Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000742.1 Hibiscus syriacus cultivar Beakdansim tig00001432_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109130
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:355 original size:34 final size:34
Alignment explanation
Indices: 312--383 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
302 CGGGTAATAG
** *
312 AATAGCAGCAGCGGCTGAAACTGCTATTGCAGAA
1 AATAGCAGCAGCGGCTGAAACCACTATTGCAAAA
*
346 AATAGCAGCAGGGGCTGAAACCACTATTGCAAAA
1 AATAGCAGCAGCGGCTGAAACCACTATTGCAAAA
380 AATA
1 AATA
384 ACAGTGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (34 bp):
AATAGCAGCAGCGGCTGAAACCACTATTGCAAAA
Found at i:12235 original size:21 final size:21
Alignment explanation
Indices: 12209--12283 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
12199 GTTTCCAGAT
* *
12209 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
12230 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
12251 TCGCAATGCGAACTTGGATTA
1 TCGCAATGCGAACTTGGACTA
12272 TCGCAATGCGAA
1 TCGCAATGCGAA
12284 TATGTAAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:12296 original size:20 final size:20
Alignment explanation
Indices: 12271--12359 Score: 110
Period size: 20 Copynumber: 4.4 Consensus size: 20
12261 AACTTGGATT
12271 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
12291 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
12311 ATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
*
12332 ATCGCAATGTGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
12352 ATCACAAT
1 ATCGCAAT
12360 ACGATAGTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.03
19 3 0.05
20 39 0.65
21 11 0.18
22 3 0.05
23 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:12336 original size:41 final size:41
Alignment explanation
Indices: 12291--12368 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
12281 GAATATGTAA
* *
12291 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACT
1 ATCGCAATGCGAATATGTAAATCACAATACGATAGTCGACT
*
12332 ATCGCAATGTGAATATGTAAATCACAATACGATAGTC
1 ATCGCAATGCGAATATGTAAATCACAATACGATAGTC
12369 CAAAATCGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (41 bp):
ATCGCAATGCGAATATGTAAATCACAATACGATAGTCGACT
Found at i:12337 original size:21 final size:19
Alignment explanation
Indices: 12225--12340 Score: 69
Period size: 21 Copynumber: 5.7 Consensus size: 19
12215 CGCGAACTTC
12225 GACTATCGCAATGCGA-ACTT
1 GACTATCGCAATGCGATA--T
12245 GGACTATCGCAATGCGA-ACTT
1 -GACTATCGCAATGCGATA--T
*
12266 GGATTATCGCAATGCGAATAT
1 -GACTATCGCAATGCG-ATAT
*
12287 GTA-AATCGCAATGCGAATAT
1 G-ACTATCGCAATGCG-ATAT
*
12307 GTA-AATCGCAATGCGATAGT
1 G-ACTATCGCAATGCGATA-T
12327 CGACTATCGCAATG
1 -GACTATCGCAATG
12341 TGAATATGTA
Statistics
Matches: 86, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.03
20 34 0.40
21 47 0.55
22 1 0.01
23 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (19 bp):
GACTATCGCAATGCGATAT
Found at i:12377 original size:41 final size:41
Alignment explanation
Indices: 12289--12379 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
12279 GCGAATATGT
* * *
12289 AAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGA
1 AAATCGCAATGCGAATATGTAAATCACAATACGATAGTCCA
** *
12330 CTATCGCAATGTGAATATGTAAATCACAATACGATAGTCCA
1 AAATCGCAATGCGAATATGTAAATCACAATACGATAGTCCA
12371 AAATCGCAA
1 AAATCGCAA
12380 CGACTGGTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.23
Consensus pattern (41 bp):
AAATCGCAATGCGAATATGTAAATCACAATACGATAGTCCA
Found at i:12472 original size:6 final size:6
Alignment explanation
Indices: 12461--12507 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
12451 GACACGTATT
12461 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG ACCA-G
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
12505 ACC
1 ACC
12508 CGAGACAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 19 0.47
6 21 0.52
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:12493 original size:5 final size:5
Alignment explanation
Indices: 12465--12510 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
12455 CGTATTACCA
*
12465 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC AGACC CGA
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGA
12511 GACAAGACGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 21 0.55
6 17 0.45
ACGTcount: A:0.28, C:0.52, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:12498 original size:10 final size:11
Alignment explanation
Indices: 12465--12510 Score: 69
Period size: 10 Copynumber: 4.3 Consensus size: 11
12455 CGTATTACCA
12465 CGACCACGACC
1 CGACCACGACC
12476 ACGACCACGACC
1 -CGACCACGACC
12488 CGACC-CGACC
1 CGACCACGACC
12498 CGACCA-GACC
1 CGACCACGACC
12508 CGA
1 CGA
12511 GACAAGACGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 17 0.52
11 5 0.15
12 11 0.33
ACGTcount: A:0.28, C:0.52, G:0.20, T:0.00
Consensus pattern (11 bp):
CGACCACGACC
Found at i:17272 original size:21 final size:21
Alignment explanation
Indices: 17241--17462 Score: 179
Period size: 21 Copynumber: 10.9 Consensus size: 21
17231 ATGTAAAATT
* * *
17241 TGTCCCAAAGGACCATATAGA
1 TGTCCCGAAGGACCACATATA
*
17262 TGTCTCGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
*
17283 TGTCCCGAATGACCACATATA
1 TGTCCCGAAGGACCACATATA
17304 TGTCCCGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
* *
17325 TGTCCCAAATGACCACATATA
1 TGTCCCGAAGGACCACATATA
*
17346 TGTCCCGAAGGACCAC-T-TC
1 TGTCCCGAAGGACCACATATA
*
17365 T-T----AAGGATCACATATA
1 TGTCCCGAAGGACCACATATA
* * * * * *
17381 TATTCCAAAGAACCAAATATG
1 TGTCCCGAAGGACCACATATA
* *
17402 TGTCCCGAAGAACCGCATATA
1 TGTCCCGAAGGACCACATATA
* * * **
17423 TATTCCAAAGGATTACATATA
1 TGTCCCGAAGGACCACATATA
* *
17444 TATCCCGAAAGACCACATA
1 TGTCCCGAAGGACCACATA
17463 GAACCCTCGA
Statistics
Matches: 158, Mismatches: 36, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
14 8 0.05
15 1 0.01
16 2 0.01
17 1 0.01
18 1 0.01
19 2 0.01
20 1 0.01
21 142 0.90
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:17288 original size:42 final size:42
Alignment explanation
Indices: 17241--17361 Score: 197
Period size: 42 Copynumber: 2.9 Consensus size: 42
17231 ATGTAAAATT
* * * *
17241 TGTCCCAAAGGACCATATAGATGTCTCGAAGGACCACATATA
1 TGTCCCAAATGACCACATATATGTCCCGAAGGACCACATATA
*
17283 TGTCCCGAATGACCACATATATGTCCCGAAGGACCACATATA
1 TGTCCCAAATGACCACATATATGTCCCGAAGGACCACATATA
17325 TGTCCCAAATGACCACATATATGTCCCGAAGGACCAC
1 TGTCCCAAATGACCACATATATGTCCCGAAGGACCAC
17362 TTCTTAAGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (42 bp):
TGTCCCAAATGACCACATATATGTCCCGAAGGACCACATATA
Found at i:17769 original size:7 final size:7
Alignment explanation
Indices: 17757--17783 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17747 AGACATATAT
17757 TCACATA
1 TCACATA
17764 TCACATA
1 TCACATA
17771 TCACATA
1 TCACATA
17778 TCACAT
1 TCACAT
17784 GGTTTATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (7 bp):
TCACATA
Found at i:19758 original size:21 final size:21
Alignment explanation
Indices: 19734--19782 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
19724 TTTAACATAG
19734 AAATAAATCACAAAATACTTC
1 AAATAAATCACAAAATACTTC
19755 AAATAAATCACAAAATACTTC
1 AAATAAATCACAAAATACTTC
19776 AAATAAA
1 AAATAAA
19783 ATCTATTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAATCACAAAATACTTC
Found at i:37593 original size:28 final size:29
Alignment explanation
Indices: 37561--37619 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 29
37551 ATATTTCCCA
37561 TCCTAGAGACAAACTTATGT-TGAACTAT
1 TCCTAGAGACAAACTTATGTATGAACTAT
37589 TCCTAGAGACAAACTTATGTATGAACTAT
1 TCCTAGAGACAAACTTATGTATGAACTAT
37618 TC
1 TC
37620 GTCTCTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 20 0.67
29 10 0.33
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (29 bp):
TCCTAGAGACAAACTTATGTATGAACTAT
Found at i:45177 original size:28 final size:28
Alignment explanation
Indices: 45126--45180 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
45116 TTGTCATTGC
* *
45126 TTTCAAGTACTGACTCGCCAACATAATA
1 TTTCAAGAACTGACTCGACAACATAATA
**
45154 TTTCAAGAACTGACTCGATGACATAAT
1 TTTCAAGAACTGACTCGACAACATAAT
45181 GTAAACCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (28 bp):
TTTCAAGAACTGACTCGACAACATAATA
Found at i:45974 original size:12 final size:12
Alignment explanation
Indices: 45957--45981 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45947 TTTGGCTGAG
45957 ATTGAAGATTGA
1 ATTGAAGATTGA
45969 ATTGAAGATTGA
1 ATTGAAGATTGA
45981 A
1 A
45982 GCCAAGGGAG
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:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATTGAAGATTGA
Found at i:46339 original size:11 final size:11
Alignment explanation
Indices: 46323--46398 Score: 53
Period size: 11 Copynumber: 6.6 Consensus size: 11
46313 AATTAACCTG
46323 TCGAGCTTGAA
1 TCGAGCTTGAA
**
46334 TCGAGCTCAAAA
1 TCGAGCT-TGAA
* *
46346 TTGTGCTTGAA
1 TCGAGCTTGAA
*
46357 TCGAGCTTCAA
1 TCGAGCTTGAA
* *
46368 TCGAGCTCGAGTC
1 TCGAGCTTGA--A
*
46381 TCGAGCTTCAA
1 TCGAGCTTGAA
46392 TCGAGCT
1 TCGAGCT
46399 CTTGAATTTT
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
11 32 0.68
12 7 0.15
13 8 0.17
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:46432 original size:16 final size:16
Alignment explanation
Indices: 46407--46437 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46397 CTCTTGAATT
*
46407 TTTTTTGAGTTCGAGC
1 TTTTTCGAGTTCGAGC
46423 TTTTTCGAGTTCGAG
1 TTTTTCGAGTTCGAG
46438 TCGAGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.48
Consensus pattern (16 bp):
TTTTTCGAGTTCGAGC
Found at i:62639 original size:264 final size:262
Alignment explanation
Indices: 62167--62700 Score: 1023
Period size: 264 Copynumber: 2.0 Consensus size: 262
62157 ACAGTGCTTG
62167 TTGGTTTTTCATAGTAGAAAAGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
1 TTGGTTTTTCATAGTAGAAAAGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
62232 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATGCTTATTGTTTCTTCTTCTTAGTGCACA
66 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATGCTTATTGTTTCTTCTTCTTAGTGCACA
62297 ATAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATATCC
131 ATAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATATCC
62362 GCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATCAG
196 GCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATCAG
62427 AT
261 AT
*
62429 TTGGTTTTTCATAGTAGAACAGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
1 TTGGTTTTTCATAGTAGAAAAGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
62494 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATTGCTTATTTGTTTCTTCTTCTTAGTGCA
66 AAATTAAACTACAATGATCGACAGCAGTCAGAAATA-TGCTTA-TTGTTTCTTCTTCTTAGTGCA
62559 CAATAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATAT
129 CAATAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATAT
* *
62624 CTGCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGTATTAACTTCGGAGCTGAAGATC
194 CCGCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATC
62689 AGAT
259 AGAT
62693 TTGGTTTT
1 TTGGTTTT
62701 CTTACTGCTT
Statistics
Matches: 267, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
262 100 0.37
263 6 0.02
264 161 0.60
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (262 bp):
TTGGTTTTTCATAGTAGAAAAGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
AAATTAAACTACAATGATCGACAGCAGTCAGAAATATGCTTATTGTTTCTTCTTCTTAGTGCACA
ATAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATATCC
GCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATCAG
AT
Found at i:64246 original size:31 final size:31
Alignment explanation
Indices: 64195--64256 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
64185 TCAGATTTGG
*
64195 ATTGTTTTGTGATTGCAAAATTTTAGATTTT
1 ATTGTTTTGTGATTGCAAAATCTTAGATTTT
*
64226 ATTGTTTT-TGGATTTG-AAAATCTTCGATTTT
1 ATTGTTTTGT-GA-TTGCAAAATCTTAGATTTT
64257 GGATCCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 1 0.04
31 23 0.85
32 3 0.11
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.55
Consensus pattern (31 bp):
ATTGTTTTGTGATTGCAAAATCTTAGATTTT
Found at i:64742 original size:27 final size:27
Alignment explanation
Indices: 64699--64765 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
64689 AAATTGAACG
**
64699 ACCGGTTTTTTT---ATCGGATTAAAA
1 ACCGGTTTTTTTCAAATCGGACAAAAA
64723 ACCGGTTTTTTTCAAATCGGACAAAAA
1 ACCGGTTTTTTTCAAATCGGACAAAAA
*
64750 ACCGGTTTTTTACAAA
1 ACCGGTTTTTTTCAAA
64766 CCGAAACCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.32
27 25 0.68
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
ACCGGTTTTTTTCAAATCGGACAAAAA
Found at i:65089 original size:21 final size:22
Alignment explanation
Indices: 65065--65112 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
65055 TCCAAACTCG
65065 AAATAATATATTTATT-AAAAA
1 AAATAATATATTTATTCAAAAA
* * *
65086 AAATATTATTTTTATTCAATAA
1 AAATAATATATTTATTCAAAAA
65108 AAATA
1 AAATA
65113 GAGATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATAATATATTTATTCAAAAA
Found at i:72842 original size:264 final size:264
Alignment explanation
Indices: 72372--73169 Score: 1528
Period size: 264 Copynumber: 3.0 Consensus size: 264
72362 ACAGTGCTTG
**
72372 TTGGTTTTTCATAGTAGAAAAGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
1 TTGGTTTTTCATAGTAGAACTGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
72437 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATTGCTTATTTGTTTCTTCTTCTTAGTGCA
66 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATTGCTTATTTGTTTCTTCTTCTTAGTGCA
*
72502 CAATAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATAT
131 CAAAAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATAT
*
72567 CTGCTGAAGCCAAGGTTTGTATAGATGTCTTTGTTATTATAGGATTAACTTCGGAGCTGAAGATC
196 CTGCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATC
72632 AGAT
261 AGAT
72636 TTGGTTTTTCATAGTAGAACTGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
1 TTGGTTTTTCATAGTAGAACTGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
72701 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATTGCTTATTTGTTTCTTCTTCTTAGTGCA
66 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATTGCTTATTTGTTTCTTCTTCTTAGTGCA
*
72766 CAAAAATGGTTACAATGTCTGTTTTAATATTTACTAAAGGAAAAGGATCAATTCTGAGTCTATAT
131 CAAAAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATAT
72831 CTGCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATC
196 CTGCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATC
72896 AGAT
261 AGAT
72900 TTGGTTTTTCATAGTAGAACTGTACCACCATTAAGC--ATATGTAGCATTTATGACCAGGAATGA
1 TTGGTTTTTCATAGTAGAACTGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
72963 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATTGCTTATTTGTTTCTTCTTCTTAGTGCA
66 AAATTAAACTACAATGATCGACAGCAGTCAGAAATATTGCTTATTTGTTTCTTCTTCTTAGTGCA
73028 CAAAAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATAT
131 CAAAAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATAT
*
73093 CTGCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGTATTAACTTCGGAGCTGAAGATC
196 CTGCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATC
73158 AGAT
261 AGAT
73162 TTGGTTTT
1 TTGGTTTT
73170 CTTACTGCTT
Statistics
Matches: 527, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
262 232 0.44
264 295 0.56
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (264 bp):
TTGGTTTTTCATAGTAGAACTGTACCACCATTAAGCATATATGTAGCATTTATGACCAGGAATGA
AAATTAAACTACAATGATCGACAGCAGTCAGAAATATTGCTTATTTGTTTCTTCTTCTTAGTGCA
CAAAAATGGTTACAATGTCTGTTTTAATATTTACTAAAGAAAAAGGATCAATTCTGAGTCTATAT
CTGCTGAAGCCAAGGTTTGTATAGATGTCTTCGTTATTATAGGATTAACTTCGGAGCTGAAGATC
AGAT
Found at i:75139 original size:37 final size:38
Alignment explanation
Indices: 75062--75141 Score: 110
Period size: 37 Copynumber: 2.1 Consensus size: 38
75052 TTGGCCATCC
*
75062 GACCCAAAAATTATAAATATTTCACCCGACTCTAATTT
1 GACCCAAAAATTATAAATATTTCACCCGACTCTAACTT
* *
75100 GACCCAAAAA-TATATATCTTTCACCCGACT-TGAACTT
1 GACCCAAAAATTATAAATATTTCACCCGACTCT-AACTT
75137 GACCC
1 GACCC
75142 GATTTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 1 0.03
37 27 0.71
38 10 0.26
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.29
Consensus pattern (38 bp):
GACCCAAAAATTATAAATATTTCACCCGACTCTAACTT
Found at i:79749 original size:17 final size:18
Alignment explanation
Indices: 79710--79756 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
79700 TGTTTCTGAG
79710 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
* *
79728 GGAATTTGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
*
79745 GGAATTGAAATC
1 GGAATTGGAATC
79757 CAATTCCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:81308 original size:18 final size:18
Alignment explanation
Indices: 81282--81322 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
81272 GCTTGAGAAA
81282 ACCTAAAGAAAATAAAAT
1 ACCTAAAGAAAATAAAAT
*
81300 ACCTTAAGAAAATAAAAT
1 ACCTAAAGAAAATAAAAT
81318 -CCTAA
1 ACCTAA
81323 TAAAAATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.61, C:0.15, G:0.05, T:0.20
Consensus pattern (18 bp):
ACCTAAAGAAAATAAAAT
Found at i:81324 original size:29 final size:29
Alignment explanation
Indices: 81295--81352 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
81285 TAAAGAAAAT
*
81295 AAAATACCTTAAGAAAATAAAATCCTAATA
1 AAAAT-CCTTAACAAAATAAAATCCTAATA
* *
81325 AAAATCCTTATCAAACTAAAATCCTAAT
1 AAAATCCTTAACAAAATAAAATCCTAAT
81353 TAATTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.55, C:0.17, G:0.02, T:0.26
Consensus pattern (29 bp):
AAAATCCTTAACAAAATAAAATCCTAATA
Found at i:82279 original size:13 final size:13
Alignment explanation
Indices: 82261--82285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82251 TTGTTTTTTG
82261 TGTTTTGTTCGAA
1 TGTTTTGTTCGAA
82274 TGTTTTGTTCGA
1 TGTTTTGTTCGA
82286 TCCAGATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.24, T:0.56
Consensus pattern (13 bp):
TGTTTTGTTCGAA
Found at i:88137 original size:17 final size:18
Alignment explanation
Indices: 88090--88129 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
88080 GCTTGAGAAA
88090 ACCTAAAGAAAATAAAAT
1 ACCTAAAGAAAATAAAAT
88108 ACCTAAAGAAAATAAAAT
1 ACCTAAAGAAAATAAAAT
88126 -CCTA
1 ACCTA
88130 TTAAAAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.17
Consensus pattern (18 bp):
ACCTAAAGAAAATAAAAT
Found at i:88152 original size:29 final size:29
Alignment explanation
Indices: 88120--88192 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
88110 CTAAAGAAAA
88120 TAAAATCCTATTAAAAATCCTTAGCAAAC
1 TAAAATCCTATTAAAAATCCTTAGCAAAC
*
88149 TAAAATCCTAATAAAAATCCTTAGCAAAC
1 TAAAATCCTATTAAAAATCCTTAGCAAAC
88178 TAAAATCCTAATTAA
1 TAAAATCCT-ATTAA
88193 TTAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 37 0.90
30 4 0.10
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (29 bp):
TAAAATCCTATTAAAAATCCTTAGCAAAC
Found at i:88153 original size:17 final size:17
Alignment explanation
Indices: 88133--88186 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
88123 AATCCTATTA
88133 AAAATCCTTAGCAAACT
1 AAAATCCTTAGCAAACT
*
88150 AAAATCC-TA--ATA--
1 AAAATCCTTAGCAAACT
88162 AAAATCCTTAGCAAACT
1 AAAATCCTTAGCAAACT
88179 AAAATCCT
1 AAAATCCT
88187 AATTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 7 0.23
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 15 0.50
ACGTcount: A:0.50, C:0.22, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAATCCTTAGCAAACT
Found at i:89088 original size:36 final size:36
Alignment explanation
Indices: 89000--89174 Score: 179
Period size: 37 Copynumber: 4.8 Consensus size: 36
88990 TCAAACTTTA
* * * *
89000 TGTTTCAAGAGAAACTATCTCAAGTGAGATGAAATTT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGACGAAA-TT
* * ** *
89037 TGTTTCAGGGGAAACAATCTCAAGTTAGACGAAATT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGACGAAATT
* * * * *
89073 TGTTATAATAAAAACAATCTTAAGTGAAACGCAATT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGACGAAATT
* **
89109 TGTTTTAAGAAAAGCAATCTCAAGTGAGAAAATAATT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGACGA-AATT
89146 TGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGA
89175 TAGGATTTCT
Statistics
Matches: 113, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
36 52 0.46
37 61 0.54
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (36 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGACGAAATT
Found at i:92390 original size:16 final size:16
Alignment explanation
Indices: 92363--92400 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92353 ATAAGAATTT
*
92363 ATGTTA-CAACCTGAA
1 ATGTTACCAACCTAAA
92378 ATGTTACCAACCTAAA
1 ATGTTACCAACCTAAA
*
92394 AAGTTAC
1 ATGTTAC
92401 TAGAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (16 bp):
ATGTTACCAACCTAAA
Found at i:92512 original size:40 final size:41
Alignment explanation
Indices: 92404--92517 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 41
92394 AAGTTACTAG
* * *
92404 AATGTTAGCAAACATAAAACATTTTAGGTTGATCCAACCGAA
1 AATGTTACCAAACATATAACATTTTAGGTTGA-CAAACCGAA
* * * * *
92446 AATATTTCCAATCATATAACATTTTAGGTTG-CAAACTGGA
1 AATGTTACCAAACATATAACATTTTAGGTTGACAAACCGAA
*
92486 AATGTTACCAAACATATAATATTTTAGGTTGA
1 AATGTTACCAAACATATAACATTTTAGGTTGA
92518 GTATATTTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
40 33 0.56
42 26 0.44
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (41 bp):
AATGTTACCAAACATATAACATTTTAGGTTGACAAACCGAA
Found at i:94783 original size:47 final size:47
Alignment explanation
Indices: 94696--94785 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
94686 ATTTACGCAC
* * *
94696 TTAGACAATATTTTAGCTTTAAATGTGCTGTAGTACTAATTATGCTA
1 TTAGACAATATTTTAACTTTAAATGTGCTATAATACTAATTATGCTA
* **
94743 TTAGACAATATTTTAACTTTAAATGTGTTATAATTTTAATTAT
1 TTAGACAATATTTTAACTTTAAATGTGCTATAATACTAATTAT
94786 AAACATCGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (47 bp):
TTAGACAATATTTTAACTTTAAATGTGCTATAATACTAATTATGCTA
Found at i:94877 original size:34 final size:34
Alignment explanation
Indices: 94834--94933 Score: 182
Period size: 34 Copynumber: 2.9 Consensus size: 34
94824 TAAGACTATG
94834 TTATTGTCTTATTATGAATATCAAGTAGTACTAA
1 TTATTGTCTTATTATGAATATCAAGTAGTACTAA
94868 TTATTGTCTTATTATGAATATCAAGTAGTACTAA
1 TTATTGTCTTATTATGAATATCAAGTAGTACTAA
94902 TTATTGTCTTAATATATGAATATCAAGTAGTA
1 TTATTGTCTT-AT-TATGAATATCAAGTAGTA
94934 ATGATTACAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
34 44 0.69
35 2 0.03
36 18 0.28
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (34 bp):
TTATTGTCTTATTATGAATATCAAGTAGTACTAA
Found at i:97429 original size:27 final size:26
Alignment explanation
Indices: 97399--97479 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
97389 AAATAAATTT
*
97399 ATATTATTTATTAATTTCATAA-AATAA
1 ATATTATTTATT-ATTTAATAAGAAT-A
* *
97426 ATATTATATATTTTTTAATAATGAATA
1 ATATTATTTATTATTTAATAA-GAATA
*
97453 ATATTATTTATGTATTTAATAATAATA
1 ATATTATTTAT-TATTTAATAAGAATA
97480 TAATAATCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 7 0.16
27 26 0.58
28 12 0.27
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (26 bp):
ATATTATTTATTATTTAATAAGAATA
Found at i:99818 original size:2 final size:2
Alignment explanation
Indices: 99813--99842 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
99803 TTCTACACAC
99813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99843 TGAAATAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100891 original size:2 final size:2
Alignment explanation
Indices: 100884--100931 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
100874 AGTCTAATGA
100884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100926 AT AT AT
1 AT AT AT
100932 GCATGTTGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103276 original size:22 final size:22
Alignment explanation
Indices: 103248--103291 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
103238 GCATCTTTGC
*
103248 ATTTGCATGTA-CATCTTTACAT
1 ATTTGCAT-TAGCATCTATACAT
103270 ATTTGCATTAGCATCTATACAT
1 ATTTGCATTAGCATCTATACAT
103292 TGTACATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTTGCATTAGCATCTATACAT
Found at i:104594 original size:3 final size:3
Alignment explanation
Indices: 104582--104613 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
104572 ATAAAAAGTG
104582 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
104614 GAAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:104611 original size:49 final size:48
Alignment explanation
Indices: 104531--104641 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 48
104521 CAACACAGAG
* * *
104531 AGAGAAAAGAAGAGATATAGAAAAAATAAGAAGA-AAAAAATATAAAAAG
1 AGAGAAAAGAAGA-AGATAGAAAAAAGAAGAAGAGAAAAAA-ATAAAAAA
*
104580 TGAGAAAAGAAGAAGA-AGAAGAAGAAGAAGAAGAGAAAAAAATAAAAAA
1 AGAGAAAAGAAGAAGATAGAA-AA-AAGAAGAAGAGAAAAAAATAAAAAA
104629 AGAGAAAA-AAGAA
1 AGAGAAAAGAAGAA
104642 AAAACACTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
47 4 0.07
48 9 0.17
49 35 0.65
50 6 0.11
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (48 bp):
AGAGAAAAGAAGAAGATAGAAAAAAGAAGAAGAGAAAAAAATAAAAAA
Found at i:105425 original size:28 final size:28
Alignment explanation
Indices: 105378--105431 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
105368 AAAGAAGCCA
* **
105378 ACCTGGAACACATTGTCTCCCCAAATCG
1 ACCTGAAACACATTACCTCCCCAAATCG
*
105406 ACCTGAAACACATTACCTCCTCAAAT
1 ACCTGAAACACATTACCTCCCCAAAT
105432 TAATCTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.35, G:0.09, T:0.22
Consensus pattern (28 bp):
ACCTGAAACACATTACCTCCCCAAATCG
Found at i:106809 original size:53 final size:55
Alignment explanation
Indices: 106746--107074 Score: 326
Period size: 55 Copynumber: 6.2 Consensus size: 55
106736 TTTTTCAAGG
106746 GTTTCTTGAT-ATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTAATTTTCAGAA
1 GTTTCTTGATAATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTAATTTTCAGAA
* * * *
106800 -TTTCCTGATAA-TTTTAAATGAGTTTTTAAAGAAACCAAGTTTGA-TTTCAGAA
1 GTTTCTTGATAATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTAATTTTCAGAA
* * *
106852 GTTTCTTGATGATTTTCAAATGATTTTTTAAAGAAACTAAGTCTAATTTTCAGAA
1 GTTTCTTGATAATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTAATTTTCAGAA
* * * *
106907 GTTTCTTGATAATTTTTAAACGAG-CTTTATAAGAAACTAAGTCTGATTTCCA-AA
1 GTTTCTTGATAATTTTTAAATGAGTTTTTA-AAGAAACTAAGTCTAATTTTCAGAA
** * * * *
106961 GGTTTCTT-A-ACATGATT--A--A-TTTTTAAAGAAACTAACTTTGATTTTTAGAA
1 -GTTTCTTGATA-ATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTAATTTTCAGAA
* * * * *
107011 GTTTCTTGATAATTTTTAAATGAGCTTTCAAAAAAACTAAGTATGATTTTCA-AA
1 GTTTCTTGATAATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTAATTTTCAGAA
107065 GCTTTCTTGA
1 G-TTTCTTGA
107075 CATGATGAAT
Statistics
Matches: 225, Mismatches: 33, Indels: 33
0.77 0.11 0.11
Matches are distributed among these distances:
49 25 0.11
50 12 0.05
51 1 0.00
52 10 0.04
53 48 0.21
54 44 0.20
55 85 0.38
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (55 bp):
GTTTCTTGATAATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTAATTTTCAGAA
Found at i:107013 original size:104 final size:104
Alignment explanation
Indices: 106764--107094 Score: 341
Period size: 104 Copynumber: 3.2 Consensus size: 104
106754 ATATTTTTAA
* * * * * *
106764 ATGAGTTTTTAAAGAAACTAAGTCTAATTTTCAGAA-TTTCCTGATAA-TTTTAAATGAGTTTTT
1 ATGAATTTTTAAAGAAACTAACTCTAATTTTCAGAAGTTTCTTGATAATTTTTAAACGAGCTTTC
* * * *
106827 AAAGAAACCAAGTTTGATTT-CAGAAG-TTTCTTGATGATTTTCA-A
66 AAAAAAACTAAGTATGATTTCCA-AAGCTTTCTT-A--A----CATG
* *
106871 ATGATTTTTTAAAGAAACTAAGTCTAATTTTCAGAAGTTTCTTGATAATTTTTAAACGAGCTTT-
1 ATGAATTTTTAAAGAAACTAACTCTAATTTTCAGAAGTTTCTTGATAATTTTTAAACGAGCTTTC
* * *
106935 ATAAGAAACTAAGTCTGATTTCCAAAGGTTTCTTAACATG
66 A-AAAAAACTAAGTATGATTTCCAAAGCTTTCTTAACATG
* * * * *
106975 ATTAATTTTTAAAGAAACTAACTTTGATTTTTAGAAGTTTCTTGATAATTTTTAAATGAGCTTTC
1 ATGAATTTTTAAAGAAACTAACTCTAATTTTCAGAAGTTTCTTGATAATTTTTAAACGAGCTTTC
* *
107040 AAAAAAACTAAGTATGATTTTCAAAGCTTTCTTGACATG
66 AAAAAAACTAAGTATGATTTCCAAAGCTTTCTTAACATG
107079 ATGAATTTTTAAAGAA
1 ATGAATTTTTAAAGAA
107095 GCTATGCCTG
Statistics
Matches: 197, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
103 2 0.01
104 105 0.53
105 1 0.01
107 36 0.18
108 11 0.06
109 34 0.17
110 8 0.04
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (104 bp):
ATGAATTTTTAAAGAAACTAACTCTAATTTTCAGAAGTTTCTTGATAATTTTTAAACGAGCTTTC
AAAAAAACTAAGTATGATTTCCAAAGCTTTCTTAACATG
Found at i:108474 original size:139 final size:139
Alignment explanation
Indices: 108152--108795 Score: 842
Period size: 139 Copynumber: 4.7 Consensus size: 139
108142 AAAAAGAGGT
* * * * * * * *
108152 GGATCATCGTTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAATAAGTT
1 GGATCAACATTTCCAGT-GAAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTT
* *
108217 CATAATGAGAAGAACTTGTTCAACCTTACCAT-GATTCA-CACATATAGAGTTGAATTATCAACA
65 CATAATGAGAAGAACTTGTTCAACCTTAGC-TCGATTCATCACATATAGAGTTGAATCATCAACA
*
108280 CCTCACTAGAG
129 CCTCACTCGAG
* * *
108291 GGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTC
1 GGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTC
* * *
108356 ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATAGAGTTAAATCAACAACACC
66 ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATAGAGTTGAATCATCAACACC
*
108421 TCACTCGAA
131 TCACTCGAG
* * *
108430 GGATCAACATTTCCAGTGAAGAATTCATAATGAGAAGAACTCATCCGATGAGGGAGAATAAATTC
1 GGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTC
* *
108495 ATAATGAGAAGAACTTGTTCACCCTTAGCTC-AGTTCATCACATATGGAGTTGAATCAGT-AACA
66 ATAATGAGAAGAACTTGTTCAACCTTAGCTCGA-TTCATCACATATAGAGTTGAATCA-TCAACA
108558 CCTCACTCGAG
129 CCTCACTCGAG
* * *
108569 GGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTTATCCAATGAGGGAGAAAAAGTTC
1 GGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTC
* * * * * *
108634 ATAATGATATGAACTTGTTC-A-CTTAACTTGATTCATCACATATGGAGTTGAATCATTAACA-C
66 ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATAGAGTTGAATCATCAACACC
108696 TCACTCGAG
131 TCACTCGAG
* * ** *
108705 GGATCAAAATTTCCAGTGGAGAGTTTGTAATGAGAAGAACTCATCCGAT-A-AG-GAAGAAGTTC
1 GGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTC
108767 ATAATGA-AAGAACTTGTTCAACCTTAGCT
66 ATAATGAGAAGAACTTGTTCAACCTTAGCT
108796 TGTTTTCATC
Statistics
Matches: 450, Mismatches: 47, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
132 11 0.02
133 17 0.04
134 7 0.02
135 1 0.00
136 54 0.12
137 35 0.08
138 78 0.17
139 247 0.55
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (139 bp):
GGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATAGAGTTGAATCATCAACACC
TCACTCGAG
Found at i:108911 original size:23 final size:23
Alignment explanation
Indices: 108884--108929 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
108874 TTTGCTCGTC
*
108884 CATCACATAAGGAGTTGGATCAT
1 CATCACATAAGGAGTTGAATCAT
*
108907 CATCACATATGGAGTTGAATCAT
1 CATCACATAAGGAGTTGAATCAT
108930 TAACACCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (23 bp):
CATCACATAAGGAGTTGAATCAT
Found at i:108965 original size:241 final size:243
Alignment explanation
Indices: 108666--109130 Score: 882
Period size: 244 Copynumber: 1.9 Consensus size: 243
108656 TTAACTTGAT
108666 TCATCACATATGGAGTTGAATCATTAACACTCACTCGAGGGATCAAAATTTCCAGTGGAGAGTTT
1 TCATCACATATGGAGTTGAATCATTAACACTCACTCGAGGGATCAAAATTTCCAGTGGAGAGTTT
*
108731 GTAATGAGAAGAACTCATCCGATAAGGAAGAAG-TTCATAATG-AAAGAACTTGTTCAACCTTAG
66 GTAATGAGAAGAACTCATCCAATAAGGAAGAAGATTCATAATGAAAAGAACTTGTTCAACCTTAG
108794 CTTGTTTTCATCGTATAAGGAGTTGGAAAACACTGACTTTTGCTCGTCCATCATATAAGGCGTTG
131 CTTGTTTTCATCGTATAAGGAGTTGGAAAACACTGACTTTTGCTCGTCCATCATATAAGGCGTTG
108859 AATCAGT-CTCATCATTTTGCTCGTCCATCACATAAGGAGTTGGATCA
196 AATCAGTCCTCATCATTTTGCTCGTCCATCACATAAGGAGTTGGATCA
108906 TCATCACATATGGAGTTGAATCATTAACACCTCACTCGAGGGATCAAAATTTCCAGTGGAGAGTT
1 TCATCACATATGGAGTTGAATCATTAACA-CTCACTCGAGGGATCAAAATTTCCAGTGGAGAGTT
108971 TGTAATGAGAAGAACTCATCCAATAAGGAAGAAGAATTCATAATGAAAAGAACTTGTTCAACCTT
65 TGTAATGAGAAGAACTCATCCAATAAGGAAGAAG-ATTCATAATGAAAAGAACTTGTTCAACCTT
109036 AGCTTGTTTTCATCGTATAAGGAGTTGGAAAACACTGACTTTTGCTCGTCCATCATATAAGGCGT
129 AGCTTGTTTTCATCGTATAAGGAGTTGGAAAACACTGACTTTTGCTCGTCCATCATATAAGGCGT
109101 TGAATCAGTCCTCATCATTTTGCTCGTCCA
194 TGAATCAGTCCTCATCATTTTGCTCGTCCA
Statistics
Matches: 219, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
240 29 0.13
241 68 0.31
243 9 0.04
244 93 0.42
245 20 0.09
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (243 bp):
TCATCACATATGGAGTTGAATCATTAACACTCACTCGAGGGATCAAAATTTCCAGTGGAGAGTTT
GTAATGAGAAGAACTCATCCAATAAGGAAGAAGATTCATAATGAAAAGAACTTGTTCAACCTTAG
CTTGTTTTCATCGTATAAGGAGTTGGAAAACACTGACTTTTGCTCGTCCATCATATAAGGCGTTG
AATCAGTCCTCATCATTTTGCTCGTCCATCACATAAGGAGTTGGATCA
Done.