
1 CGTTGACTTTGACCGAATCGAAC
**
117050 CGTTGACTTTGTTCGAATCGAA
1 CGTTGACTTTGACCGAATCGAA
117072 TAGTTGACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
CGTTGACTTTGACCGAATCGAAC
Found at i:117077 original size:23 final size:23
Alignment explanation
Indices: 117028--117079 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
117018 GAACCGGATC
*
117028 GTTGACTTTGACCGAATCGAACC
1 GTTGACTTTGACCGAATCGAACA
** *
117051 GTTGACTTTGTTCGAATCGAATA
1 GTTGACTTTGACCGAATCGAACA
117074 GTTGAC
1 GTTGAC
117080 CGCTGACCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (23 bp):
GTTGACTTTGACCGAATCGAACA
Found at i:119074 original size:14 final size:14
Alignment explanation
Indices: 119037--119086 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
119027 AAGTAAATGA
119037 TCAA-AGTCAACGG
1 TCAACAGTCAACGG
* *
119050 TCAATAATCAACGG
1 TCAACAGTCAACGG
* *
119064 TCAACGGTCAATGG
1 TCAACAGTCAACGG
119078 TCAACAGTC
1 TCAACAGTC
119087 TATCAGCAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 4 0.13
14 26 0.87
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (14 bp):
TCAACAGTCAACGG
Found at i:119990 original size:2 final size:2
Alignment explanation
Indices: 119983--120011 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
119973 TGTGAACTCT
119983 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120012 TATCATGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:122963 original size:21 final size:21
Alignment explanation
Indices: 122917--122963 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
122907 AATTTTTCCT
* *
122917 TAAAGTAATGATGAAATTCCC
1 TAAAGTAACGATGAAATTACC
* *
122938 CAAAGTAACGATGAAATTAGC
1 TAAAGTAACGATGAAATTACC
122959 TAAAG
1 TAAAG
122964 GAATAAAAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (21 bp):
TAAAGTAACGATGAAATTACC
Found at i:129522 original size:7 final size:7
Alignment explanation
Indices: 129510--129540 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
129500 GTTCGGAACA
129510 GACCATT
1 GACCATT
129517 GACCATT
1 GACCATT
129524 GACCATT
1 GACCATT
129531 GACCATT
1 GACCATT
129538 GAC
1 GAC
129541 TTGACCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (7 bp):
GACCATT
Found at i:129558 original size:19 final size:19
Alignment explanation
Indices: 129511--129558 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
129501 TTCGGAACAG
* *
129511 ACCATTGACCATTGACCATTG
1 ACCATTGA-C-TTGACCAATA
129532 ACCATTGACTTGACCAATA
1 ACCATTGACTTGACCAATA
*
129551 ACCGTTGA
1 ACCATTGA
129559 TAATTGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 15 0.62
20 1 0.04
21 8 0.33
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (19 bp):
ACCATTGACTTGACCAATA
Found at i:129558 original size:26 final size:26
Alignment explanation
Indices: 129515--129568 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
129505 GAACAGACCA
* * *
129515 TTGACCATTGACCATTGACCATTGAC
1 TTGACCAATAACCATTGACAATTGAC
* *
129541 TTGACCAATAACCGTTGATAATTGAC
1 TTGACCAATAACCATTGACAATTGAC
129567 TT
1 TT
129569 TTTGGGTTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (26 bp):
TTGACCAATAACCATTGACAATTGAC
Found at i:129579 original size:20 final size:20
Alignment explanation
Indices: 129554--129591 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
129544 ACCAATAACC
129554 GTTGATAATTGACTTTTTGG
1 GTTGATAATTGACTTTTTGG
* *
129574 GTTGATCATTTACTTTTT
1 GTTGATAATTGACTTTTT
129592 CGAGAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.55
Consensus pattern (20 bp):
GTTGATAATTGACTTTTTGG
Found at i:132440 original size:31 final size:31
Alignment explanation
Indices: 132402--132464 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
132392 ATAAATAGAC
132402 GAAAAAGAAGGAAAAACATCATTAAGAACAA
1 GAAAAAGAAGGAAAAACATCATTAAGAACAA
132433 GAAAAAGAAGGAAAAACATCATTAAGAACAA
1 GAAAAAGAAGGAAAAACATCATTAAGAACAA
132464 G
1 G
132465 GGGATTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.63, C:0.10, G:0.17, T:0.10
Consensus pattern (31 bp):
GAAAAAGAAGGAAAAACATCATTAAGAACAA
Found at i:144927 original size:12 final size:12
Alignment explanation
Indices: 144910--144934 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
144900 TCTCTAAGCA
144910 TAAAATTTATCT
1 TAAAATTTATCT
144922 TAAAATTTATCT
1 TAAAATTTATCT
144934 T
1 T
144935 CAACCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATTTATCT
Found at i:147868 original size:72 final size:72
Alignment explanation
Indices: 147792--147942 Score: 187
Period size: 72 Copynumber: 2.1 Consensus size: 72
147782 ACAGGGTACG
* * ***
147792 CACGGGCTGGACACACGAGCGTGTGCCAGATGGTGTGTACATACTATTTTGTAAAATAAGTTATA
1 CACGGGCTGGACACACAAGCATGTGCCAGACCATGTGTACATACTATTTTGTAAAATAAGTTATA
147857 -GAGGCCA
66 GGAGG-CA
* * * **
147864 CACGGGTTGGACATACAAGCATGTGCCAGACCATGTGTACATACTGTTTTGTAAGTTAAGTTATA
1 CACGGGCTGGACACACAAGCATGTGCCAGACCATGTGTACATACTATTTTGTAAAATAAGTTATA
147929 GGAGGCA
66 GGAGGCA
*
147936 TACGGGC
1 CACGGGC
147943 ATGTGCCAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
72 62 0.94
73 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (72 bp):
CACGGGCTGGACACACAAGCATGTGCCAGACCATGTGTACATACTATTTTGTAAAATAAGTTATA
GGAGGCA
Found at i:161713 original size:16 final size:17
Alignment explanation
Indices: 161674--161715 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
161664 ATTACCTCTT
*
161674 TATTTTTCTCTTTCTTC
1 TATTTTTCTCTTTCTAC
**
161691 TCCTTTTCTC-TTCTAC
1 TATTTTTCTCTTTCTAC
161707 TATTTTTCT
1 TATTTTTCT
161716 TCTTGTTCAT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTTCTCTTTCTAC
Found at i:161767 original size:23 final size:22
Alignment explanation
Indices: 161741--161783 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
161731 TTTTTTTGCT
*
161741 CAAATCTAAACACCAATTTTAAA
1 CAAACCTAAAC-CCAATTTTAAA
*
161764 CAAACCTAAACCCATTTTTA
1 CAAACCTAAACCCAATTTTA
161784 TAATGTCCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (22 bp):
CAAACCTAAACCCAATTTTAAA
Found at i:162252 original size:29 final size:31
Alignment explanation
Indices: 162215--162277 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
162205 ATTCAATGTG
* *
162215 CAATAATATATGT-AAATTTTAATTTTG-TT
1 CAATAATATATATAAAACTTTAATTTTGATT
* *
162244 CAATTATATGTATAAAACTTTAATTTTGATT
1 CAATAATATATATAAAACTTTAATTTTGATT
162275 CAA
1 CAA
162278 CTTTCTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.36
30 13 0.46
31 5 0.18
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (31 bp):
CAATAATATATATAAAACTTTAATTTTGATT
Found at i:170621 original size:128 final size:128
Alignment explanation
Indices: 170393--170648 Score: 494
Period size: 128 Copynumber: 2.0 Consensus size: 128
170383 AGCAATTTAA
170393 TTATTTGTACCCATTTTGCTAAGAAAGCTGTTGAAGCTCTTTGCACCTTTCTTTGAGGGCTGCAC
1 TTATTTGTACCCATTTTGCTAAGAAAGCTGTTGAAGCTCTTTGCACCTTTCTTTGAGGGCTGCAC
*
170458 TTATGTTTCTTTCTGAGCGCCTTCACTTGAAAGTTTCCATTATTTTTCGCCATTAATGCAGAT
66 TTATGTTTCTTTCTGAGCGCCTTCACTTGAAAGTTTCCATTATTTTTCGCCACTAATGCAGAT
*
170521 TTATTTGTACCCATTTTGCTAAGAAAGCTGTTGAAGCTCTTTGCACCTTTCTTTGAGGGCTTCAC
1 TTATTTGTACCCATTTTGCTAAGAAAGCTGTTGAAGCTCTTTGCACCTTTCTTTGAGGGCTGCAC
170586 TTATGTTTCTTTCTGAGCGCCTTCACTTGAAAGTTTCCATTATTTTTCGCCACTAATGCAGAT
66 TTATGTTTCTTTCTGAGCGCCTTCACTTGAAAGTTTCCATTATTTTTCGCCACTAATGCAGAT
170649 ATACACCACT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 126 1.00
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.41
Consensus pattern (128 bp):
TTATTTGTACCCATTTTGCTAAGAAAGCTGTTGAAGCTCTTTGCACCTTTCTTTGAGGGCTGCAC
TTATGTTTCTTTCTGAGCGCCTTCACTTGAAAGTTTCCATTATTTTTCGCCACTAATGCAGAT
Found at i:172018 original size:57 final size:57
Alignment explanation
Indices: 171947--172194 Score: 329
Period size: 57 Copynumber: 4.4 Consensus size: 57
171937 AGTAGATCAA
* *
171947 AGCTCTACCTGAGCTGTACATGGCATTAAGCTCTAACCGAGACGTATGCAAATTCAT
1 AGCTCTACCTGAGCTGTACATGGCATTACGCTCTAACCGAGACGTATGCAAATCCAT
* * * *
172004 GGCTCTAGCC-GAGCTATACAAGGCATTACGCTCTAACCAAGACGTATGCAAATCCAT
1 AGCTCTA-CCTGAGCTGTACATGGCATTACGCTCTAACCGAGACGTATGCAAATCCAT
* * *
172061 AGCTCTACCTGAGTTGTACATGGCATTACGCTCTAACTGAGACGTATGTAAATCCAT
1 AGCTCTACCTGAGCTGTACATGGCATTACGCTCTAACCGAGACGTATGCAAATCCAT
* * **
172118 AGCTCTAACC-GAGCTGTACATGGAACTACGCTCTAACCGAGACGTATATAAATCCAT
1 AGCTCT-ACCTGAGCTGTACATGGCATTACGCTCTAACCGAGACGTATGCAAATCCAT
* *
172175 AGCTCCAACTGAGCTGTACA
1 AGCTCTACCTGAGCTGTACA
172195 GGAATCAAAG
Statistics
Matches: 167, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
56 4 0.02
57 158 0.95
58 5 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (57 bp):
AGCTCTACCTGAGCTGTACATGGCATTACGCTCTAACCGAGACGTATGCAAATCCAT
Found at i:172123 original size:29 final size:29
Alignment explanation
Indices: 171975--172179 Score: 103
Period size: 29 Copynumber: 7.2 Consensus size: 29
171965 CATGGCATTA
* *
171975 AGCTCTAACCGAGACGTATGCAAATTCAT
1 AGCTCTAACCGAGACGTATGTAAATCCAT
* * **
172004 GGCTCTAGCCGAG-C-TA--TACAAGGCATT
1 AGCTCTAACCGAGACGTATGTA-AATCCA-T
* *
172031 ACGCTCTAACCAAGACGTATGCAAATCCAT
1 A-GCTCTAACCGAGACGTATGTAAATCCAT
* * *
172061 AGCTCT-ACC-TGA-GT-TGTACATGGCATT
1 AGCTCTAACCGAGACGTATGTAAAT-CCA-T
*
172088 ACGCTCTAACTGAGACGTATGTAAATCCAT
1 A-GCTCTAACCGAGACGTATGTAAATCCAT
*
172118 AGCTCTAACCGAG-CTGTACATG-GAA--C-T
1 AGCTCTAACCGAGAC-GT--ATGTAAATCCAT
*
172145 ACGCTCTAACCGAGACGTATATAAATCCAT
1 A-GCTCTAACCGAGACGTATGTAAATCCAT
172175 AGCTC
1 AGCTC
172180 CAACTGAGCT
Statistics
Matches: 130, Mismatches: 23, Indels: 46
0.65 0.12 0.23
Matches are distributed among these distances:
25 6 0.05
26 10 0.08
27 11 0.08
28 35 0.27
29 38 0.29
30 12 0.09
31 11 0.08
32 7 0.05
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (29 bp):
AGCTCTAACCGAGACGTATGTAAATCCAT
Found at i:176526 original size:57 final size:57
Alignment explanation
Indices: 176464--176750 Score: 367
Period size: 57 Copynumber: 5.0 Consensus size: 57
176454 AAGCTCTATG
* * ** *
176464 TGGCATTATGCTCTAACCGAGACGTATGCAAATCCATCGCTCTAAAAGAGCTGTAGA
1 TGGCATTACGCTCTAACCGAGACGTATGCAAATCCATAGCTCTAACCGAGCTGTACA
* * * *
176521 TGGCATTACGCTCTAACCGAGACGTTTACAAATCCATAGCTCTACCCGAGCTATACA
1 TGGCATTACGCTCTAACCGAGACGTATGCAAATCCATAGCTCTAACCGAGCTGTACA
* * * * *
176578 TTGCATTATGCTCTAACCGAGATGTATGTAAATCCATAGCTCTACCCGAGCTGTACA
1 TGGCATTACGCTCTAACCGAGACGTATGCAAATCCATAGCTCTAACCGAGCTGTACA
* * * ** *
176635 TGGCATTACGTTCTAACCGAGACATATGCAAAGCCATAGCTCTAATTGAGTTGTACA
1 TGGCATTACGCTCTAACCGAGACGTATGCAAATCCATAGCTCTAACCGAGCTGTACA
* * *
176692 TGGCATTACCCTCTAACCGAGACGTATGCAAATCCATAGCTCTAACCAAGTTGTACA
1 TGGCATTACGCTCTAACCGAGACGTATGCAAATCCATAGCTCTAACCGAGCTGTACA
176749 TG
1 TG
176751 AATCAAAACT
Statistics
Matches: 196, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 196 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (57 bp):
TGGCATTACGCTCTAACCGAGACGTATGCAAATCCATAGCTCTAACCGAGCTGTACA
Found at i:176708 original size:171 final size:170
Alignment explanation
Indices: 176417--176735 Score: 449
Period size: 171 Copynumber: 1.9 Consensus size: 170
176407 GTAACCTTAC
* * * ** *
176417 GCTCTAATCGAGATGTAAGTAGATCGAAGCTCTACCCAAGCTCTATGTGGCATTATGCTCTAACC
1 GCTCTAACCGAGATGTAAGTAAATCCAAGCTCTACCCAAGCTCTACATGGCATTACGCTCTAACC
* * * * * *
176482 GAGACGTATGCAAATCCATCGCTCTAAAAGAGCTGTAGATGGCATTACGCTCTAACCGAGACGTT
66 GAGACATATGCAAAGCCATAGCTCTAAAAGAGCTGTACATGGCATTACCCTCTAACCGAGACGTA
176547 TACAAATCCATAGCTCTACCCGAGCTATACATTGCATTAT
131 TACAAATCCATAGCTCTACCCGAGCTATACATTGCATTAT
* * * *
176587 GCTCTAACCGAGATGTATGTAAATCCATAGCTCTACCCGAGCTGTACATGGCATTACGTTCTAAC
1 GCTCTAACCGAGATGTAAGTAAATCCA-AGCTCTACCCAAGCTCTACATGGCATTACGCTCTAAC
** *
176652 CGAGACATATGCAAAGCCATAGCTCTAATTGAGTTGTACATGGCATTACCCTCTAACCGAGACGT
65 CGAGACATATGCAAAGCCATAGCTCTAAAAGAGCTGTACATGGCATTACCCTCTAACCGAGACGT
*
176717 ATGCAAATCCATAGCTCTA
130 ATACAAATCCATAGCTCTA
176736 ACCAAGTTGT
Statistics
Matches: 128, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
170 23 0.18
171 105 0.82
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (170 bp):
GCTCTAACCGAGATGTAAGTAAATCCAAGCTCTACCCAAGCTCTACATGGCATTACGCTCTAACC
GAGACATATGCAAAGCCATAGCTCTAAAAGAGCTGTACATGGCATTACCCTCTAACCGAGACGTA
TACAAATCCATAGCTCTACCCGAGCTATACATTGCATTAT
Found at i:181636 original size:209 final size:209
Alignment explanation
Indices: 181239--182855 Score: 2036
Period size: 209 Copynumber: 7.8 Consensus size: 209
181229 GTCCACTTTT
* * * * * * * * * *
181239 ATTGAGTTTCACTTCGTTGAATTGGTCAATTTCTCTGTATCTCATCAAGAAGACGACCGCCTCAT
1 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCTCAT
* * *
181304 TATTTTAATCCACTTCTATGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTTTGTATCTTAT
66 TATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCAT
* * ** *
181369 CAGGAAGGT-ATCCGCTTTATTATTTTGACCTACTTCTCTGTATCTCATCAGGAAGATGGGGGTT
131 CAGGAAGATGA-CCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTT
*
181433 TGAAGCTTCACTCAC
195 TGAAGTTTCACTCAC
* * * *
181448 ATTGAGCTTCGCTTCATTGATTTAGTCTACTTCTCAATATCTCATCAAGAAGATGATCGTCTCAT
1 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCTCAT
* * *
181513 TATTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTTACTTCTCTGTATCTCAT
66 TATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCAT
* * *
181578 CAAGAAGGTGACCACTTTATTGCTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTT
131 CAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTT
181643 GAAGTTTCACTCAC
196 GAAGTTTCACTCAC
* * * *
181657 ATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGGTTGCATCAT
1 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCTCAT
* * *
181722 TATTTTAATCCACTTTTCTATATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCAT
66 TATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCAT
* *
181787 CAGGAAGGTGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGAAAGATGGGGGTTT
131 CAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTT
181852 GAAGTTTCACTCAC
196 GAAGTTTCACTCAC
* * *
181866 ATTGAGCTTCGCTTCATTGATTTGGTTTACTTCTTAGTATCTCATCAGGAAGATGA-CTGACTCA
1 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATC-GCCTCA
* * * * * * *
181930 TTGTTTTAATCCATTTCTCTGTATCTCATCAAGAAGATGGATTTGGTTCACTCCTCTGCATCTCG
65 TTATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCA
* * * * *
181995 TCAGGAAGATAACCACTTTATTGCTTTGACCCACTTCTTTATATCTCATTAGGAAGATAGGGGTT
130 TCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTT
182060 TGAAGTTTCACTCAC
195 TGAAGTTTCACTCAC
* * * * * *
182075 ATTGAACTTCACTTTATTAACTTGGTCTACTTCTCAGTATCTCATTAGGAAGATGATCGCCTCAT
1 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCTCAT
* * * * *
182140 TGTTTTAATCCACTTCTTTGTATCTCATCAAGAAGATGAATTTAGCTCACTTCTCTGTATCTCAT
66 TATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCAT
* * * *
182205 CAAGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGAGGTTT
131 CAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTT
*
182270 GAAATTTCACTCAC
196 GAAGTTTCACTCAC
**
182284 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATTTGGAAGATGA-CTGCCTCA
1 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATC-GCCTCA
* * * * **** *
182348 TTGTTTTAATCCACTTCTCTGTATCTCATCAAAAAGATGAATTTGGTTCACTCCTCTACGCCTCG
65 TTATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCA
* * * *
182413 T-TGGAAAGATGACCACTTTATTGCTTCGACCCACTTCTCTATATCTCATCAGGAAGATGGAGGT
130 TCAGG-AAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGT
*
182477 TTGAAATTTCACTCAC
194 TTGAAGTTTCACTCAC
** *
182493 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTTGGTATCCCATCAGGAAGATGATCGCCTCAT
1 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCTCAT
* * * *
182558 TGTTTTAATCCACTTCTCTGTATCTCATC-AGAAAGACGGATTTGGTTCAC-TC-CTTTACGCCT
66 TATTTTAATCCACTTCTCTGTATCTCATCAAG-AAGACGAATTTGGTTCACTTCTCTGTA--TCT
* * * * * *
182620 CGTTAGGAAGATGACCACTTTATTGCTTCGACCCATTTCTCTATATCTCATCAGGAAGAT-AGGG
128 CATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGG
* *
182684 TTTGAATTTTCACTCAA
193 TTTGAAGTTTCACTCAC
* * * * * *
182701 ATTGAG-TTGCACTTCAATGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCA
1 ATTGAGCTT-CGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCTCA
* * **
182765 TTGATTTT-ATCCACTTCT-T-TATCTCATAAAGAAGA-TAAGTTTGGTTCACTTCTCTACATCT
65 TT-ATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGAA-TTTGGTTCACTTCTCTGTATCT
* * *
182826 CGTCAGGAAGATGACCAGTTTATTACTTTG
128 CATCAGGAAGATGACCACTTTATTGCTTTG
182856 GATGACTGTA
Statistics
Matches: 1242, Mismatches: 150, Indels: 35
0.87 0.11 0.02
Matches are distributed among these distances:
205 1 0.00
206 50 0.04
207 9 0.01
208 89 0.07
209 1088 0.88
210 5 0.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (209 bp):
ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCCTCAT
TATTTTAATCCACTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCAT
CAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTT
GAAGTTTCACTCAC
Found at i:182249 original size:85 final size:85
Alignment explanation
Indices: 182103--182262 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
182093 AACTTGGTCT
* * * * * *
182103 ACTTCTCAGTATCTCATTAGGAAGATGATCGCCTCATTGTTTTAATCCACTTCTTTGTATCTCAT
1 ACTTCTCAGTATCTCATCAAGAAGATGACCGCCTCATTGCTTTAACCCACTTCTCTGTATCTCAT
182168 CAAGAAGATGAATTTAGCTC
66 CAAGAAGATGAATTTAGCTC
* * * * *
182188 ACTTCTCTGTATCTCATCAAGAAGGTGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCAT
1 ACTTCTCAGTATCTCATCAAGAAGATGACCGCCTCATTGCTTTAACCCACTTCTCTGTATCTCAT
*
182253 CAGGAAGATG
66 CAAGAAGATG
182263 GAGGTTTGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (85 bp):
ACTTCTCAGTATCTCATCAAGAAGATGACCGCCTCATTGCTTTAACCCACTTCTCTGTATCTCAT
CAAGAAGATGAATTTAGCTC
Found at i:182912 original size:39 final size:39
Alignment explanation
Indices: 182853--183015 Score: 202
Period size: 39 Copynumber: 4.2 Consensus size: 39
182843 GTTTATTACT
* *
182853 TTGGATGACTGTAATCTACCCCATGATCGGGGTAAGAGA
1 TTGGATGGCTGTAATCTACCCCATGATCGGGGTAAAAGA
* *
182892 TTGGATGGCTGTAATATACCCCATGATCGAGGTAAAAGA
1 TTGGATGGCTGTAATCTACCCCATGATCGGGGTAAAAGA
* * * * *
182931 TCGGGTGGCTGCAATTTGCCCCATGATCGGGGTAAAAGA
1 TTGGATGGCTGTAATCTACCCCATGATCGGGGTAAAAGA
* * *
182970 TCAGG-TGGCTGTAATCTGCCCCATGATCGGGGTCAAAGA
1 T-TGGATGGCTGTAATCTACCCCATGATCGGGGTAAAAGA
183009 TTGGATG
1 TTGGATG
183016 ATAATGTAAC
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 2 0.02
39 103 0.96
40 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (39 bp):
TTGGATGGCTGTAATCTACCCCATGATCGGGGTAAAAGA
Found at i:183399 original size:50 final size:50
Alignment explanation
Indices: 183274--183399 Score: 134
Period size: 50 Copynumber: 2.5 Consensus size: 50
183264 TTCGCATTTA
*
183274 CGACCTCAACCTTTCCCTTCACATC-TTCATGGTATCGGATTCGCCGTTG
1 CGACCTCAACCTTTCCCTTCACATCTTTCAAGGTATCGGATTCGCCGTTG
* * * * *
183323 CGGCCTTAA-CTCTT-CCTATCACATCTTTTAAGGTAT-TGAGTTCGCTGTTG
1 CGACCTCAACCT-TTCCCT-TCACATCTTTCAAGGTATCGGA-TTCGCCGTTG
*
183373 CGACCTCAACCTTTCCCTTCAAATCTT
1 CGACCTCAACCTTTCCCTTCACATCTT
183400 CATGTTTCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
48 5 0.08
49 18 0.29
50 34 0.55
51 5 0.08
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (50 bp):
CGACCTCAACCTTTCCCTTCACATCTTTCAAGGTATCGGATTCGCCGTTG
Found at i:184379 original size:13 final size:13
Alignment explanation
Indices: 184363--184432 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
184353 TTCTTTTCCC
*
184363 TTTTTTT-TTCTT
1 TTTTTTTCTTTTT
*
184375 TTTTTTCCTTTTT
1 TTTTTTTCTTTTT
*
184388 GTATTTTTCTTTTT
1 -TTTTTTTCTTTTT
* *
184402 CTTTTTTCTTTCCT
1 TTTTTTTCTTT-TT
*
184416 TTTTTTTATTTATT
1 TTTTTTTCTTT-TT
184430 TTT
1 TTT
184433 CTTCATCGAA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
12 6 0.14
13 13 0.30
14 25 0.57
ACGTcount: A:0.04, C:0.11, G:0.01, T:0.83
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:194761 original size:35 final size:35
Alignment explanation
Indices: 194722--194799 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
194712 TTAACATAGG
* * *
194722 GACATGTTTAACATGCGAATTAGAATCAGAATAAT
1 GACATGCTTAACATGCAAATCAGAATCAGAATAAT
* * *
194757 GACATGCTTAACGTGCAAATCATAATCAGTATAAT
1 GACATGCTTAACATGCAAATCAGAATCAGAATAAT
194792 -ATCATGCT
1 GA-CATGCT
194800 CAATGCGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (35 bp):
GACATGCTTAACATGCAAATCAGAATCAGAATAAT
Found at i:210143 original size:29 final size:27
Alignment explanation
Indices: 210111--210169 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
210101 AATATGGGGC
*
210111 GTGAC-AATCTCTATTAAAGGAAAGCTTTT
1 GTGACGAATCTCTA--AAAGG-AAGCCTTT
*
210140 GTGACGAGTCTCTAAAAGGAAGCCTTT
1 GTGACGAATCTCTAAAAGGAAGCCTTT
210167 GTG
1 GTG
210170 GCTATCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 10 0.37
28 5 0.19
29 5 0.19
30 7 0.26
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (27 bp):
GTGACGAATCTCTAAAAGGAAGCCTTT
Found at i:210259 original size:28 final size:28
Alignment explanation
Indices: 210207--210283 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
210197 GACTATCTCA
210207 TTAAAGGAAG-CTTTCGTGGAT-ATCTTAG
1 TTAAAGGAAGCCTTT-GTGG-TGATCTTAG
*
210235 TTAAAGGAAGCCTTTGTGGTGATCTTTG
1 TTAAAGGAAGCCTTTGTGGTGATCTTAG
* *
210263 -GAAAGGAATGCCTTCGTGGTG
1 TTAAAGGAA-GCCTTTGTGGTG
210284 TAATCTGTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
27 8 0.19
28 31 0.72
29 4 0.09
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.34
Consensus pattern (28 bp):
TTAAAGGAAGCCTTTGTGGTGATCTTAG
Found at i:210990 original size:20 final size:20
Alignment explanation
Indices: 210965--211007 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
210955 AATGAACCAC
*
210965 TTACAAAACTAGTTAATTTT
1 TTACAAAACTAGTTAACTTT
* *
210985 TTACAACACTTGTTAACTTT
1 TTACAAAACTAGTTAACTTT
211005 TTA
1 TTA
211008 AACTACTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.47
Consensus pattern (20 bp):
TTACAAAACTAGTTAACTTT
Found at i:220350 original size:67 final size:67
Alignment explanation
Indices: 220260--220397 Score: 222
Period size: 67 Copynumber: 2.1 Consensus size: 67
220250 TTTTAGTGCC
* *
220260 TAATAAATATAATCTAAATTTTTCCAAAGCAAATAAAATAGCTAAAAGTTCTTTCTCAATGGTTG
1 TAATAAATATAATATAAAATTTTCCAAAGCAAATAAAATAGCTAAAAGTTCTTTCTCAATGGTTG
220325 AA
66 AA
* * **
220327 TAATAAATATGATATAAAATTTTCCAAAGCAAATACAATAGCTAAAAGTTCTTTCTCGGTGGTTG
1 TAATAAATATAATATAAAATTTTCCAAAGCAAATAAAATAGCTAAAAGTTCTTTCTCAATGGTTG
220392 AA
66 AA
220394 TAAT
1 TAAT
220398 TGGTTTGGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (67 bp):
TAATAAATATAATATAAAATTTTCCAAAGCAAATAAAATAGCTAAAAGTTCTTTCTCAATGGTTG
AA
Found at i:224054 original size:5 final size:5
Alignment explanation
Indices: 224046--224080 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
224036 ATTAAACTAA
*
224046 AAAAT AAAAT TAAAT -AAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
224081 TTGTTACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:224064 original size:14 final size:14
Alignment explanation
Indices: 224043--224077 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
224033 AATATTAAAC
224043 TAAA-AAATAAAAT
1 TAAATAAATAAAAT
224056 TAAATAAATAAAAT
1 TAAATAAATAAAAT
*
224070 AAAATAAA
1 TAAATAAA
224078 ATATTGTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAATAAATAAAAT
Found at i:231343 original size:24 final size:24
Alignment explanation
Indices: 231295--231344 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
231285 CAGGCTTTGT
* *
231295 TTCTTCCTTCTCGTTCTCATTTCC
1 TTCTTCCTTCTCGTTCTAATCTCC
231319 TTCTTCCTTCTC-TTGCTAATCTCC
1 TTCTTCCTTCTCGTT-CTAATCTCC
231343 TT
1 TT
231345 GATTAGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.06, C:0.36, G:0.04, T:0.54
Consensus pattern (24 bp):
TTCTTCCTTCTCGTTCTAATCTCC
Found at i:248671 original size:16 final size:18
Alignment explanation
Indices: 248639--248671 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
248629 TGTTAAAATT
248639 ATCAAATATATATTAATC
1 ATCAAATATATATTAATC
248657 ATCAAAT-TA-ATTAAT
1 ATCAAATATATATTAAT
248672 ATTTTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (18 bp):
ATCAAATATATATTAATC
Found at i:249379 original size:21 final size:21
Alignment explanation
Indices: 249355--249395 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
249345 CAAGGTTTAA
249355 GGGTTTGAAGTTATGGGTTTG
1 GGGTTTGAAGTTATGGGTTTG
249376 GGGTTTGAAGTTATGGGTTT
1 GGGTTTGAAGTTATGGGTTT
249396 TATTATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (21 bp):
GGGTTTGAAGTTATGGGTTTG
Found at i:250132 original size:15 final size:16
Alignment explanation
Indices: 250114--250143 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
250104 TATTGGATCA
250114 TAAT-TTTTTATTTTT
1 TAATATTTTTATTTTT
250129 TAATATTTTTATTTT
1 TAATATTTTTATTTT
250144 AATGATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TAATATTTTTATTTTT
Found at i:253232 original size:3 final size:3
Alignment explanation
Indices: 253215--253262 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
253205 TTTCGCTTGA
* * * *
253215 TTC TTC CTC -TC TTC TTC TTC GTC GTC GTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
253262 T
1 T
253263 CACTCTCAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.00, C:0.35, G:0.06, T:0.58
Consensus pattern (3 bp):
TTC
Found at i:254311 original size:23 final size:23
Alignment explanation
Indices: 254240--254315 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
254230 ATATATAATA
* *
254240 ATTTATAAATATTTAATAATAAAT
1 ATTT-TAAATATTTAATTATGAAT
* ** *
254264 ATTTTATAGTATAAAAATATGAAT
1 ATTTTA-AATATTTAATTATGAAT
*
254288 ATTTTAATTATTTAATTATGAAT
1 ATTTTAAATATTTAATTATGAAT
254311 ATTTT
1 ATTTT
254316 TTTAAATCAT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
23 20 0.49
24 21 0.51
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
ATTTTAAATATTTAATTATGAAT
Found at i:254445 original size:13 final size:14
Alignment explanation
Indices: 254424--254459 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
254414 TTTCACTAAA
254424 AAAAT-ATTTTA-G
1 AAAATGATTTTAGG
254436 AAAATGATTTTAGG
1 AAAATGATTTTAGG
254450 AAAA-GATTTT
1 AAAATGATTTT
254460 GAACAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (14 bp):
AAAATGATTTTAGG
Found at i:254986 original size:28 final size:30
Alignment explanation
Indices: 254939--254994 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
254929 GGAAGAAACG
*
254939 AAATAATTTAAAATATTTTATC-TAAAAAT
1 AAATAATTAAAAATATTTTATCATAAAAAT
254968 AAATAATTAAAAATA-TTTATCATAAAA
1 AAATAATTAAAAATATTTTATCATAAAA
254995 TTTAAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (30 bp):
AAATAATTAAAAATATTTTATCATAAAAAT
Found at i:263351 original size:19 final size:18
Alignment explanation
Indices: 263313--263351 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
263303 TCATTTGTTT
* *
263313 TTATTAATTTACATTTTA
1 TTATTAATTTAAATTGTA
263331 TTATTAAATTTAAATTGTA
1 TTATT-AATTTAAATTGTA
263350 TT
1 TT
263352 TATATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATTAATTTAAATTGTA
Found at i:264708 original size:247 final size:247
Alignment explanation
Indices: 264253--264742 Score: 829
Period size: 248 Copynumber: 2.0 Consensus size: 247
264243 AGGGATGGTT
264253 ATAAGTGAACCTTTCAGGTGGCAGCCATTATCGAGAAGTTACCCATGCTTGGAATGACATCAAGA
1 ATAAGTGAACCTTTCAGGTGGCAGCCATTATCGAGAAGTTACCCATGCTTGGAATGACATCAAGA
*
264318 ACTATCTGAACCATAAAATAAAGGAAATGACACTGGAAGATTTGATTGTCAGACTTCAAATTGAA
66 ACTATCTGAACCATAAAAGAAAGGAAATGACACTGGAAGATTTGATTGTCAGACTTCAAATTGAA
* * *
264383 GAAGACAATAGAAGTGCAGCCAAAAAGCTCAACAAAGCAGTCAATCTTAATGTGTCTAAAGCAAA
131 GAAGACAATAGAAGTGCAGCCAAAAAGCTCAACAAAGAAGTCAATCTTAATATGGCTAAAGCAAA
* *
264448 TGTGGCAGAAGTCAAGAAAGACTTCAATAAGAAGAAACAACCTTAGACTTCA
196 TGTGGCAGAAGTCAAGAAAGACTTCAAGAAGAAGAAACAACCTCAGACTTCA
*
264500 ATAAGTGAACCTTTCAGGTGGCAGCCATTATCGAGAAGTTACCCCATGCTTGGAATGACTTCAAG
1 ATAAGTGAACCTTTCAGGTGGCAGCCATTATCGAGAAGTTA-CCCATGCTTGGAATGACATCAAG
* * ***
264565 AACTATCTGAAGCATAAAAGAAAGGAAATGACAGTGGAAGATTTGATTGTCAGACTTTGGATTGA
65 AACTATCTGAACCATAAAAGAAAGGAAATGACACTGGAAGATTTGATTGTCAGACTTCAAATTGA
* *
264630 AGAAGACAATAGAAGTGCAGCCAAAAAGCTTAAC-AAGAAGTCAATCTTAATATGGCTAAGGCAA
130 AGAAGACAATAGAAGTGCAGCCAAAAAGCTCAACAAAGAAGTCAATCTTAATATGGCTAAAGCAA
*
264694 ATGTGGCAGAAGTCAAGAAAGACTTCAAGAAGAAGAAATAACCTCAGAC
195 ATGTGGCAGAAGTCAAGAAAGACTTCAAGAAGAAGAAACAACCTCAGAC
264743 AGGGTCTAAG
Statistics
Matches: 227, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
247 113 0.50
248 114 0.50
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.22
Consensus pattern (247 bp):
ATAAGTGAACCTTTCAGGTGGCAGCCATTATCGAGAAGTTACCCATGCTTGGAATGACATCAAGA
ACTATCTGAACCATAAAAGAAAGGAAATGACACTGGAAGATTTGATTGTCAGACTTCAAATTGAA
GAAGACAATAGAAGTGCAGCCAAAAAGCTCAACAAAGAAGTCAATCTTAATATGGCTAAAGCAAA
TGTGGCAGAAGTCAAGAAAGACTTCAAGAAGAAGAAACAACCTCAGACTTCA
Found at i:269167 original size:18 final size:19
Alignment explanation
Indices: 269144--269182 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
269134 TCATTTGTTT
269144 TTATT-AATTTACAATT-TA
1 TTATTAAATTTA-AATTGTA
269162 TTATTAAATTTAAATTGTA
1 TTATTAAATTTAAATTGTA
269181 TT
1 TT
269183 TCTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATTAAATTTAAATTGTA
Found at i:274476 original size:15 final size:16
Alignment explanation
Indices: 274445--274478 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
274435 AGATGATTAT
274445 ATAAAAAAATTCAATAA
1 ATAAAAAAATT-AATAA
274462 ATAAAAAAATT-ATAA
1 ATAAAAAAATTAATAA
274477 AT
1 AT
274479 TTATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAAAATTAATAA
Found at i:275712 original size:11 final size:11
Alignment explanation
Indices: 275696--275723 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
275686 ATTGTTGACT
275696 TTGACCAATTG
1 TTGACCAATTG
275707 TTGACCAATTG
1 TTGACCAATTG
275718 TTGACC
1 TTGACC
275724 TAGCATGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (11 bp):
TTGACCAATTG
Found at i:275829 original size:21 final size:21
Alignment explanation
Indices: 275803--275843 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
275793 ATTAAAAATG
275803 TAAAAA-AATATATATTATAAA
1 TAAAAACAATAT-TATTATAAA
*
275824 TAAAAACAATATTTTTATAA
1 TAAAAACAATATTATTATAA
275844 GATTCTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAACAATATTATTATAAA
Found at i:277152 original size:21 final size:23
Alignment explanation
Indices: 277125--277174 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
277115 ATTAATAAAA
*
277125 ATAAAATTTTTA-TTTAA-TATT
1 ATAAAATTTGTATTTTAATTATT
*
277146 TTAAAATTTGTATTTTAATTATT
1 ATAAAATTTGTATTTTAATTATT
277169 ATAAAA
1 ATAAAA
277175 ATTACAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 5 0.21
23 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATAAAATTTGTATTTTAATTATT
Found at i:278957 original size:25 final size:25
Alignment explanation
Indices: 278922--278976 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
278912 TGACCCTCCA
*
278922 AAAAATGATAAAAATTTA-ATTATTT
1 AAAAATGATAAAAATATAGATTA-TT
* *
278947 AAAAATTATAAAGATATAGATTATT
1 AAAAATGATAAAAATATAGATTATT
278972 AAAAA
1 AAAAA
278977 GATGAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (25 bp):
AAAAATGATAAAAATATAGATTATT
Found at i:279414 original size:97 final size:97
Alignment explanation
Indices: 279036--280138 Score: 1501
Period size: 97 Copynumber: 11.4 Consensus size: 97
279026 CTGGCTCTGT
* ** * *
279036 TATATTGATTTAAAATCTACAATGAAAAAATCTGAAATTTCTCAAGATATGATTCTATTGAATTT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATTT
*
279101 TCAGACTCATGTCAAAATAAATAATAGAAATATA
66 TCAGACTCATGTCAAAATCAATAATAG-AA-ATA
* * ** *
279135 TATATTGGTTTAAAATCTACAATGAAGAAATCCGAAATTTCTTGACATATAAATCTATTGAATTT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATTT
* *
279200 TCAAACTCATGTCAAAATCAATGATAGAAATA
66 TCAGACTCATGTCAAAATCAATAATAGAAATA
* ** *
279232 TATATTGGTTTAAAATCTACAATGAAATAAT--AGAAATTTCTCGGCATATAAATCTATTGAATT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCA-AAATTTCTCAACATATGAATCTATTGAATT
*
279295 TTCAGACTCATGTCAAAATCAATATTAGAAATA
65 TTCAGACTCATGTCAAAATCAATAATAGAAATA
* *
279328 TATATTGGTTTAAAATCTACAATGAAAAAAAT-CAAAATTTCTCAACATATGAATTTATTGAAAT
1 TATATTGGTTTAAAATCTACAATG-AAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATT
* *
279392 TTCAAACTCATGTCAAATTCAATAATAGAAATA
65 TTCAGACTCATGTCAAAATCAATAATAGAAATA
* * * * * *
279425 TATATTGATTTAAAATCTACAGTGGAAAAATTCAGAACTTCTCAACATATGAATCTATTGAATTT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATTT
*
279490 TCAGACTCATATCAAAATCAATAATAGAAATA
66 TCAGACTCATGTCAAAATCAATAATAGAAATA
* ** * *
279522 TA-ATTTGGTTTAAAATCTACAATGAAGAAATCCAAAATTTCTCGGCATATAAATTTATTGAATT
1 TATA-TTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATT
* *
279586 TTCAAACTCATGTCAAAATAAATAATAGAAATA
65 TTCAGACTCATGTCAAAATCAATAATAGAAATA
* ** * *
279619 TA-ATTTGGTTTAAAATCTACAATGAAGAAATCCAAAATTTCTCGGCATATAAATTTATTGAATT
1 TATA-TTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATT
* *
279683 TTCAAACTCATGTCAAAATAAATAATAGAAATA
65 TTCAGACTCATGTCAAAATCAATAATAGAAATA
* *
279716 TATATTGGTTTAAAATCTACAATGAAAAAAATCCAAAATTTCTCGACATGTGAATCTATTGAATT
1 TATATTGGTTTAAAATCTACAATG-AAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATT
279781 TTCAGACTCATGTCAAAATCAATAATAGAAATA
65 TTCAGACTCATGTCAAAATCAATAATAGAAATA
* * *
279814 TATATTGGTTTAAAATCTACAATGGAAAGATCCAAAATTTCTCAGCATATGAATCTATTGAATTT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATTT
279879 TCAGACTCATGTCAAAATCAATAATAGAAATA
66 TCAGACTCATGTCAAAATCAATAATAGAAATA
* * * *
279911 TATATTGGTTTAAAATCTACAATGAAGAAATCCAAAATTTCTCTACATATAAATCTATT-AAATT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATTT
279975 T-----TCATGTCAAAATCAATAATAGAAATA
66 TCAGACTCATGTCAAAATCAATAATAGAAATA
* * *
280002 TATATTGGTTTAAAATCTACAATGAAAAAATCCTAAATTTCTCAGCATATGAATCTATTGAAGTT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATTT
* * *
280067 TCATACTCATGTCAAAATAAAAAATAGAAATA
66 TCAGACTCATGTCAAAATCAATAATAGAAATA
* * *
280099 TATATTGGTTTCAAACCTACAAT-AAAGAAATCTAAAATTT
1 TATATTGGTTTAAAATCTACAATGAAA-AAATCCAAAATTT
280139 ATGAGCATAT
Statistics
Matches: 907, Mismatches: 83, Indels: 30
0.89 0.08 0.03
Matches are distributed among these distances:
91 80 0.09
92 5 0.01
96 97 0.11
97 550 0.61
98 94 0.10
99 81 0.09
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (97 bp):
TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATGAATCTATTGAATTT
TCAGACTCATGTCAAAATCAATAATAGAAATA
Found at i:279805 original size:389 final size:387
Alignment explanation
Indices: 279036--280203 Score: 1676
Period size: 389 Copynumber: 3.0 Consensus size: 387
279026 CTGGCTCTGT
* * * *
279036 TATATTGATTTAAAATCTACAAT-GAAAAAATCTGAAATTTCTCAAGATATGATTCTATTGAATT
1 TATATTGATTTAAAATCTACAATGGAAAAATTCAG-AATTTCTCAACATATGAATCTATTGAATT
*
279100 TTCAGACTCATGTCAAAATAAATAATAGAAATATATATATTGGTTTAAAATCTACAATGAAGAAA
65 TTCAGACTCATGTCAAAATCAATAATAGAAATATA-ATATTGGTTTAAAATCTACAATGAAGAAA
* * *
279165 TCCGAAATTTCTTGACATATAAATCTATTGAATTTTCAAACTCATGTCAAAATCAATGATAGAAA
129 TCCAAAATTTCTCGACATATAAATCTATTGAATTTTCAAACTCATGTCAAAATCAATAATAGAAA
279230 TATATATTGGTTTAAAATCTACAATGAAATAAT--AGAAATTTCTCGGCATATAAATCTATTGAA
194 TATATATTGGTTTAAAATCTACAATGAAA-AATCCA-AAATTTCTCGGCATATAAATCTATTGAA
* * *
279293 TTTTCAGACTCATGTCAAAATCAATATTAGAAATATATATTGGTTTAAAATCTACAATGAAAAAA
257 TTTTCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAA
* * * *
279358 AT-CAAAATTTCTCAACATATGAATTTATTGAAATTTCAAACTCATGTCAAATTCAATAATAGAA
322 ATCCAAAATTTCTCGACAT-TGAA-TTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAA
279422 ATA
385 ATA
* *
279425 TATATTGATTTAAAATCTACAGTGGAAAAATTCAGAACTTCTCAACATATGAATCTATTGAATTT
1 TATATTGATTTAAAATCTACAATGGAAAAATTCAGAATTTCTCAACATATGAATCTATTGAATTT
*
279490 TCAGACTCATATCAAAATCAATAATAGAAATATAAT-TTGGTTTAAAATCTACAATGAAGAAATC
66 TCAGACTCATGTCAAAATCAATAATAGAAATATAATATTGGTTTAAAATCTACAATGAAGAAATC
* * *
279554 CAAAATTTCTCGGCATATAAATTTATTGAATTTTCAAACTCATGTCAAAATAAATAATAGAAATA
131 CAAAATTTCTCGACATATAAATCTATTGAATTTTCAAACTCATGTCAAAATCAATAATAGAAATA
*
279619 TA-ATTTGGTTTAAAATCTACAATGAAGAAATCCAAAATTTCTCGGCATATAAATTTATTGAATT
196 TATA-TTGGTTTAAAATCTACAATGAA-AAATCCAAAATTTCTCGGCATATAAATCTATTGAATT
279683 TTCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAAAT
259 TTCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAAAT
279748 CCAAAATTTCTCGACATGTGAATCTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAAT
324 CCAAAATTTCTCGACAT-TGAAT-TATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAAT
279813 A
387 A
* * * * *
279814 TATATTGGTTTAAAATCTACAATGGAAAGATCCAAAATTTCTCAGCATATGAATCTATTGAATTT
1 TATATTGATTTAAAATCTACAATGGAAAAATTCAGAATTTCTCAACATATGAATCTATTGAATTT
279879 TCAGACTCATGTCAAAATCAATAATAGAAATAT-ATATTGGTTTAAAATCTACAATGAAGAAATC
66 TCAGACTCATGTCAAAATCAATAATAGAAATATAATATTGGTTTAAAATCTACAATGAAGAAATC
* *
279943 CAAAATTTCTCTACATATAAATCTATT-AAATTT-----TCATGTCAAAATCAATAATAGAAATA
131 CAAAATTTCTCGACATATAAATCTATTGAATTTTCAAACTCATGTCAAAATCAATAATAGAAATA
* * * *
280002 TATATTGGTTTAAAATCTACAATGAAAAAATCCTAAATTTCTCAGCATATGAATCTATTGAAGTT
196 TATATTGGTTTAAAATCTACAATG-AAAAATCCAAAATTTCTCGGCATATAAATCTATTGAATTT
* * * * *
280067 TCATACTCATGTCAAAATAAAAAATAGAAATATATATTGGTTTCAAACCTACAAT-AAAGAAATC
260 TCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAAATC
* * * * * *
280131 TAAAATTTAT-GAGCA-T--A-TA--GAATTTTTAGACTCATGTCAAAATTAATGATAAAAATA
325 CAAAATTTCTCGA-CATTGAATTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAATA
*
280188 TATATTGACTTAAAAT
1 TATATTGATTTAAAAT
280204 TATTGTCAAT
Statistics
Matches: 714, Mismatches: 54, Indels: 37
0.89 0.07 0.05
Matches are distributed among these distances:
374 48 0.07
376 2 0.00
378 1 0.00
380 1 0.00
381 2 0.00
382 18 0.03
383 131 0.18
384 3 0.00
386 1 0.00
387 114 0.16
388 102 0.14
389 282 0.39
390 9 0.01
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (387 bp):
TATATTGATTTAAAATCTACAATGGAAAAATTCAGAATTTCTCAACATATGAATCTATTGAATTT
TCAGACTCATGTCAAAATCAATAATAGAAATATAATATTGGTTTAAAATCTACAATGAAGAAATC
CAAAATTTCTCGACATATAAATCTATTGAATTTTCAAACTCATGTCAAAATCAATAATAGAAATA
TATATTGGTTTAAAATCTACAATGAAAAATCCAAAATTTCTCGGCATATAAATCTATTGAATTTT
CAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAAATCC
AAAATTTCTCGACATTGAATTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAATA
Found at i:279895 original size:292 final size:290
Alignment explanation
Indices: 279036--280138 Score: 1557
Period size: 292 Copynumber: 3.8 Consensus size: 290
279026 CTGGCTCTGT
* ** * * *
279036 TATATTGATTTAAAATCTACAATGAAAAAATCTGAAATTTCTCAAGATAT-GATTCTATTGAATT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATAAATT-TATTGAAAT
* *
279100 TTCAGACTCATGTCAAAATAAATAATAGAAATATATATATTGGTTTAAAATCTACAATGAAGAAA
65 TTCAAACTCATGTCAAAATAAATAATAG-AA-ATATATATTGGTTTAAAATCTACAATGAAAAAA
* * * * *
279165 TCCGAAATTTCTTGACATATAAATCTATTGAATTTTCAAACTCATGTCAAAATCAATGATAGAAA
128 TCCAAAATTTCTCGACATATGAATCTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAA
279230 TATATATTGGTTTAAAATCTACAATGAAATAAT--AGAAATTTCTCGGCATATAAATCTATTGAA
193 TATATATTGGTTTAAAATCTACAATGAAA-AATCCA-AAATTTCTCGGCATATAAATCTATTGAA
*
279293 TTTTCAGACTCATGTCAAAATCAATATTAGAAATA
256 TTTTCAGACTCATGTCAAAATCAATAATAGAAATA
*
279328 TATATTGGTTTAAAATCTACAATGAAAAAAAT-CAAAATTTCTCAACATATGAATTTATTGAAAT
1 TATATTGGTTTAAAATCTACAATG-AAAAAATCCAAAATTTCTCAACATATAAATTTATTGAAAT
* * * * * *
279392 TTCAAACTCATGTCAAATTCAATAATAGAAATATATATTGATTTAAAATCTACAGTGGAAAAATT
65 TTCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAATC
* * * *
279457 CAGAACTTCTCAACATATGAATCTATTGAATTTTCAGACTCATATCAAAATCAATAATAGAAATA
130 CAAAATTTCTCGACATATGAATCTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAATA
*
279522 TA-ATTTGGTTTAAAATCTACAATGAAGAAATCCAAAATTTCTCGGCATATAAATTTATTGAATT
195 TATA-TTGGTTTAAAATCTACAATGAA-AAATCCAAAATTTCTCGGCATATAAATCTATTGAATT
* *
279586 TTCAAACTCATGTCAAAATAAATAATAGAAATA
258 TTCAGACTCATGTCAAAATCAATAATAGAAATA
* ** *
279619 TA-ATTTGGTTTAAAATCTACAATGAAGAAATCCAAAATTTCTCGGCATATAAATTTATTGAATT
1 TATA-TTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATAAATTTATTGAAAT
279683 TTCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAAAT
65 TTCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATG-AAAAAAT
*
279748 CCAAAATTTCTCGACATGTGAATCTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAAT
129 CCAAAATTTCTCGACATATGAATCTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAAT
* * *
279813 ATATATTGGTTTAAAATCTACAATGGAAAGATCCAAAATTTCTCAGCATATGAATCTATTGAATT
194 ATATATTGGTTTAAAATCTACAAT-GAAAAATCCAAAATTTCTCGGCATATAAATCTATTGAATT
279878 TTCAGACTCATGTCAAAATCAATAATAGAAATA
258 TTCAGACTCATGTCAAAATCAATAATAGAAATA
* * *
279911 TATATTGGTTTAAAATCTACAATGAAGAAATCCAAAATTTCTCTACATATAAATCTATT-AAATT
1 TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATAAATTTATTGAAATT
*
279975 T-----TCATGTCAAAATCAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAATCC
66 TCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAATCC
* * * * *
280035 TAAATTTCTC-AGCATATGAATCTATTGAAGTTTCATACTCATGTCAAAATAAAAAATAGAAATA
131 AAAATTTCTCGA-CATATGAATCTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAATA
* * * *
280099 TATATTGGTTTCAAACCTACAATAAAGAAATCTAAAATTT
195 TATATTGGTTTAAAATCTACAATGAA-AAATCCAAAATTT
280139 ATGAGCATAT
Statistics
Matches: 732, Mismatches: 65, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
284 3 0.00
285 97 0.13
286 49 0.07
289 1 0.00
290 120 0.16
291 170 0.23
292 277 0.38
293 15 0.02
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (290 bp):
TATATTGGTTTAAAATCTACAATGAAAAAATCCAAAATTTCTCAACATATAAATTTATTGAAATT
TCAAACTCATGTCAAAATAAATAATAGAAATATATATTGGTTTAAAATCTACAATGAAAAAATCC
AAAATTTCTCGACATATGAATCTATTGAATTTTCAGACTCATGTCAAAATCAATAATAGAAATAT
ATATTGGTTTAAAATCTACAATGAAAAATCCAAAATTTCTCGGCATATAAATCTATTGAATTTTC
AGACTCATGTCAAAATCAATAATAGAAATA
Found at i:281775 original size:29 final size:30
Alignment explanation
Indices: 281740--281818 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
281730 AGTTAGATTT
281740 ATGTTACATTTTAGTCACTTATGATTA-G-A
1 ATGTTACATTTTAGTCACTTATG-TTACGTA
*
281769 ATGTTACGTTTTAGTCACTTATGTTACTGTA
1 ATGTTACATTTTAGTCACTTATGTTAC-GTA
* *
281800 TTGTAACATTTTAGTCACT
1 ATGTTACATTTTAGTCACT
281819 GGACCGTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 3 0.07
29 22 0.51
30 1 0.02
31 17 0.40
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.47
Consensus pattern (30 bp):
ATGTTACATTTTAGTCACTTATGTTACGTA
Found at i:282100 original size:25 final size:27
Alignment explanation
Indices: 282068--282127 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
282058 TTTTAACGAA
* *
282068 ATTTTAATG-TTTCAAAATTAGC-TAT
1 ATTTTAATGTTTTAAAAATTACCTTAT
*
282093 TTTTTAATGTTTTAAAAATTACCTTAT
1 ATTTTAATGTTTTAAAAATTACCTTAT
282120 ATTTTAAT
1 ATTTTAAT
282128 TATAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.28
26 11 0.38
27 10 0.34
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (27 bp):
ATTTTAATGTTTTAAAAATTACCTTAT
Found at i:283120 original size:18 final size:18
Alignment explanation
Indices: 283097--283139 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
283087 GTTCAAGGTG
283097 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
283115 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
283133 TAATTAA
1 TAATTAA
283140 AAACCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:290480 original size:19 final size:20
Alignment explanation
Indices: 290456--290493 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
290446 CCAGCATTAA
290456 TGTTTAAATAAT-AATATTT
1 TGTTTAAATAATGAATATTT
*
290475 TGTTTAAATTATGAATATT
1 TGTTTAAATAATGAATATT
290494 AATAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TGTTTAAATAATGAATATTT
Found at i:291367 original size:12 final size:13
Alignment explanation
Indices: 291345--291373 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
291335 TTACCAGGGA
291345 TTGTCAAAATTAT
1 TTGTCAAAATTAT
291358 TTGT-AAAATTAT
1 TTGTCAAAATTAT
291370 TTGT
1 TTGT
291374 TTTACATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (13 bp):
TTGTCAAAATTAT
Found at i:307963 original size:27 final size:27
Alignment explanation
Indices: 307925--307978 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
307915 CCTCCTTGCT
307925 AAACAAGGCTTGGCTGATTACTACAAA
1 AAACAAGGCTTGGCTGATTACTACAAA
307952 AAACAAGGCTTGGCTGATTACTACAAA
1 AAACAAGGCTTGGCTGATTACTACAAA
307979 TCTCGAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (27 bp):
AAACAAGGCTTGGCTGATTACTACAAA
Found at i:309780 original size:28 final size:28
Alignment explanation
Indices: 309734--309809 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
309724 TTTATTTCAA
* *
309734 AAAAATTATAAATTCAAATGATTA-TTTT
1 AAAAATTATAATTTAAAAT-ATTATTTTT
*
309762 AAAAATTATCATTTAAAATATTATTTTT
1 AAAAATTATAATTTAAAATATTATTTTT
*
309790 AAATATT-TAATTT-AAATATT
1 AAAAATTATAATTTAAAATATT
309810 TGTTAATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.17
27 9 0.21
28 26 0.62
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (28 bp):
AAAAATTATAATTTAAAATATTATTTTT
Found at i:309793 original size:13 final size:14
Alignment explanation
Indices: 309756--309809 Score: 58
Period size: 13 Copynumber: 3.9 Consensus size: 14
309746 TTCAAATGAT
*
309756 TATTTTAAAAATTA
1 TATTTTAAATATTA
*
309770 TCATTTAAAATATTA
1 T-ATTTTAAATATTA
309785 T-TTTTAAATATT-
1 TATTTTAAATATTA
*
309797 TAATTTAAATATT
1 TATTTTAAATATT
309810 TGTTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
12 1 0.03
13 20 0.59
14 1 0.03
15 12 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTTTAAATATTA
Found at i:310132 original size:21 final size:21
Alignment explanation
Indices: 310108--310147 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
310098 TATTGATTTT
*
310108 AATCTCATTGCGATAATAATC
1 AATCTCATTACGATAATAATC
*
310129 AATCTCATTACTATAATAA
1 AATCTCATTACGATAATAA
310148 CTATTATCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (21 bp):
AATCTCATTACGATAATAATC
Found at i:312078 original size:19 final size:20
Alignment explanation
Indices: 312038--312078 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
312028 ATTTTTTGGA
* *
312038 TTTTTAAAAAATTATAATTT
1 TTTTTAAAAAATTACAAATT
312058 TTTTTAAAAAA-TACAAATT
1 TTTTTAAAAAATTACAAATT
312077 TT
1 TT
312079 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTTAAAAAATTACAAATT
Found at i:312929 original size:29 final size:29
Alignment explanation
Indices: 312887--312956 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
312877 AACAAACATT
* * *
312887 TTATTTTTGTAATTAATTTATTTCTT-ACC
1 TTATTTTTATAATTAATTAATTT-TTAACA
*
312916 TTATTTTTATAATTAATTAATTTTTAATA
1 TTATTTTTATAATTAATTAATTTTTAACA
312945 TTATTTTTATAA
1 TTATTTTTATAA
312957 AGAGGTCACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 2 0.06
29 34 0.94
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (29 bp):
TTATTTTTATAATTAATTAATTTTTAACA
Found at i:314599 original size:29 final size:28
Alignment explanation
Indices: 314565--314620 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
314555 CTATAAATTT
* *
314565 TAAATTATTTACGTATTTAATTAAAAAAA
1 TAAATTATTTACATAATTAA-TAAAAAAA
314594 TAAATTATTTACATAATTAATAAAAAA
1 TAAATTATTTACATAATTAATAAAAAA
314621 TTTTAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (28 bp):
TAAATTATTTACATAATTAATAAAAAAA
Found at i:315897 original size:52 final size:51
Alignment explanation
Indices: 315806--315904 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
315796 TACAAATGGT
* *
315806 AAGAAAATATTATTTAATTATTTAATTTTATTCCATTAATTATTATGATTTC
1 AAGAAAATATTATTAAATTATTTAATTTTAAT-CATTAATTATTATGATTTC
315858 AAGAAAATATTATTAAATTATTTAATTTTAAAT-AGTTAATTATTATG
1 AAGAAAATATTATTAAATTATTTAATTTT-AATCA-TTAATTATTATG
315905 TTGTTGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
51 1 0.02
52 40 0.93
53 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (51 bp):
AAGAAAATATTATTAAATTATTTAATTTTAATCATTAATTATTATGATTTC
Found at i:317644 original size:63 final size:63
Alignment explanation
Indices: 317479--317673 Score: 151
Period size: 63 Copynumber: 3.1 Consensus size: 63
317469 CATGATCATT
** * * * * ** * *
317479 ACAACACACACAATCGTTCCTTGCATCAACACATAC-AACACCAA-TTTATTTTACACGAGCACC
1 ACAACACATGCAATCATTCCCTGCACCAACACA-ACTATCA-CAAGTTTATTACACACAAGCATC
* * **
317542 ACATCACATGCAATCATTCCCTGCACTAACACATTTATCACAAGTTTATTACACACAAGCATC
1 ACAACACATGCAATCATTCCCTGCACCAACACAACTATCACAAGTTTATTACACACAAGCATC
* * * * *** **
317605 ACAACACGTGCATTCGTTCCCTTCACCAACACAACTATCATTGGTTTATTATTCACAAGCATC
1 ACAACACATGCAATCATTCCCTGCACCAACACAACTATCACAAGTTTATTACACACAAGCATC
317668 ACAACA
1 ACAACA
317674 TGAACAATCA
Statistics
Matches: 103, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
62 3 0.03
63 100 0.97
ACGTcount: A:0.36, C:0.31, G:0.07, T:0.26
Consensus pattern (63 bp):
ACAACACATGCAATCATTCCCTGCACCAACACAACTATCACAAGTTTATTACACACAAGCATC
Found at i:324049 original size:66 final size:66
Alignment explanation
Indices: 323943--324076 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
323933 TACTCGATTA
* *
323943 AGTATTAGTGGTGATGGTAACTTGATGGTTGAATTAAGAGTTAAACCAGTGTTGGTTGATCTAAT
1 AGTATTAGTGGTGATGGTAACTTGATGGTTGAATTAAGAGTTAAACCAATGTTGGTTGATCAAAT
324008 T
66 T
324009 AGTATTAGTGGTGATGGTAACTTGATGGTTGAATTAAGAGTTAAACCAATGTTGGTTGATCAAAT
1 AGTATTAGTGGTGATGGTAACTTGATGGTTGAATTAAGAGTTAAACCAATGTTGGTTGATCAAAT
324074 T
66 T
324075 AG
1 AG
324077 AGAAGTGCAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (66 bp):
AGTATTAGTGGTGATGGTAACTTGATGGTTGAATTAAGAGTTAAACCAATGTTGGTTGATCAAAT
T
Done.