Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 98 of 204
Found at i:30534185 original size:9 final size:9
Alignment explanation
Indices: 30534168--30534198 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30534158 TCAAGTTGAT
30534168 TCGAATAAC
1 TCGAATAAC
*
30534177 TCGATTAAC
1 TCGAATAAC
30534186 TCGAATAAC
1 TCGAATAAC
30534195 TCGA
1 TCGA
30534199 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30535197 original size:27 final size:27
Alignment explanation
Indices: 30535159--30535232 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
30535149 TATTGTTAGC
30535159 CCCAATTCCCAGAGGGTCGTTGGTAGT
1 CCCAATTCCCAGAGGGTCGTTGGTAGT
30535186 CCCAATTCCCAGAGGGTCGTTGGTAGT
1 CCCAATTCCCAGAGGGTCGTTGGTAGT
*
30535213 CCCAATTCCCAAAGGGTCGT
1 CCCAATTCCCAGAGGGTCGT
30535233 GGACTACTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.24
Consensus pattern (27 bp):
CCCAATTCCCAGAGGGTCGTTGGTAGT
Found at i:30537542 original size:10 final size:10
Alignment explanation
Indices: 30537527--30537553 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
30537517 TTTGAAAATA
30537527 TAAAAAATTC
1 TAAAAAATTC
30537537 TAAAAAATTC
1 TAAAAAATTC
30537547 TAAAAAA
1 TAAAAAA
30537554 ATATATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:30537552 original size:11 final size:11
Alignment explanation
Indices: 30537528--30537565 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
30537518 TTGAAAATAT
30537528 AAAAAATTCT-
1 AAAAAATTCTA
30537538 AAAAAATTCTA
1 AAAAAATTCTA
*
30537549 AAAAAATATATA
1 AAAAAAT-TCTA
30537561 AAAAA
1 AAAAA
30537566 CTTAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.40
11 7 0.28
12 8 0.32
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAATTCTA
Found at i:30537578 original size:19 final size:22
Alignment explanation
Indices: 30537549--30537594 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
30537539 AAAAATTCTA
30537549 AAAAAATATATAA-AAAAC-TT
1 AAAAAATATATAAGAAAACTTT
30537569 AAAAAA-ATATAAGAAAACTTT
1 AAAAAATATATAAGAAAACTTT
30537590 AAAAA
1 AAAAA
30537595 GCCATAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.25
20 11 0.46
21 7 0.29
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAAATATATAAGAAAACTTT
Found at i:30537585 original size:20 final size:22
Alignment explanation
Indices: 30537528--30537594 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
30537518 TTGAAAATAT
*
30537528 AAAAAAT-TCTAAAAAA-TTCTA
1 AAAAAATATATAAAAAACTT-TA
30537549 AAAAAATATATAAAAAAC-TTA
1 AAAAAATATATAAAAAACTTTA
*
30537570 AAAAAATATA-AGAAAACTTTA
1 AAAAAATATATAAAAAACTTTA
30537591 AAAA
1 AAAA
30537595 GCCATAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.15
21 26 0.63
22 9 0.22
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (22 bp):
AAAAAATATATAAAAAACTTTA
Found at i:30538337 original size:14 final size:16
Alignment explanation
Indices: 30538318--30538349 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
30538308 TGTTTTTATT
30538318 TAATAG-AATTCA-TA
1 TAATAGAAATTCACTA
30538332 TAATAGAAATTCACTA
1 TAATAGAAATTCACTA
30538348 TA
1 TA
30538350 TGAATTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.34
Consensus pattern (16 bp):
TAATAGAAATTCACTA
Found at i:30538616 original size:21 final size:20
Alignment explanation
Indices: 30538590--30538629 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30538580 TATTATATAC
30538590 AATTTAAATATATAATAATAT
1 AATTTAAATATATAA-AATAT
* *
30538611 AATTTATATATTTAAAATA
1 AATTTAAATATATAAAATA
30538630 AGTTAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAAATATATAAAATAT
Found at i:30547032 original size:30 final size:30
Alignment explanation
Indices: 30546974--30547045 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
30546964 ATCCTCTTTC
* * *
30546974 TCATCTTCGTCTCCACCTTCGTCCTCATCT
1 TCATCTTTGTCTCCACCCTCGGCCTCATCT
*
30547004 TCATCTTTGTCTCCACCCTCGGCTTCATCT
1 TCATCTTTGTCTCCACCCTCGGCCTCATCT
**
30547034 TTGTCTTTGTCT
1 TCATCTTTGTCT
30547046 TTGCCTTCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.08, C:0.38, G:0.10, T:0.44
Consensus pattern (30 bp):
TCATCTTTGTCTCCACCCTCGGCCTCATCT
Found at i:30547432 original size:15 final size:15
Alignment explanation
Indices: 30547412--30547450 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
30547402 TCTAGGGACG
*
30547412 TGCGGTGGTGCATAC
1 TGCGGTGGTACATAC
30547427 TGCGGTGGTACATAC
1 TGCGGTGGTACATAC
*
30547442 TGTGGTGGT
1 TGCGGTGGT
30547451 TGTGAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.15, G:0.41, T:0.31
Consensus pattern (15 bp):
TGCGGTGGTACATAC
Found at i:30553387 original size:51 final size:51
Alignment explanation
Indices: 30553276--30553488 Score: 338
Period size: 51 Copynumber: 4.2 Consensus size: 51
30553266 ACGTATGATA
* * *
30553276 ACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGTTACCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATC
* * *
30553326 ACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATC
*
30553377 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATC
* *
30553428 ACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATC
30553479 ACTTGTCACT
1 ACTTGTCACT
30553489 GATCAGAAGT
Statistics
Matches: 151, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 32 0.21
51 119 0.79
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (51 bp):
ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATC
Found at i:30557973 original size:39 final size:39
Alignment explanation
Indices: 30557930--30558008 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
30557920 ATGTAGTAGC
*
30557930 AAATATAAGAGAAAGGATCAAATAATAAAGAAAATGGTT
1 AAATATAAGAGAAAGGATCAAACAATAAAGAAAATGGTT
* * * *
30557969 AAATATAGGATAAAGGATCCAGCAATAAAGAAAATGGTT
1 AAATATAAGAGAAAGGATCAAACAATAAAGAAAATGGTT
30558008 A
1 A
30558009 GAGGGTGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.56, C:0.05, G:0.19, T:0.20
Consensus pattern (39 bp):
AAATATAAGAGAAAGGATCAAACAATAAAGAAAATGGTT
Found at i:30558332 original size:107 final size:105
Alignment explanation
Indices: 30558092--30558343 Score: 258
Period size: 105 Copynumber: 2.4 Consensus size: 105
30558082 GCATTCATAG
* * * **
30558092 TTGTTAAAATGTGTTTGAATATATCTAACCTGACCTACTATTTATATAGTGTGTTTTCTATAATG
1 TTGTTAGAATGTGTTTGAATATATCCAACCTGACCTACTATTTATATAGTGTGTTTTCGATAAAA
* * * * *
30558157 GAAAAGAATTAGAGGTGGAAAAAAGCTAAGAATATTTTTG
66 AAAAAGAATTAGAGGTAGAAAAAAGCGAAGAAGATTTTTA
* * * *
30558197 TTGTTAGAACGGGTTTGAATATACCCAACCTGACCTACTATTTCTATAGTGTGTTTTCGATTAAA
1 TTGTTAGAATGTGTTTGAATATATCCAACCTGACCTACTATTTATATAGTGTGTTTTCGA-T-AA
* *
30558262 AAAAAAAGAAATT-GAGGTATACAAAAG-GAA-AAGACTTTTTAA
64 AAAAAAAG-AATTAGAGGTAGAAAAAAGCGAAGAAGA-TTTTT-A
* * * *
30558304 TTGTTAGCATGTGTTTGAACATATCCAACCCGGCCTACTA
1 TTGTTAGAATGTGTTTGAATATATCCAACCTGACCTACTA
30558344 CTCCTTTAGA
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
105 56 0.47
106 8 0.07
107 51 0.43
108 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (105 bp):
TTGTTAGAATGTGTTTGAATATATCCAACCTGACCTACTATTTATATAGTGTGTTTTCGATAAAA
AAAAAGAATTAGAGGTAGAAAAAAGCGAAGAAGATTTTTA
Found at i:30559350 original size:24 final size:24
Alignment explanation
Indices: 30559308--30559359 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30559298 AATCAAATTC
* * *
30559308 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACCAATAAATACT
*
30559332 AAATATATTATACCCATAAATACT
1 AAATATATTATACCAATAAATACT
30559356 AAAT
1 AAAT
30559360 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACCAATAAATACT
Found at i:30563387 original size:24 final size:24
Alignment explanation
Indices: 30563345--30563396 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30563335 AATCAAAGTC
** *
30563345 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
30563369 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
30563393 AAAT
1 AAAT
30563397 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:30567848 original size:363 final size:363
Alignment explanation
Indices: 30567183--30567911 Score: 1422
Period size: 363 Copynumber: 2.0 Consensus size: 363
30567173 CTCTCCCCCT
30567183 AATGTTGTGAATATTGTTTCATCAAAGTGACAATCAAAAAATCGTGCACTAAATAAATCTCTAGT
1 AATGTTGTGAATATTGTTTCATCAAAGTGACAATCAAAAAATCGTGCACTAAATAAATCTCTAGT
30567248 TAATGGTTCAACATACTTAATTAAAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTTT
66 TAATGGTTCAACATACTTAATTAAAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTTT
*
30567313 GAGGACCCATCTTTGTGCGTTGTGGTGGAGTAATTGAAATATATATCACATATCCAAAAATTCTA
131 GAGGACCCATCTCTGTGCGTTGTGGTGGAGTAATTGAAATATATATCACATATCCAAAAATTCTA
30567378 AGATGGGAAATATTTAGCTCCTGACTAAAAGCCAACTGTAATGTGGAATATTTGTAATTTATTTA
196 AGATGGGAAATATTTAGCTCCTGACTAAAAGCCAACTGTAATGTGGAATATTTGTAATTTATTTA
30567443 CTTGATCCGTACAACATGTAAATTAACGTAATCTCATGTTGAAATAGGAAGTTTTATTCTCATAA
261 CTTGATCCGTACAACATGTAAATTAACGTAATCTCATGTTGAAATAGGAAGTTTTATTCTCATAA
30567508 AAAATGATTTAGCTATTAGTTGGAGGCGTTTGATAAAG
326 AAAATGATTTAGCTATTAGTTGGAGGCGTTTGATAAAG
30567546 AATGTTGTGAATATTGTTTCATCAAAGTGACAATCAAAAAATCGTGCACTAAATAAATCTCTAGT
1 AATGTTGTGAATATTGTTTCATCAAAGTGACAATCAAAAAATCGTGCACTAAATAAATCTCTAGT
30567611 TAATGGTTCAACATACTTAATTAAAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTTT
66 TAATGGTTCAACATACTTAATTAAAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTTT
30567676 GAGGACCCATCTCTGTGCGTTGTGGTGGAGTAATTGAAATATATATCACATATCCAAAAATTCTA
131 GAGGACCCATCTCTGTGCGTTGTGGTGGAGTAATTGAAATATATATCACATATCCAAAAATTCTA
30567741 AGATGGGAAATATTTAGCTCCTGACTAAAAGCCAACTGTAATGTGGAATATTTGTAATTTATTTA
196 AGATGGGAAATATTTAGCTCCTGACTAAAAGCCAACTGTAATGTGGAATATTTGTAATTTATTTA
* *
30567806 CTTGATCCGTACAACATGTAAATTAACGTAATCTCATGTTGAAATAGGAATTTTTGTTCTCATAA
261 CTTGATCCGTACAACATGTAAATTAACGTAATCTCATGTTGAAATAGGAAGTTTTATTCTCATAA
*
30567871 ACAATGATTTAGCTATTAGTTGGAGGCGTTTGATAAAG
326 AAAATGATTTAGCTATTAGTTGGAGGCGTTTGATAAAG
30567909 AAT
1 AAT
30567912 TATGCTAAAC
Statistics
Matches: 362, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
363 362 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (363 bp):
AATGTTGTGAATATTGTTTCATCAAAGTGACAATCAAAAAATCGTGCACTAAATAAATCTCTAGT
TAATGGTTCAACATACTTAATTAAAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTTT
GAGGACCCATCTCTGTGCGTTGTGGTGGAGTAATTGAAATATATATCACATATCCAAAAATTCTA
AGATGGGAAATATTTAGCTCCTGACTAAAAGCCAACTGTAATGTGGAATATTTGTAATTTATTTA
CTTGATCCGTACAACATGTAAATTAACGTAATCTCATGTTGAAATAGGAAGTTTTATTCTCATAA
AAAATGATTTAGCTATTAGTTGGAGGCGTTTGATAAAG
Found at i:30574273 original size:22 final size:22
Alignment explanation
Indices: 30574209--30574275 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
30574199 TGGTACAATG
30574209 AAAGTAGCTTAATTTCTAAAAA
1 AAAGTAGCTTAATTTCTAAAAA
* *
30574231 AAATTA--TTAAAATTAC-AAAAA
1 AAAGTAGCTT--AATTTCTAAAAA
*
30574252 AAAGTAGCTTAATTTCTCAAAA
1 AAAGTAGCTTAATTTCTAAAAA
30574274 AA
1 AA
30574276 TTATTAATGC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
20 2 0.06
21 15 0.43
22 16 0.46
23 2 0.06
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAGTAGCTTAATTTCTAAAAA
Found at i:30577085 original size:22 final size:20
Alignment explanation
Indices: 30577042--30577080 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30577032 CAATTTAAAA
30577042 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
30577062 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
30577081 ATGTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:30577139 original size:32 final size:32
Alignment explanation
Indices: 30577098--30577184 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 32
30577088 AAAAATTCCG
* *
30577098 GAAAATATTTTCAGGAAATC-TGCCAAACATCA
1 GAAAATATTTTCAGTAAATCAT-CCAAACACCA
*
30577130 GAAAATATTTTACA-TAGATTCATCCAAACACCA
1 GAAAATATTTT-CAGTA-AATCATCCAAACACCA
30577163 GAAAATATTTTCAGTAAATCAT
1 GAAAATATTTTCAGTAAATCAT
30577185 TTTCCAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
32 19 0.40
33 27 0.57
34 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (32 bp):
GAAAATATTTTCAGTAAATCATCCAAACACCA
Found at i:30577200 original size:20 final size:20
Alignment explanation
Indices: 30577175--30577214 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30577165 AAATATTTTC
30577175 AGTAAATCATTTTCCAAAAA
1 AGTAAATCATTTTCCAAAAA
30577195 AGTAAATCATTTTCCAAAAA
1 AGTAAATCATTTTCCAAAAA
30577215 TCATTTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAAAAA
Found at i:30577208 original size:34 final size:33
Alignment explanation
Indices: 30577165--30577229 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
30577155 AAACACCAGA
*
30577165 AAATATTTT-CAGTAAATCATTTTCCAAAAAAGT
1 AAATATTTTCCA-AAAATCATTTTCCAAAAAAGT
*
30577198 AAATCATTTTCCAAAAATCATTTTCCAGAAAA
1 AAAT-ATTTTCCAAAAATCATTTTCCAAAAAA
30577230 CATTTTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (33 bp):
AAATATTTTCCAAAAATCATTTTCCAAAAAAGT
Found at i:30577217 original size:14 final size:15
Alignment explanation
Indices: 30577198--30577235 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
30577188 CCAAAAAAGT
30577198 AAATCATTTTCCA-A
1 AAATCATTTTCCAGA
30577212 AAATCATTTTCCAGA
1 AAATCATTTTCCAGA
30577227 AAA-CATTTT
1 AAATCATTTT
30577236 ACTGGCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (15 bp):
AAATCATTTTCCAGA
Found at i:30577507 original size:15 final size:17
Alignment explanation
Indices: 30577469--30577507 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
30577459 GGTACAAACT
30577469 AAATTGTAAAATGGAGA
1 AAATTGTAAAATGGAGA
30577486 AAA--GTAAAA-GG-GA
1 AAATTGTAAAATGGAGA
30577499 AAATTGTAA
1 AAATTGTAA
30577508 TATTCAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.25
14 2 0.10
15 10 0.50
17 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (17 bp):
AAATTGTAAAATGGAGA
Found at i:30578185 original size:32 final size:32
Alignment explanation
Indices: 30578095--30578186 Score: 107
Period size: 31 Copynumber: 2.9 Consensus size: 32
30578085 GACCCTCAAA
* *
30578095 AAGTTTAAGTACCAACTTAAGGAAAAATTGTC
1 AAGTTTAAGTACCAAATTAAGGAAAAAGTGTC
* * *
30578127 AAATTT-AGATATCAAATT-AGGAAAAAGTGTG
1 AAGTTTAAG-TACCAAATTAAGGAAAAAGTGTC
*
30578158 AAGTTTAAGTACCAAATTAAAGAAAAAGT
1 AAGTTTAAGTACCAAATTAAGGAAAAAGT
30578187 TAAATACCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
31 26 0.53
32 23 0.47
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (32 bp):
AAGTTTAAGTACCAAATTAAGGAAAAAGTGTC
Found at i:30578208 original size:24 final size:24
Alignment explanation
Indices: 30578162--30578207 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
30578152 AGTGTGAAGT
*
30578162 TTAAGTACCAAATTAAAGAAAAAG
1 TTAAATACCAAATTAAAGAAAAAG
30578186 TTAAATACCAAATT-AAGAAAAA
1 TTAAATACCAAATTAAAGAAAAA
30578208 ATGTGTTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (24 bp):
TTAAATACCAAATTAAAGAAAAAG
Found at i:30580287 original size:17 final size:17
Alignment explanation
Indices: 30580265--30580298 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30580255 ATTAAGTTAA
* *
30580265 TTTTAAAGTTTTTTATT
1 TTTTAAAATATTTTATT
30580282 TTTTAAAATATTTTATT
1 TTTTAAAATATTTTATT
30580299 CTGTTGATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAAAATATTTTATT
Found at i:30584843 original size:21 final size:22
Alignment explanation
Indices: 30584819--30584869 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
30584809 AATTTTTTAA
30584819 AATTTTAAAAATATTTAA-AAT
1 AATTTTAAAAATATTTAATAAT
** * *
30584840 AATTTTTTATATTTTTAATAAT
1 AATTTTAAAAATATTTAATAAT
30584862 AATTTTAA
1 AATTTTAA
30584870 TGATTTTTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTTAAAAATATTTAATAAT
Found at i:30584862 original size:22 final size:22
Alignment explanation
Indices: 30584832--30584880 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
30584822 TTTAAAAATA
*
30584832 TTTAA-AATAATTTTTTAT-ATT
1 TTTAATAATAA-TTTTAATGATT
30584853 TTTAATAATAATTTTAATGATT
1 TTTAATAATAATTTTAATGATT
30584875 TTTAAT
1 TTTAAT
30584881 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTAATAATAATTTTAATGATT
Found at i:30584876 original size:31 final size:29
Alignment explanation
Indices: 30584802--30584898 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 29
30584792 CATGTCAACA
*
30584802 TTTAATTAATTTTTTAAAATTTTAAAA-ATAT
1 TTTAA-TAATTTTTT-AATTTTTAAAATA-AT
*
30584833 TTAAAATAATTTTTTATATTTTTAATAATAAT
1 TT-TAATAATTTTTTA-ATTTTTAA-AATAAT
*
30584865 TTTAATGA-TTTTTAATTTTTAAAATAAGT
1 TTTAATAATTTTTTAATTTTTAAAATAA-T
30584894 TTTAA
1 TTTAA
30584899 ATTTTAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
28 5 0.09
29 14 0.25
30 7 0.12
31 22 0.39
32 8 0.14
33 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTAATAATTTTTTAATTTTTAAAATAAT
Found at i:30595509 original size:16 final size:17
Alignment explanation
Indices: 30595468--30595511 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
30595458 TTCAGTTGTT
30595468 TAAAATT-TTTAATTAA
1 TAAAATTATTTAATTAA
*
30595484 TTAAATTTATTTAATTAA
1 -TAAAATTATTTAATTAA
30595502 -AAAATTATTT
1 TAAAATTATTT
30595512 TCATCTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 6 0.25
18 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAAATTATTTAATTAA
Found at i:30597432 original size:30 final size:30
Alignment explanation
Indices: 30597384--30597440 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30597374 CAAACCTATA
30597384 TAAATAAACAATTATTTATATAAAATAAAG
1 TAAATAAACAATTATTTATATAAAATAAAG
* *
30597414 TAAATTAAATAATT-TTTATTTAAAATA
1 TAAA-TAAACAATTATTTATATAAAATA
30597441 TCAAGTACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (30 bp):
TAAATAAACAATTATTTATATAAAATAAAG
Found at i:30597832 original size:20 final size:20
Alignment explanation
Indices: 30597803--30597856 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
30597793 TTAAACTAGC
*
30597803 AAAT-AAATCAATTTGATTA
1 AAATCAAATCAATTTAATTA
* *
30597822 AAATCAAATCAAATTAATTG
1 AAATCAAATCAATTTAATTA
*
30597842 GAATCAAAT-AATTTA
1 AAATCAAATCAATTTA
30597857 GGATATATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATCAAATCAATTTAATTA
Found at i:30609143 original size:3 final size:3
Alignment explanation
Indices: 30609135--30609193 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
30609125 AATATATAGA
30609135 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30609183 AAT AAT AAT AA
1 AAT AAT AAT AA
30609194 ACACAAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30609760 original size:8 final size:8
Alignment explanation
Indices: 30609742--30609779 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
30609732 TTAAGCGAAA
30609742 AAAATAAAT
1 AAAA-AAAT
30609751 AAAAAAAT
1 AAAAAAAT
30609759 AAAAAAAT
1 AAAAAAAT
30609767 --AAAAAT
1 AAAAAAAT
30609773 AAAAAAA
1 AAAAAAA
30609780 AGAAACTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.22
8 17 0.63
9 4 0.15
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:30609772 original size:22 final size:20
Alignment explanation
Indices: 30609739--30609779 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
30609729 TTTTTAAGCG
30609739 AAAAAAATAAATAAAAAAAT
1 AAAAAAATAAATAAAAAAAT
30609759 AAAAAAATAAAAATAAAAAAA
1 AAAAAAAT--AAATAAAAAAA
30609780 AGAAACTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (20 bp):
AAAAAAATAAATAAAAAAAT
Found at i:30611045 original size:44 final size:44
Alignment explanation
Indices: 30610997--30611488 Score: 120
Period size: 44 Copynumber: 11.2 Consensus size: 44
30610987 TAACTTTAGA
* *
30610997 GAGATAAGATCTA-TTACTTTAATCCACTCCACTGTAATCTCAGG
1 GAGATAAGAT-TACTGACTTCAATCCACTCCACTGTAATCTCAGG
* * ** **
30611041 GAGATAGGATTACTGGCTTCAATCTGCTCTGCTGTAATCTCAGG
1 GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATCTCAGG
** * * *** *
30611085 GAGATAAGATTTGTCATCTTCGAT-TTGTCCCACTGTGA-CTTCAAGG
1 GAGATAAGATTACTGA-CTTCAATCCACT-CCACTGTAATC-TC-AGG
* * * ** *
30611131 G-GATAAGACT--TGA-TGCGATCCACTCTGCTGTAA-CTTCAGA
1 GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATC-TCAGG
* * * *
30611171 GAGATAAGATCTA-TTACTTTAATCCGCTCCACTCTAATCTCAGG
1 GAGATAAGAT-TACTGACTTCAATCCACTCCACTGTAATCTCAGG
* * *** * *
30611215 GAGATAGGATTACTGGCTTCAATTTGCTCCGCTGTAATCTCAAG
1 GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATCTCAGG
* * ** * ** * * * *
30611259 GAGATAATATTTGAATCTCTTCGATCTGCCCCACAGCAA-CTTTAGG
1 GAGATAAGA-TT-ACTGACTTCAATCCACTCCACTGTAATC-TCAGG
* * * * ** *
30611305 GGGATAAGACCTGCTTAC-TCAATCTGCTCCGCTGTAA-CTTCAGG
1 GAGATAAGA-TTACTGACTTCAATCCACTCCACTGTAATC-TCAGG
* * ** *
30611349 GAGATAAGA--CCTGA--TCTGATCCACTCTGCTGTAA-CTTCAGA
1 GAGATAAGATTACTGACTTC-AATCCACTCCACTGTAATC-TCAGG
* * **
30611390 GAGATAAGATCTA-TTACTTTAATCTGCTCCACTGTAATCTCAGG
1 GAGATAAGAT-TACTGACTTCAATCCACTCCACTGTAATCTCAGG
* * ** * * *
30611434 GAGATAGGATTACTGGCTTCAATCTGCTGCATTGTAATATCAGG
1 GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATCTCAGG
30611478 GAGATAAGATT
1 GAGATAAGATT
30611489 TGAATCTCTT
Statistics
Matches: 325, Mismatches: 100, Indels: 46
0.69 0.21 0.10
Matches are distributed among these distances:
40 5 0.02
41 53 0.16
42 2 0.01
43 12 0.04
44 191 0.59
45 30 0.09
46 32 0.10
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATCTCAGG
Found at i:30611162 original size:86 final size:86
Alignment explanation
Indices: 30610906--30611180 Score: 245
Period size: 86 Copynumber: 3.2 Consensus size: 86
30610896 TATTGCAACC
* *
30610906 TCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAGGGGGATAAGACTTGAT
1 TCAGAGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGAT
* * *
30610971 GTGATCCACTCTACTATAACT
66 GCGATCCACTCTGCTGTAACT
* * * * * * *** * *
30610992 TTAGAGAGATAAGATCTATTA-CTT-TAATCCACTCCACTGT-AATCTC-AGGGAGATAGGATTA
1 TCAGAGAGATAAGATTTGTCATCTTCGATTTGTC-CCACTGTGACT-TCAAGGG-GATA--A-GA
* * * * **
30611053 CTGGCTTCAATCTGCTCTGCTGTAA-T
60 CTTGATGCGATCCACTCTGCTGTAACT
*
30611079 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGA
1 -TCAGAGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGA
30611144 TGCGATCCACTCTGCTGTAACT
65 TGCGATCCACTCTGCTGTAACT
30611166 TCAGAGAGATAAGAT
1 TCAGAGAGATAAGAT
30611181 CTATTACTTT
Statistics
Matches: 136, Mismatches: 41, Indels: 24
0.68 0.20 0.12
Matches are distributed among these distances:
84 8 0.06
85 16 0.12
86 50 0.37
87 4 0.03
88 33 0.24
89 16 0.12
90 9 0.07
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (86 bp):
TCAGAGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGAT
GCGATCCACTCTGCTGTAACT
Found at i:30611179 original size:174 final size:174
Alignment explanation
Indices: 30610905--30611271 Score: 635
Period size: 174 Copynumber: 2.1 Consensus size: 174
30610895 CTATTGCAAC
*
30610905 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAGGGGGATAAGACTTGA
1 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGA
* * *
30610970 TGTGATCCACTCTACTATAACTTTAGAGAGATAAGATCTATTACTTTAATCCACTCCACTGTAAT
66 TGCGATCCACTCTACTATAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTCTAAT
*
30611035 CTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCTGCTGTAAT
131 CTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAAT
30611079 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGA
1 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGA
* * *
30611144 TGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTCTAAT
66 TGCGATCCACTCTACTATAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTCTAAT
*
30611209 CTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCGCTGTAAT
131 CTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAAT
* *
30611253 CTCAAGGAGATAATATTTG
1 CTCAGGGAGATAAGATTTG
30611272 AATCTCTTCG
Statistics
Matches: 182, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 182 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (174 bp):
CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGA
TGCGATCCACTCTACTATAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTCTAAT
CTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAAT
Found at i:30611375 original size:219 final size:219
Alignment explanation
Indices: 30611117--30611575 Score: 715
Period size: 219 Copynumber: 2.1 Consensus size: 219
30611107 ATTTGTCCCA
* *
30611117 CTGTGACTTCAAGGG-GATAAGACTTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGAT
1 CTGTAACTTC-AGGGAGATAAGACCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGAT
* *
30611181 CTATTACTTTAATCCGCTCCACTCTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCG
65 CTATTACTTTAATCCGCTCCACTCTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCA
* * * *
30611246 CTGTAATCTCAAGGAGATAATATTTGAATCTCTTCGATCTGCCCCACAGCAACTTTAGGGGGATA
130 CTGTAATATCAAGGAGATAAGATTTGAATCTCTTCAATCTGCCCCACAGCAACTTCAGGGGGATA
* *
30611311 AGACCTGCTTACTCAATCTGCTCCG
195 AGACCTACTTACTCAATCTACTCCG
30611336 CTGTAACTTCAGGGAGATAAGACCTGAT-CTGATCCACTCTGCTGTAACTTCAGAGAGATAAGAT
1 CTGTAACTTCAGGGAGATAAGACCTGATGC-GATCCACTCTGCTGTAACTTCAGAGAGATAAGAT
* * *
30611400 CTATTACTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTGCA
65 CTATTACTTTAATCCGCTCCACTCTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCA
* * *
30611465 TTGTAATATCAGGGAGATAAGATTTGAATCTCTTCAATCTGCCCCACTGCAACTTCAGGGGGATA
130 CTGTAATATCAAGGAGATAAGATTTGAATCTCTTCAATCTGCCCCACAGCAACTTCAGGGGGATA
* *
30611530 AGACCTACTTTCTCAGTCTACTCCG
195 AGACCTACTTACTCAATCTACTCCG
*
30611555 CTGCAACTTCAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAG
30611576 GCTCGGTGCC
Statistics
Matches: 219, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
218 5 0.02
219 214 0.98
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (219 bp):
CTGTAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGATC
TATTACTTTAATCCGCTCCACTCTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCAC
TGTAATATCAAGGAGATAAGATTTGAATCTCTTCAATCTGCCCCACAGCAACTTCAGGGGGATAA
GACCTACTTACTCAATCTACTCCG
Found at i:30611447 original size:40 final size:42
Alignment explanation
Indices: 30611402--30611532 Score: 106
Period size: 44 Copynumber: 3.0 Consensus size: 42
30611392 GATAAGATCT
* *
30611402 ATTACT-TT-AATCTGCTCCACTGTAATCTCAGGGAGATAGG
1 ATTACTGTTCAATCTGCTCCACTGTAATATCAGGGAGATAAG
* *
30611442 ATTACTGGCTTCAATCTGCTGCATTGTAATATCAGGGAGATAAG
1 ATTACT-G-TTCAATCTGCTCCACTGTAATATCAGGGAGATAAG
* * * *
30611486 ATTTGAATCTCTTCAATCTGCCCCACTGCAACT-TCAGGGGGATAAG
1 A-TT--A-CTGTTCAATCTGCTCCACTGTAA-TATCAGGGAGATAAG
30611532 A
1 A
30611533 CCTACTTTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
40 6 0.08
43 2 0.03
44 29 0.40
45 2 0.03
46 29 0.40
47 2 0.03
48 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (42 bp):
ATTACTGTTCAATCTGCTCCACTGTAATATCAGGGAGATAAG
Found at i:30611523 original size:46 final size:44
Alignment explanation
Indices: 30611473--30611575 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
30611463 CATTGTAATA
** *
30611473 TCAGGGAGATAAGATTTGAATCTCTTCAATCTGCCCCACTGCAACT
1 TCAGGGAGATAAGACCT-AATCTC-TCAATCTACCCCACTGCAACT
* * * * * *
30611519 TCAGGGGGATAAGACCTACTTTCTCAGTCTACTCCGCTGCAACT
1 TCAGGGAGATAAGACCTAATCTCTCAATCTACCCCACTGCAACT
30611563 TCAGGGAGATAAG
1 TCAGGGAGATAAG
30611576 GCTCGGTGCC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 29 0.62
45 4 0.09
46 14 0.30
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (44 bp):
TCAGGGAGATAAGACCTAATCTCTCAATCTACCCCACTGCAACT
Found at i:30611661 original size:44 final size:44
Alignment explanation
Indices: 30611613--30611797 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
30611603 TATCTTGGAA
**
30611613 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
30611657 AGATAAGATCTACAATCTTCAACCTGCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * **** * * *
30611701 AGACAAGGCTCGGTGGCCTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCATCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
30611745 AGATAAGATTTGCCATCTTCGATCTGCTCCACTATTGCTTAGGG
1 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
30611789 AGATAAGAT
1 AGATAAGAT
30611798 CTGTAGTATT
Statistics
Matches: 97, Mismatches: 38, Indels: 12
0.66 0.26 0.08
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 79 0.81
45 4 0.04
46 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:30613018 original size:6 final size:7
Alignment explanation
Indices: 30613002--30613035 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
30612992 CCGTCATTAC
30613002 TTTTCAT
1 TTTTCAT
30613009 TTTTCA-
1 TTTTCAT
30613015 TTTTCAT
1 TTTTCAT
30613022 TTTTCAT
1 TTTTCAT
30613029 TTTTCAT
1 TTTTCAT
30613036 CCTCCATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:30613020 original size:13 final size:13
Alignment explanation
Indices: 30613002--30613031 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
30612992 CCGTCATTAC
30613002 TTTTCATTTTTCA
1 TTTTCATTTTTCA
30613015 TTTTCATTTTTCA
1 TTTTCATTTTTCA
30613028 TTTT
1 TTTT
30613032 TCATCCTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:30613045 original size:20 final size:20
Alignment explanation
Indices: 30613002--30613046 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30612992 CCGTCATTAC
* *
30613002 TTTTCATTTTTCATTTTCAT
1 TTTTCATTTTTCATCTCCAT
30613022 TTTTCATTTTTCATCCTCCAT
1 TTTTCATTTTTCAT-CTCCAT
30613043 TTTT
1 TTTT
30613047 TCTTCTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTCATTTTTCATCTCCAT
Found at i:30623054 original size:87 final size:86
Alignment explanation
Indices: 30622917--30623219 Score: 335
Period size: 87 Copynumber: 3.5 Consensus size: 86
30622907 TTCAATTTTA
* * ** * *** *
30622917 ATTTGGAAACAAAAT-CAAAACCGAATAAAATCTGTTAAACGAATGGAATAAATCCCGAAATAGA
1 ATTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGGCGGAATAAATCCCGAAACAGA
** *
30622981 TTTTATTTAATTTAATTTCTTG
66 TTTTATTTAATTTAA-CACTCG
30623003 -TTTGGAAACT-AAATAAAAAAATGGAATAAAATCTGTTGAACGGGCGGAATAAATCCCGAAACA
1 ATTTGGAAA-TAAAAT-AAAAAATGGAATAAAATCTGTTGAACGGGCGGAATAAATCCCGAAACA
* *
30623066 TATTTTATTTGATTTTAACACTCG
64 GATTTTATTT-AATTTAACACTCG
*
30623090 ATTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAAC-GGCGGGAATAAATCCTGAAACA
1 A-TTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGGC-GGAATAAATCCCGAAACA
30623154 GATTTTATTTAATTTTAACACTCG
64 GATTTTATTTAA-TTTAACACTCG
* * * * *
30623178 CTTTGGAAATAAAATTAAAATTTGAATAAAATCTATTGAACG
1 ATTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACG
30623220 ACGGGAATAA
Statistics
Matches: 185, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
85 12 0.06
87 91 0.49
88 70 0.38
89 12 0.06
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (86 bp):
ATTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGGCGGAATAAATCCCGAAACAGA
TTTTATTTAATTTAACACTCG
Found at i:30624009 original size:5 final size:5
Alignment explanation
Indices: 30623999--30624024 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30623989 AACTATTTAT
30623999 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
30624025 AATTTGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:30624312 original size:507 final size:502
Alignment explanation
Indices: 30623364--30624365 Score: 1734
Period size: 507 Copynumber: 2.0 Consensus size: 502
30623354 AATAAAAACT
* * *
30623364 TTTTTCTTTCTTTTGCCTTGGTGTCTCGTTCGTCTCGGATTAGAGAATTGCAAAATAATAAAATT
1 TTTTTCTTTCTTTCGCCTTAGTGTCTCGTTCGTCTCGAATTAGAGAATTGCAAAATAATAAAATT
*
30623429 TATCTTAAGATTGTTGGACAAATAACACGTTAGCAAACAAATATATGTATAAATAAAAAACTATT
66 TATCTTAAGATTGTTAGACAAATAACACGTTAGCAAACAAATATATGTATAAATAAAAAACTATT
*
30623494 TATATAAAATAAAATAAAATAAGTAATTTGTATTTAAAATATCAAGCATGAAAAACCAATAAATA
131 TATATAAAATAAAATAAAATAAATAATTTGTATTTAAAATATCAAGCATGAAAAACCAATAAATA
*
30623559 AGATTAGAAAACCAGATATCAAATAAATAATCGAATTTTACTAGATGTTGAGGCTTATTTTACAC
196 AGATTAGAAAACCAGATATCAAATAAAGAATCGAATTTTACTAGATGTTGAGGCTTATTTTACAC
* * *
30623624 ATTTTCTTTAAGACAAATTTGGCCGCTCCTACGGTACTTGGAGAAACGTTGGTCGATTCTCTCCC
261 AGTTTCTTTAAGACAAATTTGGCCACTCCTACGGTACTTGGAGAAACGTTGGTCGACTCTCTCCC
* ** * *
30623689 AGGATACAACAACACGATGATCGAAGCAGTAGCACCTTTGCAGAGATTAATGGACAAACCTTGCC
326 AGGATACAACAACACGATGATCGAAGCAGTAGCACCTCTAAAAAGATTAATGAACAAACCTTGCC
* * *
30623754 TTTTTCTATCACTGGAACATTGGAAAATATTGAGAGAAAAAGAGAAGAATTTTTGAGAGCAAAAT
391 TTTTTCTATCACTGAAACATTGAAAAATATTGAGAGAAAAAGAGAAGAATTTTCGAGAGCAAAAT
30623819 AAACTCGGTTTTAGAGAGTCTCTCAGTGTAAAAAATTCTGTCTTGGA
456 AAACTCGGTTTTAGAGAGTCTCTCAGTGTAAAAAATTCTGTCTTGGA
*
30623866 TTTTTCTTTCTTTCGCCTTAGTGTCTCGTTCGTCTCGAATTAGAGAATTGTAAAATAATAAAATT
1 TTTTTCTTTCTTTCGCCTTAGTGTCTCGTTCGTCTCGAATTAGAGAATTGCAAAATAATAAAATT
*
30623931 TGTCTTAAGATTGTTAGACAAATAACACGTTAGCAAACAAATATATGTATAAATAAAAAACTATT
66 TATCTTAAGATTGTTAGACAAATAACACGTTAGCAAACAAATATATGTATAAATAAAAAACTATT
*
30623996 TATATAAAATAAAATAAAATAAAATAAAAAATTTGTATTTAAAATATCAAGTATGAAAAACCAAT
131 TATATAAAATAAAATAAAAT-AAAT----AATTTGTATTTAAAATATCAAGCATGAAAAACCAAT
30624061 AAATAAGATTAGAAAACCAGATATCAAATAAAGAATCGAATTTTACTAGATGTTGAGGCTTATTT
191 AAATAAGATTAGAAAACCAGATATCAAATAAAGAATCGAATTTTACTAGATGTTGAGGCTTATTT
* * * *
30624126 TACACAGTTTCTTTAAGATAGATTTGGCCACTCCTATGGTACTTGGAGAAACGTTGGTCGACTGT
256 TACACAGTTTCTTTAAGACAAATTTGGCCACTCCTACGGTACTTGGAGAAACGTTGGTCGACTCT
30624191 CTCCCAGGATACAACAACACGATGATCGAAGCAGTAGCACCTCTAAAAAGATTAATGAACAAACC
321 CTCCCAGGATACAACAACACGATGATCGAAGCAGTAGCACCTCTAAAAAGATTAATGAACAAACC
30624256 TTGCCTTTTTCTATCACTGAAACATTGAAAAATATTGAGAGAAAAAGAGAAGAATTTTCGAGAGC
386 TTGCCTTTTTCTATCACTGAAACATTGAAAAATATTGAGAGAAAAAGAGAAGAATTTTCGAGAGC
*
30624321 AAAATAAACTCGGTTTTAGAGAGTCTCTCAGTGTAAAATATTCTG
451 AAAATAAACTCGGTTTTAGAGAGTCTCTCAGTGTAAAAAATTCTG
30624366 AAGAATTCTT
Statistics
Matches: 470, Mismatches: 25, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
502 144 0.31
503 3 0.01
507 323 0.69
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (502 bp):
TTTTTCTTTCTTTCGCCTTAGTGTCTCGTTCGTCTCGAATTAGAGAATTGCAAAATAATAAAATT
TATCTTAAGATTGTTAGACAAATAACACGTTAGCAAACAAATATATGTATAAATAAAAAACTATT
TATATAAAATAAAATAAAATAAATAATTTGTATTTAAAATATCAAGCATGAAAAACCAATAAATA
AGATTAGAAAACCAGATATCAAATAAAGAATCGAATTTTACTAGATGTTGAGGCTTATTTTACAC
AGTTTCTTTAAGACAAATTTGGCCACTCCTACGGTACTTGGAGAAACGTTGGTCGACTCTCTCCC
AGGATACAACAACACGATGATCGAAGCAGTAGCACCTCTAAAAAGATTAATGAACAAACCTTGCC
TTTTTCTATCACTGAAACATTGAAAAATATTGAGAGAAAAAGAGAAGAATTTTCGAGAGCAAAAT
AAACTCGGTTTTAGAGAGTCTCTCAGTGTAAAAAATTCTGTCTTGGA
Found at i:30632453 original size:68 final size:68
Alignment explanation
Indices: 30632356--30632587 Score: 329
Period size: 68 Copynumber: 3.4 Consensus size: 68
30632346 ATAATACGAG
* *
30632356 CTGGGAACGTAGGCCCGTGAGCTGTTTTGGAGGTCGTGATATTAAACTGGCGAGCCTTTAGGATA
1 CTGGGAA-GTAGGCCCGTGAGCTATTTTGGAGGTCGTGATATTAAATTGGCGAGCCTTTAGGATA
*
30632421 TTAG
65 TTAA
* * ** *
30632425 CTGGGAAGTAGGCCCGTGAGCTGTTTTGGAGATCACGATATTAAATTGGCGAGCCTTTAGAATAT
1 CTGGGAAGTAGGCCCGTGAGCTATTTTGGAGGTCGTGATATTAAATTGGCGAGCCTTTAGGATAT
*
30632490 CAA
66 TAA
* * * * *
30632493 CTGGGAAATATGTCCGCGAGCTATTTTGGAGGTCGTAATATTAAATTGGCGAGCCTTTAGGATAT
1 CTGGGAAGTAGGCCCGTGAGCTATTTTGGAGGTCGTGATATTAAATTGGCGAGCCTTTAGGATAT
30632558 TAA
66 TAA
30632561 CTGGGAAGTAGGCCCGTGAGCTATTTT
1 CTGGGAAGTAGGCCCGTGAGCTATTTT
30632588 ATACTTGGGC
Statistics
Matches: 141, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
68 134 0.95
69 7 0.05
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (68 bp):
CTGGGAAGTAGGCCCGTGAGCTATTTTGGAGGTCGTGATATTAAATTGGCGAGCCTTTAGGATAT
TAA
Found at i:30632736 original size:71 final size:71
Alignment explanation
Indices: 30632652--30633091 Score: 384
Period size: 71 Copynumber: 6.2 Consensus size: 71
30632642 GTGGCATTGG
*
30632652 ACCTGCGAGCCTTAAGT-TGATAGCTGGGAGCTTT-TAACTCTTGCTAACTGTGTTGGAGGCTGC
1 ACCTGCGAGCCTTAA-TATGATAGCTGGGAG-TTTGTAACTCTCGCTAACTGTGTTGGAGGCTGC
30632715 GGTTTTGA
64 GGTTTTGA
* * * * ** * * * *
30632723 ACCTGCTAGCCTTAGTTTGGTAGCTAAGAGCTTT-TAACTTTCACTAACTGTGTTAGAGGCTGTG
1 ACCTGCGAGCCTTAATATGATAGCTGGGAG-TTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCG
*
30632787 GTTTTAA
65 GTTTTGA
* * * * * * * * * * *
30632794 ACCTACGATCCTTAGTTTAACAACTGGGAGTTTTTAACTCTCGCTAACTGTGTTTGAGGATGTGG
1 ACCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGG
30632859 TTTTGA
66 TTTTGA
* ** * * * **
30632865 TCCTATGAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTTGCTAATTGTGTTGGAGGCTGTAG
1 ACCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGG
30632930 TTTT-A
66 TTTTGA
* * ** *
30632935 ATCCTGCAAGCCTTAATATGACATTTGGGAGTTTGTAACTCTCGCTAACTATGTTGGAGGCTGCG
1 A-CCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCG
** *
30633000 ACTTTGG
65 GTTTTGA
* * * * * * *
30633007 TCCCGCGAGCCTTAATGTGATAGATGGGAGTTTGCAACTCTCGCTAATTGTGTTGGAGGCTACGG
1 ACCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGG
30633072 TTTTGA
66 TTTTGA
* *
30633078 TCCTACGAGCCTTA
1 ACCTGCGAGCCTTA
30633092 TAGCTTGTTT
Statistics
Matches: 295, Mismatches: 70, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
70 5 0.02
71 290 0.98
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (71 bp):
ACCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGG
TTTTGA
Found at i:30634999 original size:10 final size:10
Alignment explanation
Indices: 30634984--30635008 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30634974 GTTGATTGGC
30634984 TGATTGACTG
1 TGATTGACTG
30634994 TGATTGACTG
1 TGATTGACTG
30635004 TGATT
1 TGATT
30635009 CCTTTGTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (10 bp):
TGATTGACTG
Found at i:30635279 original size:18 final size:19
Alignment explanation
Indices: 30635256--30635296 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
30635246 TAATGGACTT
30635256 TATAGGATAA-TTTATTGG
1 TATAGGATAATTTTATTGG
30635274 TATAGGATAATTTTTATTGG
1 TATAGGATAA-TTTTATTGG
30635294 TAT
1 TAT
30635297 TTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (19 bp):
TATAGGATAATTTTATTGG
Found at i:30637859 original size:49 final size:49
Alignment explanation
Indices: 30637802--30637905 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
30637792 TCATGTGTTA
* * * *
30637802 TAATTTTATACAGTGTTGA-GTTTGTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTT-TGATTCATGATATTAAACTCAATTT
*
30637851 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
30637900 TCATTT
1 TAATTT
30637906 GTTTTTTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 45 0.94
50 3 0.06
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:30639437 original size:109 final size:106
Alignment explanation
Indices: 30639239--30639440 Score: 282
Period size: 109 Copynumber: 1.8 Consensus size: 106
30639229 GTAGATTACA
*
30639239 AATTATAATTTAATAATAATTAGTTAAATTATATTTTATATTATTATATATTATGATTTTAGTAA
1 AATTATAATTTAATAATAATTAGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAA
30639304 ATTCATATAAGAATAAGAATTTTATTAAATTATATATCATTATT
66 ATTCATAT---AATAAGAATTTTATTAAATTATATATCATTATT
* *
30639348 AATTAT-ATTTAATAATAATTATTTTAAATTATATTTTATAGTGTTATATATTATGATTTTATTA
1 AATTATAATTTAATAATAATTA-GTTAAATTATATTTTATAGTATTATATATTATGA--TT-TTA
*
30639412 GTAAATTCATAT-TTAAGAATATTTATTAA
62 GTAAATTCATATAATAAGAAT-TTTATTAA
30639441 TCATTTTATT
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
108 22 0.26
109 45 0.54
111 2 0.02
112 15 0.18
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (106 bp):
AATTATAATTTAATAATAATTAGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAA
ATTCATATAATAAGAATTTTATTAAATTATATATCATTATT
Found at i:30639652 original size:39 final size:41
Alignment explanation
Indices: 30639607--30639712 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
30639597 TTTCCTTATG
* *
30639607 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
30639647 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
30639692 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
30639713 ACGCCTCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:30639687 original size:44 final size:46
Alignment explanation
Indices: 30639624--30639714 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
30639614 ACCTCTATTC
*
30639624 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
30639668 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
30639714 C
1 C
30639715 GCCTCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:30639715 original size:16 final size:16
Alignment explanation
Indices: 30639694--30639746 Score: 106
Period size: 16 Copynumber: 3.3 Consensus size: 16
30639684 AGAATTACCT
30639694 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
30639710 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
30639726 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
30639742 ATTAC
1 ATTAC
30639747 AGCGAACCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:30639884 original size:71 final size:71
Alignment explanation
Indices: 30639771--30639934 Score: 220
Period size: 71 Copynumber: 2.3 Consensus size: 71
30639761 GGTGTTAATG
*
30639771 TAACAACTAGGAGTTTGCAACTCTCGCTAACTATGTTAGAGGCTACAGTTTTGATCTTGCGAGCC
1 TAACAACTAGGAGTTTGCAACTCTCGCTAACTATGTTAGAGGCTACAGTTTTGATCCTGCGAGCC
*
30639836 TTAATA
66 TGAATA
* * * * * ***
30639842 TGACAACTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGTGGTTTTGATCCTGCGAGCC
1 TAACAACTAGGAGTTTGCAACTCTCGCTAACTATGTTAGAGGCTACAGTTTTGATCCTGCGAGCC
*
30639907 TGAATG
66 TGAATA
*
30639913 TAACAACTAAGAGTTTGCAACT
1 TAACAACTAGGAGTTTGCAACT
30639935 GTTTTAGAGG
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 79 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (71 bp):
TAACAACTAGGAGTTTGCAACTCTCGCTAACTATGTTAGAGGCTACAGTTTTGATCCTGCGAGCC
TGAATA
Found at i:30639989 original size:21 final size:21
Alignment explanation
Indices: 30639963--30640007 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
30639953 TTAATCCTGT
*
30639963 GAGCCTTAATATGACAATTGG
1 GAGCCTTAATATGACAACTGG
30639984 GAGCCTTAATATGACAACTGG
1 GAGCCTTAATATGACAACTGG
30640005 GAG
1 GAG
30640008 TTTGTATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (21 bp):
GAGCCTTAATATGACAACTGG
Found at i:30640119 original size:71 final size:71
Alignment explanation
Indices: 30639984--30640557 Score: 581
Period size: 71 Copynumber: 8.2 Consensus size: 71
30639974 TGACAATTGG
* ** * * * * *
30639984 GAGCCTTAATATGACAACTGGGAGTTTGTATCTCTTGCTAACTCTATTGGAGGCTACGATTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
30640049 TCCTGC
66 TCCTGC
* * * * * *
30640055 AAGCCTTATTATGATAGTTGGGAGTTTGTAACTCTCGCTAACTATTTTAGAGGTTGCGGA-TTTA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGC-GATTTTA
30640119 ATCCTGC
65 ATCCTGC
* * *
30640126 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGATGCGATTTTGA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
30640191 TCCTGC
66 TCCTGC
* * * *
30640197 GAGCCTTAATATGATAGTTGGGAGTTTGTAAGTCTTGCTAATTATGTTGGAGGCTGCGATTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
**
30640262 TCCTAT
66 TCCTGC
* * * * *
30640268 GAGCCATAATATGATAGTTGGGAGTTT-TAAATTTTGCTAACTGTGTTGGAGGCTGCGATTTTGA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
*
30640332 TCCTGT
66 TCCTGC
* * * ** ** * * * * * *
30640338 GAGCCTTAATGTGACAGTTGGGAATTTACAACAATCGCTAGCTGTGTTAGAGGTTGTGGTTTTGA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
*
30640403 TCCCGC
66 TCCTGC
* *
30640409 GAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTATGTTGGAGGCTGCGATTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
*
30640474 -ACT--
66 TCCTGC
* * * * * * *
30640477 ----CTTAATATGACACTTGGGAGTTTGTAGCTCTCTCTAACTGTGTTAGAGGTTGCGGTTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
*
30640538 TACTGC
66 TCCTGC
*
30640544 AAGCCTTAATATGA
1 GAGCCTTAATATGA
30640558 CAATTGAGAG
Statistics
Matches: 417, Mismatches: 76, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
64 52 0.12
65 3 0.01
70 63 0.15
71 297 0.71
72 2 0.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (71 bp):
GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
TCCTGC
Found at i:30640514 original size:64 final size:64
Alignment explanation
Indices: 30640413--30640537 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 64
30640403 TCCCGCGAGC
* *
30640413 CTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTATGTTGGAGGCTGCGATTTTAAACT
1 CTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCGATTTTAAACT
* * * * *
30640477 CTTAATATGACA-CTTGGGAGTTTGTAGCTCTCTCTAACTGTGTTAGAGGTTGCGGTTTTAA
1 CTTAATATGACAGC-TGGGAGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCGATTTTAA
30640538 TACTGCAAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 1 0.02
64 52 0.98
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (64 bp):
CTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCGATTTTAAACT
Found at i:30640641 original size:92 final size:92
Alignment explanation
Indices: 30640477--30640656 Score: 238
Period size: 92 Copynumber: 2.0 Consensus size: 92
30640467 ATTTTAAACT
* * * *
30640477 CTTAATATGACACTTGGGAGTTTGTAGCTCTCTCTAACTGTGTTAGAGGTTGCGGTTTTAATACT
1 CTTAATATGACACTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAATACT
*
30640542 GCAAGCCTTAATATGACAATTGAGAGC
66 ACAAGCCTTAATATGACAATTGAGAGC
* *
30640569 CTTAATATGACAGC-TGGGAGTTTGTAACTCTCGCTAATTGTGTT-GAAGGCTGCAGTTTTAATC
1 CTTAATATGACA-CTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAG-AGGCTGCAGTTTTAATA
* * *
30640632 CTACGAGCCTTAATGTGACAGTTGA
64 CTACAAGCCTTAATATGACAATTGA
30640657 AAGTTTGTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
91 1 0.01
92 74 0.97
93 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (92 bp):
CTTAATATGACACTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAATACT
ACAAGCCTTAATATGACAATTGAGAGC
Found at i:30640925 original size:142 final size:141
Alignment explanation
Indices: 30640565--30640926 Score: 413
Period size: 142 Copynumber: 2.5 Consensus size: 141
30640555 TGACAATTGA
* * *
30640565 GAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAATTGTGTTGAAGGCTGCAGTTTTAA
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTTG-AGGCTGCGGTTTTGA
* * * * ** *
30640630 TCCTACGAGCCTTAATGTGACAGTTGAAAGTTTGTCACTCTCGCTAACTGTGTTGGAGTCAATGA
65 TCCTGCGAGCCTTAATGTGACACTAGAAAGTTTGTAACTCTAACTAACTGTGTTGGAGGCAATGA
* *
30640695 TTTTGATCTTAC
130 TTTTAATCATAC
* * * *
30640707 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTATTGGAGGCTACGATTTTGA
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTT-GAGGCTGCGGTTTTGA
* * **
30640772 TCCTGCAAGCCTTAATGTGACAACTAG-AAGTTTGTAACTCTAACTAATTGTGTTGGAGGCTGTG
65 TCCTGCGAGCCTTAATGTGAC-ACTAGAAAGTTTGTAACTCTAACTAACTGTGTTGGAGGCAATG
* *
30640836 GTTTTAATCATCC
129 ATTTTAATCATAC
* * * * *
30640849 GAGCCTTAATATGACATTTAGGAGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCGGTATTGG
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTT-GAGGCTGCGGT-TTTG
*
30640914 A-CTTGCGAGCCTT
64 ATCCTGCGAGCCTT
30640927 TGTAATATTA
Statistics
Matches: 183, Mismatches: 34, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
142 175 0.96
143 8 0.04
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (141 bp):
GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTTGAGGCTGCGGTTTTGAT
CCTGCGAGCCTTAATGTGACACTAGAAAGTTTGTAACTCTAACTAACTGTGTTGGAGGCAATGAT
TTTAATCATAC
Found at i:30640926 original size:71 final size:71
Alignment explanation
Indices: 30640565--30640908 Score: 357
Period size: 71 Copynumber: 4.8 Consensus size: 71
30640555 TGACAATTGA
* * * * * *
30640565 GAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAATTGTGTTGAAGGCTGCAGTTTTAA
1 GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTGA
30640630 TCCTAC
66 TCCTAC
* * * * *** *
30640636 GAGCCTTAATGTGACAGTT-GAAAGTTTGTCACTCTCGCTAACTGTGTTGGAGTCAATGATTTTG
1 GAGCCTTAATGTGACAGTTAG-GAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTG
*
30640700 ATCTTAC
65 ATCCTAC
* * * *
30640707 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTATTGGAGGCTACGATTTTGA
1 GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTGA
*
30640772 TCCTGC
66 TCCTAC
* ** * ** * *
30640778 AAGCCTTAATGTGACAACTAGAAGTTTGTAACTCTAACTAATTGTGTTGGAGGCTGTGGTTTTAA
1 GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTGA
* *
30640843 TCATCC
66 TCCTAC
* * * * *
30640849 GAGCCTTAATATGACATTTAGGAGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCGGT
1 GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGT
30640909 ATTGGACTTG
Statistics
Matches: 223, Mismatches: 48, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
70 1 0.00
71 221 0.99
72 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (71 bp):
GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTGA
TCCTAC
Found at i:30642817 original size:17 final size:16
Alignment explanation
Indices: 30642797--30642853 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
30642787 TAAAAAAACG
*
30642797 AAAAAAATTCAAAGTA
1 AAAAAAATTAAAAGTA
**
30642813 AAAAAAATTTGAAGTCCA
1 AAAAAAATTAAAAGT--A
*
30642831 AAAAAAATTAAAATTA
1 AAAAAAATTAAAAGTA
30642847 AAAAAAA
1 AAAAAAA
30642854 ATTGATTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 21 0.62
18 13 0.38
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAAAAATTAAAAGTA
Found at i:30642854 original size:17 final size:17
Alignment explanation
Indices: 30642797--30642856 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
30642787 TAAAAAAACG
* *
30642797 AAAAAAATTCAAAGTAA
1 AAAAAAATTAAAATTAA
* * * **
30642814 AAAAAATTTGAAGTCCA
1 AAAAAAATTAAAATTAA
30642831 AAAAAAATTAAAATTAA
1 AAAAAAATTAAAATTAA
30642848 AAAAAAATT
1 AAAAAAATT
30642857 GATTCATATT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAAAAATTAAAATTAA
Found at i:30643790 original size:21 final size:23
Alignment explanation
Indices: 30643749--30643800 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
30643739 AGAAGAATCA
* **
30643749 AAGAAAAATAAAAGAGTTTG-AG
1 AAGAAAAAGAAAAGAAATTGAAG
30643771 -AGAAAAAGAAAAGAAATTGAAG
1 AAGAAAAAGAAAAGAAATTGAAG
30643793 AAGAAAAA
1 AAGAAAAA
30643801 TTGAGAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 16 0.64
22 2 0.08
23 7 0.28
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (23 bp):
AAGAAAAAGAAAAGAAATTGAAG
Found at i:30643936 original size:6 final size:6
Alignment explanation
Indices: 30643925--30643956 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
30643915 AAAGTGTGAT
*
30643925 AAAAGA AAAAGA AAAAGA AAAATA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
30643957 TTGAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:30647214 original size:38 final size:38
Alignment explanation
Indices: 30647163--30647236 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
30647153 TAAGAACAAG
30647163 TCGATGATGACTTGAAAAACATCAAGATGACTATTCCT
1 TCGATGATGACTTGAAAAACATCAAGATGACTATTCCT
*
30647201 TCGATGATGACTTGGAAAACATCAAGATGACTATTC
1 TCGATGATGACTTGAAAAACATCAAGATGACTATTC
30647237 ATTCTTTCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (38 bp):
TCGATGATGACTTGAAAAACATCAAGATGACTATTCCT
Found at i:30648986 original size:24 final size:24
Alignment explanation
Indices: 30648958--30649023 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
30648948 AAAGTCGAGA
* *
30648958 GAAAATGAACAAGAGAA-AAAGAAT
1 GAAAAAGAAAAAGAGAAGAAA-AAT
* *
30648982 GAAAAAGAATAAGATAAGAAAAAT
1 GAAAAAGAAAAAGAGAAGAAAAAT
30649006 GAAAAAGAAAAAGA-AAGA
1 GAAAAAGAAAAAGAGAAGA
30649024 GTTCAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 4 0.11
24 30 0.81
25 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.08
Consensus pattern (24 bp):
GAAAAAGAAAAAGAGAAGAAAAAT
Found at i:30653836 original size:75 final size:75
Alignment explanation
Indices: 30653699--30653858 Score: 189
Period size: 75 Copynumber: 2.1 Consensus size: 75
30653689 TGTTTTGCAT
* * * * *
30653699 TATTAAGTGTTTTGTCGGATAAATGCATCTTTGATTAATGTCTTACATTAATACATTTGCAT-CT
1 TATTAAGTGTCTTGTCGCATAAATGCATCATTGATTAATGTCTTACATTAATACACTAGCATCCT
30653763 TTAGAAACTTG
66 TTA-AAACTTG
* * *
30653774 TATTAAGTGTCTTGT-GCATTAAATGCATCATTGTTTAATGTTTTGCATTAATACACTAGCATCC
1 TATTAAGTGTCTTGTCGCA-TAAATGCATCATTGATTAATGTCTTACATTAATACACTAGCATCC
*
30653838 TTTAATACTTG
65 TTTAAAACTTG
* *
30653849 CATTATGTGT
1 TATTAAGTGT
30653859 TCTTCATATT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
74 2 0.03
75 65 0.90
76 5 0.07
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.44
Consensus pattern (75 bp):
TATTAAGTGTCTTGTCGCATAAATGCATCATTGATTAATGTCTTACATTAATACACTAGCATCCT
TTAAAACTTG
Found at i:30661792 original size:22 final size:20
Alignment explanation
Indices: 30661696--30661782 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
30661686 GGAGCAATTC
* *
30661696 TGACTTGTTTGAAAATCTTTT
1 TGACTTGGTT-AAAATCATTT
*
30661717 TGA--TGTGTTAAAATGATTT
1 TGACTTG-GTTAAAATCATTT
* *
30661736 TAACTTGGTTGAAATCATTT
1 TGACTTGGTTAAAATCATTT
30661756 TGACTTGGTTAAAATCATTT
1 TGACTTGGTTAAAATCATTT
30661776 TGACTTG
1 TGACTTG
30661783 ATTTTAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 12 0.22
20 38 0.69
21 5 0.09
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (20 bp):
TGACTTGGTTAAAATCATTT
Found at i:30665421 original size:41 final size:41
Alignment explanation
Indices: 30665364--30665486 Score: 237
Period size: 41 Copynumber: 3.0 Consensus size: 41
30665354 AGAACCAAAA
30665364 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
1 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
*
30665405 ATAATATCATCAACATATATTTGAATTATTAATAAATCTTT
1 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
30665446 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
1 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
30665487 GTCTTTTCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (41 bp):
ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
Found at i:30676365 original size:21 final size:22
Alignment explanation
Indices: 30676339--30676388 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
30676329 AAAAAAGAAT
*
30676339 AAGAAACAATATTGT-AGGAAA
1 AAGAAACAATAATGTGAGGAAA
*
30676360 AAGAAA-AATAATGTGGGGAAA
1 AAGAAACAATAATGTGAGGAAA
30676381 AA-AAACAA
1 AAGAAACAA
30676389 AAGTAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.62, C:0.04, G:0.20, T:0.14
Consensus pattern (22 bp):
AAGAAACAATAATGTGAGGAAA
Found at i:30676959 original size:411 final size:405
Alignment explanation
Indices: 30676197--30677014 Score: 1313
Period size: 411 Copynumber: 2.0 Consensus size: 405
30676187 AAGCAAAATT
30676197 CCAACACAAGATAAGGAGACAAAACCTACACAATCGAACACCACTATCGCACTTGAATAACAAGG
1 CCAACACAAGATAAGGAGACAAAACCTACACAATCGAACACCACTATCGCACTTGAATAACAAGG
* *
30676262 ACAACGAAAGTAATGCACTAAAGATCAAAAATCCAAAAGAACATTTTTTGCTACCCATCTCACAT
66 ACAACAAAAGTAATGCACTAAAGATCAAAAATCCAAAAGAACAATTTTTGCTACCCATCTCACAT
* *
30676327 AAAAAAAAGAATAAGAAACAATATTGTAGGAAAAAGAAAAATAATGTGGGGAAAAAAAACAAAAG
131 AAAAAAAAGAAGAAGAAACAATATTGTAGG-AAAAGAAAAATAATATGGGGAAAAAAAACAAAAG
30676392 TAAATGTGCAAAAGGGAGGGATTTTGGTATATTAACTCCCTTTTTTTCAAACAAAAGAAATAATA
195 TAAATGTGCAAAAGGGAGGGATTTTGGTATATTAACTCCCTTTTTTTCAAACAAAAGAAATAATA
30676457 GAATAACAAAAAAAATAGTAAAAACAAATCCTAACCAACCACTACCCACTAACTCCCATCTTTAT
260 GAATAACAAAAAAAATAGTAAAAACAAATCCTAACCAACCACTACCCACTAACTCCCATCTTTAT
* **
30676522 CCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCCTCTACAGCATTGTCCAACAAGACTACT
325 CCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCATCTACAGCACAGTCCAAC-A-A-T--T
*
30676587 AACAAAATAATATAATCCAAG
385 AACAAAATAAAATAATCCAAG
* * * **
30676608 CCAACACAAGATAATGAGACAAAACTTACACAATCGAACATCACTATCGTGCTTGAATAACAAGG
1 CCAACACAAGATAAGGAGACAAAACCTACACAATCGAACACCACTATCGCACTTGAATAACAAGG
* * *
30676673 ACAACAAAAGTAATGCACTAAAGATCAAAAATCTAAAAGAACAATTTTTGTTACCCATCTCACGT
66 ACAACAAAAGTAATGCACTAAAGATCAAAAATCCAAAAGAACAATTTTTGCTACCCATCTCACAT
* *
30676738 AAAAAAAAGAAGCAGAAACAATATTGT-GG-GAA-AAAAATAATAT-GGG-AAAAAAACAAAAGT
131 AAAAAAAAGAAGAAGAAACAATATTGTAGGAAAAGAAAAATAATATGGGGAAAAAAAACAAAAGT
*
30676798 AAATGTGCAAAAGGGGAGGGATTTTGGTATATTAACTCTCTTTTTTTTCAAACAAAAGAAATAAT
196 AAATGTGCAAAA-GGGAGGGATTTTGGTATATTAACTC-CCTTTTTTTCAAACAAAAGAAATAAT
*
30676863 AGAATAACAAAAAAATAAAATAGTAAAAACAAATCCTAACCAATCACTACCCACTAACTCCCATC
259 AGAATAAC---AAAA-AAAATAGTAAAAACAAATCCTAACCAACCACTACCCACTAACTCCCATC
30676928 TTTATCCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCATCTACAGCACAGTCCAACAATT
320 TTTATCCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCATCTACAGCACAGTCCAACAATT
30676993 AACAAAATAAAATAATCCAAG
385 AACAAAATAAAATAATCCAAG
30677014 C
1 C
30677015 TACTTATACT
Statistics
Matches: 381, Mismatches: 20, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
405 26 0.07
406 50 0.13
407 43 0.11
408 3 0.01
409 1 0.00
410 7 0.02
411 251 0.66
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (405 bp):
CCAACACAAGATAAGGAGACAAAACCTACACAATCGAACACCACTATCGCACTTGAATAACAAGG
ACAACAAAAGTAATGCACTAAAGATCAAAAATCCAAAAGAACAATTTTTGCTACCCATCTCACAT
AAAAAAAAGAAGAAGAAACAATATTGTAGGAAAAGAAAAATAATATGGGGAAAAAAAACAAAAGT
AAATGTGCAAAAGGGAGGGATTTTGGTATATTAACTCCCTTTTTTTCAAACAAAAGAAATAATAG
AATAACAAAAAAAATAGTAAAAACAAATCCTAACCAACCACTACCCACTAACTCCCATCTTTATC
CCATCACTTCCTATAGTTTTAAACAAACCCAACTTCATCTACAGCACAGTCCAACAATTAACAAA
ATAAAATAATCCAAG
Found at i:30679560 original size:40 final size:40
Alignment explanation
Indices: 30679516--30679612 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 40
30679506 AGAGCAATTC
*
30679516 TAACTTGTTTGAAAATCATTTTGA-TGAGTTAAAATGATTT
1 TAACTTGTTTGAAAATCATTTTAACTG-GTTAAAATGATTT
* *
30679556 TAACTTGGTTG-AAATCATTTTAACTTGGTTAAAATTATTT
1 TAACTTGTTTGAAAATCATTTTAAC-TGGTTAAAATGATTT
*
30679596 TAACTTGATTTTAAAAT
1 TAACTTG-TTTGAAAAT
30679613 TGTTTCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 11 0.23
40 29 0.60
41 4 0.08
42 4 0.08
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (40 bp):
TAACTTGTTTGAAAATCATTTTAACTGGTTAAAATGATTT
Found at i:30679575 original size:20 final size:20
Alignment explanation
Indices: 30679516--30679602 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
30679506 AGAGCAATTC
*
30679516 TAACTTGTTTGAAAATCATTT
1 TAACTTGGTT-AAAATCATTT
* *
30679537 TGA--TGAGTTAAAATGATTT
1 TAACTTG-GTTAAAATCATTT
*
30679556 TAACTTGGTTGAAATCATTT
1 TAACTTGGTTAAAATCATTT
*
30679576 TAACTTGGTTAAAATTATTT
1 TAACTTGGTTAAAATCATTT
30679596 TAACTTG
1 TAACTTG
30679603 ATTTTAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 13 0.24
20 38 0.69
21 4 0.07
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (20 bp):
TAACTTGGTTAAAATCATTT
Found at i:30683755 original size:5 final size:5
Alignment explanation
Indices: 30683745--30683788 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
30683735 ATGGTAGCAC
* * * *
30683745 AACAA AACAA AACAA AACAA AACAG AACAT AACAG AATAA AACA
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACA
30683789 GAGCAGAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.73, C:0.18, G:0.05, T:0.05
Consensus pattern (5 bp):
AACAA
Found at i:30687433 original size:185 final size:185
Alignment explanation
Indices: 30687121--30687494 Score: 579
Period size: 185 Copynumber: 2.0 Consensus size: 185
30687111 AAATGGAAAA
*
30687121 TGAATATAGAATAAACACAGGAGGTTCCTGAGAAGTTTAATTAACCAAAAAAAATAAACTACCAC
1 TGAATATAGAATAAAAACAGGAGGTTCCTGAGAAGTTTAATTAACCAAAAAAAATAAACTACCAC
* * * * * *
30687186 ACAAAGCAATTCAAAATAAAACGTTTCCTTATTGCTTTCATAGGGATTCAAATACCAAACCAAAG
66 ACAAAACAATTCAAAATAAAACATTTCCCTATTACTTTCATAAGGATTCAAACACCAAACCAAAG
* * *
30687251 AGTACATAAAAGCTTAATCATTGAACCATTAGGCTCATTGTTGTCATTAATTGAT
131 AGTACATAAAAGCTTAATCACTGAACCACTAGGCTCATTGCTGTCATTAATTGAT
* *
30687306 TGAATATGGAATAAAAATAGGAGGTTCCT-AGGAAGTTTAATTAACCAAAAAAAATAAACTACCA
1 TGAATATAGAATAAAAACAGGAGGTTCCTGA-GAAGTTTAATTAACCAAAAAAAATAAACTACCA
** *
30687370 CACAAAACAATTCAAAATAAAACATTTCCCTATTACTTTCATAAGGATTTGAACATCAAACCAAA
65 CACAAAACAATTCAAAATAAAACATTTCCCTATTACTTTCATAAGGATTCAAACACCAAACCAAA
* *
30687435 GAGTACATAGAAGCTTAATCACTGAACCACTAGGCTCATTGCTGTTATTAATTGAT
130 GAGTACATAAAAGCTTAATCACTGAACCACTAGGCTCATTGCTGTCATTAATTGAT
30687491 TGAA
1 TGAA
30687495 ATTAACTTAT
Statistics
Matches: 171, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
184 1 0.01
185 170 0.99
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (185 bp):
TGAATATAGAATAAAAACAGGAGGTTCCTGAGAAGTTTAATTAACCAAAAAAAATAAACTACCAC
ACAAAACAATTCAAAATAAAACATTTCCCTATTACTTTCATAAGGATTCAAACACCAAACCAAAG
AGTACATAAAAGCTTAATCACTGAACCACTAGGCTCATTGCTGTCATTAATTGAT
Found at i:30688006 original size:130 final size:131
Alignment explanation
Indices: 30687864--30688122 Score: 375
Period size: 132 Copynumber: 2.0 Consensus size: 131
30687854 ATATATTGTC
* **
30687864 ACAAAAAGTAATTAATTCAAGA-TTATTTTAAATATT-ATTTTTT-TTCTTAACTTATATTGGTG
1 ACAAAAAGTAATTAATTCAA-ATTTATTTTAAAGATTAATTTTTTATTCTTAACTTATATTAATG
* * *
30687926 ATAATA-TAAGGTATAAATATTTTTAAAA-TTAAATATTTATTTTATTTTATTTTTACTTTCTCA
65 ATAATACT-AGGTATAAAGA-TTTTAAAATTTAAA-ATTTATATTATTTTATTTTCACTTTCTCA
30687989 ATCAT
127 ATCAT
30687994 ACAAAAAGTAATTAATTCAAATTTATTTTAAAGATTAATTTTTTATTCTTAACTTATATTAATGA
1 ACAAAAAGTAATTAATTCAAATTTATTTTAAAGATTAATTTTTTATTCTTAACTTATATTAATGA
*
30688059 TAATACTAGGTATAAAGATTTTAAAATTTTAAAATTTATATTATTTTGTTTTCACTTTCTCAAT
66 TAATACTAGGTATAAAGATTTTAAAA-TTTAAAATTTATATTATTTTATTTTCACTTTCTCAAT
30688123 TATAGTATTT
Statistics
Matches: 116, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
129 1 0.01
130 33 0.28
131 15 0.13
132 61 0.53
133 6 0.05
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (131 bp):
ACAAAAAGTAATTAATTCAAATTTATTTTAAAGATTAATTTTTTATTCTTAACTTATATTAATGA
TAATACTAGGTATAAAGATTTTAAAATTTAAAATTTATATTATTTTATTTTCACTTTCTCAATCA
T
Found at i:30688628 original size:26 final size:26
Alignment explanation
Indices: 30688599--30688659 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
30688589 AACACCACTA
30688599 AAAATAATAATAAATAAATAAAATT-T
1 AAAATAATAATAAAT-AATAAAATTAT
*
30688625 AAAACT-ATAATATATAATAAAATTAT
1 AAAA-TAATAATAAATAATAAAATTAT
30688651 ATAAATAAT
1 A-AAATAAT
30688660 TTAATATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 9 0.30
26 15 0.50
27 6 0.20
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATAATAATAAATAATAAAATTAT
Found at i:30694774 original size:28 final size:29
Alignment explanation
Indices: 30694710--30694774 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
30694700 AAATAAAGAT
*
30694710 AAATAAAAAATTGAATATTAACAATTTTA
1 AAATAAAAAATTGAATATTAACAATTATA
* *
30694739 ATATTAAAAAATT-TAT-TTAACAATATATA
1 A-AATAAAAAATTGAATATTAACAAT-TATA
30694768 AAATAAA
1 AAATAAA
30694775 TAACTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 13 0.43
29 7 0.23
30 10 0.33
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (29 bp):
AAATAAAAAATTGAATATTAACAATTATA
Found at i:30694881 original size:16 final size:16
Alignment explanation
Indices: 30694860--30694890 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30694850 TGTTGTATTA
*
30694860 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
30694876 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
30694891 GCATTAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:30695335 original size:13 final size:13
Alignment explanation
Indices: 30695317--30695342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30695307 AGAGAGTTTT
30695317 AGAAAGCTTTAAG
1 AGAAAGCTTTAAG
30695330 AGAAAGCTTTAAG
1 AGAAAGCTTTAAG
30695343 GATTGTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
AGAAAGCTTTAAG
Found at i:30697974 original size:19 final size:19
Alignment explanation
Indices: 30697941--30697988 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
30697931 TAAACAATTC
30697941 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
30697958 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
30697977 AATAATATAAAT
1 AATAATATAAAT
30697989 AATAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:30697999 original size:13 final size:12
Alignment explanation
Indices: 30697941--30698003 Score: 51
Period size: 13 Copynumber: 5.2 Consensus size: 12
30697931 TAAACAATTC
30697941 AATAATATAAAT
1 AATAATATAAAT
30697953 AAT-ATA-AAAT
1 AATAATATAAAT
* *
30697963 -ATGAAATTTAATTT
1 AAT--AATATAA-AT
30697977 AATAATATAAAT
1 AATAATATAAAT
30697989 AATAGATATAAAT
1 AATA-ATATAAAT
30698002 AA
1 AA
30698004 AATTATTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
9 2 0.05
10 4 0.10
11 3 0.08
12 10 0.25
13 18 0.45
14 1 0.03
15 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:30698256 original size:30 final size:31
Alignment explanation
Indices: 30698210--30698270 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
30698200 GGGAGGTGGG
*
30698210 ATGGGAAGGGAATAAAAGTTTTAGGGGAAAA
1 ATGGGAAGGGAATAAAAATTTTAGGGGAAAA
*
30698241 ATGGG-AGGGAGTAAAAATTTTAGGGGAAAA
1 ATGGGAAGGGAATAAAAATTTTAGGGGAAAA
30698271 TAAAAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (31 bp):
ATGGGAAGGGAATAAAAATTTTAGGGGAAAA
Found at i:30702999 original size:20 final size:19
Alignment explanation
Indices: 30702974--30703012 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
30702964 TTTTATGATT
30702974 AATATTATAAATAATTTTAA
1 AATATTATAAAT-ATTTTAA
* *
30702994 AATATTTTATATATTTTAA
1 AATATTATAAATATTTTAA
30703013 TTTAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTATAAATATTTTAA
Found at i:30705243 original size:13 final size:13
Alignment explanation
Indices: 30705227--30705258 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30705217 TGACTTGGGT
*
30705227 CACACGACCAGAC
1 CACACGACCAAAC
30705240 CACACGACCAAAC
1 CACACGACCAAAC
30705253 CACACG
1 CACACG
30705259 CCCGTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.47, G:0.12, T:0.00
Consensus pattern (13 bp):
CACACGACCAAAC
Found at i:30708295 original size:43 final size:43
Alignment explanation
Indices: 30708225--30708471 Score: 282
Period size: 43 Copynumber: 5.8 Consensus size: 43
30708215 ATAACCTTTT
* * * * *
30708225 CTTT-CCCGCAAACGCCACTATAGAACATGACCTTTAGCAGAG
1 CTTTCCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCG
* * ** * *
30708267 CTTTCCCCACAAATGCCGATTGAGAACATAACTTTTAGCGGCG
1 CTTTCCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCG
* * *
30708310 CTTTTCCCACAAACGCTGCTAAAGAACAAGACCTTTAGCGGCG
1 CTTTCCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCG
* * *
30708353 CTTTCCTCATAAACTCCGCTAAAGAACATGACCTTTAGCGGCG
1 CTTTCCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCG
* * *
30708396 CTTTTCCCACGAACGCCGCTAAAGAACATAACCTTTAGCGGCG
1 CTTTCCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCG
* *
30708439 CTTTCCCCACGAAGGCCGCTAAAGAACAT-ACCT
1 CTTTCCCCACAAACGCCGCTAAAGAACATGACCT
30708472 CAAAACATTG
Statistics
Matches: 171, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 8 0.05
43 163 0.95
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
CTTTCCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCG
Found at i:30711214 original size:78 final size:78
Alignment explanation
Indices: 30711119--30711497 Score: 486
Period size: 78 Copynumber: 4.9 Consensus size: 78
30711109 AACTAATAGT
* *
30711119 GGATAATATATGTATATACATGTATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
30711184 TATATATAAAGTTC
65 TATATATAAAGTTC
30711198 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
*
30711263 ATATATAAAGTTT
66 ATATATAAAGTTC
*
30711276 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTCT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
30711341 ATATATAAAGTTC
66 ATATATAAAGTTC
* * * *
30711354 GGATATATGTGTATATACATGAATAAGTT-TTGAATTTAGTT-AATGT-TGAATGTTATA--TAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
* * *
30711414 GTTTACAAGAGGTTC
66 ATATATAA-A-GTTC
* ** * * * *
30711429 GAATAGGTATGTATAT--ATGAGTATAAATTCTTGGATTTTA-TTAAAAGTATGGATGTTACATA
1 GGATATATATGTATATACATGA--ATAAATTCTT-GAATTTAGTTAAAAGTATGTATGTTATATT
30711491 TATATAT
63 TATATAT
30711498 GTATAATATA
Statistics
Matches: 266, Mismatches: 24, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
73 11 0.04
74 1 0.00
75 32 0.12
76 8 0.03
77 22 0.08
78 183 0.69
79 4 0.02
80 5 0.02
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (78 bp):
GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:30711734 original size:78 final size:77
Alignment explanation
Indices: 30711566--30711750 Score: 191
Period size: 78 Copynumber: 2.4 Consensus size: 77
30711556 TTATATTGAG
* *
30711566 TATAAGTATGAAATTATATA-TATATATGTGAAATTTGAAAATGTATGTGTATACAAGTATAAGT
1 TATAAGTATGAAATTATATAGTATATATGTGAAATTTGAAAATGTATATATATACAAGTATAAGT
30711630 ACTTGTTTCGAA
66 ACTTGTTTCGAA
* * * * * *
30711642 TGTAAGTATAAAATTATATATGTATATATG-GTAGATTTGAATATGTATATATGTACATGTATAA
1 TATAAGTATGAAATTATATA-GTATATATGTG-AAATTTGAAAATGTATATATATACAAGTATAA
* *
30711706 GT-TTTGTTATTGAA
64 GTACTTGTT-TCGAA
* *
30711720 -ATAGGGTATGAAATTATATAG-GTATATGTGA
1 TATA-AGTATGAAATTATATAGTATATATGTGA
30711751 CATTCGAATG
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
76 25 0.28
77 10 0.11
78 54 0.61
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (77 bp):
TATAAGTATGAAATTATATAGTATATATGTGAAATTTGAAAATGTATATATATACAAGTATAAGT
ACTTGTTTCGAA
Found at i:30712206 original size:41 final size:41
Alignment explanation
Indices: 30712144--30712458 Score: 479
Period size: 41 Copynumber: 7.7 Consensus size: 41
30712134 GGTTTTAAAA
* * *
30712144 CCTAACAGGCTAAGTGTCGGTGATCTTAACCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
* *
30712185 CCTAGCAGGCTAACTACCGGTGATCTGAACCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
*
30712226 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
* *
30712267 CCTACCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
*
30712308 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
* *
30712349 CCTAGCAGGCTAAGTACCGGTGATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
* *
30712390 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTT-TAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGG-TTATAAG
*
30712431 CCTAACAGGCTAAGTGCCGGTGAATCTG
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTG
30712459 TTTAAATTAA
Statistics
Matches: 251, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
41 244 0.97
42 7 0.03
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
Found at i:30718536 original size:80 final size:78
Alignment explanation
Indices: 30718292--30718571 Score: 463
Period size: 78 Copynumber: 3.6 Consensus size: 78
30718282 AACTAATAGT
* * *
30718292 GGATAATATATGTATATACATGTATAAGTTCTTAAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
30718357 TATATATAAAGTTC
65 TATATATAAAGTTC
*
30718371 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTAAGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
30718436 ATATATAAAGTTC
66 ATATATAAAGTTC
*
30718449 GAATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATA-TT-T
30718514 ATATATATAAAGTTC
64 ATATATATAAAGTTC
* *
30718529 GGATATATGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAA
30718572 TGTTGAATGT
Statistics
Matches: 190, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
78 128 0.67
79 20 0.11
80 42 0.22
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (78 bp):
GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:30719385 original size:41 final size:41
Alignment explanation
Indices: 30719282--30719509 Score: 253
Period size: 41 Copynumber: 5.5 Consensus size: 41
30719272 GACTACAAGT
** * * *
30719282 CTAGCAGGCTAAAAGCCGGTG-TACTGAATCAGGTTTTAAAAC
1 CTAGCAGGCTAAGTGCCGGTGAT-CTGAACCAGGTTAT-AAGC
* *
30719324 CTAACAGGCTAAGTGTCGGTGATCTGAACCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAGC
30719365 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAGC
* * * *
30719406 GTAGCAGGCTAAGTACTGGTGATCTGAACCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAGC
* * * *
30719447 CTAGCAGGTTAAGTGCTGGTGATCTGAATCTGGCTT-TAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGG-TTATAAGC
* * *
30719488 CTAACAGGTTAAGTGTCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
30719510 ATCTATTTAA
Statistics
Matches: 162, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
41 131 0.81
42 30 0.19
43 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAGC
Found at i:30719736 original size:34 final size:35
Alignment explanation
Indices: 30719691--30719809 Score: 116
Period size: 34 Copynumber: 3.3 Consensus size: 35
30719681 TATATATGTG
30719691 TATGCATTCGGCATATGTAGATT-ATAAGTAT-ATA
1 TATGCATTCGGCATATGTA-ATTGATAAGTATAATA
* *
30719725 TGTGCATTCGGCACATGTAATTGATAAGTATAAATA
1 TATGCATTCGGCATATGTAATTGATAAGTAT-AATA
* * * *
30719761 TATGCTTTTGGCATATGTATTTGAATAATTATATATA
1 TATGCATTCGGCATATGTAATTG-ATAAGTATA-ATA
30719798 TAAATGCATTCG
1 T--ATGCATTCG
30719810 ATGAAATGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
33 3 0.04
34 25 0.37
36 22 0.32
37 11 0.16
39 7 0.10
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (35 bp):
TATGCATTCGGCATATGTAATTGATAAGTATAATA
Found at i:30721846 original size:19 final size:20
Alignment explanation
Indices: 30721822--30721859 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
30721812 ACACACTTCA
30721822 AATTAATTAATC-TAAAATG
1 AATTAATTAATCATAAAATG
*
30721841 AATTAATTATTCATAAAAT
1 AATTAATTAATCATAAAAT
30721860 TATTATAAAA
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:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
AATTAATTAATCATAAAATG
Found at i:30728146 original size:42 final size:41
Alignment explanation
Indices: 30728019--30728155 Score: 118
Period size: 42 Copynumber: 3.2 Consensus size: 41
30728009 CAGTTTAATA
* *
30728019 ATCTGCAAACAGTATGGTTCATTCATGAACCAAGTGACAGTTCTT
1 ATCTGCAAATA-TATGGTTCA-TCACGAACCAAGTGACAG-T-TT
* ** * *
30728064 ATTTGCAAATATATTATGCATCCAC-AA-TAAGTGGA-AGTTT
1 ATCTGCAAATATATGGTTCAT-CACGAACCAAGT-GACAGTTT
30728104 ATCTGCAAATATATGGTTCGATCACGAACCAAGTGACAGTTT
1 ATCTGCAAATATATGGTTC-ATCACGAACCAAGTGACAGTTT
*
30728146 ATCTACAAAT
1 ATCTGCAAAT
30728156 GTTTCTATCT
Statistics
Matches: 73, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
40 20 0.27
41 7 0.10
42 24 0.33
43 5 0.07
44 8 0.11
45 9 0.12
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (41 bp):
ATCTGCAAATATATGGTTCATCACGAACCAAGTGACAGTTT
Found at i:30728562 original size:26 final size:26
Alignment explanation
Indices: 30728532--30728601 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
30728522 CTTACTGTTT
*
30728532 CACACTGATTTTCTTATGATTGGACG
1 CACACTGATTTTCTTATGATTGAACG
*
30728558 CACACTGATTTTCTTGTGATTGAACG
1 CACACTGATTTTCTTATGATTGAACG
*
30728584 CACACTGAGTTTCTTATG
1 CACACTGATTTTCTTATG
30728602 CTCACCCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (26 bp):
CACACTGATTTTCTTATGATTGAACG
Found at i:30730424 original size:23 final size:22
Alignment explanation
Indices: 30730373--30730428 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
30730363 TGTAGTGTAA
* *
30730373 GTATGTTTATATTATTTTGCAT
1 GTATGTTTATTTTATTTTGAAT
30730395 GTATGTTTATTTTATTTTGAAGT
1 GTATGTTTATTTTATTTTGAA-T
30730418 GTATGTTTATT
1 GTATGTTTATT
30730429 AAGATAGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.21, C:0.02, G:0.16, T:0.61
Consensus pattern (22 bp):
GTATGTTTATTTTATTTTGAAT
Found at i:30733190 original size:17 final size:16
Alignment explanation
Indices: 30733153--30733199 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
30733143 AAAATAGTTT
30733153 ATTTCAA-TT-AT-TA
1 ATTTCAATTTAATATA
*
30733166 ATTTCAATTTCATATA
1 ATTTCAATTTAATATA
30733182 ATATTCAATTTAATATA
1 AT-TTCAATTTAATATA
30733199 A
1 A
30733200 ATTTATCCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 7 0.24
14 2 0.07
15 2 0.07
16 4 0.14
17 14 0.48
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTCAATTTAATATA
Found at i:30735919 original size:67 final size:67
Alignment explanation
Indices: 30735811--30735944 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 67
30735801 TCAAGTTCAC
*
30735811 GCAAATATATATAAAAAATTGAAGTTAATACAAGAATGGAAATTCAATACAAAATGAGATACATA
1 GCAAATATATATAAAAAATTGAAGTTAATACAAGAATGGAAATTCAATAAAAAATGAGATACATA
30735876 AT
66 AT
* * * *
30735878 GCAAATATATGTAAATAATTGAAGTTGAA-ACAATAATGGAAATTCAATAAAAAATGGGATACAT
1 GCAAATATATATAAAAAATTGAAGTT-AATACAAGAATGGAAATTCAATAAAAAATGAGATACAT
30735942 AAT
65 AAT
30735945 TCACATTCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 59 0.97
68 2 0.03
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (67 bp):
GCAAATATATATAAAAAATTGAAGTTAATACAAGAATGGAAATTCAATAAAAAATGAGATACATA
AT
Found at i:30740574 original size:24 final size:24
Alignment explanation
Indices: 30740543--30740591 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
30740533 TATCATAAAT
30740543 AATATATTATAAT-AAGAAAT-TATA
1 AATATATTA-AATCAA-AAATATATA
30740567 AATATATTAAATCAAAAATATATA
1 AATATATTAAATCAAAAATATATA
30740591 A
1 A
30740592 TAACCTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
AATATATTAAATCAAAAATATATA
Found at i:30740644 original size:13 final size:12
Alignment explanation
Indices: 30740628--30740666 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
30740618 AGATAATTAA
30740628 ATTTTTTTAATAT
1 ATTTTTTTAAT-T
*
30740641 ATTTTATTAATT
1 ATTTTTTTAATT
30740653 ATTTATTTTAATT
1 ATTT-TTTTAATT
30740666 A
1 A
30740667 ATACATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTTTTAATT
Found at i:30741456 original size:38 final size:37
Alignment explanation
Indices: 30741393--30741471 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
30741383 CAAAATTTAC
* * *
30741393 ATTAATTTATATAATAAATCATATAAAAATTAAAATT
1 ATTAATTAATATAATAAATAATATAAAAATTAAAATG
*
30741430 ATTAATTAAATATAA-AAATAATTATAAAATTTAAAATG
1 ATTAATT-AATATAATAAATAA-TATAAAAATTAAAATG
30741468 ATTA
1 ATTA
30741472 TTTTAGTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 12 0.33
38 24 0.67
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (37 bp):
ATTAATTAATATAATAAATAATATAAAAATTAAAATG
Found at i:30741459 original size:19 final size:19
Alignment explanation
Indices: 30741401--30741465 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
30741391 ACATTAATTT
*
30741401 ATATAATAAATCA-TATAAA
1 ATATAA-AAATAATTATAAA
* * *
30741420 A-ATTAAAATTATTAATTAA
1 ATATAAAAATAATT-ATAAA
30741439 ATATAAAAATAATTATAAA
1 ATATAAAAATAATTATAAA
*
30741458 ATTTAAAA
1 ATATAAAA
30741466 TGATTATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 5 0.14
18 4 0.11
19 17 0.47
20 10 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATAAAAATAATTATAAA
Found at i:30741465 original size:18 final size:18
Alignment explanation
Indices: 30741414--30741472 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
30741404 TAATAAATCA
* *
30741414 TATAAAAATTAAAATTAT
1 TATAAAATTTAAAATAAT
* *
30741432 TAATTAAATATAAAAATAAT
1 T-ATAAAAT-TTAAAATAAT
*
30741452 TATAAAATTTAAAATGAT
1 TATAAAATTTAAAATAAT
30741470 TAT
1 TAT
30741473 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
18 12 0.38
19 11 0.34
20 9 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TATAAAATTTAAAATAAT
Found at i:30743564 original size:9 final size:9
Alignment explanation
Indices: 30743538--30743567 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
30743528 TTAAATACTA
30743538 TTTTATAAAT
1 TTTTA-AAAT
30743548 TTTTAAAAT
1 TTTTAAAAT
30743557 TTTTAAAAT
1 TTTTAAAAT
30743566 TT
1 TT
30743568 AAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:30764218 original size:30 final size:29
Alignment explanation
Indices: 30764184--30764256 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
30764174 TTAACGACTC
30764184 AGTGACTAAAATGTTACAACATGTT-AACAT-
1 AGTGACTAAAATGTTA-AA-AT-TTAAACATA
*
30764214 AGTGACTAAAACG-TAAAATTTCAAACATA
1 AGTGACTAAAATGTTAAAATTT-AAACATA
30764243 AGTGACTAAAATGT
1 AGTGACTAAAATGT
30764257 AACTTGAGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 7 0.19
29 14 0.38
30 12 0.32
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (29 bp):
AGTGACTAAAATGTTAAAATTTAAACATA
Found at i:30764346 original size:14 final size:14
Alignment explanation
Indices: 30764327--30764358 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
30764317 GTGTCATTAG
30764327 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
*
30764341 TTTTTCTTTTTTTC
1 TTTTTCTTCTTTTC
30764355 TTTT
1 TTTT
30764359 CTACCGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:30765688 original size:21 final size:21
Alignment explanation
Indices: 30765654--30765693 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30765644 CCTTAAATAA
*
30765654 TTTGTAATTAAATTCTAACTC
1 TTTGTAATTAAATTATAACTC
30765675 TTTGTATATT-AATTATAAC
1 TTTGTA-ATTAAATTATAAC
30765694 ATTATTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTGTAATTAAATTATAACTC
Found at i:30771175 original size:23 final size:23
Alignment explanation
Indices: 30771149--30771192 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
30771139 TTGCCAGTAT
30771149 CAATCGCACCAAAGTGCCAATCA
1 CAATCGCACCAAAGTGCCAATCA
* *
30771172 CAATCGCACGAAAGTGTCAAT
1 CAATCGCACCAAAGTGCCAAT
30771193 AAGCTCCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.30, G:0.16, T:0.16
Consensus pattern (23 bp):
CAATCGCACCAAAGTGCCAATCA
Found at i:30772307 original size:12 final size:12
Alignment explanation
Indices: 30772292--30772319 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30772282 ATGTACGTAC
30772292 GTATGTATATAT
1 GTATGTATATAT
30772304 GTATGTATATAT
1 GTATGTATATAT
30772316 GTAT
1 GTAT
30772320 TAGTCATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
GTATGTATATAT
Found at i:30782143 original size:20 final size:20
Alignment explanation
Indices: 30782118--30782156 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
30782108 TAAAAGAAAT
30782118 GTTTAATTAATGCAATAATG
1 GTTTAATTAATGCAATAATG
30782138 GTTTAATTAATGCAATAAT
1 GTTTAATTAATGCAATAAT
30782157 TATTAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
GTTTAATTAATGCAATAATG
Found at i:30785101 original size:40 final size:38
Alignment explanation
Indices: 30785044--30785153 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 38
30785034 CATATTTGAT
*
30785044 TAAAAAATATATATTTAATATATAATTCGGATTAAAAG
1 TAAAAAATATATATTTAATATATAATTCGGATTAAAAA
* *
30785082 TCAAAAATATATATATTTAATAAAAAGTATATT-TGATTAAAAA
1 T-AAAAA-ATATATATTTAAT--ATA-TA-ATTCGGATTAAAAA
30785125 T-AAAAATATATATTTAATATATAATTCGG
1 TAAAAAATATATATTTAATATATAATTCGG
30785154 GCCGGACTAG
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
36 3 0.05
37 3 0.05
38 3 0.05
39 5 0.08
40 26 0.43
41 4 0.07
42 2 0.03
43 11 0.18
44 3 0.05
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (38 bp):
TAAAAAATATATATTTAATATATAATTCGGATTAAAAA
Found at i:30785112 original size:20 final size:19
Alignment explanation
Indices: 30785084--30785143 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
30785074 ATTAAAAGTC
30785084 AAAAATATATATATTTAAT
1 AAAAATATATATATTTAAT
* *
30785103 AAAAAGTATATTTGA-TTAAA
1 AAAAA-TATATAT-ATTTAAT
*
30785123 AATAAAAATATATATTTAAT
1 AA-AAATATATATATTTAAT
30785143 A
1 A
30785144 TATAATTCGG
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 6 0.19
20 22 0.69
21 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATATATATATTTAAT
Found at i:30785505 original size:9 final size:9
Alignment explanation
Indices: 30785491--30785566 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
30785481 TTTGGTTAAA
30785491 AATTAACCG
1 AATTAACCG
30785500 AATTAACCG
1 AATTAACCG
*
30785509 AATTAACTG
1 AATTAACCG
*
30785518 AATTACCCG
1 AATTAACCG
30785527 AATTAACCG
1 AATTAACCG
* *
30785536 AATTATCCA
1 AATTAACCG
*
30785545 AATTACCCG
1 AATTAACCG
30785554 AATTAACCG
1 AATTAACCG
30785563 AATT
1 AATT
30785567 GAATCACTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:30785522 original size:27 final size:27
Alignment explanation
Indices: 30785490--30785566 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
30785480 TTTTGGTTAA
* *
30785490 AAATTAACCGAATTAACCGAATTAACT
1 AAATTACCCGAATTAACCGAATTAACC
* *
30785517 GAATTACCCGAATTAACCGAATTATCC
1 AAATTACCCGAATTAACCGAATTAACC
30785544 AAATTACCCGAATTAACCGAATT
1 AAATTACCCGAATTAACCGAATT
30785567 GAATCACTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATTACCCGAATTAACCGAATTAACC
Found at i:30789982 original size:21 final size:21
Alignment explanation
Indices: 30789956--30789996 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30789946 CGAACATGCC
* *
30789956 AACAGAAGCTCCTAAGAGCTG
1 AACAGAAGCTCATAAAAGCTG
30789977 AACAGAAGCTCATAAAAGCT
1 AACAGAAGCTCATAAAAGCT
30789997 AATGCACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTG
Found at i:30792502 original size:28 final size:27
Alignment explanation
Indices: 30792417--30792514 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 27
30792407 AAATTAGAGC
* * *
30792417 GCTTATCGTATTATTTCGCACTTCGAT
1 GCTTATCTTATTATTTTGCACTTCGGT
** * *
30792444 GCTTATCGTTGTAAAACTTTGCACTTTGGT
1 GCTTATC--T-TATTATTTTGCACTTCGGT
30792474 GCTTATCATTATTATTTTGCACTTCGGT
1 GCTTATC-TTATTATTTTGCACTTCGGT
30792502 GCTTATCGTTATT
1 GCTTATC-TTATT
30792515 TACACTTTGT
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
27 7 0.13
28 27 0.49
29 1 0.02
30 20 0.36
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (27 bp):
GCTTATCTTATTATTTTGCACTTCGGT
Done.